Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002473.1 Hibiscus syriacus cultivar Beakdansim tig00005054_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: 133726
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:6859 original size:30 final size:29
Alignment explanation
Indices: 6823--6883 Score: 113
Period size: 30 Copynumber: 2.1 Consensus size: 29
6813 TTTGATTTGA
6823 TAGTGTGCTAAATTGTTAAAATTTGTTGTT
1 TAGTGTGCTAAATTGTTAAAATTT-TTGTT
6853 TAGTGTGCTAAATTGTTAAAATTTTTGTT
1 TAGTGTGCTAAATTGTTAAAATTTTTGTT
6882 TA
1 TA
6884 CTTACCATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.28, C:0.03, G:0.18, T:0.51
Consensus pattern (29 bp):
TAGTGTGCTAAATTGTTAAAATTTTTGTT
Found at i:7726 original size:18 final size:18
Alignment explanation
Indices: 7691--7736 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
7681 GTTGGTGATC
* *
7691 ATATTCTTTCAAAATTTT
1 ATATTATTTTAAAATTTT
*
7709 ATATTATTTTAAATTTTT
1 ATATTATTTTAAAATTTT
7727 ATA-TATTTTA
1 ATATTATTTTA
7737 TATTGATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 7 0.28
18 18 0.72
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (18 bp):
ATATTATTTTAAAATTTT
Found at i:14598 original size:22 final size:24
Alignment explanation
Indices: 14573--14634 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
14563 ATCTTAGAAG
*
14573 AATATAAAATT-AT-AAATAAAAA
1 AATATAAAATTAATGAAACAAAAA
* *
14595 AATATAAATTTAATGAAACAAATA
1 AATATAAAATTAATGAAACAAAAA
*
14619 AATAT-AAATGAATGAA
1 AATATAAAATTAATGAA
14635 TTATCGAACG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
22 10 0.30
23 11 0.33
24 12 0.36
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (24 bp):
AATATAAAATTAATGAAACAAAAA
Found at i:15156 original size:15 final size:15
Alignment explanation
Indices: 15136--15173 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
15126 AAGATATGAA
15136 AATAAATAAATAA-AT
1 AATAAATAAA-AATAT
15151 AATAAATAAAAATAT
1 AATAAATAAAAATAT
15166 ATATAAAT
1 A-ATAAAT
15174 GTAGACCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 2 0.10
15 13 0.62
16 6 0.29
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AATAAATAAAAATAT
Found at i:20921 original size:32 final size:32
Alignment explanation
Indices: 20853--20922 Score: 81
Period size: 30 Copynumber: 2.2 Consensus size: 32
20843 TTTTAAATAG
* * *
20853 TTATTATTTTTTATATTAATATATTATGTAAA
1 TTATTATATTTTATATTAAAATAATATGTAAA
*
20885 -TATTATATTTT-TATTAAAATAATATTTATAA
1 TTATTATATTTTATATTAAAATAATATGTA-AA
20916 TTATTAT
1 TTATTAT
20923 TTATTTAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 14 0.44
31 12 0.38
32 6 0.19
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (32 bp):
TTATTATATTTTATATTAAAATAATATGTAAA
Found at i:20927 original size:17 final size:16
Alignment explanation
Indices: 20907--20944 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
20897 ATTAAAATAA
*
20907 TATTTATAATTATTATT
1 TATTTAGAATTATTA-T
20924 TATTTAGAATTATTAT
1 TATTTAGAATTATTAT
20940 TATTT
1 TATTT
20945 TTTTGCTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (16 bp):
TATTTAGAATTATTAT
Found at i:21093 original size:17 final size:17
Alignment explanation
Indices: 21071--21124 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
21061 AATGTTAATA
21071 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
21088 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
21105 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
21122 TTT
1 TTT
21125 TTATAATGTA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:30106 original size:20 final size:20
Alignment explanation
Indices: 30012--30380 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
30002 GATTTTCCAT
* ** *
30012 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
30032 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
30052 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
30072 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
30092 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
30112 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
30132 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
30152 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
30172 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
30192 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
30212 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
30232 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
30252 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
30272 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
30292 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
30312 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
30332 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
30352 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
30372 AATCACAAC
1 AATCGCAAC
30381 ACTGAAATTT
Statistics
Matches: 305, Mismatches: 36, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
19 3 0.01
20 299 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:31093 original size:24 final size:24
Alignment explanation
Indices: 31054--31100 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
31044 AAATTTGGTC
31054 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
31078 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
31101 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:33623 original size:19 final size:19
Alignment explanation
Indices: 33601--33907 Score: 358
Period size: 19 Copynumber: 17.4 Consensus size: 19
33591 CGGAAAATAC
*
33601 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
33620 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
33634 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
33654 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
33668 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
33687 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
33706 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
33720 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
33739 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
33758 AATCG-AA-CCGACAT---
1 AATCGCAATGCGAAATGAA
*
33772 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
33791 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
33810 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
33829 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
33848 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
33862 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
33881 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
33900 AATCGCAA
1 AATCGCAA
33908 CGAGATAATC
Statistics
Matches: 249, Mismatches: 13, Indels: 52
0.79 0.04 0.17
Matches are distributed among these distances:
14 45 0.18
15 4 0.02
16 16 0.06
17 15 0.06
18 5 0.02
19 151 0.61
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:33716 original size:52 final size:53
Alignment explanation
Indices: 33629--33907 Score: 358
Period size: 52 Copynumber: 5.2 Consensus size: 53
33619 AAATCCCAAC
*
33629 ATGAAAATCGCAATGCGGAAATGAAAATCGCAA-CGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAAGCGAGAAAATCGCAATGCGAA
*
33682 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAGAAAATCGCAATGCGAA
* * *
33734 ATGAAAATCGCAATGCGAAATGAAAATCG-AACCGACATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAGAAAATCGCAATGCGAA
* *
33786 ATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG--A-GAAAATCGCAATGCGAA
33843 ATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG--A-GAAAATCGCAATGCGAA
33895 ATGAAAATCGCAA
1 ATGAAAATCGCAA
33908 CGAGATAATC
Statistics
Matches: 212, Mismatches: 8, Indels: 13
0.91 0.03 0.06
Matches are distributed among these distances:
51 2 0.01
52 156 0.74
53 18 0.08
54 3 0.01
55 5 0.02
56 1 0.00
57 27 0.13
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (53 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAGAAAATCGCAATGCGAA
Found at i:33752 original size:71 final size:71
Alignment explanation
Indices: 33668--33907 Score: 355
Period size: 71 Copynumber: 3.4 Consensus size: 71
33658 GCAACGAGAG
*
33668 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
33733 AATGAA
66 AATGAA
* * *
33739 AATCGCAATGCGAAATGAAAATCG-AA-CCGACAT---AATCGCAATGCGAAATTAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG-AA--AGAATCGCAA
*
33799 TACGAAATGAA
61 TGCGAAATGAA
33810 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
33875 AATGAA
66 AATGAA
33881 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAA
33908 CGAGATAATC
Statistics
Matches: 150, Mismatches: 9, Indels: 20
0.84 0.05 0.11
Matches are distributed among these distances:
66 8 0.05
68 2 0.01
69 6 0.04
70 2 0.01
71 113 0.75
72 2 0.01
73 7 0.05
74 2 0.01
76 8 0.05
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.15
Consensus pattern (71 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
AATGAA
Found at i:33853 original size:142 final size:137
Alignment explanation
Indices: 33601--33939 Score: 497
Period size: 142 Copynumber: 2.4 Consensus size: 137
33591 CGGAAAATAC
* * * *
33601 AATCGCAACGCGAAATGAAAATCCCAACATGAA-AATCGCAATGCGGAAATGAAAATCGC-AACG
1 AATCGCAATGCGAAATGAAAAT-CGAAC-CGAATAATCGCAATGC-GAAATTAAAATCGCAAACG
* *
33664 AGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAAT
63 AGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAAT
33729 GCGAAATGAA
128 GCGAAATGAA
33739 AATCGCAATGCGAAATGAAAATCGAACCGACATAATCGCAATGCGAAATTAAAATCGCAATACGA
1 AATCGCAATGCGAAATGAAAATCGAACCGA-ATAATCGCAATGCGAAATTAAAATCGCAA-ACG-
33804 AATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCA
63 -A-GAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCA
33869 ATGCGAAATGAA
126 ATGCGAAATGAA
33881 AATCGCAATGCGAAATGAAAATCGCAA-CGAGATAATCGCAATGCGAAATTATAAA-CGCA
1 AATCGCAATGCGAAATGAAAATCG-AACCGA-ATAATCGCAATGCGAAATTA-AAATCGCA
33940 TTGCGATTTT
Statistics
Matches: 185, Mismatches: 7, Indels: 14
0.90 0.03 0.07
Matches are distributed among these distances:
136 2 0.01
137 18 0.10
138 33 0.18
139 3 0.02
141 1 0.01
142 123 0.66
143 5 0.03
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (137 bp):
AATCGCAATGCGAAATGAAAATCGAACCGAATAATCGCAATGCGAAATTAAAATCGCAAACGAGA
AAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCG
AAATGAA
Found at i:34045 original size:19 final size:19
Alignment explanation
Indices: 33936--34037 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
33926 AAATTATAAA
33936 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
33955 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
33975 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
33991 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
34008 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
34027 CGCATTGCGAT
1 CGCATTGCGAT
34038 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:34163 original size:14 final size:14
Alignment explanation
Indices: 34144--34180 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
34134 CATCAATTAC
34144 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
34158 ACAAATCATCTTTT
1 ACAAATCAACTTTT
34172 ACAAATCAA
1 ACAAATCAA
34181 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:34192 original size:12 final size:12
Alignment explanation
Indices: 34175--34247 Score: 53
Period size: 12 Copynumber: 6.0 Consensus size: 12
34165 ATCTTTTACA
34175 AATCAATTAAAC
1 AATCAATTAAAC
*
34187 AATCAA--AAATTG
1 AATCAATTAAA--C
**
34199 AATCAACTTTTAC
1 AATCAA-TTAAAC
34212 AAATCAATTAAAC
1 A-ATCAATTAAAC
*
34225 AATCAA-AAAAC
1 AATCAATTAAAC
34236 AATCAATTAAAC
1 AATCAATTAAAC
34248 TATTGAATCA
Statistics
Matches: 46, Mismatches: 8, Indels: 14
0.68 0.12 0.21
Matches are distributed among these distances:
10 3 0.07
11 10 0.22
12 21 0.46
13 6 0.13
14 5 0.11
15 1 0.02
ACGTcount: A:0.58, C:0.16, G:0.01, T:0.25
Consensus pattern (12 bp):
AATCAATTAAAC
Found at i:34209 original size:38 final size:38
Alignment explanation
Indices: 34161--34233 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
34151 AACTTTTACA
*
34161 AATCATCTTTTACAAATCAATTAAACAATCAAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
34199 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
34234 ACAATCAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.29
Consensus pattern (38 bp):
AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
Found at i:36124 original size:14 final size:14
Alignment explanation
Indices: 36105--36161 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
36095 GCGAAATGAA
*
36105 AATCGCAACGACAG
1 AATCGCAACGAAAG
36119 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
36136 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
36152 AATCGCAACG
1 AATCGCAACG
36162 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:36132 original size:33 final size:33
Alignment explanation
Indices: 36086--36178 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
36076 GCGAAACCAA
*
36086 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
36119 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
36152 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
36179 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:36143 original size:19 final size:19
Alignment explanation
Indices: 36049--36183 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
36039 TAGTTTACTT
* *
36049 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
36069 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
36088 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
36107 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
36121 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
36140 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
36154 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
36173 TCGCAATGCGA
1 TCGCAACGCGA
36184 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:36201 original size:19 final size:19
Alignment explanation
Indices: 36179--36307 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
36169 AAAATCGCAA
36179 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
36198 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
36212 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
36231 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
36245 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
36264 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
36283 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
36303 TGCGA
1 TGCGA
36308 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:36221 original size:33 final size:33
Alignment explanation
Indices: 36179--36270 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
36169 AAAATCGCAA
36179 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
36212 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
36245 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
36271 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:36490 original size:92 final size:92
Alignment explanation
Indices: 36351--36727 Score: 722
Period size: 92 Copynumber: 4.1 Consensus size: 92
36341 TTGAATGGAT
36351 AAATTTACTTTCAACCAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACA
1 AAATTTACTTTCAACCAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACA
36416 GTTTAGCAGAATTGGCAGCAACCGAAC
66 GTTTAGCAGAATTGGCAGCAACCGAAC
36443 AAATTTACTTTCAACCAAAAGACAAAAC-AAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACC-AAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
36507 AGTTTAGCAGAATTGGCAGCAACCGAAC
65 AGTTTAGCAGAATTGGCAGCAACCGAAC
36535 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACC-AAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
36599 AGTTTAGCAGAATTGGCAGCAACCGAAC
65 AGTTTAGCAGAATTGGCAGCAACCGAAC
36627 AAATTTACTTTCAACCAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACA
1 AAATTTACTTTCAACCAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACA
36692 GTTTAGCAGAATTGGCAGCAACCGAAC
66 GTTTAGCAGAATTGGCAGCAACCGAAC
36719 AAATTTACT
1 AAATTTACT
36728 AAGCAATCTA
Statistics
Matches: 282, Mismatches: 0, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
91 22 0.08
92 239 0.85
93 21 0.07
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (92 bp):
AAATTTACTTTCAACCAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACA
GTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:38453 original size:14 final size:14
Alignment explanation
Indices: 38434--38496 Score: 72
Period size: 14 Copynumber: 4.1 Consensus size: 14
38424 TTGAAATGAA
38434 AATCGCAACGAGAG
1 AATCGCAACGAGAG
38448 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
38465 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
38481 AATCGCAACGCGAG
1 AATCGCAACGAGAG
38495 AA
1 AA
38497 ATGAAAATCG
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
14 23 0.53
16 6 0.14
17 6 0.14
19 8 0.19
ACGTcount: A:0.41, C:0.24, G:0.27, T:0.08
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:38471 original size:33 final size:34
Alignment explanation
Indices: 38428--38509 Score: 139
Period size: 33 Copynumber: 2.4 Consensus size: 34
38418 TTTTGGTTGA
38428 AATGAAAATCGCAACGAGAGAATCGCAACGCGAG
1 AATGAAAATCGCAACGAGAGAATCGCAACGCGAG
*
38462 -ATGACAATCGCAACGAGAGAATCGCAACGCGAG
1 AATGAAAATCGCAACGAGAGAATCGCAACGCGAG
38495 AAATGAAAATCGCAA
1 -AATGAAAATCGCAA
38510 TGCGATTTTG
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
33 32 0.73
35 12 0.27
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (34 bp):
AATGAAAATCGCAACGAGAGAATCGCAACGCGAG
Found at i:38472 original size:19 final size:18
Alignment explanation
Indices: 38433--38514 Score: 63
Period size: 14 Copynumber: 4.8 Consensus size: 18
38423 GTTGAAATGA
38433 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
38448 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
38465 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
38481 -AATCGCAACGCGAGAAATG
1 AAATCGCAACGCGAG--ATG
*
38500 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
38515 TTTTGGTTTC
Statistics
Matches: 54, Mismatches: 1, Indels: 18
0.74 0.01 0.25
Matches are distributed among these distances:
14 16 0.30
16 10 0.19
17 6 0.11
18 1 0.02
19 9 0.17
21 12 0.22
ACGTcount: A:0.43, C:0.22, G:0.26, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:38545 original size:14 final size:14
Alignment explanation
Indices: 38526--38580 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
38516 TTTGGTTTCG
38526 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
38540 CGTTGCGATTTCCATTTCG
1 CGTTGCGA-TT-C---TCT
38559 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
38573 CGTTGCGA
1 CGTTGCGA
38581 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
19 10 0.29
ACGTcount: A:0.09, C:0.27, G:0.24, T:0.40
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:38743 original size:33 final size:33
Alignment explanation
Indices: 38701--38771 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
38691 AATACTAACT
38701 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
38734 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
38767 TGAAA
1 TGAAA
38772 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:39003 original size:22 final size:22
Alignment explanation
Indices: 38951--39005 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
38941 TGGTTGTGAG
**
38951 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
38973 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
38995 GGATTTCTTCG
1 GGATTTCTTCG
39006 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:39176 original size:20 final size:20
Alignment explanation
Indices: 39151--39344 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
39141 CTTTAAATAT
39151 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
39171 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
39193 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
39212 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
39232 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
39252 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
39272 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
39292 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
39312 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
39332 CGCGTTGCGATTT
1 CGCGTTGCGATTT
39345 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:39338 original size:60 final size:60
Alignment explanation
Indices: 39151--39344 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
39141 CTTTAAATAT
**
39151 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
39212 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
39272 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
39332 CGCGTTGCGATTT
1 CGCGTTGCGATTT
39345 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:39361 original size:21 final size:20
Alignment explanation
Indices: 39337--39413 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
39327 ATATTCGCGT
39337 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGC-A
* * **
39358 TGCGAATTTGTACTATCGCA
1 TGCGATTTTGGAAAATCGCA
* *
39378 TCGCGATTTT-CAAGAATCGCGT
1 T-GCGATTTTGGAA-AATCGC-A
39400 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
39414 CTGATTTGCG
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
20 3 0.07
21 36 0.86
22 3 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (20 bp):
TGCGATTTTGGAAAATCGCA
Found at i:39424 original size:20 final size:20
Alignment explanation
Indices: 39399--39450 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
39389 AAGAATCGCG
*
39399 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
39419 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
39439 TTGCGATTCTGG
1 TTGCGATTCTGG
39451 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:40498 original size:35 final size:35
Alignment explanation
Indices: 40425--40499 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
40415 CGTCACTAAC
**
40425 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGGTA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
*
40460 AGTAAGGCCCTGAGCACACAGCCGAGGAACCTCCA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
40495 AGTAA
1 AGTAA
40500 TCTTCCTCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.33, C:0.29, G:0.28, T:0.09
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
Found at i:40604 original size:24 final size:24
Alignment explanation
Indices: 40577--40651 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
40567 CATAATTCAA
*
40577 GTCAAGTATCATATCAGAATCCAG
1 GTCAAGTATCAGATCAGAATCCAG
* *
40601 GTCATGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAG
40625 GTCAA-TATCAGATCAGAATCCAG
1 GTCAAGTATCAGATCAGAATCCAG
40648 GTCA
1 GTCA
40652 GGATCATAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 21 0.46
24 25 0.54
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAG
Found at i:40657 original size:23 final size:23
Alignment explanation
Indices: 40581--40657 Score: 109
Period size: 23 Copynumber: 3.3 Consensus size: 23
40571 ATTCAAGTCA
*
40581 AGTATCATATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
*
40604 ATGTATCAGATCAGAATCCATGTC
1 A-GTATCAGATCAGAATCCAGGTC
*
40628 AATATCAGATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
*
40651 AGGATCA
1 AGTATCA
40658 TAATAGAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
23 26 0.55
24 21 0.45
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (23 bp):
AGTATCAGATCAGAATCCAGGTC
Found at i:40684 original size:47 final size:47
Alignment explanation
Indices: 40560--40673 Score: 124
Period size: 47 Copynumber: 2.4 Consensus size: 47
40550 TATATAAAAA
* * * * *
40560 ATCAAAACATAATTCAAGTCAAGTATCATATCAGAATCCAGGTCATGT
1 ATCAAATCAGAATCCAAGTCAA-TATCAGATCAGAATCCAGGTCATGG
* *
40608 ATCAGATCAGAATCCATGTCAATATCAGATCAGAATCCAGGTCA-GG
1 ATCAAATCAGAATCCAAGTCAATATCAGATCAGAATCCAGGTCATGG
*
40654 ATCATAAT-AGAATTCAAGTC
1 ATCA-AATCAGAATCCAAGTC
40674 GGAAATCAGA
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
46 15 0.27
47 23 0.42
48 17 0.31
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.25
Consensus pattern (47 bp):
ATCAAATCAGAATCCAAGTCAATATCAGATCAGAATCCAGGTCATGG
Found at i:41829 original size:18 final size:18
Alignment explanation
Indices: 41808--41843 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
41798 CTTCCATCCG
*
41808 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
41826 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
41844 GTCCTTTCGA
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:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:43150 original size:7 final size:7
Alignment explanation
Indices: 43138--43177 Score: 62
Period size: 7 Copynumber: 5.4 Consensus size: 7
43128 TGGTCAACTT
43138 CGGTCAA
1 CGGTCAA
43145 CGGTCAA
1 CGGTCAA
43152 CGGGTCAA
1 C-GGTCAA
43160 CGGTCAA
1 CGGTCAA
43167 CGGGTCAA
1 C-GGTCAA
43175 CGG
1 CGG
43178 GTCGGGTCGG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 17 0.55
8 14 0.45
ACGTcount: A:0.25, C:0.28, G:0.35, T:0.12
Consensus pattern (7 bp):
CGGTCAA
Found at i:43159 original size:15 final size:15
Alignment explanation
Indices: 43139--43177 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
43129 GGTCAACTTC
43139 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
43154 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
43169 GGTCAACGG
1 GGTCAACGG
43178 GTCGGGTCGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.26, C:0.26, G:0.36, T:0.13
Consensus pattern (15 bp):
GGTCAACGGTCAACG
Found at i:43185 original size:13 final size:13
Alignment explanation
Indices: 43180--43228 Score: 80
Period size: 13 Copynumber: 3.8 Consensus size: 13
43170 GTCAACGGGT
*
43180 CGGGTCGGGTCAA
1 CGGGTCGGGTAAA
*
43193 CTGGTCGGGTAAA
1 CGGGTCGGGTAAA
43206 CGGGTCGGGTAAA
1 CGGGTCGGGTAAA
43219 CGGGTCGGGT
1 CGGGTCGGGT
43229 CGGGTCGGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.16, C:0.18, G:0.47, T:0.18
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:43190 original size:18 final size:18
Alignment explanation
Indices: 43167--43202 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
43157 CAACGGTCAA
43167 CGGGTCAACGGGTCGGGT
1 CGGGTCAACGGGTCGGGT
*
43185 CGGGTCAACTGGTCGGGT
1 CGGGTCAACGGGTCGGGT
43203 AAACGGGTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.22, G:0.47, T:0.19
Consensus pattern (18 bp):
CGGGTCAACGGGTCGGGT
Found at i:43198 original size:8 final size:8
Alignment explanation
Indices: 43139--43180 Score: 70
Period size: 8 Copynumber: 5.5 Consensus size: 8
43129 GGTCAACTTC
43139 GGTCAAC-
1 GGTCAACG
43146 GGTCAACG
1 GGTCAACG
43154 GGTCAAC-
1 GGTCAACG
43161 GGTCAACG
1 GGTCAACG
43169 GGTCAACG
1 GGTCAACG
43177 GGTC
1 GGTC
43181 GGGTCGGGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
7 14 0.42
8 19 0.58
ACGTcount: A:0.24, C:0.26, G:0.36, T:0.14
Consensus pattern (8 bp):
GGTCAACG
Found at i:45337 original size:35 final size:35
Alignment explanation
Indices: 45264--45338 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
45254 CGTCACTAAC
**
45264 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGGTA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
*
45299 AGTAAGGCCCTGAGCACACAGCCGAGGAACCTCCA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
45334 AGTAA
1 AGTAA
45339 TCTTCCTCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.33, C:0.29, G:0.28, T:0.09
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
Found at i:45441 original size:24 final size:24
Alignment explanation
Indices: 45414--45488 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
45404 CATAATTCAA
*
45414 GTCAAGTATCATATCAGAATCCAG
1 GTCAAGTATCAGATCAGAATCCAG
* *
45438 GTCATGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAG
45462 GTCAA-TATCAGATCAGAATCCAG
1 GTCAAGTATCAGATCAGAATCCAG
45485 GTCA
1 GTCA
45489 GGATCATAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 21 0.46
24 25 0.54
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAG
Found at i:45494 original size:23 final size:23
Alignment explanation
Indices: 45418--45494 Score: 109
Period size: 23 Copynumber: 3.3 Consensus size: 23
45408 ATTCAAGTCA
*
45418 AGTATCATATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
*
45441 ATGTATCAGATCAGAATCCATGTC
1 A-GTATCAGATCAGAATCCAGGTC
*
45465 AATATCAGATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
*
45488 AGGATCA
1 AGTATCA
45495 TAATAGAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
23 26 0.55
24 21 0.45
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (23 bp):
AGTATCAGATCAGAATCCAGGTC
Found at i:45521 original size:47 final size:47
Alignment explanation
Indices: 45397--45510 Score: 124
Period size: 47 Copynumber: 2.4 Consensus size: 47
45387 ATATATAAAA
* * * * *
45397 ATCAAAACATAATTCAAGTCAAGTATCATATCAGAATCCAGGTCATGT
1 ATCAAATCAGAATCCAAGTCAA-TATCAGATCAGAATCCAGGTCATGG
* *
45445 ATCAGATCAGAATCCATGTCAATATCAGATCAGAATCCAGGTCA-GG
1 ATCAAATCAGAATCCAAGTCAATATCAGATCAGAATCCAGGTCATGG
*
45491 ATCATAAT-AGAATTCAAGTC
1 ATCA-AATCAGAATCCAAGTC
45511 GGAAATCAGA
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
46 15 0.27
47 23 0.42
48 17 0.31
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.25
Consensus pattern (47 bp):
ATCAAATCAGAATCCAAGTCAATATCAGATCAGAATCCAGGTCATGG
Found at i:46667 original size:18 final size:18
Alignment explanation
Indices: 46646--46681 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
46636 CTTCCATCCG
*
46646 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
46664 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
46682 GTCCTTTCGA
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:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:47987 original size:7 final size:7
Alignment explanation
Indices: 47975--48014 Score: 62
Period size: 7 Copynumber: 5.4 Consensus size: 7
47965 TGGTCAACTT
47975 CGGTCAA
1 CGGTCAA
47982 CGGTCAA
1 CGGTCAA
47989 CGGGTCAA
1 C-GGTCAA
47997 CGGTCAA
1 CGGTCAA
48004 CGGGTCAA
1 C-GGTCAA
48012 CGG
1 CGG
48015 GTCGGGTCGG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 17 0.55
8 14 0.45
ACGTcount: A:0.25, C:0.28, G:0.35, T:0.12
Consensus pattern (7 bp):
CGGTCAA
Found at i:47996 original size:15 final size:15
Alignment explanation
Indices: 47976--48014 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
47966 GGTCAACTTC
47976 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
47991 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
48006 GGTCAACGG
1 GGTCAACGG
48015 GTCGGGTCGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.26, C:0.26, G:0.36, T:0.13
Consensus pattern (15 bp):
GGTCAACGGTCAACG
Found at i:48022 original size:13 final size:13
Alignment explanation
Indices: 48017--48065 Score: 80
Period size: 13 Copynumber: 3.8 Consensus size: 13
48007 GTCAACGGGT
*
48017 CGGGTCGGGTCAA
1 CGGGTCGGGTAAA
*
48030 CTGGTCGGGTAAA
1 CGGGTCGGGTAAA
48043 CGGGTCGGGTAAA
1 CGGGTCGGGTAAA
48056 CGGGTCGGGT
1 CGGGTCGGGT
48066 CGGGTCGGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.16, C:0.18, G:0.47, T:0.18
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:48027 original size:18 final size:18
Alignment explanation
Indices: 48004--48039 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
47994 CAACGGTCAA
48004 CGGGTCAACGGGTCGGGT
1 CGGGTCAACGGGTCGGGT
*
48022 CGGGTCAACTGGTCGGGT
1 CGGGTCAACGGGTCGGGT
48040 AAACGGGTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.22, G:0.47, T:0.19
Consensus pattern (18 bp):
CGGGTCAACGGGTCGGGT
Found at i:48035 original size:8 final size:8
Alignment explanation
Indices: 47976--48017 Score: 70
Period size: 8 Copynumber: 5.5 Consensus size: 8
47966 GGTCAACTTC
47976 GGTCAAC-
1 GGTCAACG
47983 GGTCAACG
1 GGTCAACG
47991 GGTCAAC-
1 GGTCAACG
47998 GGTCAACG
1 GGTCAACG
48006 GGTCAACG
1 GGTCAACG
48014 GGTC
1 GGTC
48018 GGGTCGGGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
7 14 0.42
8 19 0.58
ACGTcount: A:0.24, C:0.26, G:0.36, T:0.14
Consensus pattern (8 bp):
GGTCAACG
Found at i:50725 original size:2 final size:2
Alignment explanation
Indices: 50701--50808 Score: 189
Period size: 2 Copynumber: 54.0 Consensus size: 2
50691 AATAGAAGAA
* * *
50701 AT AT TT AT AT TT AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50743 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50785 AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
50809 GGGTTACGAT
Statistics
Matches: 100, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 100 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:57758 original size:40 final size:42
Alignment explanation
Indices: 57710--57789 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 42
57700 TTGAAAAAGA
* *
57710 CCACTATAGATGAA-CCTATTGCGGTGTTTTTATA-AAAACG
1 CCACTATAGATGAATCCTATTACGGCGTTTTTATACAAAACG
57750 CCACTATAGATGAATCCTATTACGGCGTTTTTATACAAAA
1 CCACTATAGATGAATCCTATTACGGCGTTTTTATACAAAA
57790 GGACTACTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 14 0.39
41 18 0.50
42 4 0.11
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.33
Consensus pattern (42 bp):
CCACTATAGATGAATCCTATTACGGCGTTTTTATACAAAACG
Found at i:62294 original size:122 final size:121
Alignment explanation
Indices: 62076--62367 Score: 467
Period size: 122 Copynumber: 2.4 Consensus size: 121
62066 ATAAAATTTG
* * ** *
62076 AAAGTTTAGGTACTAAAACATATAAAAACTGATAGTTTAGGTACTAAACGCGTTAAGTTTTTAAC
1 AAAGTTTAGATACTAAAACAAACCAAAACTGATAGTTTAGGTACTAAACACGTTAAGTTTTTAAC
62141 GACGGGATACTAAAATGAAACAAAAACTAAATGTTAGGTTTGATTTTGAATTTTTTT
66 GACGGGATACTAAAATGAAACAAAAACTAAATGTTAGGTTTGATTTTG-ATTTTTTT
* * *
62198 TAAGTTTAGATACTAAAATAAACCAAAATTGATAGTTTAGGTACTAAACACGTTAAGTTTTTAAC
1 AAAGTTTAGATACTAAAACAAACCAAAACTGATAGTTTAGGTACTAAACACGTTAAGTTTTTAAC
* *
62263 TACGGGATACTAAAATGAAACAAAAACTAAATGTTAGGTTTGCTTTTGATTTTTTT
66 GACGGGATACTAAAATGAAACAAAAACTAAATGTTAGGTTTGATTTTGATTTTTTT
* *
62319 AAAGTTTAGATACTAAAACAAACCAAAACTGATAGCTTAGGTATTAAAC
1 AAAGTTTAGATACTAAAACAAACCAAAACTGATAGTTTAGGTACTAAAC
62368 GTGTAATTTA
Statistics
Matches: 155, Mismatches: 15, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
121 52 0.34
122 103 0.66
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (121 bp):
AAAGTTTAGATACTAAAACAAACCAAAACTGATAGTTTAGGTACTAAACACGTTAAGTTTTTAAC
GACGGGATACTAAAATGAAACAAAAACTAAATGTTAGGTTTGATTTTGATTTTTTT
Found at i:62300 original size:62 final size:62
Alignment explanation
Indices: 62112--62301 Score: 160
Period size: 62 Copynumber: 3.1 Consensus size: 62
62102 AACTGATAGT
* *
62112 TTAGGTACTAAACGCGTTAAGTTTTTAACGACGGGATACTAAAATGAAACAAAAACTAAATG
1 TTAGGTACTAAACACGTTAAGTTTTTAACTACGGGATACTAAAATGAAACAAAAACTAAATG
** ** * * *** * **
62174 TTAGGT--T--TGATTTTGAATTTTTTTTAAGT-TTAGATACTAAAAT-AAACCAAAA-TTGATA
1 TTAGGTACTAAACACGTT-AA--GTTTTTAACTACGGGATACTAAAATGAAACAAAAACTAAAT-
62232 G
62 G
62233 TTTAGGTACTAAACACGTTAAGTTTTTAACTACGGGATACTAAAATGAAACAAAAACTAAATG
1 -TTAGGTACTAAACACGTTAAGTTTTTAACTACGGGATACTAAAATGAAACAAAAACTAAATG
62296 TTAGGT
1 TTAGGT
62302 TTGCTTTTGA
Statistics
Matches: 90, Mismatches: 26, Indels: 24
0.64 0.19 0.17
Matches are distributed among these distances:
58 5 0.06
59 11 0.12
60 18 0.20
61 15 0.17
62 24 0.27
63 11 0.12
64 6 0.07
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.33
Consensus pattern (62 bp):
TTAGGTACTAAACACGTTAAGTTTTTAACTACGGGATACTAAAATGAAACAAAAACTAAATG
Found at i:63002 original size:3 final size:3
Alignment explanation
Indices: 62996--63038 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
62986 CAACAACAAC
62996 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
63039 TGTGTGTGTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:70936 original size:3 final size:3
Alignment explanation
Indices: 70930--70959 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
70920 CCATACTCTT
70930 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
70960 ACTTTAATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:73815 original size:18 final size:17
Alignment explanation
Indices: 73784--73818 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
73774 GAAATAACTG
73784 ATATTTATAATTAATAT
1 ATATTTATAATTAATAT
*
73801 ATATTATATATTTAATAT
1 ATATT-TATAATTAATAT
73819 TTTCTGTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATATTTATAATTAATAT
Found at i:73888 original size:9 final size:9
Alignment explanation
Indices: 73858--73890 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
73848 TAAAAACTTC
73858 TAATATATA
1 TAATATATA
73867 -AATTATATA
1 TAA-TATATA
73876 TAATATATA
1 TAATATATA
73885 TAATAT
1 TAATAT
73891 TTTAAATTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 2 0.09
9 18 0.82
10 2 0.09
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
TAATATATA
Found at i:74560 original size:3 final size:3
Alignment explanation
Indices: 74552--74588 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
74542 GAAATGGGGT
74552 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
74589 CTGTTTTTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:79442 original size:42 final size:40
Alignment explanation
Indices: 79376--79481 Score: 131
Period size: 41 Copynumber: 2.5 Consensus size: 40
79366 ATTAATTTTA
**
79376 AAATAATATATATTTATAATTATTTATTATATTTTAAATGGTT
1 AAATAATATAT-TTTATAA-TATTTATTATATTTT-AATCATT
*
79419 AAATCAATATATTTTATAATATTTTTTATATTTTAATCATT
1 AAAT-AATATATTTTATAATATTTATTATATTTTAATCATT
*
79460 AAAAAATATATTTTAATAATAT
1 AAATAATATATTTT-ATAATAT
79482 AAAAATAAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
40 10 0.18
41 15 0.26
42 14 0.25
43 11 0.19
44 7 0.12
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (40 bp):
AAATAATATATTTTATAATATTTATTATATTTTAATCATT
Found at i:79469 original size:21 final size:22
Alignment explanation
Indices: 79445--79486 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
79435 TAATATTTTT
*
79445 TATATTTTAATCAT-TAAAAAA
1 TATATTTTAATAATATAAAAAA
79466 TATATTTTAATAATATAAAAA
1 TATATTTTAATAATATAAAAA
79487 TAAAAATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
TATATTTTAATAATATAAAAAA
Found at i:79654 original size:33 final size:35
Alignment explanation
Indices: 79610--79690 Score: 98
Period size: 32 Copynumber: 2.4 Consensus size: 35
79600 TCGACCTGAA
*
79610 TATATTAATTTTTAAATAATTAAAAT-AATATA-TT
1 TATAATAATTTTTAAATAATT-AAATCAATATATTT
**
79644 TATAAT-A-TTTTAAATGGTTAAATCAATATATTT
1 TATAATAATTTTTAAATAATTAAATCAATATATTT
79677 TATAATAATTTTTA
1 TATAATAATTTTTA
79691 TATTTAATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
31 4 0.10
32 16 0.40
33 9 0.22
34 6 0.15
35 5 0.12
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (35 bp):
TATAATAATTTTTAAATAATTAAATCAATATATTT
Found at i:84372 original size:20 final size:20
Alignment explanation
Indices: 84344--84382 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
84334 CCTTGTAGAT
*
84344 AATGACGAAGGTTGTTTATA
1 AATGACGAAGATTGTTTATA
* *
84364 AATGTCGAATATTGTTTAT
1 AATGACGAAGATTGTTTAT
84383 TGAATTTCCG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.41
Consensus pattern (20 bp):
AATGACGAAGATTGTTTATA
Found at i:86004 original size:35 final size:36
Alignment explanation
Indices: 85964--86048 Score: 97
Period size: 37 Copynumber: 2.4 Consensus size: 36
85954 CATGGAATGC
85964 TAAATTTAATTAAAAGA-ATATAATTAGTGT-AATTT
1 TAAATTTAATTAAAA-ATATATAATTAGTGTGAATTT
* *
85999 TAAATTTTAATTATAAAATGTATAATTAGTGTGATTTT
1 TAAA-TTTAATTA-AAAATATATAATTAGTGTGAATTT
86037 TAAA--TAATTAAA
1 TAAATTTAATTAAA
86049 TGCTCAGGTA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
34 2 0.05
35 10 0.23
36 9 0.20
37 15 0.34
38 8 0.18
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (36 bp):
TAAATTTAATTAAAAATATATAATTAGTGTGAATTT
Found at i:88433 original size:20 final size:20
Alignment explanation
Indices: 88384--88424 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
88374 TTCTAAACTT
*
88384 AAAATCGCAACATGAAAATG
1 AAAATCGCAACACGAAAATG
88404 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
88424 A
1 A
88425 CTATCGCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.56, C:0.17, G:0.15, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:88464 original size:33 final size:33
Alignment explanation
Indices: 88406--88498 Score: 114
Period size: 33 Copynumber: 2.8 Consensus size: 33
88396 TGAAAATGAA
* ** *
88406 AATCGCAACACGAAAATGACTATCGCAATGAGAG
1 AATCGCAACGCG-AAATGAAAATCGCAACGAGAG
*
88440 AATCGCAACGCGAAATGAAAATCGCAACGAGAT
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
**
88473 AATCGCAACGCGAAACCAAAATCGCA
1 AATCGCAACGCGAAATGAAAATCGCA
88499 TTGCGATTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
33 41 0.79
34 11 0.21
ACGTcount: A:0.45, C:0.24, G:0.19, T:0.12
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAGAG
Found at i:88545 original size:32 final size:33
Alignment explanation
Indices: 88499--88591 Score: 125
Period size: 32 Copynumber: 2.8 Consensus size: 33
88489 CAAAATCGCA
*
88499 TTGCGATTTTCATTTTGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTTGCGTTGAGATTCTCTCG
* *
88532 TTGC-ATTTTCATTTCGCGTTGTGATTCTCTCG
1 TTGCGATTTTCATTTTGCGTTGAGATTCTCTCG
**
88564 TTGCGATAGTCATTTTCGCGTTGAGATT
1 TTGCGATTTTCATTTT-GCGTTGAGATT
88592 TTCATTTCAA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
32 30 0.58
33 12 0.23
34 10 0.19
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTTGCGTTGAGATTCTCTCG
Found at i:90447 original size:94 final size:94
Alignment explanation
Indices: 90286--90659 Score: 624
Period size: 94 Copynumber: 4.0 Consensus size: 94
90276 TAGATTACTT
* * * *
90286 AGTAAATTTATTCAGTTGATGCCAATACTGCTAAACTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
90351 ATTTGTCTTTTGTTTTATCTTTTGGTTG-A
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGAA
90380 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
90445 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* *
90474 AGTAAAATTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
90539 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * *
90568 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
* *
90633 ATTTGTCTTTGTTTTTTCTTTTAGTTG
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG
90660 CGATTTTCAT
Statistics
Matches: 267, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
93 19 0.07
94 248 0.93
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.48
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:90678 original size:19 final size:20
Alignment explanation
Indices: 90656--90706 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
90646 TTTTCTTTTA
90656 GTTGCGATTTTCA-TTTCAC
1 GTTGCGATTTTCATTTTCAC
** *
90675 GTTGCGATAGTCATTTTTCAT
1 GTTGCGATTTTCA-TTTTCAC
90696 GTTGCGATTTT
1 GTTGCGATTTT
90707 AAGTTCCAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
19 11 0.44
21 14 0.56
ACGTcount: A:0.16, C:0.16, G:0.20, T:0.49
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCAC
Found at i:92590 original size:14 final size:14
Alignment explanation
Indices: 92571--92606 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
92561 ATTGTTTAAT
92571 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
92585 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
92599 TGATTTGT
1 TGATTTGT
92607 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:92763 original size:33 final size:33
Alignment explanation
Indices: 92716--92792 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 33
92706 AATTACTATT
* * *
92716 GCAATGCGAAATGAAAATCGCAACGAGAGAATC
1 GCAACGCGAAATGAAAATCGCAACGACAAAATC
92749 GCAACGCGAAATGAAAATCGCAACGACAAAATC
1 GCAACGCGAAATGAAAATCGCAACGACAAAATC
92782 GCAACGCGAAA
1 GCAACGCGAAA
92793 CTAAATTCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (33 bp):
GCAACGCGAAATGAAAATCGCAACGACAAAATC
Found at i:92772 original size:19 final size:19
Alignment explanation
Indices: 92716--92773 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
92706 AATTACTATT
*
92716 GCAATGCGAAATGAAAATC
1 GCAACGCGAAATGAAAATC
*
92735 GCAA--CG--A-GAGAATC
1 GCAACGCGAAATGAAAATC
92749 GCAACGCGAAATGAAAATC
1 GCAACGCGAAATGAAAATC
92768 GCAACG
1 GCAACG
92774 ACAAAATCGC
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
14 10 0.31
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 16 0.50
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (19 bp):
GCAACGCGAAATGAAAATC
Found at i:92826 original size:19 final size:18
Alignment explanation
Indices: 92804--92928 Score: 85
Period size: 19 Copynumber: 7.4 Consensus size: 18
92794 TAAATTCATG
92804 TTGCGATTTTCATTTCGC
1 TTGCGATTTTCATTTCGC
**
92822 TTTGCGA--TTC-CCTCG-
1 -TTGCGATTTTCATTTCGC
*
92837 TTGCGATTTTCATTTTGC
1 TTGCGATTTTCATTTCGC
*
92855 ATTGCGA--TTC-TCTCG-
1 -TTGCGATTTTCATTTCGC
92870 TTGCGATTTTCATTTCGC
1 TTGCGATTTTCATTTCGC
*
92888 ATTGCGA--TTC-TCTCG-
1 -TTGCGATTTTCATTTCGC
92903 TTGCGATTTTCATTTCGC
1 TTGCGATTTTCATTTCGC
92921 ATTGCGAT
1 -TTGCGAT
92929 AGTCATTTCC
Statistics
Matches: 81, Mismatches: 10, Indels: 30
0.67 0.08 0.25
Matches are distributed among these distances:
14 18 0.22
16 19 0.23
17 19 0.23
19 25 0.31
ACGTcount: A:0.12, C:0.23, G:0.18, T:0.46
Consensus pattern (18 bp):
TTGCGATTTTCATTTCGC
Found at i:92845 original size:33 final size:33
Alignment explanation
Indices: 92803--92928 Score: 225
Period size: 33 Copynumber: 3.8 Consensus size: 33
92793 CTAAATTCAT
* *
92803 GTTGCGATTTTCATTTCGCTTTGCGATTCCCTC
1 GTTGCGATTTTCATTTCGCATTGCGATTCTCTC
*
92836 GTTGCGATTTTCATTTTGCATTGCGATTCTCTC
1 GTTGCGATTTTCATTTCGCATTGCGATTCTCTC
92869 GTTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 GTTGCGATTTTCATTTCGCATTGCGATTCTCTC
92902 GTTGCGATTTTCATTTCGCATTGCGAT
1 GTTGCGATTTTCATTTCGCATTGCGAT
92929 AGTCATTTCC
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 89 1.00
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.46
Consensus pattern (33 bp):
GTTGCGATTTTCATTTCGCATTGCGATTCTCTC
Found at i:92873 original size:14 final size:14
Alignment explanation
Indices: 92856--92910 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
92846 TCATTTTGCA
92856 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
92870 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
92887 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
92903 TTGCGATT
1 TTGCGATT
92911 TTCATTTCGC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 14 0.41
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.45
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:92937 original size:19 final size:17
Alignment explanation
Indices: 92845--92928 Score: 63
Period size: 17 Copynumber: 5.1 Consensus size: 17
92835 CGTTGCGATT
*
92845 TTCATTTTGCATTGCGA
1 TTCATTTCGCATTGCGA
*
92862 TTC-TCTCG--TTGCGA
1 TTCATTTCGCATTGCGA
92876 TTTTCATTTCGCATTGCGA
1 --TTCATTTCGCATTGCGA
*
92895 TTC-TCTCG--TTGCGA
1 TTCATTTCGCATTGCGA
92909 TTTTCATTTCGCATTGCGA
1 --TTCATTTCGCATTGCGA
92928 T
1 T
92929 AGTCATTTCC
Statistics
Matches: 52, Mismatches: 5, Indels: 20
0.68 0.06 0.26
Matches are distributed among these distances:
14 12 0.23
16 13 0.25
17 15 0.29
19 12 0.23
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.46
Consensus pattern (17 bp):
TTCATTTCGCATTGCGA
Found at i:92950 original size:20 final size:19
Alignment explanation
Indices: 92912--92955 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
92902 GTTGCGATTT
*
92912 TCATTTCGCATTGCGATAG
1 TCATTTCGCATTACGATAG
*
92931 TCATTTCCGCGTTACGATAG
1 TCATTT-CGCATTACGATAG
*
92951 ACATT
1 TCATT
92956 AAGATGATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (19 bp):
TCATTTCGCATTACGATAG
Found at i:92994 original size:20 final size:20
Alignment explanation
Indices: 92922--92994 Score: 60
Period size: 20 Copynumber: 3.6 Consensus size: 20
92912 TCATTTCGCA
*
92922 TTGCGATAGTCATTTCCGCG
1 TTGCGATAGTCATTTCCGTG
* * **
92942 TTACGATAGACA-TTAAGATG
1 TTGCGATAGTCATTTCCG-TG
92962 ATTGCGA-ACGTCATTTCCGTG
1 -TTGCGATA-GTCATTTCCGTG
92983 TTGCGATAGTCA
1 TTGCGATAGTCA
92995 AATGAATGCC
Statistics
Matches: 39, Mismatches: 9, Indels: 10
0.67 0.16 0.17
Matches are distributed among these distances:
19 3 0.08
20 22 0.56
21 11 0.28
22 3 0.08
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (20 bp):
TTGCGATAGTCATTTCCGTG
Found at i:95481 original size:24 final size:24
Alignment explanation
Indices: 95447--95500 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
95437 CTGAAAAATC
95447 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
95471 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
95495 ATCAAA
1 ATCAAA
95501 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:95514 original size:24 final size:24
Alignment explanation
Indices: 95447--95514 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
95437 CTGAAAAATC
* * *
95447 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
95471 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
95495 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
95515 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:96398 original size:22 final size:21
Alignment explanation
Indices: 96368--96410 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
96358 TCTCGTTGCG
96368 ATTTAGGAAAATCGCAACGCGA
1 ATTTAGG-AAATCGCAACGCGA
* *
96390 ATTTGGGAAATCGCAATGCGA
1 ATTTAGGAAATCGCAACGCGA
96411 TAGTCAGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (21 bp):
ATTTAGGAAATCGCAACGCGA
Found at i:97438 original size:15 final size:15
Alignment explanation
Indices: 97418--97447 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
97408 AAACCGATAT
97418 TTGTTGTGAATGGAG
1 TTGTTGTGAATGGAG
97433 TTGTTGTGAATGGAG
1 TTGTTGTGAATGGAG
97448 AGGATTGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (15 bp):
TTGTTGTGAATGGAG
Found at i:100374 original size:79 final size:79
Alignment explanation
Indices: 100290--100440 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 79
100280 TTAAAAATGA
*
100290 GGGGGCAAAATCAAAATAAATTAAAATCTAAAGGCCTAAATAAGTAATTATCTCATT-TTCTTAA
1 GGGGGCAAAATCAAAATAAATTAAAATCTAAAGGCCT-AATAAATAATTATCTCATTATTCTTAA
100354 ATGATAAAAAAATTT
65 ATGATAAAAAAATTT
** * * * * * *
100369 GGGGGCAATGTCAAAATAAATTAATATTTGAAGGCCTAATAAATAATTGTCTTATTATTCTTTAA
1 GGGGGCAAAATCAAAATAAATTAAAATCTAAAGGCCTAATAAATAATTATCTCATTATTCTTAAA
100434 TGATAAA
66 TGATAAA
100441 CAGCTGTATA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
78 16 0.26
79 46 0.74
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.33
Consensus pattern (79 bp):
GGGGGCAAAATCAAAATAAATTAAAATCTAAAGGCCTAATAAATAATTATCTCATTATTCTTAAA
TGATAAAAAAATTT
Found at i:100568 original size:2 final size:2
Alignment explanation
Indices: 100563--100592 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
100553 ATAAACGTGT
100563 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
100593 CATGTTATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:102209 original size:16 final size:16
Alignment explanation
Indices: 102176--102208 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
102166 TAAAACATAA
*
102176 TTATATTTATTTAATT
1 TTATATTTATATAATT
102192 TTATATTTA-ATAATT
1 TTATATTTATATAATT
102207 TT
1 TT
102209 TTTTAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATATTTATATAATT
Found at i:102680 original size:60 final size:57
Alignment explanation
Indices: 102548--102697 Score: 169
Period size: 56 Copynumber: 2.6 Consensus size: 57
102538 AGCTAGATGG
* * * *
102548 ATTTGGGGATGAAATTTAAATATTCAAAACTTT-GGGAACTAATTTGAAAAAGTCAT
1 ATTTAGGGATGAAATTAAAATATTCAAAACTTTAAGGAACTAATTTAAAAAAGTCAT
* * *
102604 ATTTAGGGATAAAATTAAAATGTTCAAAATTTTAAGG-ACTAATTTAAAATAAGAGTCAT
1 ATTTAGGGATGAAATTAAAATATTCAAAACTTTAAGGAACTAATTT-AAA-AA-AGTCAT
* *
102663 AGTTTAGGGATGAAATTATAATATTCAAAAGTTTA
1 A-TTTAGGGATGAAATTAAAATATTCAAAACTTTA
102698 TGGATAGAGT
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
56 36 0.46
57 4 0.05
58 2 0.03
59 7 0.09
60 29 0.37
ACGTcount: A:0.44, C:0.05, G:0.16, T:0.35
Consensus pattern (57 bp):
ATTTAGGGATGAAATTAAAATATTCAAAACTTTAAGGAACTAATTTAAAAAAGTCAT
Found at i:105123 original size:2 final size:2
Alignment explanation
Indices: 105116--105143 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
105106 TATTTAAAAG
105116 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
105144 GATCGTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:109047 original size:25 final size:25
Alignment explanation
Indices: 109010--109062 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
109000 TACATAAACG
* *
109010 TTAATATTATTAATA-ATTTAATTTT
1 TTAAAATTATTAATATATAT-ATTTT
*
109035 TTAAAATTTTTAATATATATATTTT
1 TTAAAATTATTAATATATATATTTT
109060 TTA
1 TTA
109063 GTTGCCGCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 21 0.88
26 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
TTAAAATTATTAATATATATATTTT
Found at i:115055 original size:17 final size:18
Alignment explanation
Indices: 115033--115071 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
115023 ATTCAGTAAT
*
115033 ATATAG-TAATAGTATAA
1 ATATAGTTAATAATATAA
115050 ATATAGTTTAATAATATAA
1 ATATAG-TTAATAATATAA
115069 ATA
1 ATA
115072 CGTGTATTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
19 13 0.68
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (18 bp):
ATATAGTTAATAATATAA
Found at i:126138 original size:16 final size:16
Alignment explanation
Indices: 126117--126149 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
126107 TGGTTACACT
126117 TCTCTCGATCATATGA
1 TCTCTCGATCATATGA
*
126133 TCTCTCGATTATATGA
1 TCTCTCGATCATATGA
126149 T
1 T
126150 ATTATTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.42
Consensus pattern (16 bp):
TCTCTCGATCATATGA
Found at i:127151 original size:20 final size:20
Alignment explanation
Indices: 127123--127198 Score: 134
Period size: 20 Copynumber: 3.8 Consensus size: 20
127113 TTGGTTCACG
* *
127123 GAATGTAAGATTATCAGTGT
1 GAATATAAGATTATCAATGT
127143 GAATATAAGATTATCAATGT
1 GAATATAAGATTATCAATGT
127163 GAATATAAGATTATCAATGT
1 GAATATAAGATTATCAATGT
127183 GAATATAAGATTATCA
1 GAATATAAGATTATCA
127199 GGGAACATAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 54 1.00
ACGTcount: A:0.43, C:0.05, G:0.17, T:0.34
Consensus pattern (20 bp):
GAATATAAGATTATCAATGT
Found at i:127416 original size:34 final size:34
Alignment explanation
Indices: 127361--127426 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
127351 AAAATATTTA
*
127361 TATATTTTCTTTAAAAAATTTAAATTCATAAAATT
1 TATATTTTCTTTAAAAAATTTAAAAT-ATAAAATT
*
127396 TATATTTT-TTTACAAAATTTAAAATATAAAA
1 TATATTTTCTTTAAAAAATTTAAAATATAAAA
127427 AGGTTTAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 6 0.21
34 15 0.52
35 8 0.28
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (34 bp):
TATATTTTCTTTAAAAAATTTAAAATATAAAATT
Found at i:128789 original size:13 final size:13
Alignment explanation
Indices: 128771--128795 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
128761 TTAAATTAAA
128771 TATTATAAAAATT
1 TATTATAAAAATT
128784 TATTATAAAAAT
1 TATTATAAAAAT
128796 AAATTTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TATTATAAAAATT
Done.