Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002343.1 Hibiscus syriacus cultivar Beakdansim tig00004781_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: 146395
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:726 original size:19 final size:21
Alignment explanation
Indices: 702--740 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
692 TGAGAAATTG
702 ATTTTAAAA-T-AAAAATGAT
1 ATTTTAAAATTGAAAAATGAT
721 ATTTTAAAATTGAAAAATGA
1 ATTTTAAAATTGAAAAATGA
741 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 1 0.06
21 8 0.44
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (21 bp):
ATTTTAAAATTGAAAAATGAT
Found at i:4623 original size:23 final size:22
Alignment explanation
Indices: 4552--4632 Score: 74
Period size: 23 Copynumber: 3.6 Consensus size: 22
4542 ACACTTAACA
* *
4552 GTGCATCAATGCATCCCTTTGAAT
1 GTGCATCGATGCA-ACC-TTGAAT
* * *
4576 GTGCATCGATAC-ACCATGAAG
1 GTGCATCGATGCAACCTTGAAT
*
4597 GTGCACCGATGCAAGCCTTGAAT
1 GTGCATCGATGCAA-CCTTGAAT
4620 GTGCATCGATGCA
1 GTGCATCGATGCA
4633 CAGGGCCATG
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
21 14 0.31
22 3 0.07
23 18 0.40
24 10 0.22
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (22 bp):
GTGCATCGATGCAACCTTGAAT
Found at i:7374 original size:65 final size:64
Alignment explanation
Indices: 7266--7427 Score: 227
Period size: 66 Copynumber: 2.5 Consensus size: 64
7256 GGAATAAATT
* * * *
7266 AAACATCGAATGCATTTTATGCATCGATGCATTATACCCTGCATCGATGCACTCAGGGT-TTTAT
1 AAACATCGAATGCATTTTATGCATCGATGCA-CATACCATGCATCGATACACTCAGGCTATTT-T
7330 G
64 G
* *
7331 AAAACATCGAATGCATTTGATACATCGATGCACATACCATGCATCGATACACTCAGGCTATTTTG
1 -AAACATCGAATGCATTTTATGCATCGATGCACATACCATGCATCGATACACTCAGGCTATTTTG
*
7396 AAACATTGAATGCATTTTATGCATCGATGCAC
1 AAACATCGAATGCATTTTATGCATCGATGCAC
7428 TCTTAGTGCA
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
64 29 0.34
65 25 0.29
66 32 0.37
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (64 bp):
AAACATCGAATGCATTTTATGCATCGATGCACATACCATGCATCGATACACTCAGGCTATTTTG
Found at i:8570 original size:80 final size:79
Alignment explanation
Indices: 8473--8632 Score: 293
Period size: 80 Copynumber: 2.0 Consensus size: 79
8463 GTTATTATAA
*
8473 TACCCATAATTCTTATTTAATTATTTCCTTGTCCAAAGACCCATTTTCCCTTTGATTCCTTTGAA
1 TACCCATAATTCTTATTTAATTATTTCCTTGTCCAAAGACCCATTTTCCCTTTAATTCCTTTGAA
8538 AATTACTAATAACT
66 AATTACTAATAACT
8552 TACCCATAAATTCTTATTTAATTATTTCCTTGTCCAAAGACCCATTTTCCCTTTAATTCCTTTGA
1 TACCCAT-AATTCTTATTTAATTATTTCCTTGTCCAAAGACCCATTTTCCCTTTAATTCCTTTGA
*
8617 AATTTACTAATAACT
65 AAATTACTAATAACT
8632 T
1 T
8633 TCAGGTAATA
Statistics
Matches: 78, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
79 7 0.09
80 71 0.91
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (79 bp):
TACCCATAATTCTTATTTAATTATTTCCTTGTCCAAAGACCCATTTTCCCTTTAATTCCTTTGAA
AATTACTAATAACT
Found at i:29496 original size:2 final size:2
Alignment explanation
Indices: 29489--29558 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
29479 GTAAAAAGTG
29489 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
29531 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
29559 CTAAGGGTAT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:29822 original size:2 final size:2
Alignment explanation
Indices: 29817--29846 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
29807 TAGAAAAGTG
29817 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
29847 TAATCTAAGG
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):
AT
Found at i:34652 original size:24 final size:24
Alignment explanation
Indices: 34625--34670 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
34615 ATTGGTTGAT
*
34625 GATAAAATTTTCTTCAACTTATAA
1 GATAAAATTTTCTTCAAATTATAA
**
34649 GATAATTTTTTCTTCAAATTAT
1 GATAAAATTTTCTTCAAATTAT
34671 TTAGCTTGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.48
Consensus pattern (24 bp):
GATAAAATTTTCTTCAAATTATAA
Found at i:35517 original size:27 final size:28
Alignment explanation
Indices: 35487--35540 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 28
35477 TTAGTAAACA
*
35487 TTTATTTATTTAATTTTT-T-ATTATTAG
1 TTTATATA-TTAATTTTTGTAATTATTAG
35514 TTTATATATTAATTTTTGTAATTATTA
1 TTTATATATTAATTTTTGTAATTATTA
35541 ATAATTTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 9 0.38
27 8 0.33
28 7 0.29
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (28 bp):
TTTATATATTAATTTTTGTAATTATTAG
Found at i:37449 original size:6 final size:6
Alignment explanation
Indices: 37430--37477 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
37420 CGATGACTAC
* * * * *
37430 GATGAT GATAAT GATGAT GATAAT GATAAT GATGGT GATGAT AATGAT
1 GATGAT GATGAT GATGAT GATGAT GATGAT GATGAT GATGAT GATGAT
37478 AGTGAGGAGT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.40, C:0.00, G:0.27, T:0.33
Consensus pattern (6 bp):
GATGAT
Found at i:37450 original size:15 final size:15
Alignment explanation
Indices: 37430--37477 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
37420 CGATGACTAC
* *
37430 GATGATGATAATGAT
1 GATGATGATGATAAT
*
37445 GATGATAATGATAAT
1 GATGATGATGATAAT
*
37460 GATGGTGATGATAAT
1 GATGATGATGATAAT
37475 GAT
1 GAT
37478 AGTGAGGAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.27, T:0.33
Consensus pattern (15 bp):
GATGATGATGATAAT
Found at i:37468 original size:12 final size:12
Alignment explanation
Indices: 37430--37462 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
37420 CGATGACTAC
37430 GATGATGATAAT
1 GATGATGATAAT
37442 GATGATGATAAT
1 GATGATGATAAT
*
37454 GATAATGAT
1 GATGATGAT
37463 GGTGATGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.24, T:0.33
Consensus pattern (12 bp):
GATGATGATAAT
Found at i:38181 original size:13 final size:13
Alignment explanation
Indices: 38158--38189 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
38148 TGAATAGTTC
38158 TTCTT-TATCGTT
1 TTCTTGTATCGTT
38170 TTCTTGTATCGTT
1 TTCTTGTATCGTT
38183 TTCTTGT
1 TTCTTGT
38190 TTAATTAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.06, C:0.16, G:0.12, T:0.66
Consensus pattern (13 bp):
TTCTTGTATCGTT
Found at i:41383 original size:30 final size:30
Alignment explanation
Indices: 41347--41440 Score: 179
Period size: 30 Copynumber: 3.1 Consensus size: 30
41337 ATCAAAGATA
*
41347 AGAGGATTGTTGGGTGATGTTTACGGGTTG
1 AGAGGATTGTTGTGTGATGTTTACGGGTTG
41377 AGAGGATTGTTGTGTGATGTTTACGGGTTG
1 AGAGGATTGTTGTGTGATGTTTACGGGTTG
41407 AGAGGATTGTTGTGTGATGTTTACGGGTTG
1 AGAGGATTGTTGTGTGATGTTTACGGGTTG
41437 AGAG
1 AGAG
41441 CGTATTATTT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.18, C:0.03, G:0.41, T:0.37
Consensus pattern (30 bp):
AGAGGATTGTTGTGTGATGTTTACGGGTTG
Found at i:42149 original size:16 final size:15
Alignment explanation
Indices: 42127--42211 Score: 70
Period size: 16 Copynumber: 5.5 Consensus size: 15
42117 TTTTAAATTA
42127 TAAATATAAAATAAT
1 TAAATATAAAATAAT
*
42142 TCAAATATTAAAAAAAT
1 T-AAATA-TAAAATAAT
42159 TAAATAT-AAATAATAT
1 TAAATATAAAAT-A-AT
*
42175 TAAAAATAAAA-AA-
1 TAAATATAAAATAAT
42188 TAAATTATTAAAA-AAT
1 TAAA-TA-TAAAATAAT
42204 TAAATATA
1 TAAATATA
42212 CATATTAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
13 4 0.07
14 7 0.12
15 13 0.22
16 22 0.38
17 12 0.21
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (15 bp):
TAAATATAAAATAAT
Found at i:42151 original size:25 final size:23
Alignment explanation
Indices: 42123--42221 Score: 73
Period size: 25 Copynumber: 4.3 Consensus size: 23
42113 ATTATTTTAA
* *
42123 ATTATAAATATAAAATAATTCAAAT
1 ATTAAAAATATAAAATAAAT--AAT
*
42148 ATTAAAAAAATTAAATATAAATAAT
1 ATTAAAAATA-TAAA-ATAAATAAT
*
42173 ATTAAAAATAAAAAATAAAT--T
1 ATTAAAAATATAAAATAAATAAT
*
42194 ATTAAAAA-ATTAAAT--ATACAT
1 ATTAAAAATATAAAATAAATA-AT
42215 ATTAAAA
1 ATTAAAA
42222 CTATTATAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
18 2 0.03
20 5 0.08
21 17 0.27
23 6 0.10
24 3 0.05
25 20 0.32
26 4 0.06
27 5 0.08
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
ATTAAAAATATAAAATAAATAAT
Found at i:42187 original size:32 final size:32
Alignment explanation
Indices: 42127--42187 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
42117 TTTTAAATTA
* *
42127 TAAATATAAAATAATTCAAATATTAAAAAAAT
1 TAAATATAAAATAATTCAAAAATAAAAAAAAT
*
42159 TAAATAT-AAATAATATTAAAAATAAAAAA
1 TAAATATAAAATAAT-TCAAAAATAAAAAA
42188 TAAATTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 7 0.28
32 18 0.72
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (32 bp):
TAAATATAAAATAATTCAAAAATAAAAAAAAT
Found at i:42202 original size:23 final size:24
Alignment explanation
Indices: 42146--42207 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 24
42136 AATAATTCAA
* *
42146 ATATTAAAAAAATTAAATATAAAT
1 ATATTAAAAAAATAAAAAATAAAT
42170 AATATT--AAAAATAAAAAATAAAT
1 -ATATTAAAAAAATAAAAAATAAAT
*
42193 -TATTAAAAAATTAAA
1 ATATTAAAAAAATAAA
42208 TATACATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
21 4 0.12
23 23 0.72
25 5 0.16
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (24 bp):
ATATTAAAAAAATAAAAAATAAAT
Found at i:42697 original size:17 final size:18
Alignment explanation
Indices: 42672--42712 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
42662 ATTATTTATA
42672 ATATATTTTTAAA-AAAT
1 ATATATTTTTAAATAAAT
*
42689 ATATGTTTTTAAATAAAT
1 ATATATTTTTAAATAAAT
42707 ATATAT
1 ATATAT
42713 ATATATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
ATATATTTTTAAATAAAT
Found at i:42710 original size:2 final size:2
Alignment explanation
Indices: 42705--42732 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
42695 TTTTAAATAA
42705 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
42733 TAATAATTTA
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:42846 original size:16 final size:14
Alignment explanation
Indices: 42825--42878 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 14
42815 ATGAGCATTC
42825 AATTTTTTAGTAATTT
1 AATTTTTTA-T-ATTT
*
42841 AA-TTTTTATTTTT
1 AATTTTTTATATTT
42854 AATATTTTTAATATTT
1 AAT-TTTTT-ATATTT
42870 AATTTTTTA
1 AATTTTTTA
42879 AATATTTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
13 5 0.15
14 2 0.06
15 16 0.48
16 10 0.30
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (14 bp):
AATTTTTTATATTT
Found at i:42882 original size:16 final size:16
Alignment explanation
Indices: 42842--42908 Score: 59
Period size: 16 Copynumber: 4.2 Consensus size: 16
42832 TAGTAATTTA
*
42842 ATTTTT-ATTTTTAAT
1 ATTTTTAATATTTAAT
42857 ATTTTTAATATTTAAT
1 ATTTTTAATATTTAAT
42873 -TTTTTAAATATTTGAAT
1 ATTTTT-AATATTT-AAT
* * *
42890 A-ATTTCATATTTAAA
1 ATTTTTAATATTTAAT
42905 ATTT
1 ATTT
42909 AAAATAACTT
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
15 14 0.33
16 22 0.52
17 6 0.14
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (16 bp):
ATTTTTAATATTTAAT
Found at i:42894 original size:25 final size:25
Alignment explanation
Indices: 42849--42930 Score: 64
Period size: 24 Copynumber: 3.3 Consensus size: 25
42839 TTAATTTTTA
*
42849 TTTTT-AATATTTTTAAT-ATTTAAT
1 TTTTTAAATA-TTTAAATAATTTAAT
* *
42873 TTTTTAAATATTTGAATAATTTCA-
1 TTTTTAAATATTTAAATAATTTAAT
* *
42897 TATTTAAA-ATTTAAAATAACTTTTAT
1 TTTTTAAATATTT-AAATAA-TTTAAT
42923 TTTTTAAA
1 TTTTTAAA
42931 AAAAATTAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
23 4 0.09
24 23 0.49
25 13 0.28
26 7 0.15
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.57
Consensus pattern (25 bp):
TTTTTAAATATTTAAATAATTTAAT
Found at i:43086 original size:21 final size:21
Alignment explanation
Indices: 43037--43086 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
43027 ATCAGTCACT
43037 GTAAACTGTCACGTTAGCACC
1 GTAAACTGTCACGTTAGCACC
** * *
43058 GTGGACTGTCATGTTTGCACC
1 GTAAACTGTCACGTTAGCACC
43079 GTAAACTG
1 GTAAACTG
43087 CCATATTGAC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (21 bp):
GTAAACTGTCACGTTAGCACC
Found at i:47087 original size:20 final size:20
Alignment explanation
Indices: 47043--47100 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
47033 TGGATCCGTA
* *
47043 AGAATGTAAGATTATTATTG
1 AGAATGTAAGATTATCAGTG
*
47063 GGAATGTAAGATTATCAGTG
1 AGAATGTAAGATTATCAGTG
* *
47083 AGAATATAAAATTATCAG
1 AGAATGTAAGATTATCAG
47101 GGAATATGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.43, C:0.03, G:0.21, T:0.33
Consensus pattern (20 bp):
AGAATGTAAGATTATCAGTG
Found at i:47107 original size:18 final size:18
Alignment explanation
Indices: 47062--47107 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
47052 GATTATTATT
* *
47062 GGGAATGTAAGATTATCA
1 GGGAATATAAAATTATCA
47080 GTGAGAATATAAAATTATCA
1 G-G-GAATATAAAATTATCA
47100 GGGAATAT
1 GGGAATAT
47108 GATTACTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 7 0.29
19 2 0.08
20 15 0.62
ACGTcount: A:0.43, C:0.04, G:0.24, T:0.28
Consensus pattern (18 bp):
GGGAATATAAAATTATCA
Found at i:48504 original size:14 final size:14
Alignment explanation
Indices: 48485--48515 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
48475 GTGGAATTCT
48485 AAATATTTAAATAA
1 AAATATTTAAATAA
*
48499 AAATATTTATATAA
1 AAATATTTAAATAA
48513 AAA
1 AAA
48516 ATCATCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATATTTAAATAA
Found at i:49567 original size:2 final size:2
Alignment explanation
Indices: 49560--49589 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
49550 CCAACGAAAG
49560 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
49590 TAAAATTTTT
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):
AT
Found at i:51899 original size:21 final size:19
Alignment explanation
Indices: 51875--51913 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
51865 ATACGTCTGA
51875 TTATCTAATTGGATATTAAAT
1 TTATCTAATT-GA-ATTAAAT
*
51896 TTATTTAATTGAATTAAA
1 TTATCTAATTGAATTAAA
51914 ATGATGACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 2 0.12
21 9 0.53
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.49
Consensus pattern (19 bp):
TTATCTAATTGAATTAAAT
Found at i:52388 original size:15 final size:15
Alignment explanation
Indices: 52370--52413 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
52360 TTAACATATG
52370 ATTAAAATAATATTA
1 ATTAAAATAATATTA
*
52385 ATTAAAATAAAATT-
1 ATTAAAATAATATTA
*
52399 -TTAAAATTATATTA
1 ATTAAAATAATATTA
52413 A
1 A
52414 AACAAAAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 11 0.46
15 13 0.54
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTAAAATAATATTA
Found at i:54996 original size:54 final size:54
Alignment explanation
Indices: 54933--55040 Score: 180
Period size: 54 Copynumber: 2.0 Consensus size: 54
54923 AGCACTATGT
*
54933 GGCATAAAAGGTGCCAAACTGATTATATAGCACTATGAGGTGCATATGGTAAAA
1 GGCATAAAAGGTGCCAAACTGATTATATAGCACTATGAGGTGCATATGATAAAA
* * *
54987 GGCATAAAAGGTGTCAAACTGATTATATAGCACTGTGGGGTGCATATGATAAAA
1 GGCATAAAAGGTGCCAAACTGATTATATAGCACTATGAGGTGCATATGATAAAA
55041 ATGCACTAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (54 bp):
GGCATAAAAGGTGCCAAACTGATTATATAGCACTATGAGGTGCATATGATAAAA
Found at i:55085 original size:26 final size:26
Alignment explanation
Indices: 55056--55121 Score: 107
Period size: 26 Copynumber: 2.6 Consensus size: 26
55046 CTAAATGTGC
*
55056 AAGTGATATGTGGCACTTCCGAGTGA
1 AAGTGATATGTGGCACTTACGAGTGA
*
55082 AAGTGATATGTGGCACTTACGAGTGC
1 AAGTGATATGTGGCACTTACGAGTGA
55108 AAGTGATATG-GGCA
1 AAGTGATATGTGGCA
55122 TTATTTGTGC
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
25 4 0.11
26 34 0.89
ACGTcount: A:0.29, C:0.14, G:0.32, T:0.26
Consensus pattern (26 bp):
AAGTGATATGTGGCACTTACGAGTGA
Found at i:55419 original size:22 final size:22
Alignment explanation
Indices: 55370--55419 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
55360 TAAGTGAAAT
* * * *
55370 AATATAGTAAAAGATACAGTAT
1 AATATAGGAAAAAATACAATAA
*
55392 AGTATAGGAAAAAATACAATAA
1 AATATAGGAAAAAATACAATAA
55414 AATATA
1 AATATA
55420 TAGTACAATA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.60, C:0.04, G:0.12, T:0.24
Consensus pattern (22 bp):
AATATAGGAAAAAATACAATAA
Found at i:59280 original size:21 final size:21
Alignment explanation
Indices: 59268--59396 Score: 195
Period size: 21 Copynumber: 6.1 Consensus size: 21
59258 ACACTTCACG
*
59268 ATGCTGATGTGACAATCCACA
1 ATGCTGATGTGACAGTCCACA
* *
59289 ATTCTGATGTGGCAGTCCACA
1 ATGCTGATGTGACAGTCCACA
59310 ATGCTGATGTGACAGTCCACA
1 ATGCTGATGTGACAGTCCACA
* *
59331 ATTCTGATGTGGCAGTCCACA
1 ATGCTGATGTGACAGTCCACA
59352 ATGCTGATGTGACAGTCCACA
1 ATGCTGATGTGACAGTCCACA
* *
59373 ATACTGATGTGGCAGTCCACA
1 ATGCTGATGTGACAGTCCACA
59394 ATG
1 ATG
59397 ACTTGTGACG
Statistics
Matches: 96, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 96 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (21 bp):
ATGCTGATGTGACAGTCCACA
Found at i:59329 original size:42 final size:42
Alignment explanation
Indices: 59268--59396 Score: 240
Period size: 42 Copynumber: 3.1 Consensus size: 42
59258 ACACTTCACG
*
59268 ATGCTGATGTGACAATCCACAATTCTGATGTGGCAGTCCACA
1 ATGCTGATGTGACAGTCCACAATTCTGATGTGGCAGTCCACA
59310 ATGCTGATGTGACAGTCCACAATTCTGATGTGGCAGTCCACA
1 ATGCTGATGTGACAGTCCACAATTCTGATGTGGCAGTCCACA
*
59352 ATGCTGATGTGACAGTCCACAATACTGATGTGGCAGTCCACA
1 ATGCTGATGTGACAGTCCACAATTCTGATGTGGCAGTCCACA
59394 ATG
1 ATG
59397 ACTTGTGACG
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 85 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (42 bp):
ATGCTGATGTGACAGTCCACAATTCTGATGTGGCAGTCCACA
Found at i:60385 original size:21 final size:21
Alignment explanation
Indices: 60359--60410 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
60349 AGCACTGTAA
60359 ATCGCCATATATGCATCGTGG
1 ATCGCCATATATGCATCGTGG
60380 ATCGCCATATATGCATCGTGG
1 ATCGCCATATATGCATCGTGG
*
60401 ATTGCCATAT
1 ATCGCCATAT
60411 CAACACTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (21 bp):
ATCGCCATATATGCATCGTGG
Found at i:61049 original size:13 final size:13
Alignment explanation
Indices: 61031--61055 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61021 ATACTTTTAA
61031 TAATATTATATTT
1 TAATATTATATTT
61044 TAATATTATATT
1 TAATATTATATT
61056 AATATATACT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TAATATTATATTT
Found at i:61205 original size:19 final size:19
Alignment explanation
Indices: 61167--61212 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
61157 TAAAAATGAG
*
61167 TAATATTAATTTATATATT
1 TAATATTAATTAATATATT
61186 TAATATTAATATAATA-ATT
1 TAATATTAAT-TAATATATT
*
61205 TAGTATTA
1 TAATATTA
61213 TGTTAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TAATATTAATTAATATATT
Found at i:61219 original size:30 final size:27
Alignment explanation
Indices: 61173--61234 Score: 72
Period size: 30 Copynumber: 2.2 Consensus size: 27
61163 TGAGTAATAT
*
61173 TAATTTATATATTTAATATTAATA-TAA
1 TAATTTATATATTTAATA-AAATACTAA
61200 TAATTTAGTATTATGTTAATAAAATACTAA
1 TAATTTA-TA-TAT-TTAATAAAATACTAA
61230 TAATT
1 TAATT
61235 AAAATTAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 7 0.23
28 2 0.07
29 7 0.23
30 14 0.47
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (27 bp):
TAATTTATATATTTAATAAAATACTAA
Found at i:61528 original size:30 final size:30
Alignment explanation
Indices: 61492--61581 Score: 119
Period size: 30 Copynumber: 3.0 Consensus size: 30
61482 TTCCTGGAAA
* *
61492 ATGTAATTTATTTTACGTAAAATAGTTTTC
1 ATGTAATTCATTTTACGTAAAATAATTTTC
*
61522 ATGTAATTCATTTTACGTAAAACAATTTTC
1 ATGTAATTCATTTTACGTAAAATAATTTTC
* * *
61552 AGGTAA-TCATTTTACGTAAATTATTTTTC
1 ATGTAATTCATTTTACGTAAAATAATTTTC
61581 A
1 A
61582 GAAAACCAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 21 0.40
30 32 0.60
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.47
Consensus pattern (30 bp):
ATGTAATTCATTTTACGTAAAATAATTTTC
Found at i:61675 original size:18 final size:19
Alignment explanation
Indices: 61640--61676 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
61630 CACGGAATGT
61640 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
61660 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
61677 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:70074 original size:8 final size:8
Alignment explanation
Indices: 70063--70173 Score: 80
Period size: 8 Copynumber: 13.9 Consensus size: 8
70053 TGTAATTCAG
70063 TCATTCGA
1 TCATTCGA
* *
70071 TCATACGT
1 TCATTCGA
70079 TCATTCGA
1 TCATTCGA
*
70087 TCGTTCGA
1 TCATTCGA
*
70095 TCATTCAA
1 TCATTCGA
*
70103 TCATTAGA
1 TCATTCGA
*
70111 TCATTTGA
1 TCATTCGA
*
70119 TCATTCGC
1 TCATTCGA
* *
70127 TCATTAGG
1 TCATTCGA
70135 TCATTC-A
1 TCATTCGA
* *
70142 GTAATTCGG
1 -TCATTCGA
*
70151 TCATTCAA
1 TCATTCGA
* *
70159 TCATTGGG
1 TCATTCGA
70167 TCATTCG
1 TCATTCG
70174 GTTATAAGGT
Statistics
Matches: 76, Mismatches: 25, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
8 76 1.00
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (8 bp):
TCATTCGA
Found at i:70275 original size:32 final size:30
Alignment explanation
Indices: 70214--70347 Score: 115
Period size: 32 Copynumber: 4.2 Consensus size: 30
70204 ATGTCAATGA
70214 GTCATTTGGTTATTAGGTCATTTCGTCATTAG
1 GTCA-TTGGTTATTAGGTCA-TTCGTCATTAG
* *
70246 GTCATTGGGTTATTAGATCATTCGTTCATTTG
1 GTCATT-GGTTATTAGGTCATTCG-TCATTAG
* * * **
70278 GTTATTCAGTTATTAGGTCATTCAATCATTCT
1 GTCATT-GGTTATTAGGTCATTC-GTCATTAG
*
70310 GTCATTGGTTCATTAGGTCATTAAGTCATTAG
1 GTCATTGGTT-ATTAGGTCATT-CGTCATTAG
*
70342 ATCATT
1 GTCATT
70348 CGATCATTCA
Statistics
Matches: 81, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
31 9 0.11
32 72 0.89
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (30 bp):
GTCATTGGTTATTAGGTCATTCGTCATTAG
Found at i:70300 original size:16 final size:16
Alignment explanation
Indices: 70129--70348 Score: 101
Period size: 16 Copynumber: 13.8 Consensus size: 16
70119 TCATTCGCTC
*
70129 ATTAGGTCATTCAGTA
1 ATTAGGTCATTCAGTT
* * *
70145 ATTCGGTCATTCAATC
1 ATTAGGTCATTCAGTT
* *
70161 ATTGGGTCATTCGGTT
1 ATTAGGTCATTCAGTT
* * *
70177 ATAAGGTCATTAAGTA
1 ATTAGGTCATTCAGTT
*
70193 ATT-GGCTCATT-ATGTC
1 ATTAGG-TCATTCA-GTT
* **
70209 AAT-GAGTCATTTGGTT
1 ATTAG-GTCATTCAGTT
*
70225 ATTAGGTCATTTC-GTC
1 ATTAGGTCA-TTCAGTT
**
70241 ATTAGGTCATTGGGTT
1 ATTAGGTCATTCAGTT
*
70257 ATTAGATCATTC-GTT
1 ATTAGGTCATTCAGTT
* *
70272 CATTTGGTTATTCAGTT
1 -ATTAGGTCATTCAGTT
* *
70289 ATTAGGTCATTCAATC
1 ATTAGGTCATTCAGTT
** *
70305 ATTCTGTCATT-GGTT
1 ATTAGGTCATTCAGTT
* *
70320 CATTAGGTCATTAAGTC
1 -ATTAGGTCATTCAGTT
*
70337 ATTAGATCATTC
1 ATTAGGTCATTC
70349 GATCATTCAG
Statistics
Matches: 151, Mismatches: 42, Indels: 22
0.70 0.20 0.10
Matches are distributed among these distances:
15 9 0.06
16 133 0.88
17 9 0.06
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (16 bp):
ATTAGGTCATTCAGTT
Found at i:70354 original size:16 final size:16
Alignment explanation
Indices: 70225--70689 Score: 87
Period size: 16 Copynumber: 29.8 Consensus size: 16
70215 TCATTTGGTT
*
70225 ATTAGGTCATTTCG-TC
1 ATTAGATCA-TTCGATC
* * * *
70241 ATTAGGTCATTGGGTT
1 ATTAGATCATTCGATC
*
70257 ATTAGATCATTCGTTC
1 ATTAGATCATTCGATC
* * * *
70273 ATTTGGTTATTC-AGTT
1 ATTAGATCATTCGA-TC
* *
70289 ATTAGGTCATTCAATC
1 ATTAGATCATTCGATC
* * *
70305 ATTCTG-TCATTGGTTC
1 ATT-AGATCATTCGATC
* *
70321 ATTAGGTCATT-AAGTC
1 ATTAGATCATTCGA-TC
70337 ATTAGATCATTCGATC
1 ATTAGATCATTCGATC
* *
70353 ATTCAG-TCATTAGGTC
1 ATT-AGATCATTCGATC
* * * *
70369 ATTATAACATTAGTTC
1 ATTAGATCATTCGATC
* ***
70385 CTTCCTTCATTC-AT-
1 ATTAGATCATTCGATC
70399 -TTAG-TCATTC-AGTC
1 ATTAGATCATTCGA-TC
70413 ATTAGATCATT-GAGTC
1 ATTAGATCATTCGA-TC
* * *
70429 ATTAGGTTATTTGATC
1 ATTAGATCATTCGATC
* * *
70445 ATTCGATCATTAGGTC
1 ATTAGATCATTCGATC
* * * *
70461 ATTTGGTGATTCAATC
1 ATTAGATCATTCGATC
* * * *
70477 ATTAGGTTATTTGGTC
1 ATTAGATCATTCGATC
* * *
70493 ATTCA-ATCATTTGGTT
1 ATT-AGATCATTCGATC
*
70509 ATTAGGTCATTC-ATTC
1 ATTAGATCATTCGA-TC
*
70525 ATTAGGTCATTCGATC
1 ATTAGATCATTCGATC
*** * *
70541 ATTCTTTCATTAGGTC
1 ATTAGATCATTCGATC
*
70557 ATTAGGTCATTCGATC
1 ATTAGATCATTCGATC
**
70573 ATTCCATCATT---T-
1 ATTAGATCATTCGATC
* *
70585 GTT-GATCA---GGTC
1 ATTAGATCATTCGATC
*
70597 ATTCGATCATTCTG-TC
1 ATTAGATCATTC-GATC
* *
70613 ATTTA-ATCATTAGGTC
1 A-TTAGATCATTCGATC
*
70629 ATTTAG-TCATTCTATC
1 A-TTAGATCATTCGATC
*
70645 ATTTGATCATTCGATC
1 ATTAGATCATTCGATC
*
70661 ATTTGATCATTCGATC
1 ATTAGATCATTCGATC
*
70677 ATTAGGTCATTCG
1 ATTAGATCATTCG
70690 GTTAGTAGGT
Statistics
Matches: 331, Mismatches: 87, Indels: 62
0.69 0.18 0.13
Matches are distributed among these distances:
11 5 0.02
12 11 0.03
13 9 0.03
15 15 0.05
16 279 0.84
17 12 0.04
ACGTcount: A:0.24, C:0.17, G:0.16, T:0.44
Consensus pattern (16 bp):
ATTAGATCATTCGATC
Found at i:70379 original size:24 final size:24
Alignment explanation
Indices: 70103--70568 Score: 195
Period size: 24 Copynumber: 19.6 Consensus size: 24
70093 GATCATTCAA
* * *
70103 TCATTAGATCATT-TGATCATTCGC
1 TCATTAGATCATTCAG-TCATTAGG
* * *
70127 TCATTAGGTCATTCAGTAATTCGG
1 TCATTAGATCATTCAGTCATTAGG
** *
70151 TCATTCA-ATCATTGGGTCATTCGG
1 TCATT-AGATCATTCAGTCATTAGG
* * * * * * *
70175 TTATAAGGTCATTAAGTAATTGGC
1 TCATTAGATCATTCAGTCATTAGG
* * *
70199 TCATTATG-TCAATGAGTCATTTGG
1 TCATTA-GATCATTCAGTCATTAGG
* *
70223 TTATTAGGTCATTTC-GTCATTAGG
1 TCATTAGATCA-TTCAGTCATTAGG
* * * * *
70247 TCATTGGGTTATT-AGATCATTCGT
1 TCATTAGATCATTCAG-TCATTAGG
* * * *
70271 TCATTTGGTTATTCAGTTATTAGG
1 TCATTAGATCATTCAGTCATTAGG
*
70295 TCATTCA-ATCATTCTGTCATT-GG
1 TCATT-AGATCATTCAGTCATTAGG
* * *
70318 TTCATTAGGTCATTAAGTCATTAGA
1 -TCATTAGATCATTCAGTCATTAGG
*
70343 TCATTCGATCATTCAGTCATTAGG
1 TCATTAGATCATTCAGTCATTAGG
* * * ***
70367 TCATTATAACATT-AGTTCCTTCCT
1 TCATTAGATCATTCAG-TCATTAGG
*
70391 TCA-T---TCATTTAGTCATTCA-G
1 TCATTAGATCATTCAGTCATT-AGG
*
70411 TCATTAGATCATTGAGTCATTAGG
1 TCATTAGATCATTCAGTCATTAGG
* *
70435 TTATTTGATCATTC-GATCATTAGG
1 TCATTAGATCATTCAG-TCATTAGG
* * * *
70459 TCATTTGGTGATTCAATCATTAGG
1 TCATTAGATCATTCAGTCATTAGG
* * * * *
70483 TTATTTGGTCATTCAATCATTTGG
1 TCATTAGATCATTCAGTCATTAGG
* * *
70507 TTATTAGGTCATTCATTCATTAGG
1 TCATTAGATCATTCAGTCATTAGG
* **
70531 TCATTCGATCATTCTTTCATTAGG
1 TCATTAGATCATTCAGTCATTAGG
*
70555 TCATTAGGTCATTC
1 TCATTAGATCATTC
70569 GATCATTCCA
Statistics
Matches: 339, Mismatches: 80, Indels: 46
0.73 0.17 0.10
Matches are distributed among these distances:
20 11 0.03
21 3 0.01
23 13 0.04
24 305 0.90
25 7 0.02
ACGTcount: A:0.24, C:0.16, G:0.17, T:0.43
Consensus pattern (24 bp):
TCATTAGATCATTCAGTCATTAGG
Found at i:70574 original size:8 final size:8
Alignment explanation
Indices: 70531--70689 Score: 81
Period size: 8 Copynumber: 19.9 Consensus size: 8
70521 ATTCATTAGG
70531 TCATTCGA
1 TCATTCGA
**
70539 TCATTCTT
1 TCATTCGA
* *
70547 TCATTAGG
1 TCATTCGA
* *
70555 TCATTAGG
1 TCATTCGA
70563 TCATTCGA
1 TCATTCGA
*
70571 TCATTCCA
1 TCATTCGA
* *
70579 TCATTTGT
1 TCATTCGA
* *
70587 TGA-TCAGG
1 TCATTC-GA
70595 TCATTCGA
1 TCATTCGA
70603 TCATTCTG-
1 TCATTC-GA
**
70611 TCATTTAA
1 TCATTCGA
* *
70619 TCATTAGG
1 TCATTCGA
*
70627 TCATT-TA
1 TCATTCGA
*
70634 GTCATTCTA
1 -TCATTCGA
*
70643 TCATTTGA
1 TCATTCGA
70651 TCATTCGA
1 TCATTCGA
*
70659 TCATTTGA
1 TCATTCGA
70667 TCATTCGA
1 TCATTCGA
* *
70675 TCATTAGG
1 TCATTCGA
70683 TCATTCG
1 TCATTCG
70690 GTTAGTAGGT
Statistics
Matches: 114, Mismatches: 31, Indels: 12
0.73 0.20 0.08
Matches are distributed among these distances:
7 1 0.01
8 108 0.95
9 5 0.04
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.43
Consensus pattern (8 bp):
TCATTCGA
Found at i:70574 original size:24 final size:24
Alignment explanation
Indices: 70289--70709 Score: 179
Period size: 24 Copynumber: 17.4 Consensus size: 24
70279 TTATTCAGTT
* **
70289 ATTAGGTCATTCAATCATTCTGTC
1 ATTAGGTCATTCGATCATTAGGTC
* * *
70313 ATT-GGTTCATTAGGTCATTAAGTC
1 ATTAGG-TCATTCGATCATTAGGTC
*
70337 ATTAGATCATTCGATCATTCA-GTC
1 ATTAGGTCATTCGATCATT-AGGTC
** * *
70361 ATTAGGTCATTATAACATTAGTTC
1 ATTAGGTCATTCGATCATTAGGTC
* *** * **
70385 CTTCCTTCATTCATTTAGTCATTCAGTC
1 ATTAGGTCATTC---GA-TCATTAGGTC
* *
70413 ATTAGATCATT-GAGTCATTAGGTT
1 ATTAGGTCATTCGA-TCATTAGGTC
* *
70437 ATTTGATCATTCGATCATTAGGTC
1 ATTAGGTCATTCGATCATTAGGTC
* * * *
70461 ATTTGGTGATTCAATCATTAGGTT
1 ATTAGGTCATTCGATCATTAGGTC
* * * *
70485 ATTTGGTCATTCAATCATTTGGTT
1 ATTAGGTCATTCGATCATTAGGTC
70509 ATTAGGTCATTC-ATTCATTAGGTC
1 ATTAGGTCATTCGA-TCATTAGGTC
* * **
70533 ATTCGATCATTCTTTCATTAGGTC
1 ATTAGGTCATTCGATCATTAGGTC
***
70557 ATTAGGTCATTCGATCATTCCATC
1 ATTAGGTCATTCGATCATTAGGTC
* * * * * *
70581 ATTTGTTGA-TCAGGTCATTCGATC
1 ATTAGGTCATTC-GATCATTAGGTC
** **
70605 ATTCTGTCATTTAATCATTAGGTC
1 ATTAGGTCATTCGATCATTAGGTC
* * *
70629 ATTTA-GTCATTCTATCATTTGATC
1 A-TTAGGTCATTCGATCATTAGGTC
* * * * *
70653 ATTCGATCATTTGATCATTCGATC
1 ATTAGGTCATTCGATCATTAGGTC
* * *
70677 ATTAGGTCATTCGGTTAGTAGGTC
1 ATTAGGTCATTCGATCATTAGGTC
*
70701 ATTAAGTCA
1 ATTAGGTCA
70710 ATAGGTTATT
Statistics
Matches: 298, Mismatches: 84, Indels: 30
0.72 0.20 0.07
Matches are distributed among these distances:
23 8 0.03
24 268 0.90
25 7 0.02
27 2 0.01
28 13 0.04
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.43
Consensus pattern (24 bp):
ATTAGGTCATTCGATCATTAGGTC
Found at i:70716 original size:24 final size:24
Alignment explanation
Indices: 70673--70727 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
70663 TTGATCATTC
* * *
70673 GATCATTAGGTCATTCGGTTAGTA
1 GATCATTAAGTCAATAGGTTAGTA
* *
70697 GGTCATTAAGTCAATAGGTTATTA
1 GATCATTAAGTCAATAGGTTAGTA
70721 GATCATT
1 GATCATT
70728 CGATCGTTCA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (24 bp):
GATCATTAAGTCAATAGGTTAGTA
Found at i:70849 original size:60 final size:59
Alignment explanation
Indices: 70805--70928 Score: 142
Period size: 59 Copynumber: 2.1 Consensus size: 59
70795 AAAAGTTTGG
* **
70805 AAACCAATTTAGAATAAGGGTTATAGTTTAAGAATGAAATTAAAACTTTCCAAAATTTAC
1 AAACCAACTTAGAATAA-AATTATAGTTTAAGAATGAAATTAAAACTTTCCAAAATTTAC
* * * * * *
70865 AGACCAACTTAGAATAAAATTATAGTTTACGAATGAAAGTGAAACATTT-AAAAATATAC
1 AAACCAACTTAGAATAAAATTATAGTTTAAGAATGAAATTAAAAC-TTTCCAAAATTTAC
70924 AAACC
1 AAACC
70929 TAATTTAGGA
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
59 35 0.66
60 18 0.34
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.28
Consensus pattern (59 bp):
AAACCAACTTAGAATAAAATTATAGTTTAAGAATGAAATTAAAACTTTCCAAAATTTAC
Found at i:77697 original size:3 final size:3
Alignment explanation
Indices: 77689--77752 Score: 112
Period size: 3 Copynumber: 21.3 Consensus size: 3
77679 GGGCCTACAA
77689 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
77737 AA- AAT AAAT AAT AAT A
1 AAT AAT -AAT AAT AAT A
77753 TTTTTTAAAC
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.03
3 54 0.92
4 3 0.05
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:78911 original size:85 final size:85
Alignment explanation
Indices: 78809--79186 Score: 497
Period size: 85 Copynumber: 4.5 Consensus size: 85
78799 TTCGTCAGTT
* *
78809 TTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTCTGAGCTGAA
1 TTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAA
*
78874 TGTAATCGAGCTCGAAGGTC
66 TGTAATCGAACTCGAAGGTC
* * * * * *
78894 TTTGATGACATATAACCCTTCTCGCATTGAGTTATGTTGTACATTTGATATGTCTTTGAGCTGAA
1 TTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAA
*
78959 TATAATCGAACTCGAA-GTC
66 TGTAATCGAACTCGAAGGTC
* * * *
78978 TTGGTTGACAGATAACCCTTCTTGTCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAG
1 TTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAA
* * *
79043 TGTAATCGAGCTAGAAGATC
66 TGTAATCGAACTCGAAGGTC
* * * ** * * * *
79063 TTGGTTGATAGATAGCATTTCTCTCCTTGAGCTATGCTGTAAATTTGACATGCTTTTGAGCTGAA
1 TTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAA
79128 TGTAATCGAACTCGAAGGTC
66 TGTAATCGAACTCGAAGGTC
* *
79148 TTTGATGACAGATAACCCTTCTCACCTTGAGTTATGCTG
1 TTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTG
79187 CACTGGGCTG
Statistics
Matches: 246, Mismatches: 46, Indels: 2
0.84 0.16 0.01
Matches are distributed among these distances:
84 71 0.29
85 175 0.71
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (85 bp):
TTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAA
TGTAATCGAACTCGAAGGTC
Found at i:78987 original size:169 final size:170
Alignment explanation
Indices: 78812--79186 Score: 511
Period size: 169 Copynumber: 2.2 Consensus size: 170
78802 GTCAGTTTTT
*
78812 GTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTCTGAGCTGAATGT
1 GTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTCTGAGCTGAATGT
* * * * * * * *
78877 AATCGAGCTCGAAGGTCTTTGATGACATATAACCCTTCTCGCATTGAGTTATGTTGTACATTTGA
66 AATCGAGCTAGAAGATCTTGGATGACAGATAACACTTCTCGCATTGAGCTATGCTGTAAATTTGA
*
78942 TATG-TCTTTGAGCTGAATATAATCGAACTCGAA-GTCTTG
131 CATGCT-TTTGAGCTGAATATAATCGAACTCGAAGGTCTTG
* * * *
78981 GTTGACAGATAACCCTTCTTGTCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAGTGT
1 GTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTCTGAGCTGAATGT
* * * * * *
79046 AATCGAGCTAGAAGATCTTGGTTGATAGATAGCATTTCTCTCCTTGAGCTATGCTGTAAATTTGA
66 AATCGAGCTAGAAGATCTTGGATGACAGATAACACTTCTCGCATTGAGCTATGCTGTAAATTTGA
* *
79111 CATGCTTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTT
131 CATGCTTTTGAGCTGAATATAATCGAACTCGAAGGTCTTG
* *
79151 GATGACAGATAACCCTTCTCACCTTGAGTTATGCTG
1 GTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTG
79187 CACTGGGCTG
Statistics
Matches: 178, Mismatches: 26, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
169 140 0.79
170 38 0.21
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.35
Consensus pattern (170 bp):
GTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTCTGAGCTGAATGT
AATCGAGCTAGAAGATCTTGGATGACAGATAACACTTCTCGCATTGAGCTATGCTGTAAATTTGA
CATGCTTTTGAGCTGAATATAATCGAACTCGAAGGTCTTG
Found at i:81266 original size:12 final size:12
Alignment explanation
Indices: 81249--81335 Score: 77
Period size: 14 Copynumber: 6.9 Consensus size: 12
81239 GCTTCTTGTC
*
81249 TTTTTTTCTTCG
1 TTTTTTTCTTTG
*
81261 TTTTTTCCTTTG
1 TTTTTTTCTTTG
*
81273 TTTTGTTTCTCTTT
1 TTTT-TTTCT-TTG
*
81287 TTTATTTTCTCTTT
1 TTT-TTTTCT-TTG
81301 TTTATTTTCTTTG
1 TTT-TTTTCTTTG
81314 TTTTTTTCTTT-
1 TTTTTTTCTTTG
*
81325 TTTGTTTCTTT
1 TTTTTTTCTTT
81336 TCTCTTTTTG
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
11 10 0.15
12 22 0.33
13 9 0.14
14 24 0.36
15 1 0.02
ACGTcount: A:0.02, C:0.13, G:0.06, T:0.79
Consensus pattern (12 bp):
TTTTTTTCTTTG
Found at i:81338 original size:42 final size:42
Alignment explanation
Indices: 81263--81344 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
81253 TTTCTTCGTT
81263 TTTTCCTTTGTTTTGTTTCTCTTTTTTATTTTCTCTTTTTTA
1 TTTTCCTTTGTTTTGTTTCTCTTTTTTATTTTCTCTTTTTTA
* *
81305 TTTT-CTTTGTTTT-TTTCTTTTTTGTTTCTTTTCTCTTTTT
1 TTTTCCTTTGTTTTGTTTC-TCTTT-TTTATTTTCTCTTTTT
81345 GTTCTGATTG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
40 4 0.11
41 13 0.36
42 19 0.53
ACGTcount: A:0.02, C:0.13, G:0.05, T:0.79
Consensus pattern (42 bp):
TTTTCCTTTGTTTTGTTTCTCTTTTTTATTTTCTCTTTTTTA
Found at i:81349 original size:16 final size:15
Alignment explanation
Indices: 81310--81349 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
81300 TTTTATTTTC
*
81310 TTTGTTTTTTTCTTT
1 TTTGTTCTTTTCTTT
81325 TTTGTTTCTTTTCTCTT
1 TTTG-TTCTTTTCT-TT
81342 TTTGTTCT
1 TTTGTTCT
81350 GATTGGATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 4 0.18
16 12 0.55
17 6 0.27
ACGTcount: A:0.00, C:0.12, G:0.07, T:0.80
Consensus pattern (15 bp):
TTTGTTCTTTTCTTT
Found at i:81528 original size:2 final size:2
Alignment explanation
Indices: 81521--81574 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
81511 ACAACAAGGG
81521 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
81563 AT AT AT AT AT AT
1 AT AT AT AT AT AT
81575 GGATAAATGA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:91385 original size:108 final size:108
Alignment explanation
Indices: 91197--91412 Score: 310
Period size: 108 Copynumber: 2.0 Consensus size: 108
91187 GAATATGTTA
* * *
91197 AAATTTTAGTGTAGGGTAAATTATGTTGAGTGAGTTTCTCTTGTTCAACTTATGTTTAAAAAGTA
1 AAATTTTAGTGTAGGGTAAAATATGTTGAGTGAGTTTCTCTTGTTCAACTGATGTTTAAAAACTA
* * * *
91262 ATGATTTGACTATTAATATTATTATTGTATAATAATTCGGTTG
66 ATAATTTCACTATTAATATTATCATTGTATAACAATTCGGTTG
* *
91305 AAATTTTAGTGTAGGGTAAAATATGTTTGAGTGAGTTTCTCTTTTTCTACTGATGTTTAAAAACT
1 AAATTTTAGTGTAGGGTAAAATATG-TTGAGTGAGTTTCTCTTGTTCAACTGATGTTTAAAAACT
*
91370 -ATAATTTCA-TCATTAATATTATCATTTTATAACAATTCGGTTG
65 AATAATTTCACT-ATTAATATTATCATTGTATAACAATTCGGTTG
91413 TTGGACTGTT
Statistics
Matches: 96, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 1 0.01
108 60 0.62
109 35 0.36
ACGTcount: A:0.31, C:0.07, G:0.16, T:0.45
Consensus pattern (108 bp):
AAATTTTAGTGTAGGGTAAAATATGTTGAGTGAGTTTCTCTTGTTCAACTGATGTTTAAAAACTA
ATAATTTCACTATTAATATTATCATTGTATAACAATTCGGTTG
Found at i:93081 original size:27 final size:27
Alignment explanation
Indices: 93047--93114 Score: 136
Period size: 27 Copynumber: 2.5 Consensus size: 27
93037 GATAATGACT
93047 CTGAATCATTCAGAATGTACTTCTGTG
1 CTGAATCATTCAGAATGTACTTCTGTG
93074 CTGAATCATTCAGAATGTACTTCTGTG
1 CTGAATCATTCAGAATGTACTTCTGTG
93101 CTGAATCATTCAGA
1 CTGAATCATTCAGA
93115 TGTGTGAAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (27 bp):
CTGAATCATTCAGAATGTACTTCTGTG
Found at i:102859 original size:25 final size:26
Alignment explanation
Indices: 102820--102870 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
102810 AATGTTATAT
** *
102820 TTTTTAATATTTAA-TAATATTATTA
1 TTTTTAATAACTAATTAATATAATTA
102845 TTTTTAATAACTAATTAATATAATTA
1 TTTTTAATAACTAATTAATATAATTA
102871 ATAATATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (26 bp):
TTTTTAATAACTAATTAATATAATTA
Found at i:102905 original size:42 final size:41
Alignment explanation
Indices: 102831--102926 Score: 140
Period size: 42 Copynumber: 2.3 Consensus size: 41
102821 TTTTAATATT
102831 TAATAATATTATTATTTTTAATAACTAATTAATATAATTAA
1 TAATAATATTATTATTTTTAATAACTAATTAATATAATTAA
* *
102872 TAATATATAGTTATTA-TTTTAATAATTAATTAATATAATTTA
1 TAATA-ATA-TTATTATTTTTAATAACTAATTAATATAATTAA
*
102914 TAATAATTTTATT
1 TAATAATATTATT
102927 TTAATAAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
40 5 0.10
41 7 0.14
42 32 0.64
43 6 0.12
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (41 bp):
TAATAATATTATTATTTTTAATAACTAATTAATATAATTAA
Found at i:102921 original size:23 final size:23
Alignment explanation
Indices: 102844--102921 Score: 76
Period size: 23 Copynumber: 3.6 Consensus size: 23
102834 TAATATTATT
* *
102844 ATTTTTAATAACTAATTAATATA
1 ATTTATAATAATTAATTAATATA
* *
102867 ATTAATAAT-ATATAGTT-AT-T-
1 ATTTATAATAAT-TAATTAATATA
102887 ATTT-TAATAATTAATTAATATA
1 ATTTATAATAATTAATTAATATA
102909 ATTTATAATAATT
1 ATTTATAATAATT
102922 TTATTTTAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
19 8 0.19
20 7 0.16
21 2 0.05
22 7 0.16
23 19 0.44
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (23 bp):
ATTTATAATAATTAATTAATATA
Found at i:108319 original size:2 final size:2
Alignment explanation
Indices: 108312--108352 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
108302 AGGCCTATCA
108312 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
108353 AATTCAAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:111293 original size:29 final size:29
Alignment explanation
Indices: 111261--111318 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
111251 TTATTTTAAG
*
111261 ATTATAATTATGAA-AAAATATTAATTTAT
1 ATTA-AATTATAAATAAAATATTAATTTAT
* *
111290 ATTAATTTATAAATAAAATATTTATTTAT
1 ATTAAATTATAAATAAAATATTAATTTAT
111319 TTAGAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (29 bp):
ATTAAATTATAAATAAAATATTAATTTAT
Found at i:111596 original size:20 final size:20
Alignment explanation
Indices: 111567--111639 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 20
111557 ATTTATATAG
*
111567 ATAATAAAAATAATGAAATA
1 ATAATTAAAATAATGAAATA
111587 ATAATTAAAACATAAT--AATA
1 ATAATT-AAA-ATAATGAAATA
*
111607 ATAA-TAAAATATTGCAAATA
1 ATAATTAAAATAATG-AAATA
*
111627 ATGATTAAAATAA
1 ATAATTAAAATAA
111640 AAGGAAATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
17 4 0.09
18 3 0.07
19 1 0.02
20 20 0.47
21 10 0.23
22 5 0.12
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (20 bp):
ATAATTAAAATAATGAAATA
Found at i:112985 original size:3 final size:3
Alignment explanation
Indices: 112977--113051 Score: 62
Period size: 3 Copynumber: 25.0 Consensus size: 3
112967 TATATATATT
* * * * * *
112977 TAA TAA TAAA TAA TAA T-A TTA TTA TTA TAT TAA TAA TAA TAT TTA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
113022 TAA TAA TAA TAA TAA TTT TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
113052 ACGAAAAATT
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
2 2 0.03
3 54 0.92
4 3 0.05
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (3 bp):
TAA
Found at i:113028 original size:18 final size:18
Alignment explanation
Indices: 112962--113051 Score: 83
Period size: 18 Copynumber: 4.5 Consensus size: 18
112952 ATGTAATTTG
112962 TAATATATATATATTTAATAA
1 TAATA-ATA-ATATTT-ATAA
112983 TAAATAATAATATTATTATTATA
1 T-AATAATAATA-T-TTA-TA-A
113006 TTAATAATAATATTTATAA
1 -TAATAATAATATTTATAA
113025 TAATAATAATAATTT-TAA
1 TAATAATAAT-ATTTATAA
113043 TAATAATAA
1 TAATAATAA
113052 ACGAAAAATT
Statistics
Matches: 62, Mismatches: 0, Indels: 17
0.78 0.00 0.22
Matches are distributed among these distances:
18 22 0.35
19 5 0.08
20 5 0.08
21 9 0.15
22 9 0.15
23 11 0.18
24 1 0.02
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATAATAATATTTATAA
Found at i:114011 original size:76 final size:76
Alignment explanation
Indices: 113196--113984 Score: 1499
Period size: 76 Copynumber: 10.4 Consensus size: 76
113186 GAGGTCTTAA
* * *
113196 AAACATCATGCATTGAAGGGCTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
113261 AGGCTTTTTGG
66 AGGCTTTTTGG
113272 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
113337 AGGCTTTTTGG
66 AGGCTTTTTGG
*
113348 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCTGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
113413 AGGCTTTTTGG
66 AGGCTTTTTGG
*
113424 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCTGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
113489 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
113500 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATAAAAAAGCTCCTGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
113565 AGGCTTTTTGG
66 AGGCTTTTTGG
*
113576 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAACTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
113641 AGGCTTTTTGG
66 AGGCTTTTTGG
113652 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
113717 AGGCTTTTTGG
66 AGGCTTTTTGG
113728 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
113793 AGGCTTTTTGG
66 AGGCTTTTTGG
113804 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATC-AAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
113868 AGGCTTTTTGG
66 AGGCTTTTTGG
113879 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
113944 AGGCTTTTTGG
66 AGGCTTTTTGG
113955 AAACATCATGCACTGTAGGACTTACAGATG
1 AAACATCATGCACTGTAGGACTTACAGATG
113985 TAGGAAATAG
Statistics
Matches: 703, Mismatches: 9, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
75 75 0.11
76 628 0.89
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (76 bp):
AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:114241 original size:185 final size:185
Alignment explanation
Indices: 113925--114279 Score: 595
Period size: 185 Copynumber: 1.9 Consensus size: 185
113915 AGGCTTTGAA
* * * *
113925 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGTAGGA
1 AACATCAAAAAGCTCCCAAAGGATTTTTGGAAACATCATGCACTGCAGGACTTACAGATATAGGA
*
113990 AATAGTTTAATAAGTAAAAAAAACTAAGGAAATCGTTTTCTTACTTTTCAACAGTTTCAATTTAG
66 AATAGTTTAATAAGTAAAAAAAACTAAGGAAATCGTTTTCTTACTTTTCAACAATTTCAATTTAG
*
114055 AAAAGATAAAATGAAAAACTATGTAAATCGTTTTCTCATTATTTTTCAAAATAAC
131 AAAAGATAAAATGAAAAACTATGAAAATCGTTTTCTCATTATTTTTCAAAATAAC
*
114110 AACATCAAAAAGCTCCCAAAGGATTTTTGGAAACATCATGCACTGCAGGACTTACAGATATGGGA
1 AACATCAAAAAGCTCCCAAAGGATTTTTGGAAACATCATGCACTGCAGGACTTACAGATATAGGA
* * *
114175 AATAGTTTACTAAGT-AAAAAAACTAAGGAAATCGTTTTCTTACTTTTCAACAATTTTATTTTTA
66 AATAGTTTAATAAGTAAAAAAAACTAAGGAAATCGTTTTCTTACTTTTCAACAATTTCA-ATTTA
*
114239 GAAAAGATAAAATGAGAAACTATGAAAATCGTTTTCTCATT
130 GAAAAGATAAAATGAAAAACTATGAAAATCGTTTTCTCATT
114280 CTGTTTGTTT
Statistics
Matches: 158, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
184 41 0.26
185 117 0.74
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (185 bp):
AACATCAAAAAGCTCCCAAAGGATTTTTGGAAACATCATGCACTGCAGGACTTACAGATATAGGA
AATAGTTTAATAAGTAAAAAAAACTAAGGAAATCGTTTTCTTACTTTTCAACAATTTCAATTTAG
AAAAGATAAAATGAAAAACTATGAAAATCGTTTTCTCATTATTTTTCAAAATAAC
Found at i:114886 original size:22 final size:22
Alignment explanation
Indices: 114861--114915 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
114851 AATAAAGCTT
114861 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
114883 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
114905 TCATCTTTGAA
1 TCATCTTTGAA
114916 GAGTGTAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:117669 original size:115 final size:114
Alignment explanation
Indices: 117507--117730 Score: 331
Period size: 115 Copynumber: 2.0 Consensus size: 114
117497 CATGCAGCTC
* * * * * *
117507 ATCTTTTAATTCTAATGATTGGTTATGTGGTTCCTACCGAACCAGATCAGATAACTCAAAGAATA
1 ATCTTTCAAATCTAATGATTGGTTATGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACA
117572 CTTCAAGAAGATGCTATTGGGCCTCCTTATTTCTACCATGAGCAAATTT
66 CTTCAAGAAGATGCTATTGGGCCTCCTTATTTCTACCATGAGCAAATTT
* *
117621 ATCTTTCAAATCTAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAATTCAAAGAAC
1 ATCTTTCAAATCTAATGATTGG-TTATGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAAC
* * * *
117686 ACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCA
65 ACTTCAAGAAGATGCTATTGGGCCTCCTTATTTCTACCATGAGCA
117731 CATGGAACTT
Statistics
Matches: 97, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
114 20 0.21
115 77 0.79
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (114 bp):
ATCTTTCAAATCTAATGATTGGTTATGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACA
CTTCAAGAAGATGCTATTGGGCCTCCTTATTTCTACCATGAGCAAATTT
Found at i:121904 original size:36 final size:36
Alignment explanation
Indices: 121841--121910 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
121831 CATAAATGCC
* * *
121841 AAAAATAAGAATGCAAACTGTGTAATGCAAAGATGT
1 AAAAATAAGAATACAAAATGTGAAATGCAAAGATGT
*
121877 AAAAAGTAAGAATACAAAATG-GAAATGCACAGAT
1 AAAAA-TAAGAATACAAAATGTGAAATGCAAAGAT
121911 ACAAAATGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 16 0.55
37 13 0.45
ACGTcount: A:0.54, C:0.09, G:0.19, T:0.19
Consensus pattern (36 bp):
AAAAATAAGAATACAAAATGTGAAATGCAAAGATGT
Found at i:124276 original size:17 final size:16
Alignment explanation
Indices: 124228--124276 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 16
124218 AACTTCTAAC
124228 ATATAAATAAAATAATTA
1 ATATAAA-AAAAT-ATTA
*
124246 ATATCTAAAAAATATTA
1 ATAT-AAAAAAATATTA
124263 ATATAAAAATAATA
1 ATATAAAAA-AATA
124277 AGTAATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 4 0.15
17 12 0.44
18 9 0.33
19 2 0.07
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (16 bp):
ATATAAAAAAATATTA
Found at i:125068 original size:18 final size:17
Alignment explanation
Indices: 125037--125075 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
125027 AAATAAACAA
125037 ATAT-TATTTATTATAT
1 ATATATATTTATTATAT
125053 ATATATATTTATT-TAT
1 ATATATATTTATTATAT
*
125069 TTATATA
1 ATATATA
125076 GATAATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATATATTTATTATAT
Found at i:125106 original size:20 final size:20
Alignment explanation
Indices: 125077--125152 Score: 59
Period size: 20 Copynumber: 3.6 Consensus size: 20
125067 ATTTATATAG
*
125077 ATAATAAAAATAATGAAATA
1 ATAATTAAAATAATGAAATA
125097 ATAATTAAAACATAAT--AATA
1 ATAATT-AAA-ATAATGAAATA
125117 ATAA-TAAAATAATATTGCAAATA
1 ATAATTAAAAT-A-A-TG-AAATA
*
125140 ATGATTAAAATAA
1 ATAATTAAAATAA
125153 AAGGAAATAA
Statistics
Matches: 45, Mismatches: 2, Indels: 16
0.71 0.03 0.25
Matches are distributed among these distances:
17 2 0.04
18 4 0.09
19 2 0.04
20 14 0.31
21 3 0.07
22 6 0.13
23 8 0.18
24 6 0.13
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (20 bp):
ATAATTAAAATAATGAAATA
Found at i:125127 original size:14 final size:14
Alignment explanation
Indices: 125079--125130 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
125069 TTATATAGAT
* *
125079 AATAAAAATAATGA
1 AATAATAATAATAA
*
125093 AATAATAATTAAAACA
1 AATAATAA-TAATA-A
125109 TAATAATAATAATAA
1 -AATAATAATAATAA
125124 AATAATA
1 AATAATA
125131 TTGCAAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
14 14 0.45
15 4 0.13
16 5 0.16
17 8 0.26
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (14 bp):
AATAATAATAATAA
Found at i:125128 original size:17 final size:17
Alignment explanation
Indices: 125077--125130 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 17
125067 ATTTATATAG
* *
125077 ATAATAAAAATAATGAA
1 ATAATAATAATAATAAA
*
125094 ATAATAAT--TAA-AAC
1 ATAATAATAATAATAAA
125108 ATAATAATAATAATAAA
1 ATAATAATAATAATAAA
125125 ATAATA
1 ATAATA
125131 TTGCAAATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
14 9 0.30
15 3 0.10
16 3 0.10
17 15 0.50
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (17 bp):
ATAATAATAATAATAAA
Found at i:126501 original size:3 final size:3
Alignment explanation
Indices: 126493--126568 Score: 55
Period size: 3 Copynumber: 25.3 Consensus size: 3
126483 ATATATATAT
* * * * * *
126493 ATA ATA ATA ACTA ATA AT- ATT ATT ATT ATA TTA ATA ATA ATA TTT
1 ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
126538 ATA ATA ATA ATA CTA ATT TTA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
126569 ACGAAAAATT
Statistics
Matches: 58, Mismatches: 13, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
2 2 0.03
3 53 0.91
4 3 0.05
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (3 bp):
ATA
Found at i:126545 original size:18 final size:18
Alignment explanation
Indices: 126504--126568 Score: 71
Period size: 18 Copynumber: 3.7 Consensus size: 18
126494 TAATAATAAC
* *
126504 TAATAATATTATTA-TTA
1 TAATAATAATAATATTTA
*
126521 TATTAATAATAATATTTA
1 TAATAATAATAATATTTA
*
126539 TAATAATAATACTAATTT-
1 TAATAATAATAAT-ATTTA
126557 TAATAATAATAA
1 TAATAATAATAA
126569 ACGAAAAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
17 11 0.28
18 25 0.62
19 4 0.10
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATAATAATAATATTTA
Found at i:132166 original size:23 final size:24
Alignment explanation
Indices: 132126--132175 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
132116 CCACTACAGG
132126 CTATGAAATTTGTCCCGAAGGACCA
1 CTATGAAA-TTGTCCCGAAGGACCA
132151 CTATGAAA-TGTCCCGAAGGACCA
1 CTATGAAATTGTCCCGAAGGACCA
132174 CT
1 CT
132176 GTAAATCCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 17 0.68
25 8 0.32
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (24 bp):
CTATGAAATTGTCCCGAAGGACCA
Found at i:132417 original size:24 final size:24
Alignment explanation
Indices: 132382--132430 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
132372 TTGCATGGTT
132382 TCTTATTAACATATATATATCATA
1 TCTTATTAACATATATATATCATA
* * *
132406 TCTTATTCACATATATTTCTCATA
1 TCTTATTAACATATATATATCATA
132430 T
1 T
132431 AACCTATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (24 bp):
TCTTATTAACATATATATATCATA
Found at i:134330 original size:8 final size:8
Alignment explanation
Indices: 134315--134346 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
134305 CTTTTCATTT
134315 CTTTATTC
1 CTTTATTC
*
134323 CATTATTC
1 CTTTATTC
134331 CTTTATTC
1 CTTTATTC
134339 CTTTATTC
1 CTTTATTC
134347 ATTCCAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.16, C:0.25, G:0.00, T:0.59
Consensus pattern (8 bp):
CTTTATTC
Found at i:136460 original size:23 final size:24
Alignment explanation
Indices: 136420--136469 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
136410 CCACTACGGG
136420 CTATGAAATTTGTCCCGAAGGACCA
1 CTATGAAA-TTGTCCCGAAGGACCA
136445 CTATGAAA-TGTCCCGAAGGACCA
1 CTATGAAATTGTCCCGAAGGACCA
136468 CT
1 CT
136470 GTAAATCCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 17 0.68
25 8 0.32
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (24 bp):
CTATGAAATTGTCCCGAAGGACCA
Found at i:137325 original size:19 final size:19
Alignment explanation
Indices: 137301--137350 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
137291 TAAGGGGGTG
137301 CATCGATGCACTCCTTATA
1 CATCGATGCACTCCTTATA
137320 CATCGATGCACTCCTTATA
1 CATCGATGCACTCCTTATA
137339 CATCGATGCACT
1 CATCGATGCACT
137351 AATTGCATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.30
Consensus pattern (19 bp):
CATCGATGCACTCCTTATA
Found at i:145551 original size:208 final size:210
Alignment explanation
Indices: 145292--145755 Score: 669
Period size: 208 Copynumber: 2.2 Consensus size: 210
145282 AATTTTATGA
* *
145292 AAATACAAATTT-AAGAATTAAATTGAACAAATATGAAATTACAAT-AAAATTTAAATAAATTAA
1 AAATA-AAATTTGGAGAACTAAATTGAACAAATATGAAATTA-AATAAAAATTTAAATAAATTAA
145355 ACAAACACATTGATGA-GGATCAAATCGAAATAATTTTAAATTGAG-T-TTGAAATTAATACAAA
64 ACAAACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGAGATATTGAAATTAATACAAA
* *
145417 AAAGT-ACTAAAT-TATCCCATTTAAAAAGTTATGAGCC-ATTAAAAAATATAATTAAAGTAATA
129 AAAGTGACTAAATATA-CCCATTT-AAAAGTTATGAGCCAATTAAAAAATAGAAAT-AAGTAATA
*
145479 AGTATGGATCAATTTTAGATGC
191 AG-ATGGATC-ATTTCAGATGC
*
145501 AAAT-AAATTTGGAGGACTAAATTGAACAAATATGAAATTAAATAAAAATTTAAATAAATTAAAC
1 AAATAAAATTTGGAGAACTAAATTGAACAAATATGAAATTAAATAAAAATTTAAATAAATTAAAC
* *
145565 ACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGATATTGAAATTAATACAAAAA
66 AAACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGAGATATTGAAATTAATACAAAAA
** * *
145630 AGTGTTTAAATATACCCATTTAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGATG
131 AGTGACTAAATATACCCATTTAAAAGTTATGAGCCAATTAAAAAATAGAAATAAGTAATAAGATG
*
145695 GGTCATTTCAGATGC
196 GATCATTTCAGATGC
*
145710 AAATAAAATTTGGAGAACTAAATTGAACAAATATG-AATCAAATAAA
1 AAATAAAATTTGGAGAACTAAATTGAACAAATATGAAATTAAATAAA
145756 TTAAACAACA
Statistics
Matches: 231, Mismatches: 15, Indels: 18
0.88 0.06 0.07
Matches are distributed among these distances:
207 9 0.04
208 59 0.26
209 56 0.24
210 36 0.16
211 44 0.19
212 25 0.11
213 2 0.01
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.30
Consensus pattern (210 bp):
AAATAAAATTTGGAGAACTAAATTGAACAAATATGAAATTAAATAAAAATTTAAATAAATTAAAC
AAACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGAGATATTGAAATTAATACAAAAA
AGTGACTAAATATACCCATTTAAAAGTTATGAGCCAATTAAAAAATAGAAATAAGTAATAAGATG
GATCATTTCAGATGC
Found at i:145820 original size:6 final size:6
Alignment explanation
Indices: 145811--145878 Score: 95
Period size: 6 Copynumber: 11.7 Consensus size: 6
145801 CATATCATCA
*
145811 TATTCG TATTCG TATTCA TATTCG TATTCG TATTCG TA-TCG TATTCG
1 TATTCG TATTCG TATTCG TATTCG TATTCG TATTCG TATTCG TATTCG
* *
145858 TA-TCG TATTCT TATTCA TATT
1 TATTCG TATTCG TATTCG TATT
145879 TATATAACTA
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
5 10 0.18
6 46 0.82
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (6 bp):
TATTCG
Found at i:145831 original size:18 final size:18
Alignment explanation
Indices: 145808--145883 Score: 93
Period size: 18 Copynumber: 4.3 Consensus size: 18
145798 ATTCATATCA
145808 TCATATTCGTATTCGTAT
1 TCATATTCGTATTCGTAT
145826 TCATATTCGTATTCGTAT
1 TCATATTCGTATTCGTAT
*
145844 TCGTA-TCGTATTCGTA-
1 TCATATTCGTATTCGTAT
* * *
145860 TCGTATTCTTATTCATAT
1 TCATATTCGTATTCGTAT
*
145878 TTATAT
1 TCATAT
145884 AACTACATAC
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
16 5 0.10
17 20 0.39
18 26 0.51
ACGTcount: A:0.22, C:0.16, G:0.11, T:0.51
Consensus pattern (18 bp):
TCATATTCGTATTCGTAT
Found at i:145883 original size:6 final size:6
Alignment explanation
Indices: 145793--145883 Score: 60
Period size: 6 Copynumber: 15.2 Consensus size: 6
145783 GGGTTCATGG
* * * *
145793 TTCATA TTCATA TCATCATA TTCGTA TTCGTA TTCATA TTCGTA TTCGTA
1 TTCATA TTCATA T--TCATA TTCATA TTCATA TTCATA TTCATA TTCATA
* * * * * *
145843 TTCGTA -TCGTA TTCGTA -TCGTA TTCTTA TTCATA TTTATA T
1 TTCATA TTCATA TTCATA TTCATA TTCATA TTCATA TTCATA T
145884 AACTACATAC
Statistics
Matches: 75, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
5 10 0.13
6 59 0.79
8 6 0.08
ACGTcount: A:0.24, C:0.16, G:0.09, T:0.51
Consensus pattern (6 bp):
TTCATA
Found at i:145913 original size:20 final size:19
Alignment explanation
Indices: 145894--145957 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 19
145884 AACTACATAC
145894 TATAATTTATATTTATATA
1 TATAATTTATATTTATATA
*
145913 CTATATTTTATACTATT-TATA
1 -TATAATTTATA-T-TTATATA
145934 TA-AATAGTTATATTTATATA
1 TATAAT--TTATATTTATATA
145954 TATA
1 TATA
145958 TGAACTATAG
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
19 4 0.11
20 19 0.53
21 11 0.31
22 2 0.06
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.55
Consensus pattern (19 bp):
TATAATTTATATTTATATA
Found at i:145926 original size:12 final size:13
Alignment explanation
Indices: 145901--145958 Score: 50
Period size: 12 Copynumber: 4.4 Consensus size: 13
145891 TACTATAATT
145901 TATATTTATATAC
1 TATATTTATATAC
145914 TATATTT-TATAC
1 TATATTTATATAC
*
145926 TAT-TTATATAAATAGT
1 TATATT-TAT--ATA-C
145942 TATATTTATATA-
1 TATATTTATATAC
145954 TATAT
1 TATAT
145959 GAACTATAGT
Statistics
Matches: 38, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
11 2 0.05
12 14 0.37
13 8 0.21
14 3 0.08
15 3 0.08
16 6 0.16
17 2 0.05
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (13 bp):
TATATTTATATAC
Found at i:145971 original size:22 final size:22
Alignment explanation
Indices: 145942--146020 Score: 61
Period size: 22 Copynumber: 3.4 Consensus size: 22
145932 TATAAATAGT
145942 TATA-TTTATATATATATGAAC
1 TATAGTTTATATATATATGAAC
* *
145963 TATAGTTTACATATGAACTATAAATAC
1 TATAGTTTATATAT--A-TAT-GA-AC
* * *
145990 TAAAGTTGATATTTATATGAAC
1 TATAGTTTATATATATATGAAC
146012 TATAGTTTA
1 TATAGTTTA
146021 CTATGCACTA
Statistics
Matches: 43, Mismatches: 9, Indels: 11
0.68 0.14 0.17
Matches are distributed among these distances:
21 4 0.09
22 17 0.40
23 1 0.02
24 4 0.09
25 4 0.09
26 1 0.02
27 12 0.28
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (22 bp):
TATAGTTTATATATATATGAAC
Found at i:146093 original size:50 final size:45
Alignment explanation
Indices: 146039--146140 Score: 150
Period size: 50 Copynumber: 2.2 Consensus size: 45
146029 TATATATAAA
146039 ACTATATAGTATACATATGACCTATATATATACTATAGTTGCTATTATAT
1 ACTATATAGTATACATATGACC--TATATATACTATAGTT--TA-TATAT
*
146089 ACTATATAGTTTACATATGACCTATATATACTATAGTTTATATAT
1 ACTATATAGTATACATATGACCTATATATACTATAGTTTATATAT
146134 ACTATAT
1 ACTATAT
146141 GTAGACACCC
Statistics
Matches: 51, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
45 12 0.24
46 2 0.04
48 16 0.31
50 21 0.41
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (45 bp):
ACTATATAGTATACATATGACCTATATATACTATAGTTTATATAT
Found at i:146198 original size:19 final size:19
Alignment explanation
Indices: 146172--146215 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
146162 ACAATAAAAA
*
146172 ATTA-TATATATTATAATT
1 ATTATTATAAATTATAATT
146190 ATTATTATAAATTATAATT
1 ATTATTATAAATTATAATT
*
146209 AGTATTA
1 ATTATTA
146216 GTATTAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
ATTATTATAAATTATAATT
Done.