Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006596.1 Hibiscus syriacus cultivar Beakdansim tig00016180_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: 60896
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Found at i:6203 original size:19 final size:20
Alignment explanation
Indices: 6179--6230 Score: 79
Period size: 21 Copynumber: 2.6 Consensus size: 20
6169 GATTATAAGA
6179 TCCTTCGGGATATAC-GAGG
1 TCCTTCGGGATATACAGAGG
*
6198 TCCTTCGGGACATACATGAGG
1 TCCTTCGGGATATACA-GAGG
6219 TCCTTCGGGATA
1 TCCTTCGGGATA
6231 AATTCACATG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 14 0.48
21 15 0.52
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (20 bp):
TCCTTCGGGATATACAGAGG
Found at i:6220 original size:21 final size:19
Alignment explanation
Indices: 6179--6228 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 19
6169 GATTATAAGA
*
6179 TCCTTCGGGATATACGAGG
1 TCCTTCGGGACATACGAGG
6198 TCCTTCGGGACATACATGAGG
1 TCCTTCGGGACATAC--GAGG
6219 TCCTTCGGGA
1 TCCTTCGGGA
6229 TAAATTCACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 14 0.50
21 14 0.50
ACGTcount: A:0.20, C:0.24, G:0.30, T:0.26
Consensus pattern (19 bp):
TCCTTCGGGACATACGAGG
Found at i:18180 original size:17 final size:17
Alignment explanation
Indices: 18133--18303 Score: 87
Period size: 17 Copynumber: 9.8 Consensus size: 17
18123 ATTCTAAATG
* *
18133 TTTACAGTTATCATACA
1 TTTACAATTATCATATA
**
18150 TTTCACTTTTATCATATA
1 TTT-ACAATTATCATATA
*
18168 TTTACAATTATCAGATGA
1 TTTACAATTATCATAT-A
* * *
18186 TTTTCAGTTATCAAATA
1 TTTACAATTATCATATA
* *
18203 TTTACAATTATTAGATGA
1 TTTACAATTATCATAT-A
* * *
18221 TTTTCAGTTATCAAATA
1 TTTACAATTATCATATA
* *
18238 TTTA-AAGATATCAGATGA
1 TTTACAA-TTATCATAT-A
*
18256 -TTACAGTTATCATATA
1 TTTACAATTATCATATA
* *
18272 TTTAAAAATATCAT-TA
1 TTTACAATTATCATATA
*
18288 GTTTTACATTTATCAT
1 --TTTACAATTATCAT
18304 GTAATACCCC
Statistics
Matches: 115, Mismatches: 30, Indels: 17
0.71 0.19 0.10
Matches are distributed among these distances:
16 4 0.03
17 57 0.50
18 54 0.47
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.45
Consensus pattern (17 bp):
TTTACAATTATCATATA
Found at i:18197 original size:35 final size:35
Alignment explanation
Indices: 18158--18284 Score: 168
Period size: 35 Copynumber: 3.7 Consensus size: 35
18148 CATTTCACTT
* *
18158 TTATCATATATTTACAATTATCAGATGATTTTCAG
1 TTATCAAATATTTACAAATATCAGATGATTTTCAG
* *
18193 TTATCAAATATTTACAATTATTAGATGATTTTCAG
1 TTATCAAATATTTACAAATATCAGATGATTTTCAG
*
18228 TTATCAAATATTTA-AAGATATCAGATGA-TTACAG
1 TTATCAAATATTTACAA-ATATCAGATGATTTTCAG
* *
18262 TTATCATATATTTAAAAATATCA
1 TTATCAAATATTTACAAATATCA
18285 TTAGTTTTAC
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
34 26 0.31
35 58 0.69
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.43
Consensus pattern (35 bp):
TTATCAAATATTTACAAATATCAGATGATTTTCAG
Found at i:18395 original size:31 final size:30
Alignment explanation
Indices: 18323--18412 Score: 94
Period size: 29 Copynumber: 3.0 Consensus size: 30
18313 CAAATTTTGG
* *
18323 TTAGCGACCAAAATATAAA-TTTTAAAAGT
1 TTAGGGACCAAAGTATAAATTTTTAAAAGT
* *
18352 TTAGTGAACAAAGTATAAATTTTGTAAAAGT
1 TTAGGGACCAAAGTATAAATTTT-TAAAAGT
* * *
18383 TTTGGGACCAAAGTGT-AATTTTAAAAAGT
1 TTAGGGACCAAAGTATAAATTTTTAAAAGT
18412 T
1 T
18413 ATGTAATTTG
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
29 23 0.45
30 9 0.18
31 19 0.37
ACGTcount: A:0.43, C:0.07, G:0.16, T:0.34
Consensus pattern (30 bp):
TTAGGGACCAAAGTATAAATTTTTAAAAGT
Found at i:18899 original size:10 final size:10
Alignment explanation
Indices: 18878--18912 Score: 52
Period size: 11 Copynumber: 3.3 Consensus size: 10
18868 AATAAAGGTT
18878 AAATTAACATG
1 AAATT-ACATG
18889 AAATTACATG
1 AAATTACATG
18899 AAAATTACATG
1 -AAATTACATG
18910 AAA
1 AAA
18913 CTTAGGTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.57, C:0.09, G:0.09, T:0.26
Consensus pattern (10 bp):
AAATTACATG
Found at i:22237 original size:27 final size:28
Alignment explanation
Indices: 22206--22262 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
22196 ATTACGATGG
22206 AAGTAT-GA-TTTAGTTTTATATC-AATTT
1 AAGTATCGATTTTA-TTTT-TATCGAATTT
22233 AAGTATCGATTTTATTTTTATCGAATTT
1 AAGTATCGATTTTATTTTTATCGAATTT
22261 AA
1 AA
22263 TATTTAGGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
27 10 0.37
28 13 0.48
29 4 0.15
ACGTcount: A:0.33, C:0.05, G:0.11, T:0.51
Consensus pattern (28 bp):
AAGTATCGATTTTATTTTTATCGAATTT
Found at i:22904 original size:2 final size:2
Alignment explanation
Indices: 22897--22936 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
22887 TAATTTTTCA
22897 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
22937 TAATACAGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23250 original size:17 final size:17
Alignment explanation
Indices: 23160--23303 Score: 102
Period size: 17 Copynumber: 8.5 Consensus size: 17
23150 TGAATTCTAA
23160 ATATTTACAGTTATCAG
1 ATATTTACAGTTATCAG
* *
23177 ACATTTCACCGTTATCAG
1 ATATTT-ACAGTTATCAG
* *
23195 ATATTTGCAATTATCAG
1 ATATTTACAGTTATCAG
* * *
23212 ATGACTTT-TAGTTGTCAA
1 AT-A-TTTACAGTTATCAG
23230 ATATTTACAGTTATCAG
1 ATATTTACAGTTATCAG
* *
23247 ATATTT-TAGTTATCAT
1 ATATTTACAGTTATCAG
*
23263 ATTTTTACA--TAT-A-
1 ATATTTACAGTTATCAG
*
23276 TTATGGTTACAGTTATCAG
1 ATAT--TTACAGTTATCAG
23295 ATATTTACA
1 ATATTTACA
23304 AATATTAGAT
Statistics
Matches: 96, Mismatches: 20, Indels: 22
0.70 0.14 0.16
Matches are distributed among these distances:
13 2 0.02
14 1 0.01
15 8 0.08
16 16 0.17
17 38 0.40
18 25 0.26
19 6 0.06
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (17 bp):
ATATTTACAGTTATCAG
Found at i:26839 original size:18 final size:18
Alignment explanation
Indices: 26816--26861 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
26806 ATACAATTAA
*
26816 TATCGATACTGATGTGAG
1 TATCGATACTGATGTCAG
26834 TATCGATACTGATGTCAG
1 TATCGATACTGATGTCAG
26852 TATCGATACT
1 TATCGATACT
26862 AAGAGAAAGG
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:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (18 bp):
TATCGATACTGATGTCAG
Found at i:27477 original size:81 final size:81
Alignment explanation
Indices: 27371--27531 Score: 234
Period size: 81 Copynumber: 2.0 Consensus size: 81
27361 CTGTTCTAAA
* * * * *
27371 ATGAAAGACTAAATGTCTAATTGTGCATTTGGTA-AAACGTTGTCAATTATGCAAGTTAGATGAA
1 ATGAAAGACTAAATGCCTAACTGTGCATTTGGCAGAAACGTT-CCAATAATGCAAGTTAGATGAA
27435 AGGTTAAATGCCTTTAT
65 AGGTTAAATGCCTTTAT
* * *
27452 ATGAAAGACTAAATGCCTAACTGTGCGTTTGGCAGAAAGGTTCCAATAATGCAAGTTAGATGAAG
1 ATGAAAGACTAAATGCCTAACTGTGCATTTGGCAGAAACGTTCCAATAATGCAAGTTAGATGAAA
27517 GGTTAAATGCCTTTA
66 GGTTAAATGCCTTTA
27532 GAAGAAAGGT
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 65 0.92
82 6 0.08
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (81 bp):
ATGAAAGACTAAATGCCTAACTGTGCATTTGGCAGAAACGTTCCAATAATGCAAGTTAGATGAAA
GGTTAAATGCCTTTAT
Found at i:27558 original size:81 final size:81
Alignment explanation
Indices: 27373--27560 Score: 209
Period size: 81 Copynumber: 2.3 Consensus size: 81
27363 GTTCTAAAAT
* * * *
27373 GAAAGACTAAATGTC-TAATTGTGCATTTGGTAAAACGTTGTCAATTATGCAAGTTAGATGAAAG
1 GAAAGACTAAAT-ACATAATTGTGCATTTGGCAAAACGTTGCCAATAATGCAAGTTAGATGAAAG
* *
27437 GTTAAATGCCTTTATAT
65 GTTAAATGCCTTTAGAA
* * * * * *
27454 GAAAGACTAAATGCCTAACTGTGCGTTTGGCAGAAAGGTT-CCAATAATGCAAGTTAGATGAAGG
1 GAAAGACTAAATACATAATTGTGCATTTGGCA-AAACGTTGCCAATAATGCAAGTTAGATGAAAG
27518 GTTAAATGCCTTTAGAA
65 GTTAAATGCCTTTAGAA
** *
27535 GAAAGGTTAAATATATAATTGTGCAT
1 GAAAGACTAAATACATAATTGTGCAT
27561 AATTGGCATG
Statistics
Matches: 88, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
80 1 0.01
81 81 0.92
82 6 0.07
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.31
Consensus pattern (81 bp):
GAAAGACTAAATACATAATTGTGCATTTGGCAAAACGTTGCCAATAATGCAAGTTAGATGAAAGG
TTAAATGCCTTTAGAA
Found at i:27605 original size:46 final size:46
Alignment explanation
Indices: 27555--27867 Score: 439
Period size: 46 Copynumber: 6.8 Consensus size: 46
27545 ATATATAATT
* * *
27555 GTGCATAATTGGCATGAAATGATGCCATAAATGAAAATGCATAATG
1 GTGCATAATTGGCATGAAAGGATGTCATAAATGAAAATGCATAACG
* *
27601 GTGCATAATTGGCATGAAAGGATGTCATAAATAAAAATGTATAACG
1 GTGCATAATTGGCATGAAAGGATGTCATAAATGAAAATGCATAACG
* *
27647 GTGCACAATTGGCATGAAAGGATGTCATAAATGAAAATGCATAATG
1 GTGCATAATTGGCATGAAAGGATGTCATAAATGAAAATGCATAACG
* *
27693 GTTCATAATTGGCATGAAAGGATATCAT-AATGAAAATGCATAACG
1 GTGCATAATTGGCATGAAAGGATGTCATAAATGAAAATGCATAACG
* * *
27738 GTGCATAATTGGCATGAAAGGATATCATAAATAAAAATGAATAACG
1 GTGCATAATTGGCATGAAAGGATGTCATAAATGAAAATGCATAACG
* ** * *
27784 GTGCATAATTGGAATGAAAGGATACCATAAATGAAAATGAATAACA
1 GTGCATAATTGGCATGAAAGGATGTCATAAATGAAAATGCATAACG
* * *
27830 ATGCATAATTGGCATGAAAGGATGTAAAAAATGAAAAT
1 GTGCATAATTGGCATGAAAGGATGTCATAAATGAAAAT
27868 ACATTACTTT
Statistics
Matches: 240, Mismatches: 26, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
45 43 0.18
46 197 0.82
ACGTcount: A:0.45, C:0.09, G:0.21, T:0.25
Consensus pattern (46 bp):
GTGCATAATTGGCATGAAAGGATGTCATAAATGAAAATGCATAACG
Found at i:27801 original size:137 final size:138
Alignment explanation
Indices: 27549--27852 Score: 457
Period size: 137 Copynumber: 2.2 Consensus size: 138
27539 GGTTAAATAT
* * * *
27549 ATAATTGTGCATAATTGGCATGAAATGATGCCATAAATGAAAATGCATAATGGTGCATAATTGGC
1 ATAATAGTGCATAATTGGCATGAAAGGATACCATAAATGAAAATGCATAACGGTGCATAATTGGC
* * * **
27614 ATGAAAGGATGTCATAAATAAAAATGTATAACGGTGCACAATTGGCATGAAAGGATGTCATAAAT
66 ATGAAAGGATATCATAAATAAAAATGAATAACGGTGCACAATTGGAATGAAAGGATACCATAAAT
*
27679 GAAAATGC
131 GAAAATGA
* * *
27687 ATAATGGTTCATAATTGGCATGAAAGGATATCAT-AATGAAAATGCATAACGGTGCATAATTGGC
1 ATAATAGTGCATAATTGGCATGAAAGGATACCATAAATGAAAATGCATAACGGTGCATAATTGGC
*
27751 ATGAAAGGATATCATAAATAAAAATGAATAACGGTGCATAATTGGAATGAAAGGATACCATAAAT
66 ATGAAAGGATATCATAAATAAAAATGAATAACGGTGCACAATTGGAATGAAAGGATACCATAAAT
27816 GAAAATGA
131 GAAAATGA
* *
27824 ATAACAATGCATAATTGGCATGAAAGGAT
1 ATAATAGTGCATAATTGGCATGAAAGGAT
27853 GTAAAAAATG
Statistics
Matches: 149, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
137 120 0.81
138 29 0.19
ACGTcount: A:0.44, C:0.10, G:0.21, T:0.25
Consensus pattern (138 bp):
ATAATAGTGCATAATTGGCATGAAAGGATACCATAAATGAAAATGCATAACGGTGCATAATTGGC
ATGAAAGGATATCATAAATAAAAATGAATAACGGTGCACAATTGGAATGAAAGGATACCATAAAT
GAAAATGA
Found at i:32968 original size:182 final size:182
Alignment explanation
Indices: 32661--33024 Score: 629
Period size: 182 Copynumber: 2.0 Consensus size: 182
32651 TCAGGTGACA
* *
32661 GCATATATTGTTATTATATGAGATGAGGGAGACTCACACAGAGTCAACCTCTAATGTTTTGATTT
1 GCATATATTGTTATTATATGAGATAAAGGAGACTCACACAGAGTCAACCTCTAATGTTTTGATTT
*
32726 AATGTATGGTTTATCGTATTTGATATATGTTTATAATGTGTATGGAATTGATATTATGAATAATT
66 AATGTATGGTTTATCATATTTGATATATGTTTATAATGTGTATGGAATTGATATTATGAATAATT
*
32791 ATTAGAGTAGGAACTGTTCTAAATTAAAAGACTAAATGTCTAACTGTGCATT
131 ATTAGAGTAGGAACTGTTCTAAAATAAAAGACTAAATGTCTAACTGTGCATT
* * *
32843 GCATATATTGTTATTATATGGGATAAAGGAGGCTCACATAGAGTCAACCTCTAATGTTTTGATTT
1 GCATATATTGTTATTATATGAGATAAAGGAGACTCACACAGAGTCAACCTCTAATGTTTTGATTT
32908 AATGTATGGTTTATCATATTTGATATATGTTTATAATGTGTATGGAATTGATATTATGAATAATT
66 AATGTATGGTTTATCATATTTGATATATGTTTATAATGTGTATGGAATTGATATTATGAATAATT
* * * *
32973 ATTATAGTATGAATTGTTCTAAAATGAAAGACTAAATGTCTAACTGTGCATT
131 ATTAGAGTAGGAACTGTTCTAAAATAAAAGACTAAATGTCTAACTGTGCATT
33025 TGGTAGAAAG
Statistics
Matches: 171, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
182 171 1.00
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.40
Consensus pattern (182 bp):
GCATATATTGTTATTATATGAGATAAAGGAGACTCACACAGAGTCAACCTCTAATGTTTTGATTT
AATGTATGGTTTATCATATTTGATATATGTTTATAATGTGTATGGAATTGATATTATGAATAATT
ATTAGAGTAGGAACTGTTCTAAAATAAAAGACTAAATGTCTAACTGTGCATT
Found at i:33136 original size:78 final size:79
Alignment explanation
Indices: 32994--33175 Score: 208
Period size: 78 Copynumber: 2.3 Consensus size: 79
32984 AATTGTTCTA
* * * * *
32994 AAATGAAAGACTAAATGTCTAACTGTGCATTTGGTAGAAAGGTGACAATCATGCAAGTTAGATGA
1 AAATGAAAGACTAAATGCCTAACTAT--ATTTGGCAGAAAGGTGACAATAATACAAGTTAGATGA
*
33059 AATGTTAAATGCCTTT
64 AAGGTTAAATGCCTTT
*
33075 AAATGAAAGACTAAATGCCTAACTAT-TTTGGCATAAAGGT-ATCAATAATACAAGTTAGATGAA
1 AAATGAAAGACTAAATGCCTAACTATATTTGGCAGAAAGGTGA-CAATAATACAAGTTAGATGAA
*
33138 GGGTTAAATGCCTTT
65 AGGTTAAATGCCTTT
** *
33153 AGAA-GAAAGGTTAAATGCATAAC
1 A-AATGAAAGACTAAATGCCTAAC
33176 AGTGCATAAT
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
77 1 0.01
78 61 0.69
79 2 0.02
81 24 0.27
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.28
Consensus pattern (79 bp):
AAATGAAAGACTAAATGCCTAACTATATTTGGCAGAAAGGTGACAATAATACAAGTTAGATGAAA
GGTTAAATGCCTTT
Found at i:33164 original size:22 final size:22
Alignment explanation
Indices: 33129--33170 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
33119 ATAATACAAG
* *
33129 TTAGATGAAGGGTTAAATGCCT
1 TTAGAAGAAAGGTTAAATGCCT
33151 TTAGAAGAAAGGTTAAATGC
1 TTAGAAGAAAGGTTAAATGC
33171 ATAACAGTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.07, G:0.26, T:0.29
Consensus pattern (22 bp):
TTAGAAGAAAGGTTAAATGCCT
Found at i:33218 original size:46 final size:46
Alignment explanation
Indices: 33165--33313 Score: 219
Period size: 46 Copynumber: 3.2 Consensus size: 46
33155 AAGAAAGGTT
* * * *
33165 AAATGCATAACAGTGCATAATAGGTATGAAATGATGCCATAAATGA
1 AAATGCATAACGGTGCATAATTGGCATGAAAGGATGCCATAAATGA
33211 AAATGCATAACGGTGCATAATTGGCATGAAAGGATGCCATAAAT-A
1 AAATGCATAACGGTGCATAATTGGCATGAAAGGATGCCATAAATGA
* *
33256 AAAGTGCATAACGGTGCATAGTTGGCATGAAAGGATTCCATAAATGA
1 AAA-TGCATAACGGTGCATAATTGGCATGAAAGGATGCCATAAATGA
*
33303 AAATGTATAAC
1 AAATGCATAAC
33314 TGTAATACCC
Statistics
Matches: 94, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
45 4 0.04
46 86 0.91
47 4 0.04
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.23
Consensus pattern (46 bp):
AAATGCATAACGGTGCATAATTGGCATGAAAGGATGCCATAAATGA
Found at i:34043 original size:22 final size:22
Alignment explanation
Indices: 34016--34066 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
34006 GGAGTTATGT
34016 CGTGAAATAGGAAAGTGATCTA
1 CGTGAAATAGGAAAGTGATCTA
* *
34038 CTTGAAATATGAAAGTGATCTA
1 CGTGAAATAGGAAAGTGATCTA
34060 CGTGAAA
1 CGTGAAA
34067 AACGCTATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.41, C:0.10, G:0.24, T:0.25
Consensus pattern (22 bp):
CGTGAAATAGGAAAGTGATCTA
Found at i:34549 original size:28 final size:30
Alignment explanation
Indices: 34517--34572 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
34507 GAAAAACTCA
*
34517 GGGACC-ATTTTGTAA-TTTAAAAAGTTAG
1 GGGACCAATTTGGTAACTTTAAAAAGTTAG
*
34545 GGGACCAATTTGGTAACTTTGAAAAGTT
1 GGGACCAATTTGGTAACTTTAAAAAGTT
34573 GTGAATGGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 6 0.25
29 8 0.33
30 10 0.42
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.34
Consensus pattern (30 bp):
GGGACCAATTTGGTAACTTTAAAAAGTTAG
Found at i:35702 original size:45 final size:45
Alignment explanation
Indices: 35652--35783 Score: 228
Period size: 45 Copynumber: 2.9 Consensus size: 45
35642 GTAACCATGC
35652 AAATAAGCTTACGAGCTTATGGGTTAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGGTTAAATGGTAAGTATATTGGTA
35697 AAATAAGCTTACGAGCTTATGGGTTAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGGTTAAATGGTAAGTATATTGGTA
* ** *
35742 AAATAAGCTTACGAGCTTATGAGAAAAATGGTAAATATATTG
1 AAATAAGCTTACGAGCTTATGGGTTAAATGGTAAGTATATTG
35784 ATAAGAAATT
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 83 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.32
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGGTTAAATGGTAAGTATATTGGTA
Found at i:36234 original size:21 final size:21
Alignment explanation
Indices: 36200--36240 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
36190 GTAGTAGTAT
* *
36200 TGTAGTAGTGCATCGATACAA
1 TGTAGCAGTACATCGATACAA
36221 TGTAGCAGTACATCGATACA
1 TGTAGCAGTACATCGATACA
36241 CATTTTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (21 bp):
TGTAGCAGTACATCGATACAA
Found at i:36622 original size:46 final size:46
Alignment explanation
Indices: 36553--36667 Score: 167
Period size: 46 Copynumber: 2.5 Consensus size: 46
36543 ACAACAACGA
* * **
36553 TGCATAATTGGCATGAAAGGATGTCATAAATGAAAATGAATAATGG
1 TGCATAATTGGCATGAAATGATGTCATAAATGAAAATAAATAACAG
* * *
36599 TGCATAATTGGCATGACATGATGTCATGAATGGAAATAAATAACAG
1 TGCATAATTGGCATGAAATGATGTCATAAATGAAAATAAATAACAG
36645 TGCATAATTGGCATGAAATGATG
1 TGCATAATTGGCATGAAATGATG
36668 CTGCAAATGA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 61 1.00
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.27
Consensus pattern (46 bp):
TGCATAATTGGCATGAAATGATGTCATAAATGAAAATAAATAACAG
Found at i:36682 original size:46 final size:44
Alignment explanation
Indices: 36553--36682 Score: 152
Period size: 46 Copynumber: 2.8 Consensus size: 44
36543 ACAACAACGA
* * **
36553 TGCATAATTGGCATGAAAGGATGTCATAAATGAAAATGAATAATGG
1 TGCATAATTGGCATGAAATGATGTC--AAATGAAAATAAATAACAG
* *
36599 TGCATAATTGGCATGACATGATGTCATGAATGGAAATAAATAACAG
1 TGCATAATTGGCATGAAATGATGTCA--AATGAAAATAAATAACAG
36645 TGCATAATTGGCATGAAATGATGCTGCAAATGAAAATA
1 TGCATAATTGGCATGAAATGATG-T-CAAATGAAAATA
36683 CATTACTTTC
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
44 1 0.01
46 68 0.94
47 1 0.01
48 2 0.03
ACGTcount: A:0.42, C:0.09, G:0.22, T:0.26
Consensus pattern (44 bp):
TGCATAATTGGCATGAAATGATGTCAAATGAAAATAAATAACAG
Found at i:39113 original size:20 final size:20
Alignment explanation
Indices: 39041--39115 Score: 71
Period size: 20 Copynumber: 3.7 Consensus size: 20
39031 AAAACATCTT
* *
39041 GCCCGAAGGTCTTATGGATG
1 GCCCGAAGGACTTATTGATG
*
39061 GCCCGAAGGACTTA-TGATCAT
1 GCCCGAAGGACTTATTGAT--G
* *
39082 GCTCGAAAGACTTATTGATG
1 GCCCGAAGGACTTATTGATG
*
39102 GCCCGAATGACTTA
1 GCCCGAAGGACTTA
39116 CTAAGTGTGA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
19 3 0.07
20 25 0.57
21 12 0.27
22 4 0.09
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (20 bp):
GCCCGAAGGACTTATTGATG
Found at i:39402 original size:36 final size:36
Alignment explanation
Indices: 39319--39529 Score: 252
Period size: 34 Copynumber: 6.0 Consensus size: 36
39309 TACTGATGGA
* * *
39319 TTTGCTTCAATACTCTTCGGTGAAGGCTTAAGATAG
1 TTTGCTTCACTACTCTTCGGTGAAGGCTTAAAATTG
* *
39355 --TGCTTCACTACTCTTCTGTGAATGCTTAAAATTG
1 TTTGCTTCACTACTCTTCGGTGAAGGCTTAAAATTG
* * *
39389 TTTGCTTTACTACTCTTTGGTGAAGGCTTAAGA-TG
1 TTTGCTTCACTACTCTTCGGTGAAGGCTTAAAATTG
* * *
39424 -GTGCTTCACTACTCTTCTGTGAGGGCTTAAAATTG
1 TTTGCTTCACTACTCTTCGGTGAAGGCTTAAAATTG
* *
39459 TTTGATTCACTACTCTTCGGTGAAGGCTTAAGA-TG
1 TTTGCTTCACTACTCTTCGGTGAAGGCTTAAAATTG
* *
39494 ATTGCTTCGCTACTCTTCGGTGAAGGCTTAAAATTG
1 TTTGCTTCACTACTCTTCGGTGAAGGCTTAAAATTG
39530 ACTTGCCCCA
Statistics
Matches: 145, Mismatches: 25, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
34 55 0.38
35 35 0.24
36 55 0.38
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.38
Consensus pattern (36 bp):
TTTGCTTCACTACTCTTCGGTGAAGGCTTAAAATTG
Found at i:39432 original size:70 final size:70
Alignment explanation
Indices: 39319--39529 Score: 323
Period size: 70 Copynumber: 3.0 Consensus size: 70
39309 TACTGATGGA
* * *
39319 TTTGCTTCAATACTCTTCGGTGAAGGCTTAAGATAGTGCTTCACTACTCTTCTGTGAATGCTTAA
1 TTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGTGCTTCACTACTCTTCTGTGAAGGCTTAA
39384 AATTG
66 AATTG
* * *
39389 TTTGCTTTACTACTCTTTGGTGAAGGCTTAAGATGGTGCTTCACTACTCTTCTGTGAGGGCTTAA
1 TTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGTGCTTCACTACTCTTCTGTGAAGGCTTAA
39454 AATTG
66 AATTG
* * * *
39459 TTTGATTCACTACTCTTCGGTGAAGGCTTAAGATGATTGCTTCGCTACTCTTCGGTGAAGGCTTA
1 TTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATG-GTGCTTCACTACTCTTCTGTGAAGGCTTA
39524 AAATTG
65 AAATTG
39530 ACTTGCCCCA
Statistics
Matches: 127, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
70 96 0.76
71 31 0.24
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.38
Consensus pattern (70 bp):
TTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGTGCTTCACTACTCTTCTGTGAAGGCTTAA
AATTG
Found at i:41062 original size:114 final size:117
Alignment explanation
Indices: 40846--41201 Score: 459
Period size: 125 Copynumber: 3.0 Consensus size: 117
40836 CATTATCTTA
* * * * * *
40846 TACTGGTACGGGGCCCTCAAAATACCCCAACACCTCAAATTGTAAGGCTCATTCTTAATACCTTC
1 TACTGGTAC-AGGCCATCAAAATGCCCCATCACCTCAAATTGTAAGGCTCATTCTTCATGCCTTC
* *
40911 TTGGTCTGAATCTTATCATCTCAACATGATGTGGGTTCAATCGTGCCCCAA-C
65 TTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAGTCGTGCCCCAATC
* * *
40963 -A-TGGTAC-GAGCCTTCAAAATGCCCCATCACCTCAAATTATAAGGCTCATTCTTCATGCCTCC
1 TACTGGTACAG-GCCATCAAAATGCCCCATCACCTCAAATTGTAAGGCTCATTCTTCATGCCTTC
*
41025 TTGGTCTGAATCTCGTCATCTCAACATGATGTGGGTTCAGTCGTGCCCCAACATTATC
65 TTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAGTCGTG-CCC--CA--ATC
* *
41083 TTATACTGGTACAGGCCATCAAAATGCCCCATCACCTCAAATTGTAAGGCTCATTCTTCAGGCTT
1 ---TACTGGTACAGGCCATCAAAATGCCCCATCACCTCAAATTGTAAGGCTCATTCTTCATGCCT
*
41148 TCTTGGTTTGAATCTTGTCATCTCAACATGATGTGGGTTCAGTCGTGCCCCAAT
63 TCTTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAGTCGTGCCCCAAT
41202 ATATCCTAAC
Statistics
Matches: 209, Mismatches: 17, Indels: 23
0.84 0.07 0.09
Matches are distributed among these distances:
113 1 0.00
114 88 0.42
115 9 0.04
116 1 0.00
117 2 0.01
119 1 0.00
120 3 0.01
122 2 0.01
124 4 0.02
125 97 0.46
126 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.31
Consensus pattern (117 bp):
TACTGGTACAGGCCATCAAAATGCCCCATCACCTCAAATTGTAAGGCTCATTCTTCATGCCTTCT
TGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAGTCGTGCCCCAATC
Found at i:47668 original size:16 final size:16
Alignment explanation
Indices: 47647--47677 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47637 ACCACCCCTC
47647 TTCTATTATTATTTTT
1 TTCTATTATTATTTTT
*
47663 TTCTATTTTTATTTT
1 TTCTATTATTATTTT
47678 AGAAATCCCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.77
Consensus pattern (16 bp):
TTCTATTATTATTTTT
Found at i:48837 original size:22 final size:22
Alignment explanation
Indices: 48807--48849 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
48797 TCATTGAGCA
* *
48807 CGATTGTCTCCAAATTAATTCC
1 CGATCGTCTCCAAATGAATTCC
*
48829 CGATCGTCTTCAAATGAATTC
1 CGATCGTCTCCAAATGAATTC
48850 AAATGGTCCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.35
Consensus pattern (22 bp):
CGATCGTCTCCAAATGAATTCC
Found at i:53502 original size:19 final size:19
Alignment explanation
Indices: 53478--53520 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
53468 TTCATTGCGA
*
53478 AAATTTGAAA-TTTAAATTG
1 AAATTT-AAAGTTTAAATTC
*
53497 AAATTTAAAGTTTCAATTC
1 AAATTTAAAGTTTAAATTC
53516 AAATT
1 AAATT
53521 ATTCATCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.42
Consensus pattern (19 bp):
AAATTTAAAGTTTAAATTC
Found at i:54949 original size:34 final size:33
Alignment explanation
Indices: 54898--55091 Score: 149
Period size: 34 Copynumber: 5.5 Consensus size: 33
54888 ATTTTTAAAA
54898 AAAACTATATAATATATATTTTTTAAAAATATTTTC
1 AAAACTATAT-A-ATATA-TTTTTAAAAATATTTTC
* * * * *
54934 AAAACCATGTAATATATTTTCAAAAATTGTTTTT
1 AAAACTATATAATATATTTTTAAAAA-TATTTTC
* *
54968 AAAACTATATAATATA-TATAAAAAATATTTTC
1 AAAACTATATAATATATTTTTAAAAATATTTTC
55000 AAAACTATATAATATATATTTTTTTCAAAAATATTTT-
1 AAAACTATAT-A-ATATA--TTTTT-AAAAATATTTTC
* * *
55037 AAAACTATATATTATATATAGTTTTTTAAAATGTTTTT
1 AAAAC--TATA-TA-ATATA-TTTTTAAAAATATTTTC
*
55075 AAAACTATATATTATAT
1 AAAACTATATAATATAT
55092 ATGTTTTCAA
Statistics
Matches: 130, Mismatches: 17, Indels: 25
0.76 0.10 0.15
Matches are distributed among these distances:
32 15 0.12
33 18 0.14
34 33 0.25
35 3 0.02
36 12 0.09
37 16 0.12
38 21 0.16
39 11 0.08
40 1 0.01
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (33 bp):
AAAACTATATAATATATTTTTAAAAATATTTTC
Found at i:55017 original size:39 final size:38
Alignment explanation
Indices: 54973--55054 Score: 103
Period size: 37 Copynumber: 2.2 Consensus size: 38
54963 TTTTTAAAAC
54973 TATATAATATATATAAAAAATATTTTCAAAACTATATAA
1 TATATAATATATATAAAAAATATTTT-AAAACTATATAA
* * * * *
55012 TATAT-ATTTTTTTCAAAAATATTTTAAAACTATATAT
1 TATATAATATATATAAAAAATATTTTAAAACTATATAA
55049 TATATA
1 TATATA
55055 TAGTTTTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
37 16 0.43
38 16 0.43
39 5 0.14
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (38 bp):
TATATAATATATATAAAAAATATTTTAAAACTATATAA
Found at i:55036 original size:38 final size:36
Alignment explanation
Indices: 54898--55098 Score: 195
Period size: 32 Copynumber: 5.7 Consensus size: 36
54888 ATTTTTAAAA
54898 AAAACTATATAATATATATTTTTTAAAAATATTTTC
1 AAAACTATATAATATATATTTTTTAAAAATATTTTC
* * * * *
54934 AAAACCATGT-A-ATATA-TTTTCAAAAATTGTTTTT
1 AAAACTATATAATATATATTTTTTAAAAA-TATTTTC
*
54968 AAAACTATATAATATATA----TAAAAAATATTTTC
1 AAAACTATATAATATATATTTTTTAAAAATATTTTC
55000 AAAACTATATAATATATATTTTTTTCAAAAATATTTT-
1 AAAACTATATAATATATA-TTTTTT-AAAAATATTTTC
* *
55037 AAAACTATATATTATATATAGTTTTTT-AAAATGTTTTT
1 AAAACTATATA--ATATATA-TTTTTTAAAAATATTTTC
* *
55075 AAAACTATATATTATATATGTTTT
1 AAAACTATATAATATATATTTTTT
55099 CAATATTATA
Statistics
Matches: 138, Mismatches: 15, Indels: 25
0.78 0.08 0.14
Matches are distributed among these distances:
32 23 0.17
33 15 0.11
34 18 0.13
35 7 0.05
36 19 0.14
37 21 0.15
38 22 0.16
39 13 0.09
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.47
Consensus pattern (36 bp):
AAAACTATATAATATATATTTTTTAAAAATATTTTC
Found at i:55047 original size:32 final size:34
Alignment explanation
Indices: 54898--55101 Score: 137
Period size: 38 Copynumber: 5.7 Consensus size: 34
54888 ATTTTTAAAA
*
54898 AAAACTATATAATATATATTTTTTAAAAATATTTTC
1 AAAACTATAT-ATATAT-TTTTTCAAAAATATTTTC
* * * * *
54934 AAAACCATGTA-ATATATTTTCAAAAATTGTTTTT
1 AAAACTATATATATATTTTTTCAAAAA-TATTTTC
* * *
54968 AAAACTATATA-ATA-TATATAAAAAATATTTTC
1 AAAACTATATATATATTTTTTCAAAAATATTTTC
55000 AAAACTATATAATATATATTTTTTTCAAAAATATTTT-
1 AAAAC--TAT-ATATATA-TTTTTTCAAAAATATTTTC
** * *
55037 AAAACTATATATTATATATAGTTTTTTAAAATGTTTTT
1 AAAACTATATA-TATAT-T--TTTTCAAAAATATTTTC
55075 AAAACTATATATTATATATGTTTTCAA
1 AAAACTATATA-TATAT-T-TTTTCAA
55102 TATTATATAA
Statistics
Matches: 134, Mismatches: 22, Indels: 23
0.75 0.12 0.13
Matches are distributed among these distances:
32 10 0.07
33 16 0.12
34 28 0.21
35 12 0.09
36 11 0.08
37 24 0.18
38 33 0.25
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (34 bp):
AAAACTATATATATATTTTTTCAAAAATATTTTC
Found at i:55106 original size:56 final size:56
Alignment explanation
Indices: 55045--55157 Score: 201
Period size: 56 Copynumber: 2.0 Consensus size: 56
55035 TTAAAACTAT
*
55045 ATATTATATATAGTTTTTTAAAATGTTTTT-AAAACTATATATTATATATGTTTTCA
1 ATATTATATA-AGTTTTTTAAAATGTTTTTAAAAACTATATATTATATAAGTTTTCA
55101 ATATTATATAAGTTTTTTAAAATGTTTTTAAAAACTATATATTATATAAGTTTTCA
1 ATATTATATAAGTTTTTTAAAATGTTTTTAAAAACTATATATTATATAAGTTTTCA
55157 A
1 A
55158 AATGTTTTCA
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
55 19 0.35
56 36 0.65
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.51
Consensus pattern (56 bp):
ATATTATATAAGTTTTTTAAAATGTTTTTAAAAACTATATATTATATAAGTTTTCA
Found at i:55171 original size:37 final size:38
Alignment explanation
Indices: 55101--55184 Score: 143
Period size: 37 Copynumber: 2.2 Consensus size: 38
55091 TATGTTTTCA
* *
55101 ATATTATATAAGTTTTTTAAAATGTTTTTAAAAACTAT
1 ATATTATATAAGTTTTTCAAAATGTTTTCAAAAACTAT
55139 ATATTATATAAG-TTTTCAAAATGTTTTCAAAAACTAT
1 ATATTATATAAGTTTTTCAAAATGTTTTCAAAAACTAT
55176 ATATTATAT
1 ATATTATAT
55185 TTCAAAAACT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
37 32 0.73
38 12 0.27
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (38 bp):
ATATTATATAAGTTTTTCAAAATGTTTTCAAAAACTAT
Found at i:56237 original size:167 final size:167
Alignment explanation
Indices: 55860--56349 Score: 635
Period size: 167 Copynumber: 2.9 Consensus size: 167
55850 ATATGTCATC
* *
55860 GAGCTGAATGGAAT-GAACTCGATAGTTTTTTGTTGAAAGATAGCCCTTCTCGCCTTGAGCTATG
1 GAGCTGAATGGAATCGAACTCGA-AGATTTTTGTTGATAGATAGCCCTTCTCGCCTTGAGCTATG
* * ** *
55924 CTATAAATTTGATATGCCTTTGAGCAGAATGGAATCAAACTCGAAGGTTTTTGTTGGCAGATATC
65 CTATAAATTTG-GATGCC-TTGAGCTGAATGGAATCAAACTCGAA-GTTTTTGTTGATAGATAAC
* * *
55989 CCTTCTCGCCTTTGAGCTATGCTTTAAATTTGATATGCCCTT
127 CCTTCTCGCC-TTGAGCTATGCTGTAAATTTGAGATGCACTT
* *
56031 GAGCTGAATGGAATCGAACTCGGAGGTTTTTGTTGATAGATAGCCCTTCTCGCCTTGAGCTATGC
1 GAGCTGAATGGAATCGAACTCGAAGATTTTTGTTGATAGATAGCCCTTCTCGCCTTGAGCTATGC
* * *
56096 TGTAAATTTGGATGCACTTGAGCTGAATGGAAT-AAACTCTAAGATTTTTGTTGATAGATAGCCC
66 TATAAATTTGGATGC-CTTGAGCTGAATGGAATCAAACTCGAAG-TTTTTGTTGATAGATAACCC
* *
56160 TTCTCGCCTTGAGTTATGCTGTAAATTTG-GCTGCACTT
129 TTCTCGCCTTGAGCTATGCTGTAAATTTGAGATGCACTT
* * * **
56198 GAGCTTAATGGAATCGAACTCGAAGATTTTTGTTGATAGATAACCCTTCTCGCCTTGAACTATAA
1 GAGCTGAATGGAATCGAACTCGAAGATTTTTGTTGATAGATAGCCCTTCTCGCCTTGAGCTATGC
* * * * *
56263 TCTAAATTTGGCTGCCCTTGAGCTGAATGGAATCGAACTCGAAGGTTTTGTTGATAGATAATCCT
66 TATAAATTTGGATG-CCTTGAGCTGAATGGAATCAAACTCGAAGTTTTTGTTGATAGATAACCCT
*
56328 TCTCGCCTTGAGCTATACTGTA
130 TCTCGCCTTGAGCTATGCTGTA
56350 TAGGTTGGGA
Statistics
Matches: 283, Mismatches: 31, Indels: 14
0.86 0.09 0.04
Matches are distributed among these distances:
167 131 0.46
168 29 0.10
169 33 0.12
170 19 0.07
171 64 0.23
172 7 0.02
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (167 bp):
GAGCTGAATGGAATCGAACTCGAAGATTTTTGTTGATAGATAGCCCTTCTCGCCTTGAGCTATGC
TATAAATTTGGATGCCTTGAGCTGAATGGAATCAAACTCGAAGTTTTTGTTGATAGATAACCCTT
CTCGCCTTGAGCTATGCTGTAAATTTGAGATGCACTT
Found at i:56255 original size:84 final size:84
Alignment explanation
Indices: 55860--56349 Score: 628
Period size: 83 Copynumber: 5.8 Consensus size: 84
55850 ATATGTCATC
* *
55860 GAGCTGAATGGAAT-GAACTCGATAGTTTTTTGTTGAAAGATAGCCCTTCTCGCCTTGAGCTATG
1 GAGCTGAATGGAATCGAACTCGA-AGATTTTTGTTGATAGATAGCCCTTCTCGCCTTGAGCTATG
* *
55924 CTATAAATTTGATATGC-CTTT
65 CTGTAAATTTG-GATGCAC-TT
* * * ** *
55945 GAGCAGAATGGAATCAAACTCGAAGGTTTTTGTTGGCAGATATCCCTTCTCGCCTTTGAGCTATG
1 GAGCTGAATGGAATCGAACTCGAAGATTTTTGTTGATAGATAGCCCTTCTCGCC-TTGAGCTATG
* * *
56010 CTTTAAATTTGATATGCCCTT
65 CTGTAAATTTG-GATGCACTT
* *
56031 GAGCTGAATGGAATCGAACTCGGAGGTTTTTGTTGATAGATAGCCCTTCTCGCCTTGAGCTATGC
1 GAGCTGAATGGAATCGAACTCGAAGATTTTTGTTGATAGATAGCCCTTCTCGCCTTGAGCTATGC
56096 TGTAAATTTGGATGCACTT
66 TGTAAATTTGGATGCACTT
* * *
56115 GAGCTGAATGGAAT-AAACTCTAAGATTTTTGTTGATAGATAGCCCTTCTCGCCTTGAGTTATGC
1 GAGCTGAATGGAATCGAACTCGAAGATTTTTGTTGATAGATAGCCCTTCTCGCCTTGAGCTATGC
*
56179 TGTAAATTTGGCTGCACTT
66 TGTAAATTTGGATGCACTT
* * * **
56198 GAGCTTAATGGAATCGAACTCGAAGATTTTTGTTGATAGATAACCCTTCTCGCCTTGAACTATAA
1 GAGCTGAATGGAATCGAACTCGAAGATTTTTGTTGATAGATAGCCCTTCTCGCCTTGAGCTATGC
* * *
56263 TCTAAATTTGGCTGCCCTT
66 TGTAAATTTGGATGCACTT
* ** *
56282 GAGCTGAATGGAATCGAACTCGAAG-GTTTTGTTGATAGATAATCCTTCTCGCCTTGAGCTATAC
1 GAGCTGAATGGAATCGAACTCGAAGATTTTTGTTGATAGATAGCCCTTCTCGCCTTGAGCTATGC
56346 TGTA
66 TGTA
56350 TAGGTTGGGA
Statistics
Matches: 363, Mismatches: 38, Indels: 10
0.88 0.09 0.02
Matches are distributed among these distances:
83 114 0.31
84 105 0.29
85 60 0.17
86 83 0.23
87 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (84 bp):
GAGCTGAATGGAATCGAACTCGAAGATTTTTGTTGATAGATAGCCCTTCTCGCCTTGAGCTATGC
TGTAAATTTGGATGCACTT
Done.