Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004910.1 Hibiscus syriacus cultivar Beakdansim tig00011045_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: 94017
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:4480 original size:50 final size:49
Alignment explanation
Indices: 4426--4548 Score: 131
Period size: 48 Copynumber: 2.5 Consensus size: 49
4416 AGATATCCAG
* * * *
4426 GTATAACGCAGATCATGGGGCGCGCTATACCCACGTGACGCCAGATCATC
1 GTATAACGCGGATCA-GGGGCGCGCTATACCAACGTGACGCCAAATCAAC
* ** *
4476 GTATATCGCGGGGCAGGGG-GCGCTATACCAACGTGGCGCCAAATCAAC
1 GTATAACGCGGATCAGGGGCGCGCTATACCAACGTGACGCCAAATCAAC
* * *
4524 ATATAGCGCGGTTCAGGGGCGCGCT
1 GTATAACGCGGATCAGGGGCGCGCT
4549 TTCCTGCTAA
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
48 40 0.67
49 9 0.15
50 11 0.18
ACGTcount: A:0.24, C:0.28, G:0.32, T:0.17
Consensus pattern (49 bp):
GTATAACGCGGATCAGGGGCGCGCTATACCAACGTGACGCCAAATCAAC
Found at i:4510 original size:48 final size:49
Alignment explanation
Indices: 4442--4548 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 49
4432 CGCAGATCAT
* * * * *
4442 GGGGCGCGCTATACCCACGTGACGCCAGATCATCGTATATCGCGGGGCA
1 GGGGCGCGCTATACCAACGTGACGCCAAATCAACATATAGCGCGGGGCA
* **
4491 GGGG-GCGCTATACCAACGTGGCGCCAAATCAACATATAGCGCGGTTCA
1 GGGGCGCGCTATACCAACGTGACGCCAAATCAACATATAGCGCGGGGCA
4539 GGGGCGCGCT
1 GGGGCGCGCT
4549 TTCCTGCTAA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
48 40 0.82
49 9 0.18
ACGTcount: A:0.21, C:0.29, G:0.34, T:0.16
Consensus pattern (49 bp):
GGGGCGCGCTATACCAACGTGACGCCAAATCAACATATAGCGCGGGGCA
Found at i:8391 original size:60 final size:60
Alignment explanation
Indices: 8259--8382 Score: 167
Period size: 60 Copynumber: 2.1 Consensus size: 60
8249 TCAAGTAACA
* *
8259 ATTTTGTAACTTTTAACAGTCAAGAGACTCAACAAAGCACCACCCTATTGTCGGAAGACT
1 ATTTTGTAACTTTTAACAGTCAAGAGACTCAACAAAGCAACACCCTATAGTCGGAAGACT
* * * * * **
8319 ATTTTGTAACTTTTAATAGTCGAGGGACTGAACAAAGTAACACCCTATAGTCGGGGGACT
1 ATTTTGTAACTTTTAACAGTCAAGAGACTCAACAAAGCAACACCCTATAGTCGGAAGACT
8379 ATTT
1 ATTT
8383 ATGCACTTTA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (60 bp):
ATTTTGTAACTTTTAACAGTCAAGAGACTCAACAAAGCAACACCCTATAGTCGGAAGACT
Found at i:8773 original size:21 final size:21
Alignment explanation
Indices: 8737--8779 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
8727 GGATTGCGAT
8737 ATTTCAAATATCTAAACTAAAC
1 ATTTCAAATATCTAAA-TAAAC
*
8759 ATTTC-AATTTCTAAATAAAC
1 ATTTCAAATATCTAAATAAAC
8779 A
1 A
8780 AATACTAGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 9 0.45
22 5 0.25
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (21 bp):
ATTTCAAATATCTAAATAAAC
Found at i:18733 original size:3 final size:3
Alignment explanation
Indices: 18613--18725 Score: 190
Period size: 3 Copynumber: 37.7 Consensus size: 3
18603 TCAAAATGTA
* *
18613 AAT AAT AAC AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
18661 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
18709 AGT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
18726 GATAATAAAA
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 105 1.00
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:19301 original size:137 final size:132
Alignment explanation
Indices: 18946--19284 Score: 367
Period size: 131 Copynumber: 2.5 Consensus size: 132
18936 AGAAATTTGG
* ** **
18946 AGATAACACGG-TCCTACGTGATGAGGAAGTTTGACTATCTAAGGGTGACACAGCTCCTACATGA
1 AGATAACACGGTTCCTACGTGATGAGGATGACTGGTTATCTAAGGGTGACACAGCTCCTACATGA
* * * * * * * *
19010 TGAGGAGGTCTGGTCGGTGGATGATACGGTTCATACGTGATGAGGATGGTAGGGCATCTTTAGGG
66 TGAGGAGGTCTGGTCGATGGATGACACAGTTCATACATGATGAGGACGATAGGCCATATTTAGGG
19075 AT
131 AT
* * * * * *
19077 -GATAACACAGTTCCTACGTAATGAGGATGACTGGTTATCTAGGGGTGACACGGCTCATACTTGA
1 AGATAACACGGTTCCTACGTGATGAGGATGACTGGTTATCTAAGGGTGACACAGCTCCTACATGA
* * * * * *
19141 TGAGGAGGTGTAGTTGATGGATGACACAGTTCCTATATGATGAGGACGATTGGCCATATTTAGGG
66 TGAGGAGGTCTGGTCGATGGATGACACAGTTCATACATGATGAGGACGATAGGCCATATTTAGGG
19206 ATAATCT
131 ---A--T
* * *
19213 AGATAACTCGGTTCCTACGTGATGAGGATGACTGGTTATCTAAGGTTGACACAGCTCCTACGTGA
1 AGATAACACGGTTCCTACGTGATGAGGATGACTGGTTATCTAAGGGTGACACAGCTCCTACATGA
19278 TGAGGAG
66 TGAGGAG
19285 AACTGGTCAA
Statistics
Matches: 168, Mismatches: 33, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
130 9 0.05
131 94 0.56
134 1 0.01
136 1 0.01
137 63 0.38
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (132 bp):
AGATAACACGGTTCCTACGTGATGAGGATGACTGGTTATCTAAGGGTGACACAGCTCCTACATGA
TGAGGAGGTCTGGTCGATGGATGACACAGTTCATACATGATGAGGACGATAGGCCATATTTAGGG
AT
Found at i:20270 original size:11 final size:11
Alignment explanation
Indices: 20254--20329 Score: 61
Period size: 10 Copynumber: 7.0 Consensus size: 11
20244 ATCTCATTTG
20254 TTTCTTTTTCT
1 TTTCTTTTTCT
20265 TTTCTTTTT-T
1 TTTCTTTTTCT
*
20275 CTTCTTTTT-T
1 TTTCTTTTTCT
*
20285 TTTATTTTTCCT
1 TTTCTTTTT-CT
*
20297 TTTATTTTCTCAT
1 TTTCTTTT-TC-T
*
20310 TTT-TTTCTCT
1 TTTCTTTTTCT
20320 TTT-TTTTTCT
1 TTTCTTTTTCT
20330 CATTTTTCTA
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
10 27 0.48
11 11 0.20
12 13 0.23
13 5 0.09
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTCTTTTTCT
Found at i:20281 original size:21 final size:21
Alignment explanation
Indices: 20255--20372 Score: 79
Period size: 21 Copynumber: 5.8 Consensus size: 21
20245 TCTCATTTGT
20255 TTCTTTTTCTTTTCTTTTTTC
1 TTCTTTTTCTTTTCTTTTTTC
* *
20276 TTCTTTTT-TTTTATTTTTCC
1 TTCTTTTTCTTTTCTTTTTTC
* **
20296 TTTTATTTTCTCAT-TTTTTTC
1 TTCT-TTTTCTTTTCTTTTTTC
20317 -TCTTTTT-TTTTCTCATTTTTC
1 TTCTTTTTCTTTTCT--TTTTTC
** *
20338 TAATTTTTC-TTT-GTTTTTC
1 TTCTTTTTCTTTTCTTTTTTC
20357 -TCTTTTTCTTCTTCTT
1 TTCTTTTTCTT-TTCTT
20373 CAAGTATAAT
Statistics
Matches: 72, Mismatches: 15, Indels: 20
0.67 0.14 0.19
Matches are distributed among these distances:
18 8 0.11
19 12 0.17
20 17 0.24
21 25 0.35
22 10 0.14
ACGTcount: A:0.05, C:0.17, G:0.01, T:0.77
Consensus pattern (21 bp):
TTCTTTTTCTTTTCTTTTTTC
Found at i:20321 original size:23 final size:22
Alignment explanation
Indices: 20289--20336 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 22
20279 TTTTTTTTTA
20289 TTTTTCCTTTTATTTTCTCATT
1 TTTTTCCTTTTATTTTCTCATT
*
20311 TTTTTCTCTTTTTTTTTCTCATT
1 TTTTTC-CTTTTATTTTCTCATT
20334 TTT
1 TTT
20337 CTAATTTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTTCCTTTTATTTTCTCATT
Found at i:20325 original size:51 final size:50
Alignment explanation
Indices: 20256--20368 Score: 133
Period size: 50 Copynumber: 2.2 Consensus size: 50
20246 CTCATTTGTT
* * * *
20256 TCTTTTTCTTTTCTTTTTTCTTCT-TTTTTTTTATTTTTCCTTT-TATTTTC
1 TCTTTTTCTTCTCTTTTTTTTTCTATTTTTCTAATTTTT-CTTTGT-TTTTC
20306 TCATTTTT-TTCTCTTTTTTTTTCTCATTTTTCTAATTTTTCTTTGTTTTTC
1 TC-TTTTTCTTCTCTTTTTTTTTCT-ATTTTTCTAATTTTTCTTTGTTTTTC
20357 TCTTTTTCTTCT
1 TCTTTTTCTTCT
20369 TCTTCAAGTA
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
50 21 0.39
51 20 0.37
52 13 0.24
ACGTcount: A:0.05, C:0.17, G:0.01, T:0.77
Consensus pattern (50 bp):
TCTTTTTCTTCTCTTTTTTTTTCTATTTTTCTAATTTTTCTTTGTTTTTC
Found at i:20328 original size:12 final size:12
Alignment explanation
Indices: 20256--20363 Score: 69
Period size: 12 Copynumber: 8.6 Consensus size: 12
20246 CTCATTTGTT
20256 TCTTTTTCTTTTC
1 TCTTTTT-TTTTC
*
20269 T-TTTTTCTTCTTT
1 TCTTTTT-TT-TTC
*
20282 TTTTTTATTTTTC
1 TCTTTT-TTTTTC
*
20295 -CTTTTATTTTC
1 TCTTTTTTTTTC
*
20306 TC-ATTTTTTTC
1 TCTTTTTTTTTC
20317 TCTTTTTTTTTC
1 TCTTTTTTTTTC
*
20329 TCATTTTTCTAATTTT
1 TC-TTTTT-T--TTTC
*
20345 TCTTTGTTTTTC
1 TCTTTTTTTTTC
20357 TCTTTTT
1 TCTTTTT
20364 CTTCTTCTTC
Statistics
Matches: 75, Mismatches: 11, Indels: 19
0.71 0.10 0.18
Matches are distributed among these distances:
11 14 0.19
12 32 0.43
13 11 0.15
14 8 0.11
15 5 0.07
16 5 0.07
ACGTcount: A:0.06, C:0.16, G:0.01, T:0.78
Consensus pattern (12 bp):
TCTTTTTTTTTC
Found at i:20335 original size:11 final size:11
Alignment explanation
Indices: 20301--20336 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
20291 TTTCCTTTTA
20301 TTTTCTCATTT
1 TTTTCTCATTT
*
20312 TTTTCTCTTTTT
1 TTTTCTC-ATTT
20324 TTTTCTCATTT
1 TTTTCTCATTT
20335 TT
1 TT
20337 CTAATTTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTCTCATTT
Found at i:20337 original size:32 final size:30
Alignment explanation
Indices: 20245--20365 Score: 87
Period size: 30 Copynumber: 4.1 Consensus size: 30
20235 CATCTTGAAA
* *
20245 TCTCATTTGTTTCTTTTTCTTTTCT-TTTT
1 TCTCATTTTTTTCTTTTTTTTTTCTATTTT
20274 TCTTC-TTTTTTT-TTATTTTTCCTTT-TA-TTT
1 TC-TCATTTTTTTCTT-TTTTT--TTTCTATTTT
20304 TCTCATTTTTTTCTCTTTTTTTTTCTCATTTT
1 TCTCATTTTTTTCT-TTTTTTTTTCT-ATTTT
* * *
20336 TCT-A-ATTTTTC-TTTGTTTTTCTCTTTT
1 TCTCATTTTTTTCTTTTTTTTTTCTATTTT
20363 TCT
1 TCT
20366 TCTTCTTCAA
Statistics
Matches: 76, Mismatches: 5, Indels: 24
0.72 0.05 0.23
Matches are distributed among these distances:
27 7 0.09
28 12 0.16
29 17 0.22
30 22 0.29
31 11 0.14
32 7 0.09
ACGTcount: A:0.06, C:0.17, G:0.02, T:0.76
Consensus pattern (30 bp):
TCTCATTTTTTTCTTTTTTTTTTCTATTTT
Found at i:20345 original size:23 final size:23
Alignment explanation
Indices: 20295--20345 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
20285 TTTATTTTTC
**
20295 CTTTTATTTTCTCATTTTTTTCT
1 CTTTTATTTTCTCATTTTTTAAT
*
20318 CTTTTTTTTTCTCATTTTTCTAAT
1 CTTTTATTTTCTCATTTTT-TAAT
20342 -TTTT
1 CTTTT
20346 CTTTGTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 22 0.92
24 2 0.08
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.75
Consensus pattern (23 bp):
CTTTTATTTTCTCATTTTTTAAT
Found at i:27042 original size:30 final size:30
Alignment explanation
Indices: 27008--27070 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
26998 TTAGATTTGA
* *
27008 ATGCATATTATTGGTAATGCGTTATAAATG
1 ATGCATATTATCGGTAATACGTTATAAATG
27038 ATGCATATTATCGGTAATACGTTATAAATG
1 ATGCATATTATCGGTAATACGTTATAAATG
27068 ATG
1 ATG
27071 AATTTGTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (30 bp):
ATGCATATTATCGGTAATACGTTATAAATG
Found at i:31270 original size:6 final size:5
Alignment explanation
Indices: 31234--31269 Score: 54
Period size: 5 Copynumber: 6.8 Consensus size: 5
31224 ATATAATAAT
31234 AAATG AAATG AAATG AAATG AAATAG AAATAG AAAT
1 AAATG AAATG AAATG AAATG AAAT-G AAAT-G AAAT
31270 ATTATGATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 19 0.63
6 11 0.37
ACGTcount: A:0.64, C:0.00, G:0.17, T:0.19
Consensus pattern (5 bp):
AAATG
Found at i:39149 original size:16 final size:16
Alignment explanation
Indices: 39128--39165 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
39118 AAACAAATTT
39128 AAACATAACAATCCAA
1 AAACATAACAATCCAA
*
39144 AAACATATCAATCCAA
1 AAACATAACAATCCAA
*
39160 CAACAT
1 AAACAT
39166 CAAAGTGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.58, C:0.26, G:0.00, T:0.16
Consensus pattern (16 bp):
AAACATAACAATCCAA
Found at i:40747 original size:23 final size:23
Alignment explanation
Indices: 40721--40765 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
40711 CACCACAGCT
*
40721 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* * *
40744 CGTAGAATTGCATCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
40766 ATATAATAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:42852 original size:23 final size:22
Alignment explanation
Indices: 42797--42875 Score: 99
Period size: 23 Copynumber: 3.6 Consensus size: 22
42787 AACTCGTGGA
*
42797 GGGTATCGGTACCC--TCAAGG
1 GGGTATCGATACCCATTCAAGG
*
42817 GGGTATCGGTACCCATTCAAGG
1 GGGTATCGATACCCATTCAAGG
*
42839 ATGGTATCGATACCCATTCAAAGG
1 -GGGTATCGATACCCATTC-AAGG
42863 GGGTATCGATACC
1 GGGTATCGATACC
42876 TAGCACGTAG
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
20 14 0.27
22 6 0.12
23 28 0.54
24 4 0.08
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (22 bp):
GGGTATCGATACCCATTCAAGG
Found at i:48722 original size:21 final size:21
Alignment explanation
Indices: 48696--48738 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
48686 AAAATGTCAT
*
48696 GGGGGTATCGGTACCATCTGG
1 GGGGGTACCGGTACCATCTGG
48717 GGGGGTACCGGTACCATCTGG
1 GGGGGTACCGGTACCATCTGG
48738 G
1 G
48739 CAATCTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.21, G:0.44, T:0.21
Consensus pattern (21 bp):
GGGGGTACCGGTACCATCTGG
Found at i:50406 original size:2 final size:2
Alignment explanation
Indices: 50399--50426 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
50389 GGCTTCCTAC
50399 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
50427 GTTCTAGACA
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:53745 original size:2 final size:2
Alignment explanation
Indices: 53740--53764 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
53730 AATTTAATTA
53740 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 A
53765 GATTTAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:54337 original size:32 final size:34
Alignment explanation
Indices: 54274--54348 Score: 86
Period size: 32 Copynumber: 2.3 Consensus size: 34
54264 TCGGGCCGAG
54274 TATATATA-TTTAAATTAAATATATAAATATT-A
1 TATATATATTTTAAATTAAATATATAAATATTAA
* *
54306 TATATATATTTTAATTTAAAT-TA-AATTTATTAA
1 TATATATATTTTAAATTAAATATATAA-ATATTAA
54339 TATTATATAT
1 TA-TATATAT
54349 ATATATATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
31 2 0.05
32 14 0.38
33 14 0.38
34 7 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (34 bp):
TATATATATTTTAAATTAAATATATAAATATTAA
Found at i:55760 original size:2 final size:2
Alignment explanation
Indices: 55747--55842 Score: 117
Period size: 2 Copynumber: 48.0 Consensus size: 2
55737 ACATTATAAG
* *
55747 TA TA TG TA TA TA TA -A GTA TA TA CA TA -A GTA TA TA TA -A GTA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA -TA
*
55787 TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
55829 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
55843 ACATAAGTGA
Statistics
Matches: 82, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
1 3 0.04
2 76 0.93
3 3 0.04
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.46
Consensus pattern (2 bp):
TA
Found at i:56181 original size:32 final size:32
Alignment explanation
Indices: 56138--56201 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
56128 CAAATCCCTA
*
56138 TTTCCTTTTCTAAA-TTCTTAAA-AATCAATTTT
1 TTTCCTCTTCTAAATTTC-TAAACAATC-ATTTT
56170 TTTCCTCTTCTAAATTTCTAAACAATCATTTT
1 TTTCCTCTTCTAAATTTCTAAACAATCATTTT
56202 CCCTCAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 22 0.76
33 7 0.24
ACGTcount: A:0.30, C:0.19, G:0.00, T:0.52
Consensus pattern (32 bp):
TTTCCTCTTCTAAATTTCTAAACAATCATTTT
Found at i:56258 original size:2 final size:2
Alignment explanation
Indices: 56251--56337 Score: 174
Period size: 2 Copynumber: 43.5 Consensus size: 2
56241 ACTCATGTGA
56251 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
56293 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
56335 AT A
1 AT A
56338 ATAAGTTGAT
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 85 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:57415 original size:44 final size:43
Alignment explanation
Indices: 57321--57503 Score: 203
Period size: 43 Copynumber: 4.3 Consensus size: 43
57311 TCATTTATTA
* * * * *
57321 TTTTATAGTTGATGTCCCTAATTTTTTTAATCTCACTTTTTAC
1 TTTTATAATTGAGGCCCCTAATTTTTTTAATCTCAATCTTTAC
* * *
57364 ATTTATAATTAAGGCCCCTAATTTTTTCAATCTCAATCTTTACC
1 TTTTATAATTGAGGCCCCTAATTTTTTTAATCTCAATCTTTA-C
57408 TTTTATAATTGAGGCCCCTAATTTTTTTAATCTC-A-CTTCTCAC
1 TTTTATAATTGAGGCCCCTAATTTTTTTAATCTCAATCTT-T-AC
* * * *
57451 -CTTATAATTGAGG-CCCTAATTTTTTTAATATCACTTTTTAC
1 TTTTATAATTGAGGCCCCTAATTTTTTTAATCTCAATCTTTAC
57492 TTTTATAATTGA
1 TTTTATAATTGA
57504 ATAATTGAGG
Statistics
Matches: 118, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
41 20 0.17
42 26 0.22
43 39 0.33
44 33 0.28
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.49
Consensus pattern (43 bp):
TTTTATAATTGAGGCCCCTAATTTTTTTAATCTCAATCTTTAC
Found at i:57427 original size:87 final size:84
Alignment explanation
Indices: 57296--57503 Score: 242
Period size: 87 Copynumber: 2.5 Consensus size: 84
57286 TAATTGAGAT
* * * * *
57296 CCTAATTTTGT-AATATC-ATTTATTA-TTTTATAGTTGATGTCCCTAATTTTTTTAATCTCACT
1 CCTAATTTTTTCAATATCAATCT-TTACTTTTATAATTGAGGCCCCTAATTTTTTTAATCTCACT
* * *
57358 TTTTACATTTATAATTAAGGCC
65 TCTCAC-CTTATAATTAAGG-C
*
57380 CCTAATTTTTTCAATCTCAATCTTTACCTTTTATAATTGAGGCCCCTAATTTTTTTAATCTCACT
1 CCTAATTTTTTCAATATCAATCTTTA-CTTTTATAATTGAGGCCCCTAATTTTTTTAATCTCACT
*
57445 TCTCACCTTATAATTGAGGC
65 TCTCACCTTATAATTAAGGC
* * *
57465 CCTAATTTTTTTAATATCACTTTTTACTTTTATAATTGA
1 CCTAATTTTTTCAATATCAATCTTTACTTTTATAATTGA
57504 ATAATTGAGG
Statistics
Matches: 106, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
84 23 0.22
85 31 0.29
86 14 0.13
87 38 0.36
ACGTcount: A:0.26, C:0.18, G:0.06, T:0.50
Consensus pattern (84 bp):
CCTAATTTTTTCAATATCAATCTTTACTTTTATAATTGAGGCCCCTAATTTTTTTAATCTCACTT
CTCACCTTATAATTAAGGC
Found at i:57475 original size:42 final size:40
Alignment explanation
Indices: 57336--57487 Score: 180
Period size: 44 Copynumber: 3.6 Consensus size: 40
57326 TAGTTGATGT
* *
57336 CCCTAATTTTTTTAATCTCACTTTTTACATTTATAATTAAGGC
1 CCCTAATTTTTTTAATCTCAC--TTTAC-CTTATAATTGAGGC
*
57379 CCCTAATTTTTTCAATCTCAATCTTTACCTTTTATAATTGAGGC
1 CCCTAATTTTTTTAATCTC-A-CTTTACC--TTATAATTGAGGC
57423 CCCTAATTTTTTTAATCTCACTTCTCACCTTATAATTGAGG-
1 CCCTAATTTTTTTAATCTCACTT-T-ACCTTATAATTGAGGC
*
57464 CCCTAATTTTTTTAATATCACTTT
1 CCCTAATTTTTTTAATCTCACTTT
57488 TTACTTTTAT
Statistics
Matches: 98, Mismatches: 5, Indels: 15
0.83 0.04 0.13
Matches are distributed among these distances:
40 1 0.01
41 22 0.22
42 15 0.15
43 25 0.26
44 34 0.35
45 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.05, T:0.47
Consensus pattern (40 bp):
CCCTAATTTTTTTAATCTCACTTTACCTTATAATTGAGGC
Found at i:57498 original size:42 final size:42
Alignment explanation
Indices: 57281--57503 Score: 229
Period size: 42 Copynumber: 5.3 Consensus size: 42
57271 TTTAATTTTT
* ** * *
57281 TTTTGTAATTGAGATCCTAA-TTTTGTAATATCA-TTTATTA-
1 TTTTATAATTGAGGCCCTAATTTTTTTAATCTCACTTT-TTAC
* *
57321 TTTTATAGTTGATGTCCCTAATTTTTTTAATCTCACTTTTTAC
1 TTTTATAATTGA-GGCCCTAATTTTTTTAATCTCACTTTTTAC
* * * * *
57364 ATTTATAATTAAGGCCCCTAATTTTTTCAATCTCAATCTTTACC
1 TTTTATAATTGAGG-CCCTAATTTTTTTAATCTCACTTTTTA-C
* *
57408 TTTTATAATTGAGGCCCCTAATTTTTTTAATCTCACTTCTCAC
1 TTTTATAATTGAGG-CCCTAATTTTTTTAATCTCACTTTTTAC
* *
57451 -CTTATAATTGAGGCCCTAATTTTTTTAATATCACTTTTTAC
1 TTTTATAATTGAGGCCCTAATTTTTTTAATCTCACTTTTTAC
57492 TTTTATAATTGA
1 TTTTATAATTGA
57504 ATAATTGAGG
Statistics
Matches: 151, Mismatches: 25, Indels: 12
0.80 0.13 0.06
Matches are distributed among these distances:
40 10 0.07
41 31 0.21
42 37 0.25
43 37 0.25
44 36 0.24
ACGTcount: A:0.26, C:0.17, G:0.07, T:0.50
Consensus pattern (42 bp):
TTTTATAATTGAGGCCCTAATTTTTTTAATCTCACTTTTTAC
Found at i:57514 original size:50 final size:50
Alignment explanation
Indices: 57454--57550 Score: 140
Period size: 50 Copynumber: 1.9 Consensus size: 50
57444 TTCTCACCTT
* ** *
57454 ATAATTGAGGCCCTAATTTTTTTAATATCACTTTTTACTTTTATAATTGA
1 ATAATTGAGGCCCTAATTTCTCCAATACCACTTTTTACTTTTATAATTGA
* *
57504 ATAATTGAGGCCTTAATTTCTCCAATCCCACTTTTTACTTTTATAAT
1 ATAATTGAGGCCCTAATTTCTCCAATACCACTTTTTACTTTTATAAT
57551 CTAGGCCCTA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.29, C:0.16, G:0.07, T:0.47
Consensus pattern (50 bp):
ATAATTGAGGCCCTAATTTCTCCAATACCACTTTTTACTTTTATAATTGA
Found at i:63009 original size:20 final size:19
Alignment explanation
Indices: 62970--63021 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
62960 TTTCTTTGAT
62970 ATTAAAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* *
62989 ATTAAAACAATTAATATATA
1 ATTAAAA-AATAAATAAATA
*
63009 ATTTATAAAATAA
1 A-TTAAAAAATAA
63022 GATATTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 7 0.26
20 15 0.56
21 5 0.19
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:64108 original size:7 final size:7
Alignment explanation
Indices: 64098--64129 Score: 50
Period size: 6 Copynumber: 4.9 Consensus size: 7
64088 TTCTTCTTTC
64098 TTTGTTT
1 TTTGTTT
64105 TTTG-TT
1 TTTGTTT
64111 TTTGTTT
1 TTTGTTT
64118 TTT-TTT
1 TTTGTTT
64124 TTTGTT
1 TTTGTT
64130 GCTCTCTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
6 12 0.52
7 11 0.48
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (7 bp):
TTTGTTT
Found at i:64116 original size:13 final size:13
Alignment explanation
Indices: 64098--64129 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
64088 TTCTTCTTTC
64098 TTTGTTTTTTGTT
1 TTTGTTTTTTGTT
*
64111 TTTGTTTTTTTTT
1 TTTGTTTTTTGTT
64124 TTTGTT
1 TTTGTT
64130 GCTCTCTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (13 bp):
TTTGTTTTTTGTT
Found at i:64577 original size:3 final size:3
Alignment explanation
Indices: 64569--64658 Score: 121
Period size: 3 Copynumber: 29.7 Consensus size: 3
64559 GGCCTGTTTG
**
64569 TAA TAA TAA TAA TTT TAA TAA TAA TAAA TAA -AA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
64614 TAA TATA TAA -AA TAA TAA TAA TAA TAA TAA TAAA TAA TAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TA
64659 GAAAATGGAG
Statistics
Matches: 78, Mismatches: 4, Indels: 10
0.85 0.04 0.11
Matches are distributed among these distances:
2 4 0.05
3 65 0.83
4 9 0.12
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:65035 original size:124 final size:122
Alignment explanation
Indices: 64858--65218 Score: 442
Period size: 124 Copynumber: 2.9 Consensus size: 122
64848 GGGATGATAA
* * * *
64858 TATCTCCTTCTGTGAT-GTAAT-TTGGAAAAGGATTGAACAAGTTCTTCTTATTATAAAATTCTT
1 TATCTCCTTATGTGATAG-AATCATGCAAAAGG-TTGAACAAGCTCTTCTTATTAT-AAATTCTT
* * *
64921 CTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCCCTGGAAAAGTTGATGTTGACC
63 CTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGACC
* * * * * *
64982 TATTTCCTTCTGTGATAGAGTCATTCAAAAGGTTGAATAAGCTCTTCTTATTATGAACTTCTTCT
1 TATCTCCTTATGTGATAGAATCATGCAAAAGGTTGAACAAGCTCTTCTTATTAT-AAATTCTTC-
* *
65047 TTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTTTGGAAAAGTTGATGCTGATC
64 TTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGACC
* * * * * *
65106 TATCTCCTTATGTGATAGAATTATGCAAAAGGTTGAACAAACTCTTCTCATTGTGAA--CTTCCT
1 TATCTCCTTATGTGATAGAATCATGCAAAAGGTTGAACAAGCTCTTCTTATTATAAATTCTTCTT
*
65169 CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGAT
66 CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGAT
65219 CCATCAAGTG
Statistics
Matches: 206, Mismatches: 28, Indels: 10
0.84 0.11 0.04
Matches are distributed among these distances:
120 49 0.24
121 4 0.02
123 1 0.00
124 142 0.69
125 10 0.05
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (122 bp):
TATCTCCTTATGTGATAGAATCATGCAAAAGGTTGAACAAGCTCTTCTTATTATAAATTCTTCTT
CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGACC
Found at i:65356 original size:112 final size:111
Alignment explanation
Indices: 65131--65454 Score: 352
Period size: 112 Copynumber: 2.9 Consensus size: 111
65121 TAGAATTATG
* * * *
65131 CAAAAGGTTGAACAAACTCTTCTCATTGTGAACTTCCTCTTCTTCAGAT--GAGTTCTTCTCATT
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTCCAGATGAGAGTTCTTCTCATT
* * * * * * ** *
65194 ATGAACT-TTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAG
66 ATGAACTCTAC-CTGGCAATGTTGATCCATCAAATGATGAATTCAAA
* *
65240 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTATTCTTCTCCAGATGACGAGTTCTTCTCAT
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTCCAGATGA-GAGTTCTTCTCAT
65305 TATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAA
65 TATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAA
* **
65352 CAAAAAGTTGAACAGGTTCTTCTCATTATGAACTTCTTCTTCTCTTTCTTCAGAT--GAGTTCTT
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTC-T-TC--TC--CAGATGAGAGTTCTT
* * *
65415 CTCATTATGAACTCTAACTGGCACTGTTGATCCATTAAAT
60 CTCATTATGAACTCTACCTGGCAATGTTGATCCATCAAAT
65455 AATGGATTTA
Statistics
Matches: 182, Mismatches: 23, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
109 43 0.24
112 82 0.45
113 3 0.02
114 2 0.01
115 45 0.25
116 2 0.01
118 5 0.03
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (111 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTCCAGATGAGAGTTCTTCTCATT
ATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAA
Found at i:66381 original size:115 final size:114
Alignment explanation
Indices: 66170--66395 Score: 353
Period size: 115 Copynumber: 2.0 Consensus size: 114
66160 ACGATCATAC
* * *
66170 AATTCATCTTTCAATTCTAATAATTGGTTCTGGGGTTCCTACCGAACCAGATCAGATAACTCAAA
1 AATTCATCTTTCAAATCTAATAATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAA
* *
66235 GAACACTTCCAGAAGATGCTATCGGGTCTCCTTATTTCTACTATGAGCA
66 GAACACTTCCAGAAGATGCTATCGGGCCTCCTTATTTCTACCATGAGCA
* * * *
66284 AATTTATCTTTCAAATCTAATGATTGGTTTTGGGGTTTATACCAAAACCAGATCAGATAACTCAA
1 AATTCATCTTTCAAATCTAATAATTGGTTCTGGGGTTCATACC-AAACCAGATCAGATAACTCAA
*
66349 AGAACACTTCCAGAAGATGCTATTGGGCCTCCTTATTTCTACCATGA
65 AGAACACTTCCAGAAGATGCTATCGGGCCTCCTTATTTCTACCATGA
66396 TAACGTGGCA
Statistics
Matches: 101, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
114 37 0.37
115 64 0.63
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.32
Consensus pattern (114 bp):
AATTCATCTTTCAAATCTAATAATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATGCTATCGGGCCTCCTTATTTCTACCATGAGCA
Found at i:67110 original size:12 final size:12
Alignment explanation
Indices: 67093--67141 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
67083 ACCCCCTTTT
67093 TTCTTTTTTCTC
1 TTCTTTTTTCTC
*
67105 TTCTTTTTTTTC
1 TTCTTTTTTCTC
* *
67117 TTCTTCTTTTTTT
1 TTCTT-TTTTCTC
67130 TTCATTTTTTCT
1 TTC-TTTTTTCT
67142 TCAAGCATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
12 16 0.50
13 14 0.44
14 2 0.06
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (12 bp):
TTCTTTTTTCTC
Found at i:67120 original size:24 final size:24
Alignment explanation
Indices: 67089--67143 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
67079 CTTGACCCCC
*
67089 TTTT-TTCTT-TTTTCTCTTCTTTT
1 TTTTCTTCTTCTTTTCTCTTC-ATT
* *
67112 TTTTCTTCTTCTTTTTTTTTCATT
1 TTTTCTTCTTCTTTTCTCTTCATT
67136 TTTTCTTC
1 TTTTCTTC
67144 AAGCATAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 4 0.15
24 15 0.56
25 8 0.30
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (24 bp):
TTTTCTTCTTCTTTTCTCTTCATT
Found at i:67121 original size:15 final size:14
Alignment explanation
Indices: 67096--67130 Score: 61
Period size: 15 Copynumber: 2.4 Consensus size: 14
67086 CCCTTTTTTC
67096 TTTTTTCTCTTCTT
1 TTTTTTCTCTTCTT
67110 TTTTTTCTTCTTCTT
1 TTTTTTC-TCTTCTT
67125 TTTTTT
1 TTTTTT
67131 TCATTTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTTCTCTTCTT
Found at i:77804 original size:17 final size:17
Alignment explanation
Indices: 77784--77821 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
77774 AATGGAATAT
77784 AAAT-ATAAATACTATAA
1 AAATAATAAATA-TATAA
*
77801 AAATAATAAGTATATAA
1 AAATAATAAATATATAA
77818 AAAT
1 AAAT
77822 TTTGAAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (17 bp):
AAATAATAAATATATAA
Found at i:78460 original size:20 final size:19
Alignment explanation
Indices: 78421--78472 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
78411 TTTCTTTGAT
78421 ATTAAAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* *
78440 ATTAAAACAATTAATATATA
1 ATTAAAA-AATAAATAAATA
*
78460 ATTTATAAAATAA
1 A-TTAAAAAATAA
78473 GATATTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 7 0.26
20 15 0.56
21 5 0.19
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:79752 original size:5 final size:6
Alignment explanation
Indices: 79726--79756 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
79716 TTCGACGATG
79726 TTTGTT TTCTGTT TTTGTT TTTGTT TTTGTT
1 TTTGTT TT-TGTT TTTGTT TTTGTT TTTGTT
79757 GCTCTCTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.00, C:0.03, G:0.16, T:0.81
Consensus pattern (6 bp):
TTTGTT
Found at i:80204 original size:3 final size:3
Alignment explanation
Indices: 80196--80279 Score: 109
Period size: 3 Copynumber: 27.7 Consensus size: 3
80186 GGCCTGTTTG
**
80196 TAA TAA TAA TAA TTT TAA TAA TAA TAAA TAA -AA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
80241 TAA TATA TAA -AA TAA TAA TAA TAA TATA TAA TAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TA
80280 GAAAATGGAG
Statistics
Matches: 72, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
2 4 0.06
3 59 0.82
4 9 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:85928 original size:3 final size:3
Alignment explanation
Indices: 85922--85955 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
85912 GAAAGTGTAG
85922 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
85956 AAACATCATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (3 bp):
TGA
Done.