Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000060.1 Hibiscus syriacus cultivar Beakdansim tig00000092_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: 130568
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:2256 original size:20 final size:20
Alignment explanation
Indices: 2199--2249 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
2189 ATCCTATTCT
2199 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTTTATTCCCA
2219 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTTTATTCCCA
2239 CTGGTAATCTT
1 CTGGTAATCTT
2250 ACATTCCGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.45
Consensus pattern (20 bp):
CTGGTAATCTTTTATTCCCA
Found at i:3794 original size:21 final size:19
Alignment explanation
Indices: 3769--3817 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
3759 GAATGAATAT
*
3769 TATTTTAAAATTTTTGTAAA
1 TATTTTAAAATTTTTAT-AA
*
3789 TGATTTTATATATTTTTATAA
1 T-ATTTTA-AAATTTTTATAA
3810 TATTTTAA
1 TATTTTAA
3818 TTTTAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 1 0.04
20 7 0.28
21 9 0.36
22 8 0.32
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (19 bp):
TATTTTAAAATTTTTATAA
Found at i:6435 original size:26 final size:27
Alignment explanation
Indices: 6386--6436 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
6376 ACCCAATGTA
* *
6386 CCTCTAAGCCCTGAAATGACTAAATAC
1 CCTCTAAGCCCTGAAATAAATAAATAC
*
6413 CCTC-AAGCTCTGAAATAAATAAAT
1 CCTCTAAGCCCTGAAATAAATAAAT
6437 CAACCTCGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 17 0.81
27 4 0.19
ACGTcount: A:0.41, C:0.25, G:0.10, T:0.24
Consensus pattern (27 bp):
CCTCTAAGCCCTGAAATAAATAAATAC
Found at i:10985 original size:23 final size:23
Alignment explanation
Indices: 10935--10996 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
10925 TTCCCCTAAG
* *
10935 GGGGGGAATCAGTTCCCATTCAA
1 GGGGGTAATCGGTTCCCATTCAA
* * *
10958 AGGGGTAATCGGTTCCCCTTCAT
1 GGGGGTAATCGGTTCCCATTCAA
*
10981 GGGGGT-ATCGATTCCC
1 GGGGGTAATCGGTTCCC
10997 TCTGCCCTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 9 0.28
23 23 0.72
ACGTcount: A:0.19, C:0.24, G:0.31, T:0.26
Consensus pattern (23 bp):
GGGGGTAATCGGTTCCCATTCAA
Found at i:17110 original size:27 final size:29
Alignment explanation
Indices: 17077--17130 Score: 76
Period size: 27 Copynumber: 1.9 Consensus size: 29
17067 AAATATCAAA
*
17077 ATGTTTTCAAC-ACT-ATGGTTTTAAAAT
1 ATGTTTTAAACTACTAATGGTTTTAAAAT
*
17104 ATGTTTTAAACTACTAATGTTTTTAAA
1 ATGTTTTAAACTACTAATGGTTTTAAA
17131 GGATTTGTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 10 0.43
28 3 0.13
29 10 0.43
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.46
Consensus pattern (29 bp):
ATGTTTTAAACTACTAATGGTTTTAAAAT
Found at i:17974 original size:14 final size:15
Alignment explanation
Indices: 17944--17981 Score: 60
Period size: 14 Copynumber: 2.5 Consensus size: 15
17934 TATTATTTTT
17944 TATTATCAACTGAAAA
1 TATTAT-AACTGAAAA
17960 TATTATAAC-GAAAA
1 TATTATAACTGAAAA
17974 TATTATAA
1 TATTATAA
17982 AAAGTTTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 13 0.59
15 3 0.14
16 6 0.27
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (15 bp):
TATTATAACTGAAAA
Found at i:28829 original size:358 final size:358
Alignment explanation
Indices: 28165--28879 Score: 1358
Period size: 358 Copynumber: 2.0 Consensus size: 358
28155 AATAGCTAGA
*
28165 GTAGGAGGTAACTTGACACGCCTAAGAGGAACATTTTAGAGGGAGCAAAAGTATCTTGACACTCT
1 GTAGGAGGTAACTCGACACGCCTAAGAGGAACATTTTAGAGGGAGCAAAAGTATCTTGACACTCT
*
28230 TAGGTAGAGACATCTCAAAATTATGTGAGCATCATTAGAGAGACTCATAATTGTAGAATGAAGGC
66 TAGGTAGAGACATCTCAAAATTATGTGAGCATCAATAGAGAGACTCATAATTGTAGAATGAAGGC
*
28295 ATCCTGACTCTAATTTGGCCAAACAATTAACTGGTGATAAGGAAATTCCTTTAAGTAAAGTAGAG
131 ATCCTGACTCTAATTTGGCCAAACAATCAACTGGTGATAAGGAAATTCCTTTAAGTAAAGTAGAG
*
28360 CAGAGGTATCTCAATGCTTTTGGCCAGAGACGATGCAACTCGAAGACCTTAGAGAAACACTATAG
196 CAGAGGTATCTCAATGCTTTTGGCCAGAGACGATACAACTCGAAGACCTTAGAGAAACACTATAG
*
28425 AATGATTAGAGGCATCTCCATGCTCTCAAAGAAATATTGTAGTATGAGAAGAGGCATCTTCACCT
261 AATGATTAGAGGCATCTCCATGCTCTCAAAGAAATATTGCAGTATGAGAAGAGGCATCTTCACCT
28490 TGGTTGCAGAAATGAGAGGATTCCCAGTGAAAC
326 TGGTTGCAGAAATGAGAGGATTCCCAGTGAAAC
28523 GTAGGAGGTAACTCGACACGCCTAAGAGGAACATTTTAGAGGGAGCAAAAGTATCTTGACACTCT
1 GTAGGAGGTAACTCGACACGCCTAAGAGGAACATTTTAGAGGGAGCAAAAGTATCTTGACACTCT
28588 TAGGTAGAGACATCTCAAAATTATGTGAGCATCAATAGAGAGACTCATAATTGTAGAATGAAGGC
66 TAGGTAGAGACATCTCAAAATTATGTGAGCATCAATAGAGAGACTCATAATTGTAGAATGAAGGC
*
28653 ATCCTGACTCTAATTTGGCCAAACAATCAACTGGTGATAAGGAAATTCCTTTAAGTAAAGTGGAG
131 ATCCTGACTCTAATTTGGCCAAACAATCAACTGGTGATAAGGAAATTCCTTTAAGTAAAGTAGAG
* *
28718 CAGAGGTATCTCAATGCTTTTGGCCAGGGACGATACAACTTGAAGACCTTAGAGAAACACTATAG
196 CAGAGGTATCTCAATGCTTTTGGCCAGAGACGATACAACTCGAAGACCTTAGAGAAACACTATAG
28783 AATGATTAGAGGCATCTCCATGCTCTCAAAGAAATATTGCAGTATGAGAAGAGGCATCTTCACCT
261 AATGATTAGAGGCATCTCCATGCTCTCAAAGAAATATTGCAGTATGAGAAGAGGCATCTTCACCT
28848 TGGTTGCAGAAATGAGAGGATTCCCAGTGAAA
326 TGGTTGCAGAAATGAGAGGATTCCCAGTGAAA
28880 AGTATCTAGA
Statistics
Matches: 349, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
358 349 1.00
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (358 bp):
GTAGGAGGTAACTCGACACGCCTAAGAGGAACATTTTAGAGGGAGCAAAAGTATCTTGACACTCT
TAGGTAGAGACATCTCAAAATTATGTGAGCATCAATAGAGAGACTCATAATTGTAGAATGAAGGC
ATCCTGACTCTAATTTGGCCAAACAATCAACTGGTGATAAGGAAATTCCTTTAAGTAAAGTAGAG
CAGAGGTATCTCAATGCTTTTGGCCAGAGACGATACAACTCGAAGACCTTAGAGAAACACTATAG
AATGATTAGAGGCATCTCCATGCTCTCAAAGAAATATTGCAGTATGAGAAGAGGCATCTTCACCT
TGGTTGCAGAAATGAGAGGATTCCCAGTGAAAC
Found at i:36099 original size:18 final size:18
Alignment explanation
Indices: 36076--36115 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
36066 CCCTTATTAT
36076 TTATATGTATATATTTAA
1 TTATATGTATATATTTAA
* * *
36094 TTATATTTATTTATTTAT
1 TTATATGTATATATTTAA
36112 TTAT
1 TTAT
36116 TATAATTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (18 bp):
TTATATGTATATATTTAA
Found at i:36123 original size:22 final size:22
Alignment explanation
Indices: 36073--36119 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
36063 TAACCCTTAT
*
36073 TATTTATATGTATATATTTAATTA
1 TATTTAT-T-TATTTATTTAATTA
36097 TATTTATTTATTTATTT-ATTA
1 TATTTATTTATTTATTTAATTA
36118 TA
1 TA
36120 ATTTTTTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 6 0.27
22 8 0.36
23 1 0.05
24 7 0.32
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TATTTATTTATTTATTTAATTA
Found at i:36170 original size:2 final size:2
Alignment explanation
Indices: 36163--36197 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
36153 ATTTTCCTAT
36163 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
36198 TATTTTTATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:36308 original size:29 final size:31
Alignment explanation
Indices: 36276--36348 Score: 71
Period size: 29 Copynumber: 2.5 Consensus size: 31
36266 TCTTACTTTA
*
36276 TTTTATTTTATATTTGTATG-ATAACTATTT
1 TTTTATTTTATATTTATATGTATAACTATTT
* * **
36306 TTTTAGTTAATA-TTATATGTATATTTA-TT
1 TTTTATTTTATATTTATATGTATAACTATTT
*
36335 TTTTATTTTTTATT
1 TTTTATTTTATATT
36349 ATTATTACTA
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
29 17 0.52
30 16 0.48
ACGTcount: A:0.26, C:0.01, G:0.05, T:0.67
Consensus pattern (31 bp):
TTTTATTTTATATTTATATGTATAACTATTT
Found at i:36418 original size:12 final size:13
Alignment explanation
Indices: 36395--36451 Score: 53
Period size: 12 Copynumber: 4.2 Consensus size: 13
36385 CATTTTTATA
36395 TTTTTATATATTT
1 TTTTTATATATTT
36408 TTTTTAT-TATTT
1 TTTTTATATATTT
*
36420 TATTTATACTAATTT
1 TTTTTATA-T-ATTT
*
36435 ATTTTCATTATATTT
1 -TTTTTA-TATATTT
36450 TT
1 TT
36452 AGTTTCTTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
12 11 0.31
13 7 0.19
14 3 0.08
15 8 0.22
16 5 0.14
17 2 0.06
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTATATATTT
Found at i:36578 original size:21 final size:19
Alignment explanation
Indices: 36537--36584 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
36527 TTTTATCTTC
*
36537 ATTTATTTTATTTTATTCA
1 ATTTATTTTATTTTATCCA
*
36556 ATTTCATTTTTTTTTCATCCA
1 ATTT-ATTTTATTTT-ATCCA
36577 A-TTATTTT
1 ATTTATTTT
36585 TATGTTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 9 0.36
20 11 0.44
21 5 0.20
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTATTTTATTTTATCCA
Found at i:37435 original size:20 final size:20
Alignment explanation
Indices: 37410--37454 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
37400 TAAGGGTCTG
37410 GCAAG-CCAGAGGGGGCACCA
1 GCAAGCCCA-AGGGGGCACCA
*
37430 GCAAGCCCAAGGGGGCACCG
1 GCAAGCCCAAGGGGGCACCA
37450 GCAAG
1 GCAAG
37455 GAGAACTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.29, C:0.31, G:0.40, T:0.00
Consensus pattern (20 bp):
GCAAGCCCAAGGGGGCACCA
Found at i:40846 original size:16 final size:15
Alignment explanation
Indices: 40806--40876 Score: 74
Period size: 16 Copynumber: 4.7 Consensus size: 15
40796 AGATTCAATC
*
40806 AGAACAAAAAGGGAAA
1 AGAACAAAAA-AGAAA
* *
40822 AAAATAAAAAAGAAA
1 AGAACAAAAAAGAAA
40837 AGAAGCAAAAAAGAAGA
1 AGAA-CAAAAAAGAA-A
40854 A-AACAAAAAA-AAA
1 AGAACAAAAAAGAAA
40867 AGAACAAAAA
1 AGAACAAAAA
40877 TCAAAAAGAA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
13 2 0.04
14 10 0.21
15 14 0.30
16 19 0.40
17 2 0.04
ACGTcount: A:0.79, C:0.06, G:0.14, T:0.01
Consensus pattern (15 bp):
AGAACAAAAAAGAAA
Found at i:40855 original size:19 final size:19
Alignment explanation
Indices: 40819--40890 Score: 63
Period size: 19 Copynumber: 3.6 Consensus size: 19
40809 ACAAAAAGGG
* *
40819 AAAAAAATAAAAAAGAAAAG
1 AAAAAAA-AAAGAAGAAAAC
**
40839 AAGCAAAAAAGAAGAAAAC
1 AAAAAAAAAAGAAGAAAAC
*
40858 AAAAAAAAAAGAACAAAAATC
1 AAAAAAAAAAGAA-GAAAA-C
40879 AAAAAGAAAAAG
1 AAAAA-AAAAAG
40891 GGACAAAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
19 21 0.50
20 9 0.21
21 6 0.14
22 6 0.14
ACGTcount: A:0.81, C:0.06, G:0.11, T:0.03
Consensus pattern (19 bp):
AAAAAAAAAAGAAGAAAAC
Found at i:40882 original size:16 final size:14
Alignment explanation
Indices: 40827--40886 Score: 59
Period size: 16 Copynumber: 3.9 Consensus size: 14
40817 GGAAAAAAAT
40827 AAAAAAGAAAAGAAGC
1 AAAAAA-AAAAGAA-C
40843 AAAAAAGAAGAA-AAC
1 AAAAAA-AA-AAGAAC
40858 AAAAAAAAAAGAAC
1 AAAAAAAAAAGAAC
40872 AAAAATCAAAAAGAA
1 AAAAA--AAAAAGAA
40887 AAAGGGACAA
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
13 2 0.05
14 10 0.25
15 7 0.17
16 19 0.47
17 2 0.05
ACGTcount: A:0.80, C:0.07, G:0.12, T:0.02
Consensus pattern (14 bp):
AAAAAAAAAAGAAC
Found at i:41516 original size:22 final size:22
Alignment explanation
Indices: 41491--41545 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
41481 AGCACCCCAT
41491 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
41513 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
41535 CAAACCTTTGA
1 CAAACCTTTGA
41546 CCAAACACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.24
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:41994 original size:18 final size:18
Alignment explanation
Indices: 41959--41994 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
41949 TCAACATCAA
**
41959 ATATTGGGGCATTTTTTG
1 ATATTGGGGCATCATTTG
41977 ATATTGGGGCATCATTTG
1 ATATTGGGGCATCATTTG
41995 GGGATTCAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.08, G:0.28, T:0.44
Consensus pattern (18 bp):
ATATTGGGGCATCATTTG
Found at i:42635 original size:106 final size:106
Alignment explanation
Indices: 42507--43781 Score: 1960
Period size: 106 Copynumber: 12.0 Consensus size: 106
42497 ATATCGTGCC
* * * *
42507 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
42572 AAATTCAGAGGCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
42613 ACTCCAGACAACACAATTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACATCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
42678 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * *
42719 ACTCTAGACAATGCAAGTTCAACTTCACGACGAAGCGACCGCTGGTTGTCAATAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
42784 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
42825 ACTCAAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
42890 AATTTCAGAGCCAATTTCAACTTCATAGCGAACGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
42931 ACTCCAGACAACGCAAGTTCAATTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
42996 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
43037 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
43102 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
43143 ACTCGAGACAACGCAAGTTCAACTTCACGATGAAGGAACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
43208 AATTTCGGAGCCAATTTCAACTCCACAGCGAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
43249 ACTCCAGACAACGCAAGTTCAACTTCACGAC-AAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
43313 AATTTCGGAGCCAATTTCAACTTCACAACAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
43354 ACTCCAAACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAATTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
43419 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
43460 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
43525 AATTTCAGAACCAATTTTAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * * *
43566 ACTCGAGACAACACAATTTCAACTTCACGACGAAGGGACCACTGGTTTTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
43631 AATTTCGGAGCCAATTTCAACTTCACAACAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
43672 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACAGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
43737 GATTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
43778 ACTC
1 ACTC
43782 GGAACAATCT
Statistics
Matches: 1075, Mismatches: 92, Indels: 4
0.92 0.08 0.00
Matches are distributed among these distances:
105 99 0.09
106 976 0.91
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:44583 original size:37 final size:37
Alignment explanation
Indices: 44533--44632 Score: 130
Period size: 37 Copynumber: 2.7 Consensus size: 37
44523 TTTCATCCTA
44533 CTAGGATTCAAACTCCTAAAAATAGGATAGAATT-TT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTCTT
* *
44569 GCTAGGATTCAAACTCCTAAAAATATGATAGAGTTCTT
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGAATTCTT
** * *
44607 CTATTATTTAAACTCCTAAAGATAGG
1 CTAGGATTCAAACTCCTAAAAATAGG
44633 GTCCATAAGC
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
37 53 0.96
38 2 0.04
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (37 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTCTT
Found at i:45056 original size:18 final size:18
Alignment explanation
Indices: 45033--45072 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
45023 CCCTTATTAT
45033 TTATATGTATATATTTAA
1 TTATATGTATATATTTAA
* * *
45051 TTATATTTATTTATTTAT
1 TTATATGTATATATTTAA
45069 TTAT
1 TTAT
45073 TATAATTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (18 bp):
TTATATGTATATATTTAA
Found at i:45080 original size:22 final size:22
Alignment explanation
Indices: 45030--45076 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
45020 TAACCCTTAT
*
45030 TATTTATATGTATATATTTAATTA
1 TATTTAT-T-TATTTATTTAATTA
45054 TATTTATTTATTTATTT-ATTA
1 TATTTATTTATTTATTTAATTA
45075 TA
1 TA
45077 ATTTTTTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 6 0.27
22 8 0.36
23 1 0.05
24 7 0.32
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TATTTATTTATTTATTTAATTA
Found at i:45294 original size:26 final size:26
Alignment explanation
Indices: 45265--45336 Score: 67
Period size: 26 Copynumber: 2.7 Consensus size: 26
45255 TATGTATATT
45265 TATTTTTTATTTTTTATTATTATTAC-
1 TATTTTTTATTTTTTATTATTA-TACA
**
45291 TATTTAGTATTTTATTA-TATTATACA
1 TATTTTTTATTTT-TTATTATTATACA
45317 TACATTTTTATATTTTTTAT
1 T--ATTTTT-TATTTTTTAT
45337 ATATATTGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
25 3 0.08
26 17 0.47
27 3 0.08
28 7 0.19
29 6 0.17
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (26 bp):
TATTTTTTATTTTTTATTATTATACA
Found at i:47153 original size:14 final size:14
Alignment explanation
Indices: 47134--47160 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
47124 TGCATAGTGG
47134 TTTTGAAAGTGTAA
1 TTTTGAAAGTGTAA
47148 TTTTGAAAGTGTA
1 TTTTGAAAGTGTA
47161 TATAAATGAA
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:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TTTTGAAAGTGTAA
Found at i:49727 original size:30 final size:31
Alignment explanation
Indices: 49692--49779 Score: 108
Period size: 29 Copynumber: 2.9 Consensus size: 31
49682 GAAGGACCTA
*
49692 TCCATATGTTTCGGAGGACATAGGTAACTT-
1 TCCATATGTTTCGAAGGACATAGGTAACTTG
* * *
49722 TCCATATG-TCCCAAGGACATAGGTAAATTG
1 TCCATATGTTTCGAAGGACATAGGTAACTTG
* *
49752 TCCATATGTCTCGAAAGACATAGGTAAC
1 TCCATATGTTTCGAAGGACATAGGTAAC
49780 CCTCGACTCT
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
29 17 0.36
30 16 0.34
31 14 0.30
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.28
Consensus pattern (31 bp):
TCCATATGTTTCGAAGGACATAGGTAACTTG
Found at i:49743 original size:29 final size:31
Alignment explanation
Indices: 49692--49779 Score: 108
Period size: 30 Copynumber: 2.9 Consensus size: 31
49682 GAAGGACCTA
* **
49692 TCCATATGTTTCGGAGGACATAGGTAACTT-
1 TCCATATGTCTCCAAGGACATAGGTAACTTG
*
49722 TCCATATGTC-CCAAGGACATAGGTAAATTG
1 TCCATATGTCTCCAAGGACATAGGTAACTTG
* *
49752 TCCATATGTCTCGAAAGACATAGGTAAC
1 TCCATATGTCTCCAAGGACATAGGTAAC
49780 CCTCGACTCT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
29 16 0.33
30 19 0.39
31 14 0.29
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.28
Consensus pattern (31 bp):
TCCATATGTCTCCAAGGACATAGGTAACTTG
Found at i:49928 original size:16 final size:17
Alignment explanation
Indices: 49907--49944 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
49897 TATCTCATAT
49907 CATATAACATGT-ATCA
1 CATATAACATGTAATCA
49923 CATAT-ACATGTAATCA
1 CATATAACATGTAATCA
*
49939 CGTATA
1 CATATA
49945 TTATGTCTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (17 bp):
CATATAACATGTAATCA
Found at i:55415 original size:16 final size:17
Alignment explanation
Indices: 55394--55437 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
55384 TATCTCATAT
55394 CATATAACATGT-ATCA
1 CATATAACATGTAATCA
55410 CATAT-ACATGTAATCA
1 CATATAACATGTAATCA
* *
55426 CTTATATCATGT
1 CATATAACATGT
55438 CTCATAGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.25
16 13 0.54
17 5 0.21
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.36
Consensus pattern (17 bp):
CATATAACATGTAATCA
Found at i:57662 original size:43 final size:42
Alignment explanation
Indices: 57615--57701 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 42
57605 TTTAAAAAGA
* *
57615 TTTTTT-ATAGCTTATGCAATGGGTATTGAAGTTGGAGGATGG
1 TTTTTTGATAGCTTATGCAATAGGCATT-AAGTTGGAGGATGG
* * *
57657 TTTTTTGGTAGCTTATGCAGTAGGCATTAAGTTTGAGGATGG
1 TTTTTTGATAGCTTATGCAATAGGCATTAAGTTGGAGGATGG
57699 TTT
1 TTT
57702 ATGCAATAGG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 22 0.56
43 17 0.44
ACGTcount: A:0.22, C:0.06, G:0.30, T:0.43
Consensus pattern (42 bp):
TTTTTTGATAGCTTATGCAATAGGCATTAAGTTGGAGGATGG
Found at i:57938 original size:33 final size:31
Alignment explanation
Indices: 57880--57955 Score: 107
Period size: 33 Copynumber: 2.4 Consensus size: 31
57870 TTTTATTTTG
* *
57880 ATGTTAATTATATAGATTTTGATGTTAATGTT
1 ATGTT-ATTTTATAGATTTTAATGTTAATGTT
57912 ATGTTATTTTATAGATTTGTTAATGTTAATGTT
1 ATGTTATTTTATAGA-TT-TTAATGTTAATGTT
57945 ATGTTATTTTA
1 ATGTTATTTTA
57956 ATGTTCTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
31 9 0.22
32 7 0.17
33 24 0.60
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (31 bp):
ATGTTATTTTATAGATTTTAATGTTAATGTT
Found at i:57958 original size:16 final size:16
Alignment explanation
Indices: 57904--57960 Score: 64
Period size: 16 Copynumber: 3.5 Consensus size: 16
57894 GATTTTGATG
57904 TTAATGTTATGTTATT
1 TTAATGTTATGTTATT
*
57920 TT-ATAGATT-TGTTAATG
1 TTAAT-G-TTATGTT-ATT
57937 TTAATGTTATGTTATT
1 TTAATGTTATGTTATT
57953 TTAATGTT
1 TTAATGTT
57961 CTATTATGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
15 2 0.06
16 19 0.56
17 11 0.32
18 2 0.06
ACGTcount: A:0.26, C:0.00, G:0.14, T:0.60
Consensus pattern (16 bp):
TTAATGTTATGTTATT
Found at i:60843 original size:24 final size:24
Alignment explanation
Indices: 60778--60843 Score: 89
Period size: 24 Copynumber: 2.8 Consensus size: 24
60768 ATATATTCGA
*
60778 CATTGGTTTCAGTATGTCCAACAT
1 CATTGGTTTCAGTATGTTCAACAT
*
60802 CGTTGGTTTCAGTATGTTCAACAAT
1 CATTGGTTTCAGTATGTTCAAC-AT
*
60827 -ATTGGATTCAGTATGTT
1 CATTGGTTTCAGTATGTT
60844 TAGTATTTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
24 35 0.95
25 2 0.05
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (24 bp):
CATTGGTTTCAGTATGTTCAACAT
Found at i:62619 original size:21 final size:22
Alignment explanation
Indices: 62595--62641 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
62585 TACAAAAGTT
62595 ATTTGT-AAGAACCCCAAATTG
1 ATTTGTCAAGAACCCCAAATTG
**
62616 ATTTGTCATTAACCCCAAATTG
1 ATTTGTCAAGAACCCCAAATTG
62638 ATTT
1 ATTT
62642 CGATAACTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (22 bp):
ATTTGTCAAGAACCCCAAATTG
Found at i:66363 original size:36 final size:37
Alignment explanation
Indices: 66322--66392 Score: 108
Period size: 38 Copynumber: 1.9 Consensus size: 37
66312 TTTTCCTTTT
66322 TTAAAATATATTTT-CTTGTTTTCCCTTAGTTTTTAC
1 TTAAAATATATTTTCCTTGTTTTCCCTTAGTTTTTAC
* *
66358 TTAAAATATTTTTTCCCTTGTTTTGCCTTAGTTTT
1 TTAAAATATATTTT-CCTTGTTTTCCCTTAGTTTT
66393 ATGATAGGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 13 0.42
38 18 0.58
ACGTcount: A:0.20, C:0.14, G:0.07, T:0.59
Consensus pattern (37 bp):
TTAAAATATATTTTCCTTGTTTTCCCTTAGTTTTTAC
Found at i:66515 original size:27 final size:27
Alignment explanation
Indices: 66477--66529 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
66467 ATATAAAATA
* *
66477 ATTATATTTTAATCATTTATATTATTT
1 ATTAAATTTTAATCATTTATAATATTT
*
66504 ATTAAATTTTAATCGTTTATAATATT
1 ATTAAATTTTAATCATTTATAATATT
66530 GATTGTTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (27 bp):
ATTAAATTTTAATCATTTATAATATTT
Found at i:67476 original size:20 final size:22
Alignment explanation
Indices: 67446--67487 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
67436 AAGTTGATAT
67446 AGTGAATTTTC-GGGCATGAAC
1 AGTGAATTTTCTGGGCATGAAC
*
67467 AGTG-ATTTTCTGGGCTTGAAC
1 AGTGAATTTTCTGGGCATGAAC
67488 GAAAATTCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (22 bp):
AGTGAATTTTCTGGGCATGAAC
Found at i:68583 original size:24 final size:23
Alignment explanation
Indices: 68556--68601 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
68546 ATTTCTACGC
*
68556 GGCACTTCAGTGCAAATTCTATGT
1 GGCACTACAGTGCAAATT-TATGT
*
68580 GGCACTACGGTGCAAATTTATG
1 GGCACTACAGTGCAAATTTATG
68602 CGAGCTGTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (23 bp):
GGCACTACAGTGCAAATTTATGT
Found at i:72619 original size:3 final size:3
Alignment explanation
Indices: 72605--72680 Score: 143
Period size: 3 Copynumber: 25.0 Consensus size: 3
72595 ACCAAGAAAC
72605 GAA GACA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GA-A GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
72651 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
72681 AGACGAGTTT
Statistics
Matches: 72, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 69 0.96
4 3 0.04
ACGTcount: A:0.66, C:0.01, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:73502 original size:20 final size:20
Alignment explanation
Indices: 73455--73850 Score: 332
Period size: 20 Copynumber: 19.2 Consensus size: 20
73445 AATGACCAAC
* *
73455 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATTTAG
*
73474 AAAACCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
* * **
73494 AAAAACGCAACGTTGA-AAAG
1 AAAATCGCAACG-CGATTTAG
* **
73514 AAGATCGCAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TTAG
* * *
73535 AAGAATCGCAATGCGATTCAT
1 AA-AATCGCAACGCGATTTAG
**
73556 AAAATCGCAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TTAG
*
73577 AAGAATCGCAACGCGATTCAG
1 AA-AATCGCAACGCGATTTAG
*
73598 AAAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTTAG
**
73618 AAAATCGCAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TTAG
*
73639 AAGAATCGCAACGCGATTAAG
1 AA-AATCGCAACGCGATTTAG
*
73660 AAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-TAG
* *
73680 AGAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTTAG
*
73700 AAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-TAG
* *
73720 AGAATCGCAACGCGATCTTCG
1 AAAATCGCAACGCGAT-TTAG
*
73741 AAGAATCGCAACGCGATTAAG
1 AA-AATCGCAACGCGATTTAG
**
73762 AAAATCGCAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TTAG
*
73783 AAGAATCGCAACGCGATTAAG
1 AA-AATCGCAACGCGATTTAG
**
73804 AAAATCGCAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TTAG
*
73825 AAGAATCGCAACGCGATTCAG
1 AA-AATCGCAACGCGATTTAG
73846 AAAAT
1 AAAAT
73851 GAGTAAATTC
Statistics
Matches: 305, Mismatches: 53, Indels: 37
0.77 0.13 0.09
Matches are distributed among these distances:
19 20 0.07
20 163 0.53
21 40 0.13
22 82 0.27
ACGTcount: A:0.39, C:0.26, G:0.19, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:73564 original size:42 final size:42
Alignment explanation
Indices: 73512--73850 Score: 412
Period size: 42 Copynumber: 8.2 Consensus size: 42
73502 AACGTTGAAA
* *
73512 AGAAGATCGCAACGCGATCTTCCAAGAATCGCAATGCGATTC
1 AGAAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTC
*
73554 ATAAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTC
1 AGAAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTC
*
73596 AGAAAATCGCAACGCGA--TT-CAGAAAATCGCAACGCGATCTTCC
1 AGAAAATCGCAACGCGATCTTCCA-AGAATCGCAACGCGA--TT-C
* ***
73639 A-AGAATCGCAACGCGAT-TAAGAA-AATCGCAACGCGATTCC
1 AGAAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATT-C
* *
73679 A-AGAATCGCAACGCGA--TT-CAGAAAATCGCAACGCGATTCC
1 AGAAAATCGCAACGCGATCTTCCA-AGAATCGCAACGCGATT-C
* * *
73719 A-AGAATCGCAACGCGATCTTCGAAGAATCGCAACGCGATTA
1 AGAAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTC
*
73760 AGAAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTA
1 AGAAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTC
73802 AGAAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTC
1 AGAAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTC
73844 AGAAAAT
1 AGAAAAT
73851 GAGTAAATTC
Statistics
Matches: 269, Mismatches: 16, Indels: 24
0.87 0.05 0.08
Matches are distributed among these distances:
38 1 0.00
39 4 0.01
40 69 0.26
41 1 0.00
42 188 0.70
43 5 0.02
44 1 0.00
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.17
Consensus pattern (42 bp):
AGAAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTC
Found at i:73816 original size:62 final size:61
Alignment explanation
Indices: 73455--73842 Score: 344
Period size: 62 Copynumber: 6.3 Consensus size: 61
73445 AATGACCAAC
* * * * * *
73455 AAAATCGCAACGCGATAT-CAA-AACCGCAACGCGATTTAGAAAAACGCAACGTTGA-AAAG
1 AAAATCGCAACGCGATTTCCAAGAATCGCAACGCGATTAAGAAAATCGCAACG-CGATTAAG
* * * * ***
73514 AAGATCGCAACGCGATCTTCCAAGAATCGCAATGCGATTCATAAAATCGCAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TTCCAAGAATCGCAACGCGATTAAGAAAATCGCAACGCGAT-TAAG
* * ***
73577 AAGAATCGCAACGCGA-TT-CAGAAAATCGCAACGCGATTCAGAAAATCGCAACGCGATCTTCC
1 AA-AATCGCAACGCGATTTCCA-AGAATCGCAACGCGATTAAGAAAATCGCAACGCGAT-TAAG
*** *
73639 AAGAATCGCAACGCGATTAAGAA-AATCGCAACGCGATTCCAAG--AATCGCAACGCGATTCAG
1 AA-AATCGCAACGCGATTTCCAAGAATCGCAACGCGATT--AAGAAAATCGCAACGCGATTAAG
**
73700 AAAATCGCAACGCGA-TTCCAAGAATCGCAACGCGATCTTCGAAGAATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTTCCAAGAATCGCAACGCGAT-TAAGAA-AATCGCAACGCGATTAAG
***
73762 AAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTAAGAAAATCGCAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TTCCAAGAATCGCAACGCGATTAAGAAAATCGCAACGCGAT-TAAG
73825 AAGAATCGCAACGCGATT
1 AA-AATCGCAACGCGATT
73843 CAGAAAATGA
Statistics
Matches: 276, Mismatches: 33, Indels: 36
0.80 0.10 0.10
Matches are distributed among these distances:
59 19 0.07
60 28 0.10
61 11 0.04
62 156 0.57
63 12 0.04
64 50 0.18
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.16
Consensus pattern (61 bp):
AAAATCGCAACGCGATTTCCAAGAATCGCAACGCGATTAAGAAAATCGCAACGCGATTAAG
Found at i:73957 original size:6 final size:6
Alignment explanation
Indices: 73946--74061 Score: 225
Period size: 6 Copynumber: 19.5 Consensus size: 6
73936 GACACGTATT
73946 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
73994 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
74042 ACCACG ACCACG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACC
74062 CGAGACGAGA
Statistics
Matches: 110, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 5 0.05
6 105 0.95
ACGTcount: A:0.33, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:74570 original size:6 final size:6
Alignment explanation
Indices: 74549--74609 Score: 108
Period size: 6 Copynumber: 10.5 Consensus size: 6
74539 TCTCGTCTCG
74549 GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
74595 GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGT
74610 AATGGTAATG
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 10 0.18
6 45 0.82
ACGTcount: A:0.00, C:0.16, G:0.52, T:0.31
Consensus pattern (6 bp):
GGTCGT
Found at i:74742 original size:20 final size:20
Alignment explanation
Indices: 74717--74904 Score: 152
Period size: 20 Copynumber: 9.2 Consensus size: 20
74707 GAATTTACTC
74717 ATTTTCTGAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
*
74737 ATTTTCTTAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
74757 ATTTTCTGAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
*
74777 ATTCTT-GGAAGATCGCGTTGCG
1 ATT-TTCTG-A-ATCGCGTTGCG
* *
74799 ATTTTATGAATCGCATTGCG
1 ATTTTCTGAATCGCGTTGCG
* *
74819 ATTCTT-GGAAGATCGTGTTGCG
1 ATT-TTCTG-A-ATCGCGTTGCG
* ** *
74841 ATCTTCT-TTTCAACGTTGCG
1 ATTTTCTGAATC-GCGTTGCG
* *
74861 CTTTTCTAAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
*
74881 -GTTT-TGATATCGCGTTGCG
1 ATTTTCTGA-ATCGCGTTGCG
74900 ATTTT
1 ATTTT
74905 GTTGGTCATT
Statistics
Matches: 134, Mismatches: 22, Indels: 24
0.74 0.12 0.13
Matches are distributed among these distances:
18 2 0.01
19 16 0.12
20 77 0.57
21 13 0.10
22 26 0.19
ACGTcount: A:0.16, C:0.19, G:0.24, T:0.41
Consensus pattern (20 bp):
ATTTTCTGAATCGCGTTGCG
Found at i:74809 original size:42 final size:42
Alignment explanation
Indices: 74717--74847 Score: 185
Period size: 42 Copynumber: 3.2 Consensus size: 42
74707 GAATTTACTC
***
74717 ATTTTCTGAATCGCGTTGCGATT-TTCTTA-ATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCG
74757 ATTTTCTGAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCG
* * *
74799 ATTTTATGAATCGCATTGCGATTCTTGGAAGATCGTGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCG
*
74841 ATCTTCT
1 ATTTTCT
74848 TTTCAACGTT
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 23 0.28
41 3 0.04
42 55 0.68
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.40
Consensus pattern (42 bp):
ATTTTCTGAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCG
Found at i:75149 original size:28 final size:29
Alignment explanation
Indices: 75094--75168 Score: 134
Period size: 28 Copynumber: 2.6 Consensus size: 29
75084 AATAGATTTT
75094 ATATACAATATCTTTTTATTTCAAAAAAC
1 ATATACAATATCTTTTTATTTCAAAAAAC
*
75123 ATATACAATATCTTTTTATTTC-AAAAAT
1 ATATACAATATCTTTTTATTTCAAAAAAC
75151 ATATACAATATCTTTTTA
1 ATATACAATATCTTTTTA
75169 CTTATAATGA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
28 23 0.51
29 22 0.49
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (29 bp):
ATATACAATATCTTTTTATTTCAAAAAAC
Found at i:78472 original size:20 final size:20
Alignment explanation
Indices: 78444--78508 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 20
78434 ACTTCGACTA
*
78444 TCGCATTGCGATTTACATA-T
1 TCGCGTTGCGATTTACA-AGT
* *
78464 TCGCGTTGCGATAGTCCAAGT
1 TCGCGTTGCGAT-TTACAAGT
*
78485 TCGCGTTGCGATTTTCCAAGT
1 TCGCGTTGCGA-TTTACAAGT
78506 TCG
1 TCG
78509 TTGCGATAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
20 12 0.32
21 25 0.66
22 1 0.03
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (20 bp):
TCGCGTTGCGATTTACAAGT
Found at i:78489 original size:21 final size:20
Alignment explanation
Indices: 78467--78655 Score: 240
Period size: 21 Copynumber: 9.2 Consensus size: 20
78457 TACATATTCG
78467 CGTTGCGATAG-TCCAAGTT
1 CGTTGCGATAGCTCCAAGTT
**
78486 CGCGTTGCGAT-TTTCCAAGTT
1 --CGTTGCGATAGCTCCAAGTT
78507 CGTTGCGATAGTCTCCAAGTT
1 CGTTGCGATAG-CTCCAAGTT
*
78528 CGTTGCGATAGTCTCCAAATT
1 CGTTGCGATAG-CTCCAAGTT
* *
78549 CGTTGCGATAGTCTACAAGTG
1 CGTTGCGATAG-CTCCAAGTT
78570 CGTTGCGATAGTCTCCAAGTT
1 CGTTGCGATAG-CTCCAAGTT
78591 CGTTGCGATAGTCTCCAAGTT
1 CGTTGCGATAG-CTCCAAGTT
78612 CGTTGCGATAGTCTCCAAGTT
1 CGTTGCGATAG-CTCCAAGTT
78633 CGTTGCGATAG-TCCAAGTT
1 CGTTGCGATAGCTCCAAGTT
78652 CGTT
1 CGTT
78656 ATTGCATTTG
Statistics
Matches: 156, Mismatches: 9, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
19 21 0.13
21 135 0.87
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGCTCCAAGTT
Found at i:78545 original size:42 final size:42
Alignment explanation
Indices: 78467--78655 Score: 282
Period size: 42 Copynumber: 4.6 Consensus size: 42
78457 TACATATTCG
*
78467 CGTTGCGATAG--TCCAAGTTCGCGTTGCGAT--TTTCCAAGTT
1 CGTTGCGATAGTCTCCAAGTT--CGTTGCGATAGTCTCCAAGTT
*
78507 CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATT
1 CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTT
* *
78549 CGTTGCGATAGTCTACAAGTGCGTTGCGATAGTCTCCAAGTT
1 CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTT
78591 CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTT
1 CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTT
78633 CGTTGCGATAG--TCCAAGTTCGTT
1 CGTTGCGATAGTCTCCAAGTTCGTT
78656 ATTGCATTTG
Statistics
Matches: 138, Mismatches: 7, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
40 32 0.23
42 106 0.77
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.33
Consensus pattern (42 bp):
CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTT
Found at i:78580 original size:63 final size:63
Alignment explanation
Indices: 78501--78655 Score: 269
Period size: 63 Copynumber: 2.5 Consensus size: 63
78491 TGCGATTTTC
78501 CAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCGTTGCGATAGTCTA
1 CAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCGTTGCGATAGTCTA
* * *
78564 CAAGTGCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTC
1 CAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCGTTGCGATAGTCTA
78627 CAAGTTCGTTGCGATAG--TCCAAGTTCGTT
1 CAAGTTCGTTGCGATAGTCTCCAAGTTCGTT
78656 ATTGCATTTG
Statistics
Matches: 88, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
61 12 0.14
63 76 0.86
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.33
Consensus pattern (63 bp):
CAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCGTTGCGATAGTCTA
Found at i:79248 original size:6 final size:6
Alignment explanation
Indices: 79237--79261 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
79227 TCGTCTCGTC
79237 TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG T
79262 AATACGTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.36
Consensus pattern (6 bp):
TCGTGG
Found at i:79683 original size:21 final size:21
Alignment explanation
Indices: 79354--79677 Score: 458
Period size: 21 Copynumber: 15.5 Consensus size: 21
79344 TGCGATTTTG
*
79354 GACTATCGCAACGAATTTGGA
1 GACTATCGCAACGAACTTGGA
* *
79375 GACTATCGCAACAAATTTGGA
1 GACTATCGCAACGAACTTGGA
* *
79396 GACTATCACAACGCACTTGGA
1 GACTATCGCAACGAACTTGGA
*
79417 GACTATCGCAACGCACTTGGA
1 GACTATCGCAACGAACTTGGA
* *
79438 GACTATCGCAATGAATTTGGA
1 GACTATCGCAACGAACTTGGA
79459 GACTATCGCAACGAACTTGGA
1 GACTATCGCAACGAACTTGGA
*
79480 GACTATCGCAACGAATTTGGA
1 GACTATCGCAACGAACTTGGA
79501 GACTATCGCAACGAACTTGGA
1 GACTATCGCAACGAACTTGGA
*
79522 GACTATCGCAACGAATTTGGA
1 GACTATCGCAACGAACTTGGA
79543 GACTATCGCAACGAACTTGGA
1 GACTATCGCAACGAACTTGGA
*
79564 GACTATCGTAACGAACTTGGA
1 GACTATCGCAACGAACTTGGA
* *
79585 GACTATCACAACGCACTTGGA
1 GACTATCGCAACGAACTTGGA
*
79606 GACTATCGCAACGCACTTGGA
1 GACTATCGCAACGAACTTGGA
*
79627 GACTATCGCAACGAACTTCGA
1 GACTATCGCAACGAACTTGGA
*
79648 -A-AATCGCAACGCGAACTT-G-
1 GACTATCGCAA--CGAACTTGGA
79667 GACTATCGCAA
1 GACTATCGCAA
79678 TGCGAATATG
Statistics
Matches: 275, Mismatches: 24, Indels: 8
0.90 0.08 0.03
Matches are distributed among these distances:
19 7 0.03
20 3 0.01
21 265 0.96
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.21
Consensus pattern (21 bp):
GACTATCGCAACGAACTTGGA
Found at i:80165 original size:19 final size:19
Alignment explanation
Indices: 80141--80197 Score: 105
Period size: 19 Copynumber: 3.0 Consensus size: 19
80131 GCAATTTTGA
80141 AAAATGTGTTGCGATAGTT
1 AAAATGTGTTGCGATAGTT
80160 AAAATGTGTTGCGATAGTT
1 AAAATGTGTTGCGATAGTT
*
80179 AAAATGTGTTGCGAGAGTT
1 AAAATGTGTTGCGATAGTT
80198 TGAAAAACAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.32, C:0.05, G:0.28, T:0.35
Consensus pattern (19 bp):
AAAATGTGTTGCGATAGTT
Found at i:80535 original size:22 final size:22
Alignment explanation
Indices: 80510--80554 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
80500 GTCGGGGCCG
80510 GGTCGGGGTCGTGGTAATACGT
1 GGTCGGGGTCGTGGTAATACGT
*
80532 GGTCGTGGTCGTGGTAATACGT
1 GGTCGGGGTCGTGGTAATACGT
80554 G
1 G
80555 TCTTCGACAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.13, C:0.13, G:0.44, T:0.29
Consensus pattern (22 bp):
GGTCGGGGTCGTGGTAATACGT
Found at i:80707 original size:20 final size:20
Alignment explanation
Indices: 80684--80730 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
80674 GGAAACTGAT
*
80684 TTGCGATACT-GGAGATCGCG
1 TTGCGATACTCAGA-ATCGCG
*
80704 TTGCGATAGTCAGAATCGCG
1 TTGCGATACTCAGAATCGCG
80724 TTGCGAT
1 TTGCGAT
80731 TTACATATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 22 0.92
21 2 0.08
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.28
Consensus pattern (20 bp):
TTGCGATACTCAGAATCGCG
Found at i:85275 original size:35 final size:35
Alignment explanation
Indices: 85227--85339 Score: 154
Period size: 35 Copynumber: 3.2 Consensus size: 35
85217 CAAAACACTC
* * *
85227 TTCAATTTTATTCTAAACCCCAAATTCCAAAGTAA
1 TTCAATTTCATTCTAAACCTCAAATTCCAAAATAA
* *
85262 TTCAATTTCATTCTAAACCTTAAATTCCAAACTAA
1 TTCAATTTCATTCTAAACCTCAAATTCCAAAATAA
* * *
85297 TTCAATTACATTCTAAACCTCAAATTCTAAAATAC
1 TTCAATTTCATTCTAAACCTCAAATTCCAAAATAA
85332 TTCAATTT
1 TTCAATTT
85340 AAGGAGGACT
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.40, C:0.22, G:0.01, T:0.37
Consensus pattern (35 bp):
TTCAATTTCATTCTAAACCTCAAATTCCAAAATAA
Found at i:86442 original size:35 final size:35
Alignment explanation
Indices: 86401--86513 Score: 163
Period size: 35 Copynumber: 3.2 Consensus size: 35
86391 AAAAAAGATA
* *
86401 GAAATTGAAGTATTTTAGAATTTAGGGTTTAGAAT
1 GAAATTGAATTATTTTGGAATTTAGGGTTTAGAAT
* * *
86436 GTAATTGAATTGTTTTGGAATTTAAGGTTTAGAAT
1 GAAATTGAATTATTTTGGAATTTAGGGTTTAGAAT
* *
86471 GAAATTGAATTACTTTGGAATTTGGGGTTTAGAAT
1 GAAATTGAATTATTTTGGAATTTAGGGTTTAGAAT
86506 GAAATTGA
1 GAAATTGA
86514 TGATTGTTTT
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.35, C:0.01, G:0.24, T:0.41
Consensus pattern (35 bp):
GAAATTGAATTATTTTGGAATTTAGGGTTTAGAAT
Found at i:86876 original size:15 final size:15
Alignment explanation
Indices: 86856--86887 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
86846 ACAAATATAA
86856 TTTTTATATAAATAT
1 TTTTTATATAAATAT
*
86871 TTTTTATTTAAATAT
1 TTTTTATATAAATAT
86886 TT
1 TT
86888 AGAATTTCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTTTATATAAATAT
Found at i:92428 original size:12 final size:12
Alignment explanation
Indices: 92411--92466 Score: 67
Period size: 12 Copynumber: 4.6 Consensus size: 12
92401 TTTTTTTCAA
*
92411 AAAAAAAAAAAC
1 AAAAAAAAAAGC
*
92423 AAAAAAAAAAGGT
1 AAAAAAAAAA-GC
*
92436 AAAAAAAAAGGC
1 AAAAAAAAAAGC
*
92448 ACAAAAAAAAGC
1 AAAAAAAAAAGC
92460 AAAAAAA
1 AAAAAAA
92467 GCCAAAATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
12 27 0.75
13 9 0.25
ACGTcount: A:0.82, C:0.07, G:0.09, T:0.02
Consensus pattern (12 bp):
AAAAAAAAAAGC
Found at i:92453 original size:25 final size:24
Alignment explanation
Indices: 92411--92466 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 24
92401 TTTTTTTCAA
*
92411 AAAAAAAAAAACAAAAAAAAAAGGT
1 AAAAAAAAAAACAAAAAAAAAA-GC
** *
92436 AAAAAAAAAGGCACAAAAAAAAGC
1 AAAAAAAAAAACAAAAAAAAAAGC
92460 AAAAAAA
1 AAAAAAA
92467 GCCAAAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 8 0.30
25 19 0.70
ACGTcount: A:0.82, C:0.07, G:0.09, T:0.02
Consensus pattern (24 bp):
AAAAAAAAAAACAAAAAAAAAAGC
Found at i:100280 original size:8 final size:7
Alignment explanation
Indices: 100254--100304 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
100244 TTTTCTCTCT
100254 TCTTCCC
1 TCTTCCC
100261 TCTTCCC
1 TCTTCCC
100268 TCTTCCTC
1 TCTTCC-C
100276 TCTT-CC
1 TCTTCCC
*
100282 TC-T-CT
1 TCTTCCC
100287 TCTTCCC
1 TCTTCCC
*
100294 TCTTCCG
1 TCTTCCC
100301 TCTT
1 TCTT
100305 TTATTTTTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
5 4 0.11
6 4 0.11
7 25 0.66
8 5 0.13
ACGTcount: A:0.00, C:0.49, G:0.02, T:0.49
Consensus pattern (7 bp):
TCTTCCC
Found at i:100341 original size:11 final size:11
Alignment explanation
Indices: 100327--100357 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
100317 CTATTCAAGT
100327 GAATTTCATTG
1 GAATTTCATTG
100338 GAATTTCATTG
1 GAATTTCATTG
*
100349 AAATTTCAT
1 GAATTTCAT
100358 CACCGATCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.45
Consensus pattern (11 bp):
GAATTTCATTG
Found at i:102985 original size:14 final size:17
Alignment explanation
Indices: 102966--103001 Score: 51
Period size: 14 Copynumber: 2.3 Consensus size: 17
102956 AAAAACCCAA
102966 TTTATGAT-TTA-T-GT
1 TTTATGATATTACTAGT
102980 TTTATGATATTACTAGT
1 TTTATGATATTACTAGT
102997 TTTAT
1 TTTAT
103002 ATGAAACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 8 0.42
15 3 0.16
16 1 0.05
17 7 0.37
ACGTcount: A:0.25, C:0.03, G:0.11, T:0.61
Consensus pattern (17 bp):
TTTATGATATTACTAGT
Found at i:105389 original size:20 final size:20
Alignment explanation
Indices: 105346--105390 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
105336 CCATCTTACT
* * *
105346 GAGCCAATCGAGTCACAATT
1 GAGCTAATCGAGCCACAATC
*
105366 GAGCTAATCGAGCCACGATC
1 GAGCTAATCGAGCCACAATC
105386 GAGCT
1 GAGCT
105391 GCTGACCGAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.18
Consensus pattern (20 bp):
GAGCTAATCGAGCCACAATC
Found at i:108855 original size:21 final size:21
Alignment explanation
Indices: 108814--108856 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
108804 TGTGTTATTA
*
108814 TTTTTAATTTTTATATGTTAT
1 TTTTTAATATTTATATGTTAT
*
108835 TTTTTATATATTT-TATTTTAT
1 TTTTTA-ATATTTATATGTTAT
108856 T
1 T
108857 AAGTTAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (21 bp):
TTTTTAATATTTATATGTTAT
Found at i:112395 original size:27 final size:27
Alignment explanation
Indices: 112365--112446 Score: 64
Period size: 27 Copynumber: 3.1 Consensus size: 27
112355 TTTTATGATG
112365 TTTTGATATGTTAGTATCTATGGATAC
1 TTTTGATATGTTAGTATCTATGGATAC
* ** * ** *
112392 TTTTAATA-AAT-GAAT-GGTGTATGA-
1 TTTTGATATGTTAGTATCTATGGAT-AC
112416 TTTTGATATGTTAGTATCTATGGATAC
1 TTTTGATATGTTAGTATCTATGGATAC
112443 TTTT
1 TTTT
112447 AATAAAAGAC
Statistics
Matches: 36, Mismatches: 14, Indels: 10
0.60 0.23 0.17
Matches are distributed among these distances:
24 11 0.31
25 5 0.14
26 5 0.14
27 15 0.42
ACGTcount: A:0.28, C:0.05, G:0.18, T:0.49
Consensus pattern (27 bp):
TTTTGATATGTTAGTATCTATGGATAC
Found at i:114385 original size:6 final size:6
Alignment explanation
Indices: 114362--114415 Score: 51
Period size: 6 Copynumber: 9.2 Consensus size: 6
114352 TATTATTCCT
* *
114362 AAGAAA AA-ATAA AA-AAA AGGAAA AAGAAA AGAAAAA AAGAAA AAG-AA
1 AAGAAA AAGA-AA AAGAAA AAGAAA AAGAAA A-AGAAA AAGAAA AAGAAA
114409 AAGAAA A
1 AAGAAA A
114416 GGAGAGGTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
5 9 0.22
6 26 0.65
7 5 0.12
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (6 bp):
AAGAAA
Found at i:114398 original size:19 final size:19
Alignment explanation
Indices: 114373--114415 Score: 77
Period size: 19 Copynumber: 2.2 Consensus size: 19
114363 AGAAAAAATA
114373 AAAAAAAGGAAAAAGAAAAG
1 AAAAAAA-GAAAAAGAAAAG
114393 AAAAAAAGAAAAAGAAAAG
1 AAAAAAAGAAAAAGAAAAG
114412 AAAA
1 AAAA
114416 GGAGAGGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (19 bp):
AAAAAAAGAAAAAGAAAAG
Found at i:115636 original size:136 final size:136
Alignment explanation
Indices: 115411--116104 Score: 855
Period size: 136 Copynumber: 5.1 Consensus size: 136
115401 AATATGAATT
* * *
115411 GATTAACATTTCCAATGAAGAGTTCATAATAAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTT
1 GATTAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTC
* ** *
115476 ATAATGAGAAGAACTTGTTTGACCTATTGCTCGATTCACGACAATTCAAATCAGTAACGCCTCGC
66 ATAATAAGAAGAACTTGTTTGACCTATTGCTCGATTCACGACAATTTGAATCAGCAACGCCTCGC
115541 TTGAGG
131 TTGAGG
* *
115547 GATTAACATTTCCAATGGAGAGTTCATAATGAGAAGAGCTCATCCGAAAGAGGGAGAAGAATTTC
1 GATTAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTC
* * * * * *
115612 ATAATAAGAAGAACTTGTTCGACCTATTGTTCGATTCATGACACTTTGAATCAACAACGCCTTGC
66 ATAATAAGAAGAACTTGTTTGACCTATTGCTCGATTCACGACAATTTGAATCAGCAACGCCTCGC
115677 TTGAGG
131 TTGAGG
* * *
115683 GATTAACATTTACAATGGAGAGTTCATAATGAGAAGAGCTCATCTGACAA-AGGGAGAAGAAGTT
1 GATTAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGA-AAGAGGGAGAAGAAGTT
* * *
115747 -AGTAATAAGAATAACTTGTTTGACCTATTGCTCGATTCACGACACTTCGAATCAGCAACGCCTC
65 CA-TAATAAGAAGAACTTGTTTGACCTATTGCTCGATTCACGACAATTTGAATCAGCAACGCCTC
*
115811 GCTTGAGA
129 GCTTGAGG
* * * * *
115819 TATTAATATTTACAATGGAGAGTTCATAATGAGAA-ATATTCATCCGATAGAGGGAGAAGAAGTT
1 GATTAACATTTCCAATGGAGAGTTCATAATGAGAAGA-ACTCATCCGAAAGAGGGAGAAGAAGTT
* * ** * * * *
115883 CATAATGAGAAGAACTTGTTTGACCTATTGCTCGATGCAAAACATTTTGAATTAGTAACACCTCG
65 CATAATAAGAAGAACTTGTTTGACCTATTGCTCGATTCACGACAATTTGAATCAGCAACGCCTCG
115948 CTTGAGG
130 CTTGAGG
* *
115955 GATTAACATTAT-TAATGGAGAGTTCATAATGAGAAGAACTCATCCGACCAAGA--GATAAGAAG
1 GATTAACATT-TCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGA--AAGAGGGAGAAGAAG
* * * *
116017 TTCATAACGAA-AAGAACTTGTTCGACCTATTGCTCGATTC-CCAAAATTTAGAATCAGCAACGC
63 TTCATAA-TAAGAAGAACTTGTTTGACCTATTGCTCGATTCACGACAATTT-GAATCAGCAACGC
* *
116080 CTCACTAGAGG
126 CTCGCTTGAGG
* *
116091 GATCAACCTTTCCA
1 GATTAACATTTCCA
116105 GTAGGAAGAT
Statistics
Matches: 481, Mismatches: 65, Indels: 24
0.84 0.11 0.04
Matches are distributed among these distances:
135 9 0.02
136 463 0.96
137 6 0.01
138 3 0.01
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (136 bp):
GATTAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTC
ATAATAAGAAGAACTTGTTTGACCTATTGCTCGATTCACGACAATTTGAATCAGCAACGCCTCGC
TTGAGG
Found at i:119787 original size:20 final size:20
Alignment explanation
Indices: 119736--119787 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
119726 TTCTTAATAT
*
119736 TAAAAAATAAATAAATATTAA
1 TAAAAAAT-AATAAAGATTAA
** **
119757 TAAAATGTAATAAAGATTCC
1 TAAAAAATAATAAAGATTAA
119777 TAAAAAATAAT
1 TAAAAAATAAT
119788 TTAAATAAAA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (20 bp):
TAAAAAATAATAAAGATTAA
Found at i:119816 original size:15 final size:15
Alignment explanation
Indices: 119779--119809 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
119769 AAGATTCCTA
*
119779 AAAAATAATTTAAAT
1 AAAAATAAATTAAAT
119794 AAAAATAAATTAAAT
1 AAAAATAAATTAAAT
119809 A
1 A
119810 TATATAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAAATAAATTAAAT
Found at i:120400 original size:20 final size:18
Alignment explanation
Indices: 120377--120420 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
120367 TTTTTTTAGG
120377 AATATTTATTACATTTTATT
1 AATATTTATT-CATTTT-TT
*
120397 AATATTTATTTATTTTTT
1 AATATTTATTCATTTTTT
120415 AATATT
1 AATATT
120421 AAGAAATGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.35
19 5 0.22
20 10 0.43
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
AATATTTATTCATTTTTT
Found at i:123020 original size:67 final size:64
Alignment explanation
Indices: 122938--123099 Score: 234
Period size: 67 Copynumber: 2.5 Consensus size: 64
122928 GATTTAATTG
* *
122938 AACATCGAATGCATTTGATGCATCGATGCACATACCATGCATCGATGCACTTAGGTTTTTATAAA
1 AACATCGAATGCATTTGATGCATCGATGCACATACCATGCATCGATGCACTCAGGCTTTT-T--A
123003 AA
63 AA
* *
123005 AACATTGAATGCATTTGATGCATCGATGCACATACCATGCATCGATGCACTCAGGCTTTTTCAA
1 AACATCGAATGCATTTGATGCATCGATGCACATACCATGCATCGATGCACTCAGGCTTTTTAAA
* * *
123069 AACATCGAATACATTTTATGCATCGGTGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
123100 TCTTAGTGCA
Statistics
Matches: 87, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
64 29 0.33
66 1 0.01
67 57 0.66
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.30
Consensus pattern (64 bp):
AACATCGAATGCATTTGATGCATCGATGCACATACCATGCATCGATGCACTCAGGCTTTTTAAA
Done.