Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007795.1 Hibiscus syriacus cultivar Beakdansim tig00110085_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: 213162
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:4193 original size:21 final size:20
Alignment explanation
Indices: 4169--4208 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
4159 CTCTTTTTAC
4169 TATTTAAATTTAAATATATAT
1 TATTTAAATTTAAA-ATATAT
*
4190 TATTTTAATTTAAAATATA
1 TATTTAAATTTAAAATATA
4209 CAAAAGTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TATTTAAATTTAAAATATAT
Found at i:4266 original size:186 final size:184
Alignment explanation
Indices: 3962--4396 Score: 494
Period size: 186 Copynumber: 2.4 Consensus size: 184
3952 ATTTAAATAT
** * * *
3962 TCAAAAAATAAACTCCCTTTACCA-TTATAACTT-AATAGATATTATTTTAATTAAAAATA-ATA
1 TCAAAAAATAAACTCATTTTACTATTTA-AACTTAAATA-ATATTATTTTAATTTAAAATATACA
*
4024 AAATATATAATTATCTTTAATATTCAAAGTTAAAAAGGTATAAGATACATTTTTAAATTGACATA
64 AAATATATAATTATCTTTAATATTCAAAGTTAAAAAGGTATAAGATACACTTTTAAATTGACATA
* * *
4089 CTAAAAGAATAATTATTC-TACTAATATTCAAATTAAATAATAGATTTAATTTGCAATTG
129 CTAAAAGAATAATTA-TCATACAAATATTAAAATT--ATAATAGA-TTAATTTGCAATGG
* *
4148 TCAAAAAAT-AACTCTTTTTACTATTTAAATTTAAATATATATTATTTTAATTTAAAATATACAA
1 TCAAAAAATAAACTCATTTTACTATTTAAACTTAAATA-ATATTATTTTAATTTAAAATATACAA
* *
4212 AAGTATAT-ATTATCTTTAATATTCAAATTTAAAAAGGTA-ACA-ACTAC-CTTTTAAATTGAGA
65 AA-TATATAATTATCTTTAATATTCAAAGTTAAAAAGGTATA-AGA-TACACTTTTAAATTGACA
* * * * *
4273 TATTCAAAGAGTAATTATCATACAAATATTAAAATTATAATATATTAATTTGTAATGG
127 TACTAAAAGAATAATTATCATACAAATATTAAAATTATAATAGATTAATTTGCAATGG
* ** * **
4331 TGAAAAGGTAAATTCATTTTACTATTTAAACTTAAGCAA-ATTATTTTAATTTAAAATATACAAA
1 TCAAAAAATAAACTCATTTTACTATTTAAACTTAAATAATATTATTTTAATTTAAAATATACAAA
4395 AT
66 AT
4397 TAAAAGATAA
Statistics
Matches: 215, Mismatches: 26, Indels: 21
0.82 0.10 0.08
Matches are distributed among these distances:
181 1 0.00
182 26 0.12
183 19 0.09
184 30 0.14
185 17 0.08
186 78 0.36
187 39 0.18
188 5 0.02
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.40
Consensus pattern (184 bp):
TCAAAAAATAAACTCATTTTACTATTTAAACTTAAATAATATTATTTTAATTTAAAATATACAAA
ATATATAATTATCTTTAATATTCAAAGTTAAAAAGGTATAAGATACACTTTTAAATTGACATACT
AAAAGAATAATTATCATACAAATATTAAAATTATAATAGATTAATTTGCAATGG
Found at i:5535 original size:18 final size:17
Alignment explanation
Indices: 5490--5536 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
5480 TTAGAGAAGT
5490 AAAATTAAAA-TAACAA
1 AAAATTAAAATTAACAA
* *
5506 AAATATTTAAATTAGACTA
1 AAA-ATTAAAATTA-ACAA
5525 AAAATTAAAATT
1 AAAATTAAAATT
5537 TTTAAAGAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 3 0.12
17 6 0.24
18 10 0.40
19 6 0.24
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (17 bp):
AAAATTAAAATTAACAA
Found at i:12527 original size:14 final size:15
Alignment explanation
Indices: 12495--12525 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
12485 GTAAAATTTT
12495 AATTATTTAAATAAA
1 AATTATTTAAATAAA
*
12510 AATTATTTATATAAA
1 AATTATTTAAATAAA
12525 A
1 A
12526 TTCATTGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AATTATTTAAATAAA
Found at i:12810 original size:31 final size:32
Alignment explanation
Indices: 12753--12818 Score: 116
Period size: 31 Copynumber: 2.1 Consensus size: 32
12743 ATTTCTCGAA
12753 AGATGATTTCTACTGAGTCGGACTCTTGTTAC
1 AGATGATTTCTACTGAGTCGGACTCTTGTTAC
*
12785 AGATGATTTCTAC-GAGTTGGACTCTTGTTAC
1 AGATGATTTCTACTGAGTCGGACTCTTGTTAC
12816 AGA
1 AGA
12819 CCCTATGTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 20 0.61
32 13 0.39
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (32 bp):
AGATGATTTCTACTGAGTCGGACTCTTGTTAC
Found at i:15672 original size:14 final size:14
Alignment explanation
Indices: 15653--15687 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
15643 TAATAAAAAA
15653 TAATATTA-ATATTT
1 TAATATTATAT-TTT
15667 TAATATTATATTTT
1 TAATATTATATTTT
15681 TAATATT
1 TAATATT
15688 TTAATAATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 18 0.90
15 2 0.10
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TAATATTATATTTT
Found at i:15706 original size:17 final size:16
Alignment explanation
Indices: 15684--15742 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 16
15674 ATATTTTTAA
15684 TATTTTAATAATACTAT
1 TATTTTAATAATA-TAT
15701 TATTTTAATAAGTA-AT
1 TATTTTAATAA-TATAT
15717 TAATATAGTTAATAATATAT
1 T-AT-T--TTAATAATATAT
15737 TATTTT
1 TATTTT
15743 TGTTTTAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 13
0.73 0.00 0.27
Matches are distributed among these distances:
16 5 0.14
17 13 0.36
18 4 0.11
19 4 0.11
20 10 0.28
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (16 bp):
TATTTTAATAATATAT
Found at i:15910 original size:25 final size:26
Alignment explanation
Indices: 15872--15936 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 26
15862 TACTAAATTC
*
15872 ATTATTATAATATTTTAA-AAATAAT
1 ATTATTATTATATTTTAATAAATAAT
*
15897 ATTATTATT-T-TATTAATAAATAAT
1 ATTATTATTATATTTTAATAAATAAT
*
15921 ATTATTTATTGTATTT
1 ATTA-TTATTATATTT
15937 GATGTTTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
23 5 0.15
24 12 0.36
25 13 0.39
26 1 0.03
27 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (26 bp):
ATTATTATTATATTTTAATAAATAAT
Found at i:15922 original size:24 final size:24
Alignment explanation
Indices: 15886--15935 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
15876 TTATAATATT
*
15886 TTAAAAATAATATTA-TTATTTTA
1 TTAAAAATAATATTATTTATTGTA
15909 TTAATAAATAATATTATTTATTGTA
1 TTAA-AAATAATATTATTTATTGTA
15934 TT
1 TT
15936 TGATGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 4 0.17
24 11 0.46
25 9 0.38
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
TTAAAAATAATATTATTTATTGTA
Found at i:17186 original size:18 final size:20
Alignment explanation
Indices: 17163--17200 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
17153 AATAATTAAA
17163 CTTGTACTG-TC-TTTTTTT
1 CTTGTACTGTTCATTTTTTT
*
17181 CTTGTATTGTTCATTTTTTT
1 CTTGTACTGTTCATTTTTTT
17201 ATACTATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 2 0.12
20 7 0.41
ACGTcount: A:0.08, C:0.13, G:0.11, T:0.68
Consensus pattern (20 bp):
CTTGTACTGTTCATTTTTTT
Found at i:17282 original size:17 final size:18
Alignment explanation
Indices: 17239--17283 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
17229 TGTACTTTAT
17239 TATTTCTTTTTATCCTAC
1 TATTTCTTTTTATCCTAC
* *
17257 TGTTTCTTTTTATGC-AC
1 TATTTCTTTTTATCCTAC
*
17274 TATTCCTTTT
1 TATTTCTTTT
17284 ACTGTCTTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.13, C:0.20, G:0.04, T:0.62
Consensus pattern (18 bp):
TATTTCTTTTTATCCTAC
Found at i:17379 original size:24 final size:25
Alignment explanation
Indices: 17322--17379 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
17312 ACATAATGTC
* * *
17322 AGGAGTACACGAATGTACTATAATC
1 AGGAGTGCACGAATGCACTATAATA
*
17347 AGGAGTGCACGAATGCACTA-ATTA
1 AGGAGTGCACGAATGCACTATAATA
17371 AGGAGTGCA
1 AGGAGTGCA
17380 AAATTACACT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 11 0.38
25 18 0.62
ACGTcount: A:0.38, C:0.16, G:0.26, T:0.21
Consensus pattern (25 bp):
AGGAGTGCACGAATGCACTATAATA
Found at i:17921 original size:21 final size:23
Alignment explanation
Indices: 17879--17924 Score: 60
Period size: 21 Copynumber: 2.0 Consensus size: 23
17869 ATACGGTATA
*
17879 AACAATGAATAGTACCGTATGAAC
1 AACAATGAACAGTACCG-ATGAAC
17903 AACAATG-ACAGTACC-ATGAAC
1 AACAATGAACAGTACCGATGAAC
17924 A
1 A
17925 GTGAAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
23 7 0.33
24 7 0.33
ACGTcount: A:0.48, C:0.20, G:0.15, T:0.17
Consensus pattern (23 bp):
AACAATGAACAGTACCGATGAAC
Found at i:17973 original size:21 final size:21
Alignment explanation
Indices: 17949--17991 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
17939 ATATAAATTA
17949 TGCATCGAGGCACTGCTACAG
1 TGCATCGAGGCACTGCTACAG
*
17970 TGCATCGATGCACTGCTACAG
1 TGCATCGAGGCACTGCTACAG
17991 T
1 T
17992 ACTTCGTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.28, G:0.26, T:0.23
Consensus pattern (21 bp):
TGCATCGAGGCACTGCTACAG
Found at i:18758 original size:23 final size:23
Alignment explanation
Indices: 18696--18777 Score: 87
Period size: 23 Copynumber: 3.5 Consensus size: 23
18686 ATAAATTTGT
*
18696 ACCGTAGTGCCACGTAGAATTTGTC
1 ACCGAAGTGCCACGTAGAA-TTG-C
* *
18721 -CCGAAG-GACCGCGTAGAAATGC
1 ACCGAAGTG-CCACGTAGAATTGC
18743 ACCGAAGTGCCACGTAGAATTGC
1 ACCGAAGTGCCACGTAGAATTGC
*
18766 ACCGTAGTGCCA
1 ACCGAAGTGCCA
18778 TATAAGATTG
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
22 1 0.02
23 32 0.67
24 15 0.31
ACGTcount: A:0.28, C:0.27, G:0.27, T:0.18
Consensus pattern (23 bp):
ACCGAAGTGCCACGTAGAATTGC
Found at i:19005 original size:16 final size:17
Alignment explanation
Indices: 18981--19013 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
18971 ATCTTTTATA
*
18981 ATTATCACATA-TTCAC
1 ATTAGCACATAGTTCAC
18997 ATTAGCACATAGTTCAC
1 ATTAGCACATAGTTCAC
19014 TTACACGTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.33
Consensus pattern (17 bp):
ATTAGCACATAGTTCAC
Found at i:32362 original size:35 final size:34
Alignment explanation
Indices: 32277--32363 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
32267 AATATAATTT
*
32277 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
32311 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
32349 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
32364 ACTGAAATAC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 5 0.11
38 10 0.22
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:34887 original size:53 final size:52
Alignment explanation
Indices: 34808--34949 Score: 150
Period size: 51 Copynumber: 2.7 Consensus size: 52
34798 GATAAACAGA
* * *
34808 TATAGCGCGAATCA-GGGGCTGCGCTATACCCCACGTGTAAGATAAACGT-GGCG
1 TATAGCGCGGATCAGGGGGC-ACGCTATACCCCACGTGTAAG-T-AACGTCAGCG
* *
34861 TATAGCGCGGATCAGGGGGCACGCTATA-CCCACGTGTAAGTCATGTCAGCG
1 TATAGCGCGGATCAGGGGGCACGCTATACCCCACGTGTAAGTAACGTCAGCG
34912 TATAGCGCGG-TACAGGGGG-AGCGCTATACCCCCACGTG
1 TATAGCGCGGAT-CAGGGGGCA-CGCTATA-CCCCACGTG
34950 GCGCCAAATC
Statistics
Matches: 78, Mismatches: 5, Indels: 12
0.82 0.05 0.13
Matches are distributed among these distances:
50 5 0.06
51 28 0.36
52 12 0.15
53 28 0.36
54 5 0.06
ACGTcount: A:0.24, C:0.26, G:0.32, T:0.18
Consensus pattern (52 bp):
TATAGCGCGGATCAGGGGGCACGCTATACCCCACGTGTAAGTAACGTCAGCG
Found at i:35046 original size:29 final size:29
Alignment explanation
Indices: 35000--35078 Score: 113
Period size: 29 Copynumber: 2.7 Consensus size: 29
34990 TACTACTACG
*
35000 GGTGTTAGATCGAGAAATATAATATGACC
1 GGTGTTAGATCGAAAAATATAATATGACC
* * *
35029 TGTGTTAGATCAAAAAATATAATCTGACC
1 GGTGTTAGATCGAAAAATATAATATGACC
*
35058 GGTGTTAGATCGATAAATATA
1 GGTGTTAGATCGAAAAATATA
35079 CCGATCACCG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.30
Consensus pattern (29 bp):
GGTGTTAGATCGAAAAATATAATATGACC
Found at i:35686 original size:20 final size:21
Alignment explanation
Indices: 35663--35701 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
35653 AAAAATATTA
35663 TAAAT-TATATAAT-TTTCAGT
1 TAAATATA-ATAATATTTCAGT
35683 TAAATATAATAATATTTCA
1 TAAATATAATAATATTTCA
35702 AATTTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (21 bp):
TAAATATAATAATATTTCAGT
Found at i:42816 original size:2 final size:2
Alignment explanation
Indices: 42811--42837 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
42801 TACAAGCATA
42811 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
42838 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:43087 original size:23 final size:23
Alignment explanation
Indices: 43058--43116 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
43048 CATATGAATT
43058 TGTCCCGAAAGACCACTATGAAA
1 TGTCCCGAAAGACCACTATGAAA
43081 TGTCCCG-AAGAACCACTATGAAA
1 TGTCCCGAAAG-ACCACTATGAAA
*
43104 TGTCCCAAAAGAC
1 TGTCCCGAAAGAC
43117 TATTATGTCC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
22 3 0.09
23 27 0.82
24 3 0.09
ACGTcount: A:0.39, C:0.27, G:0.17, T:0.17
Consensus pattern (23 bp):
TGTCCCGAAAGACCACTATGAAA
Found at i:44307 original size:228 final size:229
Alignment explanation
Indices: 43904--44358 Score: 876
Period size: 228 Copynumber: 2.0 Consensus size: 229
43894 GTAGTGCTTC
43904 AGTACATTCTTTAACATGTGCATCGATGCACTAACTATGCATCGATACACAAATCACATTCAATG
1 AGTACATTCTTTAACATGTGCATCGATGCACTAACTATGCATCGATACACAAATCACATTCAATG
*
43969 TTTTCATTTTAAGAGATGCATCGATACACACTTCCTGTGCATCGATACACACTGAATAATTTCTG
66 TTTTCATTTTAAGAGATGCATCGATACACACTTCCTATGCATCGATACACACTGAATAATTTCTG
*
44034 AAAATTTACCCTTGATGCATCGGTACATGTTGAATGTGTATCGATGCACACTAGCCCAGAATTTC
131 AAAATTTACCCTTGATGCATCGGTACATATTGAATGTGTATCGATGCACACTAGCCCAGAATTTC
44099 AATTTTCTGCACGAAAATCACTCAACTTAGCTCA
196 AATTTTCTGCACGAAAATCACTCAACTTAGCTCA
44133 AGTAC-TTCTTTAACATGTGCATCGATGCACTAACTATGCATCGATACACAAATCACATTCAATG
1 AGTACATTCTTTAACATGTGCATCGATGCACTAACTATGCATCGATACACAAATCACATTCAATG
44197 TTTTCATTTTAAGAGATGCATCGATACACACTTCCTATGCATCGATACACACTGAATAATTTCTG
66 TTTTCATTTTAAGAGATGCATCGATACACACTTCCTATGCATCGATACACACTGAATAATTTCTG
*
44262 GAAATTTACCCTTGATGCATCGGTACATATTGAATGTGTATCGATGCACACTAGCCCAGAATTTC
131 AAAATTTACCCTTGATGCATCGGTACATATTGAATGTGTATCGATGCACACTAGCCCAGAATTTC
44327 AATTTTCTGCACGAAAATCACTCAACTTAGCT
196 AATTTTCTGCACGAAAATCACTCAACTTAGCT
44359 TAATTGTGCC
Statistics
Matches: 223, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
228 218 0.98
229 5 0.02
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.32
Consensus pattern (229 bp):
AGTACATTCTTTAACATGTGCATCGATGCACTAACTATGCATCGATACACAAATCACATTCAATG
TTTTCATTTTAAGAGATGCATCGATACACACTTCCTATGCATCGATACACACTGAATAATTTCTG
AAAATTTACCCTTGATGCATCGGTACATATTGAATGTGTATCGATGCACACTAGCCCAGAATTTC
AATTTTCTGCACGAAAATCACTCAACTTAGCTCA
Found at i:44881 original size:23 final size:23
Alignment explanation
Indices: 44855--44911 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
44845 CTTAATATTT
*
44855 CCAGTGCCCGTTCCTTAACCACA
1 CCAGTGCCCATTCCTTAACCACA
**
44878 CCAGTGCCCATTCCTTAACCATT
1 CCAGTGCCCATTCCTTAACCACA
44901 CCAGTGCCCAT
1 CCAGTGCCCAT
44912 GCCATGCACA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.21, C:0.42, G:0.12, T:0.25
Consensus pattern (23 bp):
CCAGTGCCCATTCCTTAACCACA
Found at i:48917 original size:2 final size:2
Alignment explanation
Indices: 48912--48938 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
48902 AGCAAAAAAA
48912 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
48939 AAGGAAGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:59286 original size:10 final size:10
Alignment explanation
Indices: 59271--59295 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
59261 GTAAAAATGA
59271 TTATTATTAT
1 TTATTATTAT
59281 TTATTATTAT
1 TTATTATTAT
59291 TTATT
1 TTATT
59296 TAGGTGCACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TTATTATTAT
Found at i:66419 original size:2 final size:2
Alignment explanation
Indices: 66412--66469 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
66402 TCAGACCGAA
66412 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
66454 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
66470 CATGAGTGAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:69770 original size:31 final size:31
Alignment explanation
Indices: 69732--69805 Score: 125
Period size: 29 Copynumber: 2.5 Consensus size: 31
69722 GAAAACGAAT
69732 TAAACGGGGACGGGGGAAAAACCGTTTATGC
1 TAAACGGGGACGGGGGAAAAACCGTTTATGC
*
69763 TAAACGGGGAC--GGGAAAAACCGTTTATGT
1 TAAACGGGGACGGGGGAAAAACCGTTTATGC
69792 TAAACGGGGACGGG
1 TAAACGGGGACGGG
69806 TTTAGTAATC
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
29 28 0.70
31 12 0.30
ACGTcount: A:0.32, C:0.15, G:0.36, T:0.16
Consensus pattern (31 bp):
TAAACGGGGACGGGGGAAAAACCGTTTATGC
Found at i:69922 original size:35 final size:38
Alignment explanation
Indices: 69859--69930 Score: 114
Period size: 35 Copynumber: 2.0 Consensus size: 38
69849 CTAAATATTA
69859 AAAATAATATATATATATATATAAATTTAATTTAAATT
1 AAAATAATATATATATATATATAAATTTAATTTAAATT
*
69897 AAAA-AATATATA-ATAT-TATATATTTAATTTAAAT
1 AAAATAATATATATATATATATAAATTTAATTTAAAT
69931 ATATACCCGA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
35 17 0.52
36 4 0.12
37 8 0.24
38 4 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (38 bp):
AAAATAATATATATATATATATAAATTTAATTTAAATT
Found at i:71062 original size:23 final size:23
Alignment explanation
Indices: 71031--71078 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
71021 GCTACAAAGC
* *
71031 CATATATAAATGTGCAACACAGA
1 CATAGATAAATGTACAACACAGA
*
71054 CATAGATAAATGTACAACATAGA
1 CATAGATAAATGTACAACACAGA
71077 CA
1 CA
71079 AAATTATTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (23 bp):
CATAGATAAATGTACAACACAGA
Found at i:72808 original size:39 final size:41
Alignment explanation
Indices: 72754--72879 Score: 141
Period size: 41 Copynumber: 3.1 Consensus size: 41
72744 AATGCATGGA
* * *
72754 TAGATGTGCTCCATTTAACAG-AAAAAT-AATGCGTTGAAT
1 TAGACGTGCTGCATTTAACAGTAAAAATAAATGCATTGAAT
* ** *
72793 TAGACGTGCTGCATTTAATAGTAGGATTAAATGCATTGAAT
1 TAGACGTGCTGCATTTAACAGTAAAAATAAATGCATTGAAT
** *
72834 TAGACGTGCTGCATTTAACAGTAGGATTAAATGCA-TGAAT
1 TAGACGTGCTGCATTTAACAGTAAAAATAAATGCATTGAAT
72874 TAGACG
1 TAGACG
72880 AGGAACTAGC
Statistics
Matches: 77, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 18 0.23
40 14 0.18
41 45 0.58
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (41 bp):
TAGACGTGCTGCATTTAACAGTAAAAATAAATGCATTGAAT
Found at i:72834 original size:41 final size:41
Alignment explanation
Indices: 72781--72879 Score: 173
Period size: 41 Copynumber: 2.4 Consensus size: 41
72771 ACAGAAAAAT
* *
72781 AATGCGTTGAATTAGACGTGCTGCATTTAATAGTAGGATTA
1 AATGCATTGAATTAGACGTGCTGCATTTAACAGTAGGATTA
72822 AATGCATTGAATTAGACGTGCTGCATTTAACAGTAGGATTA
1 AATGCATTGAATTAGACGTGCTGCATTTAACAGTAGGATTA
72863 AATGCA-TGAATTAGACG
1 AATGCATTGAATTAGACG
72880 AGGAACTAGC
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
40 11 0.20
41 45 0.80
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.31
Consensus pattern (41 bp):
AATGCATTGAATTAGACGTGCTGCATTTAACAGTAGGATTA
Found at i:76692 original size:47 final size:49
Alignment explanation
Indices: 76636--76743 Score: 130
Period size: 47 Copynumber: 2.2 Consensus size: 49
76626 TATTAATATA
* * *
76636 TAATCATTAAATTATTTAAAAAAACTAAATTA-T-ATATAAAAATAATT
1 TAATGATTAAATTATATAAAAAAACTAAATTATTAAAATAAAAATAATT
* *
76683 TAATGATTAAATTATATATAAAAATTAAATTATTTTTAAAATAAAAATAATT
1 TAATGATTAAATTATATAAAAAAACTAAATTA---TTAAAATAAAAATAATT
76735 TAATGATTA
1 TAATGATTA
76744 TATATAAAGA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
47 28 0.55
51 1 0.02
52 22 0.43
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (49 bp):
TAATGATTAAATTATATAAAAAAACTAAATTATTAAAATAAAAATAATT
Found at i:76723 original size:18 final size:18
Alignment explanation
Indices: 76631--76715 Score: 67
Period size: 18 Copynumber: 5.1 Consensus size: 18
76621 TTAATTATTA
**
76631 ATATATAATCATTAAATT
1 ATATATAAAAATTAAATT
* * *
76649 ATTTAAAAAAACTAAATT
1 ATATATAAAAATTAAATT
76667 ATATATAAAAA-T-AATT
1 ATATATAAAAATTAAATT
*
76683 -TA-AT---GATTAAATT
1 ATATATAAAAATTAAATT
76696 ATATATAAAAATTAAATT
1 ATATATAAAAATTAAATT
76714 AT
1 AT
76716 TTTTAAAATA
Statistics
Matches: 51, Mismatches: 9, Indels: 14
0.69 0.12 0.19
Matches are distributed among these distances:
11 1 0.02
12 1 0.02
13 4 0.08
14 4 0.08
15 4 0.08
16 4 0.08
17 1 0.02
18 32 0.63
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.40
Consensus pattern (18 bp):
ATATATAAAAATTAAATT
Found at i:76751 original size:29 final size:29
Alignment explanation
Indices: 76671--76751 Score: 75
Period size: 25 Copynumber: 3.0 Consensus size: 29
76661 TAAATTATAT
* *
76671 ATAAAAATAATTTAATGATTA-A-ATTAT
1 ATAAAAATAATTTAATGATTATATATAAA
* * *
76698 ATATAAA-AA-TTAA--ATTATTTTTAAA
1 ATAAAAATAATTTAATGATTATATATAAA
76723 ATAAAAATAATTTAATGATTATATATAAA
1 ATAAAAATAATTTAATGATTATATATAAA
76752 GAAATTATAT
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
23 4 0.10
25 12 0.30
26 4 0.10
27 10 0.25
29 10 0.25
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (29 bp):
ATAAAAATAATTTAATGATTATATATAAA
Found at i:79038 original size:7 final size:7
Alignment explanation
Indices: 79023--79061 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
79013 GCATACTACA
*
79023 ATGCGGG
1 ATGCTGG
79030 ATGCTGG
1 ATGCTGG
79037 ATGCTGG
1 ATGCTGG
79044 ATGCTGG
1 ATGCTGG
79051 ATGCTGG
1 ATGCTGG
79058 ATGC
1 ATGC
79062 ATATTATCAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.15, C:0.15, G:0.44, T:0.26
Consensus pattern (7 bp):
ATGCTGG
Found at i:81298 original size:22 final size:22
Alignment explanation
Indices: 81268--81349 Score: 137
Period size: 22 Copynumber: 3.7 Consensus size: 22
81258 AGCGCCGTAA
* *
81268 CACTTATACTAAAGTGCCTCAG
1 CACTGATACAAAAGTGCCTCAG
81290 CACTGATACAAAAGTGCCTCAG
1 CACTGATACAAAAGTGCCTCAG
81312 CACTGATACAAAAGTGCCTCAG
1 CACTGATACAAAAGTGCCTCAG
*
81334 CATTGATACAAAAGTG
1 CACTGATACAAAAGTG
81350 TTATCACACT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 57 1.00
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.22
Consensus pattern (22 bp):
CACTGATACAAAAGTGCCTCAG
Found at i:81370 original size:44 final size:43
Alignment explanation
Indices: 81267--81370 Score: 136
Period size: 44 Copynumber: 2.4 Consensus size: 43
81257 AAGCGCCGTA
* *
81267 ACACTTATACTAAAGTGCCTCAGCACTGATACAAAAGTGCCTC
1 ACACTAATACTAAAGTGCCTCAGCACTGATACAAAAGTGCATC
* * * *
81310 AGCACTGATACAAAAGTGCCTCAGCATTGATACAAAAGTGTTATC
1 A-CACTAATACTAAAGTGCCTCAGCACTGATACAAAAGTG-CATC
81355 ACACTAATACTAAAGT
1 ACACTAATACTAAAGT
81371 ACCTTAAGAC
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
43 1 0.02
44 48 0.92
45 3 0.06
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.24
Consensus pattern (43 bp):
ACACTAATACTAAAGTGCCTCAGCACTGATACAAAAGTGCATC
Found at i:88364 original size:14 final size:13
Alignment explanation
Indices: 88329--88367 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
88319 CAATTCTAAA
*
88329 CAATTTTATTTTT
1 CAATTTTATTTCT
88342 CAATTTTATTTCT
1 CAATTTTATTTCT
88355 CAATTTTTATTTC
1 CAA-TTTTATTTC
88368 ATAAGTATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 15 0.62
14 9 0.38
ACGTcount: A:0.23, C:0.13, G:0.00, T:0.64
Consensus pattern (13 bp):
CAATTTTATTTCT
Found at i:88418 original size:36 final size:36
Alignment explanation
Indices: 88378--88503 Score: 213
Period size: 36 Copynumber: 3.6 Consensus size: 36
88368 ATAAGTATTC
88378 AGCTTTTACCTAAAGCTAAAGTTCATATTACGTATT-
1 AGCTTTTACCTAAAGCTAAAGTTCATATTACGT-TTA
88414 AGCTTTTACCTAAAGCTAAAGTTCATATTACGTTTA
1 AGCTTTTACCTAAAGCTAAAGTTCATATTACGTTTA
*
88450 AGCTTTTACCTAAAGCTAAAGTTCATATTACATTTA
1 AGCTTTTACCTAAAGCTAAAGTTCATATTACGTTTA
88486 AGC-TTTACCT-AAGCTAAA
1 AGCTTTTACCTAAAGCTAAA
88504 ATGGATGTAA
Statistics
Matches: 88, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
34 8 0.09
35 9 0.10
36 71 0.81
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.37
Consensus pattern (36 bp):
AGCTTTTACCTAAAGCTAAAGTTCATATTACGTTTA
Found at i:89346 original size:34 final size:34
Alignment explanation
Indices: 89307--89385 Score: 140
Period size: 34 Copynumber: 2.3 Consensus size: 34
89297 TCATATAACA
*
89307 GAAATATTAATCGATGAGAACAAATTGACAATAT
1 GAAATATTAATCGATGAGAACAAATTGACAATAC
*
89341 GAAATATTAATCGATGAGAACAAATTGAGAATAC
1 GAAATATTAATCGATGAGAACAAATTGACAATAC
89375 GAAATATTAAT
1 GAAATATTAAT
89386 TTTTGCGGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.51, C:0.08, G:0.15, T:0.27
Consensus pattern (34 bp):
GAAATATTAATCGATGAGAACAAATTGACAATAC
Found at i:100522 original size:30 final size:30
Alignment explanation
Indices: 100486--100577 Score: 166
Period size: 30 Copynumber: 3.1 Consensus size: 30
100476 GACAGTTTCG
100486 TCCTTGGCAGCGGCGGTAGCAGCAGTAGCA
1 TCCTTGGCAGCGGCGGTAGCAGCAGTAGCA
100516 TCCTTGGCAGCGGCGGTAGCAGCAGTAGCA
1 TCCTTGGCAGCGGCGGTAGCAGCAGTAGCA
* *
100546 TCCTTGGCTGCGGCGGGAGCAGCAGTAGCA
1 TCCTTGGCAGCGGCGGTAGCAGCAGTAGCA
100576 TC
1 TC
100578 TTGTTCGGGA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 60 1.00
ACGTcount: A:0.18, C:0.27, G:0.37, T:0.17
Consensus pattern (30 bp):
TCCTTGGCAGCGGCGGTAGCAGCAGTAGCA
Found at i:102747 original size:136 final size:136
Alignment explanation
Indices: 102498--102757 Score: 335
Period size: 136 Copynumber: 1.9 Consensus size: 136
102488 CAGATCTAGA
* * * *
102498 AACACGAAATGACCATTAACAAATTTGAATTGAAGTTAAACTTAGTTCAATCAATGCAACATCAA
1 AACACGAAATGACCAATAACAAATTTGAATTGAAGTTAAACCTAGTTCAACCAATGCAACAACAA
* * * * * * *
102563 TTTGCAGCTGATTCAACAGCATTGCAGATCTAAGCTGAGAAGGATTGCTAAGCTAAAAGTACCTA
66 TTCGCAACTGACTCAAAAGAAATGCAGATCTAAGCTGAGAAGGATTGCTAAACTAAAAGTACCTA
102628 TTTAAG
131 TTTAAG
* * *
102634 AACACGAAATGATCAATAACGAATTTGAATTGAAGTTAATCCTAGTTCAACCAATGCAACAACAA
1 AACACGAAATGACCAATAACAAATTTGAATTGAAGTTAAACCTAGTTCAACCAATGCAACAACAA
* * *
102699 TTCGTATAC-GACTCAAAATAAATGCAGATCTAAGCTGAGATA-GTTTGCTAAACTAAAAG
66 TTCGCA-ACTGACTCAAAAGAAATGCAGATCTAAGCTGAGA-AGGATTGCTAAACTAAAAG
102758 AACCGATCAA
Statistics
Matches: 105, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
136 103 0.98
137 2 0.02
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (136 bp):
AACACGAAATGACCAATAACAAATTTGAATTGAAGTTAAACCTAGTTCAACCAATGCAACAACAA
TTCGCAACTGACTCAAAAGAAATGCAGATCTAAGCTGAGAAGGATTGCTAAACTAAAAGTACCTA
TTTAAG
Found at i:120217 original size:24 final size:24
Alignment explanation
Indices: 120190--120308 Score: 132
Period size: 24 Copynumber: 5.0 Consensus size: 24
120180 TTCGATTTAA
*
120190 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATATGATACTTGACATGG
*
120214 ATTCTAATATGATA-TCTGACATGG
1 ATTCTGATATGATACT-TGACATGG
*
120238 ATTCTGATATGATACTTGACTTGG
1 ATTCTGATATGATACTTGACATGG
* * * * *
120262 ATTCTAATCTCATACATGACCTGG
1 ATTCTGATATGATACTTGACATGG
* *
120286 ATTTTGATATGATACTTGTCATG
1 ATTCTGATATGATACTTGACATG
120309 AATTATGTTT
Statistics
Matches: 77, Mismatches: 16, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
23 1 0.01
24 75 0.97
25 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACATGG
Found at i:120251 original size:48 final size:48
Alignment explanation
Indices: 120190--120308 Score: 159
Period size: 48 Copynumber: 2.5 Consensus size: 48
120180 TTCGATTTAA
* *
120190 ATTCTGATCTGATACTTGACATGGATTCTAATATGATATC-TGACATGG
1 ATTCTGATATGATACTTGACATGGATTCTAATATCATA-CATGACATGG
* * *
120238 ATTCTGATATGATACTTGACTTGGATTCTAATCTCATACATGACCTGG
1 ATTCTGATATGATACTTGACATGGATTCTAATATCATACATGACATGG
* *
120286 ATTTTGATATGATACTTGTCATG
1 ATTCTGATATGATACTTGACATG
120309 AATTATGTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
47 1 0.02
48 61 0.98
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (48 bp):
ATTCTGATATGATACTTGACATGGATTCTAATATCATACATGACATGG
Found at i:129832 original size:24 final size:24
Alignment explanation
Indices: 129800--129862 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
129790 GGTTCAACAA
* *
129800 AAGGGAATGAAGATGTTGGTGGTG
1 AAGGCAATGAAGATGTTGGCGGTG
* * *
129824 AAGGCAATGGATATATTGGCGGTG
1 AAGGCAATGAAGATGTTGGCGGTG
*
129848 AAGGCAATGATGATG
1 AAGGCAATGAAGATG
129863 CCGATGGAGG
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.32, C:0.05, G:0.40, T:0.24
Consensus pattern (24 bp):
AAGGCAATGAAGATGTTGGCGGTG
Found at i:130649 original size:14 final size:15
Alignment explanation
Indices: 130614--130654 Score: 66
Period size: 16 Copynumber: 2.7 Consensus size: 15
130604 TATTTGTATT
130614 TGTAGAAAACAGACTG
1 TGTAGAAAACAGAC-G
130630 TGTAGAAAACAGAC-
1 TGTAGAAAACAGACG
130644 TGTAGAAAACA
1 TGTAGAAAACA
130655 AACAAGTCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 11 0.44
16 14 0.56
ACGTcount: A:0.49, C:0.12, G:0.22, T:0.17
Consensus pattern (15 bp):
TGTAGAAAACAGACG
Found at i:132947 original size:51 final size:51
Alignment explanation
Indices: 132891--132991 Score: 168
Period size: 51 Copynumber: 2.0 Consensus size: 51
132881 TAAGGAAAGG
**
132891 ATAGGCTGTAAAGAAATATCGGTTTGAACAGTTTGAAATT-TCTTGTAACTA
1 ATAGGCTGTAAAGAAATATCGGTTTGAACAGGCTGAAATTCT-TTGTAACTA
132942 ATAGGCTGTAAAGAAATATCGGTTTGAACAGGCTGAAATTCTTTGTAACT
1 ATAGGCTGTAAAGAAATATCGGTTTGAACAGGCTGAAATTCTTTGTAACT
132992 CTCCCCCTGA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
51 46 0.98
52 1 0.02
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.34
Consensus pattern (51 bp):
ATAGGCTGTAAAGAAATATCGGTTTGAACAGGCTGAAATTCTTTGTAACTA
Found at i:134787 original size:14 final size:15
Alignment explanation
Indices: 134747--134793 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
134737 AACGTGATAC
134747 CATGTAGAAAACAGA
1 CATGTAGAAAACAGA
134762 CGATGTAGAAAACAGA
1 C-ATGTAGAAAACAGA
*
134778 -ATGTAAAAAACAGA
1 CATGTAGAAAACAGA
134792 CA
1 CA
134794 AGTTTGTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 13 0.45
15 2 0.07
16 14 0.48
ACGTcount: A:0.55, C:0.13, G:0.19, T:0.13
Consensus pattern (15 bp):
CATGTAGAAAACAGA
Found at i:137676 original size:21 final size:22
Alignment explanation
Indices: 137650--137694 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
137640 GTAATCTATT
*
137650 AAAAATAAT-TTATTATATTTA
1 AAAAATAATAATATTATATTTA
137671 AAAAATAATAAATATTATATTTA
1 AAAAATAAT-AATATTATATTTA
137694 A
1 A
137695 TTATGATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.43
23 12 0.57
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AAAAATAATAATATTATATTTA
Found at i:139349 original size:24 final size:23
Alignment explanation
Indices: 139306--139373 Score: 82
Period size: 24 Copynumber: 2.9 Consensus size: 23
139296 AATATGCTCG
* *
139306 TTTAATATTCGCAAACATGTTCA
1 TTTAATGTTCACAAACATGTTCA
* *
139329 TTTATATGTTCACGAATATGTTCA
1 TTTA-ATGTTCACAAACATGTTCA
*
139353 TTTAGTGTTCACAAACATGTT
1 TTTAATGTTCACAAACATGTT
139374 TGTTTATCAT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
23 18 0.49
24 19 0.51
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.43
Consensus pattern (23 bp):
TTTAATGTTCACAAACATGTTCA
Found at i:139379 original size:23 final size:24
Alignment explanation
Indices: 139317--139373 Score: 80
Period size: 23 Copynumber: 2.4 Consensus size: 24
139307 TTAATATTCG
139317 CAAACATGTTCATTTATATGTTCA
1 CAAACATGTTCATTTATATGTTCA
* * *
139341 CGAATATGTTCATTTA-GTGTTCA
1 CAAACATGTTCATTTATATGTTCA
139364 CAAACATGTT
1 CAAACATGTT
139374 TGTTTATCAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 14 0.50
24 14 0.50
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (24 bp):
CAAACATGTTCATTTATATGTTCA
Found at i:139627 original size:47 final size:47
Alignment explanation
Indices: 139538--139634 Score: 151
Period size: 47 Copynumber: 2.1 Consensus size: 47
139528 TTCACAAATA
*
139538 TTTAAACTGTAAAAGAATTAAAAGGAAAAGAGAACCGGATACACAAG
1 TTTAAACTGTAAAAGAATTAAAAGGAAAAGAGAACCGAATACACAAG
* *
139585 TTTAAACTGTAAAAGAATTAAAAGGAAAA-ATGAACTGAATACACGAG
1 TTTAAACTGTAAAAGAATTAAAAGGAAAAGA-GAACCGAATACACAAG
139632 TTT
1 TTT
139635 GTTCATGAAC
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
46 1 0.02
47 45 0.98
ACGTcount: A:0.52, C:0.09, G:0.18, T:0.22
Consensus pattern (47 bp):
TTTAAACTGTAAAAGAATTAAAAGGAAAAGAGAACCGAATACACAAG
Found at i:144671 original size:134 final size:134
Alignment explanation
Indices: 144431--144697 Score: 534
Period size: 134 Copynumber: 2.0 Consensus size: 134
144421 GATCTAGGAA
144431 ACTAACTCCGGGTTCTTTACCTTTTTCGCGAGACCGTTCGTTTCCCGACGACCGTTCACCTCCCC
1 ACTAACTCCGGGTTCTTTACCTTTTTCGCGAGACCGTTCGTTTCCCGACGACCGTTCACCTCCCC
144496 AATTTGCTCTTTTGTACGGTTGGCTTTGTTTTTGGCACTGCTTTGTTCTTTGTGGCTCGTTGTTT
66 AATTTGCTCTTTTGTACGGTTGGCTTTGTTTTTGGCACTGCTTTGTTCTTTGTGGCTCGTTGTTT
144561 ATGG
131 ATGG
144565 ACTAACTCCGGGTTCTTTACCTTTTTCGCGAGACCGTTCGTTTCCCGACGACCGTTCACCTCCCC
1 ACTAACTCCGGGTTCTTTACCTTTTTCGCGAGACCGTTCGTTTCCCGACGACCGTTCACCTCCCC
144630 AATTTGCTCTTTTGTACGGTTGGCTTTGTTTTTGGCACTGCTTTGTTCTTTGTGGCTCGTTGTTT
66 AATTTGCTCTTTTGTACGGTTGGCTTTGTTTTTGGCACTGCTTTGTTCTTTGTGGCTCGTTGTTT
144695 ATG
131 ATG
144698 TGGGTTTTGT
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
134 133 1.00
ACGTcount: A:0.10, C:0.26, G:0.21, T:0.42
Consensus pattern (134 bp):
ACTAACTCCGGGTTCTTTACCTTTTTCGCGAGACCGTTCGTTTCCCGACGACCGTTCACCTCCCC
AATTTGCTCTTTTGTACGGTTGGCTTTGTTTTTGGCACTGCTTTGTTCTTTGTGGCTCGTTGTTT
ATGG
Found at i:145250 original size:18 final size:18
Alignment explanation
Indices: 145227--145265 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
145217 CCATAAAACA
*
145227 GAATAAA-TGAAATTAAAT
1 GAATAAAGTG-AATAAAAT
145245 GAATAAAGTGAATAAAAT
1 GAATAAAGTGAATAAAAT
145263 GAA
1 GAA
145266 AAGAAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (18 bp):
GAATAAAGTGAATAAAAT
Found at i:145276 original size:27 final size:27
Alignment explanation
Indices: 145227--145278 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
145217 CCATAAAACA
**
145227 GAATAAATGAAATTAAATGAATAAAGT
1 GAATAAATGAAAAGAAATGAATAAAGT
145254 GAATAAAATGAAAAGAAAT-AATAAA
1 GAAT-AAATGAAAAGAAATGAATAAA
145279 AATACTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.65, C:0.00, G:0.13, T:0.21
Consensus pattern (27 bp):
GAATAAATGAAAAGAAATGAATAAAGT
Found at i:145449 original size:69 final size:67
Alignment explanation
Indices: 145344--145540 Score: 172
Period size: 71 Copynumber: 2.9 Consensus size: 67
145334 AACTATATAT
* * *** *
145344 TATA-TTTAAAAATGTTTTCAAAACTATATACCATATAGTTTTCAAAAATGATTTTAAAAATAT-
1 TATATTTTCAAAATATTTTCAAAACTATATGTTATATAATTTTCAAAAATGATTTTAAAAATATA
*
145407 TA
66 CA
* *
145409 TATGAGTTTTCCAAAATATTTTTAAAACTATATGTTATATAAAATTTTCAAAAAATTTTATTTT-
1 TAT-A-TTTT-CAAAATATTTTCAAAACTATATGTTATAT--AATTTTC-AAAAA--TGATTTTA
*
145473 AAACTATACA
58 AAAATATACA
*
145483 TATATTTTCAAAATGA-TTTCAAAAATATATGTTATATAATTTTC-AAAATG-TTTTAAAA
1 TATATTTTCAAAAT-ATTTTCAAAACTATATGTTATATAATTTTCAAAAATGATTTTAAAA
145541 CTTATATATT
Statistics
Matches: 107, Mismatches: 13, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
64 4 0.04
65 7 0.07
66 1 0.01
67 4 0.04
68 3 0.03
69 30 0.28
71 31 0.29
72 10 0.09
73 7 0.07
74 10 0.09
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.44
Consensus pattern (67 bp):
TATATTTTCAAAATATTTTCAAAACTATATGTTATATAATTTTCAAAAATGATTTTAAAAATATA
CA
Found at i:145529 original size:35 final size:35
Alignment explanation
Indices: 145482--145568 Score: 99
Period size: 35 Copynumber: 2.4 Consensus size: 35
145472 TAAACTATAC
145482 ATAT-ATTTTCAAAATGATTTCAAAA-ATATA-TGTT
1 ATATAATTTTCAAAATG-TTTCAAAATATATATTG-T
*
145516 ATATAATTTTCAAAATGTTTTAAAACTTATATATTGT
1 ATATAATTTTCAAAATGTTTCAAAA--TATATATTGT
145553 ATATAAGTTTTCAAAA
1 ATATAA-TTTTCAAAA
145569 ACGTTTTAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
34 11 0.24
35 12 0.26
37 12 0.26
38 11 0.24
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.45
Consensus pattern (35 bp):
ATATAATTTTCAAAATGTTTCAAAATATATATTGT
Found at i:145579 original size:39 final size:37
Alignment explanation
Indices: 145507--145579 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 37
145497 GATTTCAAAA
*
145507 ATATATGTTATATAATTTTCAAAATGTTTTAAAACTT
1 ATATATGTTATATAATTTTCAAAACGTTTTAAAACTT
145544 ATATAT-TGTATATAAGTTTTCAAAAACGTTTTAAAA
1 ATATATGT-TATATAA-TTTTC-AAAACGTTTTAAAA
145580 AAACTATATT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
36 1 0.03
37 13 0.41
38 5 0.16
39 13 0.41
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (37 bp):
ATATATGTTATATAATTTTCAAAACGTTTTAAAACTT
Found at i:145588 original size:39 final size:36
Alignment explanation
Indices: 145482--145602 Score: 104
Period size: 39 Copynumber: 3.3 Consensus size: 36
145472 TAAACTATAC
* * *
145482 ATAT-ATTTTCAAAATGATTT-CAAAAATATAT-GTT
1 ATATAATTTTCAAAACGTTTTAAAAAAATATATTG-T
* **
145516 ATATAATTTTCAAAATGTTTTAAAACTTATATATTGT
1 ATATAATTTTCAAAACGTTTTAAAA-AAATATATTGT
*
145553 ATATAAGTTTTCAAAAACGTTTTAAAAAAACTATATTAT
1 ATATAA-TTTTC-AAAACGTTTTAAAAAAA-TATATTGT
145592 ATATATATTTT
1 ATATA-ATTTT
145603 TGGAAACTGT
Statistics
Matches: 71, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
34 4 0.06
35 15 0.21
36 2 0.03
37 13 0.18
38 7 0.10
39 29 0.41
40 1 0.01
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (36 bp):
ATATAATTTTCAAAACGTTTTAAAAAAATATATTGT
Found at i:146392 original size:84 final size:82
Alignment explanation
Indices: 146252--147011 Score: 768
Period size: 84 Copynumber: 9.2 Consensus size: 82
146242 TTGAATATAA
* * ** *
146252 TCGAACTCGAAGGTC-TTTAG-CAGATAGCCCTTCGCGACTTAAGCTATGCTGCAAATGATGTGC
1 TCGAACTCGAAGGTCTTTTGGTCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGC
*
146315 CTTGGAGCTGAGCGGAG
66 CTTGGAGCTGAGCGTAG
* * **
146332 TCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTATAAATGATGT
1 TCGAACTCGAAGGTCTTTTGGT--CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGT
*
146397 GTCGTT-GAGCTGAGCGTAG
64 G-CCTTGGAGCTGAGCGTAG
* * * * * * *
146416 TCAAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGTTGCAAATGATAT
1 TCGAACTCGAAGGTCTTTTG--GTCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGT
146481 GCCTTGGAGCTGAGCGTAG
64 GCCTTGGAGCTGAGCGTAG
* * *
146500 TCGAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTTG--GTCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGT
* * * *
146565 GCCCTCGAAGCTGAGTGTAA
64 G-CCTTGGAGCTGAGCGTAG
* ** * * *
146585 TCGAACTTGGGGGTC-TTTGG-CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGC
1 TCGAACTCGAAGGTCTTTTGGTCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGC
146648 CTTGGAGCTGAGCGTAG
66 CTTGGAGCTGAGCGTAG
* * *
146665 TCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGT
1 TCGAACTCGAAGGTCTTTTGGT--CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGT
* * * *
146730 GCCCTCGAAGCTGAGTGTAA
64 G-CCTTGGAGCTGAGCGTAG
** * * * *
146750 TCGAACTCGGGGGTC-TTTGG-CAGATAGCCCTTCTTGACTTAAGCTATTCTGCAAATGATGTGC
1 TCGAACTCGAAGGTCTTTTGGTCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGC
146813 CTTGGAGCTGAGCGTAG
66 CTTGGAGCTGAGCGTAG
* * * * * * *
146830 TCGAACTCAAAGGTC-TTTGCTAACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTAT
1 TCGAACTCGAAGGTCTTTTGGT--CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGT
* * *
146894 GCCCTTGAAGCTGAGTGTAA
64 G-CCTTGGAGCTGAGCGTAG
* * * * *
146914 TCGAACT-TAAGGGTC-TTTGG-CAGATAGCCCTTCTCGACTTTAAGCTATTCTGCAAATGATGT
1 TCGAACTCGAA-GGTCTTTTGGTCAGATAACCCTTCTAGAC-TTAAGTTATGCTGCAAATGATGT
146976 GCCTTGGAGCTGAGCGTAG
64 GCCTTGGAGCTGAGCGTAG
146995 TCGAACTCGAAGGTCTT
1 TCGAACTCGAAGGTCTT
147012 GGTGGCAGGT
Statistics
Matches: 556, Mismatches: 102, Indels: 42
0.79 0.15 0.06
Matches are distributed among these distances:
80 71 0.13
81 124 0.22
82 22 0.04
83 38 0.07
84 244 0.44
85 56 0.10
86 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (82 bp):
TCGAACTCGAAGGTCTTTTGGTCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGC
CTTGGAGCTGAGCGTAG
Found at i:146664 original size:165 final size:165
Alignment explanation
Indices: 146249--147011 Score: 1089
Period size: 165 Copynumber: 4.6 Consensus size: 165
146239 AAGTTGAATA
* * *
146249 TAATCGAACTCGAAGGTCTTTAGCAGATAGCCCTTCGCGACTTAAGCTATGCTGCAAATGATGTG
1 TAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
*
146314 CCTTGGAGCTGAGCGGAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
66 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
* * * * *
146379 TTATGCTATAAATGATGTGTCGTTG-AGCTGAGCG
131 TTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
* * * * * * * * * *
146413 TAGTCAAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGTTGCAAATGA
1 TAATCGAACTCGAGGGTC---T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGA
* * ** * * *
146478 TATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTCGACT
62 TGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCT
* *
146543 TAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
127 TGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
* *
146582 TAATCGAACTTGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
1 TAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
146647 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
66 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
146712 TTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
131 TTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
* * *
146747 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTTGACTTAAGCTATTCTGCAAATGATGTG
1 TAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
* * *
146812 CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTC-TTTGCTAACAGATAACCCTTCTAGCCTTGAG
66 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
* * *
146876 TTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTG
131 TTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
** *
146911 TAATCGAACTTAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTTAAGCTATTCTGCAAATGATGT
1 TAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGAC-TTAAGCTATGCTGCAAATGATGT
146976 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT
65 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT
147012 GGTGGCAGGT
Statistics
Matches: 531, Mismatches: 61, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
164 113 0.21
165 281 0.53
166 2 0.00
167 1 0.00
168 114 0.21
169 20 0.04
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (165 bp):
TAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
TTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
Found at i:147471 original size:35 final size:36
Alignment explanation
Indices: 147405--147475 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
147395 AAACCTGACT
147405 CAAAGGGCTGTAAAAAAATGTATGCTAAAATGATGA
1 CAAAGGGCTGTAAAAAAATGTATGCTAAAATGATGA
147441 CAAAGGGCTGTAAAAAAATGTATGCT-AAATGATGA
1 CAAAGGGCTGTAAAAAAATGTATGCTAAAATGATGA
147476 TGTGATGCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 9 0.26
36 26 0.74
ACGTcount: A:0.46, C:0.08, G:0.23, T:0.23
Consensus pattern (36 bp):
CAAAGGGCTGTAAAAAAATGTATGCTAAAATGATGA
Found at i:150404 original size:19 final size:19
Alignment explanation
Indices: 150358--150402 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
150348 AGTTAATGTG
150358 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAATAACAA
*
150377 AATGCAAAGAAAATAA-GA
1 AATGCAAAGAAAATAACAA
150395 AATGCAAA
1 AATGCAAA
150403 AGTCTAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.67, C:0.09, G:0.13, T:0.11
Consensus pattern (19 bp):
AATGCAAAGAAAATAACAA
Found at i:153535 original size:18 final size:17
Alignment explanation
Indices: 153512--153549 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
153502 GGACCATACA
153512 GAATAAA-TGAAATTAAAT
1 GAATAAAGTG-AA-TAAAT
153530 GAATAAAGTGAATAAAT
1 GAATAAAGTGAATAAAT
153547 GAA
1 GAA
153550 AAGAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 9 0.47
19 2 0.11
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.24
Consensus pattern (17 bp):
GAATAAAGTGAATAAAT
Found at i:153556 original size:27 final size:26
Alignment explanation
Indices: 153512--153562 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
153502 GGACCATACA
**
153512 GAATAAATGAAATTAAATGAATAAAGT
1 GAATAAATGAAAAGAAAT-AATAAAGT
153539 GAATAAATGAAAAGAAATAATAAA
1 GAATAAATGAAAAGAAATAATAAA
153563 AATACTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.65, C:0.00, G:0.14, T:0.22
Consensus pattern (26 bp):
GAATAAATGAAAAGAAATAATAAAGT
Found at i:153634 original size:29 final size:32
Alignment explanation
Indices: 153582--153720 Score: 85
Period size: 33 Copynumber: 4.2 Consensus size: 32
153572 AATAATATAG
153582 ACTATATAATATATATCTCAAAAAAT-TTTT-AA
1 ACTATAT-ATATATATCTC-AAAAATGTTTTAAA
*
153614 ACTATATAT-TATAT-TTAAAAATGTTTTCAAA
1 ACTATATATATATATCTCAAAAATGTTTT-AAA
* *
153645 ACTATATACCATATAGTTTTCAAAAATGATTTTAAA
1 ACTATATA-TATATA--TCTCAAAAATG-TTTTAAA
* *
153681 AATAT-TATATGAGT-TTTCCAAAATAT-TTTTAAA
1 ACTATATATAT-A-TATCT-CAAAA-ATGTTTTAAA
153714 ACTATAT
1 ACTATAT
153721 GTTATATAAA
Statistics
Matches: 87, Mismatches: 6, Indels: 26
0.73 0.05 0.22
Matches are distributed among these distances:
28 6 0.07
29 5 0.06
30 5 0.06
31 12 0.14
32 7 0.08
33 18 0.21
34 8 0.09
35 6 0.07
36 16 0.18
37 4 0.05
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (32 bp):
ACTATATATATATATCTCAAAAATGTTTTAAA
Found at i:153813 original size:35 final size:35
Alignment explanation
Indices: 153769--153851 Score: 98
Period size: 35 Copynumber: 2.3 Consensus size: 35
153759 TATACATTAT
153769 ATTTTCAAAATGATTTCAAAA-ATATA-TGTTATATA
1 ATTTTCAAAATG-TTTCAAAATATATATTG-TATATA
*
153804 ATTTTCAAAATGTTTTAAAACTTATATATTGTATATA
1 ATTTTCAAAATGTTTCAAAA--TATATATTGTATATA
153841 AGTTTTCAAAA
1 A-TTTTCAAAA
153852 ACGTTTTAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
34 7 0.17
35 12 0.29
37 12 0.29
38 11 0.26
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (35 bp):
ATTTTCAAAATGTTTCAAAATATATATTGTATATA
Found at i:153858 original size:110 final size:110
Alignment explanation
Indices: 153656--153858 Score: 247
Period size: 110 Copynumber: 1.8 Consensus size: 110
153646 CTATATACCA
* * *
153656 TATAGTTTTCAAAAATGATTTTAAAAATATTATATGAGTTTTCCAAAATATTTTTAAAACTATAT
1 TATAGTTTTCAAAAATGATTTAAAAAATATTATATGAATTTTCCAAAATAGTTTTAAAACTATAT
* *
153721 GTTATATAAAATTTTCAAAAAATGTTTTTATTTTAAACTATACAT
66 ATTATATAAAATTTTCAAAAAACGTTTTTATTTTAAACTATACAT
153766 TATA-TTTTC-AAAATGATTTCAAAAATATATGTTATAT-AATTTT-CAAAAT-GTTTTAAAACT
1 TATAGTTTTCAAAAATGATTT-AAAAA-ATA--TTATATGAATTTTCCAAAATAGTTTTAAAAC-
* *
153826 TATATATTGTATATAAGTTTTC-AAAAACGTTTT
61 TATATATTATATA-AAATTTTCAAAAAACGTTTT
153859 AAAAAAACTA
Statistics
Matches: 80, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
108 10 0.12
109 18 0.22
110 34 0.43
111 12 0.15
112 6 0.08
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (110 bp):
TATAGTTTTCAAAAATGATTTAAAAAATATTATATGAATTTTCCAAAATAGTTTTAAAACTATAT
ATTATATAAAATTTTCAAAAAACGTTTTTATTTTAAACTATACAT
Found at i:153871 original size:39 final size:36
Alignment explanation
Indices: 153769--153885 Score: 103
Period size: 39 Copynumber: 3.1 Consensus size: 36
153759 TATACATTAT
* * *
153769 ATTTTCAAAATGATTT-CAAAAATATAT-GTTATATA
1 ATTTTCAAAACGTTTTAAAAAAATATATTG-TATATA
* **
153804 ATTTTCAAAATGTTTTAAAACTTATATATTGTATATA
1 ATTTTCAAAACGTTTTAAAA-AAATATATTGTATATA
*
153841 AGTTTTCAAAAACGTTTTAAAAAAACTATATTATATATA
1 A-TTTTC-AAAACGTTTTAAAAAAA-TATATTGTATATA
153880 TATTTT
1 -ATTTT
153886 TGGAAACCGT
Statistics
Matches: 67, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
35 15 0.22
36 2 0.03
37 13 0.19
38 7 0.10
39 29 0.43
40 1 0.01
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (36 bp):
ATTTTCAAAACGTTTTAAAAAAATATATTGTATATA
Found at i:172634 original size:22 final size:22
Alignment explanation
Indices: 172609--172657 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
172599 CACCATTGCT
172609 CACATAATTTG-CACCGAAGTG-C
1 CACATAATTTGTC-CCGAA-TGAC
172631 CACAT-ATTTGTCCCGAATGAC
1 CACATAATTTGTCCCGAATGAC
172652 CACATA
1 CACATA
172658 GAACCCTCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
20 2 0.08
21 16 0.67
22 6 0.25
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (22 bp):
CACATAATTTGTCCCGAATGAC
Found at i:175334 original size:2 final size:2
Alignment explanation
Indices: 175327--175355 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
175317 GTCATACCAA
175327 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 A
175356 ATAGAAGCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:176033 original size:46 final size:46
Alignment explanation
Indices: 175962--176050 Score: 126
Period size: 46 Copynumber: 1.9 Consensus size: 46
175952 TTTCTACACT
* ** *
175962 ATTATTGGAACTCGTCACGTTGATGTGATGAGTTTC-AATAAAAAAA
1 ATTATTCGAACTCGTCACGCCGATGTGACGAG-TTCGAATAAAAAAA
176008 ATTATTCGAACTCGTCACGCCGATGTGACGAGTTCGAATAAAA
1 ATTATTCGAACTCGTCACGCCGATGTGACGAGTTCGAATAAAA
176051 TATAATTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
45 3 0.08
46 35 0.92
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (46 bp):
ATTATTCGAACTCGTCACGCCGATGTGACGAGTTCGAATAAAAAAA
Found at i:177562 original size:144 final size:142
Alignment explanation
Indices: 177377--177674 Score: 350
Period size: 142 Copynumber: 2.1 Consensus size: 142
177367 ATTTAATTAT
* * *
177377 GTATTTAATTTTTTTTAATTTGAGATTAATTGATTATTTTATAATGTTATTTGTTGGCCGCCGAT
1 GTATTTAA--TTTTTTAATTTGAAATTAATTGATTATTTTATAATGTTAGTTGCTGGCCGCCGAT
* * *
177442 CAATAAAGACAAAAAAGAAAAGAGATGAGC-GACACACCAATGAGAGAAAACTAGGTTTTC-ATT
64 CAACAAAGAC-AAAAA-AAAAGAGATAAACAG-CACACCAATGAGAGAAAACTAGGTTTTCTA-T
177505 AGTGAAATTTAAG-CTGTC
125 AGTGAAATTTAAGTC-GTC
* * * * * * *
177523 GTATTTAATTTTTTATTTTGAAATTGATTGGTTATTTTATAGTGTTGGTTGCTGGGCGTCGATCA
1 GTATTTAATTTTTTAATTTGAAATTAATTGATTATTTTATAATGTTAGTTGCTGGCCGCCGATCA
** * *
177588 ACAAAGACGGAAAAAAATAGATAAACAGTACACCAATGAGAGAAAACTAGGTTTTCTATAGTGAA
66 ACAAAGACAAAAAAAAAGAGATAAACAGCACACCAATGAGAGAAAACTAGGTTTTCTATAGTGAA
177653 ATTTAAGTCGTC
131 ATTTAAGTCGTC
*
177665 ATATTTAATT
1 GTATTTAATT
177675 ATGTATTTAA
Statistics
Matches: 131, Mismatches: 18, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
142 63 0.48
143 6 0.05
144 54 0.41
146 8 0.06
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (142 bp):
GTATTTAATTTTTTAATTTGAAATTAATTGATTATTTTATAATGTTAGTTGCTGGCCGCCGATCA
ACAAAGACAAAAAAAAAGAGATAAACAGCACACCAATGAGAGAAAACTAGGTTTTCTATAGTGAA
ATTTAAGTCGTC
Found at i:178017 original size:21 final size:21
Alignment explanation
Indices: 177993--178063 Score: 76
Period size: 21 Copynumber: 3.4 Consensus size: 21
177983 TCGAAGTTCA
177993 CGTTGCGATTCATTCCAAATT
1 CGTTGCGATTCATTCCAAATT
* * *
178014 CGTTGCGA-T-AGTCGAAGTT
1 CGTTGCGATTCATTCCAAATT
178033 CGCGTTGCGATTCATTCCAAA-T
1 --CGTTGCGATTCATTCCAAATT
178055 CGTTGCGAT
1 CGTTGCGAT
178064 AGGCGAAGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
19 7 0.17
20 10 0.25
21 16 0.40
22 2 0.05
23 5 0.12
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (21 bp):
CGTTGCGATTCATTCCAAATT
Found at i:178071 original size:41 final size:42
Alignment explanation
Indices: 177976--178084 Score: 193
Period size: 42 Copynumber: 2.6 Consensus size: 42
177966 GATTCGTAAC
*
177976 GCGATAGTCGAAGTTCACGTTGCGATTCATTCCAAATTCGTT
1 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
178018 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAA-TCGTT
1 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
*
178059 GCGATAGGCGAAGTTCGCGTTGCGAT
1 GCGATAGTCGAAGTTCGCGTTGCGAT
178085 AGGCAAAGTT
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
41 30 0.46
42 35 0.54
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (42 bp):
GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
Found at i:178081 original size:21 final size:21
Alignment explanation
Indices: 178055--178228 Score: 105
Period size: 21 Copynumber: 8.4 Consensus size: 21
178045 CATTCCAAAT
178055 CGTTGCGATAGGCGAAGTTCG
1 CGTTGCGATAGGCGAAGTTCG
*
178076 CGTTGCGATAGGCAAAGTTCG
1 CGTTGCGATAGGCGAAGTTCG
* ** *
178097 CATTGCGATTCATTCCAA-TT--
1 CGTTGCGA-T-AGGCGAAGTTCG
*
178117 CGTTGCGATAGGCGAAGTTTG
1 CGTTGCGATAGGCGAAGTTCG
** *
178138 CGTTGCGATTCATTCCAA-TT--
1 CGTTGCGA-T-AGGCGAAGTTCG
*
178158 CATTGCGATAGGCGAAGTTCG
1 CGTTGCGATAGGCGAAGTTCG
* ** *
178179 CATTGCGATTCATTCCAA-TT--
1 CGTTGCGA-T-AGGCGAAGTTCG
178199 CGTTGCGATAGGCGAAGTTCG
1 CGTTGCGATAGGCGAAGTTCG
178220 CGTTGCGAT
1 CGTTGCGAT
178229 TCATTTCAAA
Statistics
Matches: 115, Mismatches: 23, Indels: 30
0.68 0.14 0.18
Matches are distributed among these distances:
18 12 0.10
19 9 0.08
20 21 0.18
21 52 0.45
22 9 0.08
23 12 0.10
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (21 bp):
CGTTGCGATAGGCGAAGTTCG
Found at i:178081 original size:62 final size:62
Alignment explanation
Indices: 178014--178146 Score: 221
Period size: 62 Copynumber: 2.1 Consensus size: 62
178004 ATTCCAAATT
* * *
178014 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATCGTTGCGATAGGCGAAGTTCG
1 CGTTGCGATAGGCAAAGTTCGCATTGCGATTCATTCCAAATCGTTGCGATAGGCGAAGTTCG
* *
178076 CGTTGCGATAGGCAAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGATAGGCGAAGTTTG
1 CGTTGCGATAGGCAAAGTTCGCATTGCGATTCATTCCAAATCGTTGCGATAGGCGAAGTTCG
178138 CGTTGCGAT
1 CGTTGCGAT
178147 TCATTCCAAT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 66 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (62 bp):
CGTTGCGATAGGCAAAGTTCGCATTGCGATTCATTCCAAATCGTTGCGATAGGCGAAGTTCG
Found at i:178121 original size:41 final size:41
Alignment explanation
Indices: 178076--178251 Score: 289
Period size: 41 Copynumber: 4.3 Consensus size: 41
178066 GCGAAGTTCG
*
178076 CGTTGCGATAGGCAAAGTTCGCATTGCGATTCATTCCAATT
1 CGTTGCGATAGGCGAAGTTCGCATTGCGATTCATTCCAATT
* *
178117 CGTTGCGATAGGCGAAGTTTGCGTTGCGATTCATTCCAATT
1 CGTTGCGATAGGCGAAGTTCGCATTGCGATTCATTCCAATT
*
178158 CATTGCGATAGGCGAAGTTCGCATTGCGATTCATTCCAATT
1 CGTTGCGATAGGCGAAGTTCGCATTGCGATTCATTCCAATT
* *
178199 CGTTGCGATAGGCGAAGTTCGCGTTGCGATTCATTTCAAATT
1 CGTTGCGATAGGCGAAGTTCGCATTGCGATTCA-TTCCAATT
178241 CGTTGCGATAG
1 CGTTGCGATAG
178252 TCCAAATATT
Statistics
Matches: 125, Mismatches: 9, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
41 107 0.86
42 18 0.14
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.32
Consensus pattern (41 bp):
CGTTGCGATAGGCGAAGTTCGCATTGCGATTCATTCCAATT
Found at i:178133 original size:103 final size:104
Alignment explanation
Indices: 177976--178187 Score: 336
Period size: 103 Copynumber: 2.0 Consensus size: 104
177966 GATTCGTAAC
* * * *
177976 GCGATAGTCGAAGTTCACGTTGCGATTCATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGC
1 GCGATAGGCAAAGTTCACATTGCGATTCATTCCAAATTCGTTGCGATAGGCGAAGTTCGCGTTGC
* *
178041 GATTCATTCCAAATCGTTGCGATAGGCGAAGTTCGCGTT
66 GATTCATTCCAAATCATTGCGATAGGCGAAGTTCGCATT
* *
178080 GCGATAGGCAAAGTTCGCATTGCGATTCATTCC-AATTCGTTGCGATAGGCGAAGTTTGCGTTGC
1 GCGATAGGCAAAGTTCACATTGCGATTCATTCCAAATTCGTTGCGATAGGCGAAGTTCGCGTTGC
*
178144 GATTCATTCCAATTCATTGCGATAGGCGAAGTTCGCATT
66 GATTCATTCCAAATCATTGCGATAGGCGAAGTTCGCATT
178183 GCGAT
1 GCGAT
178188 TCATTCCAAT
Statistics
Matches: 99, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
103 70 0.71
104 29 0.29
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.31
Consensus pattern (104 bp):
GCGATAGGCAAAGTTCACATTGCGATTCATTCCAAATTCGTTGCGATAGGCGAAGTTCGCGTTGC
GATTCATTCCAAATCATTGCGATAGGCGAAGTTCGCATT
Found at i:178247 original size:62 final size:62
Alignment explanation
Indices: 178014--178249 Score: 177
Period size: 62 Copynumber: 3.8 Consensus size: 62
178004 ATTCCAAATT
* * *
178014 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAA-TCGTTGCGA-TAGGCGAAGTTCG
1 CGTTGCGATAGGCGAAGTTCGCATTGCGATTCATT-CAAATTCGTTGCGATTAGGCCAAGTT-G
* * *
178076 CGTTGCGATAGGCAAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGA-TAGGCGAAGTTTG
1 CGTTGCGATAGGCGAAGTTCGCATTGCGATTCATTCAAATTCGTTGCGATTAGGCCAAG-TTG
** * ** * **
178138 CGTTGCGATTCATTCCAA-TT--CATTGCGA-T-AGGCGAAGTTCGCATTGCGATTCATTCCAA-
1 CGTTGCGA-T-AGGCGAAGTTCGCATTGCGATTCATTC-AAATTCG--TTGCGATT-AGGCCAAG
178197 TT-
60 TTG
*
178199 CGTTGCGATAGGCGAAGTTCGCGTTGCGATTCATTTCAAATTCGTTGCGAT
1 CGTTGCGATAGGCGAAGTTCGCATTGCGATTCA-TTCAAATTCGTTGCGAT
178250 AGTCCAAATA
Statistics
Matches: 138, Mismatches: 21, Indels: 30
0.73 0.11 0.16
Matches are distributed among these distances:
59 6 0.04
60 9 0.07
61 19 0.14
62 81 0.59
63 7 0.05
64 15 0.11
65 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.32
Consensus pattern (62 bp):
CGTTGCGATAGGCGAAGTTCGCATTGCGATTCATTCAAATTCGTTGCGATTAGGCCAAGTTG
Found at i:179026 original size:5 final size:5
Alignment explanation
Indices: 179018--179055 Score: 67
Period size: 5 Copynumber: 7.4 Consensus size: 5
179008 CGTCCCGTCC
179018 CGGGT CGGGT CGGGT CGGGT CGGGT CGGGT CGTGGT CG
1 CGGGT CGGGT CGGGT CGGGT CGGGT CGGGT CG-GGT CG
179056 TGGTAATAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 27 0.84
6 5 0.16
ACGTcount: A:0.00, C:0.21, G:0.58, T:0.21
Consensus pattern (5 bp):
CGGGT
Found at i:179163 original size:21 final size:21
Alignment explanation
Indices: 179137--179210 Score: 80
Period size: 21 Copynumber: 3.5 Consensus size: 21
179127 AATATTTGAA
179137 CTATCGCAACGCGAACTTCGC
1 CTATCGCAACGCGAACTTCGC
* * *
179158 CTATCGCAA--CGAATTTGGA
1 CTATCGCAACGCGAACTTCGC
*
179177 ATGAATCGCAACGCGAACTTCGC
1 CT--ATCGCAACGCGAACTTCGC
179200 CTATCGCAACG
1 CTATCGCAACG
179211 AATTGGAATG
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
19 8 0.20
21 25 0.61
23 8 0.20
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.20
Consensus pattern (21 bp):
CTATCGCAACGCGAACTTCGC
Found at i:179229 original size:22 final size:22
Alignment explanation
Indices: 179201--179274 Score: 125
Period size: 22 Copynumber: 3.5 Consensus size: 22
179191 GAACTTCGCC
179201 TATCGCAACGAATTGGAATGAA
1 TATCGCAACGAATTGGAATGAA
*
179223 TATCGCAACAAATTGGAATGAA
1 TATCGCAACGAATTGGAATGAA
179245 TATCGCAACGAATTGGAAT-AA
1 TATCGCAACGAATTGGAATGAA
179266 -ATCGCAACG
1 TATCGCAACG
179275 CAAACTTCGC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
20 9 0.18
21 2 0.04
22 39 0.78
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (22 bp):
TATCGCAACGAATTGGAATGAA
Found at i:179281 original size:85 final size:84
Alignment explanation
Indices: 179159--179374 Score: 273
Period size: 85 Copynumber: 2.6 Consensus size: 84
179149 GAACTTCGCC
* *
179159 TATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGCCTATCGCAACGAATTGGAATGAAT
1 TATCGCAACGAATTTGGAATAAATCGCAACGCAAACTTCGCCTATCGCAACGAATTGGAAT-AA-
179224 ATCGCAACAAATTGGAATGAA
64 ATCGCAACAAATTGGAATGAA
179245 TATCGCAACGAA-TTGGAATAAATCGCAACGCAAACTTCGCCTATCGCAACGAATTGGAATAAAT
1 TATCGCAACGAATTTGGAATAAATCGCAACGCAAACTTCGCCTATCGCAACGAATTGGAATAAAT
**
179309 CGCAAC-----GCGAACTTCGCC
66 CGCAACAAATTG-GAA--T-GAA
* * *
179327 TATCGCAACGAATTTGGAATAAATCGCAATGCGAACTTCGACTATCGC
1 TATCGCAACGAATTTGGAATAAATCGCAACGCAAACTTCGCCTATCGC
179375 GTTGCGAATC
Statistics
Matches: 118, Mismatches: 7, Indels: 13
0.86 0.05 0.09
Matches are distributed among these distances:
78 1 0.01
79 3 0.03
81 1 0.01
82 13 0.11
83 40 0.34
84 2 0.02
85 46 0.39
86 12 0.10
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (84 bp):
TATCGCAACGAATTTGGAATAAATCGCAACGCAAACTTCGCCTATCGCAACGAATTGGAATAAAT
CGCAACAAATTGGAATGAA
Found at i:179292 original size:21 final size:20
Alignment explanation
Indices: 179266--179336 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 20
179256 ATTGGAATAA
179266 ATCGCAACGCAAACTTCGCCT
1 ATCGCAACGC-AACTTCGCCT
* **
179287 ATCGCAACG-AA-TTGGAAT
1 ATCGCAACGCAACTTCGCCT
179305 AAATCGCAACGCGAACTTCGCCT
1 --ATCGCAACGC-AACTTCGCCT
179328 ATCGCAACG
1 ATCGCAACG
179337 AATTTGGAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
18 4 0.10
19 2 0.05
20 9 0.23
21 18 0.46
22 2 0.05
23 4 0.10
ACGTcount: A:0.32, C:0.31, G:0.18, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCAACTTCGCCT
Found at i:179302 original size:41 final size:41
Alignment explanation
Indices: 179139--179374 Score: 309
Period size: 42 Copynumber: 5.6 Consensus size: 41
179129 TATTTGAACT
*
179139 ATCGCAACGCGAACTTCGCCTATCGCAACGAATTTGGAATGA
1 ATCGCAACGCGAACTTCGCCTATCGCAACGAA-TTGGAATAA
179181 ATCGCAACGCGAACTTCGCCTATCGCAACGAATTGGAATGAA
1 ATCGCAACGCGAACTTCGCCTATCGCAACGAATTGGAAT-AA
**
179223 TATCGCAACAAATTG-GAA--T-GAATATCGCAACGAATTGGAATAA
1 -ATCGCAAC-----GCGAACTTCGCCTATCGCAACGAATTGGAATAA
*
179266 ATCGCAACGCAAACTTCGCCTATCGCAACGAATTGGAATAA
1 ATCGCAACGCGAACTTCGCCTATCGCAACGAATTGGAATAA
179307 ATCGCAACGCGAACTTCGCCTATCGCAACGAATTTGGAATAA
1 ATCGCAACGCGAACTTCGCCTATCGCAACGAA-TTGGAATAA
* *
179349 ATCGCAATGCGAACTTCGACTATCGC
1 ATCGCAACGCGAACTTCGCCTATCGC
179375 GTTGCGAATC
Statistics
Matches: 173, Mismatches: 9, Indels: 24
0.84 0.04 0.12
Matches are distributed among these distances:
37 1 0.01
38 2 0.01
40 1 0.01
41 60 0.35
42 74 0.43
43 10 0.06
44 20 0.12
45 1 0.01
47 3 0.02
48 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (41 bp):
ATCGCAACGCGAACTTCGCCTATCGCAACGAATTGGAATAA
Found at i:179373 original size:21 final size:20
Alignment explanation
Indices: 179266--179374 Score: 62
Period size: 21 Copynumber: 5.2 Consensus size: 20
179256 ATTGGAATAA
* *
179266 ATCGCAACGCAAACTTCGCCT
1 ATCGCAA-GCGAACTTCGACT
* *
179287 ATCGCAA-CGAA-TTGGAAT
1 ATCGCAAGCGAACTTCGACT
*
179305 AAATCGCAACGCGAACTTCGCCT
1 --ATCGCAA-GCGAACTTCGACT
* * *
179328 ATCGCAA-CGAATTTGGAAT
1 ATCGCAAGCGAACTTCGACT
179347 AAATCGCAATGCGAACTTCGACT
1 --ATCGCAA-GCGAACTTCGACT
179370 ATCGC
1 ATCGC
179375 GTTGCGAATC
Statistics
Matches: 65, Mismatches: 14, Indels: 18
0.67 0.14 0.19
Matches are distributed among these distances:
18 4 0.06
19 11 0.17
20 7 0.11
21 26 0.40
22 4 0.06
23 13 0.20
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (20 bp):
ATCGCAAGCGAACTTCGACT
Found at i:181693 original size:29 final size:31
Alignment explanation
Indices: 181661--181724 Score: 96
Period size: 29 Copynumber: 2.1 Consensus size: 31
181651 AAATAAACTT
*
181661 AATAAAACGTGAATCTAACACATAC-TAA-A
1 AATAAAACGTGAATCAAACACATACATAATA
*
181690 AATAAAACTTGAATCAAACACATACATAATA
1 AATAAAACGTGAATCAAACACATACATAATA
181721 AATA
1 AATA
181725 GTCAAAATAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 23 0.74
30 3 0.10
31 5 0.16
ACGTcount: A:0.58, C:0.16, G:0.05, T:0.22
Consensus pattern (31 bp):
AATAAAACGTGAATCAAACACATACATAATA
Found at i:186195 original size:13 final size:13
Alignment explanation
Indices: 186195--186224 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
186185 CCGTTGACCC
*
186195 GACCCGACCTGTT
1 GACCCGACCCGTT
186208 GACCCGACCCGTT
1 GACCCGACCCGTT
186221 GACC
1 GACC
186225 GACGTTGACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.43, G:0.23, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:186196 original size:18 final size:18
Alignment explanation
Indices: 186173--186218 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
186163 ACCGGTCATA
186173 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
*
186191 ACCCGACCCGACCTGTTG
1 ACCCGACCCGACCCGTTG
186209 ACCCGACCCG
1 ACCCGACCCG
186219 TTGACCGACG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.17, C:0.50, G:0.22, T:0.11
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:188732 original size:47 final size:47
Alignment explanation
Indices: 188660--188750 Score: 114
Period size: 47 Copynumber: 1.9 Consensus size: 47
188650 TCCGAATTGA
*
188660 ATTCTGTTCTGATACGTTACCTGAATTCTATTCTGA-TTCTGATCTAG
1 ATTCTGTTCTGATACGATA-CTGAATTCTATTCTGATTTCTGATCTAG
* *
188707 ATTCTGTTCTGATATCTGATA-TGAATTCTGTTTTGATTTCTGAT
1 ATTCTGTTCTGATA-C-GATACTGAATTCTATTCTGATTTCTGAT
188751 ATCTCCGTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
47 27 0.71
48 8 0.21
49 3 0.08
ACGTcount: A:0.21, C:0.15, G:0.15, T:0.48
Consensus pattern (47 bp):
ATTCTGTTCTGATACGATACTGAATTCTATTCTGATTTCTGATCTAG
Found at i:188734 original size:24 final size:24
Alignment explanation
Indices: 188657--188752 Score: 92
Period size: 24 Copynumber: 4.0 Consensus size: 24
188647 ATTTCCGAAT
*
188657 TGAATTCTGTTCTGATA-C-GTTA
1 TGAATTCTGTTCTGATATCTGATA
* *
188679 CCTGAATTCTATTCTGAT-TCTGATC
1 --TGAATTCTGTTCTGATATCTGATA
188704 T-AGATTCTGTTCTGATATCTGATA
1 TGA-ATTCTGTTCTGATATCTGATA
* *
188728 TGAATTCTGTTTTGATTTCTGATA
1 TGAATTCTGTTCTGATATCTGATA
188752 T
1 T
188753 CTCCGTTTAC
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
22 1 0.02
23 13 0.22
24 43 0.72
25 3 0.05
ACGTcount: A:0.22, C:0.15, G:0.16, T:0.48
Consensus pattern (24 bp):
TGAATTCTGTTCTGATATCTGATA
Found at i:194224 original size:14 final size:14
Alignment explanation
Indices: 194202--194237 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
194192 GCCCTTTGCT
194202 CGAACATAAATGAA
1 CGAACATAAATGAA
*
194216 CGGACATAAATGAA
1 CGAACATAAATGAA
194230 CGAACATA
1 CGAACATA
194238 TAATCGAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.53, C:0.17, G:0.17, T:0.14
Consensus pattern (14 bp):
CGAACATAAATGAA
Found at i:196641 original size:180 final size:180
Alignment explanation
Indices: 196339--196709 Score: 708
Period size: 180 Copynumber: 2.1 Consensus size: 180
196329 GCTCACAAAA
196339 ACAC-AAATATTTACAAGAGAAAAAGAAATAAAGAATAAAAGTTTTTTTCTTGTATTTAATTGCT
1 ACACAAAAT-TTTACAAGAGAAAAAGAAATAAAGAATAAAAGTTTTTTTCTTGTATTTAATTGCT
196403 TGGATAGGTGTTGGTCTGTTCCTTCAAGTGTCCTCAACTTGTTTTTATATGTTGGAATGAGTTAC
65 TGGATAGGTGTTGGTCTGTTCCTTCAAGTGTCCTCAACTTGTTTTTATATGTTGGAATGAGTTAC
196468 TAGTCGTTTTTAGCCGTTTGGGAAGGTTTGGAGCCATTGAAGACTTTCTAC
130 TAGTCGTTTTTAGCCGTTTGGGAAGGTTTGGAGCCATTGAAGACTTTCTAC
196519 ACACAAAATTTTACAAGAGAAAAAGAAATAAAGAATAAAAGTTTTTTTCTTGTATTTAATTGCTT
1 ACACAAAATTTTACAAGAGAAAAAGAAATAAAGAATAAAAGTTTTTTTCTTGTATTTAATTGCTT
*
196584 GGATAGGTGTTGGTCTGTTTCTTCAAGTGTCCTCAACTTGTTTTTATATGTTGGAATGAGTTACT
66 GGATAGGTGTTGGTCTGTTCCTTCAAGTGTCCTCAACTTGTTTTTATATGTTGGAATGAGTTACT
*
196649 AGTCGTTTTTAGCCGTTTGGGAAGGTTTGGAGCCATTGAAGACTTTCTGC
131 AGTCGTTTTTAGCCGTTTGGGAAGGTTTGGAGCCATTGAAGACTTTCTAC
196699 ACACAAAATTT
1 ACACAAAATTT
196710 CAAAATTCTA
Statistics
Matches: 188, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
180 184 0.98
181 4 0.02
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.38
Consensus pattern (180 bp):
ACACAAAATTTTACAAGAGAAAAAGAAATAAAGAATAAAAGTTTTTTTCTTGTATTTAATTGCTT
GGATAGGTGTTGGTCTGTTCCTTCAAGTGTCCTCAACTTGTTTTTATATGTTGGAATGAGTTACT
AGTCGTTTTTAGCCGTTTGGGAAGGTTTGGAGCCATTGAAGACTTTCTAC
Found at i:197745 original size:25 final size:25
Alignment explanation
Indices: 197707--197756 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
197697 TCACAATACT
* **
197707 TCTGTATACGAATTTGACGGGTCAG
1 TCTGTATACCAATTCCACGGGTCAG
*
197732 TCTGTATCCCAATTCCACGGGTCAG
1 TCTGTATACCAATTCCACGGGTCAG
197757 ATTTTTTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (25 bp):
TCTGTATACCAATTCCACGGGTCAG
Found at i:201378 original size:3 final size:3
Alignment explanation
Indices: 201372--201470 Score: 148
Period size: 3 Copynumber: 33.7 Consensus size: 3
201362 ATTTAATATT
* *
201372 TAA TAA TAA TAA T-A TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA T-G
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
201418 TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
201466 TAA TA
1 TAA TA
201471 TGGATAAAAA
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
2 3 0.03
3 83 0.97
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:201938 original size:108 final size:107
Alignment explanation
Indices: 201782--202383 Score: 734
Period size: 108 Copynumber: 5.6 Consensus size: 107
201772 AGAATTATGC
* * *
201782 AAAAAGTTGAACAAGTT-TTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAGTCTTCTCATT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAA---CTTC-TTCTTCTTCAGATGAGTCTTCTCATT
* * * *
201846 ATGAACTTTCTCTGGAAAGGCTGATCCATCAATGATGGACTCAGGT
62 ATGAACTTTCTCTGGAAAAGATAATCCATCAATGATGGATTCAGGT
*
201892 AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCAGATGAGTTCTTCTCATTAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTT-CTTCAGATGAG-TCTTCTCATTAT
*
201957 GAACTTTCTCTGGAAAAGATAATCCATCAATTGATGAATTCAGGT
64 GAACTTTCTCTGGAAAAGATAATCCATCAA-TGATGGATTCAGGT
*
202002 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGTTTTCTCATTATGA
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGTCTTCTCATTATGA
* * * *
202067 ACTTTCTCTGGAAAGGCTGATCCATCAAATGATGGACTCAGGT
66 ACTTTCTCTGGAAAAGATAATCCATC-AATGATGGATTCAGGT
202110 -AAAGGTTGAACAAATTCTTCTC--T-T---CTTCTTCCTTCTTCAGAT-AG--TTCTCATTATG
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTT-CTTCTTCAGATGAGTCTTCTCATTATG
* * * **
202165 AACCTTCTCTGGAAAAGTTAATCCATCAAGTGATGAATTCA-AC
65 AACTTTCTCTGGAAAAGATAATCCATCAA-TGATGGATTCAGGT
202208 AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGT-TCTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAA---CTTCTT-CTTCTTCAGATGAGTCT-TCTCAT
* * * *
202272 TATGAACTTTCTCTGGAAAAGATAATCCA--AGTGATAGATTTA--A
61 TATGAACTTTCTCTGGAAAAGATAATCCATCAATGATGGATTCAGGT
202315 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGTTCTTCTCATTATG
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAG-TCTTCTCATTATG
202380 AACT
65 AACT
202384 CGAACTGGAA
Statistics
Matches: 439, Mismatches: 31, Indels: 50
0.84 0.06 0.10
Matches are distributed among these distances:
98 2 0.00
99 65 0.15
101 9 0.02
102 12 0.03
103 14 0.03
104 22 0.05
105 2 0.00
107 58 0.13
108 88 0.20
109 55 0.13
110 67 0.15
111 45 0.10
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (107 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGTCTTCTCATTATGA
ACTTTCTCTGGAAAAGATAATCCATCAATGATGGATTCAGGT
Found at i:202214 original size:316 final size:315
Alignment explanation
Indices: 201812--202383 Score: 897
Period size: 316 Copynumber: 1.8 Consensus size: 315
201802 TTATTATGAA
* * * *
201812 CTTCTTCTTTCTTCTTCAGATGAGTCTTCTCATTATGAACTTTCTCTGGAAAGGCTGATCCATCA
1 CTTCTTCTTCCTTCTTCAGATGAG-CTTCTCATTATGAACCTTCTCTGGAAAAGCTAATCCATCA
* **
201877 ATGATGGACTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTT-C-CTTCAGA
65 ATGATGAACTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGA
* *
201940 TGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATAATCCATCAATTGAT-GAATTCAGGTAA
130 TGAGTTC-TCTCATTATGAACTTTCTCTGGAAAAGATAAT-C--CAAGTGATAG-ATTCA--AAA
202004 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGTT-TTCTCATTATGAA
188 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAA
202068 CTTTCTCTGGAAAGGCTGATCCATCAAATGATGGACTCAGGTAAAGGTTGAACAAATTCTTCT
253 CTTTCTCTGGAAAGGCTGATCCATCAAATGATGGACTCAGGTAAAGGTTGAACAAATTCTTCT
*
202131 CTTCTTCTTCCTTCTTCAGAT-AG-TTCTCATTATGAACCTTCTCTGGAAAAGTTAATCCATCAA
1 CTTCTTCTTCCTTCTTCAGATGAGCTTCTCATTATGAACCTTCTCTGGAAAAGCTAATCCATCAA
*
202194 GTGATGAATTCA-ACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAG
66 -TGATGAACTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCC-TCTTCAG
*
202258 ATGAGTTCTCTCATTATGAACTTTCTCTGGAAAAGATAATCCAAGTGATAGATTTAAAAAAGGTT
129 ATGAGTTCTCTCATTATGAACTTTCTCTGGAAAAGATAATCCAAGTGATAGATTCAAAAAAGGTT
202323 GAACAAATTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACT
194 GAACAAATTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACT
202384 CGAACTGGAA
Statistics
Matches: 235, Mismatches: 12, Indels: 17
0.89 0.05 0.06
Matches are distributed among these distances:
313 53 0.23
314 15 0.06
315 11 0.05
316 77 0.33
317 11 0.05
318 34 0.14
319 34 0.14
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (315 bp):
CTTCTTCTTCCTTCTTCAGATGAGCTTCTCATTATGAACCTTCTCTGGAAAAGCTAATCCATCAA
TGATGAACTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGAT
GAGTTCTCTCATTATGAACTTTCTCTGGAAAAGATAATCCAAGTGATAGATTCAAAAAAGGTTGA
ACAAATTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCT
GGAAAGGCTGATCCATCAAATGATGGACTCAGGTAAAGGTTGAACAAATTCTTCT
Found at i:203412 original size:84 final size:84
Alignment explanation
Indices: 202993--203422 Score: 691
Period size: 84 Copynumber: 5.1 Consensus size: 84
202983 GTAATTTTTA
* *
202993 CCAAACCAGATCAAATAACTCAAAGAATACTTCCAGAAGATGTTATTGAGCACATTCATCTTCTA
1 CCAAACCAGATCAGATAACTCAAAGAATACTTCCAGAAGATGCTATTGAGCACATTCATCTTCTA
* *
203058 AATTCAATGATTGGTTTTA
66 AATTCAATGATTGGTTCTG
* * *
203077 CCAAACCAAATCAGATAATTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCTA
1 CCAAACCAGATCAGATAACTCAAAGAATACTTCCAGAAGATGCTATTGAGCACATTCATCTTCTA
*
203142 AATTCAATGATTGGTTCCG
66 AATTCAATGATTGGTTCTG
203161 TCC-AACCAGATCAGATAACTCAAAGAATACTTCCAGAAGATGCTATTGAGCACATTCATCTTCT
1 -CCAAACCAGATCAGATAACTCAAAGAATACTTCCAGAAGATGCTATTGAGCACATTCATCTTCT
*
203225 AAATTCAATGATTGGTTCCG
65 AAATTCAATGATTGGTTCTG
* * * * *
203245 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATTGAGCAAATTCATCTTCCA
1 CCAAACCAGATCAGATAACTCAAAGAATACTTCCAGAAGATGCTATTGAGCACATTCATCTTCTA
203310 AATTCAATGATTGGTTCTG
66 AATTCAATGATTGGTTCTG
*
203329 CCAAATCAGATCAGATAACTCAAAGAATACTTCCAGAAGATGCTATTGAGCACATTCATCTTCTA
1 CCAAACCAGATCAGATAACTCAAAGAATACTTCCAGAAGATGCTATTGAGCACATTCATCTTCTA
203394 AATTCAATGATTGGTTCTG
66 AATTCAATGATTGGTTCTG
* *
203413 CTAAATCAGA
1 CCAAACCAGA
203423 ACACTTATTT
Statistics
Matches: 322, Mismatches: 22, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
83 2 0.01
84 318 0.99
85 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (84 bp):
CCAAACCAGATCAGATAACTCAAAGAATACTTCCAGAAGATGCTATTGAGCACATTCATCTTCTA
AATTCAATGATTGGTTCTG
Found at i:204185 original size:16 final size:16
Alignment explanation
Indices: 204164--204203 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
204154 GAATTTTCAA
204164 AAATAAATTG-ACTCTC
1 AAATAAATTGAACT-TC
*
204180 AAATAAATTGAACTTG
1 AAATAAATTGAACTTC
204196 AAATAAAT
1 AAATAAAT
204204 AGAATTGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.53, C:0.10, G:0.07, T:0.30
Consensus pattern (16 bp):
AAATAAATTGAACTTC
Done.