Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008268.1 Hibiscus syriacus cultivar Beakdansim tig00110925_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: 492505
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:115 original size:23 final size:23
Alignment explanation
Indices: 89--139 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
79 GGCCACCGAA
89 GACGGTGGCCGGCGGCGGTGGTT
1 GACGGTGGCCGGCGGCGGTGGTT
112 GACGGTGGCCGGCGGCGGTGGTT
1 GACGGTGGCCGGCGGCGGTGGTT
135 GACGG
1 GACGG
140 CGGATGAACG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.06, C:0.22, G:0.57, T:0.16
Consensus pattern (23 bp):
GACGGTGGCCGGCGGCGGTGGTT
Found at i:703 original size:18 final size:19
Alignment explanation
Indices: 663--703 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
653 TTAATTTTAT
*
663 TTTTCGTTTATTTTATATG
1 TTTTCATTTATTTTATATG
682 TTTTCATTTATTTTAT-TG
1 TTTTCATTTATTTTATATG
700 TTTT
1 TTTT
704 TAAATATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.15, C:0.05, G:0.07, T:0.73
Consensus pattern (19 bp):
TTTTCATTTATTTTATATG
Found at i:753 original size:20 final size:22
Alignment explanation
Indices: 728--772 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
718 GTAGTATTTG
728 TATTTTATT-ATATTAT-TAAA
1 TATTTTATTAATATTATATAAA
*
748 TATTTTATTAATATTTTATAAA
1 TATTTTATTAATATTATATAAA
770 TAT
1 TAT
773 ATAATAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.41
21 6 0.27
22 7 0.32
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTTTATTAATATTATATAAA
Found at i:757 original size:12 final size:12
Alignment explanation
Indices: 740--772 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
730 TTTTATTATA
740 TTATTAAATATT
1 TTATTAAATATT
752 TTATT-AATATT
1 TTATTAAATATT
763 TTA-TAAATAT
1 TTATTAAATAT
773 ATAATAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TTATTAAATATT
Found at i:762 original size:11 final size:11
Alignment explanation
Indices: 728--772 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
718 GTAGTATTTG
728 TATTTTATT-A
1 TATTTTATTAA
738 TA--TTATTAAA
1 TATTTTATT-AA
748 TATTTTATTAA
1 TATTTTATTAA
*
759 TATTTTATAAA
1 TATTTTATTAA
770 TAT
1 TAT
773 ATAATAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
8 5 0.17
10 5 0.17
11 15 0.50
12 5 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:4060 original size:2 final size:2
Alignment explanation
Indices: 4053--4080 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4043 CAATTTTGTA
4053 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4081 TATGAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4288 original size:18 final size:19
Alignment explanation
Indices: 4265--4307 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
4255 CAGTAATCCT
4265 ATTCC-CTGGTAATCTTAC
1 ATTCCACTGGTAATCTTAC
4283 ATTCCCACTGGTAATCTTAC
1 ATT-CCACTGGTAATCTTAC
4303 ATTCC
1 ATTCC
4308 GTGAACCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 3 0.13
19 4 0.17
20 16 0.70
ACGTcount: A:0.23, C:0.30, G:0.09, T:0.37
Consensus pattern (19 bp):
ATTCCACTGGTAATCTTAC
Found at i:4295 original size:20 final size:20
Alignment explanation
Indices: 4270--4307 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
4260 ATCCTATTCC
4270 CTGGTAATCTTACATTCCCA
1 CTGGTAATCTTACATTCCCA
4290 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
4308 GTGAACCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.11, T:0.37
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:16337 original size:17 final size:18
Alignment explanation
Indices: 16296--16334 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
16286 ATTATATAAG
16296 TAAAATA-TTAAATAAAT
1 TAAAATACTTAAATAAAT
16313 TAAAATACTTAAATAAAT
1 TAAAATACTTAAATAAAT
16331 TAAA
1 TAAA
16335 TACAAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAATACTTAAATAAAT
Found at i:16406 original size:10 final size:10
Alignment explanation
Indices: 16393--16438 Score: 74
Period size: 10 Copynumber: 4.6 Consensus size: 10
16383 AGAGTATTTA
*
16393 AGAGAAGTTG
1 AGAGAAATTG
16403 AGAGAAATTG
1 AGAGAAATTG
*
16413 AGAGAATTTG
1 AGAGAAATTG
16423 AGAGAAATTG
1 AGAGAAATTG
16433 AGAGAA
1 AGAGAA
16439 TTTGGTGTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 33 1.00
ACGTcount: A:0.48, C:0.00, G:0.33, T:0.20
Consensus pattern (10 bp):
AGAGAAATTG
Found at i:16439 original size:20 final size:20
Alignment explanation
Indices: 16393--16442 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
16383 AGAGTATTTA
*
16393 AGAGAAGTTGAGAGAAATTG
1 AGAGAATTTGAGAGAAATTG
16413 AGAGAATTTGAGAGAAATTG
1 AGAGAATTTGAGAGAAATTG
16433 AGAGAATTTG
1 AGAGAATTTG
16443 GTGTGATGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.44, C:0.00, G:0.32, T:0.24
Consensus pattern (20 bp):
AGAGAATTTGAGAGAAATTG
Found at i:21353 original size:18 final size:19
Alignment explanation
Indices: 21322--21361 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
21312 CTATTAAAAG
*
21322 TTATAGAATAATTATTTGA
1 TTATAAAATAATTATTTGA
*
21341 TTATAAAAT-ATTATTTTA
1 TTATAAAATAATTATTTGA
21359 TTA
1 TTA
21362 AGTCACTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (19 bp):
TTATAAAATAATTATTTGA
Found at i:21836 original size:2 final size:2
Alignment explanation
Indices: 21829--21857 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
21819 TTCTAAAACA
21829 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
21858 AGTTTTTTCA
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:32119 original size:62 final size:62
Alignment explanation
Indices: 32012--32203 Score: 294
Period size: 62 Copynumber: 3.1 Consensus size: 62
32002 AGAGTCATTG
* * * * * *
32012 AATTCTAAATCCCTTAAGCAAGATTAAGAGTTCGAATCATGACATTTGTGAATGGATCAAATT
1 AATTCTAGATCCCTTAAG-AATATTAAGAGTTTGAATCCTAACATTTGTGAATGGAGCAAATT
32075 AATTCTAGATCCCTTAAGAATATTAAGAGTTTGAATCCTAACATTTGTGAATGGAGCAAATT
1 AATTCTAGATCCCTTAAGAATATTAAGAGTTTGAATCCTAACATTTGTGAATGGAGCAAATT
* *
32137 AATTCTAGATCCCTTAAGAATATTAAGAGTTTGAATCCTAACATTTATGAATGAAGCAAATT
1 AATTCTAGATCCCTTAAGAATATTAAGAGTTTGAATCCTAACATTTGTGAATGGAGCAAATT
32199 GAATT
1 -AATT
32204 AAAACAGTCG
Statistics
Matches: 120, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
62 99 0.82
63 21 0.17
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (62 bp):
AATTCTAGATCCCTTAAGAATATTAAGAGTTTGAATCCTAACATTTGTGAATGGAGCAAATT
Found at i:33377 original size:41 final size:38
Alignment explanation
Indices: 33289--33425 Score: 105
Period size: 41 Copynumber: 3.4 Consensus size: 38
33279 CGTTTATAGT
* * *
33289 AAAACGCCGCAATATA-GTAGATATTTAGCGGCATTTTAGCTA
1 AAAACGCCGCAAAATATGTA-ATA--TAGCGACGTTTT-G-TA
*
33331 AAAACGCCGCAATATAGTGTAATATAGCGACGCTTATTGTA
1 AAAACGCCGCAAAATA-TGTAATATAGCGACG-TT-TTGTA
* * * * *
33372 TAAACGTCGCAAAAATATGTGATATAGTGGCGTTTTGTA
1 AAAACGCCGC-AAAATATGTAATATAGCGACGTTTTGTA
33411 AAAACGCCGCAAAAT
1 AAAACGCCGCAAAAT
33426 GTTAAATATA
Statistics
Matches: 80, Mismatches: 10, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
38 5 0.06
39 13 0.16
40 2 0.03
41 28 0.35
42 24 0.30
43 5 0.06
44 3 0.04
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (38 bp):
AAAACGCCGCAAAATATGTAATATAGCGACGTTTTGTA
Found at i:33422 original size:39 final size:42
Alignment explanation
Indices: 33329--33424 Score: 110
Period size: 41 Copynumber: 2.4 Consensus size: 42
33319 GCATTTTAGC
*
33329 TAAAAACGCCGC-AATATAGTGTAATATAGCGACGCTTATTG
1 TAAAAACGCCGCAAAAATAGTGTAATATAGCGACGCTTATTG
* * * * *
33370 TATAAACGTCGCAAAAATA-TGTGATATAGTGGCG-TT-TTG
1 TAAAAACGCCGCAAAAATAGTGTAATATAGCGACGCTTATTG
33409 TAAAAACGCCGCAAAA
1 TAAAAACGCCGCAAAA
33425 TGTTAAATAT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
39 17 0.37
40 2 0.04
41 22 0.48
42 5 0.11
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.26
Consensus pattern (42 bp):
TAAAAACGCCGCAAAAATAGTGTAATATAGCGACGCTTATTG
Found at i:34516 original size:57 final size:57
Alignment explanation
Indices: 34449--34636 Score: 358
Period size: 57 Copynumber: 3.3 Consensus size: 57
34439 GTGAAGACTG
*
34449 TTTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTATTTTGTTTTTAAGTAGT
1 TTTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTATTTTGTTGTTAAGTAGT
34506 TTTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTATTTTGTTGTTAAGTAGT
1 TTTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTATTTTGTTGTTAAGTAGT
*
34563 TTTATGCATAAGTACTTCAATGTTTCTAAATTATAATGTATTTTGTTGTTAAGTAGT
1 TTTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTATTTTGTTGTTAAGTAGT
34620 TTTATGCATAAGTACTT
1 TTTATGCATAAGTACTT
34637 CTGTTTTAAT
Statistics
Matches: 129, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 129 1.00
ACGTcount: A:0.30, C:0.06, G:0.13, T:0.51
Consensus pattern (57 bp):
TTTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTATTTTGTTGTTAAGTAGT
Found at i:34999 original size:43 final size:43
Alignment explanation
Indices: 34899--35015 Score: 120
Period size: 43 Copynumber: 2.8 Consensus size: 43
34889 ATATTTATAT
* *
34899 TTTAGTGACGTTT-GTATGAAAACGCCGCTACGTCCTTTCCTAC
1 TTTAGTGGCGTTTCGTATGAAAACGCCGCTAAGTCC-TTCCTAC
* *
34942 TTTAGTGGC-ATTCGTATGAAAACGCCGCTATAG-CC-TCGTAC
1 TTTAGTGGCGTTTCGTATGAAAACGCCGCTA-AGTCCTTCCTAC
*
34983 TTTAGTGGCGTTTTCGTA-G-AAACGCCGCAAAGT
1 TTTAGTGGCG-TTTCGTATGAAAACGCCGCTAAGT
35016 ATTAGTAATT
Statistics
Matches: 63, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
40 2 0.03
41 24 0.38
42 3 0.05
43 33 0.52
44 1 0.02
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (43 bp):
TTTAGTGGCGTTTCGTATGAAAACGCCGCTAAGTCCTTCCTAC
Found at i:36337 original size:60 final size:59
Alignment explanation
Indices: 36235--36359 Score: 187
Period size: 60 Copynumber: 2.1 Consensus size: 59
36225 AAATCCATGA
* * * *
36235 ATAAAAACTATGTGAATGATAAGGAGTTAATGCTCAACTATGTTACTAGGTAAGCCAAG
1 ATAAAAACCATGTGAATGATAAAGAGCTAAGGCTCAACTATGTTACTAGGTAAGCCAAG
* *
36294 ATAAGAAACCATGTGAATGATAAAGAGCTAAGGCTCAACTATGTTACTTGGTACGCCAAG
1 ATAA-AAACCATGTGAATGATAAAGAGCTAAGGCTCAACTATGTTACTAGGTAAGCCAAG
36354 ATAAAA
1 ATAAAA
36360 TTCGTATGTG
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
59 6 0.10
60 53 0.90
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.25
Consensus pattern (59 bp):
ATAAAAACCATGTGAATGATAAAGAGCTAAGGCTCAACTATGTTACTAGGTAAGCCAAG
Found at i:36917 original size:42 final size:44
Alignment explanation
Indices: 36871--36978 Score: 116
Period size: 43 Copynumber: 2.5 Consensus size: 44
36861 CCGATCTTTA
* * *
36871 GCGGCGTTTGTA-TTAAAGACGCCGCCAAATC-AAACACATATT
1 GCGGCGTTTGTAGCTAAAAACGCCGCCAAACCTAAACACATATT
* * * *
36913 GCGGCGTTT-AAGCTAAAAACGCCGCTAAACCTTAACACTTATT
1 GCGGCGTTTGTAGCTAAAAACGCCGCCAAACCTAAACACATATT
*
36956 GCGGCGTTTGT-GATAAAAACGCC
1 GCGGCGTTTGTAGCTAAAAACGCC
36979 ACTAAAAATC
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
41 1 0.02
42 24 0.44
43 29 0.54
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (44 bp):
GCGGCGTTTGTAGCTAAAAACGCCGCCAAACCTAAACACATATT
Found at i:36962 original size:43 final size:43
Alignment explanation
Indices: 36897--37007 Score: 123
Period size: 43 Copynumber: 2.6 Consensus size: 43
36887 AGACGCCGCC
* *
36897 AAATCAAACACATATTGCGGCGTTTAAGCTAAAAACGCCGCTAA
1 AAATC-AACACATATTGCGGCGTTTAAGATAAAAACGCCACTAA
** * * **
36941 ACCTTAACACTTATTGCGGCGTTTGTGATAAAAACGCCACTAA
1 AAATCAACACATATTGCGGCGTTTAAGATAAAAACGCCACTAA
* *
36984 AAATCAACACCTACTGCGGCGTTT
1 AAATCAACACATATTGCGGCGTTT
37008 CTGAGAAAAA
Statistics
Matches: 54, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
43 52 0.96
44 2 0.04
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.24
Consensus pattern (43 bp):
AAATCAACACATATTGCGGCGTTTAAGATAAAAACGCCACTAA
Found at i:37017 original size:43 final size:43
Alignment explanation
Indices: 36927--37050 Score: 133
Period size: 43 Copynumber: 2.9 Consensus size: 43
36917 CGTTTAAGCT
** * * * * *
36927 AAAAACGCCGCTAAACCTTAACACTTATTGCGGCGTTTGTGAT
1 AAAAACGCCGCTAAAAATCAACACCTACTGCGGCGTTTCTGAG
*
36970 AAAAACGCCACTAAAAATCAACACCTACTGCGGCGTTTCTGAG
1 AAAAACGCCGCTAAAAATCAACACCTACTGCGGCGTTTCTGAG
* * *
37013 AAAAACGCTGCTATAAATCGAA-ACCTACTGTGGCGTTT
1 AAAAACGCCGCTAAAAATC-AACACCTACTGCGGCGTTT
37051 GTCTTCCAAA
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
43 66 0.97
44 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (43 bp):
AAAAACGCCGCTAAAAATCAACACCTACTGCGGCGTTTCTGAG
Found at i:37098 original size:43 final size:43
Alignment explanation
Indices: 37044--37179 Score: 193
Period size: 43 Copynumber: 3.2 Consensus size: 43
37034 AACCTACTGT
*
37044 GGCGTTTGTCTTCCAAATGCCGCTAAATATCAACATCTATTGC
1 GGCGTTTGTCTTCCAAACGCCGCTAAATATCAACATCTATTGC
* * * *
37087 AGCGTGTGTCTTCCAAACGCCGCTAAATATCAACATATATTGT
1 GGCGTTTGTCTTCCAAACGCCGCTAAATATCAACATCTATTGC
* *
37130 GGCATTTGTCTAT-CAAACGCCGCTAAATATCAACACCTATTGC
1 GGCGTTTGTCT-TCCAAACGCCGCTAAATATCAACATCTATTGC
37173 GGCGTTT
1 GGCGTTT
37180 TTTCTTGAAA
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
43 79 0.99
44 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (43 bp):
GGCGTTTGTCTTCCAAACGCCGCTAAATATCAACATCTATTGC
Found at i:38513 original size:246 final size:235
Alignment explanation
Indices: 38048--38539 Score: 747
Period size: 246 Copynumber: 2.0 Consensus size: 235
38038 ATTTTTATTC
*
38048 AATAAAAACAATGACTTAATTGAAAAAAAAATTATATATAGAGGGTATTATTGTAATTATTCCTA
1 AATAAAAA-AATGACTTAATTGAAAAAAAAATTATATATAGAGGGTATTATTATAATTATTCCTA
38113 AATATATAAGGTAAAATTATATATTTTTGGGTCGGGTCAGGTATTTTTCACCCTAAACCCGAACC
65 AATATATAAGGTAAAATTATATATTTTTGGGTCGGGTCAGGTATTTTTCACCCTAAACCCGAACC
38178 CGACCCGAATATCACACTTAAAAAAAACCGACCCGACCCGACCAAAATAAAGTTTCACCCGACCT
130 CGACCCGAATATCACACTTAAAAAAAACCGACCCGACCCGACCAAAATAAAGTTTCACCCGACCT
*
38243 GACCCGAATATATGAATTAGAAACCCGACCCGACTCGAAAT
195 GACCCGAATATATGAATTAGAAACCCGACCCGACCCGAAAT
* *
38284 AATAAAAAAGTGACTTAATTG-AAAACAAATTATATATAGAGGGGTATTATTATAATTATTCCTA
1 AATAAAAAAATGACTTAATTGAAAAAAAAATTATATATAGA-GGGTATTATTATAATTATTCCTA
* *
38348 AATATATAAGGTAAAATTATATATATATTCGGGTCGTGTCGGGTCGGGTATTTTTCACCCTAAAC
65 AATATATAAGGTAAAATTATATAT-T-TT----T-GGGTCGGGTCAGGTATTTTTCACCCTAAAC
* *
38413 CCGAACTCGACTCGACTCGAATATCACACTT-AAAAAAACCGACCCGACCCGATCAAAATAAAGT
123 CCGAA--C--C-CGACCCGAATATCACACTTAAAAAAAACCGACCCGACCCGACCAAAATAAAGT
*
38477 TTCATCCGATCC-GACCCGAATATATGAATTAGAAACCCGACCCGACCCGAAAT
183 TTCACCCGA-CCTGACCCGAATATATGAATTAGAAACCCGACCCGACCCGAAAT
38530 AATAAAAAAA
1 AATAAAAAAA
38540 AAATTTTATT
Statistics
Matches: 232, Mismatches: 10, Indels: 18
0.89 0.04 0.07
Matches are distributed among these distances:
234 18 0.08
235 58 0.25
236 9 0.04
237 2 0.01
241 1 0.00
242 33 0.14
244 1 0.00
246 90 0.39
247 20 0.09
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (235 bp):
AATAAAAAAATGACTTAATTGAAAAAAAAATTATATATAGAGGGTATTATTATAATTATTCCTAA
ATATATAAGGTAAAATTATATATTTTTGGGTCGGGTCAGGTATTTTTCACCCTAAACCCGAACCC
GACCCGAATATCACACTTAAAAAAAACCGACCCGACCCGACCAAAATAAAGTTTCACCCGACCTG
ACCCGAATATATGAATTAGAAACCCGACCCGACCCGAAAT
Found at i:38673 original size:28 final size:28
Alignment explanation
Indices: 38641--38726 Score: 145
Period size: 28 Copynumber: 3.1 Consensus size: 28
38631 CCATCATAGA
**
38641 ATAGAATGGATACAATTCACTTTCCCTC
1 ATAGAATGGATGGAATTCACTTTCCCTC
38669 ATAGAATGGATGGAATTCACTTTCCCTC
1 ATAGAATGGATGGAATTCACTTTCCCTC
*
38697 ATAGAATGGATGGAATTCACTTTCCTTC
1 ATAGAATGGATGGAATTCACTTTCCCTC
38725 AT
1 AT
38727 TTGATGAAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 55 1.00
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (28 bp):
ATAGAATGGATGGAATTCACTTTCCCTC
Found at i:41855 original size:30 final size:30
Alignment explanation
Indices: 41821--41877 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
41811 CTGATTATGT
**
41821 ATGGGATTTATTCTTCGTCCTAATTCTACA
1 ATGGGATTTATTCCCCGTCCTAATTCTACA
*
41851 ATGGGATTTATTCCCCGTCCTGATTCT
1 ATGGGATTTATTCCCCGTCCTAATTCT
41878 GCATGAGCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (30 bp):
ATGGGATTTATTCCCCGTCCTAATTCTACA
Found at i:41926 original size:30 final size:29
Alignment explanation
Indices: 41892--41975 Score: 87
Period size: 30 Copynumber: 2.8 Consensus size: 29
41882 GAGCTTAGTC
* *
41892 CCCGTTCTGACATCTATATGGGATAAACTT
1 CCCGTTCTGACATCTACATGAGATAAA-TT
* * *
41922 CCCGTTTTGACATATGCATGAGATAAATT
1 CCCGTTCTGACATCTACATGAGATAAATT
* *
41951 CCTCGTTCTGACATCTGCACGAGAT
1 CC-CGTTCTGACATCTACATGAGAT
41976 TATATCTTTG
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
29 4 0.09
30 41 0.91
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (29 bp):
CCCGTTCTGACATCTACATGAGATAAATT
Found at i:51842 original size:31 final size:32
Alignment explanation
Indices: 51807--51982 Score: 143
Period size: 31 Copynumber: 5.6 Consensus size: 32
51797 CTGTCTATAG
*
51807 GTTCCGAT-GAACCTAGGTAAACTATCCATAT
1 GTTCCGATAGAACATAGGTAAACTATCCATAT
* *
51838 GTTCC-TTAGAACATAGGTATACTATCCATAT
1 GTTCCGATAGAACATAGGTAAACTATCCATAT
* * * *
51869 G-TCTCAAAAG-ACATAGGTAATTCTGTCCATAT
1 GTTC-CGATAGAACATAGGTAA-ACTATCCATAT
* *
51901 GTTCCG-TAGAACATAGGTATACTGTCCATAT
1 GTTCCGATAGAACATAGGTAAACTATCCATAT
* * * *
51932 G-TCTCAAAAG-ACATAGGTAATTCTGTCCATAT
1 GTTC-CGATAGAACATAGGTAA-ACTATCCATAT
51964 GTTCCG-TAGAACATAGGTA
1 GTTCCGATAGAACATAGGTA
51983 TACCCTCGAC
Statistics
Matches: 116, Mismatches: 18, Indels: 21
0.75 0.12 0.14
Matches are distributed among these distances:
30 5 0.04
31 62 0.53
32 45 0.39
33 4 0.03
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.31
Consensus pattern (32 bp):
GTTCCGATAGAACATAGGTAAACTATCCATAT
Found at i:51902 original size:32 final size:31
Alignment explanation
Indices: 51848--51965 Score: 148
Period size: 32 Copynumber: 3.7 Consensus size: 31
51838 GTTCCTTAGA
*
51848 ACATAGGTATACTATCCATATGTCTCAAAAG
1 ACATAGGTATACTGTCCATATGTCTCAAAAG
* ***
51879 ACATAGGTAATTCTGTCCATATGT-TCCGTAG
1 ACATAGGT-ATACTGTCCATATGTCTCAAAAG
51910 AACATAGGTATACTGTCCATATGTCTCAAAAG
1 -ACATAGGTATACTGTCCATATGTCTCAAAAG
*
51942 ACATAGGTAATTCTGTCCATATGT
1 ACATAGGT-ATACTGTCCATATGT
51966 TCCGTAGAAC
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
31 34 0.47
32 39 0.53
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (31 bp):
ACATAGGTATACTGTCCATATGTCTCAAAAG
Found at i:51918 original size:63 final size:63
Alignment explanation
Indices: 51831--51985 Score: 292
Period size: 63 Copynumber: 2.5 Consensus size: 63
51821 AGGTAAACTA
*
51831 TCCATATGTTCCTTAGAACATAGGTATACTATCCATATGTCTCAAAAGACATAGGTAATTCTG
1 TCCATATGTTCCGTAGAACATAGGTATACTATCCATATGTCTCAAAAGACATAGGTAATTCTG
*
51894 TCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCAAAAGACATAGGTAATTCTG
1 TCCATATGTTCCGTAGAACATAGGTATACTATCCATATGTCTCAAAAGACATAGGTAATTCTG
51957 TCCATATGTTCCGTAGAACATAGGTATAC
1 TCCATATGTTCCGTAGAACATAGGTATAC
51986 CCTCGACTCT
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 90 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (63 bp):
TCCATATGTTCCGTAGAACATAGGTATACTATCCATATGTCTCAAAAGACATAGGTAATTCTG
Found at i:56695 original size:32 final size:31
Alignment explanation
Indices: 56643--56758 Score: 153
Period size: 32 Copynumber: 3.7 Consensus size: 31
56633 GTTCCTTAGA
56643 ACATAGGTATACTGTCCATATGTCTCAAAAG
1 ACATAGGTATACTGTCCATATGTCTCAAAAG
* ***
56674 ACATAGGTAATTCTGTCCATATGT-TCCGTAG
1 ACATAGGT-ATACTGTCCATATGTCTCAAAAG
56705 AACATAGGTATACTGTCCATATGTCTCAAAAG
1 -ACATAGGTATACTGTCCATATGTCTCAAAAG
*
56737 ACATAGGTAATTCTGTCCATAT
1 ACATAGGT-ATACTGTCCATAT
56759 ATTCCGTAGA
Statistics
Matches: 72, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
31 34 0.47
32 38 0.53
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (31 bp):
ACATAGGTATACTGTCCATATGTCTCAAAAG
Found at i:56706 original size:63 final size:63
Alignment explanation
Indices: 56626--56780 Score: 292
Period size: 63 Copynumber: 2.5 Consensus size: 63
56616 AGGTAAACTA
*
56626 TCCATATGTTCCTTAGAACATAGGTATACTGTCCATATGTCTCAAAAGACATAGGTAATTCTG
1 TCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCAAAAGACATAGGTAATTCTG
56689 TCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCAAAAGACATAGGTAATTCTG
1 TCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCAAAAGACATAGGTAATTCTG
*
56752 TCCATATATTCCGTAGAACATAGGTATAC
1 TCCATATGTTCCGTAGAACATAGGTATAC
56781 CCTCGACTCT
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 90 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (63 bp):
TCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCAAAAGACATAGGTAATTCTG
Found at i:56773 original size:32 final size:32
Alignment explanation
Indices: 56591--56777 Score: 179
Period size: 31 Copynumber: 5.9 Consensus size: 32
56581 ATCCTCGGTA
* * *
56591 ACTGTCTATAGGTTCCGAT-GAACCTAGGTAA-
1 ACTGTCCATATGTTCC-ATAGAACATAGGTAAT
* *
56622 ACTATCCATATGTTCCTTAGAACATAGGT-AT
1 ACTGTCCATATGTTCCATAGAACATAGGTAAT
* *
56653 ACTGTCCATATGTCTCAAAAG-ACATAGGTAAT
1 ACTGTCCATATGT-TCCATAGAACATAGGTAAT
* *
56685 TCTGTCCATATGTTCCGTAGAACATAGGT-AT
1 ACTGTCCATATGTTCCATAGAACATAGGTAAT
* *
56716 ACTGTCCATATGTCTCAAAAG-ACATAGGTAAT
1 ACTGTCCATATGT-TCCATAGAACATAGGTAAT
* * *
56748 TCTGTCCATATATTCCGTAGAACATAGGTA
1 ACTGTCCATATGTTCCATAGAACATAGGTA
56778 TACCCTCGAC
Statistics
Matches: 126, Mismatches: 22, Indels: 15
0.77 0.13 0.09
Matches are distributed among these distances:
30 2 0.02
31 72 0.57
32 52 0.41
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (32 bp):
ACTGTCCATATGTTCCATAGAACATAGGTAAT
Found at i:61071 original size:16 final size:16
Alignment explanation
Indices: 61050--61089 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
61040 TGTTGGTTGA
61050 ACACGTGTACTTTGTG
1 ACACGTGTACTTTGTG
61066 ACACGTGTACTTTGTG
1 ACACGTGTACTTTGTG
61082 ACACGTGT
1 ACACGTGT
61090 TTTAAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (16 bp):
ACACGTGTACTTTGTG
Found at i:61309 original size:38 final size:38
Alignment explanation
Indices: 61264--61340 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
61254 ATTTTGATAT
*
61264 TTTATAATTTTACTTTATTATCCAATATTTTAAGAATG
1 TTTATAATTTTACTTTATTATCAAATATTTTAAGAATG
61302 TTTATAATTTTACTTTATTATCAAATATTTTAAGAATG
1 TTTATAATTTTACTTTATTATCAAATATTTTAAGAATG
61340 T
1 T
61341 CATTTTAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.53
Consensus pattern (38 bp):
TTTATAATTTTACTTTATTATCAAATATTTTAAGAATG
Found at i:64220 original size:60 final size:58
Alignment explanation
Indices: 64144--64329 Score: 176
Period size: 60 Copynumber: 3.1 Consensus size: 58
64134 GCAGCATATG
* * *
64144 TCCCTAAACTATGACTCTCTTTTTAAATTGATTCATAAACTTTTGAATATTCCAATTTCA
1 TCCCCAAACTATGAC-CTC-TTTTAAATTAATCCATAAACTTTTGAATATTCCAATTTCA
* * * * * *
64204 TCCCCAAACTATGA-CTCATTATAAATTAACCCTTAAACTTTTGAACATTCTAATTTTA
1 TCCCCAAACTATGACCTC-TTTTAAATTAATCCATAAACTTTTGAATATTCCAATTTCA
* * * * ** *
64262 TCCCTAAAATATGACCCTCTTTCAAATTTAGTCCCCAAACTTTTAAATATTCCAATTTCA
1 TCCCCAAACTATGA-CCTCTTTTAAA-TTAATCCATAAACTTTTGAATATTCCAATTTCA
64322 TCCCCAAA
1 TCCCCAAA
64330 TTCATCCAAA
Statistics
Matches: 100, Mismatches: 23, Indels: 6
0.78 0.18 0.05
Matches are distributed among these distances:
58 47 0.47
59 5 0.05
60 48 0.48
ACGTcount: A:0.34, C:0.24, G:0.04, T:0.38
Consensus pattern (58 bp):
TCCCCAAACTATGACCTCTTTTAAATTAATCCATAAACTTTTGAATATTCCAATTTCA
Found at i:64242 original size:58 final size:59
Alignment explanation
Indices: 64179--64329 Score: 166
Period size: 58 Copynumber: 2.6 Consensus size: 59
64169 AATTGATTCA
*
64179 TAAACTTTTGAATATTCCAATTTCATCCCCAAACTATGA-CTCATTAT-AAA-TTA-ACCC
1 TAAACTTTTGAATATTCCAATTTCATCCCCAAAATATGACCTC-TT-TCAAATTTAGACCC
* * * * *
64236 TTAAACTTTTGAACATTCTAATTTTATCCCTAAAATATGACCCTCTTTCAAATTTAGTCCC
1 -TAAACTTTTGAATATTCCAATTTCATCCCCAAAATATGA-CCTCTTTCAAATTTAGACCC
* *
64297 CAAACTTTTAAATATTCCAATTTCATCCCCAAA
1 TAAACTTTTGAATATTCCAATTTCATCCCCAAA
64330 TTCATCCAAA
Statistics
Matches: 76, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
58 35 0.46
59 5 0.07
60 33 0.43
61 3 0.04
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (59 bp):
TAAACTTTTGAATATTCCAATTTCATCCCCAAAATATGACCTCTTTCAAATTTAGACCC
Found at i:64269 original size:29 final size:29
Alignment explanation
Indices: 64179--64269 Score: 69
Period size: 29 Copynumber: 3.1 Consensus size: 29
64169 AATTGATTCA
* * *
64179 TAAACTTTTGAATATTCCAATTTCATCCC
1 TAAACTTTTGAACATTCTAATTTTATCCC
* * * * * *
64208 CAAAC-TATGACTCATTATAA-ATTAACCC
1 TAAACTTTTGA-ACATTCTAATTTTATCCC
64236 TTAAACTTTTGAACATTCTAATTTTATCCC
1 -TAAACTTTTGAACATTCTAATTTTATCCC
64266 TAAA
1 TAAA
64270 ATATGACCCT
Statistics
Matches: 43, Mismatches: 15, Indels: 8
0.65 0.23 0.12
Matches are distributed among these distances:
28 9 0.21
29 24 0.56
30 10 0.23
ACGTcount: A:0.36, C:0.22, G:0.03, T:0.38
Consensus pattern (29 bp):
TAAACTTTTGAACATTCTAATTTTATCCC
Found at i:67521 original size:15 final size:15
Alignment explanation
Indices: 67501--67556 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
67491 TAACCGGTTT
67501 CGGTTTTAAAAAAAC
1 CGGTTTTAAAAAAAC
*
67516 CGGTTTTTTTAAAAAAC
1 CGG--TTTTAAAAAAAC
*
67533 CGGTTATAAAAAAAC
1 CGGTTTTAAAAAAAC
*
67548 CGATTTTAA
1 CGGTTTTAA
67557 TATTACAGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 20 0.59
17 14 0.41
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.32
Consensus pattern (15 bp):
CGGTTTTAAAAAAAC
Found at i:67529 original size:17 final size:17
Alignment explanation
Indices: 67504--67554 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
67494 CCGGTTTCGG
67504 TTTTAAAAAAACCGGTT
1 TTTTAAAAAAACCGGTT
*
67521 TTTTTAAAAAACCGG--
1 TTTTAAAAAAACCGGTT
* *
67536 TTATAAAAAAACCGATT
1 TTTTAAAAAAACCGGTT
67553 TT
1 TT
67555 AATATTACAG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 12 0.43
17 16 0.57
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (17 bp):
TTTTAAAAAAACCGGTT
Found at i:67750 original size:21 final size:21
Alignment explanation
Indices: 67726--67778 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
67716 ACACTTAGGG
67726 AACCGATTCCCTATGAGAGGA
1 AACCGATTCCCTATGAGAGGA
*
67747 AACCGATTCCCTATGAGAGGG
1 AACCGATTCCCTATGAGAGGA
*
67768 TACCGATTCCC
1 AACCGATTCCC
67779 CCACGCTCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (21 bp):
AACCGATTCCCTATGAGAGGA
Found at i:67994 original size:13 final size:13
Alignment explanation
Indices: 67973--68027 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
67963 AAGTTCGATA
*
67973 AATTCAAATACTT
1 AATTGAAATACTT
67986 AATTGAAATACTT
1 AATTGAAATACTT
* *
67999 AATT-AACTCAACAT
1 AATTGAAAT--ACTT
68013 AATTGAAATACTT
1 AATTGAAATACTT
68026 AA
1 AA
68028 ATACTTCCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.35
Consensus pattern (13 bp):
AATTGAAATACTT
Found at i:68109 original size:32 final size:33
Alignment explanation
Indices: 68013--68111 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
68003 AACTCAACAT
* * *
68013 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
68046 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
68079 AATTCAAATACTTAAAAACTT-CAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
68111 A
1 A
68112 TTGAAACAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 12 0.19
33 51 0.81
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.32
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTCCAAGTTCGATA
Found at i:68130 original size:21 final size:21
Alignment explanation
Indices: 68106--68145 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
68096 ACTTCAAGTT
68106 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
68127 CGATAATTGAAATAAAGTT
1 CGATAATTGAAACAAAGTT
68146 ATAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:70416 original size:14 final size:14
Alignment explanation
Indices: 70397--70423 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
70387 TTTCGGATAA
70397 AAACCGGTTTTTTC
1 AAACCGGTTTTTTC
70411 AAACCGGTTTTTT
1 AAACCGGTTTTTT
70424 ATCCGGTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.44
Consensus pattern (14 bp):
AAACCGGTTTTTTC
Found at i:72321 original size:87 final size:87
Alignment explanation
Indices: 72175--72423 Score: 374
Period size: 87 Copynumber: 2.9 Consensus size: 87
72165 ATGTTATATT
* * *
72175 ATTTAACCGGAAATATTATTAAGTACAATAACATATTAGGTAGCTCTTATATAATGTAATAAGTG
1 ATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCACTTATATAATGTAATAAGTA
* * *
72240 GTGTTTATATAATAAAATATGC
66 GCGCTTATATAATAAAATATAC
* * *
72262 ATTTAACCGGAAATATTATCAAATACAATAACATATTAGGTATCACTTATATAATGTAATATGTA
1 ATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCACTTATATAATGTAATAAGTA
72327 GCGCTTATATAATAAAATATAC
66 GCGCTTATATAATAAAATATAC
* *
72349 ATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATATAAT-AGAT
1 ATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCACTTATATAATGTAATAAG-T
*
72413 AGCGTTTATAT
65 AGCGCTTATAT
72424 TGACCTATTT
Statistics
Matches: 146, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
86 1 0.01
87 145 0.99
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (87 bp):
ATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCACTTATATAATGTAATAAGTA
GCGCTTATATAATAAAATATAC
Found at i:72852 original size:200 final size:198
Alignment explanation
Indices: 72418--72947 Score: 653
Period size: 200 Copynumber: 2.7 Consensus size: 198
72408 TAGATAGCGT
* * * **
72418 TTATATTGACCTATTTTCTAAGT-AAACC-AGTATATTTATACC-GGTAACATTACAAATTTACC
1 TTATATAGACATATTTTCTCA-TAAAACCGA-TATATTTATACCAGGT-ACATTGTAAATTTACC
* * * *
72480 AATTACATTATAATTATCGGTTTCGATGTTTTTTGGATCGATACAATTT--TAAATGTATCGACA
63 TATTACATTATAATTATCGATTTCGATG-TTTTGGGATCGATAC-TTTTAATAAATGTATCGACA
* *
72543 CTTTATGCATGCACCTCGTTGGGCATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAAAGTG
126 CTTTATGCATGCACCCCGTTGGGCATTCATTATGGAAAAAAGTATCGACACAAACTTAAAAAGTG
72608 TCGATCTA
191 TCGATCTA
* * * * *
72616 TTATTTAGACATATTTTCTCATAAAACTGATATATTTCTATCGGGTACATTGTAAATTTACCTAT
1 TTATATAGACATATTTTCTCATAAAACCGATATATTTATACCAGGTACATTGTAAATTTACCTAT
* *
72681 CACATTGTAATTATCGATTTCGATGTTTGTGGGATCGATACTTTTAATAAATGTATCGACACTTT
66 TACATTATAATTATCGATTTCGATGTTT-TGGGATCGATACTTTTAATAAATGTATCGACACTTT
* * * **
72746 ATGCGTGCACCCCGTTTGGCATTCATTATGGACAAAAAGTATCGACACAAATTTAAATGGTGTCG
130 ATGCATGCACCCCGTTGGGCATTCATTATGGA-AAAAAGTATCGACACAAACTTAAAAAGTGTCG
72811 ATACT-
194 AT-CTA
* * *
72816 TTATGAT-GACATATTTTCTTATAAAACCGGTATATTTATACCAGTTACATTGTAAATTTACCTA
1 TTAT-ATAGACATATTTTCTCATAAAACCGATATATTTATACCAGGTACATTGTAAATTTACCTA
* *
72880 TTACATTATAATTATC-AGTTTCGATGTTATTGGGATCAATACTTTTAATAAATGTATCAACACT
65 TTACATTATAATTATCGA-TTTCGATGTT-TTGGGATCGATACTTTTAATAAATGTATCGACACT
72944 TTAT
128 TTAT
72948 ATTTTGGACA
Statistics
Matches: 287, Mismatches: 34, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
197 7 0.02
198 80 0.28
199 51 0.18
200 145 0.51
201 4 0.01
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.39
Consensus pattern (198 bp):
TTATATAGACATATTTTCTCATAAAACCGATATATTTATACCAGGTACATTGTAAATTTACCTAT
TACATTATAATTATCGATTTCGATGTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTA
TGCATGCACCCCGTTGGGCATTCATTATGGAAAAAAGTATCGACACAAACTTAAAAAGTGTCGAT
CTA
Found at i:73071 original size:177 final size:178
Alignment explanation
Indices: 72774--73119 Score: 475
Period size: 177 Copynumber: 1.9 Consensus size: 178
72764 GCATTCATTA
* ** * *
72774 TGGACAAAAAGTATCGACACAAATTTAAATGGTGTCGATACTTTATGATGACATATTTTCTTATA
1 TGGACAAAAAGTATCGACACAAATTCAAAAAGTGTCGATACATTATGATGACATATTTTCTAATA
*
72839 AAACCGGTATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGA
66 AAACCAGTATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGA
72904 TGTTATTGGGATCAATACTTTTA-ATAAATGTATCAACACTTTATATTT
131 TGTTATTGGGATCAATACTTTTAGA-AAATGTATCAACACTTTATATTT
* * * *
72952 TGGACAATAATTATCGACACAAATTCAAAAAGTGTCGATACATTATGTTGACATGTTTTCTAAT-
1 TGGACAAAAAGTATCGACACAAATTCAAAAAGTGTCGATACATTATGATGACATATTTTCTAATA
* * **
73016 TAACCAGTATATTTATATTC-GTTACATTGCT-AATTTACCTATTACATTATAATTATTGGTTTC
66 AAACCAGTATATTTATA-CCAGTTACATTG-TAAATTTACCTATTACATTATAATTATCAGTTTC
* * * *
73079 GATGTTTTTGGGGTCGATACTTTTAGAAAATGTATCGACAC
129 GATGTTATTGGGATCAATACTTTTAGAAAATGTATCAACAC
73120 CTATTTAGCT
Statistics
Matches: 147, Mismatches: 18, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
177 89 0.61
178 58 0.39
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (178 bp):
TGGACAAAAAGTATCGACACAAATTCAAAAAGTGTCGATACATTATGATGACATATTTTCTAATA
AAACCAGTATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGA
TGTTATTGGGATCAATACTTTTAGAAAATGTATCAACACTTTATATTT
Found at i:73493 original size:25 final size:25
Alignment explanation
Indices: 73465--73546 Score: 164
Period size: 25 Copynumber: 3.3 Consensus size: 25
73455 TAGTGCACGT
73465 AAGGGAACAACACGGCTTGACGTGG
1 AAGGGAACAACACGGCTTGACGTGG
73490 AAGGGAACAACACGGCTTGACGTGG
1 AAGGGAACAACACGGCTTGACGTGG
73515 AAGGGAACAACACGGCTTGACGTGG
1 AAGGGAACAACACGGCTTGACGTGG
73540 AAGGGAA
1 AAGGGAA
73547 TGTGAAGACA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 57 1.00
ACGTcount: A:0.34, C:0.18, G:0.37, T:0.11
Consensus pattern (25 bp):
AAGGGAACAACACGGCTTGACGTGG
Found at i:75670 original size:19 final size:19
Alignment explanation
Indices: 75646--75694 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
75636 TTACATTCAC
75646 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
* *
75665 ATACAACATTATAAATCTT
1 ATACAAAATTATAAATCGT
75684 ATACAAAATTA
1 ATACAAAATTA
75695 ACCCTACATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.53, C:0.12, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:77477 original size:199 final size:198
Alignment explanation
Indices: 77027--77792 Score: 949
Period size: 199 Copynumber: 3.8 Consensus size: 198
77017 GCGTAATTTA
*
77027 AAAATGTATCAACACAAATTTAAAAGTGTCGATACATTATGTTAACCTATTTTCTCATAAAACCG
1 AAAATGTATCGACACAAATTTAAAAGTGTCGATACATTATGTT-ACCTATTTTCTCATAAAACCG
* * *
77092 ATATATTTATACC-GATTACATTCTAAATTTACCTATTACATTATAATTTTCGGTTTCGATATTT
65 GTATATTTATACCAG-TTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCAATATTT
* * * * * * * *
77156 TTTGGATCGATACTTTTTATAAATGTATCGACACTTTATCCATGCACCCCGTTTTGCATTCATTT
129 TTTGGATCGATATTTTTTAAAAATGTATCGACACTTTATGCGTGCAACCTGTTTGGCATTCATTA
77221 TGGAC
194 TGGAC
* * *
77226 AAAATGTATCGACACAAATCTAAAAAGTGTTGATACATTATGTT-CACTATTTTCTCATAAAACT
1 AAAATGTATCGACACAAAT-TTAAAAGTGTCGATACATTATGTTAC-CTATTTTCTCATAAAACC
* * * *
77290 GGTATACTTATACCAGTTACATTGTAAATTTACTTATTACATTATAATTATCGGTTTCGATA-TT
64 GGTATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCAATATTT
** *
77354 TTAAGATCGATATTTTTTAAAAATGTATCGACACTTTATGCGTGCATCCTGTTTGGCATTCATTA
129 TTTGGATCGATATTTTTTAAAAATGTATCGACACTTTATGCGTGCAACCTGTTTGGCATTCATTA
77419 TGGAC
194 TGGAC
77424 AAAATGTATCGACACAAATTTAAACAGTGTCGATACATTATGTATACCTATTTTCTCATAAAACC
1 AAAATGTATCGACACAAATTTAAA-AGTGTCGATACATTATGT-TACCTATTTTCTCATAAAACC
77489 GGTATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCAATATTT
64 GGTATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCAATATTT
* * * *
77554 TTTGGATCGATGCA-ATTTT--AAATGTATCTACACTTTTATACGTG-AAGCTCG-TTGAGCA--
129 TTTGGATCGAT--ATTTTTTAAAAATGTATCGACAC-TTTATGCGTGCAACCT-GTTTG-GCATT
* ***
77612 AAGGCTCGGAC
189 CATTAT-GGAC
** * * * * *
77623 AAAAAATATCGACACAAATTTAAAAGGTGTCAATACTTTATGCTGACCTATTTGCTCATAAAATC
1 AAAATGTATCGACACAAATTTAAAA-GTGTCGATACATTATG-TTACCTATTTTCTCATAAAACC
* * * * *
77688 GGTATATTTATACCAGTCACATTGTAAATTTACCTATTATATTATAATTTTTGGTTTTAATGTTT
64 GGTATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCAATATTT
*
77753 TTTGGATCGATATTTTTAAAAAATGTATCGACACTTTATG
129 TTTGGATCGATATTTTTTAAAAATGTATCGACACTTTATG
77793 GGAAACTTTA
Statistics
Matches: 496, Mismatches: 53, Indels: 36
0.85 0.09 0.06
Matches are distributed among these distances:
197 5 0.01
198 105 0.21
199 319 0.64
200 62 0.12
201 4 0.01
202 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (198 bp):
AAAATGTATCGACACAAATTTAAAAGTGTCGATACATTATGTTACCTATTTTCTCATAAAACCGG
TATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCAATATTTTT
TGGATCGATATTTTTTAAAAATGTATCGACACTTTATGCGTGCAACCTGTTTGGCATTCATTATG
GAC
Found at i:78051 original size:18 final size:18
Alignment explanation
Indices: 78028--78064 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
78018 CAAAATTTAT
78028 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
78046 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
78064 A
1 A
78065 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:79407 original size:18 final size:17
Alignment explanation
Indices: 79387--79432 Score: 60
Period size: 15 Copynumber: 2.8 Consensus size: 17
79377 ATTATCATCA
79387 TCATCATCTTCATCG--
1 TCATCATCTTCATCGTC
79402 TCATCATCTTCATCGTC
1 TCATCATCTTCATCGTC
*
79419 GTCTTCATCTTCAT
1 -TCATCATCTTCAT
79433 TGACCTCTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 15 0.56
18 12 0.44
ACGTcount: A:0.17, C:0.33, G:0.07, T:0.43
Consensus pattern (17 bp):
TCATCATCTTCATCGTC
Found at i:79416 original size:15 final size:15
Alignment explanation
Indices: 79381--79418 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
79371 TGGATCATTA
*
79381 TCATCATCATCATCT
1 TCATCGTCATCATCT
79396 TCATCGTCATCATCT
1 TCATCGTCATCATCT
79411 TCATCGTC
1 TCATCGTC
79419 GTCTTCATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.21, C:0.34, G:0.05, T:0.39
Consensus pattern (15 bp):
TCATCGTCATCATCT
Found at i:80242 original size:2 final size:2
Alignment explanation
Indices: 80235--80280 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
80225 GTATCTGGAG
80235 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
80277 AT AT
1 AT AT
80281 CATTCCCCAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:81595 original size:200 final size:199
Alignment explanation
Indices: 80941--82294 Score: 1758
Period size: 200 Copynumber: 6.8 Consensus size: 199
80931 CTTAAAATGA
* * *
80941 TATCGACACAAATTTA-ACAATTGTCGATAC-TTTATGTTGACCTATTTTCTCATAAAACCGGTA
1 TATCGACACAAA-TTACACAAGTGTCGATACATTT-TGTAGACCTATTCTCTCATAAAACCGGTA
* *
81004 TATTTATACCAGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTAG
64 TATTTATACCGGTTACATT-GAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTAG
81069 GATCGACACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTGGGCATTCATTCTGGA
128 GATCGACACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTGGGCATTCATTCTGGA
81134 CAAAAAG
193 CAAAAAG
*
81141 TATCGACACAAATT-CAGCAAGTGTCGATACATTTTGTAGACCTCTTCTCTCATAAAACCGGTAT
1 TATCGACACAAATTACA-CAAGTGTCGATACATTTTGTAGACCTATTCTCTCATAAAACCGGTAT
** *** **
81205 ATTTATATTGGTTACATTGAAATTTACCTATT--ATTATAATTATTCATTTTAATGTTTTT-GAG
65 ATTTATACCGGTTACATTGAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTAG-G
* * *
81267 ATCGACACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTGGGCATTCCTTTTGAAC
129 ATCGACACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTGGGCATTCATTCTGGAC
81332 AAAAAG
194 AAAAAG
* * ** *
81338 TATCGACACAAATTTCACAAGTGTCGATACATTTTTTAGATATATTCTCTCATAAAACCGATATA
1 TATCGACACAAATTACACAAGTGTCGATACATTTTGTAGACCTATTCTCTCATAAAACCGGTATA
** *
81403 TTTATACCGGTTACATTGAAATTTACCTATTACATTATAATTATCCGTTTCGGTGTTTTTAGGAT
66 TTTATACCGGTTACATTGAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTAGGAT
81468 CGACACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTTGGGCATTCATTCTGGACA
131 CGACACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCC-TTTTGGGCATTCATTCTGGACA
81533 AAAAG
195 AAAAG
* * * *
81538 TATCGACACAAAATACACAAGTGTCGATACATTTTCTAGACATATTCTCTTATAAAACCGGTATA
1 TATCGACACAAATTACACAAGTGTCGATACATTTTGTAGACCTATTCTCTCATAAAACCGGTATA
* *
81603 TTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTA-GA
66 TTTATACCGGTTACATTG-AAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTAGGA
* * * * *
81667 TCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCATTTTTTGGGCATTCATTATGGA
130 TCGACACTTTTTAAAAATGTATCGACACTTTATGGGTGCACC--CTTTTGGGCATTCATTCTGGA
*
81732 C-AAATG
193 CAAAAAG
* * * * *
81738 TATCGACATAAAATTA-AAAAGTATCGATACATTATGTAGACCTATTCTCACATAAAACCGGTAT
1 TATCGACA-CAAATTACACAAGTGTCGATACATTTTGTAGACCTATTCTCTCATAAAACCGGTAT
* * * * *
81802 ATTTATACCAGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTCTTTGGG
65 ATTTATACCGGTTACATT-GAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTAGG
* * * * *
81867 ATCAACACTTTTTAAAACTGTATCGACACTTTACGGGTGCATCCTTTTGGGCATTCTTTCTGGAC
129 ATCGACACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTGGGCATTCATTCTGGAC
81932 AAACAA-
194 AAA-AAG
* * * * *
81938 TATCGACACAAATTCCAGAAGTGTCGATACATTATGTAGACCTATTCTTTCATAAAACCAGTATA
1 TATCGACACAAATTACACAAGTGTCGATACATTTTGTAGACCTATTCTCTCATAAAACCGGTATA
* * * * *
82003 GTTATACCGGTTACATTGTAAATTTACCTATTTCATTATAATTATGAGTTTCGATGTTTCTGGGA
66 TTTATACCGGTTACATTG-AAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTAGGA
* * * ** * * *
82068 TCGATACTATTTATAAATGTATCGACACTTTATACGTTCACCATTTTGGGCATTCAGTCTGGACA
130 TCGACACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTGGGCATTCATTCTGGACA
82133 AAAAG
195 AAAAG
* * * * *
82138 TATCGACACCAATTTCAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTATA
1 TATCGACACAAATTACACAAGTGTCGATACATTTTGTAGACCTATTCTCTCATAAAACCGGTATA
** * * * * *
82203 TTTATATTGGTTATATTACAAAATTACCTATTACATTATAATTATGAGTTTCGATGTTTTTGGGA
66 TTTATACCGGTTACATT-GAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTAGGA
* *
82268 TCGATAC-TTTTATAAATGTATCGACAC
130 TCGACACTTTTTAAAAATGTATCGACAC
82295 ATCTGCTTAC
Statistics
Matches: 1018, Mismatches: 115, Indels: 43
0.87 0.10 0.04
Matches are distributed among these distances:
196 1 0.00
197 177 0.17
198 2 0.00
199 129 0.13
200 605 0.59
201 104 0.10
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (199 bp):
TATCGACACAAATTACACAAGTGTCGATACATTTTGTAGACCTATTCTCTCATAAAACCGGTATA
TTTATACCGGTTACATTGAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTAGGAT
CGACACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTGGGCATTCATTCTGGACAA
AAAG
Found at i:82340 original size:15 final size:15
Alignment explanation
Indices: 82320--82349 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
82310 TTTTAGAAAT
82320 TTTACGTTTGGGAAC
1 TTTACGTTTGGGAAC
82335 TTTACGTTTGGGAAC
1 TTTACGTTTGGGAAC
82350 CATACTGGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.13, G:0.27, T:0.40
Consensus pattern (15 bp):
TTTACGTTTGGGAAC
Found at i:82685 original size:19 final size:19
Alignment explanation
Indices: 82661--82709 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
82651 TTACATTCAC
82661 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
82680 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
82699 ATACAAAATTA
1 ATACAAAATTA
82710 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:84285 original size:18 final size:18
Alignment explanation
Indices: 84262--84300 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
84252 TCCTCCTCAT
84262 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
*
84280 TTCCTCCGTCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
84298 TTC
1 TTC
84301 ATATTTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.03, C:0.38, G:0.03, T:0.56
Consensus pattern (18 bp):
TTCCTCCATCTTTTCTTC
Found at i:84576 original size:21 final size:21
Alignment explanation
Indices: 84551--84594 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
84541 CCCCTTATGC
*
84551 CTCTCAAGTGTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
84572 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
84593 CT
1 CT
84595 TGATTGTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.32, G:0.14, T:0.39
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:84698 original size:15 final size:15
Alignment explanation
Indices: 84678--84707 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
84668 ACTCTGTTTT
*
84678 TCCTCACTGTCATCC
1 TCCTCACCGTCATCC
84693 TCCTCACCGTCATCC
1 TCCTCACCGTCATCC
84708 CCCAATACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.50, G:0.07, T:0.30
Consensus pattern (15 bp):
TCCTCACCGTCATCC
Found at i:87316 original size:182 final size:181
Alignment explanation
Indices: 86998--87418 Score: 598
Period size: 182 Copynumber: 2.3 Consensus size: 181
86988 TATTACACGT
* * *
86998 ACTTAT-TAAAGTATTGACACTTTCAATATATCCGGTAGCGT-TTTACCGGTTTTGTCACTTCGA
1 ACTTATATAAAGTATCGACACTTTCAATATATCCAGTAGC-TCTTTACCGGTTTTGTCACTTAGA
* *
87061 GACTGGTTTTGTCATATTTTTACATGTTATATCGTTATGGATCGATATATTTTTATAAAGTATCG
65 GACTGGTTTTGTCATATTTTTACATGTTATATCGTTATGGATCGATACATTATTATAAAGTATCG
* * *
87126 ATACTTTATAGATACTAAAAATGTTTCTCTTTTAAATTCAAAAAGTGTCGAC
130 ACACTTTATAGACACTAAAAATATTTCTCTTTTAAATTCAAAAAGTGTCGAC
* *
87178 ACTTATATAAAAGTATCGACACTTTCAATATATCCAGTCA-CTCTATACCGGTTTTTTC-CTTTA
1 ACTTATAT-AAAGTATCGACACTTTCAATATATCCAGT-AGCTCTTTACCGGTTTTGTCAC-TTA
* *
87241 GAGACTGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTATTATAAAGTAT
63 GAGACTGGTTTTGTCATATTTTTACATGTTATATCGTTATGGATCGATACATTATTATAAAGTAT
* * * * *
87306 CGACACTTTATAGGCGCTAAAATTATTTCTCTTTTAAATTCACAAAGTGTCGAT
128 CGACACTTTATAGACACTAAAAATATTTCTCTTTTAAATTCAAAAAGTGTCGAC
* *
87360 ACTTATATTAAAGTATCGACACTTTTAATATATCCAGTAGCGCTTTACCGGTTTTGTCA
1 ACTTATA-TAAAGTATCGACACTTTCAATATATCCAGTAGCTCTTTACCGGTTTTGTCA
87419 TTTTTTACCT
Statistics
Matches: 212, Mismatches: 21, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
180 6 0.03
181 4 0.02
182 200 0.94
183 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (181 bp):
ACTTATATAAAGTATCGACACTTTCAATATATCCAGTAGCTCTTTACCGGTTTTGTCACTTAGAG
ACTGGTTTTGTCATATTTTTACATGTTATATCGTTATGGATCGATACATTATTATAAAGTATCGA
CACTTTATAGACACTAAAAATATTTCTCTTTTAAATTCAAAAAGTGTCGAC
Found at i:93362 original size:48 final size:48
Alignment explanation
Indices: 93292--93391 Score: 166
Period size: 48 Copynumber: 2.1 Consensus size: 48
93282 TTGATATTGG
* * *
93292 TTAA-TGCATGATGGGTATTCTATTCCCTACGTAGGTTAGAGGAGTTT
1 TTAATTGCATGATGGATATTCTATTCCCTACGTAGATTAGAGGAATTT
93339 TTAATTGCATGATGGATATTCTATTCCCTACGTAGATTAGAGGAATTT
1 TTAATTGCATGATGGATATTCTATTCCCTACGTAGATTAGAGGAATTT
93387 TTAAT
1 TTAAT
93392 AAGGTCCGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
47 4 0.08
48 45 0.92
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.40
Consensus pattern (48 bp):
TTAATTGCATGATGGATATTCTATTCCCTACGTAGATTAGAGGAATTT
Found at i:99209 original size:18 final size:18
Alignment explanation
Indices: 99186--99233 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
99176 GCACATATAC
99186 CATCATTATCATCATCAA
1 CATCATTATCATCATCAA
* *
99204 CATCATTATCGTTATCAA
1 CATCATTATCATCATCAA
* *
99222 TATTATTATCAT
1 CATCATTATCAT
99234 TAATCCCTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.35, C:0.21, G:0.02, T:0.42
Consensus pattern (18 bp):
CATCATTATCATCATCAA
Found at i:99488 original size:23 final size:23
Alignment explanation
Indices: 99434--99480 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
99424 GTATAAATTG
*
99434 CCACATATAA-TGTCCCGAAGGA
1 CCACATAGAATTGTCCCGAAGGA
99456 CCACATAGAATTGTCCCGAAGGA
1 CCACATAGAATTGTCCCGAAGGA
99479 CC
1 CC
99481 GCGTAGAACC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.34, C:0.30, G:0.19, T:0.17
Consensus pattern (23 bp):
CCACATAGAATTGTCCCGAAGGA
Found at i:100300 original size:19 final size:19
Alignment explanation
Indices: 100276--100314 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
100266 ACCGATACTT
100276 CTATACTAT-GGTATCGATA
1 CTATACT-TCGGTATCGATA
*
100295 CTATACTTCGGTGTCGATA
1 CTATACTTCGGTATCGATA
100314 C
1 C
100315 CCAATTTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.36
Consensus pattern (19 bp):
CTATACTTCGGTATCGATA
Found at i:101490 original size:12 final size:12
Alignment explanation
Indices: 101473--101511 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
101463 ATACGATATA
101473 AACAGTACCATG
1 AACAGTACCATG
**
101485 AACAGTA-TGTG
1 AACAGTACCATG
101496 AACAGTACCATG
1 AACAGTACCATG
101508 AACA
1 AACA
101512 ATACTTTCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.18
Consensus pattern (12 bp):
AACAGTACCATG
Found at i:102118 original size:18 final size:20
Alignment explanation
Indices: 102095--102189 Score: 90
Period size: 22 Copynumber: 4.8 Consensus size: 20
102085 ACTGAATATT
102095 TGTCCCGAAGGACCA-G-TA
1 TGTCCCGAAGGACCATGATA
102113 TGTCCCGAAGGACCATTGTATA
1 TGTCCCGAAGGACCA-TG-ATA
*
102135 TGTCCCAAAGGACCATTGTATA
1 TGTCCCGAAGGACCA-TG-ATA
* *
102157 TATCCCGAAGGACCA--CTA
1 TGTCCCGAAGGACCATGATA
*
102175 TGTCCCGAATGACCA
1 TGTCCCGAAGGACCA
102190 CTGTATAACC
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
18 30 0.45
20 1 0.01
22 36 0.54
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (20 bp):
TGTCCCGAAGGACCATGATA
Found at i:102136 original size:22 final size:22
Alignment explanation
Indices: 102095--102171 Score: 108
Period size: 22 Copynumber: 3.7 Consensus size: 22
102085 ACTGAATATT
102095 TGTCCCGAAGGACCA--G--TA
1 TGTCCCGAAGGACCATTGTATA
102113 TGTCCCGAAGGACCATTGTATA
1 TGTCCCGAAGGACCATTGTATA
*
102135 TGTCCCAAAGGACCATTGTATA
1 TGTCCCGAAGGACCATTGTATA
*
102157 TATCCCGAAGGACCA
1 TGTCCCGAAGGACCA
102172 CTATGTCCCG
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
18 15 0.29
20 1 0.02
22 36 0.69
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (22 bp):
TGTCCCGAAGGACCATTGTATA
Found at i:107502 original size:12 final size:12
Alignment explanation
Indices: 107484--107517 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
107474 ATTATATGGT
107484 ATGAACAGTACC
1 ATGAACAGTACC
*
107496 GTGAACAGTACC
1 ATGAACAGTACC
*
107508 ATGACCAGTA
1 ATGAACAGTA
107518 AAAAATTTCG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.18
Consensus pattern (12 bp):
ATGAACAGTACC
Found at i:108241 original size:22 final size:22
Alignment explanation
Indices: 108213--108258 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
108203 GAAGGACCAC
108213 TATGTCCCAAAGGACCACTGTA
1 TATGTCCCAAAGGACCACTGTA
*
108235 TATGTCCCGAAGGACCACTGTA
1 TATGTCCCAAAGGACCACTGTA
108257 TA
1 TA
108259 ACCCTCGACT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (22 bp):
TATGTCCCAAAGGACCACTGTA
Found at i:114312 original size:57 final size:57
Alignment explanation
Indices: 114152--114577 Score: 531
Period size: 57 Copynumber: 7.6 Consensus size: 57
114142 AAATTCACCT
* * * * * * * *
114152 ACTTATTATGAATTTCTTA--TGTTTGCATATATAGTCCCCATACGAAAATTCACAC
1 ACTTAGTATGAATTTCTTAGCTTTTTGCACACAAAGTGCCCATACGGAAATTCATAC
* ** **
114207 ACTTAGTATGAATTTCTTAG---TTTGTACACATGGTGCCCATACAAAAATTCATAC
1 ACTTAGTATGAATTTCTTAGCTTTTTGCACACAAAGTGCCCATACGGAAATTCATAC
* *
114261 CCTTAGTATGAATTTCTTAGCTTTTTGCACACAAAGTGCCCATACGGAAATTCATAA
1 ACTTAGTATGAATTTCTTAGCTTTTTGCACACAAAGTGCCCATACGGAAATTCATAC
* * * * * *
114318 ACTAATTATGAATTTCTTAACTTTTTGCACACAAAGTGTCCATATGAAAATTCATAC
1 ACTTAGTATGAATTTCTTAGCTTTTTGCACACAAAGTGCCCATACGGAAATTCATAC
*
114375 ACTTAGTATGAATTTCTTAGCTTTTTGCACACAAAGTGCCCATACGGAAATTCATAA
1 ACTTAGTATGAATTTCTTAGCTTTTTGCACACAAAGTGCCCATACGGAAATTCATAC
* * *
114432 ACTAATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCATACGGAAATTCATAC
1 ACTTAGTATGAATTTCTTAGCTTTTTGCACACAAAGTGCCCATACGGAAATTCATAC
*
114489 ACTTAGTATGAATTTCTTAGCTTTTTGCACACAAAGTGCCCATAAGGAAATTCATA-
1 ACTTAGTATGAATTTCTTAGCTTTTTGCACACAAAGTGCCCATACGGAAATTCATAC
* * * *
114545 AATTAATTATGATTTTCTTAACTTTTTGCACAC
1 ACTT-AGTATGAATTTCTTAGCTTTTTGCACAC
114578 TCAGTGTCAT
Statistics
Matches: 324, Mismatches: 42, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
54 46 0.14
55 18 0.06
56 3 0.01
57 257 0.79
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.36
Consensus pattern (57 bp):
ACTTAGTATGAATTTCTTAGCTTTTTGCACACAAAGTGCCCATACGGAAATTCATAC
Found at i:114388 original size:114 final size:114
Alignment explanation
Indices: 114131--114577 Score: 618
Period size: 114 Copynumber: 4.0 Consensus size: 114
114121 TCATACCCAC
* * * * * * * *
114131 TGCCAATACGAAAATTCA-CCTACTTATTATGAATTTCTTA--TGTTTGCATATATAGTCCCCAT
1 TGCCCATACGAAAATTCATAC-ACTTAGTATGAATTTCTTAGCTTTTTGCACACAAAGTGCCCAT
* * * * * * * **
114193 ACGAAAATTCACACACTTAGTATGAATTTCTT-A--GTTTGTACACATGG
65 ACGGAAATTCATAAACTAATTATGAATTTCTTAACTTTTTGCACACAAAG
* *
114240 TGCCCATACAAAAATTCATACCCTTAGTATGAATTTCTTAGCTTTTTGCACACAAAGTGCCCATA
1 TGCCCATACGAAAATTCATACACTTAGTATGAATTTCTTAGCTTTTTGCACACAAAGTGCCCATA
114305 CGGAAATTCATAAACTAATTATGAATTTCTTAACTTTTTGCACACAAAG
66 CGGAAATTCATAAACTAATTATGAATTTCTTAACTTTTTGCACACAAAG
* *
114354 TGTCCATATGAAAATTCATACACTTAGTATGAATTTCTTAGCTTTTTGCACACAAAGTGCCCATA
1 TGCCCATACGAAAATTCATACACTTAGTATGAATTTCTTAGCTTTTTGCACACAAAGTGCCCATA
114419 CGGAAATTCATAAACTAATTATGAATTTCTTAACTTTTTGCACACAAAG
66 CGGAAATTCATAAACTAATTATGAATTTCTTAACTTTTTGCACACAAAG
*
114468 TGCCCATACGGAAATTCATACACTTAGTATGAATTTCTTAGCTTTTTGCACACAAAGTGCCCATA
1 TGCCCATACGAAAATTCATACACTTAGTATGAATTTCTTAGCTTTTTGCACACAAAGTGCCCATA
* * *
114533 AGGAAATTCATAAATTAATTATGATTTTCTTAACTTTTTGCACAC
66 CGGAAATTCATAAACTAATTATGAATTTCTTAACTTTTTGCACAC
114578 TCAGTGTCAT
Statistics
Matches: 303, Mismatches: 29, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
109 33 0.11
110 1 0.00
111 44 0.15
112 1 0.00
114 224 0.74
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.35
Consensus pattern (114 bp):
TGCCCATACGAAAATTCATACACTTAGTATGAATTTCTTAGCTTTTTGCACACAAAGTGCCCATA
CGGAAATTCATAAACTAATTATGAATTTCTTAACTTTTTGCACACAAAG
Found at i:116827 original size:93 final size:93
Alignment explanation
Indices: 116667--116854 Score: 331
Period size: 93 Copynumber: 2.0 Consensus size: 93
116657 ACCATGACCA
*
116667 AATAAAATAACATCTATATGTTATCACATCTTGAAATTCTATTCATAGAATTTTACAAGTTTCTC
1 AATAAAATAACATCTATATGTTATCACATCTTGAAATTATATTCATAGAATTTTACAAGTTTCTC
*
116732 ATCATGGCTCACAATCATGATTTCGTTT
66 ATCATGGCTCACAATCACGATTTCGTTT
*
116760 AATAAAATAACATCTATATGTTATCACATCTTGAAATTATATTCATAGAATTTTACAAGTTTTTC
1 AATAAAATAACATCTATATGTTATCACATCTTGAAATTATATTCATAGAATTTTACAAGTTTCTC
* *
116825 ATCGTGGCTCACAATCACGATTTTGTTT
66 ATCATGGCTCACAATCACGATTTCGTTT
116853 AA
1 AA
116855 CACACAAAAT
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 90 1.00
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.40
Consensus pattern (93 bp):
AATAAAATAACATCTATATGTTATCACATCTTGAAATTATATTCATAGAATTTTACAAGTTTCTC
ATCATGGCTCACAATCACGATTTCGTTT
Found at i:117760 original size:16 final size:18
Alignment explanation
Indices: 117739--117776 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 18
117729 TTAATCCGAG
117739 AATAATATAGAAAAATAAT
1 AATAAT-TAGAAAAATAAT
117758 AATGAATTAGAAAAATAAT
1 AAT-AATTAGAAAAATAAT
117777 GTATAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (18 bp):
AATAATTAGAAAAATAAT
Found at i:118163 original size:27 final size:25
Alignment explanation
Indices: 118109--118163 Score: 58
Period size: 27 Copynumber: 2.1 Consensus size: 25
118099 CAACTTTTAC
* *
118109 TATTTAAACTTAAAAAATATTATTT
1 TATTTAAAATTAAAAAATATTATAT
118134 TATTTAAAATATATAAAAATA-TATAAT
1 TATTTAAAAT-TA-AAAAATATTAT-AT
118161 TAT
1 TAT
118164 ATTTTAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
25 9 0.36
26 5 0.20
27 11 0.44
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
TATTTAAAATTAAAAAATATTATAT
Found at i:118178 original size:28 final size:28
Alignment explanation
Indices: 118118--118179 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
118108 CTATTTAAAC
* *
118118 TTAAAAAATATTATTTTATTTAAAATAT
1 TTAAAAAATATAATTATATTTAAAATAT
* *
118146 ATAAAAATATATAATTATATTT-TAATAT
1 TTAAAAA-ATATAATTATATTTAAAATAT
118174 TTAAAA
1 TTAAAA
118180 TTAAAAAGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
28 16 0.57
29 12 0.43
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
TTAAAAAATATAATTATATTTAAAATAT
Found at i:126286 original size:2 final size:2
Alignment explanation
Indices: 126279--126304 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
126269 CTCTTAAAAG
126279 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
126305 TAAAAATTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:128578 original size:205 final size:210
Alignment explanation
Indices: 128214--128633 Score: 742
Period size: 205 Copynumber: 2.0 Consensus size: 210
128204 AATTCAAATC
128214 GTGGCAGATCCAAATCCAGAAGGGGAAAATTAAGAACGGGAAAGAAAGATTTTACCTGTTATAAC
1 GTGGCAGATCCAAATCCAGAAGGGGAAAATTAAGAACGGGAAAGAAAGATTTTACCTGTTATAAC
128279 TGCGGTAAGAAGGGTCACTTTAAAAGAGATTGCCGAGCACCGAAGAAAAATACTGACGCACATGA
66 --CGGTAAGAAGGGTCACTTTAAAAGAGATTGCCGAGCACCGAAGAAAAATAC--ACGCACATGA
128344 ATCTGCCAACATGATAGATGAGACAGGTGATGTCATGATTTTAAGTGTCAACAGTCCGATTGAAT
127 ATCTGCCAACATGATAGATGAGACAGGTGATGTCATGATTTTAAGTGTCAACAGTCCGATTGAAT
128409 CATGTATCTTGGATCCAGG
192 CATGTATCTTGGATCCAGG
128428 GTGGCAGATCCAAATCCAGAAGGGGAAAATTAAGAAC-GGAAAGAAAGATTTTACCTGTTATAA-
1 GTGGCAGATCCAAATCCAGAAGGGGAAAATTAAGAACGGGAAAGAAAGATTTTACCTGTTATAAC
*
128491 CGGTAAGAAGGGTCACTTTAAAAGAGA-TG-TGAGCACCGAAGAAAAATA-ACGCACATGAATCT
66 CGGTAAGAAGGGTCACTTTAAAAGAGATTGCCGAGCACCGAAGAAAAATACACGCACATGAATCT
*
128553 GCCAACGTGATAGATGAGACAGGTGATGTCATGATTTTAAGTGTCAACAGTCCGATTGAATCATG
131 GCCAACATGATAGATGAGACAGGTGATGTCATGATTTTAAGTGTCAACAGTCCGATTGAATCATG
*
128618 TATCTTGGATTCAGG
196 TATCTTGGATCCAGG
128633 G
1 G
128634 GAACATTTCC
Statistics
Matches: 203, Mismatches: 3, Indels: 9
0.94 0.01 0.04
Matches are distributed among these distances:
205 93 0.46
208 18 0.09
209 2 0.01
210 27 0.13
213 26 0.13
214 37 0.18
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.23
Consensus pattern (210 bp):
GTGGCAGATCCAAATCCAGAAGGGGAAAATTAAGAACGGGAAAGAAAGATTTTACCTGTTATAAC
CGGTAAGAAGGGTCACTTTAAAAGAGATTGCCGAGCACCGAAGAAAAATACACGCACATGAATCT
GCCAACATGATAGATGAGACAGGTGATGTCATGATTTTAAGTGTCAACAGTCCGATTGAATCATG
TATCTTGGATCCAGG
Found at i:138740 original size:33 final size:34
Alignment explanation
Indices: 138675--138741 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
138665 TGTAATGGGG
* *
138675 AAAGGTTCTAGTTTAGCCTGTGAAAAGCTAGGGA
1 AAAGGTTCTAGTTTAGCCCGTGAAAAACTAGGGA
* *
138709 AAAGGTTCTAGTTTATCCCGT-AAAAATTAGGGA
1 AAAGGTTCTAGTTTAGCCCGTGAAAAACTAGGGA
138742 GTTGTAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 10 0.34
34 19 0.66
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.28
Consensus pattern (34 bp):
AAAGGTTCTAGTTTAGCCCGTGAAAAACTAGGGA
Found at i:139982 original size:179 final size:178
Alignment explanation
Indices: 139683--140035 Score: 697
Period size: 179 Copynumber: 2.0 Consensus size: 178
139673 CTTAAAGGAA
139683 CTAACAGAATAGGATGCCAAGGCATCTTCTCACTCAACGATGTTGGCCAGCCTACCCTATTGATA
1 CTAACAGAATAGGATGCCAAGGCATCTTCTCACTCAACGATGTTGGCCAGCCTACCCTATTGATA
139748 AATACACCCTTTTTAGTCGTTGAAATCCTATCATAGTCTCTCCCGAGATCTAAGGGATTAGGTTA
66 AATACACCCTTTTTAGTCGTTGAAATCCTATCATAGTCTCTCCCGAGATCTAAGGGATTAGGTTA
139813 TAATATTCCTAGGCCGATTCAAAGCCCCTTGAAAATACTATAACGAAC
131 TAATATTCCTAGGCCGATTCAAAGCCCCTTGAAAATACTATAACGAAC
139861 CTAACAGAATAGGATGCCAAGGCATCTCTCTCACTCAACGATGTTGGCCAGCCTACCCTATTGAT
1 CTAACAGAATAGGATGCCAAGGCATCT-TCTCACTCAACGATGTTGGCCAGCCTACCCTATTGAT
139926 AAATACACCCTTTTTAGTCGTTGAAATCCTATCATAGTCTCTCCCGAGATCTAAGGGATTAGGTT
65 AAATACACCCTTTTTAGTCGTTGAAATCCTATCATAGTCTCTCCCGAGATCTAAGGGATTAGGTT
139991 ATAATATTCCTAGGCCGATTCAAAGCCCCTTGAAAATACTATAAC
130 ATAATATTCCTAGGCCGATTCAAAGCCCCTTGAAAATACTATAAC
140036 CTATTGCTTA
Statistics
Matches: 174, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
178 27 0.16
179 147 0.84
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (178 bp):
CTAACAGAATAGGATGCCAAGGCATCTTCTCACTCAACGATGTTGGCCAGCCTACCCTATTGATA
AATACACCCTTTTTAGTCGTTGAAATCCTATCATAGTCTCTCCCGAGATCTAAGGGATTAGGTTA
TAATATTCCTAGGCCGATTCAAAGCCCCTTGAAAATACTATAACGAAC
Found at i:140243 original size:23 final size:23
Alignment explanation
Indices: 140200--140249 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
140190 ATAAATAACC
* *
140200 AAAATAAACTTAAATATACCATT
1 AAAATAAACTTAAACATACCATA
*
140223 AAAATAAAGTCTAAACA-ACCATA
1 AAAATAAACT-TAAACATACCATA
140246 AAAA
1 AAAA
140250 CAACCACCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.62, C:0.14, G:0.02, T:0.22
Consensus pattern (23 bp):
AAAATAAACTTAAACATACCATA
Found at i:141396 original size:10 final size:10
Alignment explanation
Indices: 141381--141429 Score: 71
Period size: 10 Copynumber: 4.8 Consensus size: 10
141371 ACTTACTACA
141381 CTTTTTTTTT
1 CTTTTTTTTT
141391 CTTTTTTTTT
1 CTTTTTTTTT
141401 CTTTTTTTTT
1 CTTTTTTTTT
* *
141411 CACTTTTTTTC
1 C-TTTTTTTTT
141422 CTTTTTTT
1 CTTTTTTT
141430 ACGTTGTTAC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
10 27 0.77
11 8 0.23
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:141404 original size:20 final size:21
Alignment explanation
Indices: 141381--141429 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
141371 ACTTACTACA
* *
141381 CTTTTTTTTTC-TTTTTTTTT
1 CTTTTTTTTTCACTTTTTTTC
141401 CTTTTTTTTTCACTTTTTTTC
1 CTTTTTTTTTCACTTTTTTTC
141422 CTTTTTTT
1 CTTTTTTT
141430 ACGTTGTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (21 bp):
CTTTTTTTTTCACTTTTTTTC
Found at i:150293 original size:2 final size:2
Alignment explanation
Indices: 150286--150332 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
150276 AAAGATTGTC
150286 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
150328 A- AT AT
1 AT AT AT
150333 TAGTTTGATG
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:156633 original size:49 final size:49
Alignment explanation
Indices: 156544--156638 Score: 118
Period size: 49 Copynumber: 1.9 Consensus size: 49
156534 TGGTTTATGT
* ***
156544 CAGGGGCAGACCTCCATGGAGCCCGTGGTATCCTGGGCAACCCCTCATC
1 CAGGGGCAGACCTCCATGGAGCCCGGGGTATCCCAAGCAACCCCTCATC
* * * *
156593 CAGGGGTAGATCTCCATGGTGTCCGGGGTATCCCAAGCAACCCCTC
1 CAGGGGCAGACCTCCATGGAGCCCGGGGTATCCCAAGCAACCCCTC
156639 TACAAGTGCC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 38 1.00
ACGTcount: A:0.19, C:0.35, G:0.28, T:0.18
Consensus pattern (49 bp):
CAGGGGCAGACCTCCATGGAGCCCGGGGTATCCCAAGCAACCCCTCATC
Found at i:156702 original size:16 final size:16
Alignment explanation
Indices: 156660--156704 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
156650 CCCTTAATCC
*
156660 AAGTGTCACTCCTCAA
1 AAGTGTCACCCCTCAA
156676 AAGTG-CTACCCCTCAA
1 AAGTGTC-ACCCCTCAA
156692 AAGTGTCACCCCT
1 AAGTGTCACCCCT
156705 GAGGCTCTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 1 0.04
16 24 0.92
17 1 0.04
ACGTcount: A:0.29, C:0.36, G:0.13, T:0.22
Consensus pattern (16 bp):
AAGTGTCACCCCTCAA
Found at i:169163 original size:231 final size:231
Alignment explanation
Indices: 168760--169704 Score: 1399
Period size: 231 Copynumber: 4.0 Consensus size: 231
168750 AAGTAAGGGT
* *
168760 AAATTATTTGAATGACCATCCAATTATTTATATTGTATTATTTAGGTCACTAATCATTAAAATTT
1 AAATTATTTGAATGACCATCCAATTATTTATATTGTATTATTTAAGTCACTAGTCATTAAAATTT
* *
168825 AACATAGAGTGGTGTGGCAATCAATATAAATTTGTATAATTACACATTTGATTCTCAATACTTGT
66 AACATAGGGTGGTGTGGCAATCAACATAAATTTGTATAATTACACATTTGATTCTCAATACTTGT
* *
168890 ATATTCTATTAATTTAGTCCTAATTTAAATTTAATTTTATAAATTAACCCTTCAACCTAGAGGTG
131 ATATTCTATTAATTTAATCCTAATTTAAATTTAATTTTATAAATTAACCCTTCAATCTAGAGGTG
* *
168955 ATACGTGCCAATACATGGTCATGGCACATGTCTTTA
196 ATACGTGACAATACATGGTCATGACACATGTCTTTA
*
168991 AAATTATTTGAATGACCATCCAATTATTTATATTGTATTATTTAAGTCACTAGTCGTTAAAATTT
1 AAATTATTTGAATGACCATCCAATTATTTATATTGTATTATTTAAGTCACTAGTCATTAAAATTT
169056 AACATAGGGTGGTGTGGCAATCAACATAAATTTGTATAATTACACATTTGATTCTCAATACTTGT
66 AACATAGGGTGGTGTGGCAATCAACATAAATTTGTATAATTACACATTTGATTCTCAATACTTGT
*
169121 ATATTCTATTAATTTAATCCTAATTTAAATTTAATTTTATAAATTAACCCTTAAATCTAGAGGTG
131 ATATTCTATTAATTTAATCCTAATTTAAATTTAATTTTATAAATTAACCCTTCAATCTAGAGGTG
169186 ATACGTGACAATACATGGTCATGACACATGTCTTTA
196 ATACGTGACAATACATGGTCATGACACATGTCTTTA
* * * * ** *
169222 GTGCCACCACCTAATTTGAGGTTGAAC-TTAAATTTAAGGTGGCTTTAAACTTGGTGTATTATTT
1 -----A--A-ATTATTTGA--ATGACCATCCAA-TT-A------TTTATA--T--TGTATTATTT
169286 AAGTCACTTA-TCATTAAAATTTAACATAGGGTGGTGTGGCAATCAACATAAATTTGTATAATTA
44 AAGTCAC-TAGTCATTAAAATTTAACATAGGGTGGTGTGGCAATCAACATAAATTTGTATAATTA
*
169350 CACATTTGATTCTCAATACTTGTATATTCTATTAATTTATTCCTAATTTAAATTTAATTTTATAA
108 CACATTTGATTCTCAATACTTGTATATTCTATTAATTTAATCCTAATTTAAATTTAATTTTATAA
* * * *
169415 ATTAACCCTTCAATCTAGAGGTGATACATGCCGATACATGATCATGACACATGTCTTTA
173 ATTAACCCTTCAATCTAGAGGTGATACGTGACAATACATGGTCATGACACATGTCTTTA
* * *
169474 AAATTATTTGAATGACTATCCAATTATTTATATTGTATTATTTAAGTCACTTGTCGTTAAAATTT
1 AAATTATTTGAATGACCATCCAATTATTTATATTGTATTATTTAAGTCACTAGTCATTAAAATTT
* * *
169539 AATATAGGGTGGTGTGGCAATCAACATAAATTTGTATAACTACACATTTGATTCTCAGTACTTGT
66 AACATAGGGTGGTGTGGCAATCAACATAAATTTGTATAATTACACATTTGATTCTCAATACTTGT
*
169604 ATATTCTATTAACTTAATCCTAATTTAAATTTAATTTTATAAATTAACCCTTCAATCTAGAGGTG
131 ATATTCTATTAATTTAATCCTAATTTAAATTTAATTTTATAAATTAACCCTTCAATCTAGAGGTG
*
169669 ATATGTGACAATACATGGTCATGACACATGTCTTTA
196 ATACGTGACAATACATGGTCATGACACATGTCTTTA
169705 GTGTCACCAC
Statistics
Matches: 645, Mismatches: 44, Indels: 50
0.87 0.06 0.07
Matches are distributed among these distances:
230 1 0.00
231 405 0.63
233 1 0.00
235 5 0.01
236 1 0.00
238 1 0.00
239 7 0.01
240 3 0.00
241 7 0.01
242 6 0.01
243 3 0.00
244 7 0.01
245 1 0.00
247 1 0.00
248 5 0.01
250 1 0.00
252 188 0.29
253 2 0.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (231 bp):
AAATTATTTGAATGACCATCCAATTATTTATATTGTATTATTTAAGTCACTAGTCATTAAAATTT
AACATAGGGTGGTGTGGCAATCAACATAAATTTGTATAATTACACATTTGATTCTCAATACTTGT
ATATTCTATTAATTTAATCCTAATTTAAATTTAATTTTATAAATTAACCCTTCAATCTAGAGGTG
ATACGTGACAATACATGGTCATGACACATGTCTTTA
Found at i:169699 original size:483 final size:483
Alignment explanation
Indices: 168793--169759 Score: 1763
Period size: 483 Copynumber: 2.0 Consensus size: 483
168783 TTATTTATAT
* *
168793 TGTATTATTTAGGTCACTAATCATTAAAATTTAACATAGAGTGGTGTGGCAATCAATATAAATTT
1 TGTATTATTTAAGTCACTAATCATTAAAATTTAACATAGAGTGGTGTGGCAATCAACATAAATTT
168858 GTATAATTACACATTTGATTCTCAATACTTGTATATTCTATTAATTTAGTCCTAATTTAAATTTA
66 GTATAATTACACATTTGATTCTCAATACTTGTATATTCTATTAATTTAGTCCTAATTTAAATTTA
* * *
168923 ATTTTATAAATTAACCCTTCAACCTAGAGGTGATACGTGCCAATACATGGTCATGGCACATGTCT
131 ATTTTATAAATTAACCCTTCAACCTAGAGGTGATACATGCCAATACATGATCATGACACATGTCT
168988 TTAAAATTATTTGAATGACCATCCAATTATTTATATTGTATTATTTAAGTCACTAGTCGTTAAAA
196 TTAAAATTATTTGAATGACCATCCAATTATTTATATTGTATTATTTAAGTCACTAGTCGTTAAAA
*
169053 TTTAACATAGGGTGGTGTGGCAATCAACATAAATTTGTATAATTACACATTTGATTCTCAATACT
261 TTTAACATAGGGTGGTGTGGCAATCAACATAAATTTGTATAACTACACATTTGATTCTCAATACT
*
169118 TGTATATTCTATTAATTTAATCCTAATTTAAATTTAATTTTATAAATTAACCCTTAAATCTAGAG
326 TGTATATTCTATTAACTTAATCCTAATTTAAATTTAATTTTATAAATTAACCCTTAAATCTAGAG
169183 GTGATACGTGACAATACATGGTCATGACACATGTCTTTAGTGCCACCACCTAATTTGAGGTTGAA
391 GTGATACGTGACAATACATGGTCATGACACATGTCTTTAGTGCCACCACCTAATTTGAGGTTGAA
169248 CTTAAATTTAAGGTGGCTTTAAACTTGG
456 CTTAAATTTAAGGTGGCTTTAAACTTGG
* *
169276 TGTATTATTTAAGTCACTTATCATTAAAATTTAACATAGGGTGGTGTGGCAATCAACATAAATTT
1 TGTATTATTTAAGTCACTAATCATTAAAATTTAACATAGAGTGGTGTGGCAATCAACATAAATTT
*
169341 GTATAATTACACATTTGATTCTCAATACTTGTATATTCTATTAATTTATTCCTAATTTAAATTTA
66 GTATAATTACACATTTGATTCTCAATACTTGTATATTCTATTAATTTAGTCCTAATTTAAATTTA
* *
169406 ATTTTATAAATTAACCCTTCAATCTAGAGGTGATACATGCCGATACATGATCATGACACATGTCT
131 ATTTTATAAATTAACCCTTCAACCTAGAGGTGATACATGCCAATACATGATCATGACACATGTCT
* *
169471 TTAAAATTATTTGAATGACTATCCAATTATTTATATTGTATTATTTAAGTCACTTGTCGTTAAAA
196 TTAAAATTATTTGAATGACCATCCAATTATTTATATTGTATTATTTAAGTCACTAGTCGTTAAAA
* *
169536 TTTAATATAGGGTGGTGTGGCAATCAACATAAATTTGTATAACTACACATTTGATTCTCAGTACT
261 TTTAACATAGGGTGGTGTGGCAATCAACATAAATTTGTATAACTACACATTTGATTCTCAATACT
*
169601 TGTATATTCTATTAACTTAATCCTAATTTAAATTTAATTTTATAAATTAACCCTTCAATCTAGAG
326 TGTATATTCTATTAACTTAATCCTAATTTAAATTTAATTTTATAAATTAACCCTTAAATCTAGAG
* *
169666 GTGATATGTGACAATACATGGTCATGACACATGTCTTTAGTGTCACCACCTAATTTGAGGTTGAA
391 GTGATACGTGACAATACATGGTCATGACACATGTCTTTAGTGCCACCACCTAATTTGAGGTTGAA
169731 CTTAAATTTAAGGTGGCTTTAAACTTGG
456 CTTAAATTTAAGGTGGCTTTAAACTTGG
169759 T
1 T
169760 TTTTCAAGGA
Statistics
Matches: 465, Mismatches: 19, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
483 465 1.00
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.40
Consensus pattern (483 bp):
TGTATTATTTAAGTCACTAATCATTAAAATTTAACATAGAGTGGTGTGGCAATCAACATAAATTT
GTATAATTACACATTTGATTCTCAATACTTGTATATTCTATTAATTTAGTCCTAATTTAAATTTA
ATTTTATAAATTAACCCTTCAACCTAGAGGTGATACATGCCAATACATGATCATGACACATGTCT
TTAAAATTATTTGAATGACCATCCAATTATTTATATTGTATTATTTAAGTCACTAGTCGTTAAAA
TTTAACATAGGGTGGTGTGGCAATCAACATAAATTTGTATAACTACACATTTGATTCTCAATACT
TGTATATTCTATTAACTTAATCCTAATTTAAATTTAATTTTATAAATTAACCCTTAAATCTAGAG
GTGATACGTGACAATACATGGTCATGACACATGTCTTTAGTGCCACCACCTAATTTGAGGTTGAA
CTTAAATTTAAGGTGGCTTTAAACTTGG
Found at i:170055 original size:23 final size:25
Alignment explanation
Indices: 170006--170056 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
169996 ATAAAAATAT
*
170006 TTTTATAAATTTTAAAAAATTATAA
1 TTTTATAAATTTTAAAAAATTAGAA
* *
170031 TTTTAT-ATTTTTAAATAATT-GAA
1 TTTTATAAATTTTAAAAAATTAGAA
170054 TTT
1 TTT
170057 AATGTAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 5 0.22
24 12 0.52
25 6 0.26
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (25 bp):
TTTTATAAATTTTAAAAAATTAGAA
Found at i:170200 original size:20 final size:19
Alignment explanation
Indices: 170177--170229 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
170167 ATTGTAATAT
170177 ATTATTAGAAATTGATAC-CC
1 ATTATTAGAAATTG-T-CTCC
* *
170197 ATTAATTATAAATTGTCTCT
1 ATT-ATTAGAAATTGTCTCC
170217 ATTATTAGAAATT
1 ATTATTAGAAATT
170230 TAAGAATTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 10 0.36
20 8 0.29
21 10 0.36
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.43
Consensus pattern (19 bp):
ATTATTAGAAATTGTCTCC
Found at i:170336 original size:23 final size:22
Alignment explanation
Indices: 170298--170341 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
170288 TTCCAAGAAA
170298 ATATATTAATTTTTATAAATAT
1 ATATATTAATTTTTATAAATAT
*
170320 ATATTTTATATTTTTATAAATA
1 ATATATTA-ATTTTTATAAATA
170342 AGATATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
ATATATTAATTTTTATAAATAT
Found at i:170350 original size:23 final size:22
Alignment explanation
Indices: 170298--170351 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
170288 TTCCAAGAAA
*
170298 ATATATTA-ATTTTTATAAATAT
1 ATAT-TTATATTTTTATAAATAG
170320 ATATTTTATATTTTTATAAATAAG
1 ATA-TTTATATTTTTATAAAT-AG
170344 ATATTTAT
1 ATATTTAT
170352 TTACTTAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 6 0.21
23 18 0.64
24 4 0.14
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
ATATTTATATTTTTATAAATAG
Found at i:170479 original size:129 final size:132
Alignment explanation
Indices: 170343--170643 Score: 346
Period size: 129 Copynumber: 2.3 Consensus size: 132
170333 TTATAAATAA
* * * * *
170343 GATATTTATTTACTTAGAAATATCAAAAAATGACTTCTAGTTGCTTTAGGAAAGTCCCTTTCTTA
1 GATATTTATTTATTTA-AAATATCAAAAAATGACATCTAGTTACTTTAAGAAAGT-CATTTCTTA
170408 ATATTAAAAAATAAATAAAATATT-T-C-TCT-AAA-A-AAT-AATAAATATATATAATTTATAA
64 ATATTAAAAAATAAAT-AAATATTATACAT-TAAAATAGAATAAATAAATATATATAATTTATAA
*
170466 AGGTAT
127 AAGTAT
** * **
170472 GATATTTATTTATTTAAAAATATCAGAAAAGGGACATCTAGTTATTTTAAGACTGTCATTTCTTA
1 GATATTTATTTATTT-AAAATATCA-AAAAATGACATCTAGTTACTTTAAGAAAGTCATTTCTTA
*
170537 ATATTAAAAAATAAATAAATATTAATAAAACATTAAAATAGAATAAATTAATATATATAATTTAT
64 ATATTAAAAAATAAATAAATATT-AT---ACATTAAAATAGAATAAATAAATATATATAATTTAT
170602 AAAAGTAT
125 AAAAGTAT
*
170610 GATATTTATTTATTTAAAATATCAGAAAATGACA
1 GATATTTATTTATTTAAAATATCAAAAAATGACA
170644 AGACAACCCA
Statistics
Matches: 144, Mismatches: 15, Indels: 19
0.81 0.08 0.11
Matches are distributed among these distances:
128 7 0.05
129 46 0.32
130 24 0.17
134 2 0.01
135 4 0.03
136 8 0.06
137 12 0.08
138 41 0.28
ACGTcount: A:0.48, C:0.07, G:0.08, T:0.38
Consensus pattern (132 bp):
GATATTTATTTATTTAAAATATCAAAAAATGACATCTAGTTACTTTAAGAAAGTCATTTCTTAAT
ATTAAAAAATAAATAAATATTATACATTAAAATAGAATAAATAAATATATATAATTTATAAAAGT
AT
Found at i:170981 original size:2 final size:2
Alignment explanation
Indices: 170974--171002 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
170964 ATTTATCCTA
170974 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
171003 AACAGTCAAG
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:172494 original size:137 final size:136
Alignment explanation
Indices: 172245--172588 Score: 440
Period size: 137 Copynumber: 2.5 Consensus size: 136
172235 AATCGAGAAA
* * * *
172245 AAGGTTGAATAAGTTCTTCTCAATATGAAATTCTTCTTCCTCTTCAGATGAGTTTTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
** * * *
172310 GAACTTCCTCTTGAAATGCTGATCCTCAAAAGAGGTGTCGTTGATTCAACTTCATATGTGATGAA
66 GAAC-TCCTCTAAAAATGCTGATCCTCAAAAGAGGTGTCGTTCATTCAACTCCATAGGTGATGAA
*
172375 TTAAGGC-
130 TCAA-GCT
* * *
172382 AAGGTTGAACAAGTTCTTCTCATTAAGAACTTCCTCTTTCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* ** * *
172447 GAACT-CTCTAAAAATGTTGATCCTCAAGGGAGGTTCTTCTTTCATTCAACTCCATAGGTGATGA
66 GAACTCCTCTAAAAATGCTGATCCTCAAAAGAGG-T-GTCGTTCATTCAACTCCATAGGTGATGA
172511 ATCAAGCT
129 ATCAAGCT
* * * *
172519 AAGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTTAGATAAATTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
172584 GAACT
66 GAACT
172589 TTATCTGGAA
Statistics
Matches: 179, Mismatches: 25, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
135 23 0.13
136 4 0.02
137 152 0.85
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (136 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
GAACTCCTCTAAAAATGCTGATCCTCAAAAGAGGTGTCGTTCATTCAACTCCATAGGTGATGAAT
CAAGCT
Found at i:172748 original size:123 final size:123
Alignment explanation
Indices: 172509--172852 Score: 494
Period size: 123 Copynumber: 2.8 Consensus size: 123
172499 CATAGGTGAT
* * * * *
172509 GAATCAAGC-TAAGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTTAGATAAATT
1 GAATCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTT
** * * * *
172573 CTTCTCATTATGAACTTTATCTGGAAAT-TATGGTGCTGATATATCTCCTTCTGTGATA
66 CTTCTCATTATGAACTTCCTCTGGAAATGT-TGATGCTAATATATCTCATTCTGGGATA
* * ** *
172631 GAGTCAAGCAAAATGTTGAACAAGTTCTTCTCATTATGAGTTTCTTCTTCTTCTTCAGATGAGTT
1 GAATCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTT
* *
172696 CTTCTCATTATGAACTTCCTCTGGAAATGTTGATTCTAATTTATCTCATTCTGGGATA
66 CTTCTCATTATGAACTTCCTCTGGAAATGTTGATGCTAATATATCTCATTCTGGGATA
*
172754 GAATCGAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTT
1 GAATCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTT
172819 CTTCTCATTATGAACTTCCTCTGGAAATGTTGAT
66 CTTCTCATTATGAACTTCCTCTGGAAATGTTGAT
172853 CCATCAAGTG
Statistics
Matches: 196, Mismatches: 24, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
122 8 0.04
123 187 0.95
124 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (123 bp):
GAATCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTT
CTTCTCATTATGAACTTCCTCTGGAAATGTTGATGCTAATATATCTCATTCTGGGATA
Found at i:172914 original size:36 final size:37
Alignment explanation
Indices: 172874--172976 Score: 95
Period size: 37 Copynumber: 2.8 Consensus size: 37
172864 TGGAAATTTC
* *
172874 TGTTTCTAATGAAACTGTCTCAAGCGAGACGAA-TCT
1 TGTTTCTAATGAAACAGTCTCAAGCGAGACAAATTCT
* * * *
172910 TGTTT-TAA-GAAAAACAATCTCAAGTGAGATAAATTGT
1 TGTTTCTAATG--AAACAGTCTCAAGCGAGACAAATTCT
* *
172947 TGTTTCGAGTGAAACAGTCTCAAGCGAGAC
1 TGTTTCTAATGAAACAGTCTCAAGCGAGAC
172977 TTTGAAAACT
Statistics
Matches: 51, Mismatches: 11, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
34 1 0.02
35 3 0.06
36 22 0.43
37 23 0.45
38 1 0.02
39 1 0.02
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (37 bp):
TGTTTCTAATGAAACAGTCTCAAGCGAGACAAATTCT
Found at i:173744 original size:22 final size:22
Alignment explanation
Indices: 173696--173744 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
173686 AATAAAGTTT
*
173696 TCATATTTGAAAACAGAATCTA
1 TCATCTTTGAAAACAGAATCTA
* *
173718 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAAACAGAATCTA
173740 TCATC
1 TCATC
173745 ATCTTTGAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (22 bp):
TCATCTTTGAAAACAGAATCTA
Found at i:174209 original size:54 final size:54
Alignment explanation
Indices: 174124--174227 Score: 156
Period size: 54 Copynumber: 1.9 Consensus size: 54
174114 TAATTGGTTC
*
174124 GTAAAACATTTGACAACACATTCATTATTTCCTATGGTTTCTGCACAGATGTTT
1 GTAAAACATTTGACAACACATTCATTATTTCCTATGGCTTCTGCACAGATGTTT
* * *
174178 GTAAAGCATTTGACAGCACATTCATCT-TTTCCTATGGCTTCTGCCCAGAT
1 GTAAAACATTTGACAACACATTCAT-TATTTCCTATGGCTTCTGCACAGAT
174228 TTCTCCTCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
54 44 0.98
55 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (54 bp):
GTAAAACATTTGACAACACATTCATTATTTCCTATGGCTTCTGCACAGATGTTT
Found at i:176982 original size:1 final size:1
Alignment explanation
Indices: 176971--177016 Score: 56
Period size: 1 Copynumber: 46.0 Consensus size: 1
176961 CTTGATTCAA
* * * *
176971 TTTTCTTTTTTTCTTTTTTTTTTTTTTGTTTTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
177017 CTGATGAATG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.00, C:0.04, G:0.04, T:0.91
Consensus pattern (1 bp):
T
Found at i:179018 original size:19 final size:19
Alignment explanation
Indices: 178989--179056 Score: 118
Period size: 19 Copynumber: 3.5 Consensus size: 19
178979 AAGCAAACAT
178989 AAAAGTACAAATGCTAAATG
1 AAAA-TACAAATGCTAAATG
179009 AAAATACAAATGCTAAATG
1 AAAATACAAATGCTAAATG
179028 AAAATACAAATGCTAAATG
1 AAAATACAAATGCTAAATG
*
179047 AAAATGCAAA
1 AAAATACAAA
179057 GATGCAAAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
19 43 0.91
20 4 0.09
ACGTcount: A:0.59, C:0.10, G:0.12, T:0.19
Consensus pattern (19 bp):
AAAATACAAATGCTAAATG
Found at i:179026 original size:7 final size:7
Alignment explanation
Indices: 178997--179067 Score: 53
Period size: 6 Copynumber: 10.7 Consensus size: 7
178987 ATAAAAGTAC
*
178997 AAATGCT
1 AAATGCA
179004 AAATG-A
1 AAATGCA
*
179010 AAATAC-
1 AAATGCA
*
179016 AAATGCT
1 AAATGCA
179023 AAATG-A
1 AAATGCA
*
179029 AAATAC-
1 AAATGCA
*
179035 AAATGCT
1 AAATGCA
179042 AAATG-A
1 AAATGCA
179048 AAATGCA
1 AAATGCA
179055 AAGATGCA
1 AA-ATGCA
179063 AAATG
1 AAATG
179068 TAAATGCATG
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
6 23 0.45
7 21 0.41
8 7 0.14
ACGTcount: A:0.56, C:0.10, G:0.14, T:0.20
Consensus pattern (7 bp):
AAATGCA
Found at i:179039 original size:38 final size:39
Alignment explanation
Indices: 178972--179056 Score: 120
Period size: 38 Copynumber: 2.2 Consensus size: 39
178962 CAAATTGTGC
178972 AATACAAAAGCAAACATAAAAGTACAAATGCTAAATGAA
1 AATACAAAAGCAAACATAAAAGTACAAATGCTAAATGAA
* *
179011 AATACAAATGCTAA-ATGAAAA-TACAAATGCTAAATGAA
1 AATACAAAAGCAAACAT-AAAAGTACAAATGCTAAATGAA
*
179049 AATGCAAA
1 AATACAAA
179057 GATGCAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
38 26 0.62
39 16 0.38
ACGTcount: A:0.60, C:0.12, G:0.11, T:0.18
Consensus pattern (39 bp):
AATACAAAAGCAAACATAAAAGTACAAATGCTAAATGAA
Found at i:179215 original size:44 final size:44
Alignment explanation
Indices: 179150--179237 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
179140 CGGTGCATCA
* *
179150 AACAAAACTTTTACATGTAGGGGACAACTTTCAGTCCTAACTTC
1 AACAAAACTTTTACATATAGGGGACAACTTTCACTCCTAACTTC
* *
179194 AACAAAACTTTTACATATAGGGGATAACTTTCTCTCCTAACTTC
1 AACAAAACTTTTACATATAGGGGACAACTTTCACTCCTAACTTC
179238 TCTAAATCCA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (44 bp):
AACAAAACTTTTACATATAGGGGACAACTTTCACTCCTAACTTC
Found at i:179773 original size:36 final size:36
Alignment explanation
Indices: 179703--179774 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
179693 TCTTATCGTA
* *
179703 GAATGCTTTTGGTATCAATCGAACAGGATATTTGTG
1 GAATACTTTTGGTATCAATAGAACAGGATATTTGTG
* * *
179739 GAATACTTTTGGTATCAATATAACATGATCTTTGTG
1 GAATACTTTTGGTATCAATAGAACAGGATATTTGTG
179775 TGCATAGCTC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (36 bp):
GAATACTTTTGGTATCAATAGAACAGGATATTTGTG
Found at i:180140 original size:46 final size:48
Alignment explanation
Indices: 180073--180162 Score: 123
Period size: 46 Copynumber: 1.9 Consensus size: 48
180063 AGGTATAAAT
* * *
180073 CCTAACCTCATGCTTTCTAGTTC-CATGC-TTTGTTTGGAAAAATTAA
1 CCTAACCTCATGATTTCTAGTTCACATGCATTTATTTAGAAAAATTAA
180119 CCTAA-CTGCATGATTTCTAGTTCACATGCATTTATTTAGAAAAA
1 CCTAACCT-CATGATTTCTAGTTCACATGCATTTATTTAGAAAAA
180163 AAATGAAATC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
45 2 0.05
46 19 0.50
47 5 0.13
48 12 0.32
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (48 bp):
CCTAACCTCATGATTTCTAGTTCACATGCATTTATTTAGAAAAATTAA
Found at i:181231 original size:23 final size:22
Alignment explanation
Indices: 181193--181236 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
181183 TTCCAAGAAA
181193 ATATATTAATTTTTATAAATAT
1 ATATATTAATTTTTATAAATAT
*
181215 ATATTTTATATTTTTATAAATA
1 ATATATTA-ATTTTTATAAATA
181237 AGATATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
ATATATTAATTTTTATAAATAT
Found at i:181245 original size:23 final size:22
Alignment explanation
Indices: 181193--181246 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
181183 TTCCAAGAAA
*
181193 ATATATTA-ATTTTTATAAATAT
1 ATAT-TTATATTTTTATAAATAG
181215 ATATTTTATATTTTTATAAATAAG
1 ATA-TTTATATTTTTATAAAT-AG
181239 ATATTTAT
1 ATATTTAT
181247 TTACTTAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 6 0.21
23 18 0.64
24 4 0.14
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
ATATTTATATTTTTATAAATAG
Found at i:181459 original size:138 final size:138
Alignment explanation
Indices: 181238--181601 Score: 513
Period size: 138 Copynumber: 2.6 Consensus size: 138
181228 TTATAAATAA
* * *
181238 GATATTTATTTACTTAGAAATATCAGAAAAAT-ACTTCTAGTTACTTTAAGACATCCCCTTTCTT
1 GATATTTATTTATTTAAAAATATCA-AAAAATGACTTCTAGTTACTTTAAGACATACCCTTTCTT
* * ****
181302 AACATTAAAAAATAAATAAATATTAATAAAACATTTCTCTAAAA-ATAATAAATATATATAATTT
65 AATATTTAAAAATAAATAAATATTAATAAAACATTAAAATAAAATA-AATAAATATATATAATTT
181366 ATAAAAGTAG
129 ATAAAAGTAG
* * *
181376 GATATTTATTTATTTAAAAATATCAAACAAATGACATCTATTTACTTTAAGA-ATGCCCTTTCTT
1 GATATTTATTTATTTAAAAATATCAAA-AAATGACTTCTAGTTACTTTAAGACATACCCTTTCTT
* *
181440 AATATTTAAAAATAAATAAATATTAATAAAATATTAAAATAAAATAAATTAATATATATAATTTA
65 AATATTTAAAAATAAATAAATATTAATAAAACATTAAAATAAAATAAATAAATATATATAATTTA
181505 TAAAAGTAG
130 TAAAAGTAG
* *
181514 GATATTTATTTATTT-AAAATATCAAAATATGACTTCTAGTTGCTTTAAGACA-ACCCTTTTCTT
1 GATATTTATTTATTTAAAAATATCAAAAAATGACTTCTAGTTACTTTAAGACATACCC-TTTCTT
181577 AATATTTAAAAATAAATAAATATTA
65 AATATTTAAAAATAAATAAATATTA
181602 TTATTTAATC
Statistics
Matches: 203, Mismatches: 18, Indels: 11
0.88 0.08 0.05
Matches are distributed among these distances:
136 23 0.11
137 45 0.22
138 117 0.58
139 18 0.09
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.38
Consensus pattern (138 bp):
GATATTTATTTATTTAAAAATATCAAAAAATGACTTCTAGTTACTTTAAGACATACCCTTTCTTA
ATATTTAAAAATAAATAAATATTAATAAAACATTAAAATAAAATAAATAAATATATATAATTTAT
AAAAGTAG
Found at i:190196 original size:26 final size:26
Alignment explanation
Indices: 190163--190262 Score: 94
Period size: 26 Copynumber: 3.6 Consensus size: 26
190153 AATTATTTAA
190163 AATAAATCAATCCATACAACTACAAT
1 AATAAATCAATCCATACAACTACAAT
* *
190189 AATAAATCAATACATACTAA-TAAATTATTT
1 AATAAATCAATCCATAC-AACTACA--A--T
*
190219 AAAATAAATCAATTCATACAACTACAAT
1 --AATAAATCAATCCATACAACTACAAT
*
190247 AATAAAGCAATCCATA
1 AATAAATCAATCCATA
190263 TTTTAAAATA
Statistics
Matches: 60, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
26 33 0.55
27 2 0.03
28 2 0.03
30 2 0.03
31 2 0.03
32 19 0.32
ACGTcount: A:0.55, C:0.17, G:0.01, T:0.27
Consensus pattern (26 bp):
AATAAATCAATCCATACAACTACAAT
Found at i:190219 original size:58 final size:58
Alignment explanation
Indices: 190150--190262 Score: 199
Period size: 58 Copynumber: 1.9 Consensus size: 58
190140 ACAACTATAT
*
190150 ATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATACATACTA
1 ATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAAGCAATACATACTA
* *
190208 ATAAATTATTTAAAATAAATCAATTCATACAACTACAATAATAAAGCAATCCATA
1 ATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAAGCAATACATA
190263 TTTTAAAATA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.55, C:0.15, G:0.01, T:0.29
Consensus pattern (58 bp):
ATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAAGCAATACATACTA
Found at i:190273 original size:48 final size:51
Alignment explanation
Indices: 190216--190347 Score: 173
Period size: 54 Copynumber: 2.6 Consensus size: 51
190206 TAATAAATTA
*
190216 TTTAAAATAAATCAATTCATAC-AACTACA-A-T-AATAAAGCAATCCATAT
1 TTTAAAATAAATCAATTCATACTAA-TAAATATTAAATAAAGCAATCCATAT
*
190264 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATTCATACTAATAAA-TA-TT-AAATAAAGCAATCCATAT
*
190318 TTTAAAATAAATCAATCCATACTAATAAAT
1 TTTAAAATAAATCAATTCATACTAATAAAT
190348 TATTTAAAAT
Statistics
Matches: 74, Mismatches: 3, Indels: 9
0.86 0.03 0.10
Matches are distributed among these distances:
48 25 0.34
49 2 0.03
50 1 0.01
52 1 0.01
53 1 0.01
54 44 0.59
ACGTcount: A:0.52, C:0.14, G:0.01, T:0.33
Consensus pattern (51 bp):
TTTAAAATAAATCAATTCATACTAATAAATATTAAATAAAGCAATCCATAT
Found at i:190303 original size:32 final size:32
Alignment explanation
Indices: 190264--190361 Score: 117
Period size: 32 Copynumber: 3.4 Consensus size: 32
190254 CAATCCATAT
190264 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATTCATACTAATAAATTA
190296 TTTAAAATAAATCAA-TC---C--AT--A-T-
1 TTTAAAATAAATCAATTCATACTAATAAATTA
*
190318 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATTCATACTAATAAATTA
190350 TTTAAAATAAAT
1 TTTAAAATAAAT
190362 TATTTTAAAA
Statistics
Matches: 55, Mismatches: 1, Indels: 20
0.72 0.01 0.26
Matches are distributed among these distances:
22 15 0.27
23 2 0.04
24 1 0.02
26 3 0.05
28 3 0.05
30 1 0.02
31 3 0.05
32 27 0.49
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (32 bp):
TTTAAAATAAATCAATTCATACTAATAAATTA
Found at i:190322 original size:22 final size:22
Alignment explanation
Indices: 190296--190338 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
190286 TAATAAATTA
190296 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
190318 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
190339 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:190329 original size:54 final size:54
Alignment explanation
Indices: 190247--190361 Score: 212
Period size: 54 Copynumber: 2.1 Consensus size: 54
190237 CAACTACAAT
* *
190247 AATAAAGCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
190301 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
190355 AATAAAT
1 AATAAAT
190362 TATTTTAAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.53, C:0.11, G:0.01, T:0.35
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:190347 original size:22 final size:22
Alignment explanation
Indices: 190298--190346 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
190288 ATAAATTATT
**
190298 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
190320 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
190343 TAAA
1 TAAA
190347 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:190370 original size:15 final size:15
Alignment explanation
Indices: 190341--190443 Score: 109
Period size: 15 Copynumber: 6.5 Consensus size: 15
190331 AATCCATACT
190341 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
190355 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
190370 AATAAATCAATCTATATTTTAT
1 AAT--A--AA--T-TATTTTAA
* *
190392 AATAATTTATTTTAT
1 AATAAATTATTTTAA
190407 AATAAATTATTTTAA
1 AATAAATTATTTTAA
190422 AATAAATTATTTTAA
1 AATAAATTATTTTAA
190437 AATAAAT
1 AATAAAT
190444 AACCTTATTA
Statistics
Matches: 77, Mismatches: 4, Indels: 15
0.80 0.04 0.16
Matches are distributed among these distances:
14 9 0.12
15 51 0.66
16 1 0.01
17 1 0.01
18 1 0.01
19 2 0.03
20 1 0.01
21 1 0.01
22 10 0.13
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:190387 original size:69 final size:67
Alignment explanation
Indices: 190287--190443 Score: 219
Period size: 67 Copynumber: 2.3 Consensus size: 67
190277 AATTCATACT
190287 AATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA-
1 AATAAATTATTTTAAAATAAATCAATCCATATTTTAAAAT-AATCAAT-CATA-TAATAAATTAT
190350 TTTAA
63 TTTAA
* * ** **
190355 AATAAATTATTTTAAAATAAATCAATCTATATTTTATAATAATTTATTTTATAATAAATTATTTT
1 AATAAATTATTTTAAAATAAATCAATCCATATTTTAAAATAATCAATCATATAATAAATTATTTT
190420 AA
66 AA
190422 AATAAATTATTTTAAAATAAAT
1 AATAAATTATTTTAAAATAAAT
190444 AACCTTATTA
Statistics
Matches: 81, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
66 10 0.12
67 29 0.36
68 14 0.17
69 28 0.35
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.43
Consensus pattern (67 bp):
AATAAATTATTTTAAAATAAATCAATCCATATTTTAAAATAATCAATCATATAATAAATTATTTT
AA
Found at i:190400 original size:47 final size:49
Alignment explanation
Indices: 190188--190428 Score: 165
Period size: 47 Copynumber: 4.8 Consensus size: 49
190178 ACAACTACAA
** *
190188 TAATAAATCAATACATACTAATAAATTA-TTTAAAATAAATCAATTCATAC
1 TAATAAAT-AATTTATA-TAATAAATTATTTTAAAATAAATCAATCCATAC
* * ** *
190238 -AACTACAATAA--TAAAGCAATCCA-TATTTTAAAATAAATCAATTCATAC
1 TAA-TA-AATAATTTATA-TAATAAATTATTTTAAAATAAATCAATCCATAC
* * *
190286 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATAATTT-ATAT-AATAAAT---TATTTTAAAATAAATCAATCCATAC
* *
190340 TAATAAATTATTTA-A-AATAAATTATTTTAAAATAAATCAATCTATA-
1 TAATAAATAATTTATATAATAAATTATTTTAAAATAAATCAATCCATAC
**
190386 TTTTATAATAATTTATTTTATAATAAATTATTTTAAAATAAAT
1 TAATA-AATAATTTA---TATAATAAATTATTTTAAAATAAAT
190429 TATTTTAAAA
Statistics
Matches: 158, Mismatches: 15, Indels: 34
0.76 0.07 0.16
Matches are distributed among these distances:
46 3 0.02
47 37 0.23
48 30 0.19
49 5 0.03
50 18 0.11
51 4 0.03
52 23 0.15
53 1 0.01
54 37 0.23
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (49 bp):
TAATAAATAATTTATATAATAAATTATTTTAAAATAAATCAATCCATAC
Done.