Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014761.1 Kokia drynarioides strain JFW-HI SEQ_129800, 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: 255316
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 64 characters in sequence are not A, C, G, or T
File 2 of 2
Found at i:204594 original size:9 final size:9
Alignment explanation
Indices: 204580--204619 Score: 80
Period size: 9 Copynumber: 4.4 Consensus size: 9
204570 ATCAAGAAAG
204580 AAAATACAA
1 AAAATACAA
204589 AAAATACAA
1 AAAATACAA
204598 AAAATACAA
1 AAAATACAA
204607 AAAATACAA
1 AAAATACAA
204616 AAAA
1 AAAA
204620 AGAAAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.80, C:0.10, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAATACAA
Found at i:204626 original size:9 final size:9
Alignment explanation
Indices: 204580--204629 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
204570 ATCAAGAAAG
*
204580 AAAATACAA
1 AAAATAAAA
*
204589 AAAATACAA
1 AAAATAAAA
*
204598 AAAATACAA
1 AAAATAAAA
204607 AAAATACAAA
1 AAAATA-AAA
*
204617 AAAAGAAAA
1 AAAATAAAA
204626 AAAA
1 AAAA
204630 ATAGAAAGAG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
9 31 0.82
10 7 0.18
ACGTcount: A:0.82, C:0.08, G:0.02, T:0.08
Consensus pattern (9 bp):
AAAATAAAA
Found at i:205115 original size:42 final size:42
Alignment explanation
Indices: 205044--205223 Score: 252
Period size: 42 Copynumber: 4.3 Consensus size: 42
205034 GCATTCATTG
* * * * *
205044 CATTTAGAAGCCCAAGTGTAGAGGTCCATTTACTTTTCATCA
1 CATTCAGAGGCCCAGGTGTGGAGGCCCATTTACTTTTCATCA
*
205086 CATTCAGAGGCCCAGGTGTGGAGGCCCATTTACTTTTCATTA
1 CATTCAGAGGCCCAGGTGTGGAGGCCCATTTACTTTTCATCA
* *
205128 CATTCAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTA
1 CATTCAGAGGCCCAGGTGTGGAGGCCCATTTACTTTTCATCA
* * *
205170 CATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTTTTCTTCG
1 CATTCAGAGGCCCAGGTGTGGAGGCCCATTTACTTTTCATCA
*
205212 CATTCAGTGGCC
1 CATTCAGAGGCC
205224 TATTTACTTT
Statistics
Matches: 124, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 124 1.00
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.32
Consensus pattern (42 bp):
CATTCAGAGGCCCAGGTGTGGAGGCCCATTTACTTTTCATCA
Found at i:205216 original size:84 final size:84
Alignment explanation
Indices: 205037--205223 Score: 286
Period size: 84 Copynumber: 2.2 Consensus size: 84
205027 AAGGAAAGCA
* *
205037 TTCATTGCATTTAGAAGCCCAAGTGTAGAGGTCCATTTACTTTTCATCACATTCAGAGGCCCAGG
1 TTCATTGCATTCAGAGGCCCAAGTGTAGAGGTCCATTTACTTTTCATCACATTCAGAGGCCCAGG
205102 TGTGGAGGCCCATTTACTT
66 TGTGGAGGCCCATTTACTT
* * * * *
205121 TTCATTACATTCAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTACATTTAGAGGCCCAGG
1 TTCATTGCATTCAGAGGCCCAAGTGTAGAGGTCCATTTACTTTTCATCACATTCAGAGGCCCAGG
205186 TGTGGAGGCCCATTTACTT
66 TGTGGAGGCCCATTTACTT
*
205205 TTC-TTCGCATTCAGTGGCC
1 TTCATT-GCATTCAGAGGCC
205224 TATTTACTTT
Statistics
Matches: 93, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
83 2 0.02
84 91 0.98
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.33
Consensus pattern (84 bp):
TTCATTGCATTCAGAGGCCCAAGTGTAGAGGTCCATTTACTTTTCATCACATTCAGAGGCCCAGG
TGTGGAGGCCCATTTACTT
Found at i:205232 original size:28 final size:28
Alignment explanation
Indices: 205192--205246 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
205182 CAGGTGTGGA
*
205192 GGCCCATTTACTTTTCTTCGCATTCAGT
1 GGCCCATTTACTTTTCATCGCATTCAGT
*
205220 GGCCTATTTACTTTTCATCGCATTCAG
1 GGCCCATTTACTTTTCATCGCATTCAG
205247 AGGTTCAGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.16, C:0.27, G:0.15, T:0.42
Consensus pattern (28 bp):
GGCCCATTTACTTTTCATCGCATTCAGT
Found at i:205273 original size:112 final size:112
Alignment explanation
Indices: 205108--205453 Score: 363
Period size: 112 Copynumber: 3.0 Consensus size: 112
205098 CAGGTGTGGA
* *
205108 GGCCCATTTACTTTTCATTACATTCAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTACAT
1 GGCCCATTTACTTTTCATCACATTCAGAGGCCCAGGTGTGCAGGTCCATTTACTTTTCATTACAT
*
205173 TTAGAGGCCCAGGTGTGGAGGCCCATTTACTTTTC-TTCGCATTCAGT
66 TCAGAGGCCCAGGTGTGGAGGCCCATTTACTTTTCATT-GCATTCAGT
* * **
205220 GGCCTATTTACTTTTCATCGCATTCAGAGGTTCAGGTGTGCAGG-CTCATTTACTTTTCATTACA
1 GGCCCATTTACTTTTCATCACATTCAGAGGCCCAGGTGTGCAGGTC-CATTTACTTTTCATTACA
205284 TTCAGAGGCCCAGGTGTGGAGGCCCATTTACTTTTCATTGCATTTAGAGGCCCAAGTGT
65 TTCAGAGGCCCAGGTGTGGAGGCCCATTTACTTTTCATTGCA-TT-------C-A--GT
* ** * * * * * * *
205343 GGAGGTCCATTTACTTTTCATTGCATTTAAAGGCCTAAGTGTGAAGGCCCATTTACTTTTCATTG
1 ---GGCCCATTTACTTTTCATCACATTCAGAGGCCCAGGTGTGCAGGTCCATTTACTTTTCATTA
* *
205408 CATTCAGAGGCCCAAGTGTGGAGGCCCATTTACTTTTTATTGCATT
63 CATTCAGAGGCCCAGGTGTGGAGGCCCATTTACTTTTCATTGCATT
205454 TAGAGGCCTA
Statistics
Matches: 197, Mismatches: 20, Indels: 21
0.83 0.08 0.09
Matches are distributed among these distances:
111 1 0.01
112 94 0.48
113 4 0.02
120 1 0.01
121 1 0.01
123 2 0.01
125 2 0.01
126 91 0.46
127 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.36
Consensus pattern (112 bp):
GGCCCATTTACTTTTCATCACATTCAGAGGCCCAGGTGTGCAGGTCCATTTACTTTTCATTACAT
TCAGAGGCCCAGGTGTGGAGGCCCATTTACTTTTCATTGCATTCAGT
Found at i:205286 original size:70 final size:70
Alignment explanation
Indices: 205155--205293 Score: 181
Period size: 70 Copynumber: 2.0 Consensus size: 70
205145 GTGGAGGTCC
* * * * *
205155 ATTTACTTTTCATTACATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTTTTCTTCGCATTCAGT
1 ATTTACTTTTCATCACATTCAGAGGCCCAGGTGTGCAGGCCCATTTACTTTTCTTCACATTCAGA
205220 GGCCT
66 GGCCT
* ** *
205225 ATTTACTTTTCATCGCATTCAGAGGTTCAGGTGTGCAGGCTCATTTACTTTTCATT-ACATTCAG
1 ATTTACTTTTCATCACATTCAGAGGCCCAGGTGTGCAGGCCCATTTACTTTTC-TTCACATTCAG
205289 AGGCC
65 AGGCC
205294 CAGGTGTGGA
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
70 57 0.97
71 2 0.03
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.38
Consensus pattern (70 bp):
ATTTACTTTTCATCACATTCAGAGGCCCAGGTGTGCAGGCCCATTTACTTTTCTTCACATTCAGA
GGCCT
Found at i:205353 original size:154 final size:154
Alignment explanation
Indices: 205071--205369 Score: 501
Period size: 154 Copynumber: 1.9 Consensus size: 154
205061 GTAGAGGTCC
*
205071 ATTTACTTTTCATCACATTCAGAGGCCCAGGTGTGGAGGCCCATTTACTTTTCATTACATTCAGA
1 ATTTACTTTTCATCACATTCAGAGGCCCAGGTGTGCAGGCCCATTTACTTTTCATTACATTCAGA
* *
205136 GGCCCAGGTGTGGAGGTCCATTTACTTTTCATTACATTTAGAGGCCCAGGTGTGGAGGCCCATTT
66 GGCCCAGGTGTGGAGGCCCATTTACTTTTCATTACATTTAGAGGCCCAAGTGTGGAGGCCCATTT
205201 ACTTTTC-TTCGCATTCAGTGGCCT
131 ACTTTTCATT-GCATTCAGTGGCCT
* ** *
205225 ATTTACTTTTCATCGCATTCAGAGGTTCAGGTGTGCAGGCTCATTTACTTTTCATTACATTCAGA
1 ATTTACTTTTCATCACATTCAGAGGCCCAGGTGTGCAGGCCCATTTACTTTTCATTACATTCAGA
* *
205290 GGCCCAGGTGTGGAGGCCCATTTACTTTTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTT
66 GGCCCAGGTGTGGAGGCCCATTTACTTTTCATTACATTTAGAGGCCCAAGTGTGGAGGCCCATTT
205355 ACTTTTCATTGCATT
131 ACTTTTCATTGCATT
205370 TAAAGGCCTA
Statistics
Matches: 135, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
154 133 0.99
155 2 0.01
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (154 bp):
ATTTACTTTTCATCACATTCAGAGGCCCAGGTGTGCAGGCCCATTTACTTTTCATTACATTCAGA
GGCCCAGGTGTGGAGGCCCATTTACTTTTCATTACATTTAGAGGCCCAAGTGTGGAGGCCCATTT
ACTTTTCATTGCATTCAGTGGCCT
Found at i:205481 original size:42 final size:42
Alignment explanation
Indices: 205220--205461 Score: 331
Period size: 42 Copynumber: 5.8 Consensus size: 42
205210 CGCATTCAGT
* * * ** * *
205220 GGCCTATTTACTTTTCATCGCATTCAGAGGTTCAGGTGTGCA
1 GGCCCATTTACTTTTCATTGCATTTAGAGGCCCAAGTGTGGA
* * * *
205262 GGCTCATTTACTTTTCATTACATTCAGAGGCCCAGGTGTGGA
1 GGCCCATTTACTTTTCATTGCATTTAGAGGCCCAAGTGTGGA
205304 GGCCCATTTACTTTTCATTGCATTTAGAGGCCCAAGTGTGGA
1 GGCCCATTTACTTTTCATTGCATTTAGAGGCCCAAGTGTGGA
* * * *
205346 GGTCCATTTACTTTTCATTGCATTTAAAGGCCTAAGTGTGAA
1 GGCCCATTTACTTTTCATTGCATTTAGAGGCCCAAGTGTGGA
*
205388 GGCCCATTTACTTTTCATTGCATTCAGAGGCCCAAGTGTGGA
1 GGCCCATTTACTTTTCATTGCATTTAGAGGCCCAAGTGTGGA
*
205430 GGCCCATTTACTTTTTATTGCATTTAGAGGCC
1 GGCCCATTTACTTTTCATTGCATTTAGAGGCC
205462 TAGGCATAGA
Statistics
Matches: 178, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 178 1.00
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.35
Consensus pattern (42 bp):
GGCCCATTTACTTTTCATTGCATTTAGAGGCCCAAGTGTGGA
Found at i:205939 original size:3 final size:3
Alignment explanation
Indices: 205931--205968 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
205921 AGACCCAAAA
205931 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
205969 GGGTTTCATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:206616 original size:137 final size:135
Alignment explanation
Indices: 206377--206793 Score: 433
Period size: 137 Copynumber: 2.9 Consensus size: 135
206367 AAATAGCTTG
* * * * * *
206377 ATTTTTGAAAAAGTTTTGGTTTTTTTTAAACAATTTCGAAATAAAATCTTTGATTTTTAAATAAA
1 ATTTTTAAAAAAGTTTTGATTTTTTTTTAACTATTTCAAAATAAAA-GTTTGATTTTTAAA-AAA
* *
206442 ATAGTGATTTTCTTTAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATCTATTTTTTAG-AA
64 ATAGTGATTTTCATTAAAAAA-AGAAAGTTTATATTTTTAAAAATAAAAATCTATTTTTTAGAAA
* *
206506 AAGTTTAA
128 AAATTAAA
206514 ATTTTTAAACAAAGTTTTGATTTTTTTTTAACTATTTCAAAATAAAAGTTTAGATTTTTAAAAAA
1 ATTTTTAAA-AAAGTTTTGATTTTTTTTTAACTATTTCAAAATAAAAGTTT-GATTTTTAAAAAA
* * *
206579 TTTGTGATTTTCATTAAAAAGAAGAAAGTTTATATTTTTAAAAATAAAAATATGTTTTTTTAGTT
64 ATAGTGATTTTCATTAAAAA-AAGAAAGTTTATATTTTTAAAAAT-AAAA-A------TCTA-TT
206644 ATTTTAAAGAAAAAATTAAA
119 -TTTT--AGAAAAAATTAAA
* *
206664 ATTTTTAAATAAAGTTTTGA-TTTTTTTTAACTATTTTAAAATAAAAGTTTGAATTTTTAAGTAA
1 ATTTTTAAA-AAAGTTTTGATTTTTTTTTAACTATTTCAAAATAAAAGTTTG-ATTTTTAA-AAA
* * *
206728 AGTAATGATTTTCATTAAAAAATAAAGAAAGTTTTTATTTTTAAAAAATAAAAATCTATTTTTTA
63 AATAGTGATTTTCATT--AAAA-AAAGAAAGTTTATATTTTT-AAAAATAAAAATCTATTTTTTA
206793 G
124 G
206794 TTATTTTAAA
Statistics
Matches: 237, Mismatches: 21, Indels: 40
0.80 0.07 0.13
Matches are distributed among these distances:
137 53 0.22
138 48 0.20
139 1 0.00
141 2 0.01
143 4 0.02
144 2 0.01
145 6 0.03
146 2 0.01
147 4 0.02
148 1 0.00
149 39 0.16
150 42 0.18
151 1 0.00
152 25 0.11
153 7 0.03
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (135 bp):
ATTTTTAAAAAAGTTTTGATTTTTTTTTAACTATTTCAAAATAAAAGTTTGATTTTTAAAAAAAT
AGTGATTTTCATTAAAAAAAGAAAGTTTATATTTTTAAAAATAAAAATCTATTTTTTAGAAAAAA
TTAAA
Found at i:206805 original size:152 final size:150
Alignment explanation
Indices: 206512--206882 Score: 518
Period size: 152 Copynumber: 2.5 Consensus size: 150
206502 AGAAAAGTTT
* *
206512 AAATTTTTAAACAAAGTTTTGATTTTTTTTTAACTATTTCAAAATAAAAGTTT-AGATTTTTAA-
1 AAATTTTTAAATAAAGTTTTGA-TTTTTTTTAACTATTTTAAAATAAAAGTTTGA-ATTTTTAAG
* * ** * *
206575 AAAATTTGTGATTTTCATTAAAAAGAAGAAAGTTTATATTTTTAAAAATAAAAATATGTTTTTTT
64 TAAAGTAATGATTTTCATTAAAAAAAAGAAAGTTTATATTTTTAAAAATAAAAATATGATTTTTT
206640 AGTTATTTTAAAGAAAAAATTA
129 AGTTATTTTAAAGAAAAAATTA
206662 AAATTTTTAAATAAAGTTTTGATTTTTTTTAACTATTTTAAAATAAAAGTTTGAATTTTTAAGTA
1 AAATTTTTAAATAAAGTTTTGATTTTTTTTAACTATTTTAAAATAAAAGTTTGAATTTTTAAGTA
* *
206727 AAGTAATGATTTTCATTAAAAAATAAAGAAAGTTTTTATTTTTAAAAAATAAAAATCT-ATTTTT
66 AAGTAATGATTTTCATT-AAAAA-AAAGAAAGTTTATATTTTT-AAAAATAAAAATATGATTTTT
* *
206791 TAGTTATTTTAAAGAAAAAGTTT
128 TAGTTATTTTAAAGAAAAAATTA
* *
206814 AAATTTTTAAATAAAGTTTTGA-TTTTTTCAACTATTTTGAAATAAAAGTTTTG-ATTTTTAAGT
1 AAATTTTTAAATAAAGTTTTGATTTTTTTTAACTATTTTAAAATAAAAG-TTTGAATTTTTAAGT
*
206877 AGAGTA
65 AAAGTA
206883 GTGTTTTTTA
Statistics
Matches: 200, Mismatches: 15, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
149 37 0.19
150 37 0.19
151 44 0.22
152 69 0.34
153 13 0.06
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.46
Consensus pattern (150 bp):
AAATTTTTAAATAAAGTTTTGATTTTTTTTAACTATTTTAAAATAAAAGTTTGAATTTTTAAGTA
AAGTAATGATTTTCATTAAAAAAAAGAAAGTTTATATTTTTAAAAATAAAAATATGATTTTTTAG
TTATTTTAAAGAAAAAATTA
Found at i:206939 original size:19 final size:21
Alignment explanation
Indices: 206894--206940 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 21
206884 TGTTTTTTAG
206894 TGATTTTAAAGAAAAAAGTTT
1 TGATTTTAAAGAAAAAAGTTT
** *
206915 AAATTTT-AA-AACAAAGTTT
1 TGATTTTAAAGAAAAAAGTTT
206934 TGATTTT
1 TGATTTT
206941 TTTAATTATT
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
19 14 0.67
20 2 0.10
21 5 0.24
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.43
Consensus pattern (21 bp):
TGATTTTAAAGAAAAAAGTTT
Found at i:206939 original size:101 final size:100
Alignment explanation
Indices: 206786--206991 Score: 313
Period size: 101 Copynumber: 2.0 Consensus size: 100
206776 TAAAAATCTA
* * *
206786 TTTTTTAGTTATTTTAAAGAAAAAGTTTAAATTTTTAAATAAAGTTTTGATTTTTTCAACTATTT
1 TTTTTTAGTGATTTTAAAGAAAAAGTTTAAATTTTAAAACAAAGTTTTGATTTTTTCAACTATTT
* * * *
206851 TGAAATAAAAGTTTTGATTTTTAAGTAGAGTAGTG
66 CGAAATAAAAGTTTTGATTTTGAAATAAAGTAGTG
* *
206886 TTTTTTAGTGATTTTAAAGAAAAAAGTTTAAATTTTAAAACAAAGTTTTGATTTTTTTAATTATT
1 TTTTTTAGTGATTTTAAAG-AAAAAGTTTAAATTTTAAAACAAAGTTTTGATTTTTTCAACTATT
206951 TCGAAATAAAAGTTTTGATTTTGAAATAAAGTAGTG
65 TCGAAATAAAAGTTTTGATTTTGAAATAAAGTAGTG
*
206987 ATTTT
1 TTTTT
206992 GTTTTAATCA
Statistics
Matches: 95, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
100 18 0.19
101 77 0.81
ACGTcount: A:0.37, C:0.02, G:0.13, T:0.48
Consensus pattern (100 bp):
TTTTTTAGTGATTTTAAAGAAAAAGTTTAAATTTTAAAACAAAGTTTTGATTTTTTCAACTATTT
CGAAATAAAAGTTTTGATTTTGAAATAAAGTAGTG
Found at i:206942 original size:152 final size:152
Alignment explanation
Indices: 206504--206998 Score: 492
Period size: 152 Copynumber: 3.3 Consensus size: 152
206494 TATTTTTTAG
* * *
206504 AAAAGTTTAAATTTTTAAACAAAGTTTTGATTTTTTTTTAACTATTTCAAAATAAAAGTTTAGAT
1 AAAAGTTTAAATTTTTAAATAAAGTTTTGA-TTTTTTTTAACTATTTTAAAATAAAAGTTTTGAT
* * * * *
206569 TTTTAA--AAAAT-TTGTGATTTT-CATTAAAAAGAAGAAAGTTTATATTTTTAAAAATAAAAAT
65 TTTTAAGTAAAGTAATGT-TTTTTATATTAAAAAGAAAAAAGTTTA-ATTTTTAAAAATAAAAAT
206630 ATG-TTTTTTTAGTTATTTTAAAGA
128 ATGATTTTTTTAGTTATTTTAAAGA
* *
206654 AAAAATTAAAATTTTTAAATAAAGTTTTGATTTTTTTTAACTATTTTAAAATAAAAG-TTTGAAT
1 AAAAGTTTAAATTTTTAAATAAAGTTTTGATTTTTTTTAACTATTTTAAAATAAAAGTTTTG-AT
* * * * *
206718 TTTTAAGTAAAGTAATGATTTTCAT-TAAAAAATAAAGAAAGTTTTTATTTTTAAAAAATAAAAA
65 TTTTAAGTAAAGTAATGTTTTTTATATTAAAAAGAAA-AAAG-TTTAATTTTT-AAAAATAAAAA
*
206782 TCT-A-TTTTTTAGTTATTTTAAAGA
127 TATGATTTTTTTAGTTATTTTAAAGA
* *
206806 AAAAGTTTAAATTTTTAAATAAAGTTTTGA-TTTTTTCAACTATTTTGAAATAAAAGTTTTGATT
1 AAAAGTTTAAATTTTTAAATAAAGTTTTGATTTTTTTTAACTATTTTAAAATAAAAGTTTTGATT
* * ** * * ** *
206870 TTTAAGTAGAGTAGTGTTTTTTAGTGATTTTAAAGAAAAAAGTTTAAATTTT-AAAACAAAGTTT
66 TTTAAGTAAAGTAATGTTTTTTA-T-ATTAAAAAGAAAAAAGTTTAATTTTTAAAAATAAAAATA
* * *
206934 TGATTTTTTTAATTATTTCGAAA-T
129 TGATTTTTTTAGTTATTT-TAAAGA
** * **
206958 AAAAGTTTTGATTTTGAAATAAAGTAGTGATTTTGTTTTAA
1 AAAAGTTTAAATTTTTAAATAAAGTTTTGATTTT-TTTTAA
206999 TCAAAAGAAA
Statistics
Matches: 284, Mismatches: 43, Indels: 32
0.79 0.12 0.09
Matches are distributed among these distances:
148 3 0.01
149 34 0.12
150 36 0.13
151 62 0.22
152 111 0.39
153 26 0.09
154 12 0.04
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (152 bp):
AAAAGTTTAAATTTTTAAATAAAGTTTTGATTTTTTTTAACTATTTTAAAATAAAAGTTTTGATT
TTTAAGTAAAGTAATGTTTTTTATATTAAAAAGAAAAAAGTTTAATTTTTAAAAATAAAAATATG
ATTTTTTTAGTTATTTTAAAGA
Found at i:208448 original size:240 final size:240
Alignment explanation
Indices: 208025--208504 Score: 827
Period size: 240 Copynumber: 2.0 Consensus size: 240
208015 TAAATCATAA
* *
208025 TAATGATAAAAGATCGAATAAGTTATAGATGAATTTTAATGTTTCTCTTAATTCATTAGTATTTT
1 TAATGATAAAAGATCGAATAAGTTATAGATGAATTTTAATATTTCTCTTAATTCATTAGTATATT
*
208090 TTTTTAGGTCTTTTTAGGATTCTAAAATAGAACTAATTTTAAGAATTGAAAGTATTTTACCAGAA
66 TTTTTAGGTCTTTTTAAGATTCTAAAATAGAACTAATTTTAAGAATTGAAAGTATTTTACCAGAA
*
208155 TTATTTAGGTATCTTTTAGGGTTCTTATTAGGAGTAAAAACCTCTAATTTAAGTTTTAAATTAGA
131 TTATTTAGGTATCCTTTAGGGTTCTTATTAGGAGTAAAAACCTCTAATTTAAGTTTTAAATTAGA
208220 TAAGTTTGGTGAACATGTCTTAGTCAAGATACAAGTAAATCGGAG
196 TAAGTTTGGTGAACATGTCTTAGTCAAGATACAAGTAAATCGGAG
* *
208265 TAATGATAAAAGATTGAATAAGTTGTAGATGAATTTTAATATTTCTCTTAATTCATTAGTA-ATT
1 TAATGATAAAAGATCGAATAAGTTATAGATGAATTTTAATATTTCTCTTAATTCATTAGTATATT
* * *
208329 TTTTTAGGTTTTTTTTAAGATTCTAAAATAGAATTAATTTTAAGAATTGAAAGTATTTTACTAGA
66 TTTTTAGG-TCTTTTTAAGATTCTAAAATAGAACTAATTTTAAGAATTGAAAGTATTTTACCAGA
* *
208394 ATTATTTAGGTATCCTTTAGGGTTTTTATTAGGAGTAAAAATCTCTAATTTAAGTTTTAAATTAG
130 ATTATTTAGGTATCCTTTAGGGTTCTTATTAGGAGTAAAAACCTCTAATTTAAGTTTTAAATTAG
* *
208459 ATAAGTTTGGTGAACATGTCTTAGTCAAGTTACAAGTAAATTGGAG
195 ATAAGTTTGGTGAACATGTCTTAGTCAAGATACAAGTAAATCGGAG
208505 GCATTTTTTA
Statistics
Matches: 226, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
239 10 0.04
240 216 0.96
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.42
Consensus pattern (240 bp):
TAATGATAAAAGATCGAATAAGTTATAGATGAATTTTAATATTTCTCTTAATTCATTAGTATATT
TTTTTAGGTCTTTTTAAGATTCTAAAATAGAACTAATTTTAAGAATTGAAAGTATTTTACCAGAA
TTATTTAGGTATCCTTTAGGGTTCTTATTAGGAGTAAAAACCTCTAATTTAAGTTTTAAATTAGA
TAAGTTTGGTGAACATGTCTTAGTCAAGATACAAGTAAATCGGAG
Found at i:211008 original size:24 final size:25
Alignment explanation
Indices: 210965--211021 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
210955 TACTCCTTTC
**
210965 TTCTCTCTCTCTTCTTTCTTTCTT-
1 TTCTCTCTCTCTTCACTCTTTCTTA
* *
210989 TTCTCTTTCTCTTCACTCTTTTTTA
1 TTCTCTCTCTCTTCACTCTTTCTTA
211014 TTCTCTCT
1 TTCTCTCT
211022 TTCTCCTATC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 20 0.74
25 7 0.26
ACGTcount: A:0.04, C:0.32, G:0.00, T:0.65
Consensus pattern (25 bp):
TTCTCTCTCTCTTCACTCTTTCTTA
Found at i:212662 original size:50 final size:50
Alignment explanation
Indices: 212587--212687 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
212577 TTGACACCAA
212587 CTATAAAGCAAAACATACCCTAAATCATTCCAAAGCTTGTATTTGTCATT
1 CTATAAAGCAAAACATACCCTAAATCATTCCAAAGCTTGTATTTGTCATT
*
212637 CTATAAAGCAAAACATGCCCTAAATCATTCCAAAGCTTGTATTTGTCATT
1 CTATAAAGCAAAACATACCCTAAATCATTCCAAAGCTTGTATTTGTCATT
212687 C
1 C
212688 ATCTTTCCTT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.37, C:0.23, G:0.09, T:0.32
Consensus pattern (50 bp):
CTATAAAGCAAAACATACCCTAAATCATTCCAAAGCTTGTATTTGTCATT
Found at i:214635 original size:24 final size:24
Alignment explanation
Indices: 214608--214757 Score: 77
Period size: 24 Copynumber: 6.2 Consensus size: 24
214598 CGTTGAATCA
* *
214608 CGTAAATGTGTACAAGTTGACAAG
1 CGTAAATGTATACAAGCTGACAAG
* *
214632 CGTAAATTTATATAAGCTGACAAG
1 CGTAAATGTATACAAGCTGACAAG
* * * * * **
214656 CATAGACGTGTGCAAGCTGATGAG
1 CGTAAATGTATACAAGCTGACAAG
* * *
214680 CGTAAACGTATATAAGCTGACGAG
1 CGTAAATGTATACAAGCTGACAAG
* ** * * *
214704 AGTAAACATGTGCAAGCTGACGAG
1 CGTAAATGTATACAAGCTGACAAG
* **
214728 TGTAAATGTAT-CTAAGCTGATGAG
1 CGTAAATGTATAC-AAGCTGACAAG
214752 CGTAAA
1 CGTAAA
214758 CGTGTGCAAG
Statistics
Matches: 95, Mismatches: 30, Indels: 2
0.75 0.24 0.02
Matches are distributed among these distances:
23 1 0.01
24 94 0.99
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (24 bp):
CGTAAATGTATACAAGCTGACAAG
Found at i:214692 original size:48 final size:48
Alignment explanation
Indices: 214610--214788 Score: 182
Period size: 48 Copynumber: 3.7 Consensus size: 48
214600 TTGAATCACG
* * * * ** *
214610 TAAATGTGTACAAGTTGACAAGCGTAAATTTATATAAGCTGACAAGCA
1 TAAACGTGTGCAAGCTGACGAGCGTAAACGTATATAAGCTGACGAGCA
* *
214658 TAGACGTGTGCAAGCTGATGAGCGTAAACGTATATAAGCTGACGAG-A
1 TAAACGTGTGCAAGCTGACGAGCGTAAACGTATATAAGCTGACGAGCA
* * * * * *
214705 GTAAACATGTGCAAGCTGACGAGTGTAAATGTATCTAAGCTGATGAGCG
1 -TAAACGTGTGCAAGCTGACGAGCGTAAACGTATATAAGCTGACGAGCA
*
214754 TAAACGTGTGCAAGCT-AGCGAGCGTAAACGCATAT
1 TAAACGTGTGCAAGCTGA-CGAGCGTAAACGTATAT
214789 GAGTTGATAT
Statistics
Matches: 106, Mismatches: 22, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
47 2 0.02
48 104 0.98
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (48 bp):
TAAACGTGTGCAAGCTGACGAGCGTAAACGTATATAAGCTGACGAGCA
Found at i:214768 original size:24 final size:24
Alignment explanation
Indices: 214645--214783 Score: 129
Period size: 24 Copynumber: 5.8 Consensus size: 24
214635 AAATTTATAT
* * *
214645 AAGCTGACAAGCATAGACGTGTGC
1 AAGCTGACGAGCGTAAACGTGTGC
* * **
214669 AAGCTGATGAGCGTAAACGTATAT
1 AAGCTGACGAGCGTAAACGTGTGC
* *
214693 AAGCTGACGAGAGTAAACATGTGC
1 AAGCTGACGAGCGTAAACGTGTGC
* * *
214717 AAGCTGACGAGTGTAAATGTAT-C
1 AAGCTGACGAGCGTAAACGTGTGC
*
214740 TAAGCTGATGAGCGTAAACGTGTGC
1 -AAGCTGACGAGCGTAAACGTGTGC
214765 AAGCT-AGCGAGCGTAAACG
1 AAGCTGA-CGAGCGTAAACG
214784 CATATGAGTT
Statistics
Matches: 90, Mismatches: 22, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
23 2 0.02
24 87 0.97
25 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.20
Consensus pattern (24 bp):
AAGCTGACGAGCGTAAACGTGTGC
Found at i:215493 original size:21 final size:22
Alignment explanation
Indices: 215469--215511 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
215459 CGGTAGTTCT
* *
215469 CATACTTGTATCGGTAG-AAAC
1 CATACTTCTACCGGTAGCAAAC
215490 CATACTTCTACCGGTAGCAAAC
1 CATACTTCTACCGGTAGCAAAC
215512 TGCAGTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (22 bp):
CATACTTCTACCGGTAGCAAAC
Found at i:221825 original size:80 final size:80
Alignment explanation
Indices: 221681--221843 Score: 204
Period size: 80 Copynumber: 2.0 Consensus size: 80
221671 TCTTTACTAT
* * *
221681 CAACCAAAACTGTCAATTCATGGCTCCTAGTGCCTAATGGATAAACCGTAGTAAGTAAGACTAGC
1 CAACCAAAACTGTCAATTCATGGCACCCAGTGCCTAATGGATAAACCGGAGTAAGTAAGACTAGC
*
221746 TCTAGCTGGATTAAC
66 TCTAGCTAGATTAAC
* * * * *
221761 CAACGAAATCTGTCAATTCATGGCACCCAGTGCCTAGCT-GATAAGCCGCGA-TAAGTAAGCCTA
1 CAACCAAAACTGTCAATTCATGGCACCCAGTGCCTA-ATGGATAAACCG-GAGTAAGTAAGACTA
*
221824 GCTCTAGTTAGATTAAC
64 GCTCTAGCTAGATTAAC
221841 CAA
1 CAA
221844 TGATTTTGCA
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
80 69 0.97
81 2 0.03
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (80 bp):
CAACCAAAACTGTCAATTCATGGCACCCAGTGCCTAATGGATAAACCGGAGTAAGTAAGACTAGC
TCTAGCTAGATTAAC
Found at i:222017 original size:81 final size:81
Alignment explanation
Indices: 221880--222029 Score: 198
Period size: 81 Copynumber: 1.9 Consensus size: 81
221870 TAAATCGATG
* *
221880 ATCTTGGCACCTAGTGTCTAGCGGATAAACCGTAGAAGTGAGCCTAACTCTAGTTGGTTTAACCA
1 ATCTTGGCACCTAGTGCCTAGCGAATAAACCGTAGAAGTGAGCCTAACTCTAGTTGGTTTAACCA
221945 ACGAATAATCCATCAA
66 ACGAATAATCCATCAA
* * * *
221961 ATCTTGGCACCTAGTGCCTAGC-AATTGAACCG-CGATAGTGAGACC-AGCTCTGGTTGGTTTAA
1 ATCTTGGCACCTAGTGCCTAGCGAA-TAAACCGTAGA-AGTGAG-CCTAACTCTAGTTGGTTTAA
222023 CCAACGA
63 CCAACGA
222030 GTACTATACA
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
80 3 0.05
81 55 0.92
82 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.25
Consensus pattern (81 bp):
ATCTTGGCACCTAGTGCCTAGCGAATAAACCGTAGAAGTGAGCCTAACTCTAGTTGGTTTAACCA
ACGAATAATCCATCAA
Found at i:224207 original size:24 final size:24
Alignment explanation
Indices: 224175--224423 Score: 273
Period size: 24 Copynumber: 10.4 Consensus size: 24
224165 CGTTGAATCA
* * * *
224175 CGTAAACGTGTGCAAGCTAACAAG
1 CGTAAACGTATACAAGCTGACGAG
224199 CGTAAACGTATACAAGCTGACGAG
1 CGTAAACGTATACAAGCTGACGAG
* *
224223 CGTAAACGTATATAAGTTGACGAG
1 CGTAAACGTATACAAGCTGACGAG
*
224247 CGTAAATGTATACAAGCTGACGAG
1 CGTAAACGTATACAAGCTGACGAG
* *
224271 CGTAAACGTATATAAGCTGACAAG
1 CGTAAACGTATACAAGCTGACGAG
* * *
224295 CGTAAACGTGTGCAAGATGACGAG
1 CGTAAACGTATACAAGCTGACGAG
* * *
224319 CGTAAATGTATATAAGTTGACGAG
1 CGTAAACGTATACAAGCTGACGAG
* * * * *
224343 CATAAACGTGTGCAAGCAGACGAA
1 CGTAAACGTATACAAGCTGACGAG
* * *
224367 CATAAACGTGTGCAAGCTGACGAG
1 CGTAAACGTATACAAGCTGACGAG
* *
224391 CGTAAACGTATATAAGATGACGAG
1 CGTAAACGTATACAAGCTGACGAG
224415 CGTAAACGT
1 CGTAAACGT
224424 GTGCAAGTTG
Statistics
Matches: 188, Mismatches: 37, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 188 1.00
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.20
Consensus pattern (24 bp):
CGTAAACGTATACAAGCTGACGAG
Found at i:225150 original size:21 final size:21
Alignment explanation
Indices: 225126--225175 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
225116 TGCTTGTATC
225126 GGTAGAAATCATATTTCTACT
1 GGTAGAAATCATATTTCTACT
225147 GGTAGAAATCATATTTCTACT
1 GGTAGAAATCATATTTCTACT
225168 GGTAGAAA
1 GGTAGAAA
225176 ATTGTAGCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (21 bp):
GGTAGAAATCATATTTCTACT
Found at i:225200 original size:18 final size:18
Alignment explanation
Indices: 225177--225214 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
225167 TGGTAGAAAA
225177 TTGTAGCTTTTCTCACTT
1 TTGTAGCTTTTCTCACTT
225195 TTGTAGCTTTTCTCACTT
1 TTGTAGCTTTTCTCACTT
225213 TT
1 TT
225215 TTTTTGGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.11, C:0.21, G:0.11, T:0.58
Consensus pattern (18 bp):
TTGTAGCTTTTCTCACTT
Found at i:227451 original size:3 final size:3
Alignment explanation
Indices: 227443--227499 Score: 69
Period size: 3 Copynumber: 19.0 Consensus size: 3
227433 TCGTCATGGA
* * * * *
227443 GAT GAT GAT AAT GAT GGT GAT GGT GAT GAT CAT GAT CAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
227491 GAT GAT GAT
1 GAT GAT GAT
227500 AGACCACAAG
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.04, G:0.32, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:230058 original size:24 final size:24
Alignment explanation
Indices: 229997--230058 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
229987 CAAACTAATA
* * *
229997 AGAGTTTGACTCAAACAACTAAAC
1 AGAGTTTAACTGAAACAAATAAAC
* *
230021 ATAGTTTAATTGAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
230045 AGAGTTTAACTGAA
1 AGAGTTTAACTGAA
230059 TGATTATTTC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.26
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:230541 original size:39 final size:38
Alignment explanation
Indices: 230463--230538 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
230453 GAATATAAAG
*
230463 ACTTCCGGTTTTTTTACCTTTTAACAAAATGAGAGCCC
1 ACTTCCGGTCTTTTTACCTTTTAACAAAATGAGAGCCC
230501 ACTTCCGGTCTTTTTACCTTTTAACAAAATGAGAGCCC
1 ACTTCCGGTCTTTTTACCTTTTAACAAAATGAGAGCCC
230539 CACGAGACAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (38 bp):
ACTTCCGGTCTTTTTACCTTTTAACAAAATGAGAGCCC
Found at i:239917 original size:24 final size:23
Alignment explanation
Indices: 239857--239926 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
239847 TTTATTTAAC
* *
239857 TTAATCGAACATGTTCACGAACA
1 TTAATTGAACATGTTCATGAACA
* *
239880 TTAAATGAACATGTTCATGAATA
1 TTAATTGAACATGTTCATGAACA
*
239903 TATAATTGAACATGTTCATAAACA
1 T-TAATTGAACATGTTCATGAACA
239927 AGATTAATGA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
23 20 0.51
24 19 0.49
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.31
Consensus pattern (23 bp):
TTAATTGAACATGTTCATGAACA
Found at i:244424 original size:3 final size:3
Alignment explanation
Indices: 244416--244457 Score: 75
Period size: 3 Copynumber: 13.7 Consensus size: 3
244406 GTTCATATGC
244416 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TA
244458 GTTGTTTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:244467 original size:11 final size:10
Alignment explanation
Indices: 244416--244516 Score: 70
Period size: 9 Copynumber: 9.8 Consensus size: 10
244406 GTTCATATGC
244416 TATTATTA-T
1 TATTATTATT
244425 TATTATTA-T
1 TATTATTATT
244434 TATTATTA-T
1 TATTATTATT
244443 TATTATTATT
1 TATTATTATT
*
244453 TATTAGTTGTT
1 TATTA-TTATT
244464 TATT-TTGACATT
1 TATTATT---ATT
244476 TAATTTATTATT
1 T-A-TTATTATT
244488 T-TGT-TTATT
1 TAT-TATTATT
244497 TATCTATTTATT
1 TAT-TA-TTATT
244509 TATTATTA
1 TATTATTA
244517 AATTTTTTGT
Statistics
Matches: 77, Mismatches: 3, Indels: 23
0.75 0.03 0.22
Matches are distributed among these distances:
9 35 0.45
10 12 0.16
11 10 0.13
12 15 0.19
13 1 0.01
14 2 0.03
15 2 0.03
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (10 bp):
TATTATTATT
Found at i:244509 original size:28 final size:27
Alignment explanation
Indices: 244448--244515 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 27
244438 ATTATTATTA
*
244448 TTATTTATTA-GTTGTTTATTTTGACAT
1 TTATTTATTATTTTGTTTATTTT-ACAT
244475 TTAATTTATTATTTTGTTTA-TTTATCTAT
1 TT-ATTTATTATTTTGTTTATTTTA-C-AT
244504 TTATTTATTATT
1 TTATTTATTATT
244516 AAATTTTTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
27 3 0.08
28 22 0.61
29 11 0.31
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.68
Consensus pattern (27 bp):
TTATTTATTATTTTGTTTATTTTACAT
Found at i:244808 original size:18 final size:18
Alignment explanation
Indices: 244785--244819 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
244775 TACTATGATT
* *
244785 ATATTGTTATTTTATTTA
1 ATATTGTAATTATATTTA
244803 ATATTGTAATTATATTT
1 ATATTGTAATTATATTT
244820 GTATTGTGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (18 bp):
ATATTGTAATTATATTTA
Found at i:244835 original size:23 final size:24
Alignment explanation
Indices: 244809--244862 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
244799 TTTAATATTG
*
244809 TAATTATATTTGTATTGTGTT-A-T
1 TAATTATATTTG-ATTGTCTTCATT
*
244832 TAATTGTATTTGATTGTCTTCATT
1 TAATTATATTTGATTGTCTTCATT
244856 TAATTAT
1 TAATTAT
244863 TTATATTCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 7 0.27
23 12 0.46
24 7 0.27
ACGTcount: A:0.26, C:0.04, G:0.11, T:0.59
Consensus pattern (24 bp):
TAATTATATTTGATTGTCTTCATT
Done.