Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002392.1 Hibiscus syriacus cultivar Beakdansim tig00004894_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: 115664
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:7441 original size:6 final size:6
Alignment explanation
Indices: 7430--7456 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
7420 CAAATCTTCT
7430 AAAGAA AAAGAA AAAGAA AAAGAA AAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAA
7457 AAATAGAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:7720 original size:21 final size:21
Alignment explanation
Indices: 7696--7749 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
7686 AGGTCATCTG
* *
7696 TAAGTCTTCCAAACAAGATTT
1 TAAGTCATCCAAACAAGATGT
7717 TAAGTCATCCAAACAAGATGT
1 TAAGTCATCCAAACAAGATGT
7738 TAAGTCATCCAA
1 TAAGTCATCCAA
7750 GCCATTTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (21 bp):
TAAGTCATCCAAACAAGATGT
Found at i:8090 original size:19 final size:19
Alignment explanation
Indices: 8064--8115 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
8054 GAAATGAAGG
8064 AAAAAAAATAAAA-ACAAA
1 AAAAAAAATAAAATACAAA
*
8082 AAAATAAAATAAAATA-GAA
1 AAAA-AAAATAAAATACAAA
*
8101 AAAAAGAATAAAATA
1 AAAAAAAATAAAATA
8116 ATAAACCCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 14 0.47
19 15 0.50
20 1 0.03
ACGTcount: A:0.83, C:0.02, G:0.04, T:0.12
Consensus pattern (19 bp):
AAAAAAAATAAAATACAAA
Found at i:8114 original size:23 final size:24
Alignment explanation
Indices: 8064--8116 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 24
8054 GAAATGAAGG
8064 AAAA-AAAATAAAAACAAAAAAAT
1 AAAATAAAATAAAAACAAAAAAAT
* *
8087 AAAATAAAATAGAAA-AAAAGAAT
1 AAAATAAAATAAAAACAAAAAAAT
8110 AAAATAA
1 AAAATAA
8117 TAAACCCTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 18 0.67
24 9 0.33
ACGTcount: A:0.83, C:0.02, G:0.04, T:0.11
Consensus pattern (24 bp):
AAAATAAAATAAAAACAAAAAAAT
Found at i:9988 original size:18 final size:18
Alignment explanation
Indices: 9956--10006 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
9946 CGTAGAATTT
*
9956 GTCCCGTAGGACCACTAC
1 GTCCCGAAGGACCACTAC
* * *
9974 GTCTCGAATGACCACTAG
1 GTCCCGAAGGACCACTAC
9992 GTCCCGAAGGACCAC
1 GTCCCGAAGGACCAC
10007 ATAGAACACA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.25, C:0.35, G:0.24, T:0.16
Consensus pattern (18 bp):
GTCCCGAAGGACCACTAC
Found at i:12981 original size:64 final size:64
Alignment explanation
Indices: 12928--13090 Score: 220
Period size: 65 Copynumber: 2.5 Consensus size: 64
12918 CGGTGCACCA
*
12928 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCCAGAGTGCATCGATGCATGG
** * **
12992 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATGG
* * *
13057 AGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
13091 CAATTAATTC
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
64 39 0.46
65 46 0.54
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:13062 original size:19 final size:19
Alignment explanation
Indices: 13038--13088 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
13028 GAAAATATTC
13038 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
13057 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
13076 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
13089 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:13130 original size:65 final size:65
Alignment explanation
Indices: 12932--13139 Score: 207
Period size: 65 Copynumber: 3.2 Consensus size: 65
12922 GCACCAAGTG
* * ** *
12932 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG-CTT
1 TGCATCGGTGCATGAAATGCATTCGATGTTT-CAAAATATTCAGAGTGCATCGATGCATGGAC-T
12995 G-
64 GA
* * *
12996 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGGA--G
1 TGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCAGAGTGCATCGATGCATGGACTG
13059 A
65 A
* *
13060 GTGCATCGGTGCATGGAATGCATTCGATG-TTC-AATTAATTCATCGA-TGCATCGATGCATGGA
1 -TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA--GAGTGCATCGATGCATGGA
13122 CTGA
62 CTGA
13126 TGCATCGGTGCATG
1 TGCATCGGTGCATG
13140 CCTTTGAATA
Statistics
Matches: 124, Mismatches: 10, Indels: 19
0.81 0.07 0.12
Matches are distributed among these distances:
62 3 0.02
63 8 0.06
64 51 0.41
65 60 0.48
66 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (65 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCAGAGTGCATCGATGCATGGACTGA
Found at i:14421 original size:64 final size:63
Alignment explanation
Indices: 14318--14436 Score: 150
Period size: 64 Copynumber: 1.9 Consensus size: 63
14308 TTGTTCAAGG
* * * *
14318 GTATCGATGCACATGAAGTGCATCGATGCACTAATTTAAAATAAAAACATTGAATGCCATCAGT
1 GTATCGATGCACAAGAAGCGCATCGATGCACCAATTT-AAATAAAAACATCGAATGCCATCAGT
* * *
14382 GTATCGATGCACAAGTAGCGCATCGATGCACCCCA-TTAAATACAAACATCGAATG
1 GTATCGATGCACAAGAAGCGCATCGATGCA-CCAATTTAAATAAAAACATCGAATG
14437 GGATTTATGC
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
63 16 0.34
64 29 0.62
65 2 0.04
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (63 bp):
GTATCGATGCACAAGAAGCGCATCGATGCACCAATTTAAATAAAAACATCGAATGCCATCAGT
Found at i:15104 original size:23 final size:24
Alignment explanation
Indices: 15064--15121 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 24
15054 GATCTTTAGC
* * *
15064 ATATGTATATGATTCTTAAGGA-A
1 ATATTTATATGGTCCTTAAGGACA
*
15087 ATATTTATATGGTCCTTATGGACA
1 ATATTTATATGGTCCTTAAGGACA
*
15111 AT-CTTATATGG
1 ATATTTATATGG
15122 CACTACGGTG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
23 26 0.90
24 3 0.10
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (24 bp):
ATATTTATATGGTCCTTAAGGACA
Found at i:15157 original size:23 final size:23
Alignment explanation
Indices: 15120--15187 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
15110 AATCTTATAT
*
15120 GGCACTACGGTGCAATTATACGC
1 GGCACTTCGGTGCAATTATACGC
* * *
15143 GGTACTTCGAG-GCAATTCTACGT
1 GGCACTTCG-GTGCAATTATACGC
*
15166 GGCACTTCGGTGCATTTATACG
1 GGCACTTCGGTGCAATTATACG
15188 AGTTGTGGTG
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
22 1 0.03
23 34 0.94
24 1 0.03
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTATACGC
Found at i:21996 original size:23 final size:23
Alignment explanation
Indices: 21952--22004 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
21942 TATGGAACTA
21952 CGGTGCAATTCTACACGACACTT
1 CGGTGCAATTCTACACGACACTT
* ** *
21975 TGGTGCAATTCTACGTGGCACTT
1 CGGTGCAATTCTACACGACACTT
21998 CGGTGCA
1 CGGTGCA
22005 TCTATACGAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.28
Consensus pattern (23 bp):
CGGTGCAATTCTACACGACACTT
Found at i:26228 original size:24 final size:24
Alignment explanation
Indices: 26211--26298 Score: 133
Period size: 24 Copynumber: 3.7 Consensus size: 24
26201 ATCATAACAT
*
26211 AATCCAGGTCAAGTATCAGATCAA
1 AATCCAGGTCAAGTATCAGATCAG
26235 AATCCAGGTCAAGTATTCA-ATCAG
1 AATCCAGGTCAAGTA-TCAGATCAG
*
26259 AATCCAGGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATCAGATCAG
*
26283 AATCCAGGTCAGGTAT
1 AATCCAGGTCAAGTAT
26299 TATAATAGAA
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
23 2 0.03
24 54 0.92
25 3 0.05
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (24 bp):
AATCCAGGTCAAGTATCAGATCAG
Found at i:26246 original size:12 final size:13
Alignment explanation
Indices: 26211--26293 Score: 61
Period size: 12 Copynumber: 6.8 Consensus size: 13
26201 ATCATAACAT
26211 AATCCAGGTCAAG
1 AATCCAGGTCAAG
* *
26224 TAT-CAGATCAA-
1 AATCCAGGTCAAG
26235 AATCCAGGTCAAG
1 AATCCAGGTCAAG
* * *
26248 TATTCA-ATC-AG
1 AATCCAGGTCAAG
26259 AATCCAGGTCAAG
1 AATCCAGGTCAAG
* *
26272 TATCC-GATC-AG
1 AATCCAGGTCAAG
26283 AATCCAGGTCA
1 AATCCAGGTCA
26294 GGTATTATAA
Statistics
Matches: 50, Mismatches: 14, Indels: 12
0.66 0.18 0.16
Matches are distributed among these distances:
11 14 0.28
12 24 0.48
13 12 0.24
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (13 bp):
AATCCAGGTCAAG
Found at i:28611 original size:18 final size:17
Alignment explanation
Indices: 28571--28632 Score: 70
Period size: 18 Copynumber: 3.5 Consensus size: 17
28561 TGGTCAACGC
28571 CGGTCGGGTCAACGGGTT
1 CGGTCGGGTCAACGGG-T
*
28589 GGGTCGGGTCAACGGGT
1 CGGTCGGGTCAACGGGT
* * *
28606 CAGGTCGAGTAAATGGGT
1 C-GGTCGGGTCAACGGGT
28624 CGGTCGGGT
1 CGGTCGGGT
28633 TGTAACCAGT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
17 8 0.22
18 29 0.78
ACGTcount: A:0.15, C:0.18, G:0.47, T:0.21
Consensus pattern (17 bp):
CGGTCGGGTCAACGGGT
Found at i:30740 original size:24 final size:24
Alignment explanation
Indices: 30713--30810 Score: 92
Period size: 24 Copynumber: 4.1 Consensus size: 24
30703 TATATCAAAA
* *
30713 ATCATAACATAATCCAGGTCAAGT
1 ATCAGAACAGAATCCAGGTCAAGT
* *
30737 ATCAGATCAAAATCCAGGTCAAGT
1 ATCAGAACAGAATCCAGGTCAAGT
*
30761 ATTCA-ATA-AGAATACAGGTCAAGT
1 A-TCAGA-ACAGAATCCAGGTCAAGT
* * *
30785 ATCCGATCAGAATCCAGGTCAGGT
1 ATCAGAACAGAATCCAGGTCAAGT
30809 AT
1 AT
30811 TATAATAGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
23 2 0.03
24 55 0.92
25 3 0.05
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.23
Consensus pattern (24 bp):
ATCAGAACAGAATCCAGGTCAAGT
Found at i:30758 original size:12 final size:13
Alignment explanation
Indices: 30723--30805 Score: 52
Period size: 12 Copynumber: 6.8 Consensus size: 13
30713 ATCATAACAT
30723 AATCCAGGTCAAG
1 AATCCAGGTCAAG
* *
30736 TAT-CAGATCAA-
1 AATCCAGGTCAAG
30747 AATCCAGGTCAAG
1 AATCCAGGTCAAG
* * *
30760 TATTCA-AT-AAG
1 AATCCAGGTCAAG
*
30771 AATACAGGTCAAG
1 AATCCAGGTCAAG
* *
30784 TATCC-GATC-AG
1 AATCCAGGTCAAG
30795 AATCCAGGTCA
1 AATCCAGGTCA
30806 GGTATTATAA
Statistics
Matches: 49, Mismatches: 15, Indels: 12
0.64 0.20 0.16
Matches are distributed among these distances:
11 15 0.31
12 22 0.45
13 12 0.24
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (13 bp):
AATCCAGGTCAAG
Found at i:34434 original size:21 final size:21
Alignment explanation
Indices: 34408--34463 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
34398 TCTTAATGTT
34408 TTAAGCTTATATAAGCTTTCC
1 TTAAGCTTATATAAGCTTTCC
34429 TTAAGCTTATATAAGCTTTCC
1 TTAAGCTTATATAAGCTTTCC
34450 TTAAGCTTATATAA
1 TTAAGCTTATATAA
34464 CACTCAAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.32, C:0.16, G:0.09, T:0.43
Consensus pattern (21 bp):
TTAAGCTTATATAAGCTTTCC
Found at i:35433 original size:13 final size:12
Alignment explanation
Indices: 35402--35440 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
35392 GTTTGGTTGT
35402 TTTGGTCTCAGG
1 TTTGGTCTCAGG
35414 TTTGGTCTCAGG
1 TTTGGTCTCAGG
*
35426 TTTAGGTCTTAGG
1 TTT-GGTCTCAGG
35439 TT
1 TT
35441 GTAGATCGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.10, C:0.13, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTGGTCTCAGG
Found at i:36458 original size:153 final size:151
Alignment explanation
Indices: 36184--36459 Score: 323
Period size: 153 Copynumber: 1.8 Consensus size: 151
36174 CAGTTAAGGG
* * *
36184 GGCATTTTCATGGATTCCCCATACAAAATAATATTGCCCTAATTTTTAATAAATTATTATATATA
1 GGCATTTTCATAGATTCCCCATACAAAATAATATTGCCCTAACTTTTAATAAATTATCATATATA
* *
36249 TACAATATTTTGAAGAAAAAAACTCGAATATAAAAAGCTGTTACTTTGTATGAACAATCATTGGG
66 TACAATATTTTGAAGAAAAAAACTCGAATATAAAAAGCTATTACTTTGTATAAACAATCATTGGG
36314 AATGTGATCCTGGTCAGTTAA
131 AATGTGATCCTGGTCAGTTAA
* * *
36335 GGCATGTTTCCATAGATTCCCCATACAAAATAATATTGCCTTAGCTTTTAGTTAAA-TA-CATAT
1 GGCAT-TTT-CATAGATTCCCCATACAAAATAATATTGCCCTAACTTTTA-ATAAATTATCATAT
* * *
36398 AT-TA-AATATATTT-AA-AAAACAAATTCATTCGAATAT-AAAAGGTATTATTTTGTTTAAACA
63 ATATACAATAT-TTTGAAGAAAA-AAA--C--TCGAATATAAAAAGCTATTACTTTGTATAAACA
36458 AT
122 AT
36460 TCTTGAAAAC
Statistics
Matches: 105, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
149 4 0.04
150 10 0.10
151 10 0.10
152 10 0.10
153 59 0.56
154 12 0.11
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.36
Consensus pattern (151 bp):
GGCATTTTCATAGATTCCCCATACAAAATAATATTGCCCTAACTTTTAATAAATTATCATATATA
TACAATATTTTGAAGAAAAAAACTCGAATATAAAAAGCTATTACTTTGTATAAACAATCATTGGG
AATGTGATCCTGGTCAGTTAA
Found at i:37981 original size:26 final size:25
Alignment explanation
Indices: 37934--37985 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
37924 TTTGGCATGC
37934 ATAAAATAATATAATATAAATATAA
1 ATAAAATAATATAATATAAATATAA
*
37959 ATAAAATTATAATAATA-ATAATATAA
1 ATAAAATAAT-ATAATATA-AATATAA
37985 A
1 A
37986 AACGTAGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (25 bp):
ATAAAATAATATAATATAAATATAA
Found at i:41819 original size:25 final size:25
Alignment explanation
Indices: 41747--41819 Score: 59
Period size: 25 Copynumber: 3.2 Consensus size: 25
41737 TTGCCCTAAT
41747 CTATCCATTTCACTATATGAAATTA
1 CTATCCATTTCACTATATGAAATTA
* * ***
41772 CTATTCAATT-A-TCCCT--AA-T-
1 CTATCCATTTCACTATATGAAATTA
41791 CTATCCATTTCACTATATGAAATTA
1 CTATCCATTTCACTATATGAAATTA
41816 CTAT
1 CTAT
41820 TTTACTATTA
Statistics
Matches: 32, Mismatches: 10, Indels: 12
0.59 0.19 0.22
Matches are distributed among these distances:
19 8 0.25
20 2 0.06
21 4 0.12
23 4 0.12
24 2 0.06
25 12 0.38
ACGTcount: A:0.34, C:0.22, G:0.03, T:0.41
Consensus pattern (25 bp):
CTATCCATTTCACTATATGAAATTA
Found at i:41821 original size:21 final size:21
Alignment explanation
Indices: 41753--41827 Score: 55
Period size: 21 Copynumber: 3.5 Consensus size: 21
41743 TAATCTATCC
41753 ATTTCACTATATGAAATTACT
1 ATTTCACTATATGAAATTACT
* ** *
41774 A-TTCAAT-TATCCCTAATCTATCC
1 ATTTCACTATAT--GAAAT-TA-CT
41797 ATTTCACTATATGAAATTACT
1 ATTTCACTATATGAAATTACT
*
41818 ATTTTACTAT
1 ATTTCACTAT
41828 TATACATAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 12
0.65 0.15 0.20
Matches are distributed among these distances:
19 3 0.08
20 5 0.13
21 14 0.36
22 4 0.10
23 5 0.13
24 5 0.13
25 3 0.08
ACGTcount: A:0.35, C:0.19, G:0.03, T:0.44
Consensus pattern (21 bp):
ATTTCACTATATGAAATTACT
Found at i:46587 original size:6 final size:6
Alignment explanation
Indices: 46579--46613 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
46569 GACCATCCTC
*
46579 TCTCTC TCTCTA TCTCTA TCTCTA TCTCTA TCTCT
1 TCTCTA TCTCTA TCTCTA TCTCTA TCTCTA TCTCT
46614 TTCCTTTAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.11, C:0.37, G:0.00, T:0.51
Consensus pattern (6 bp):
TCTCTA
Found at i:46744 original size:22 final size:22
Alignment explanation
Indices: 46700--46746 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
46690 GAAAAGTACA
* *
46700 AAAGATAAATGAAGGAAATTTT
1 AAAGATAAATGAAGAAAACTTT
46722 AAAGATAAGATGAA-AAAACTTT
1 AAAGATAA-ATGAAGAAAACTTT
46744 AAA
1 AAA
46747 AGCATCTGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.60, C:0.02, G:0.15, T:0.23
Consensus pattern (22 bp):
AAAGATAAATGAAGAAAACTTT
Found at i:46748 original size:23 final size:22
Alignment explanation
Indices: 46699--46748 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
46689 AGAAAAGTAC
*
46699 AAAAGATAAATGAAGGAAATTT
1 AAAAGATAAATGAAGAAAATTT
*
46721 TAAAGATAAGATGAA-AAAACTTT
1 AAAAGATAA-ATGAAGAAAA-TTT
46744 AAAAG
1 AAAAG
46749 CATCTGATGC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.60, C:0.02, G:0.16, T:0.22
Consensus pattern (22 bp):
AAAAGATAAATGAAGAAAATTT
Found at i:55709 original size:26 final size:26
Alignment explanation
Indices: 55673--55723 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
55663 TCTAACGTCA
55673 TTACATAATTAAACAGAAAAATAAGG
1 TTACATAATTAAACAGAAAAATAAGG
*
55699 TTACATAATTAAATAGAAAAATAAG
1 TTACATAATTAAACAGAAAAATAAG
55724 TGTATTAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.59, C:0.06, G:0.10, T:0.25
Consensus pattern (26 bp):
TTACATAATTAAACAGAAAAATAAGG
Found at i:57539 original size:2 final size:2
Alignment explanation
Indices: 57527--57559 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
57517 AGAACAAACC
*
57527 AT AT AT TT 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 A
57560 GAGAGAGAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:59158 original size:16 final size:17
Alignment explanation
Indices: 59137--59170 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
59127 AATTTTTATT
*
59137 ATTTAATATA-AAAATA
1 ATTTAAAATATAAAATA
59153 ATTTAAAATATAAAATA
1 ATTTAAAATATAAAATA
59170 A
1 A
59171 AAATAGAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATTTAAAATATAAAATA
Found at i:70795 original size:23 final size:23
Alignment explanation
Indices: 70736--70795 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 23
70726 ATGAACTATA
70736 TTAAAAATATATTATCAAATTTTT
1 TTAAAAATATATTATCAAA-TTTT
*
70760 TTGAATAATTATATTATCAAA-TTT
1 TT-AA-AAATATATTATCAAATTTT
70784 TTAAAACATATA
1 TTAAAA-ATATA
70796 ACTAATGTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
22 2 0.06
23 6 0.19
24 7 0.23
25 2 0.06
26 14 0.45
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (23 bp):
TTAAAAATATATTATCAAATTTT
Found at i:72178 original size:23 final size:23
Alignment explanation
Indices: 72148--72235 Score: 99
Period size: 23 Copynumber: 3.7 Consensus size: 23
72138 CACATAATTA
72148 TCCCGAAGGACCACATAATTTTG
1 TCCCGAAGGACCACATAATTTTG
*
72171 TCCCGAAGGACCACA-AAGGTTTG
1 TCCCGAAGGACCACATAA-TTTTG
* *
72194 TCCCGAGGGACCACATACTTTTTTG
1 TCCCGAAGGACCACATA--ATTTTG
72219 TCCCGAATGG-CCACATA
1 TCCCGAA-GGACCACATA
72236 GAACCCTCGA
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
22 2 0.04
23 33 0.60
24 1 0.02
25 17 0.31
26 2 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (23 bp):
TCCCGAAGGACCACATAATTTTG
Found at i:73007 original size:14 final size:14
Alignment explanation
Indices: 72988--73016 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
72978 TATCAATACT
72988 GTTCTTCCAGTACC
1 GTTCTTCCAGTACC
73002 GTTCTTCCAGTACC
1 GTTCTTCCAGTACC
73016 G
1 G
73017 ATACCCTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.34, G:0.17, T:0.34
Consensus pattern (14 bp):
GTTCTTCCAGTACC
Found at i:80421 original size:18 final size:18
Alignment explanation
Indices: 80398--80432 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
80388 TTCCATCCGG
*
80398 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
80416 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
80433 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:81544 original size:7 final size:7
Alignment explanation
Indices: 81532--81569 Score: 58
Period size: 7 Copynumber: 5.1 Consensus size: 7
81522 GTCAACAGTA
81532 GTCAACG
1 GTCAACG
81539 GTCAACGG
1 GTCAAC-G
81547 GTCAACG
1 GTCAACG
81554 GTCAACGG
1 GTCAAC-G
81562 GTCAACG
1 GTCAACG
81569 G
1 G
81570 GTCGGGTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 15 0.52
8 14 0.48
ACGTcount: A:0.26, C:0.26, G:0.34, T:0.13
Consensus pattern (7 bp):
GTCAACG
Found at i:81551 original size:8 final size:8
Alignment explanation
Indices: 81532--81603 Score: 73
Period size: 8 Copynumber: 9.4 Consensus size: 8
81522 GTCAACAGTA
81532 GTCAAC-G
1 GTCAACGG
81539 GTCAACGG
1 GTCAACGG
81547 GTCAAC-G
1 GTCAACGG
81554 GTCAACGG
1 GTCAACGG
81562 GTCAACGG
1 GTCAACGG
81570 GT---CGG
1 GTCAACGG
*
81575 GTCAACGA
1 GTCAACGG
*
81583 GTCGAGTCGG
1 GTC-A-ACGG
81593 GTCAACGG
1 GTCAACGG
81601 GTC
1 GTC
81604 GGGTAAACGG
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
5 5 0.09
7 13 0.24
8 29 0.54
9 2 0.04
10 5 0.09
ACGTcount: A:0.22, C:0.25, G:0.38, T:0.15
Consensus pattern (8 bp):
GTCAACGG
Found at i:81552 original size:15 final size:15
Alignment explanation
Indices: 81532--81569 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
81522 GTCAACAGTA
81532 GTCAACGGTCAACGG
1 GTCAACGGTCAACGG
81547 GTCAACGGTCAACGG
1 GTCAACGGTCAACGG
81562 GTCAACGG
1 GTCAACGG
81570 GTCGGGTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.34, T:0.13
Consensus pattern (15 bp):
GTCAACGGTCAACGG
Found at i:81577 original size:13 final size:13
Alignment explanation
Indices: 81559--81621 Score: 72
Period size: 13 Copynumber: 4.5 Consensus size: 13
81549 CAACGGTCAA
81559 CGGGTCAACGGGT
1 CGGGTCAACGGGT
81572 CGGGTCAACGAGTCGAGT
1 CGGGTCAAC--G--G-GT
81590 CGGGTCAACGGGT
1 CGGGTCAACGGGT
*
81603 CGGGTAAACGGGT
1 CGGGTCAACGGGT
81616 CGGGTC
1 CGGGTC
81622 GGGTTGTGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
13 28 0.65
14 1 0.02
15 1 0.02
16 1 0.02
17 1 0.02
18 11 0.26
ACGTcount: A:0.17, C:0.22, G:0.44, T:0.16
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:81593 original size:18 final size:18
Alignment explanation
Indices: 81570--81604 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
81560 GGGTCAACGG
81570 GTCGGGTCAACGAGTCGA
1 GTCGGGTCAACGAGTCGA
*
81588 GTCGGGTCAACGGGTCG
1 GTCGGGTCAACGAGTCG
81605 GGTAAACGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.43, T:0.17
Consensus pattern (18 bp):
GTCGGGTCAACGAGTCGA
Found at i:81597 original size:31 final size:30
Alignment explanation
Indices: 81544--81625 Score: 105
Period size: 31 Copynumber: 2.7 Consensus size: 30
81534 CAACGGTCAA
*
81544 CGGGTCAACGGTC-A-ACGGGTCAACGGGT
1 CGGGTCAACGGTCGAGTCGGGTCAACGGGT
81572 CGGGTCAACGAGTCGAGTCGGGTCAACGGGT
1 CGGGTCAACG-GTCGAGTCGGGTCAACGGGT
* *
81603 CGGGTAAACGGGTCGGGTCGGGT
1 CGGGTCAAC-GGTCGAGTCGGGT
81626 TGTGACCGGT
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
28 10 0.21
29 3 0.06
30 1 0.02
31 32 0.68
32 1 0.02
ACGTcount: A:0.18, C:0.22, G:0.44, T:0.16
Consensus pattern (30 bp):
CGGGTCAACGGTCGAGTCGGGTCAACGGGT
Found at i:85406 original size:18 final size:18
Alignment explanation
Indices: 85383--85417 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
85373 TTCCATCCGG
*
85383 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
85401 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
85418 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:86530 original size:7 final size:7
Alignment explanation
Indices: 86518--86555 Score: 58
Period size: 7 Copynumber: 5.1 Consensus size: 7
86508 GTCAACAGTA
86518 GTCAACG
1 GTCAACG
86525 GTCAACGG
1 GTCAAC-G
86533 GTCAACG
1 GTCAACG
86540 GTCAACGG
1 GTCAAC-G
86548 GTCAACG
1 GTCAACG
86555 G
1 G
86556 GTCGGGTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 15 0.52
8 14 0.48
ACGTcount: A:0.26, C:0.26, G:0.34, T:0.13
Consensus pattern (7 bp):
GTCAACG
Found at i:86537 original size:8 final size:8
Alignment explanation
Indices: 86518--86589 Score: 73
Period size: 8 Copynumber: 9.4 Consensus size: 8
86508 GTCAACAGTA
86518 GTCAAC-G
1 GTCAACGG
86525 GTCAACGG
1 GTCAACGG
86533 GTCAAC-G
1 GTCAACGG
86540 GTCAACGG
1 GTCAACGG
86548 GTCAACGG
1 GTCAACGG
86556 GT---CGG
1 GTCAACGG
*
86561 GTCAACGA
1 GTCAACGG
*
86569 GTCGAGTCGG
1 GTC-A-ACGG
86579 GTCAACGG
1 GTCAACGG
86587 GTC
1 GTC
86590 GGGTAAACGG
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
5 5 0.09
7 13 0.24
8 29 0.54
9 2 0.04
10 5 0.09
ACGTcount: A:0.22, C:0.25, G:0.38, T:0.15
Consensus pattern (8 bp):
GTCAACGG
Found at i:86538 original size:15 final size:15
Alignment explanation
Indices: 86518--86555 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
86508 GTCAACAGTA
86518 GTCAACGGTCAACGG
1 GTCAACGGTCAACGG
86533 GTCAACGGTCAACGG
1 GTCAACGGTCAACGG
86548 GTCAACGG
1 GTCAACGG
86556 GTCGGGTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.34, T:0.13
Consensus pattern (15 bp):
GTCAACGGTCAACGG
Found at i:86563 original size:13 final size:13
Alignment explanation
Indices: 86545--86607 Score: 72
Period size: 13 Copynumber: 4.5 Consensus size: 13
86535 CAACGGTCAA
86545 CGGGTCAACGGGT
1 CGGGTCAACGGGT
86558 CGGGTCAACGAGTCGAGT
1 CGGGTCAAC--G--G-GT
86576 CGGGTCAACGGGT
1 CGGGTCAACGGGT
*
86589 CGGGTAAACGGGT
1 CGGGTCAACGGGT
86602 CGGGTC
1 CGGGTC
86608 GGGTTGTGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
13 28 0.65
14 1 0.02
15 1 0.02
16 1 0.02
17 1 0.02
18 11 0.26
ACGTcount: A:0.17, C:0.22, G:0.44, T:0.16
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:86579 original size:18 final size:18
Alignment explanation
Indices: 86556--86590 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
86546 GGGTCAACGG
86556 GTCGGGTCAACGAGTCGA
1 GTCGGGTCAACGAGTCGA
*
86574 GTCGGGTCAACGGGTCG
1 GTCGGGTCAACGAGTCG
86591 GGTAAACGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.43, T:0.17
Consensus pattern (18 bp):
GTCGGGTCAACGAGTCGA
Found at i:86583 original size:31 final size:30
Alignment explanation
Indices: 86530--86611 Score: 105
Period size: 31 Copynumber: 2.7 Consensus size: 30
86520 CAACGGTCAA
*
86530 CGGGTCAACGGTC-A-ACGGGTCAACGGGT
1 CGGGTCAACGGTCGAGTCGGGTCAACGGGT
86558 CGGGTCAACGAGTCGAGTCGGGTCAACGGGT
1 CGGGTCAACG-GTCGAGTCGGGTCAACGGGT
* *
86589 CGGGTAAACGGGTCGGGTCGGGT
1 CGGGTCAAC-GGTCGAGTCGGGT
86612 TGTGACCGGT
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
28 10 0.21
29 3 0.06
30 1 0.02
31 32 0.68
32 1 0.02
ACGTcount: A:0.18, C:0.22, G:0.44, T:0.16
Consensus pattern (30 bp):
CGGGTCAACGGTCGAGTCGGGTCAACGGGT
Found at i:87897 original size:14 final size:16
Alignment explanation
Indices: 87863--87901 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
87853 CATAAGCATT
*
87863 CAAACAAACCACAACA
1 CAAACAATCCACAACA
87879 CAAACAATCCA-AA-A
1 CAAACAATCCACAACA
87893 CAAACAATC
1 CAAACAATC
87902 TAAACCAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.45
15 2 0.09
16 10 0.45
ACGTcount: A:0.62, C:0.33, G:0.00, T:0.05
Consensus pattern (16 bp):
CAAACAATCCACAACA
Found at i:89928 original size:21 final size:22
Alignment explanation
Indices: 89878--89932 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 22
89868 CCCATAGAGG
89878 GGTATCGATACACATTCAAAGA
1 GGTATCGATACACATTCAAAGA
89900 GGGTATCGATACACATTC-AAGCA
1 -GGTATCGATACACATTCAAAG-A
89923 -GTATCGATAC
1 GGTATCGATAC
89933 CGAGCAAGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
21 10 0.32
22 3 0.10
23 18 0.58
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (22 bp):
GGTATCGATACACATTCAAAGA
Found at i:95649 original size:20 final size:21
Alignment explanation
Indices: 95606--95661 Score: 96
Period size: 20 Copynumber: 2.7 Consensus size: 21
95596 TTAGGAGCAT
*
95606 AGGGGTATCGGTACACCTTCA
1 AGGGGTATCGATACACCTTCA
95627 AGGGGTATCGATACACC-TCA
1 AGGGGTATCGATACACCTTCA
95647 AGGGGTATCGATACA
1 AGGGGTATCGATACA
95662 TCGTGTGTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 18 0.53
21 16 0.47
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (21 bp):
AGGGGTATCGATACACCTTCA
Found at i:97581 original size:23 final size:23
Alignment explanation
Indices: 97539--97638 Score: 91
Period size: 23 Copynumber: 4.3 Consensus size: 23
97529 CACTGAAGTG
*
97539 CCACATAA--TTGTCCCAAAGGA
1 CCACATAATTTTGTCCCGAAGGA
*
97560 CCACATAATTTTATCCCGAAGGA
1 CCACATAATTTTGTCCCGAAGGA
*
97583 CCACA-AAGGTTTGTCCC-AAGGGA
1 CCACATAA-TTTTGTCCCGAA-GGA
* *
97606 CCACATACTTTTTTGTCCCGAATGA
1 CCACATA--ATTTTGTCCCGAAGGA
97631 CCACATAA
1 CCACATAA
97639 AACCCTCGAC
Statistics
Matches: 63, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
21 8 0.13
22 4 0.06
23 31 0.49
24 1 0.02
25 17 0.27
26 2 0.03
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (23 bp):
CCACATAATTTTGTCCCGAAGGA
Found at i:101600 original size:30 final size:29
Alignment explanation
Indices: 101543--101610 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 29
101533 ACAAGACTTA
* * *
101543 GAAAAATTTGGGGACCATTCTATAATTTT
1 GAAAAAGTTGGGGACCAATCGATAATTTT
*
101572 TAAAAAGTTGGGGACCAAATCGATAATTTT
1 GAAAAAGTTGGGGACC-AATCGATAATTTT
*
101602 GGAAAAGTT
1 GAAAAAGTT
101611 TTGGATTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 14 0.44
30 18 0.56
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.32
Consensus pattern (29 bp):
GAAAAAGTTGGGGACCAATCGATAATTTT
Found at i:101601 original size:29 final size:30
Alignment explanation
Indices: 101543--101607 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
101533 ACAAGACTTA
* * *
101543 GAAAAATTTGGGGACCATTCTATAATTTTT
1 GAAAAAGTTGGGGACCAATCGATAATTTTT
*
101573 -AAAAAGTTGGGGACCAAATCGATAATTTTG
1 GAAAAAGTTGGGGACC-AATCGATAATTTTT
101603 GAAAA
1 GAAAA
101608 GTTTTGGATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 14 0.48
30 11 0.38
31 4 0.14
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (30 bp):
GAAAAAGTTGGGGACCAATCGATAATTTTT
Found at i:103000 original size:17 final size:17
Alignment explanation
Indices: 102976--103051 Score: 71
Period size: 17 Copynumber: 4.4 Consensus size: 17
102966 GATTTTTAGT
102976 TATCAGATATTTACAGA
1 TATCAGATATTTACAGA
* * * *
102993 TATAAGATAATTATAGT
1 TATCAGATATTTACAGA
* *
103010 TATCATATATTTACAAA
1 TATCAGATATTTACAGA
* *
103027 TATCATATATTTTACAGT
1 TATCAGATA-TTTACAGA
103045 TATCAGA
1 TATCAGA
103052 CACAGATTAA
Statistics
Matches: 45, Mismatches: 13, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
17 33 0.73
18 12 0.27
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (17 bp):
TATCAGATATTTACAGA
Found at i:108369 original size:90 final size:92
Alignment explanation
Indices: 108208--108397 Score: 240
Period size: 90 Copynumber: 2.1 Consensus size: 92
108198 TTAACAACGA
* * * * *
108208 GTACTAAAATGAAATAAAAACTAAATTTTAGGTTTTATTTTAAAAAAAATTAAAAATTTAAATAC
1 GTACTAAAATGAAATAAAAACTAAATCTTAAGTATGATTTTAAAAAAAATTAAAAATTTAAATAA
*
108273 TAAAACAAACTAAAGCTGATAGTTTAG
66 TAAAACAAACTAAAACTGATAGTTTAG
* * * * *
108300 GTACTAAAATGAAAT-GAAATTAAATCTTAAGTATGATTTT-AAAAGAATTAAAAGTTTAGATAA
1 GTACTAAAATGAAATAAAAACTAAATCTTAAGTATGATTTTAAAAAAAATTAAAAATTTAAATAA
* *
108363 TAAAACAGACTAAAACTGATATTTTAG
66 TAAAACAAACTAAAACTGATAGTTTAG
*
108390 ATACTAAA
1 GTACTAAA
108398 CACATAGTTT
Statistics
Matches: 84, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
90 50 0.60
91 19 0.23
92 15 0.18
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (92 bp):
GTACTAAAATGAAATAAAAACTAAATCTTAAGTATGATTTTAAAAAAAATTAAAAATTTAAATAA
TAAAACAAACTAAAACTGATAGTTTAG
Done.