Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000383.1 Hibiscus syriacus cultivar Beakdansim tig00000704_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: 64435
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Found at i:7835 original size:6 final size:6
Alignment explanation
Indices: 7798--7848 Score: 52
Period size: 6 Copynumber: 8.8 Consensus size: 6
7788 ATATGCTCCT
* * * *
7798 GATGAT GATGAG GA-GAG GAGGAG GAGGAG GATGAG GATGAT GATGA-
1 GATGAG GATGAG GATGAG GATGAG GATGAG GATGAG GATGAG GATGAG
7844 GATGA
1 GATGA
7849 TGAGAGTGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
5 10 0.24
6 31 0.76
ACGTcount: A:0.35, C:0.00, G:0.49, T:0.16
Consensus pattern (6 bp):
GATGAG
Found at i:7849 original size:11 final size:12
Alignment explanation
Indices: 7798--7851 Score: 58
Period size: 12 Copynumber: 4.7 Consensus size: 12
7788 ATATGCTCCT
7798 GATGATGATGAG
1 GATGATGATGAG
* *
7810 GA-GAGGAGGAG
1 GATGATGATGAG
* *
7821 GAGGAGGATGAG
1 GATGATGATGAG
7833 GATGATGATGA-
1 GATGATGATGAG
7844 GATGATGA
1 GATGATGA
7852 GAGTGAGGAG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
11 17 0.47
12 19 0.53
ACGTcount: A:0.35, C:0.00, G:0.48, T:0.17
Consensus pattern (12 bp):
GATGATGATGAG
Found at i:8119 original size:25 final size:25
Alignment explanation
Indices: 8088--8138 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
8078 TCTTGTTTAA
8088 TTAATTGGTGATGCTCAAATGAAAT
1 TTAATTGGTGATGCTCAAATGAAAT
8113 TTAATTGGTGATGCTCAAATGAAAT
1 TTAATTGGTGATGCTCAAATGAAAT
8138 T
1 T
8139 AACTGAAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.37
Consensus pattern (25 bp):
TTAATTGGTGATGCTCAAATGAAAT
Found at i:14552 original size:37 final size:37
Alignment explanation
Indices: 14502--14574 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
14492 AGTCAAAAGG
14502 TTTAGAAGTGAGGGAAAAAGATGGGATTATGAGGATC
1 TTTAGAAGTGAGGGAAAAAGATGGGATTATGAGGATC
*
14539 TTTAGAAGTGAGGGCAAAAGATGGGATTATGAGGAT
1 TTTAGAAGTGAGGGAAAAAGATGGGATTATGAGGAT
14575 TATCTCTGGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.37, C:0.03, G:0.36, T:0.25
Consensus pattern (37 bp):
TTTAGAAGTGAGGGAAAAAGATGGGATTATGAGGATC
Found at i:19584 original size:49 final size:51
Alignment explanation
Indices: 19507--19616 Score: 129
Period size: 49 Copynumber: 2.2 Consensus size: 51
19497 GTTAGATAAC
* * * *
19507 AATAATAAAAAATATTAATAAATCAAAGGG-CAAAGGAAAAAATAA-AAAA
1 AATAATAAATAATATAAATAAATCAAAGGGAAAAAGAAAAAAATAAGAAAA
* *
19556 AATAATAAATAATA-AAATCAATCAAAAGGGAAAAAGAAAAAAATAAGTAAA
1 AATAATAAATAATATAAATAAATC-AAAGGGAAAAAGAAAAAAATAAGAAAA
19607 AATAA-AAATA
1 AATAATAAATA
19617 GATCAAAAGG
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
48 7 0.13
49 19 0.37
50 18 0.35
51 8 0.15
ACGTcount: A:0.71, C:0.04, G:0.09, T:0.16
Consensus pattern (51 bp):
AATAATAAATAATATAAATAAATCAAAGGGAAAAAGAAAAAAATAAGAAAA
Found at i:19644 original size:44 final size:41
Alignment explanation
Indices: 19545--19627 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 41
19535 GGCAAAGGAA
19545 AAAATAAAAAAAATAATAAATAATAAAATCAATCAAAAGGG
1 AAAATAAAAAAAATAATAAATAATAAAATCAATCAAAAGGG
19586 AAAA-AGAAAAAAATAAGTAAA-AATAAAAAT-AGATCAAAAGGG
1 AAAATA-AAAAAAATAA-TAAATAAT-AAAATCA-ATCAAAAGGG
19628 GGAAAATTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
40 1 0.03
41 18 0.47
42 19 0.50
ACGTcount: A:0.71, C:0.04, G:0.11, T:0.14
Consensus pattern (41 bp):
AAAATAAAAAAAATAATAAATAATAAAATCAATCAAAAGGG
Found at i:21190 original size:5 final size:5
Alignment explanation
Indices: 21180--21204 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
21170 ATGTAAACAA
21180 AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT
21205 GTAATATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:21822 original size:36 final size:36
Alignment explanation
Indices: 21736--22394 Score: 921
Period size: 36 Copynumber: 18.4 Consensus size: 36
21726 CAAAGAGTGG
* *
21736 TGTTTCAAGAGAAACTGTCTCAAAAGAGACAAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAAATT
* *
21773 TGTTTTAAAGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* *
21809 TGTTTCAAGGGAAAATGTCTCAAGAGAGACAAAATG
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
*
21845 TGTTTCAAGGGAAACTGTATCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * *
21881 TGTTTCAAGGGAAATTGTCTCAAGGGAGACGAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
*
21917 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
*
21953 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* *
21989 TGTTTCAAGGGAAACTGTCTCAAGGGAGGCAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* *
22025 TGTTTCAAGGGAAACTGTCTCAAGAGAGGCAAAATA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
*
22061 TGTTTCAAGGGAAACTGTCTTAAGAGAG--AAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * *
22095 TGTTTAAAGGGAAACTGTCTCAAGGGAGACGAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * *
22131 TGTTTAAAGGGAAACTGTCTCAAGGGAGACGAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* *
22167 TGTTTCAAGGGAAACTGTCTCAAGGGAGACGAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * * * * * *
22203 TATTTTAAGGGAAATTATCTCAAGGGAGACCAAATA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
*
22239 TGTTTAAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* ** *
22275 TGTTTCAAGGGAAACTGTCTCAAGGGAGAGGAAACT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
*
22311 TGTTTTAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* *
22347 TGTTTCGAGAGAAACTGTCTCAAGAGAG--AAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
22381 TGTTTCAAGGGAAA
1 TGTTTCAAGGGAAA
22395 TAATCTCAAA
Statistics
Matches: 559, Mismatches: 61, Indels: 7
0.89 0.10 0.01
Matches are distributed among these distances:
34 48 0.09
36 485 0.87
37 26 0.05
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.25
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
Found at i:21844 original size:19 final size:19
Alignment explanation
Indices: 21788--21845 Score: 61
Period size: 15 Copynumber: 3.2 Consensus size: 19
21778 TAAAGGAAAC
21788 TGTCTCAAGAGAGACAAAA
1 TGTCTCAAGAGAGACAAAA
*
21807 TTTGTTTCAAG-G-G--AAAA
1 --TGTCTCAAGAGAGACAAAA
21824 TGTCTCAAGAGAGACAAAA
1 TGTCTCAAGAGAGACAAAA
21843 TGT
1 TGT
21846 GTTTCAAGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
15 8 0.26
16 1 0.03
17 5 0.16
19 8 0.26
20 1 0.03
21 8 0.26
ACGTcount: A:0.41, C:0.12, G:0.22, T:0.24
Consensus pattern (19 bp):
TGTCTCAAGAGAGACAAAA
Found at i:21924 original size:21 final size:21
Alignment explanation
Indices: 21864--21928 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
21854 GGAAACTGTA
* *
21864 TCAAGAGAGACAAAATTTGTT
1 TCAAGGGAGACGAAATTTGTT
*
21885 TCAA--G-G--GAAA-TTGTC
1 TCAAGGGAGACGAAATTTGTT
21900 TCAAGGGAGACGAAATTTGTT
1 TCAAGGGAGACGAAATTTGTT
21921 TCAAGGGA
1 TCAAGGGA
21929 AACTGTCTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
15 8 0.23
16 3 0.09
17 1 0.03
18 2 0.06
19 1 0.03
20 4 0.11
21 16 0.46
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.26
Consensus pattern (21 bp):
TCAAGGGAGACGAAATTTGTT
Found at i:22174 original size:21 final size:21
Alignment explanation
Indices: 22114--22178 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
22104 GGAAACTGTC
22114 TCAAGGGAGACGAAATTTGTT
1 TCAAGGGAGACGAAATTTGTT
* * *
22135 T-AA---AG-GGAAA-CTGTC
1 TCAAGGGAGACGAAATTTGTT
22150 TCAAGGGAGACGAAATTTGTT
1 TCAAGGGAGACGAAATTTGTT
22171 TCAAGGGA
1 TCAAGGGA
22179 AACTGTCTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
15 4 0.12
16 6 0.19
17 2 0.06
19 2 0.06
20 6 0.19
21 12 0.38
ACGTcount: A:0.35, C:0.11, G:0.29, T:0.25
Consensus pattern (21 bp):
TCAAGGGAGACGAAATTTGTT
Found at i:22388 original size:19 final size:19
Alignment explanation
Indices: 22330--22389 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
22320 GGAAACTGTC
22330 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAG--AAAATTTGTT
* *
22351 TC--GAGAG-AAA-CTGTC
1 TCAAGAGAGAAAATTTGTT
22366 TCAAGAGAGAAAATTTGTT
1 TCAAGAGAGAAAATTTGTT
22385 TCAAG
1 TCAAG
22390 GGAAATAATC
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
15 5 0.16
16 3 0.10
17 5 0.16
18 3 0.10
19 13 0.42
21 2 0.06
ACGTcount: A:0.40, C:0.12, G:0.22, T:0.27
Consensus pattern (19 bp):
TCAAGAGAGAAAATTTGTT
Found at i:22932 original size:83 final size:82
Alignment explanation
Indices: 22403--22949 Score: 514
Period size: 83 Copynumber: 6.6 Consensus size: 82
22393 AATAATCTCA
* * * * *
22403 AAGGTTTTTATTGACAGATAACTCTTCTAGCCTTAAGTTATGCTGTAAATGATGTGCCATCGGAG
1 AAGGTCTTT-TTGGCAGATAACCCTTCTAGCCTTAAGTTATGCTGCAAATGATGTGCC-TTGGAG
* *
22468 CTGAGTGTAATCGAACTCG
64 CTGAGCGTAGTCGAACTCG
* * * * * * ** * * *
22487 -AGG-GTTTTTGGCAAATAGCCCTTCTCGACTTAAGATATGCTATAAATGATTTGACTTAGAGCT
1 AAGGTCTTTTTGGCAGATAACCCTTCTAGCCTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCT
22550 GAGCGTAGTCGAACTCG
66 GAGCGTAGTCGAACTCG
* * * * * *
22567 AAGGTCTTTGGTTGGCAGATAACCCTTTTCGACTTAAGTTATGCTTCAAATGATATGCCTTAGAG
1 AAGGTCTTT--TTGGCAGATAACCCTTCTAGCCTTAAGTTATGCTGCAAATGATGTGCCTTGGAG
*
22632 CTAAGCGTAGTCGAACTCG
64 CTGAGCGTAGTCGAACTCG
* * * * * *
22651 AAGGTC-TTTTGGTCATAAATAACCCTTCTAGCCTTGAGTTATGCTACAAATGATGCGCCCTCGA
1 AAGGTCTTTTTGG-C--AGATAACCCTTCTAGCCTTAAGTTATGCTGCAAATGATGTG-CCTTGG
* * *
22715 AGCTGAGTGTAATCAAACTC-
62 AGCTGAGCGTAGTCGAACTCG
* * * *
22735 AAGGGTC--TTTGGCAGATAGCCCTTCTCA-ACTTAAGCTATGCTGTAAATGATGTGCCTTGGAG
1 AA-GGTCTTTTTGGCAGATAACCCTTCT-AGCCTTAAGTTATGCTGCAAATGATGTGCCTTGGAG
*
22797 ATGAGCGTAGTCGAACTCG
64 CTGAGCGTAGTCGAACTCG
* * * * * *
22816 AAGGTCTTTTTTGGCAAATAACCCTTCTTGCCTTGAGCTATGTTGCAAATAATGTGCCTTGGAGC
1 AAGGTC-TTTTTGGCAGATAACCCTTCTAGCCTTAAGTTATGCTGCAAATGATGTGCCTTGGAGC
*
22881 TGAGCATAGTCGAACTCG
65 TGAGCGTAGTCGAACTCG
*
22899 AAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATG
1 AAGGTCTTT-TTGGCAGATAACCCTTCTAGCCTTAAGTTATGCTGCAAATG
22950 TTATCTTAAA
Statistics
Matches: 378, Mismatches: 69, Indels: 33
0.79 0.14 0.07
Matches are distributed among these distances:
80 45 0.12
81 78 0.21
82 11 0.03
83 111 0.29
84 110 0.29
85 23 0.06
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.31
Consensus pattern (82 bp):
AAGGTCTTTTTGGCAGATAACCCTTCTAGCCTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCT
GAGCGTAGTCGAACTCG
Found at i:26997 original size:41 final size:43
Alignment explanation
Indices: 26952--27053 Score: 131
Period size: 41 Copynumber: 2.4 Consensus size: 43
26942 AAAGGGCAAA
26952 GGAAAAATAAAAAAATAA-TAAATAAT-AAAATCA-ATCAAAA-G
1 GGAAAAATAAAAAAATAAGTAAA-AATAAAAAT-AGATCAAAAGG
*
26993 GGAAAAAGAAAAAAATAAGTAAAAATAAAAATAGATCAAAAGG
1 GGAAAAATAAAAAAATAAGTAAAAATAAAAATAGATCAAAAGG
*
27036 GGAAAAATTAAATAAATA
1 GGAAAAA-TAAAAAAATA
27054 TGAAAACAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
41 21 0.40
42 16 0.30
43 8 0.15
44 8 0.15
ACGTcount: A:0.70, C:0.03, G:0.12, T:0.16
Consensus pattern (43 bp):
GGAAAAATAAAAAAATAAGTAAAAATAAAAATAGATCAAAAGG
Found at i:27559 original size:44 final size:46
Alignment explanation
Indices: 27473--27561 Score: 114
Period size: 44 Copynumber: 2.0 Consensus size: 46
27463 CATAAATAAA
**
27473 ATAAGAAATAAATAATAAAATAATAATAAAAAGTTAGTTTAAAAAT
1 ATAAGAAATAAATAATAAAATAATAATAAAAAGTTAAATTAAAAAT
27519 ATAA-AAAT-AATAATAAAATAA-AATAGAAGAA-TTAAATTAAAAA
1 ATAAGAAATAAATAATAAAATAATAATA-AA-AAGTTAAATTAAAAA
27562 CGTGAAGAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
43 4 0.10
44 25 0.64
45 6 0.15
46 4 0.10
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.26
Consensus pattern (46 bp):
ATAAGAAATAAATAATAAAATAATAATAAAAAGTTAAATTAAAAAT
Found at i:28639 original size:5 final size:5
Alignment explanation
Indices: 28631--28655 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
28621 ATGTAAACAA
28631 AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT
28656 GTAGTATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:29950 original size:20 final size:19
Alignment explanation
Indices: 29925--29978 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
29915 GCGAAATAAA
29925 AATCGCAACGCGATCTCCAG
1 AATCGCAACGCGATC-CCAG
** *
29945 AATCGCAAATCAGTTCCCAG
1 AATCGCAACGC-GATCCCAG
29965 AATCGCAACGCGAT
1 AATCGCAACGCGAT
29979 TATGAAGAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.33, C:0.31, G:0.19, T:0.17
Consensus pattern (19 bp):
AATCGCAACGCGATCCCAG
Found at i:29989 original size:21 final size:20
Alignment explanation
Indices: 29965--30097 Score: 74
Period size: 20 Copynumber: 6.5 Consensus size: 20
29955 CAGTTCCCAG
29965 AATCGCAACGCGATTATGAA
1 AATCGCAACGCGATTATGAA
*
29985 GAATCGCAATGCGA-TA-GTACA
1 -AATCGCAACGCGATTATG-A-A
* ** * * *
30006 AATTAGCATTGCGATTTTCCAG
1 AA-TCGCAACGCGATTAT-GAA
*
30028 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGATTATGAA
**
30048 AATCGCAACGCGAACAT-ATA
1 AATCGCAACGCGATTATGA-A
* *
30068 AATCGCAACGCGATTCTGAC
1 AATCGCAACGCGATTATGAA
*
30088 TATCGCAACG
1 AATCGCAACG
30098 AGTATCCGTA
Statistics
Matches: 85, Mismatches: 19, Indels: 17
0.70 0.16 0.14
Matches are distributed among these distances:
19 2 0.02
20 46 0.54
21 33 0.39
22 3 0.04
23 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.21
Consensus pattern (20 bp):
AATCGCAACGCGATTATGAA
Found at i:30053 original size:20 final size:20
Alignment explanation
Indices: 30028--30245 Score: 129
Period size: 20 Copynumber: 10.8 Consensus size: 20
30018 GATTTTCCAG
*
30028 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATCTGAA
30048 AATCGCAACGCGAA-CAT-ATA
1 AATCGCAACGCGAATC-TGA-A
* *
30068 AATCGCAACGCGATTCTGAC
1 AATCGCAACGCGAATCTGAA
* * * *
30088 TATCGCAACGAGTATCCGTAA
1 AATCGCAACGCGAATCTG-AA
* * *
30109 AATCGCAACGAGTATCCGTAA
1 AATCGCAACGCGAATCTG-AA
* *
30130 AATCGCAACGCGTATCTGTA
1 AATCGCAACGCGAATCTGAA
30150 AATCGCAACGAC-AATAC-GTAA
1 AATCGCAACG-CGAAT-CTG-AA
* * *
30171 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCTGAA
* * ** *
30191 AATTGCAACGAGAATAAGTA
1 AATCGCAACGCGAATCTGAA
* * *
30211 AATGGCAACGCGTATCTGCA
1 AATCGCAACGCGAATCTGAA
*
30231 AATCGCAACGAGAAT
1 AATCGCAACGCGAAT
30246 ACATAAATCA
Statistics
Matches: 157, Mismatches: 31, Indels: 20
0.75 0.15 0.10
Matches are distributed among these distances:
19 1 0.01
20 101 0.64
21 55 0.35
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAATCTGAA
Found at i:30115 original size:21 final size:20
Alignment explanation
Indices: 30089--30301 Score: 174
Period size: 20 Copynumber: 10.4 Consensus size: 20
30079 GATTCTGACT
30089 ATCGCAACGAGTATCCGTAAA
1 ATCGCAACGAGTATCCGT-AA
30110 ATCGCAACGAGTATCCGTAAA
1 ATCGCAACGAGTATCCGT-AA
* *
30131 ATCGCAACGCGTATCTGTAA
1 ATCGCAACGAGTATCCGTAA
** *
30151 ATCGCAACGACAATACGTAAA
1 ATCGCAACGAGTATCCGT-AA
*
30172 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGTATCCGTAA
* * **
30192 ATTGCAACGAGAATAAGTAA
1 ATCGCAACGAGTATCCGTAA
* * * *
30212 ATGGCAACGCGTATCTGCAA
1 ATCGCAACGAGTATCCGTAA
* * *
30232 ATCGCAACGAGAATACATAA
1 ATCGCAACGAGTATCCGTAA
** * *
30252 ATCATAATGTGTATCCGTAA
1 ATCGCAACGAGTATCCGTAA
** *
30272 ATCGCAACGACAATACGTAAA
1 ATCGCAACGAGTATCCGT-AA
30293 ATCGCAACG
1 ATCGCAACG
30302 CGATTTTTAA
Statistics
Matches: 147, Mismatches: 43, Indels: 4
0.76 0.22 0.02
Matches are distributed among these distances:
20 83 0.56
21 64 0.44
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (20 bp):
ATCGCAACGAGTATCCGTAA
Found at i:30253 original size:40 final size:41
Alignment explanation
Indices: 30089--30303 Score: 263
Period size: 40 Copynumber: 5.3 Consensus size: 41
30079 GATTCTGACT
* * *
30089 ATCGCAACGAGTATCCGTAAAATCGCAACGAGTATCCGTAAA
1 ATCGCAACGCGTATCCGT-AAATCGCAACGAGAATACGTAAA
* *
30131 ATCGCAACGCGTATCTGTAAATCGCAACGACAATACGTAAA
1 ATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAAA
* *
30172 ATCGCAACGCGTATCCGTAAATTGCAACGAGAATAAGT-AA
1 ATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAAA
* * * *
30212 ATGGCAACGCGTATCTGCAAATCGCAACGAGAATACAT-AA
1 ATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAAA
** * * *
30252 ATCATAATGTGTATCCGTAAATCGCAACGACAATACGTAAA
1 ATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAAA
30293 ATCGCAACGCG
1 ATCGCAACGCG
30304 ATTTTTAAAG
Statistics
Matches: 144, Mismatches: 28, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
40 65 0.45
41 63 0.44
42 16 0.11
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAAA
Found at i:32169 original size:94 final size:94
Alignment explanation
Indices: 32008--32388 Score: 649
Period size: 94 Copynumber: 4.1 Consensus size: 94
31998 TTAGATTGCT
* * *
32008 AAGTAAATTTATTCGGTTGCTGTCAATACTGCTAAACTGTTTATTCTTTAACACTGTGAAGTTAG
1 AAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAG
*
32073 TATTTGTCTTTTGTTTTATCTTTTGGTTG-
66 TATTTGTC-TTTGTTTTGTCTTTTGGTTGA
*
32102 AAGTAAATTTATTCGGTTGCTGCCAATTCTACTAAACTGTGTATTCTTTAACACTGTGAAGTTAG
1 AAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAG
32167 TATTTGTCTTTGTTTTGTCTTTTGGTTGA
66 TATTTGTCTTTGTTTTGTCTTTTGGTTGA
* *
32196 AAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTTTGAAGTTAG
1 AAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAG
32261 TATTTGTCTTTGTTTTGTCTTTTGGTTGA
66 TATTTGTCTTTGTTTTGTCTTTTGGTTGA
* * *
32290 AAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAG
1 AAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAG
32355 TATTTGTCTTTGTTTTGTCTTTTGGTTG-
66 TATTTGTCTTTGTTTTGTCTTTTGGTTGA
32383 AAGTAA
1 AAGTAA
32389 TGCAATCCAT
Statistics
Matches: 276, Mismatches: 10, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
93 25 0.09
94 251 0.91
ACGTcount: A:0.22, C:0.12, G:0.18, T:0.48
Consensus pattern (94 bp):
AAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAG
TATTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:32489 original size:21 final size:21
Alignment explanation
Indices: 32452--32527 Score: 70
Period size: 19 Copynumber: 3.8 Consensus size: 21
32442 CACGAAACTT
**
32452 AAAATCGCAACATGAAAAATG
1 AAAATCGCAACGCGAAAAATG
**
32473 ACTATCGCAACGCG--AAATG
1 AAAATCGCAACGCGAAAAATG
**
32492 AAAATCGCAACGCG--AAACC
1 AAAATCGCAACGCGAAAAATG
32511 AAAATCGCAACGCGAAA
1 AAAATCGCAACGCGAAA
32528 CTATAATCGC
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 34 0.76
21 11 0.24
ACGTcount: A:0.49, C:0.24, G:0.17, T:0.11
Consensus pattern (21 bp):
AAAATCGCAACGCGAAAAATG
Found at i:32535 original size:19 final size:19
Alignment explanation
Indices: 32476--32537 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
32466 AAAAATGACT
32476 ATCGCAACGCGAAA-TGAAA
1 ATCGCAACGCGAAACT-AAA
*
32495 ATCGCAACGCGAAACCAAA
1 ATCGCAACGCGAAACTAAA
*
32514 ATCGCAACGCGAAACTATA
1 ATCGCAACGCGAAACTAAA
32533 ATCGC
1 ATCGC
32538 GTTGCGATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.44, C:0.27, G:0.18, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAACTAAA
Found at i:32579 original size:33 final size:33
Alignment explanation
Indices: 32537--32630 Score: 170
Period size: 33 Copynumber: 2.8 Consensus size: 33
32527 ACTATAATCG
* *
32537 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTAT
32570 CGTTGCGATTTTCATTTCGCGTTGCGATTCTAT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTAT
32603 CGTTGCGATTTTCATTTCGCGTTGCGAT
1 CGTTGCGATTTTCATTTCGCGTTGCGAT
32631 AGTCATTTTT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.12, C:0.22, G:0.21, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTCTAT
Found at i:32638 original size:19 final size:19
Alignment explanation
Indices: 32534--32630 Score: 97
Period size: 19 Copynumber: 5.6 Consensus size: 19
32524 GAAACTATAA
32534 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
32553 TCGCATTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
32567 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
32586 TCGCGTTGCGA--TTC-TA
1 TCGCGTTGCGATTTTCATT
32602 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
32619 TCGCGTTGCGAT
1 TCGCGTTGCGAT
32631 AGTCATTTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 17 0.27
16 8 0.13
17 8 0.13
19 29 0.47
ACGTcount: A:0.11, C:0.23, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:33131 original size:21 final size:21
Alignment explanation
Indices: 33107--33173 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
33097 TCATTCCTCG
33107 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
33128 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
33149 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
33170 AGAG
1 AGAG
33174 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:33131 original size:42 final size:42
Alignment explanation
Indices: 33055--33173 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
33045 GACTCGCATG
* * * * * * *
33055 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
33097 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
33139 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
33174 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:34539 original size:14 final size:14
Alignment explanation
Indices: 34520--34555 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
34510 ATTTTTTAAT
34520 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
34534 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
34548 TGATTTGT
1 TGATTTGT
34556 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:34699 original size:33 final size:33
Alignment explanation
Indices: 34662--34741 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
34652 AAAAATGATT
* * *
34662 ATCGCAATGCGAAATGAAAATCGCAATGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
* *
34695 ATCGCAATGCAAAATGAAAATTGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
34728 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
34742 CTAAATTCGC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:34793 original size:33 final size:33
Alignment explanation
Indices: 34751--34917 Score: 181
Period size: 33 Copynumber: 4.8 Consensus size: 33
34741 ACTAAATTCG
***
34751 CGTTGCGATTTTCATTTCATTTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
34784 CGTTGCGATTTTCATTTCGCATTGCGATAGTCATTTCCG
1 CGTTGCGATTTTCATTTCGCATTGCGAT--TC---T-CT
* * * *
34823 CGTTGCGATATTCATATTCGCGTTGCGATTTTCA
1 CGTTGCGATTTTCAT-TTCGCATTGCGATTCTCT
* *
34857 CGTTGCAATTTTCATTTCGCATTGCGATTATCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
34890 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
34918 AGACATTAAG
Statistics
Matches: 113, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
33 67 0.59
34 14 0.12
35 3 0.03
38 2 0.02
39 15 0.13
40 12 0.11
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:34830 original size:20 final size:19
Alignment explanation
Indices: 34784--34856 Score: 92
Period size: 20 Copynumber: 3.7 Consensus size: 19
34774 GCGATTCTCT
*
34784 CGTTGCGATTTTCATTTCG
1 CGTTGCGATATTCATTTCG
* *
34803 CATTGCGATAGTCATTTCCG
1 CGTTGCGATATTCATTT-CG
34823 CGTTGCGATATTCATATTCG
1 CGTTGCGATATTCAT-TTCG
*
34843 CGTTGCGATTTTCA
1 CGTTGCGATATTCA
34857 CGTTGCAATT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
19 14 0.30
20 30 0.65
21 2 0.04
ACGTcount: A:0.16, C:0.22, G:0.21, T:0.41
Consensus pattern (19 bp):
CGTTGCGATATTCATTTCG
Found at i:34862 original size:14 final size:14
Alignment explanation
Indices: 34843--34903 Score: 50
Period size: 14 Copynumber: 4.0 Consensus size: 14
34833 TTCATATTCG
34843 CGTTGCGATTTTCA
1 CGTTGCGATTTTCA
*
34857 CGTTGCAATTTTCA
1 CGTTGCGATTTTCA
* *
34871 TTTCGCATTGCGATTATCT
1 ---CG--TTGCGATTTTCA
34890 CGTTGCGATTTTCA
1 CGTTGCGATTTTCA
34904 TTTCGCATTG
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
14 23 0.64
16 2 0.06
17 2 0.06
19 9 0.25
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTTTCA
Found at i:34868 original size:73 final size:72
Alignment explanation
Indices: 34749--34884 Score: 200
Period size: 73 Copynumber: 1.9 Consensus size: 72
34739 AAACTAAATT
* ** * *
34749 CGCGTTGCGATTTTCATTTCATTTTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATAG
1 CGCGTTGCGATATTCATTTCACGTTGCGATTCTCACGTTGCAATTTTCATTTCGCATTGCGATAG
34814 TCATTTC
66 TCATTTC
* *
34821 CGCGTTGCGATATTCATATTCGCGTTGCGATTTTCACGTTGCAATTTTCATTTCGCATTGCGAT
1 CGCGTTGCGATATTCAT-TTCACGTTGCGATTCTCACGTTGCAATTTTCATTTCGCATTGCGAT
34885 TATCTCGTTG
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
72 16 0.29
73 40 0.71
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.43
Consensus pattern (72 bp):
CGCGTTGCGATATTCATTTCACGTTGCGATTCTCACGTTGCAATTTTCATTTCGCATTGCGATAG
TCATTTC
Found at i:37420 original size:24 final size:24
Alignment explanation
Indices: 37369--37420 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
37359 ATCTGAGTAT
** *
37369 TGACCAAGATCAAAGTCCGGGTAT
1 TGACCAAGATCAAAGTCCGAATAC
* *
37393 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
37417 TGAC
1 TGAC
37421 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGAATAC
Found at i:38294 original size:20 final size:20
Alignment explanation
Indices: 38271--38361 Score: 80
Period size: 20 Copynumber: 4.5 Consensus size: 20
38261 GAATCTCGTT
38271 GCGATTTAC-TAAATCGCAAC
1 GCGA-TTACGTAAATCGCAAC
38291 GCGATTACGTAAATCGCAAC
1 GCGATTACGTAAATCGCAAC
* * **
38311 GCGAATACGT-ATTCGCATT
1 GCGATTACGTAAATCGCAAC
**
38330 GCGATTTACGT-AATCGCATT
1 GCGA-TTACGTAAATCGCAAC
38350 GCGATTTACGTA
1 GCGA-TTACGTA
38362 TTCGCATTGC
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
19 14 0.23
20 48 0.77
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.29
Consensus pattern (20 bp):
GCGATTACGTAAATCGCAAC
Found at i:38360 original size:40 final size:40
Alignment explanation
Indices: 38269--38440 Score: 129
Period size: 40 Copynumber: 4.3 Consensus size: 40
38259 CAGAATCTCG
* **
38269 TTGCGATTTAC-TAAATCGCAACGCGA-TTACGTAAATCGCA
1 TTGCGATTTACGT-ATTCGCATTGCGATTTACGT-AATCGCA
** *
38309 ACGCGA-ATACGTATTCGCATTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTATTCGCATTGCGATTTACGTAATCGCA
* * *
38348 TTGCGATTTACGTATTCGCATTGCGATTTACG-GATACACG
1 TTGCGATTTACGTATTCGCATTGCGATTTACGTAAT-CGCA
* * * * * *
38388 TTACGATTTACGGATACGCGTTGCGATTTTACGT-ATTGTCG
1 TTGCGATTTACGTATTCGCATTGCGA-TTTACGTAATCG-CA
38429 TTGCGATTTACG
1 TTGCGATTTACG
38441 AATATACGTT
Statistics
Matches: 106, Mismatches: 19, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
39 26 0.25
40 59 0.56
41 21 0.20
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (40 bp):
TTGCGATTTACGTATTCGCATTGCGATTTACGTAATCGCA
Found at i:38366 original size:20 final size:20
Alignment explanation
Indices: 38316--38440 Score: 135
Period size: 20 Copynumber: 6.2 Consensus size: 20
38306 GCAACGCGAA
38316 TACGTATTCGCATTGCGATT
1 TACGTATTCGCATTGCGATT
*
38336 TACGTAATCGCATTGCGATT
1 TACGTATTCGCATTGCGATT
38356 TACGTATTCGCATTGCGATT
1 TACGTATTCGCATTGCGATT
* * * * *
38376 TACGGATACACGTTACGATT
1 TACGTATTCGCATTGCGATT
* * *
38396 TACGGATACGCGTTGCGATTT
1 TACGTATTCGCATTGCGA-TT
*
38417 TACGTATT-GTCGTTGCGATT
1 TACGTATTCG-CATTGCGATT
38437 TACG
1 TACG
38441 AATATACGTT
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
20 76 0.83
21 16 0.17
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (20 bp):
TACGTATTCGCATTGCGATT
Found at i:38436 original size:41 final size:41
Alignment explanation
Indices: 38348--38498 Score: 155
Period size: 41 Copynumber: 3.7 Consensus size: 41
38338 CGTAATCGCA
* * * *
38348 TTGCGATTTACGTATTCGCATTGCGA-TTTACGGATACACG
1 TTGCGATTTACGAATACGCGTTGCGATTTTACGGATACTCG
* * * **
38388 TTACGATTTACGGATACGCGTTGCGATTTTACGTATTGTCG
1 TTGCGATTTACGAATACGCGTTGCGATTTTACGGATACTCG
**
38429 TTGCGATTTACGAATATACGTTGCGATTTTACGGATACTCG
1 TTGCGATTTACGAATACGCGTTGCGATTTTACGGATACTCG
*
38470 TTGCGATAGT-CAGAAT-CGCGTTGCGATTT
1 TTGCGAT-TTAC-GAATACGCGTTGCGATTT
38499 ATATGTTCGC
Statistics
Matches: 90, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
40 22 0.24
41 63 0.70
42 5 0.06
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (41 bp):
TTGCGATTTACGAATACGCGTTGCGATTTTACGGATACTCG
Found at i:38436 original size:61 final size:61
Alignment explanation
Indices: 38331--38476 Score: 181
Period size: 61 Copynumber: 2.4 Consensus size: 61
38321 ATTCGCATTG
* * *
38331 CGATTTACGTA-ATCGCATTGCGA-TTTACGTATTCGCATTGCGATTTACGGATACACGTTA
1 CGATTTACGGATA-CGCGTTGCGATTTTACGTATTCGCATTGCGATTTACGAATACACGTTA
* * *
38391 CGATTTACGGATACGCGTTGCGATTTTACGTATT-GTCGTTGCGATTTACGAATATACGTTG
1 CGATTTACGGATACGCGTTGCGATTTTACGTATTCG-CATTGCGATTTACGAATACACGTTA
*
38452 CGATTTTACGGATACTCGTTGCGAT
1 CGA-TTTACGGATACGCGTTGCGAT
38477 AGTCAGAATC
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
60 20 0.27
61 35 0.47
62 20 0.27
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (61 bp):
CGATTTACGGATACGCGTTGCGATTTTACGTATTCGCATTGCGATTTACGAATACACGTTA
Found at i:38450 original size:20 final size:20
Alignment explanation
Indices: 38368--38476 Score: 105
Period size: 20 Copynumber: 5.3 Consensus size: 20
38358 CGTATTCGCA
*
38368 TTGCGATTTACGGATACACG
1 TTGCGATTTACGGATATACG
* **
38388 TTACGATTTACGGATACGCG
1 TTGCGATTTACGGATATACG
* *
38408 TTGCGATTTTACGTAT-TGTCG
1 TTGCGA-TTTACGGATAT-ACG
*
38429 TTGCGATTTACGAATATACG
1 TTGCGATTTACGGATATACG
38449 TTGCGATTTTACGGATACT-CG
1 TTGCGA-TTTACGGATA-TACG
38470 TTGCGAT
1 TTGCGAT
38477 AGTCAGAATC
Statistics
Matches: 75, Mismatches: 9, Indels: 10
0.80 0.10 0.11
Matches are distributed among these distances:
20 40 0.53
21 34 0.45
22 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (20 bp):
TTGCGATTTACGGATATACG
Found at i:38492 original size:61 final size:60
Alignment explanation
Indices: 38363--38499 Score: 159
Period size: 61 Copynumber: 2.2 Consensus size: 60
38353 ATTTACGTAT
* * * * *
38363 TCGCATTGCGATTTACGGATACACGTTACGATTTACGGATACGCGTTGCGATTTTACGTA
1 TCGCGTTGCGATTTACGAATACACGTTACGATTTACGGATACGCGTTGCGATGTCACGAA
* * * *
38423 TTGTCGTTGCGATTTACGAATATACGTTGCGATTTTACGGATACTCGTTGCGATAGTCA-GAA
1 TCG-CGTTGCGATTTACGAATACACGTTACGA-TTTACGGATACGCGTTGCGAT-GTCACGAA
38485 TCGCGTTGCGATTTA
1 TCGCGTTGCGATTTA
38500 TATGTTCGCG
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
60 2 0.03
61 36 0.56
62 24 0.38
63 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (60 bp):
TCGCGTTGCGATTTACGAATACACGTTACGATTTACGGATACGCGTTGCGATGTCACGAA
Found at i:38508 original size:20 final size:20
Alignment explanation
Indices: 38485--38537 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
38475 ATAGTCAGAA
*
38485 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
38505 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
38525 TCGCGTTGCGATT
1 TCGCGTTGCGATT
38538 CTGGAAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.13, C:0.19, G:0.25, T:0.43
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:39784 original size:16 final size:16
Alignment explanation
Indices: 39765--39798 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
39755 CAATATACGA
39765 ATAAAAATATATTTAT
1 ATAAAAATATATTTAT
**
39781 ATAAATGTATATTTAT
1 ATAAAAATATATTTAT
39797 AT
1 AT
39799 TTAGATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:39872 original size:16 final size:18
Alignment explanation
Indices: 39840--39873 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
39830 TATTAATGTA
39840 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
39858 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
39874 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:40570 original size:130 final size:130
Alignment explanation
Indices: 40337--40584 Score: 415
Period size: 130 Copynumber: 1.9 Consensus size: 130
40327 ATTTTTCTTC
* * *
40337 TAATTAGGTGGTGCCATGTGTCACCAATAACATATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
** *
40402 CCTGGTTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * *
40467 TAATTAGGTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
40532 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
40585 TATATAAATA
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.36
Consensus pattern (130 bp):
TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:41044 original size:35 final size:35
Alignment explanation
Indices: 40983--41058 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
40973 AATTGAATTT
* * *
40983 AATTGAATTATTTTGGAATTTAGGGTTTAGAATGA
1 AATTGAATTACTTTGAAAATTAGGGTTTAGAATGA
*
41018 AATTGAATTACTTTGAAAATTGGGGTTTAGAATGA
1 AATTGAATTACTTTGAAAATTAGGGTTTAGAATGA
41053 AATTGA
1 AATTGA
41059 GGATTGTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.37, C:0.01, G:0.22, T:0.39
Consensus pattern (35 bp):
AATTGAATTACTTTGAAAATTAGGGTTTAGAATGA
Found at i:48004 original size:8 final size:8
Alignment explanation
Indices: 47991--48031 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
47981 CTCATTTTCA
47991 GAGAATTT
1 GAGAATTT
47999 GAGAATTT
1 GAGAATTT
*
48007 -AGAGTTT
1 GAGAATTT
48014 G-GAAATTT
1 GAG-AATTT
48022 GAGAATTT
1 GAGAATTT
48030 GA
1 GA
48032 AAGCTTGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
7 7 0.25
8 20 0.71
9 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:48033 original size:15 final size:15
Alignment explanation
Indices: 47991--48033 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
47981 CTCATTTTCA
47991 GAGAATTTGAGAATTT
1 GAGAATTTGA-AATTT
*
48007 -AGAGTTTGGAAATTT
1 GAGAATTT-GAAATTT
48022 GAGAATTTGAAA
1 GAGAATTTGAAA
48034 GCTTGTGAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
15 15 0.65
16 8 0.35
ACGTcount: A:0.40, C:0.00, G:0.26, T:0.35
Consensus pattern (15 bp):
GAGAATTTGAAATTT
Found at i:48335 original size:128 final size:128
Alignment explanation
Indices: 48102--48729 Score: 1134
Period size: 128 Copynumber: 4.9 Consensus size: 128
48092 TAATCGGAGT
* * * *
48102 ACTATTCATATAAAGGCGCATTCCCGGGGGCGCGCCTTCCATTATTTTGTTAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
*
48167 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGATACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* *
48230 ACTATTCACATGAAGGCGCGTTCCCAGGGGCGCTCCTTCCATTATTTAT-TCAGAGAATATGTTA
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTT-TGTCAGAGAATATGTTA
48294 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
65 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
*
48358 ACTATTCATATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
48423 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
48486 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
*
48551 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTA
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* *
48614 ACTATTCACATGAAGGCGCGTT-CCTGGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
48678 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
48730 AATCAGGTAA
Statistics
Matches: 484, Mismatches: 14, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
127 93 0.19
128 390 0.81
129 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.34
Consensus pattern (128 bp):
ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
Found at i:49183 original size:28 final size:27
Alignment explanation
Indices: 49107--49187 Score: 83
Period size: 28 Copynumber: 3.0 Consensus size: 27
49097 AATACAATTG
* *
49107 GAATATTA-AATTTAAATTTAAATTTC
1 GAATACTATAATTTAATTTTAAATTTC
** * *
49133 GAATACTATAATCGGAATGTTAAATTTT
1 GAATACTATAAT-TTAATTTTAAATTTC
49161 GAATACTATAATTTATATTTTAAATTT
1 GAATACTATAATTTA-ATTTTAAATTT
49188 AAATTTCGAA
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
26 7 0.16
27 4 0.09
28 32 0.74
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.46
Consensus pattern (27 bp):
GAATACTATAATTTAATTTTAAATTTC
Found at i:49190 original size:34 final size:34
Alignment explanation
Indices: 49152--49252 Score: 139
Period size: 34 Copynumber: 3.0 Consensus size: 34
49142 AATCGGAATG
* *
49152 TTAAATTTTGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * * *
49186 TTAAATTTCGAATAATATTATTTTTATTTTTATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
49220 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
49253 AACATTTATC
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 57 1.00
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:49800 original size:21 final size:21
Alignment explanation
Indices: 49770--49863 Score: 145
Period size: 21 Copynumber: 4.5 Consensus size: 21
49760 TATGGTATAA
*
49770 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
49791 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
49812 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
*
49833 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
49854 AACCCTGCGG
1 AACCCTGCGG
49864 AGATGGCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 3 0.04
21 63 0.91
22 3 0.04
ACGTcount: A:0.20, C:0.28, G:0.34, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:49893 original size:21 final size:21
Alignment explanation
Indices: 49867--49914 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
49857 CCTGCGGAGA
*
49867 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
49888 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
49909 GGGCAT
1 TGGCAT
49915 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:51684 original size:35 final size:32
Alignment explanation
Indices: 51642--51726 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 32
51632 AATTCTAAAT
51642 AAATAATAATTATATAAATATTATTTTAATAAAAA
1 AAATAATAATTATATAAATA-TA--TTAATAAAAA
* * *
51677 AAATAATATTTACATAAATATATTAATATAAA
1 AAATAATAATTATATAAATATATTAATAAAAA
* * *
51709 ATATAATAACTATTTAAA
1 AAATAATAATTATATAAA
51727 AAAATACTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
32 22 0.52
34 2 0.05
35 18 0.43
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (32 bp):
AAATAATAATTATATAAATATATTAATAAAAA
Found at i:51703 original size:32 final size:34
Alignment explanation
Indices: 51642--51717 Score: 93
Period size: 35 Copynumber: 2.3 Consensus size: 34
51632 AATTCTAAAT
*
51642 AAATAATAATTATATAAATATTATTTTAATAAAAA
1 AAATAATAATTACATAAATATTA-TTTAATAAAAA
* *
51677 AAATAATATTTACATAAATA-TA-TTAATATAAA
1 AAATAATAATTACATAAATATTATTTAATAAAAA
*
51709 ATATAATAA
1 AAATAATAA
51718 CTATTTAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
32 16 0.44
34 2 0.06
35 18 0.50
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (34 bp):
AAATAATAATTACATAAATATTATTTAATAAAAA
Found at i:51742 original size:34 final size:34
Alignment explanation
Indices: 51670--51747 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 34
51660 TATTATTTTA
* * * *
51670 ATAAAAAAAATAATATTTACATAAATATATTAAT
1 ATAAAAATAATAATATTTACATAAAAATACTAAC
51704 ATAAAATATAATAACTATTTA-A-AAAAATACTAAC
1 ATAAAA-ATAATAA-TATTTACATAAAAATACTAAC
51738 ATAAAAATAA
1 ATAAAAATAA
51748 ATTTCTTACT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
33 4 0.11
34 21 0.55
35 7 0.18
36 6 0.16
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (34 bp):
ATAAAAATAATAATATTTACATAAAAATACTAAC
Found at i:52023 original size:50 final size:50
Alignment explanation
Indices: 51927--52024 Score: 117
Period size: 50 Copynumber: 2.0 Consensus size: 50
51917 AATGGAAGGT
* * * * *
51927 GCGTACCCGGGGATGTGCTTTCCACACGTGGCAGTCGAGCTGGCGAAAGC
1 GCGTACCCGGGGATGCGCCTTCCACACGTGGCAGTCCAACTAGCGAAAGC
* *
51977 GCGTCCCCGGGGATGCGCCTTCCACACGTTGCA-TCCAACTCAGCGAAA
1 GCGTACCCGGGGATGCGCCTTCCACACGTGGCAGTCCAACT-AGCGAAA
52025 ACACGGATAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
49 5 0.12
50 35 0.88
ACGTcount: A:0.19, C:0.33, G:0.31, T:0.17
Consensus pattern (50 bp):
GCGTACCCGGGGATGCGCCTTCCACACGTGGCAGTCCAACTAGCGAAAGC
Found at i:53260 original size:18 final size:19
Alignment explanation
Indices: 53239--53279 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
53229 TTCATATTAC
*
53239 TTATTTATTTTCTAT-TTA
1 TTATTTATTATCTATGTTA
*
53257 TTA-TTATTATGTATGTTA
1 TTATTTATTATCTATGTTA
53275 TTATT
1 TTATT
53280 ATATATTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 9 0.47
18 9 0.47
19 1 0.05
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (19 bp):
TTATTTATTATCTATGTTA
Found at i:58516 original size:20 final size:19
Alignment explanation
Indices: 58493--58542 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
58483 ATCATAAAAC
*
58493 TTAATATTATTATTTAAATA
1 TTAAAATTATTATTT-AATA
* *
58513 TTAAAATAATTATTTATTA
1 TTAAAATTATTATTTAATA
58532 TTAAAATTATT
1 TTAAAATTATT
58543 TCTATAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TTAAAATTATTATTTAATA
Found at i:58678 original size:22 final size:23
Alignment explanation
Indices: 58641--58684 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
58631 AGTGTTATAT
58641 TATATTTTAAAAATATTAATTAG
1 TATATTTTAAAAATATTAATTAG
* *
58664 TATA-TTTAAATATATTTATTA
1 TATATTTTAAAAATATTAATTA
58685 AAATATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TATATTTTAAAAATATTAATTAG
Found at i:58690 original size:22 final size:22
Alignment explanation
Indices: 58646--58691 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
58636 TATATTATAT
**
58646 TTTAAAAATATTAATTAGTATA
1 TTTAAAAATATTAATTAAAATA
* *
58668 TTTAAATATATTTATTAAAATA
1 TTTAAAAATATTAATTAAAATA
58690 TT
1 TT
58692 ATTAGATTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
TTTAAAAATATTAATTAAAATA
Found at i:62391 original size:17 final size:17
Alignment explanation
Indices: 62364--62402 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
62354 AATTTACAAT
62364 TAATT-TAAATAATATC
1 TAATTATAAATAATATC
62380 TAATTATAAATAATATC
1 TAATTATAAATAATATC
62397 TAATTA
1 TAATTA
62403 ATTTGATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTATAAATAATATC
Found at i:64062 original size:20 final size:20
Alignment explanation
Indices: 64037--64080 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
64027 AGAAAATGTC
*
64037 TTTTAACATATTTTAAATAA
1 TTTTAACATATTTTAAAGAA
*
64057 TTTTAATATATTTTAAAGAA
1 TTTTAACATATTTTAAAGAA
64077 TTTT
1 TTTT
64081 TTTGATTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (20 bp):
TTTTAACATATTTTAAAGAA
Done.