Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005800.1 Hibiscus syriacus cultivar Beakdansim tig00013602_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: 109173
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Found at i:928 original size:21 final size:21
Alignment explanation
Indices: 904--943 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
894 TTTTCAAAGG
904 CATGCACCAATGCATCAATAC
1 CATGCACCAATGCATCAATAC
* *
925 CATGCATCGATGCATCAAT
1 CATGCACCAATGCATCAAT
944 GAATAAATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.30, G:0.12, T:0.23
Consensus pattern (21 bp):
CATGCACCAATGCATCAATAC
Found at i:993 original size:19 final size:19
Alignment explanation
Indices: 969--1007 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
959 TCGAATGCAT
*
969 TTCATGTACCGATGCACTC
1 TTCATGCACCGATGCACTC
*
988 TTCATGCATCGATGCACTC
1 TTCATGCACCGATGCACTC
1007 T
1 T
1008 GATTTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.31, G:0.15, T:0.33
Consensus pattern (19 bp):
TTCATGCACCGATGCACTC
Found at i:1031 original size:64 final size:64
Alignment explanation
Indices: 925--1049 Score: 171
Period size: 64 Copynumber: 1.9 Consensus size: 64
915 GCATCAATAC
* *
925 CATGCATCGATGCATCAATGAATAAATTGAAACATCGAATGCATTTCATGTACCGATGCACTCTT
1 CATGCATCGATGCATC-ATGAATAAATTAAAACATCGAATGCATTTCATGCACCGATGCACTCTT
* * * *
990 CATGCATCGATGCACTC-TGATTTAATTAAAACATCGAATGCATTTGATGCATCGATGCAC
1 CATGCATCGATGCA-TCATGAATAAATTAAAACATCGAATGCATTTCATGCACCGATGCAC
1050 CAGGCTATTT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
64 37 0.70
65 14 0.26
66 2 0.04
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.30
Consensus pattern (64 bp):
CATGCATCGATGCATCATGAATAAATTAAAACATCGAATGCATTTCATGCACCGATGCACTCTT
Found at i:1046 original size:45 final size:44
Alignment explanation
Indices: 987--1097 Score: 136
Period size: 45 Copynumber: 2.5 Consensus size: 44
977 CCGATGCACT
987 CTTCATGCATCGATGCACTCTG-ATTTAATTAAAACATCGAATGCA
1 CTTCATGCATCGATGCACTCTGCATTT--TTAAAACATCGAATGCA
* * * *
1032 TTTGATGCATCGATGCAC-CAGGCTATTTTTCAAACATCGAATGCA
1 CTTCATGCATCGATGCACTC-TGC-ATTTTTAAAACATCGAATGCA
1077 CTTCATGCATCGATGCACTCT
1 CTTCATGCATCGATGCACTCT
1098 TAGTGCACCG
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
44 1 0.02
45 49 0.89
46 1 0.02
47 4 0.07
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (44 bp):
CTTCATGCATCGATGCACTCTGCATTTTTAAAACATCGAATGCA
Found at i:1094 original size:17 final size:19
Alignment explanation
Indices: 1066--1114 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
1056 ATTTTTCAAA
1066 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
1084 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
1103 CACCGATGCACT
1 CATCGATGCACT
1115 AGGAGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Found at i:2506 original size:21 final size:22
Alignment explanation
Indices: 2463--2509 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
2453 TAAAAAAAAG
*
2463 TTATACATAATGTATCGATACT
1 TTATACATAATGTATCGACACT
* *
2485 TTATACAT-TTGTGTCGACACT
1 TTATACATAATGTATCGACACT
2506 TTAT
1 TTAT
2510 GTCCATACTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.45
Consensus pattern (22 bp):
TTATACATAATGTATCGACACT
Found at i:2584 original size:198 final size:197
Alignment explanation
Indices: 1808--2707 Score: 952
Period size: 198 Copynumber: 4.5 Consensus size: 197
1798 TTAACTCAAC
* * * * * *
1808 ATAATGTAATAGGTAAAATAACAATGTAACCAGTCTAAATATACCGGTTTATGAGAAAAGAGGTA
1 ATAATGTAATAGGTAACATAACAATGTAACCGGTTTAAATATACCGG-TTATTAAAAAAAAGGTA
* * * **
1873 TACATAAAGTGTCGACACTTTATACATTTGTGTCGATACTTTGTGTCCATAATGTATTTTCCAAC
65 TA-ATAATGTATCGACACTTTATACATTTGTGTCGATACTTTATGTCCATAATAAATTTT----C
* * *
1938 CAAAACAAGTTCAC-AAATAAGTGTTGACACATTTATATCAAGTGTCGATCCCAAAAACATCGAA
125 C-AAACAAGTTCACGAAA-AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAA
* * *
2002 ACTCGTAACT
188 ACACATAATT
* * * * *
2012 ATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTT-TTATGAGAAAATAGG
1 ATAATGTAATAGGTAACATAACAATGTAACCGGTTTAAATATACCGGTTATTA--A-AAAAAAGG
* * * **
2076 TCTATAAT-ATGTATCGACACTTTATTCATTTGTGTCGATACATGT-TGTCCAGAATGTA-TTTC
63 --TATAATAATGTATCGACACTTTATACATTTGTGTCGATAC-TTTATGTCCATAATAAATTTTC
*
2138 CAAACCAAGTGCACGAAAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAA
125 CAAA-CAAGTTCACG-AAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAA
2203 ACACATAATT
188 ACACATAATT
* *
2213 ATAATGTAATAGGTAACAT---AATATAACCGGTCT-AATATA-CGGTTATTAAAAAAGAAAGGT
1 ATAATGTAATAGGTAACATAACAATGTAACCGGTTTAAATATACCGGTTATT-AAAAA-AAAGGT
*
2273 ATAATAATGTATCGATACTTTATACATTTGTGTCG--AC---ATGTCCATAATAAATTTTCCAAA
64 ATAATAATGTATCGACACTTTATACATTTGTGTCGATACTTTATGTCCATAATAAATTTTCCAAA
* *
2333 CAAGTTCACGAAAATGTGTCGATACATTTATAACCAGTGTCGATCCCAAAAACATCGAAACACAT
129 CAAGTTCACGAAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACACAT
2398 AATT
194 AATT
* *
2402 ATAATGTAATAGGTAACATAACAATGTAACCGGTTTAAACATACCGGTTATTAAAAAAAAGTTAT
1 ATAATGTAATAGGTAACATAACAATGTAACCGGTTTAAATATACCGGTTATTAAAAAAAAGGTAT
* * *
2467 ACATAATGTATCGATACTTTATACATTTGTGTCGACACTTTATGTCCATACTAAATTTTCCAAAC
66 A-ATAATGTATCGACACTTTATACATTTGTGTCGATACTTTATGTCCATAATAAATTTTCCAAAC
* * * * * *
2532 AAGTTCATGAAAAAGTGTCGATACATTTATAAAAAGTGTCTATCCTAAAAACATCGAAACCCGTA
130 AAGTTCACGAAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACACATA
*
2597 ATG
195 ATT
* * * * * * * *
2600 ATAATGTCATAGGTCACTTTACAATGTAACCGGTTGAAATATACTGGTT-TTATGAGATAATAGG
1 ATAATGTAATAGGTAACATAACAATGTAACCGGTTTAAATATACCGGTTATTA--A-AAAAAAGG
* * **
2664 TCTACA-ATATGTATTGACACTTTATTTATTTGTGTCGATACTTT
63 TATA-ATA-ATGTATCGACACTTTATACATTTGTGTCGATACTTT
2708 TTAAAATTAC
Statistics
Matches: 600, Mismatches: 66, Indels: 64
0.82 0.09 0.09
Matches are distributed among these distances:
189 76 0.13
190 19 0.03
191 8 0.01
192 20 0.03
193 44 0.07
194 14 0.02
195 32 0.05
196 10 0.02
197 10 0.02
198 137 0.23
199 5 0.01
200 51 0.09
201 67 0.11
202 5 0.01
203 2 0.00
204 43 0.07
205 49 0.08
206 4 0.01
207 4 0.01
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (197 bp):
ATAATGTAATAGGTAACATAACAATGTAACCGGTTTAAATATACCGGTTATTAAAAAAAAGGTAT
AATAATGTATCGACACTTTATACATTTGTGTCGATACTTTATGTCCATAATAAATTTTCCAAACA
AGTTCACGAAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACACATAA
TT
Found at i:2632 original size:390 final size:395
Alignment explanation
Indices: 1808--2701 Score: 969
Period size: 390 Copynumber: 2.2 Consensus size: 395
1798 TTAACTCAAC
* * *
1808 ATAATGTAATAGGTAAAATAACAATGTAACCAGTCTAAATATACCGGTTTATGAGAAAAGAGGTA
1 ATAATGTAATAGGT--AA-CACAATGTAACCGGTCTAAATATACCGGTTTATGAAAAAAGAGGTA
* * **
1873 TACATAAAGTGTCGACACTTTATACATTTGTGTCGATACTTTGTGTCCATAATGTATTTTCCAAC
63 TACATAAAGTATCGACACTTTATACATTTGTGTCGA-AC--TATGTCCATAATAAATTTT---AC
* *
1938 CAAAACAAGTTCACAAATAAGTGTTGACACATTTATATCAAGTGTCGATCCCAAAAACATCGAAA
122 CAAAACAAGTTCACAAATAAGTGTCGACACATTTATAACAAGTGTCGATCCCAAAAACATCGAAA
* * * * * **
2003 CTCGTAACTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAG
187 CACATAACTATAATGTAATAGGTAACATAACAATGTAACCGGTTTAAACATACCGGTTTTA-GAG
* * * **
2068 AAAATAGGTCTATAATATGTATCGACACTTTATTCATTTGTGTCGATACATGTTGTCCAGAATGT
251 AAAATAAGTCTATAATATGTATCGACACTTTATACATTTGTGTCGACACATGTTGTCCAGAATAA
*
2133 ATTTCCAAACCAAGTGCACGAAAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACA
316 ATTTCCAAACCAAGTGCACGAAAAAAGTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACA
*
2198 TCGAAACACATAATT
381 TCGAAACACATAATG
* * *
2213 ATAATGTAATAGGTAACATAATATAACCGGTCT-AATATA-CGG-TTATTAAAAAAGAAAGGTAT
1 ATAATGTAATAGGTAACACAATGTAACCGGTCTAAATATACCGGTTTATGAAAAAAG--AGGTAT
* *
2275 A-ATAATGTATCGATACTTTATACATTTGTGTCG-AC-ATGTCCATAATAAATTTT-CC-AAACA
64 ACATAAAGTATCGACACTTTATACATTTGTGTCGAACTATGTCCATAATAAATTTTACCAAAACA
* * *
2335 AGTTCACGAAA-ATGTGTCGATACATTTATAACCAGTGTCGATCCCAAAAACATCGAAACACATA
129 AGTTCAC-AAATAAGTGTCGACACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACACATA
*
2399 ATTATAATGTAATAGGTAACATAACAATGTAACCGGTTTAAACATACCGGTTATTA-A-AAAA-A
193 ACTATAATGTAATAGGTAACATAACAATGTAACCGGTTTAAACATACCGGTT-TTAGAGAAAATA
* * * *
2461 AGT-TATACATAATGTATCGATACTTTATACATTTGTGTCGACAC-TTTATGTCCATACTAAATT
257 AGTCTATA-AT-ATGTATCGACACTTTATACATTTGTGTCGACACATGT-TGTCCAGAATAAA-T
* * * *
2524 TTCCAAA-CAAGTTCATG-AAAAAGTGTCGATACATTTATAAAAAGTGTCTATCCTAAAAACATC
318 TTCCAAACCAAGTGCACGAAAAAAGTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATC
* *
2587 GAAACCCGTAATG
383 GAAACACATAATG
* * * * * *
2600 ATAATGTCATAGGTCACTTTACAATGTAACCGGT-TGAAATATACTGGTTTTATGAGATAATAGG
1 ATAATGTAATAGGTAAC---ACAATGTAACCGGTCT-AAATATACCGG-TTTATGAAAAAAGAGG
* * * **
2664 TCTACA-ATATGTATTGACACTTTATTTATTTGTGTCGA
61 TATACATA-AAGTATCGACACTTTATACATTTGTGTCGA
2702 TACTTTTTAA
Statistics
Matches: 414, Mismatches: 56, Indels: 49
0.80 0.11 0.09
Matches are distributed among these distances:
386 4 0.01
387 75 0.18
388 51 0.12
389 10 0.02
390 116 0.28
391 14 0.03
392 9 0.02
393 26 0.06
394 8 0.02
395 15 0.04
398 2 0.00
399 10 0.02
400 32 0.08
401 13 0.03
402 13 0.03
403 2 0.00
405 14 0.03
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (395 bp):
ATAATGTAATAGGTAACACAATGTAACCGGTCTAAATATACCGGTTTATGAAAAAAGAGGTATAC
ATAAAGTATCGACACTTTATACATTTGTGTCGAACTATGTCCATAATAAATTTTACCAAAACAAG
TTCACAAATAAGTGTCGACACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACACATAACT
ATAATGTAATAGGTAACATAACAATGTAACCGGTTTAAACATACCGGTTTTAGAGAAAATAAGTC
TATAATATGTATCGACACTTTATACATTTGTGTCGACACATGTTGTCCAGAATAAATTTCCAAAC
CAAGTGCACGAAAAAAGTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACACA
TAATG
Found at i:5912 original size:106 final size:105
Alignment explanation
Indices: 5723--5917 Score: 255
Period size: 106 Copynumber: 1.8 Consensus size: 105
5713 TTAATGACAA
* * * *
5723 ATAATTATAATGTAATAGTAAATTGACAATGTAACCAGTACACATATACCGTTTAATTATAAAAC
1 ATAATTATAATGTAATAGTAAATTGACAATGTAACCAGTACAAATATACCGGTTAATGAGAAAAC
*
5788 AGGTTAACATAAAATATCGACACTATTAGATTTTGTGTCG
66 AGGTCAACATAAAATATCGACACTATTAGATTTTGTGTCG
** * * * *
5828 ATAATTATAATGTAATAGGTAAATTTCCAATGTAACCGGTAGAAATATACCGGTTCATGAGAGAA
1 ATAATTATAATGTAATA-GTAAATTGACAATGTAACCAGTACAAATATACCGGTTAATGAGAAAA
* * *
5893 TATGTCAACATAAAGTATCGACACT
65 CAGGTCAACATAAAATATCGACACT
5918 TTGTTTAATT
Statistics
Matches: 75, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
105 17 0.23
106 58 0.77
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (105 bp):
ATAATTATAATGTAATAGTAAATTGACAATGTAACCAGTACAAATATACCGGTTAATGAGAAAAC
AGGTCAACATAAAATATCGACACTATTAGATTTTGTGTCG
Found at i:6397 original size:87 final size:87
Alignment explanation
Indices: 6294--6456 Score: 254
Period size: 87 Copynumber: 1.9 Consensus size: 87
6284 AAATAGATCA
* *
6294 ATATAAGTGCTACCTATTACATTATATAAACGCTACCTAATTTATTATTGTACTTAATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATATTATTGTACTTAATAATATTT
6359 TCGGTTAAATGTCTATTTTATT
66 TCGGTTAAATGTCTATTTTATT
* * * * * *
6381 ATATAAGCGTTACCTATTACATTATATAAGCGCTACCTAATATGTTGTTGTGCTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATATTATTGTACTTAATAATATTT
6446 TCGGTTAAATG
66 TCGGTTAAATG
6457 ATATAACATA
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 68 1.00
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.44
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATATTATTGTACTTAATAATATTT
TCGGTTAAATGTCTATTTTATT
Found at i:14625 original size:115 final size:116
Alignment explanation
Indices: 14422--14636 Score: 396
Period size: 115 Copynumber: 1.9 Consensus size: 116
14412 TTATAATTAA
* *
14422 ATTTTTTATGAGACAAAAAACTCTAGTTATTAATTTTATTTTAATATTTAATTATAACTTGATGC
1 ATTTTTTATGAGACAAAAAACTATAGTTATTAATTTTATTTTAATATTTAATCATAACTTGATGC
*
14487 ATAGATATAGTGAAATGATAATATTTAAAAATTCAACTATTATTGTTAACT
66 ATAGATACAGTGAAATGATAATATTTAAAAATTCAACTATTATTGTTAACT
14538 ATTTTTTATGAGACAAAAAA-TATAGTTATTAATTTTATTTTAATATTTAATCATAACTTGATGC
1 ATTTTTTATGAGACAAAAAACTATAGTTATTAATTTTATTTTAATATTTAATCATAACTTGATGC
14602 ATAGATACAGTGAAATGATAATATTTAAAAATTCA
66 ATAGATACAGTGAAATGATAATATTTAAAAATTCA
14637 TGATAAATTA
Statistics
Matches: 96, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
115 76 0.79
116 20 0.21
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.43
Consensus pattern (116 bp):
ATTTTTTATGAGACAAAAAACTATAGTTATTAATTTTATTTTAATATTTAATCATAACTTGATGC
ATAGATACAGTGAAATGATAATATTTAAAAATTCAACTATTATTGTTAACT
Found at i:19348 original size:66 final size:66
Alignment explanation
Indices: 19242--19371 Score: 181
Period size: 66 Copynumber: 2.0 Consensus size: 66
19232 TAGGTCCATA
* **
19242 AGGAATTACCAGTCAGTGCTGAACCTATAAAAGGAATTACCAACAACAACTGAACCTGCCAGAGA
1 AGGAATTACCAGTCAGTACAAAACCTATAAAAGGAATTACCAACAACAACTGAACCTGCCAGAGA
19307 T
66 T
* ** *
19308 AGGAATTACCAGTCGGTACAAAACCTATACAAA-GAATTACCCGCAACGACTGAACCTGCCAGAG
1 AGGAATTACCAGTCAGTACAAAACCTATA-AAAGGAATTACCAACAACAACTGAACCTGCCAGAG
19372 TCTTCATACC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
66 53 0.95
67 3 0.05
ACGTcount: A:0.40, C:0.25, G:0.18, T:0.17
Consensus pattern (66 bp):
AGGAATTACCAGTCAGTACAAAACCTATAAAAGGAATTACCAACAACAACTGAACCTGCCAGAGA
T
Found at i:44103 original size:23 final size:23
Alignment explanation
Indices: 44024--44103 Score: 70
Period size: 23 Copynumber: 3.4 Consensus size: 23
44014 CGAAAACTAC
* *
44024 CAAAAGGCAGAGAAAAACGTGCCA
1 CAAAA-GCAAAGATAAACGTGCCA
* * * *
44048 CAAAGGTAAAAATAAACGTTCCA
1 CAAAAGCAAAGATAAACGTGCCA
* * *
44071 TAAAGGCAAAGATAAACATGCCA
1 CAAAAGCAAAGATAAACGTGCCA
44094 CAAAAGCAAA
1 CAAAAGCAAA
44104 AATATTCTTA
Statistics
Matches: 43, Mismatches: 13, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
23 39 0.91
24 4 0.09
ACGTcount: A:0.54, C:0.19, G:0.17, T:0.10
Consensus pattern (23 bp):
CAAAAGCAAAGATAAACGTGCCA
Found at i:46856 original size:14 final size:14
Alignment explanation
Indices: 46825--46874 Score: 54
Period size: 12 Copynumber: 3.9 Consensus size: 14
46815 AGTGAAAAGC
*
46825 GAAGAGAAAGAC--
1 GAAGAGAAATACGT
46837 GAAGAGAAATACGT
1 GAAGAGAAATACGT
*
46851 GAAGAGAAACACGT
1 GAAGAGAAATACGT
46865 G-AGA-AAATAC
1 GAAGAGAAATAC
46875 AAAATAACAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
12 16 0.48
13 3 0.09
14 14 0.42
ACGTcount: A:0.54, C:0.10, G:0.28, T:0.08
Consensus pattern (14 bp):
GAAGAGAAATACGT
Found at i:76714 original size:10 final size:10
Alignment explanation
Indices: 76683--76719 Score: 51
Period size: 9 Copynumber: 3.8 Consensus size: 10
76673 ATCGTCTGTG
76683 TTTATCTTC-
1 TTTATCTTCA
76692 TTTATCTTTCA
1 TTTATC-TTCA
76703 TTTATCTTCA
1 TTTATCTTCA
76713 TTT-TCTT
1 TTTATCTT
76720 AATATTAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 10 0.38
10 10 0.38
11 6 0.23
ACGTcount: A:0.14, C:0.19, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTATCTTCA
Found at i:79426 original size:3 final size:3
Alignment explanation
Indices: 79412--79441 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
79402 TACAAAAATA
79412 AAT AATT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AA
79442 CCCTGAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:80461 original size:38 final size:38
Alignment explanation
Indices: 80370--80464 Score: 99
Period size: 38 Copynumber: 2.5 Consensus size: 38
80360 AAACAAAGTT
*
80370 GATTTCTAGAGAAAC-AGCCTTATGAAAGATAATGCTGA
1 GATTTCTAGAGAAACGAGCCTTAAGAAAGATAAT-CTGA
*
80408 GATTTCTAG-GAAAACGA-TCTTAAGAAAGATTAAAT-TGA
1 GATTTCTAGAG-AAACGAGCCTTAAGAAAGA-T-AATCTGA
*
80446 GGTTTCTAGAGAAACGAGC
1 GATTTCTAGAGAAACGAGC
80465 ATGAGAATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
37 1 0.02
38 40 0.85
39 3 0.06
40 3 0.06
ACGTcount: A:0.40, C:0.12, G:0.22, T:0.26
Consensus pattern (38 bp):
GATTTCTAGAGAAACGAGCCTTAAGAAAGATAATCTGA
Found at i:80699 original size:38 final size:38
Alignment explanation
Indices: 80641--80746 Score: 124
Period size: 38 Copynumber: 2.8 Consensus size: 38
80631 TCAGGTTGTG
* * * **
80641 GTTTCTAGGGAAATGGTCTTAAGAAAGATTAAATTGAA
1 GTTTCTAGGGAAACGATCTTAAGAAAGACTAAAACGAA
*
80679 GTTTCTAGGGAAACAATCTTAAGAAAGACTAAAACGAA
1 GTTTCTAGGGAAACGATCTTAAGAAAGACTAAAACGAA
* * *
80717 -TTTCTAGAGAAACGATCCTAAGAAGGACTA
1 GTTTCTAGGGAAACGATCTTAAGAAAGACTA
80747 GAGTGAATTT
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
37 26 0.45
38 32 0.55
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.25
Consensus pattern (38 bp):
GTTTCTAGGGAAACGATCTTAAGAAAGACTAAAACGAA
Found at i:80729 original size:37 final size:38
Alignment explanation
Indices: 80657--80746 Score: 110
Period size: 37 Copynumber: 2.4 Consensus size: 38
80647 AGGGAAATGG
* ** *
80657 TCTTAAGAAAGATTAAATTGAAGTTTCTAGGGAAACAA
1 TCTTAAGAAAGACTAAAACGAAGTTTCTAGAGAAACAA
*
80695 TCTTAAGAAAGACTAAAACGAA-TTTCTAGAGAAACGA
1 TCTTAAGAAAGACTAAAACGAAGTTTCTAGAGAAACAA
* *
80732 TCCTAAGAAGGACTA
1 TCTTAAGAAAGACTA
80747 GAGTGAATTT
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
37 26 0.58
38 19 0.42
ACGTcount: A:0.46, C:0.12, G:0.18, T:0.24
Consensus pattern (38 bp):
TCTTAAGAAAGACTAAAACGAAGTTTCTAGAGAAACAA
Found at i:80755 original size:37 final size:37
Alignment explanation
Indices: 80660--80756 Score: 104
Period size: 37 Copynumber: 2.6 Consensus size: 37
80650 GAAATGGTCT
* * * *
80660 TAAGAAAGATTAAATTGAAGTTTCTAGGGAAACAATCT
1 TAAGAAAGACTAAAATGAA-TTTCTAGAGAAACAATCC
* *
80698 TAAGAAAGACTAAAACGAATTTCTAGAGAAACGATCC
1 TAAGAAAGACTAAAATGAATTTCTAGAGAAACAATCC
* * *
80735 TAAGAAGGACTAGAGTGAATTT
1 TAAGAAAGACTAAAATGAATTT
80757 TTTAGGAGAC
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
37 33 0.67
38 16 0.33
ACGTcount: A:0.45, C:0.10, G:0.20, T:0.25
Consensus pattern (37 bp):
TAAGAAAGACTAAAATGAATTTCTAGAGAAACAATCC
Found at i:81908 original size:14 final size:13
Alignment explanation
Indices: 81891--81934 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
81881 CATTCATTCA
81891 TTTTCTTTTTCTAT
1 TTTTCTTTTT-TAT
*
81905 TTTTCTTTTTT-C
1 TTTTCTTTTTTAT
81917 TTTTCTTTTGTTAT
1 TTTTCTTTT-TTAT
81931 TTTT
1 TTTT
81935 TCTCTCGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 9 0.35
13 3 0.12
14 14 0.54
ACGTcount: A:0.05, C:0.11, G:0.02, T:0.82
Consensus pattern (13 bp):
TTTTCTTTTTTAT
Found at i:81921 original size:20 final size:20
Alignment explanation
Indices: 81891--81937 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
81881 CATTCATTCA
*
81891 TTTTCTTTTTCTATTT-TTCTT
1 TTTTC-TTTTCT-TTTGTTATT
81912 TTTTCTTTTCTTTTGTTATT
1 TTTTCTTTTCTTTTGTTATT
81932 TTTTCT
1 TTTTCT
81938 CTCGTTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 3 0.12
20 16 0.67
21 5 0.21
ACGTcount: A:0.04, C:0.13, G:0.02, T:0.81
Consensus pattern (20 bp):
TTTTCTTTTCTTTTGTTATT
Found at i:85022 original size:22 final size:22
Alignment explanation
Indices: 84992--85088 Score: 124
Period size: 22 Copynumber: 4.4 Consensus size: 22
84982 CTTTGAATGG
*
84992 AACCATTCAGCGTTGAATGATA
1 AACCGTTCAGCGTTGAATGATA
*
85014 AACCGTTCAGTGTTGAATGA-A
1 AACCGTTCAGCGTTGAATGATA
* *
85035 GAACCGTTCAGTGTTGAATGATG
1 -AACCGTTCAGCGTTGAATGATA
*
85058 AACCGTTCAGCGTTGAATGATG
1 AACCGTTCAGCGTTGAATGATA
*
85080 AACCATTCA
1 AACCGTTCA
85089 ACAATCAACG
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
21 1 0.01
22 67 0.99
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28
Consensus pattern (22 bp):
AACCGTTCAGCGTTGAATGATA
Found at i:85051 original size:44 final size:43
Alignment explanation
Indices: 84972--85088 Score: 155
Period size: 44 Copynumber: 2.7 Consensus size: 43
84962 CTTTGAATGG
* *
84972 AACCATTCAGCTTTGAATG-GAACCATTCAGCGTTGAATGATA
1 AACCGTTCAGCGTTGAATGAGAACCATTCAGCGTTGAATGATA
* * * *
85014 AACCGTTCAGTGTTGAATGAAGAACCGTTCAGTGTTGAATGATG
1 AACCGTTCAGCGTTGAATG-AGAACCATTCAGCGTTGAATGATA
85058 AACCGTTCAGCGTTGAATGATGAACCATTCA
1 AACCGTTCAGCGTTGAATGA-GAACCATTCA
85089 ACAATCAACG
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 16 0.25
43 1 0.02
44 47 0.73
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (43 bp):
AACCGTTCAGCGTTGAATGAGAACCATTCAGCGTTGAATGATA
Found at i:85074 original size:66 final size:62
Alignment explanation
Indices: 84964--85088 Score: 162
Period size: 66 Copynumber: 2.0 Consensus size: 62
84954 TTGTTTGGCT
*
84964 TTGAATGGAACCATTCAGCTTTGAATGGAACCATTCAGCGTTGAATGATAAACCGTTCAGTG
1 TTGAATGGAACCATTCAGCTTTGAATGGAACCATTCAGCGTTGAATGATAAACCATTCAGTG
* * *
85026 TTGAATGAAGAACCGTTCAG-TGTTGAATGATGAACCGTTCAGCGTTGAATGATGAACCATTCA
1 TTGAATG--GAACCATTCAGCT-TTGAATG--GAACCATTCAGCGTTGAATGATAAACCATTCA
85089 ACAATCAACG
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
62 7 0.13
63 1 0.02
64 17 0.31
66 29 0.54
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (62 bp):
TTGAATGGAACCATTCAGCTTTGAATGGAACCATTCAGCGTTGAATGATAAACCATTCAGTG
Found at i:85185 original size:27 final size:27
Alignment explanation
Indices: 85155--85220 Score: 132
Period size: 27 Copynumber: 2.4 Consensus size: 27
85145 AAAACAATGT
85155 TGAATGATTCAGCATCAAAGTACATTC
1 TGAATGATTCAGCATCAAAGTACATTC
85182 TGAATGATTCAGCATCAAAGTACATTC
1 TGAATGATTCAGCATCAAAGTACATTC
85209 TGAATGATTCAG
1 TGAATGATTCAG
85221 AGCCATTATC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (27 bp):
TGAATGATTCAGCATCAAAGTACATTC
Found at i:85776 original size:16 final size:17
Alignment explanation
Indices: 85741--85777 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
85731 ATGGGATGAA
85741 AAAAATAGTATTATTGT
1 AAAAATAGTATTATTGT
85758 AAAAAT-GTAATTATT-T
1 AAAAATAGT-ATTATTGT
85774 AAAA
1 AAAA
85778 TAATATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (17 bp):
AAAAATAGTATTATTGT
Found at i:85818 original size:17 final size:17
Alignment explanation
Indices: 85796--85828 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
85786 TACTACCATA
*
85796 ATATTATTTTTTATATT
1 ATATTATATTTTATATT
85813 ATATTATATTTTATAT
1 ATATTATATTTTATAT
85829 AAATAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATATTATATTTTATATT
Found at i:86592 original size:82 final size:82
Alignment explanation
Indices: 86448--86646 Score: 299
Period size: 83 Copynumber: 2.4 Consensus size: 82
86438 GTAACTTTAG
* * * *
86448 GTAGTACTTTAGCGGCGTTTATATAAAAACGCCACAATTGGTTCATCTATAGTGGCATTTTTTCA
1 GTAGTACTTTAGCGGTGTTTTTATACAAACGCCACAATAGGTTCATCTATAGTGGCATTTTTTCA
* *
86513 ACAAACGCCGTAACAGA
66 ACAAACGCCGCAAAAGA
* *
86530 GTAGTACTTTAGTGGTGTTTTTATACAAACGCCACAATAGTTTTCATCTATAGTGGCATTTTTTC
1 GTAGTACTTTAGCGGTGTTTTTATACAAACGCCACAATAG-GTTCATCTATAGTGGCATTTTTTC
86595 AACAAACGCCGCAAAAGA
65 AACAAACGCCGCAAAAGA
* *
86613 GTAGTACTTTAGCAGTGTTTTTATACAAATGCCA
1 GTAGTACTTTAGCGGTGTTTTTATACAAACGCCA
86647 TTCATATATA
Statistics
Matches: 105, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
82 35 0.33
83 70 0.67
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (82 bp):
GTAGTACTTTAGCGGTGTTTTTATACAAACGCCACAATAGGTTCATCTATAGTGGCATTTTTTCA
ACAAACGCCGCAAAAGA
Found at i:86603 original size:42 final size:42
Alignment explanation
Indices: 86474--86604 Score: 114
Period size: 41 Copynumber: 3.2 Consensus size: 42
86464 GTTTATATAA
* *
86474 AAACGCCACAATTG-GTTCATCTATAGTGGCATTTTTTCAAC
1 AAACGCCACAATAGTATTCATCTATAGTGGCATTTTTTCAAC
* * *
86515 AAACGCCGTA-ACAGAGTAGT-A-CTTTAGTGG--TGTTTTT-ATAC
1 AAACGCC--ACA-ATAGTATTCATCTATAGTGGCAT-TTTTTCA-AC
*
86556 AAACGCCACAATAGTTTTCATCTATAGTGGCATTTTTTCAAC
1 AAACGCCACAATAGTATTCATCTATAGTGGCATTTTTTCAAC
86598 AAACGCC
1 AAACGCC
86605 GCAAAAGAGT
Statistics
Matches: 69, Mismatches: 9, Indels: 23
0.68 0.09 0.23
Matches are distributed among these distances:
39 6 0.09
40 4 0.06
41 29 0.42
42 23 0.33
43 6 0.09
44 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.33
Consensus pattern (42 bp):
AAACGCCACAATAGTATTCATCTATAGTGGCATTTTTTCAAC
Found at i:87690 original size:13 final size:13
Alignment explanation
Indices: 87672--87701 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
87662 ATGTAATTAA
87672 TCATTTTCATTTT
1 TCATTTTCATTTT
87685 TCATTTTCATTTT
1 TCATTTTCATTTT
87698 TCAT
1 TCAT
87702 GTGGAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (13 bp):
TCATTTTCATTTT
Found at i:90177 original size:43 final size:43
Alignment explanation
Indices: 90031--90315 Score: 272
Period size: 43 Copynumber: 6.6 Consensus size: 43
90021 TGGTAATTAC
* * *
90031 CGGCGTTTGTATCCAAAATCGCCGCTACAGATCTGACCATTTG
1 CGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTG
* * *
90074 TGGCGTTTGTATTCAAAAAGCGTCGCTATAGATCTGACCTTTTG
1 CGGCGTTTGTATCCAAAAA-CGCCGCTATAGATCTGACCTTTTG
* * * * *
90118 TGACGTTTGT-TCCAAAAACGCCACTACAAATCTGACCTTTTG
1 CGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTG
* * ** *
90160 CGGCGTTCGTATACAAAAATACCGCTATAGATCTAACCTTTTG
1 CGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTG
* * *
90203 CGGCGTTTGTAT--AAAAACACCGCTATTGATCTCGACCTATTG
1 CGGCGTTTGTATCCAAAAACGCCGCTATAGATCT-GACCTTTTG
** * *
90245 CGGCGTTTGT-TTTAAATACGCCACTATAGATCTCGACCTTTTG
1 CGGCGTTTGTATCCAAAAACGCCGCTATAGATCT-GACCTTTTG
* * *
90288 CGGCGTTTTTATTTCACAAACGCCGCTA
1 CGGCGTTTGTA-TCCAAAAACGCCGCTA
90316 ACATTAGCGG
Statistics
Matches: 198, Mismatches: 37, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
41 19 0.10
42 44 0.22
43 93 0.47
44 30 0.15
45 12 0.06
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (43 bp):
CGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTG
Found at i:90240 original size:85 final size:84
Alignment explanation
Indices: 90031--90315 Score: 279
Period size: 85 Copynumber: 3.3 Consensus size: 84
90021 TGGTAATTAC
* * *
90031 CGGCGTTTGTATCCAAAATCGCCGCTACAGATCTGACCATTTGTGGCGTTTGTATTCAAAAAGCG
1 CGGCGTTTGTAT-CAAAAACGCCGCTACAGATCTGACCTTTTGCGGCGTTTGTATTCAAAAAGC-
90096 TCGCTATAGATCTGACCTTTTG
64 -CGCTATAGATCTGACCTTTTG
* * * * * * *
90118 TGACGTTTGT-TCCAAAAACGCCACTACAAATCTGACCTTTTGCGGCGTTCGTATACAAAAATAC
1 CGGCGTTTGTAT-CAAAAACGCCGCTACAGATCTGACCTTTTGCGGCGTTTGTATTCAAAAA-GC
*
90182 CGCTATAGATCTAACCTTTTG
64 CGCTATAGATCTGACCTTTTG
* ** * * *
90203 CGGCGTTTGTAT-AAAAACACCGCTATTGATCTCGACCTATTGCGGCGTTTGT-TTTAAATACGC
1 CGGCGTTTGTATCAAAAACGCCGCTACAGATCT-GACCTTTTGCGGCGTTTGTATTCAAA-AAGC
*
90266 CACTATAGATCTCGACCTTTTG
64 CGCTATAGATCT-GACCTTTTG
* *
90288 CGGCGTTTTTATTTCACAAACGCCGCTA
1 CGGCGTTTGTA--TCAAAAACGCCGCTA
90316 ACATTAGCGG
Statistics
Matches: 161, Mismatches: 29, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
84 31 0.19
85 64 0.40
86 45 0.28
87 10 0.06
88 11 0.07
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (84 bp):
CGGCGTTTGTATCAAAAACGCCGCTACAGATCTGACCTTTTGCGGCGTTTGTATTCAAAAAGCCG
CTATAGATCTGACCTTTTG
Found at i:92864 original size:29 final size:29
Alignment explanation
Indices: 92822--92881 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
92812 GAAAAAAGTG
**
92822 TTAGGAATTTTTTTGAGGTTTTTAGGAAT
1 TTAGGAATTTTTTTGAAATTTTTAGGAAT
* *
92851 TTAGGAGTTTTTTTGAAATTTTTTGGAAT
1 TTAGGAATTTTTTTGAAATTTTTAGGAAT
92880 TT
1 TT
92882 CAAGTATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.22, T:0.55
Consensus pattern (29 bp):
TTAGGAATTTTTTTGAAATTTTTAGGAAT
Found at i:92909 original size:19 final size:20
Alignment explanation
Indices: 92867--92909 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
92857 GTTTTTTTGA
*
92867 AATTTTTTGGAATTTCAAGT
1 AATTTTTGGGAATTTCAAGT
*
92887 -ATTTTTGGGAATTTTAA-T
1 AATTTTTGGGAATTTCAAGT
92905 AATTT
1 AATTT
92910 CATGGATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.30, C:0.02, G:0.14, T:0.53
Consensus pattern (20 bp):
AATTTTTGGGAATTTCAAGT
Found at i:94761 original size:22 final size:22
Alignment explanation
Indices: 94731--94773 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
94721 TTTGGATTTC
*
94731 TTTCTGTTCAGGTTAATTTCGA
1 TTTCGGTTCAGGTTAATTTCGA
*
94753 TTTCGGTTCGGGTTAATTTCG
1 TTTCGGTTCAGGTTAATTTCG
94774 GTCTGGTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.14, G:0.23, T:0.49
Consensus pattern (22 bp):
TTTCGGTTCAGGTTAATTTCGA
Found at i:94786 original size:15 final size:16
Alignment explanation
Indices: 94751--94788 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
94741 GGTTAATTTC
94751 GATTTCGGTTCGGGTT
1 GATTTCGGTTCGGGTT
* *
94767 AATTTCGG-TCTGGTT
1 GATTTCGGTTCGGGTT
94782 GATTTCG
1 GATTTCG
94789 ATTTCGCTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.11, C:0.13, G:0.32, T:0.45
Consensus pattern (16 bp):
GATTTCGGTTCGGGTT
Found at i:102542 original size:22 final size:22
Alignment explanation
Indices: 102516--102558 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
102506 TAATAAATTA
*
102516 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATAT
102538 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
102559 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:102567 original size:22 final size:22
Alignment explanation
Indices: 102518--102566 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
102508 ATAAATTATT
* **
102518 TAAAATAAATCAATTCATATTT
1 TAAAATAAATCAATCCATATAA
102540 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
102563 TAAA
1 TAAA
102567 TTATTGAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:102570 original size:54 final size:54
Alignment explanation
Indices: 102506--102966 Score: 313
Period size: 54 Copynumber: 8.6 Consensus size: 54
102496 ACAACTACAA
*
102506 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
102560 TAATAAATTATTGAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*** * * *
102614 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-AATAAATCAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATAC
** * *
102667 T-AT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAA--A--T-AAATCAATCCATAC
** * *
102721 T-AT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTGAAAATAAATCAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAA--A-T--AAATCAATCCATAC
* ** * *
102775 -CAT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAA--A--T-AAATCAATCCATAC
* * * * *
102829 T-ATACAACTA--CAATAATTAATGAATCCATATTTTAAAATAAATCAATCTATAC
1 TAATA-AATTATTTAA-AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
102882 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
102936 TAATAAATTATTTAAAATAAATTC-ATCCATA
1 TAATAAATTATTTAAAATAAA-TCAATCCATA
102967 CTAATAAATT
Statistics
Matches: 360, Mismatches: 25, Indels: 44
0.84 0.06 0.10
Matches are distributed among these distances:
48 26 0.07
49 1 0.00
50 2 0.01
52 13 0.04
53 11 0.03
54 272 0.76
55 12 0.03
57 8 0.02
58 15 0.04
ACGTcount: A:0.52, C:0.12, G:0.01, T:0.35
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:102621 original size:22 final size:22
Alignment explanation
Indices: 102573--102620 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
102563 TAAATTATTG
**
102573 AAAATAAATCAATCCATATTTT
1 AAAATAAATCAATCCATATAAT
102595 AAAATAAATCAATCCATACTAAT
1 AAAATAAATCAATCCATA-TAAT
102618 AAA
1 AAA
102621 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAATAAATCAATCCATATAAT
Found at i:102672 original size:134 final size:139
Alignment explanation
Indices: 102538--103096 Score: 712
Period size: 134 Copynumber: 4.1 Consensus size: 139
102528 CAATTCATAT
*
102538 TTTAAAATAAATCAATCCATACTAATAAATTATTGAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
*** *
102603 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-AATAAATCAAT-
66 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATAAATCAATA
102666 CT-AT-A-T-
130 CTAATAATTA
*
102672 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
* * *
102737 TCAATCCATACTAATAAATTATTGAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
66 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATAAATCAATAC
102802 TAATAAATTA
131 TAAT-AATTA
* * * *
102812 TTTAAAATAAATCAATCTATAC-AACTACA--A--T--AATTAATGAATCCATATTTTAAAATAA
1 TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAA
* *
102870 ATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTC-AT
65 ATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAAT-AAATCAAT
102934 ACTAATAAATTA
129 ACTAAT-AATTA
102946 TTTAAAATAAATTC-ATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAA
1 TTTAAAATAAA-TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAA
* * * * *
103010 ATCAATTCATAC-AACTACA--A--T--AATAAAACAATCCATATTTTAAAATAAATCAATCCAT
65 ATCAATCCATACTAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATAAATCAAT
103068 ACTAATAAATTA
129 ACTAAT-AATTA
103080 TTTAAAATAAATCAATC
1 TTTAAAATAAATCAATC
103097 AATATTTTAA
Statistics
Matches: 377, Mismatches: 28, Indels: 40
0.85 0.06 0.09
Matches are distributed among these distances:
133 10 0.03
134 282 0.75
135 9 0.02
136 5 0.01
138 4 0.01
139 5 0.01
140 62 0.16
ACGTcount: A:0.52, C:0.13, G:0.01, T:0.34
Consensus pattern (139 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATAAATCAATAC
TAATAATTA
Found at i:102701 original size:22 final size:23
Alignment explanation
Indices: 102626--102700 Score: 73
Period size: 22 Copynumber: 3.2 Consensus size: 23
102616 ATAAATTATT
102626 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
* **
102648 CTACAATAATAAATCAATCTATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
102674 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
102697 TAAA
1 TAAA
102701 TTATTTAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
22 15 0.37
23 8 0.20
25 3 0.07
26 15 0.37
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:102755 original size:22 final size:22
Alignment explanation
Indices: 102706--102754 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
102696 ATAAATTATT
* **
102706 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCCATATAA
102728 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
102751 TAAA
1 TAAA
102755 TTATTGAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:102809 original size:22 final size:22
Alignment explanation
Indices: 102761--102808 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
102751 TAAATTATTG
**
102761 AAAATAAATCAATCCATATTTT
1 AAAATAAATCAATCCATATAAT
102783 AAAATAAATCAATCCATACTAAT
1 AAAATAAATCAATCCATA-TAAT
102806 AAA
1 AAA
102809 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAATAAATCAATCCATATAAT
Found at i:102823 original size:188 final size:188
Alignment explanation
Indices: 102506--103166 Score: 999
Period size: 188 Copynumber: 3.5 Consensus size: 188
102496 ACAACTACAA
102506 TAATAAATTATTTAAAATAAATCAAT-TCATATTTTAAAATAAATCAATCCATACTAATAAATTA
1 TAATAAATTATTTAAAATAAATCAATCT-ATATTTTAAAATAAATCAATCCATACTAATAAATTA
102570 TTGAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
65 TTGAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
*
102635 TCAATCCATACAACTACAATAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
130 TCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
102694 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTAT
102759 TGAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
66 TGAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
* * * *
102824 CAATCTATACAACTACAATAATTAATGAATCCATATTTTAAAATAAATCAATCTATAC
131 CAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *
102882 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTAT
* ** * ** * ** **
102947 TTAAAATAAATTC-ATCCATACTAATAAATTATTTAAAATAAAT-C-AATCCA-TATTTTAAAAT
66 TGAAAATAAA-TCAATCCATA-TTTTAAAATAAAT-CAATCCATACTAATAAATTA-TTTAAAAT
* *
103008 AAATCAATTCATACAACTACAATAATAAAACAATCCATATTTTAAAATAAATCAATCCATAC
127 AAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* * *
103070 TAATAAATTATTTAAAATAAATCAATCAATATTTTAAAATAAATCAATTCATTCTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTA-
* * *
103135 TTTAAAATAAATCAGTCCATATTTTATAATAA
65 TTGAAAATAAATCAATCCATATTTTAAAATAA
103167 TTTATTTTAA
Statistics
Matches: 434, Mismatches: 32, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
187 2 0.00
188 398 0.92
189 29 0.07
190 5 0.01
ACGTcount: A:0.52, C:0.12, G:0.01, T:0.35
Consensus pattern (188 bp):
TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTAT
TGAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
CAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:102899 original size:32 final size:31
Alignment explanation
Indices: 102860--102993 Score: 144
Period size: 32 Copynumber: 4.5 Consensus size: 31
102850 GAATCCATAT
102860 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAAT-TATACTAATAAATTA
*
102892 TTTAAAATAAATC-A--AT-C-CAT--A-T-
1 TTTAAAATAAATCAATTATACTAATAAATTA
102914 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATT-ATACTAATAAATTA
*
102946 TTTAAAATAAATTC-ATCCATACTAATAAATTA
1 TTTAAAATAAA-TCAAT-TATACTAATAAATTA
102978 TTTAAAATAAATCAAT
1 TTTAAAATAAATCAAT
102994 CCATATTTTA
Statistics
Matches: 86, Mismatches: 3, Indels: 26
0.75 0.03 0.23
Matches are distributed among these distances:
22 13 0.15
23 2 0.02
24 1 0.01
26 4 0.05
27 2 0.02
28 4 0.05
30 1 0.01
31 4 0.05
32 53 0.62
33 2 0.02
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.37
Consensus pattern (31 bp):
TTTAAAATAAATCAATTATACTAATAAATTA
Found at i:102918 original size:22 final size:22
Alignment explanation
Indices: 102892--102934 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
102882 TAATAAATTA
102892 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
102914 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
102935 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:102943 original size:22 final size:22
Alignment explanation
Indices: 102894--102942 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
102884 ATAAATTATT
**
102894 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
102916 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
102939 TAAA
1 TAAA
102943 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:102954 original size:14 final size:14
Alignment explanation
Indices: 102937--102989 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
102927 AATTCATACT
102937 AATAAATTATTTAA
1 AATAAATTATTTAA
* *
102951 AATAAATTCATCCATACT
1 AATAAATT-AT--TTA-A
102969 AATAAATTATTTAA
1 AATAAATTATTTAA
102983 AATAAAT
1 AATAAAT
102990 CAATCCATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 15 0.48
15 4 0.13
17 4 0.13
18 8 0.26
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.38
Consensus pattern (14 bp):
AATAAATTATTTAA
Found at i:102996 original size:32 final size:32
Alignment explanation
Indices: 102914--103155 Score: 172
Period size: 32 Copynumber: 7.7 Consensus size: 32
102904 CAATCCATAT
*
102914 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
102946 TTTAAAATAAATTC-ATCCATACTAATAAATTA
1 TTTAAAATAAA-TCAATCCATACTAATAAATTA
* *
102978 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAA
1 TTTAAAATAAATCAATCCATA--CT--AATAAAT-TA
* * * **
103015 TTCATACAACTACAAT-AAT-AAAAC-AATCCA-TA
1 TT--TA-AAATA-AATCAATCCATACTAATAAATTA
103047 TTTTAAAATAAATCAATCCATACTAATAAATTA
1 -TTTAAAATAAATCAATCCATACTAATAAATTA
103080 TTTAAAATAAATC-A---AT-C-AAT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
103102 TTTAAAATAAATCAATTCATTCTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
103134 TTTTAAAATAAATCAGTCCATA
1 -TTTAAAATAAATCAATCCATA
103156 TTTTATAATA
Statistics
Matches: 165, Mismatches: 18, Indels: 53
0.70 0.08 0.22
Matches are distributed among these distances:
22 13 0.08
23 2 0.01
24 1 0.01
26 5 0.03
27 2 0.01
28 5 0.03
29 3 0.02
30 8 0.05
31 9 0.05
32 64 0.39
33 24 0.15
34 5 0.03
36 7 0.04
37 3 0.02
39 4 0.02
40 7 0.04
41 3 0.02
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:103004 original size:22 final size:22
Alignment explanation
Indices: 102978--103068 Score: 101
Period size: 22 Copynumber: 4.0 Consensus size: 22
102968 TAATAAATTA
102978 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
* *
103000 TTTAAAATAAATCAATTCATACAAC
1 TTTAAAATAAATCAATCCAT---AT
** *
103025 TACAATAATAAAACAATCCATAT
1 TTTAA-AATAAATCAATCCATAT
103048 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
103069 CTAATAAATT
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
22 34 0.62
23 4 0.07
25 4 0.07
26 13 0.24
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:103004 original size:54 final size:54
Alignment explanation
Indices: 102946--103166 Score: 287
Period size: 54 Copynumber: 4.2 Consensus size: 54
102936 TAATAAATTA
102946 TTTAAAATAAATTC-ATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAA-TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
* * *
103000 TTTAAAATAAATCAATTCATAC-AACTACA--A--T--AATAAAACAATCCATAT
1 TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAAATCAATCCATAT
*
103048 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCAATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
* * *
103102 TTTAAAATAAATCAATTCATTCTAATAAATTATTTTAAAATAAATCAGTCCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTA-TTTAAAATAAATCAATCCATAT
*
103157 TTTATAATAA
1 TTTAAAATAA
103167 TTTATTTTAA
Statistics
Matches: 145, Mismatches: 12, Indels: 19
0.82 0.07 0.11
Matches are distributed among these distances:
48 40 0.28
49 2 0.01
50 2 0.01
52 2 0.01
53 4 0.03
54 66 0.46
55 29 0.20
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.36
Consensus pattern (54 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
Found at i:103145 original size:15 final size:15
Alignment explanation
Indices: 103125--103258 Score: 160
Period size: 15 Copynumber: 8.5 Consensus size: 15
103115 AATTCATTCT
103125 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
103140 AATAAATCAGTCCATATTTTAT
1 AATAAAT---T--AT--TTTAA
*
103162 AATAATTTATTTTAA
1 AATAAATTATTTTAA
*
103177 AATAAATTATTTTAT
1 AATAAATTATTTTAA
103192 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
103207 AATAAATTATTTTAT
1 AATAAATTATTTTAA
103222 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
103237 AACAAATTATTTTAA
1 AATAAATTATTTTAA
103252 AATAAAT
1 AATAAAT
103259 AACCTTATTA
Statistics
Matches: 102, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
15 86 0.84
17 2 0.02
18 1 0.01
19 1 0.01
20 2 0.02
22 10 0.10
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:103166 original size:134 final size:128
Alignment explanation
Indices: 102713--103167 Score: 429
Period size: 134 Copynumber: 3.4 Consensus size: 128
102703 ATTTAAAATA
*
102713 AATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTGAA-AATAAATCAATCCA
1 AATCAATCCATATTTTAAAATAAATCAATCCATACT--T---TTA-T-AATAATAAATCAATCCA
*
102777 TATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATC-TA-TACAACTAC
59 TATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCATATTA-AAATA-
102840 AATAATT
122 AATAATT
* *
102847 AATGAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAA-AATAAATCAATCCA
1 AATCAATCCATATTTTAAAATAAATCAATCCATACT--T---TTA--TAATAATAAATCAATCCA
*
102911 TATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATTC-ATCCATACTAATAAA
59 TATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA-TCAAT-CATA-T--TAAA
* *
102975 TTATTTAA-AATA
119 --A-TAAATAATT
* *** * *
102987 AATCAATCCATATTTTAAAATAAATCAATTCATACAACTACAATAATAAAACAATCCATATTTTA
1 AATCAATCCATATTTTAAAATAAATCAATCCATACTTTTATAATAATAAATCAATCCATATTTTA
103052 AAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCAATATTTTAAAATAAATCAA
66 AAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATC-ATA--TTAAAATAAAT-AA
103117 TT
127 TT
* ** *
103119 CATTCTAATAAATTATTTTAAAATAAATCAGTCCATA-TTTTATAATAAT
1 -AATC-AATCCA-TATTTTAAAATAAATCAATCCATACTTTTATAATAAT
103168 TTATTTTAAA
Statistics
Matches: 273, Mismatches: 28, Indels: 40
0.80 0.08 0.12
Matches are distributed among these distances:
130 3 0.01
131 1 0.00
132 3 0.01
133 12 0.04
134 180 0.66
135 30 0.11
136 2 0.01
139 2 0.01
140 37 0.14
141 2 0.01
142 1 0.00
ACGTcount: A:0.51, C:0.12, G:0.01, T:0.36
Consensus pattern (128 bp):
AATCAATCCATATTTTAAAATAAATCAATCCATACTTTTATAATAATAAATCAATCCATATTTTA
AAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCATATTAAAATAAATAATT
Found at i:103190 original size:30 final size:30
Alignment explanation
Indices: 103154--103258 Score: 183
Period size: 30 Copynumber: 3.5 Consensus size: 30
103144 AATCAGTCCA
*
103154 TATTTTATAATAATTTATTTTAAAATAAAT
1 TATTTTATAATAAATTATTTTAAAATAAAT
103184 TATTTTATAATAAATTATTTTAAAATAAAT
1 TATTTTATAATAAATTATTTTAAAATAAAT
*
103214 TATTTTATAATAAATTATTTTAAAACAAAT
1 TATTTTATAATAAATTATTTTAAAATAAAT
*
103244 TATTTTAAAATAAAT
1 TATTTTATAATAAAT
103259 AACCTTATTA
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 72 1.00
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.50
Consensus pattern (30 bp):
TATTTTATAATAAATTATTTTAAAATAAAT
Found at i:108270 original size:12 final size:12
Alignment explanation
Indices: 108255--108279 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
108245 ATCATCACCA
108255 TTATCGTCGTCG
1 TTATCGTCGTCG
108267 TTATCGTCGTCG
1 TTATCGTCGTCG
108279 T
1 T
108280 GAGCAGCTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.24, G:0.24, T:0.44
Consensus pattern (12 bp):
TTATCGTCGTCG
Done.