Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1284
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: 78964
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Found at i:13604 original size:18 final size:18
Alignment explanation
Indices: 13581--13629 Score: 82
Period size: 17 Copynumber: 2.8 Consensus size: 18
13571 TGGTGGCCAA
13581 GTCGAATCCTCCACATAT
1 GTCGAATCCTCCACATAT
*
13599 GTCGAATCCT-CGCATAT
1 GTCGAATCCTCCACATAT
13616 GTCGAATCCTCCAC
1 GTCGAATCCTCCAC
13630 CTACTAGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 16 0.57
18 12 0.43
ACGTcount: A:0.24, C:0.35, G:0.14, T:0.27
Consensus pattern (18 bp):
GTCGAATCCTCCACATAT
Found at i:13866 original size:62 final size:62
Alignment explanation
Indices: 13777--14326 Score: 646
Period size: 62 Copynumber: 8.8 Consensus size: 62
13767 TTTTTCCTTT
* ** * *
13777 GTCCTCAAAGAGCATGACGCCTTTTCCTTTT-AAAGCCCACATGAGCTGGTGGCACCTTTTTA
1 GTCCTCAAAGAGCAAGACGCCTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACC-TTCTA
* * * *
13839 GTCCTCAAAGAGCAGGATGCCTTTTCC-TTTCAAAGCCCACATAAATTGGTGGCACCTTTCTA
1 GTCCTCAAAGAGCAAGACGCCTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACC-TTCTA
* * *
13901 GTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACC-TCTTA
1 GTCCTCAAAGAGCAAGACGCCTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTC-TA
* * *
13963 GTCCTCAAAGAGCAAGACGTCTTTGT-CTTTTCAAAGCCCACACAAGCTGGTGGCACCTTTTA
1 GTCCTCAAAGAGCAAGACGCCTTT-TCCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTA
* *
14025 GTCCTCAAAGAGCAGGACGACTTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTCTA
1 GTCCTCAAAGAGCAAGACG-CCTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACC-TTCTA
* * * * *
14088 GTCCTCAAAGAACAGGATGCCTTTTTCTTTTCGAAGCCCACACAAGTTGGTGGCACCTTCTA
1 GTCCTCAAAGAGCAAGACGCCTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTA
* * * * * * *
14150 GTCCTCAAAAAACAAGATGCCTTTTTCTTTTCGAAGCCCATATAAGTTGGTGGCACCCTT-TA
1 GTCCTCAAAGAGCAAGACGCCTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCA-CCTTCTA
* * * * * *
14212 GTCTTCAAAGAGCAAGACGCCTTTTTCATTTCGAGGCCCATACAAGTTGGTGGCACCTTTCTA
1 GTCCTCAAAGAGCAAGACGCCTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACC-TTCTA
*
14275 GTCCTCAAAGAGCAAGACGCCTTTTTCTTTTCAAAGCCCACACGAA-TTGGTG
1 GTCCTCAAAGAGCAAGACGCCTTTTCCTTTTCAAAGCCCACAC-AAGTTGGTG
14327 TCTATTTGTC
Statistics
Matches: 433, Mismatches: 42, Indels: 25
0.87 0.08 0.05
Matches are distributed among these distances:
61 7 0.02
62 292 0.67
63 132 0.30
64 2 0.00
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (62 bp):
GTCCTCAAAGAGCAAGACGCCTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTA
Found at i:14014 original size:125 final size:125
Alignment explanation
Indices: 13777--14326 Score: 700
Period size: 125 Copynumber: 4.4 Consensus size: 125
13767 TTTTTCCTTT
* * ** * *
13777 GTCCTCAAAGAGCATGACGCCTTTTCCTTTT-AAAGCCCACATGAGCTGGTGGCACCTTTTTAGT
1 GTCCTCAAAGAGCAAGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACC-TCTTAGT
* * * * *
13841 CCTCAAAGAGCAGGATGCC-TTTTCCTTTCAAAGCCCACATAAATTGGTGGCACCTTTCTA
65 CCTCAAAGAGCAAGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCTA
* *
13901 GTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTCTTAGTC
1 GTCCTCAAAGAGCAAGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTCTTAGTC
* * *
13966 CTCAAAGAGCAAGACGTCTTTGTCTTTTCAAAGCCCACACAAGCTGGTGGCACCTTT-TA
66 CTCAAAGAGCAAGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCTA
* * *
14025 GTCCTCAAAGAGCAGGACGACTTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTCTAG
1 GTCCTCAAAGAGCAAGACGCCTTTTT-CTTTTCAAAGCCCACACAAGTTGGTGGCACCTCT-TAG
* * * *
14089 TCCTCAAAGAACAGGATGCCTTTTTCTTTTCGAAGCCCACACAAGTTGGTGGCACC-TTCTA
64 TCCTCAAAGAGCAAGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCTA
* * * * * *
14150 GTCCTCAAAAAACAAGATGCCTTTTTCTTTTCGAAGCCCATATAAGTTGGTGGCACC-CTTTAGT
1 GTCCTCAAAGAGCAAGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTC-TTAGT
* * * * *
14214 CTTCAAAGAGCAAGACGCCTTTTTCATTTCGAGGCCCATACAAGTTGGTGGCACCTTTCTA
65 CCTCAAAGAGCAAGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCTA
14275 GTCCTCAAAGAGCAAGACGCCTTTTTCTTTTCAAAGCCCACACGAA-TTGGTG
1 GTCCTCAAAGAGCAAGACGCCTTTTTCTTTTCAAAGCCCACAC-AAGTTGGTG
14327 TCTATTTGTC
Statistics
Matches: 370, Mismatches: 47, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
124 162 0.44
125 206 0.56
126 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (125 bp):
GTCCTCAAAGAGCAAGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTCTTAGTC
CTCAAAGAGCAAGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCTA
Found at i:14091 original size:187 final size:185
Alignment explanation
Indices: 13777--14326 Score: 764
Period size: 187 Copynumber: 2.9 Consensus size: 185
13767 TTTTTCCTTT
* *
13777 GTCCTCAAAGAGCATGACGCCTTTTCCTTTT-AAAGCCCACATGAGCTGGTGGCACCTTTTTAGT
1 GTCCTCAAAGAGCAAGACGCCTTTT-CTTTTCAAAGCCCACATAAGCTGGTGGCACC-TTTTAGT
* * * *
13841 CCTCAAAGAGCAGGATGCCTTTTCCTTTCAAAGCCCACATAAATTGGTGGCACCTTTCTAGTCCT
64 CCTCAAAGAGCAGGACGCTTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCTAGTCCT
*
13906 CAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACC-TCTTA
129 CAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTC-TA
* *
13963 GTCCTCAAAGAGCAAGACGTCTTTGTCTTTTCAAAGCCCACACAAGCTGGTGGCACCTTTTAGTC
1 GTCCTCAAAGAGCAAGACGCCTTT-TCTTTTCAAAGCCCACATAAGCTGGTGGCACCTTTTAGTC
*
14028 CTCAAAGAGCAGGACGACTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCTAGTCCT
65 CTCAAAGAGCAGGACG-CTTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCTAGTCCT
* * *
14093 CAAAGAACAGGATGCCTTTTTCTTTTCGAAGCCCACACAAGTTGGTGGCACCTTCTA
129 CAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTA
* * * * * * *
14150 GTCCTCAAAAAACAAGATGCCTTTTTCTTTTCGAAGCCCATATAAGTTGGTGGCACCCTTTAGTC
1 GTCCTCAAAGAGCAAGACGCC-TTTTCTTTTCAAAGCCCACATAAGCTGGTGGCACCTTTTAGTC
* * * * * *
14215 TTCAAAGAGCAAGACGCCTTTTTCATTTCGAGGCCCATACAAGTTGGTGGCACCTTTCTAGTCCT
65 CTCAAAGAGCAGGACG-CTTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCTAGTCCT
*
14280 CAAAGAGCAAGACGCCTTTTTCTTTTCAAAGCCCACACGAA-TTGGTG
129 CAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACAC-AAGTTGGTG
14327 TCTATTTGTC
Statistics
Matches: 324, Mismatches: 34, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
186 50 0.15
187 267 0.82
188 7 0.02
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (185 bp):
GTCCTCAAAGAGCAAGACGCCTTTTCTTTTCAAAGCCCACATAAGCTGGTGGCACCTTTTAGTCC
TCAAAGAGCAGGACGCTTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCTAGTCCTCA
AAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTA
Found at i:15989 original size:42 final size:41
Alignment explanation
Indices: 15913--16023 Score: 134
Period size: 42 Copynumber: 2.6 Consensus size: 41
15903 GAAATAAAAA
15913 GCATCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAACGAAA-T
1 GCATCCTGCTCTTTGAGGACAAA--AGAAAAGGAAAA-GAAAGT
* * *
15956 GCATCCTACGCTTTGAGGACAAAAGAAAGAGGAAAATAAAGT
1 GCATCCTGCTCTTTGAGGACAAAAGAAA-AGGAAAAGAAAGT
* *
15998 GCGTCCTGCTCTTTGACGACAAAAGA
1 GCATCCTGCTCTTTGAGGACAAAAGA
16024 GGAAAGAAGG
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
41 8 0.14
42 30 0.51
43 21 0.36
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (41 bp):
GCATCCTGCTCTTTGAGGACAAAAGAAAAGGAAAAGAAAGT
Found at i:16142 original size:62 final size:60
Alignment explanation
Indices: 16069--16251 Score: 205
Period size: 62 Copynumber: 3.1 Consensus size: 60
16059 GGATAAAGGA
* * *
16069 GAAAAGGAAAAGACATCCTGCTCATTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
1 GAAAA-GAAAAG-CATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * *
16131 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTGGAGGGTGCTACCAACTCGTGTGGGCTTT
1 GAAAAG-AAAA-GCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
* *
16193 -AAAAG----GCATCCTACTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
1 GAAAAGAAAAGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
16248 GAAA
1 GAAA
16252 GGTGTCCTGC
Statistics
Matches: 103, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
55 43 0.42
56 3 0.03
61 6 0.06
62 50 0.49
63 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.24
Consensus pattern (60 bp):
GAAAAGAAAAGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:16227 original size:55 final size:55
Alignment explanation
Indices: 16138--16278 Score: 178
Period size: 55 Copynumber: 2.6 Consensus size: 55
16128 TTTGAAAAGA
* * * *
16138 AAAAGGCGTCCTGCTCTTTGAGGACTGGAGGGTGCTACCAACTCGTGTGGGCTTT
1 AAAAGGCGTCCTGCTCTTTAAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTT
* * *
16193 AAAAGGCATCCTACTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGGCGTCCTGCTCTTTAAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTT
* *
16248 GAAAGGTGTCCTGCTCTTTGAA-GACT-AAAGG
1 AAAAGGCGTCCTGCTCTTT-AAGGACTGAAAGG
16279 GGGAAAGGAG
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
54 5 0.07
55 67 0.91
56 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (55 bp):
AAAAGGCGTCCTGCTCTTTAAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTT
Found at i:16419 original size:155 final size:154
Alignment explanation
Indices: 16143--17527 Score: 1288
Period size: 155 Copynumber: 8.7 Consensus size: 154
16133 AAAGAAAAAG
* * * * *
16143 GCGTCCTGCTCTTTGAGGACTGGAGGGTGCTACCAACTCGTGTGGGCTTT------AAAAGGCAT
1 GCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCAT
* * **
16202 CCTACTCTTTAAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
66 CCTACTCTTTGAGGACTAG-AA-GTGCCACCAACTCGTGTGGGCTTTGAAAGACGTCCTGCTCTT
*
16266 TGAAGACTAAAGGGGGAAAGGAGAGA
129 TGAGGACTAAAGGGGGAAAGGAGAGA
* *
16292 GCGTCTTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCAT
1 GCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCAT
* * * *
16357 CCTACTCTTTGAGGACTAAGAAATGCCACCAACTCGTTTGGGGTTTGAAAGACGTCATGCTCTTT
66 CCTACTCTTTGAGGACT-AGAAGTGCCACCAACTCGTGTGGGCTTTGAAAGACGTCCTGCTCTTT
*
16422 GAGGACTAAATGGGGAAAGGAGAGA
130 GAGGACTAAAGGGGGAAAGGAGAGA
* * * *
16447 GTGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTAGGCTTTAAAAAGAATAGGCTT
1 GCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCAT
* * * *
16512 CCTGCTCTTTGAGGAGTGAGAAGTGCCACCAACTCCTGTGGGCTTTGAATGACGTCCTGCTCTTT
66 CCTACTCTTTGAGGACT-AGAAGTGCCACCAACTCGTGTGGGCTTTGAAAGACGTCCTGCTCTTT
* *
16577 GAGGACTAAAGGGTGAAAGGAGAGG
130 GAGGACTAAAGGGGGAAAGGAGAGA
* * * * * * * *
16602 GTGTCCTACTCTTTGAGGACTAAAAAGTGTCGCCAACTTGTGTGGGGTTTAAAAGGAGAAGGCAT
1 GCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCAT
* * * * * *
16667 CCTACTTTTTGAAGACTAGGAAGTGCCATCAACTTGTGTGGGCTTTAAAAGGGAAAAAAGTGTCC
66 CCTACTCTTTGAGGACTA-GAAGTGCCACCAACTCGTGTGGGCTTT------G-AAAGA-CGTCC
* * * * *
16732 TGCTCTTTAAGGACTAAACGGTGCCGCCAACTTGTGTGGGCTTTAAAA
122 TGCTCTTTGAGGACTAAA-GG-G--G-GAA----AG-GAG-----AGA
* * * * * *
16780 GGCATCCTGCTCTTTGAGGACTGGAGGGTGCTACCAACTCGTGTGGGCTTT------AAAAGGCA
1 -GCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCA
* * * * ** *
16839 TCTTGCTCTTTAAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCGGCTCT
65 TCCTACTCTTTGAGGACTAG-AA-GTGCCACCAACTCGTGTGGGCTTTGAAAGACGTCCTGCTCT
* *
16903 TTGAAGACTAAAGGGGGAAAAGAGAGA
128 TTGAGGACTAAAGGGGGAAAGGAGAGA
* * *
16930 GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGGGTGGGCTTTCAAAAGAAAAGGCAT
1 GCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCAT
*
16995 CCTACTCTTTGAGGACTAAGAAGTGCCACCAACTCGTGTGGGCTTTGAAAGACGTCATGCTCTTT
66 CCTACTCTTTGAGGACT-AGAAGTGCCACCAACTCGTGTGGGCTTTGAAAGACGTCCTGCTCTTT
*
17060 GAGGACTAAATGGGGAAAGGAGAGA
130 GAGGACTAAAGGGGGAAAGGAGAGA
* * *
17085 GTGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCTT
1 GCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCAT
* * * *
17150 CCTGCTCTTTGAGGAGTGAGAAGTGCCACCAACTCCTGTGGGCTTTGAACGACGTCCTGCTCTTT
66 CCTACTCTTTGAGGACT-AGAAGTGCCACCAACTCGTGTGGGCTTTGAAAGACGTCCTGCTCTTT
* *
17215 GAGGACTAAAGGGTGAAAGGAGAGG
130 GAGGACTAAAGGGGGAAAGGAGAGA
* * * * * *
17240 GCGTCCTACTCTTTGAGGACTAGAAAGTGCCGCCAACTTGTGTGGGGTTTAAAAGGAGAAGGCGT
1 GCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCAT
* * * *
17305 CCTACTCTTTGAGGACTGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGGAAAAAAGTGTCCT
66 CCTACTCTTTGAGGACTAGAAGTGCCACCAACTCGTGTGGGCTTT------G-AAAGA-CGTCCT
** * *
17370 GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA
123 GCTCTTTGAGGACT-AAAGG-GGGA--AA-----G-GAG-----AGA
* * * *
17417 GGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTAAAAAGAAAAGGCG
1 -GCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCA
* *
17482 TCCTTCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTT
65 TCCTACTCTTTGAGGACTAGAA-GTGCCACCAACTCGTGTGGGCTTT
17528 AAAAAGAAAA
Statistics
Matches: 1018, Mismatches: 150, Indels: 107
0.80 0.12 0.08
Matches are distributed among these distances:
149 89 0.09
150 2 0.00
154 26 0.03
155 612 0.60
156 4 0.00
157 2 0.00
160 3 0.00
161 5 0.00
162 22 0.02
163 27 0.03
164 6 0.01
165 21 0.02
166 5 0.00
167 1 0.00
168 2 0.00
171 2 0.00
172 5 0.00
173 45 0.04
177 3 0.00
178 98 0.10
179 38 0.04
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (154 bp):
GCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCAT
CCTACTCTTTGAGGACTAGAAGTGCCACCAACTCGTGTGGGCTTTGAAAGACGTCCTGCTCTTTG
AGGACTAAAGGGGGAAAGGAGAGA
Found at i:16671 original size:61 final size:62
Alignment explanation
Indices: 16605--16781 Score: 194
Period size: 63 Copynumber: 2.9 Consensus size: 62
16595 GGAGAGGGTG
* * * *
16605 TCCTACTCTTTGAGGACTAAAAAGTGTCGCCAACTTGTGTGGGGTTTAAAAGG-AGAAGGCA
1 TCCTACTCTTTGAGGACTAAAAAGTGCCGCCAACTTGTGTGGGCTTTAAAAGGAAAAAAGCA
* * ** ** **
16666 TCCTACTTTTTGAAGACTAGGAAGTGCCATCAACTTGTGTGGGCTTTAAAAGGGAAAAAAGTG
1 TCCTACTCTTTGAGGACTAAAAAGTGCCGCCAACTTGTGTGGGCTTTAAAA-GGAAAAAAGCA
* * **
16729 TCCTGCTCTTTAAGGACTAAACGGTGCCGCCAACTTGTGTGGGCTTTAAAAGG
1 TCCTACTCTTTGAGGACTAAAAAGTGCCGCCAACTTGTGTGGGCTTTAAAAGG
16782 CATCCTGCTC
Statistics
Matches: 92, Mismatches: 22, Indels: 3
0.79 0.19 0.03
Matches are distributed among these distances:
61 43 0.47
62 4 0.04
63 45 0.49
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.28
Consensus pattern (62 bp):
TCCTACTCTTTGAGGACTAAAAAGTGCCGCCAACTTGTGTGGGCTTTAAAAGGAAAAAAGCA
Found at i:16810 original size:55 final size:55
Alignment explanation
Indices: 16729--16916 Score: 238
Period size: 55 Copynumber: 3.4 Consensus size: 55
16719 GAAAAAAGTG
*
16729 TCCTGCTCTTTAAGGACT-AAACGGTGCCGCCAACTTGTGTGGGCTTTAAAAGGCA
1 TCCTGCTCTTTAAGGACTGAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
* * * * *
16784 TCCTGCTCTTTGAGGACTGGAGGGTGCTACCAACTCGTGTGGGCTTTAAAAGGCA
1 TCCTGCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
* * **
16839 TCTTGCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
*
16894 TCCGGCTCTTTGAA-GACT-AAAGG
1 TCCTGCTCTTT-AAGGACTGAAAGG
16917 GGGAAAAGAG
Statistics
Matches: 114, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
54 5 0.04
55 106 0.93
56 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (55 bp):
TCCTGCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
Found at i:17355 original size:60 final size:61
Alignment explanation
Indices: 17230--17935 Score: 862
Period size: 61 Copynumber: 11.6 Consensus size: 61
17220 CTAAAGGGTG
* * * * *
17230 AAAGGAGAGGGCGTCCTACTCTTTGAGGACTAGAAA-GTGCCGCCAACTTGTGTGGGGTTTA
1 AAAGGAAAAGGCGTCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTTA
* * **
17291 AAAGGAGAAGGCGTCCTACTCTTTGAGGACTGGAA-GTGCCACCAACTTGTGTGGGCTTTA
1 AAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTA
* *
17351 AAAGGGAAAAAAGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-
1 AAA-GG-AAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTA
*
17413 -----AAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTA
1 AAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTA
* *
17469 AAAAGAAAAGGCGTCCTTCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTA
1 AAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTA
* * *
17529 AAAAGAAAAGGCGTCCTGCTTTTTTGAGGACT-AAAGGTGCCACCAACTTGTGTTGGCTTTA
1 AAAGGAAAAGGCGTCCTGC-TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTA
* * *
17590 AAAGGAAGAGGTGTCCTGCTCTTTGAGGACTAAAAAAGTGCCACCAACTTGTGTGGGCTTTAA
1 AAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTT-A
* *
17653 AAAGAAAAAAGGCGTCCTGCTCTTTGAGGACTAGAGAA-GTGCCACCAACTCGTGTGGGCTTT-
1 AAAG-GAAAAGGCGTCCTGCTCTTTGAGGACTA-A-AAGGTGCCACCAACTTGTGTGGGCTTTA
* * * * * *
17715 GAAGGAGAAGGTGT-CTGGCTCCTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTA
1 AAAGGAAAAGGCGTCCT-GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTA
* * *
17776 AAAAGAAAAGGCATCCTGCTCTTTGAAGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAA
1 AAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-A
* * * ** * * *
17838 AAAGAAAAAGGTGTCCTGCTCTTTGAGGATTGGAGGGTGCCACCAACTCGTGTGGGTTTTA
1 AAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTA
*
17899 AAAGGAAAAGGCGTCATGCTCTTTGAGGACTAAAAGG
1 AAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGG
17936 GCTAAAAGAG
Statistics
Matches: 562, Mismatches: 62, Indels: 42
0.84 0.09 0.06
Matches are distributed among these distances:
55 52 0.09
59 1 0.00
60 112 0.20
61 212 0.38
62 105 0.19
63 30 0.05
64 48 0.09
65 2 0.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (61 bp):
AAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTA
Found at i:17886 original size:123 final size:123
Alignment explanation
Indices: 17242--17935 Score: 880
Period size: 123 Copynumber: 5.7 Consensus size: 123
17232 AGGAGAGGGC
* * * * *
17242 GTCCTACTCTTTGAGGACTAGAAA-GTGCCGCCAACTTGTGTGGGGTTTAAAAGGAGAAGGCGTC
1 GTCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTC
* ** * *
17306 CTACTCTTTGAGGACTGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGGAAAAAAGT
65 CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-AGAAAAAGGT
17365 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT------AAAAGGCGTCC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCC
* *
17424 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTAAAAAG-AAAAGGC
66 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGT
*
17481 GTCCTTCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCC
* * * *
17545 TGCTTTTTTGAGGACT-AAAGGTGCCACCAACTTGTGTTGGCTTT-AAAAGGAAGAGGT
66 TGC-TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGT
*
17602 GTCCTGCTCTTTGAGGACTAAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGGCG
1 GTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG--AAAAGGCG
* * * *
17667 TCCTGCTCTTTGAGGACTAGAGAA-GTGCCACCAACTCGTGTGGGCTTT--GAAGGAGAAGGT
63 TCCTGCTCTTTGAGGACTA-A-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGT
* * * *
17727 GT-CTGGCTCCTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAGGCATC
1 GTCCT-GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTC
*
17791 CTGCTCTTTGAAGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGT
65 CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGT
* ** * * * * *
17850 GTCCTGCTCTTTGAGGATTGGAGGGTGCCACCAACTCGTGTGGGTTTTAAAAGGAAAAGGCGTCA
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCC
17915 TGCTCTTTGAGGACTAAAAGG
66 TGCTCTTTGAGGACTAAAAGG
17936 GCTAAAAGAG
Statistics
Matches: 505, Mismatches: 44, Indels: 44
0.85 0.07 0.07
Matches are distributed among these distances:
115 28 0.06
116 23 0.05
117 27 0.05
118 27 0.05
120 7 0.01
121 87 0.17
122 39 0.08
123 157 0.31
124 47 0.09
125 38 0.08
126 23 0.05
127 2 0.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.26
Consensus pattern (123 bp):
GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCC
TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGT
Found at i:24309 original size:79 final size:79
Alignment explanation
Indices: 24096--24312 Score: 215
Period size: 79 Copynumber: 2.7 Consensus size: 79
24086 AACGGGGCTG
* * * ** * * * * ***
24096 GAGTACCCCTGATTATGGAAAATCGGTGTTTTGGAAAAAAAATCGGGGCTAGAGTACCCCCTTGG
1 GAGTATCCCTAATTATAGAAAATTAGTGTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCTCAA
*
24161 AAATAACAGGGTTG
66 AAATAACAGGGTTA
* *
24175 GAGTATCCCTAATTATAGAAAATTGGTGTTTTGAAAATAAAATC-GAGATTAGAGTATCCCCTCA
1 GAGTATCCCTAATTATAGAAAATTAGTGTTTTGGAAATAAAATCGGAG-TTAGAGTATCCCCTCA
**
24239 AAAATAATGGGGTTA
65 AAAATAACAGGGTTA
* *
24254 GAGTAT-CCTCAATTGT-GAGAAATTAGTGTTTTGGAAATAAAATCGGAGTTGGAGTATCC
1 GAGTATCCCT-AATTATAGA-AAATTAGTGTTTTGGAAATAAAATCGGAGTTAGAGTATCC
24313 TCGATTGTGA
Statistics
Matches: 115, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
78 7 0.06
79 105 0.91
80 3 0.03
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.29
Consensus pattern (79 bp):
GAGTATCCCTAATTATAGAAAATTAGTGTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCTCAA
AAATAACAGGGTTA
Found at i:24314 original size:51 final size:51
Alignment explanation
Indices: 24254--24363 Score: 166
Period size: 51 Copynumber: 2.2 Consensus size: 51
24244 AATGGGGTTA
* * *
24254 GAGTATCCTCAATTGTGAGAAATTAGTGTTTTGGAAATAAAATCGGAGTTG
1 GAGTATCCTCAATTGTGAAAAATTAGTATTTTAGAAATAAAATCGGAGTTG
* * *
24305 GAGTATCCTCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGGGTTG
1 GAGTATCCTCAATTGTGAAAAATTAGTATTTTAGAAATAAAATCGGAGTTG
24356 GAGTATCC
1 GAGTATCC
24364 CCTCGAAAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.33, C:0.09, G:0.25, T:0.33
Consensus pattern (51 bp):
GAGTATCCTCAATTGTGAAAAATTAGTATTTTAGAAATAAAATCGGAGTTG
Found at i:24543 original size:76 final size:75
Alignment explanation
Indices: 24457--24624 Score: 237
Period size: 76 Copynumber: 2.2 Consensus size: 75
24447 GATATAAAGT
** * * * *
24457 CGGGGTTGGAGTATTGCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAAAATTGATGTTTT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGCTTGGAGTATCCCCAATGAAAAA-TGATGTTTA
*
24522 AGAAATAAGAC
65 AGAAATAAAAC
*
24533 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGCTTGGGGTATCCCCAATGAAAAATGATGTTTAA
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGCTTGGAGTATCCCCAATGAAAAATGATGTTTAA
24598 GAAATAAAAC
66 GAAATAAAAC
* *
24608 TGAGGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
24625 TGAGATGAAA
Statistics
Matches: 82, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
75 33 0.40
76 49 0.60
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (75 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGCTTGGAGTATCCCCAATGAAAAATGATGTTTAA
GAAATAAAAC
Found at i:28173 original size:20 final size:19
Alignment explanation
Indices: 28148--28222 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
28138 GTTTACCCAG
28148 TTGTATCGATACATTTTGCA
1 TTGTATCGATACATTTT-CA
* *
28168 TTGTATCGATAGATTGCTCA
1 TTGTATCGATACATT-TTCA
*
28188 TTGTATCAATACATTTTACA
1 TTGTATCGATACATTTT-CA
*
28208 ATGTATCGATACATT
1 TTGTATCGATACATT
28223 CAGGCATTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 1 0.02
20 44 0.96
21 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (19 bp):
TTGTATCGATACATTTTCA
Found at i:30663 original size:76 final size:76
Alignment explanation
Indices: 30523--30846 Score: 452
Period size: 76 Copynumber: 4.2 Consensus size: 76
30513 TTTTCATCCT
* *
30523 GGGGATACTCCAACCCCGGTTTTATTTCT-AAACATCAATTTTTCATCAGGGATACTCTAACCCC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATCAAGGATACTCCAACCCC
30587 GTTATTTTCGA
66 GTTATTTTCGA
** *
30598 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAGCCCC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATCAAGGATACTCCAACCCC
*
30663 GTTATTTTTGA
66 GTTATTTTCGA
* * * *
30674 GGGGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCAAAATCGAGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTC---ATCAAGGATACTCCAAC
* *
30739 CCTGTTATTTCCGA
63 CCCGTTATTTTCGA
* * * * * *
30753 GGGGACACTCCAAGCCCAGTTTTATTTCTCAAACAACAATTTTTCATCAAGGATACTCTAACCCC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATCAAGGATACTCCAACCCC
30818 GTTATTTTCGA
66 GTTATTTTCGA
30829 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
30847 TTATTTTTGA
Statistics
Matches: 219, Mismatches: 26, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
75 29 0.13
76 126 0.58
79 64 0.29
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (76 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATCAAGGATACTCCAACCCC
GTTATTTTCGA
Found at i:30807 original size:155 final size:151
Alignment explanation
Indices: 30523--30846 Score: 454
Period size: 155 Copynumber: 2.1 Consensus size: 151
30513 TTTTCATCCT
* *
30523 GGGGATACTCCAACCCCGGTTTTATTTCTAAACATCAATTTTTCATCAGGGATACTCTAACCCCG
1 GGGGATACTCCAACCCCGATTTTATTTCTAAACATCAATTTTTCATCAGGGATACTCCAACCCCG
* * * * **
30588 TTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATCGGGGATA
66 TTATTTCCGAGGGGACACTCCAACCCCAGTTTTATTTCTAAAACAACAATTTTTCATCAAGGATA
* *
30653 CTCCAGCCCCGTTATTTTTGA
131 CTCCAACCCCGTTATTTTCGA
30674 GGGGATACTCCAACCCCGATTTTATTTCTAAA-ATACCAATTTTTCAAAATC-GAGGATACTCCA
1 GGGGATACTCCAACCCCGATTTTATTTCTAAACAT--CAATTTTTC---ATCAG-GGATACTCCA
* * *
30737 ACCCTGTTATTTCCGAGGGGACACTCCAAGCCCAGTTTTATTTCTCAAACAACAATTTTTCATCA
60 ACCCCGTTATTTCCGAGGGGACACTCCAACCCCAGTTTTATTTCTAAAACAACAATTTTTCATCA
*
30802 AGGATACTCTAACCCCGTTATTTTCGA
125 AGGATACTCCAACCCCGTTATTTTCGA
30829 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
30847 TTATTTTTGA
Statistics
Matches: 153, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
150 2 0.01
151 31 0.20
152 9 0.06
154 1 0.01
155 110 0.72
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (151 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAACATCAATTTTTCATCAGGGATACTCCAACCCCG
TTATTTCCGAGGGGACACTCCAACCCCAGTTTTATTTCTAAAACAACAATTTTTCATCAAGGATA
CTCCAACCCCGTTATTTTCGA
Found at i:30835 original size:28 final size:28
Alignment explanation
Indices: 30803--30862 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
30793 TTTTCATCAA
*
30803 GGATACTCTAACCCCGTTATTTTCGAGG
1 GGATACTCCAACCCCGTTATTTTCGAGG
*
30831 GGATACTCCAACCCCGTTATTTTTGAGG
1 GGATACTCCAACCCCGTTATTTTCGAGG
30859 GGAT
1 GGAT
30863 GCACCAATCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.32
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTATTTTCGAGG
Found at i:30841 original size:104 final size:104
Alignment explanation
Indices: 30727--30958 Score: 272
Period size: 104 Copynumber: 2.2 Consensus size: 104
30717 TCAAAATCGA
* *
30727 GGATACTCCAACCCTGTTATTTCCGAGGGGACACTCCAAGCCC-AGTTTTATTTCTCAAA-CAAC
1 GGATACTCCAACCCCGTTATTTCCGAGGGGACACACCAAGCCCGA-TTTTATTTC-CAAATCAAC
* *
30790 AATTTTTCATCAA-GGATACTCTAACCCCGTTATTTTCGAGG
64 AATTTTTCA-CAACGGATACTCCAACCCCGTTATTTTCAAGG
** ** * ***
30831 GGATACTCCAACCCCGTTATTTTTGAGGGGATGCACCAATCCCGATTTTATTTCCAAATCATTGA
1 GGATACTCCAACCCCGTTATTTCCGAGGGGACACACCAAGCCCGATTTTATTTCCAAATCAACAA
*
30896 TTTTTTACAACCGGGGATACTCCAACCCCGTTATTTTCAAGG
66 TTTTTCACAA-C--GGATACTCCAACCCCGTTATTTTCAAGG
30938 GGATACTCCAACCCCGTTATT
1 GGATACTCCAACCCCGTTATT
30959 ATCTCCAAAA
Statistics
Matches: 109, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
103 7 0.06
104 54 0.50
105 1 0.01
107 47 0.43
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (104 bp):
GGATACTCCAACCCCGTTATTTCCGAGGGGACACACCAAGCCCGATTTTATTTCCAAATCAACAA
TTTTTCACAACGGATACTCCAACCCCGTTATTTTCAAGG
Found at i:30869 original size:28 final size:28
Alignment explanation
Indices: 30803--30874 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
30793 TTTTCATCAA
* *
30803 GGATACTCTAACCCCGTTATTTTCGAGG
1 GGATACACCAACCCCGTTATTTTCGAGG
* *
30831 GGATACTCCAACCCCGTTATTTTTGAGG
1 GGATACACCAACCCCGTTATTTTCGAGG
* *
30859 GGATGCACCAATCCCG
1 GGATACACCAACCCCG
30875 ATTTTATTTC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (28 bp):
GGATACACCAACCCCGTTATTTTCGAGG
Found at i:33334 original size:52 final size:51
Alignment explanation
Indices: 33199--33336 Score: 165
Period size: 52 Copynumber: 2.7 Consensus size: 51
33189 TCTGGAATGA
* *
33199 AAATGTATC-ATACATT-TTTCATTGTATCGATACATTCTGGGTTTTGACCT
1 AAATGTATCGATACATTCTTT-AATGTATCGATACATTCTGGGTTTTAACCT
* * * * *
33249 AAAGGTATAGATACATTCTTCACTGTATCGATACATTCTAGGTTTTTAAACC-
1 AAATGTATCGATACATTCTTTAATGTATCGATACATTCT-GGGTTTT-AACCT
33301 AAATGTATCGATACATTCTTTAATGTATCGATACAT
1 AAATGTATCGATACATTCTTTAATGTATCGATACAT
33337 GCAGGCAAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
50 7 0.09
51 24 0.32
52 40 0.54
53 3 0.04
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (51 bp):
AAATGTATCGATACATTCTTTAATGTATCGATACATTCTGGGTTTTAACCT
Found at i:38364 original size:98 final size:97
Alignment explanation
Indices: 38147--38375 Score: 282
Period size: 98 Copynumber: 2.4 Consensus size: 97
38137 AAAAATATCA
* * ** *
38147 AAATTTT-ATTCATCGGGGATACTCCAACCTTATTTTACCGAGGGGATACTCCAATCTCGTTTTT
1 AAATTTTCA-TCATCGGGGATACTCCAACCTCATTTTACCAAAAGGATACTCCAATCCCGTTTTT
* *
38211 GAACTTGTCAAGATTTAAATCTTATTCTTTCTT
65 AAACTTGTCAAGATTTAAACCTTATTCTTTCTT
* * * * * ** *
38244 GAATTGTCATCATTGGGTATACTCCAACCCCATTTTTTCAAAAGGTTACTCCAATCCCGTTTTTA
1 AAATTTTCATCATCGGGGATACTCCAACCTCATTTTACCAAAAGGATACTCCAATCCCGTTTTT-
38309 AAACTTGTCAAGATTTAAACCTTATT-TTTGCTT
65 AAACTTGTCAAGATTTAAACCTTATTCTTT-CTT
38342 AAATTTTCATCATCGGGGATACTCCAACCTCATT
1 AAATTTTCATCATCGGGGATACTCCAACCTCATT
38376 CCTCCGAGCG
Statistics
Matches: 109, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
97 52 0.48
98 57 0.52
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.39
Consensus pattern (97 bp):
AAATTTTCATCATCGGGGATACTCCAACCTCATTTTACCAAAAGGATACTCCAATCCCGTTTTTA
AACTTGTCAAGATTTAAACCTTATTCTTTCTT
Found at i:42589 original size:142 final size:138
Alignment explanation
Indices: 42415--42781 Score: 470
Period size: 143 Copynumber: 2.6 Consensus size: 138
42405 AAATCTCATG
42415 TCGTACCTTAATGGAGAATCGAAAAAATATGAAAAGTTTTGAAAG-TTTCTATACCCTTATAGAA
1 TCGTACCTTAATGGAG-ATCGAAAAAATATGAAAAGTTTTGAAAGATTTCTATACCCTTATA-AA
*
42479 AACCGTAGGAATATTAGAAATCTTGAAAAATAAAAATAATAATTTTTATTTAATTTTTAATTTTC
64 AACCATAGGAATATTAGAAATCTTGAAAAATAAAAATAATAATTTTTATTTAATTTTTAA-TTT-
**
42544 AAAAAAATTGATT
127 AAAAAAA-ACATT
* * * * *
42557 TCGTATCTTAATGGAGATTCGAAAAGATATGAAAATTTTTTG-GAGATTTCTATACCCCTATTAA
1 TCGTACCTTAATGGAGA-TCGAAAAAATATGAAAA-GTTTTGAAAGATTTCTATACCCTTA-TAA
* *
42621 AAACCATAGGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATTTTTAATTTA
63 AAACCATAGGAATATTAGAAATCTTGAAAAATAAAAATAATAATTTTTATTTAATTTTTAATTTA
42686 AAAAAAACATT
128 AAAAAAACATT
* * * * * *
42697 TTGTACCATAATGGAGAACTGAAAATATACGAAAAGTTTT-AAAGATTTCTATAACCTTATAAAA
1 TCGTACCTTAATGGAGATC-GAAAAAATATGAAAAGTTTTGAAAGATTTCTATACCCTTAT-AAA
*
42761 AACCATAAGAATATTAGAAAT
64 AACCATAGGAATATTAGAAAT
42782 ATATAAAAAT
Statistics
Matches: 197, Mismatches: 21, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
138 1 0.01
139 43 0.22
140 30 0.15
141 8 0.04
142 36 0.18
143 77 0.39
144 2 0.01
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.35
Consensus pattern (138 bp):
TCGTACCTTAATGGAGATCGAAAAAATATGAAAAGTTTTGAAAGATTTCTATACCCTTATAAAAA
CCATAGGAATATTAGAAATCTTGAAAAATAAAAATAATAATTTTTATTTAATTTTTAATTTAAAA
AAAACATT
Found at i:43336 original size:13 final size:13
Alignment explanation
Indices: 43318--43342 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43308 ATGTTGCACA
43318 GTATCGATACATT
1 GTATCGATACATT
43331 GTATCGATACAT
1 GTATCGATACAT
43343 GACTAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:43355 original size:20 final size:20
Alignment explanation
Indices: 43330--43381 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
43320 ATCGATACAT
**
43330 TGTATCGATACATGACTAAA
1 TGTATCGATACATGAAAAAA
* *
43350 TGTATCAATACTTGAAAAAA
1 TGTATCGATACATGAAAAAA
43370 TGTATCGATACA
1 TGTATCGATACA
43382 AGTCATTGGC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATGAAAAAA
Found at i:43451 original size:13 final size:13
Alignment explanation
Indices: 43433--43457 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43423 ACACACAGTA
43433 TGTATCGATACAT
1 TGTATCGATACAT
43446 TGTATCGATACA
1 TGTATCGATACA
43458 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:43454 original size:32 final size:33
Alignment explanation
Indices: 43413--43480 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
43403 GTAGCTAAAC
**
43413 TTGTATCGATACA-CACAGTATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
*
43445 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
43478 TTG
1 TTG
43481 GCTTGTAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACACCACAAAATGTATCGATACA
Found at i:46964 original size:85 final size:85
Alignment explanation
Indices: 46875--47058 Score: 251
Period size: 85 Copynumber: 2.2 Consensus size: 85
46865 AAGTAGTCTG
* * ** **
46875 GTCAATAAATGATAAAAAAAGTTACCCTGGACTAAGCTGACAGGTAAACAACGGAGACAAAAGTT
1 GTCAACAAAGGATAAAAAAAGTTACCAGGGACTAAGCTGACAGGTAAACAAAAGAGACAAAAGTT
* *
46940 GACTAGGATTGAACCGACAA
66 GACCAAGATTGAACCGACAA
* * * *
46960 GTCAACAAAGGATAAAAAGATTTACTAGGGACTAAGCTGATAGGTAAACAAAAGAGACAAAAGTT
1 GTCAACAAAGGATAAAAAAAGTTACCAGGGACTAAGCTGACAGGTAAACAAAAGAGACAAAAGTT
*
47025 GACCAAGATTGAACCGATAA
66 GACCAAGATTGAACCGACAA
47045 GTCAACAAAGGATA
1 GTCAACAAAGGATA
47059 TAAAGCGATA
Statistics
Matches: 86, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.47, C:0.15, G:0.21, T:0.17
Consensus pattern (85 bp):
GTCAACAAAGGATAAAAAAAGTTACCAGGGACTAAGCTGACAGGTAAACAAAAGAGACAAAAGTT
GACCAAGATTGAACCGACAA
Found at i:46967 original size:42 final size:42
Alignment explanation
Indices: 46921--47056 Score: 132
Period size: 42 Copynumber: 3.2 Consensus size: 42
46911 CTGACAGGTA
* *
46921 AACAACGGAGACAAAAGTTGACTAGGATTGAACCGACAAGTC
1 AACAAAGGAGACAAAAGTTGACTAGGATTGAACCGATAAGTC
* * * * * *
46963 AACAAAGGATA-AAAAGATTTACTAGGGACT-AAGCTGATAGGTA
1 AACAAAGGAGACAAAAG-TTGACTA-GGATTGAA-CCGATAAGTC
* * *
47006 AACAAAAGAGACAAAAGTTGACCAAGATTGAACCGATAAGTC
1 AACAAAGGAGACAAAAGTTGACTAGGATTGAACCGATAAGTC
47048 AACAAAGGA
1 AACAAAGGA
47057 TATAAAGCGA
Statistics
Matches: 71, Mismatches: 18, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
41 5 0.07
42 35 0.49
43 26 0.37
44 5 0.07
ACGTcount: A:0.48, C:0.15, G:0.22, T:0.15
Consensus pattern (42 bp):
AACAAAGGAGACAAAAGTTGACTAGGATTGAACCGATAAGTC
Found at i:47011 original size:43 final size:42
Alignment explanation
Indices: 46903--47027 Score: 128
Period size: 42 Copynumber: 3.0 Consensus size: 42
46893 AAGTTACCCT
*
46903 GGACTAAGCTGACAGGTAAACAACGGAGACAAAAGTTGACTA
1 GGACTAAGCTGACAGGTAAACAAAGGAGACAAAAGTTGACTA
* * * * * *
46945 GGATTGAA-CCGACAAGTCAACAAAGGATA-AAAAGATTTACTA
1 GGACT-AAGCTGACAGGTAAACAAAGGAGACAAAAG-TTGACTA
* *
46987 GGGACTAAGCTGATAGGTAAACAAAAGAGACAAAAGTTGAC
1 -GGACTAAGCTGACAGGTAAACAAAGGAGACAAAAGTTGAC
47028 CAAGATTGAA
Statistics
Matches: 63, Mismatches: 15, Indels: 9
0.72 0.17 0.10
Matches are distributed among these distances:
41 5 0.08
42 28 0.44
43 25 0.40
44 5 0.08
ACGTcount: A:0.46, C:0.14, G:0.24, T:0.16
Consensus pattern (42 bp):
GGACTAAGCTGACAGGTAAACAAAGGAGACAAAAGTTGACTA
Found at i:47182 original size:46 final size:46
Alignment explanation
Indices: 47130--47338 Score: 156
Period size: 47 Copynumber: 4.5 Consensus size: 46
47120 AACAAGGATG
* *
47130 AAAAGAGTTTGACTAGG-ACTAAA-ATCAATACAATCAAACGAGGGT
1 AAAAGAGTTTGACCAGGTACTAAAGCT-AATACAATCAAACGAGGGT
* ** *
47175 AAAAAGAGTTTGACCAGGTTCTACCGCTAATACAGTCAAACGAGGGT
1 -AAAAGAGTTTGACCAGGTACTAAAGCTAATACAATCAAACGAGGGT
* * * ** *
47222 AAAAGAGTTTGACCAAGT-CATAATGCCAATACAATCAAATAATGGT
1 AAAAGAGTTTGACCAGGTAC-TAAAGCTAATACAATCAAACGAGGGT
* * * * * *
47268 GGAAGGAGTTTGACCAAGTCCTAATGCCAATACAATCAAAC-AGCGGT
1 -AAAAGAGTTTGACCAGGTACTAAAGCTAATACAATCAAACGAG-GGT
* *
47315 GAAAAGAGTTTAACCAGGTCCTAA
1 -AAAAGAGTTTGACCAGGTACTAA
47339 TGCCAAAGCA
Statistics
Matches: 135, Mismatches: 22, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
45 1 0.01
46 53 0.39
47 79 0.59
48 2 0.01
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.21
Consensus pattern (46 bp):
AAAAGAGTTTGACCAGGTACTAAAGCTAATACAATCAAACGAGGGT
Found at i:47283 original size:47 final size:47
Alignment explanation
Indices: 47155--47374 Score: 192
Period size: 47 Copynumber: 4.7 Consensus size: 47
47145 GGACTAAAAT
** * * * * **
47155 CAATACAATCAAACGAGGGTAAAAAGAGTTTGACCAGGTTCTACCGC
1 CAATACAATCAAATAACGGTGAAAAGAGTTTGACCAAGTCCTAATGC
* * ** * *
47202 TAATACAGTCAAACGAGGGT-AAAAGAGTTTGACCAAGTCATAATGC
1 CAATACAATCAAATAACGGTGAAAAGAGTTTGACCAAGTCCTAATGC
* * *
47248 CAATACAATCAAATAATGGTGGAAGGAGTTTGACCAAGTCCTAATGC
1 CAATACAATCAAATAACGGTGAAAAGAGTTTGACCAAGTCCTAATGC
* * * *
47295 CAATACAATCAAACAGCGGTGAAAAGAGTTTAACCAGGTCCTAATGC
1 CAATACAATCAAATAACGGTGAAAAGAGTTTGACCAAGTCCTAATGC
* * * *
47342 CAA-AGCAGTCAAATAAGGGTTAAAAAAGTTTGA
1 CAATA-CAATCAAATAACGGTGAAAAGAGTTTGA
47375 TTAGGTCTTT
Statistics
Matches: 142, Mismatches: 29, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
46 37 0.26
47 105 0.74
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.21
Consensus pattern (47 bp):
CAATACAATCAAATAACGGTGAAAAGAGTTTGACCAAGTCCTAATGC
Found at i:47372 original size:94 final size:93
Alignment explanation
Indices: 47155--47374 Score: 230
Period size: 94 Copynumber: 2.4 Consensus size: 93
47145 GGACTAAAAT
** * * * * *
47155 CAATACAATCAAACGAGGG-TAAAAAGAGTTTGACCAGGTTCTACCGCTAATACAGTCAAACGAG
1 CAATACAATCAAATAAGGGTTAAAAA-AGTTTGACCAAGTCCTAACGCCAATACAATCAAACGAG
*
47219 GGTAAAAGAGTTTGACCAAGTCATAATGC
65 GGTAAAAGAGTTTAACCAAGTCATAATGC
* ** ** *
47248 CAATACAATCAAATAATGGTGGAAGGAGTTTGACCAAGTCCTAATGCCAATACAATCAAAC-AGC
1 CAATACAATCAAATAAGGGTTAAAAAAGTTTGACCAAGTCCTAACGCCAATACAATCAAACGAG-
* *
47312 GGTGAAAAGAGTTTAACCAGGTCCTAATGC
65 GGT-AAAAGAGTTTAACCAAGTCATAATGC
*
47342 CAA-AGCAGTCAAATAAGGGTTAAAAAAGTTTGA
1 CAATA-CAATCAAATAAGGGTTAAAAAAGTTTGA
47375 TTAGGTCTTT
Statistics
Matches: 101, Mismatches: 22, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
92 2 0.02
93 49 0.49
94 50 0.50
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.21
Consensus pattern (93 bp):
CAATACAATCAAATAAGGGTTAAAAAAGTTTGACCAAGTCCTAACGCCAATACAATCAAACGAGG
GTAAAAGAGTTTAACCAAGTCATAATGC
Found at i:49201 original size:14 final size:14
Alignment explanation
Indices: 49184--49232 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 14
49174 TGAAAACGAG
49184 ATCATAAAAATGAT
1 ATCATAAAAATGAT
49198 ATCAATCAATAAATGA-
1 ATC-AT-AA-AAATGAT
49214 ATTCATAAAAATGAT
1 A-TCATAAAAATGAT
49229 ATCA
1 ATCA
49233 AGTAAACATT
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
14 12 0.40
15 5 0.17
16 5 0.17
17 8 0.27
ACGTcount: A:0.55, C:0.10, G:0.06, T:0.29
Consensus pattern (14 bp):
ATCATAAAAATGAT
Found at i:49213 original size:17 final size:15
Alignment explanation
Indices: 49187--49238 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 15
49177 AAACGAGATC
49187 ATAAAAATGATATCA
1 ATAAAAATGATATCA
49202 ATCAATAAATGA-ATTC-
1 AT-AA-AAATGATA-TCA
49218 ATAAAAATGATATCA
1 ATAAAAATGATATCA
49233 AGTAAA
1 A-TAAA
49239 CATTAATTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
14 8 0.26
15 6 0.19
16 9 0.29
17 8 0.26
ACGTcount: A:0.58, C:0.08, G:0.08, T:0.27
Consensus pattern (15 bp):
ATAAAAATGATATCA
Found at i:51016 original size:13 final size:13
Alignment explanation
Indices: 50996--51033 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
50986 AATAGTACCC
*
50996 ATGTATCGATACTC
1 ATGTATCGATA-TA
51010 A-GTATCGATATA
1 ATGTATCGATATA
51022 ATGTATCGATAT
1 ATGTATCGATAT
51034 TAAGAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 2 0.09
13 19 0.86
14 1 0.05
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (13 bp):
ATGTATCGATATA
Found at i:59322 original size:13 final size:13
Alignment explanation
Indices: 59304--59328 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59294 CAAAGATCAG
59304 TGTATCGATACAA
1 TGTATCGATACAA
59317 TGTATCGATACA
1 TGTATCGATACA
59329 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:59406 original size:33 final size:33
Alignment explanation
Indices: 59369--59435 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
59359 AGTAGCTTAA
59369 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
59402 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
59435 A
1 A
59436 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:59409 original size:13 final size:13
Alignment explanation
Indices: 59391--59415 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59381 CAAAAAAATA
59391 TGTATCGATACAT
1 TGTATCGATACAT
59404 TGTATCGATACA
1 TGTATCGATACA
59416 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:62514 original size:35 final size:35
Alignment explanation
Indices: 62466--62542 Score: 86
Period size: 35 Copynumber: 2.2 Consensus size: 35
62456 TTCATTCATC
**
62466 TTTTTTTTTTTTCAT-T-ATTCTTCTACTTTTCTCTA
1 TTTTTTTCCTTTCATCTCATTCTTCT-CTTTTC-CTA
* *
62501 TTTTTTTCCTTTCATCTCATTCTTCTTTTTTCCTT
1 TTTTTTTCCTTTCATCTCATTCTTCTCTTTTCCTA
62536 TTTTTTT
1 TTTTTTT
62543 TTGCAGAGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
35 22 0.61
36 6 0.17
37 8 0.22
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (35 bp):
TTTTTTTCCTTTCATCTCATTCTTCTCTTTTCCTA
Found at i:62539 original size:34 final size:33
Alignment explanation
Indices: 62464--62541 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 33
62454 TTTTCATTCA
*
62464 TCTTTTTTTTTTTTCATTATTCTTCTACTTTTC
1 TCTTTTTTTTCTTTCATTATTCTTCTACTTTTC
*
62497 TCTATTTTTTTCCTTTCATCTCATTCTTCT-TTTTTC
1 TCT-TTTTTTT-CTTTCAT-T-ATTCTTCTACTTTTC
62533 -CTTTTTTTT
1 TCTTTTTTTT
62542 TTTGCAGAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
33 3 0.08
34 14 0.36
35 8 0.21
36 6 0.15
37 8 0.21
ACGTcount: A:0.08, C:0.21, G:0.00, T:0.72
Consensus pattern (33 bp):
TCTTTTTTTTCTTTCATTATTCTTCTACTTTTC
Found at i:63970 original size:79 final size:78
Alignment explanation
Indices: 63828--64202 Score: 369
Period size: 79 Copynumber: 4.8 Consensus size: 78
63818 ACGGGGCTAA
* * * *
63828 AGTATCCCTGATTATGGAAAATTGGTGTCTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCGAA
1 AGTATCCCTGATTAT-GAAAATCGATGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCGAA
*
63893 AATAATAGGGTTGG
65 AATAACAGGGTTGG
* * * *
63907 AGTGTCGCTGATTATAGAAAATCGATGTTTTGAAAATAAAATCAGGGTTGGAGTATCCTCTCGAA
1 AGTATCCCTGATTAT-GAAAATCGATGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCGAA
* *
63972 AATAACGGGGTAGG
65 AATAACAGGGTTGG
* * * ** * * *
63986 AGTATCCCCGATTATGGAAAATCGATGCTTT-AGAAATTAGGTCGGAGTTGGAGTATCCCCGCTA
1 AGTATCCCTGATTAT-GAAAATCGATGTTTTGA-AAATAAAATCGGGGTTGGAGTATCCCCTCGA
* **
64050 GAATAATGGGGTTGG
64 AAATAACAGGGTTGG
* * * * * *
64065 AGTAT-CCTCGATTCTGAGAAATCAATATTTTAAAAATAAAGTCGGGGTTGGAGTATCTCCTCGA
1 AGTATCCCT-GATTATGA-AAATCGATGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCGA
*
64129 AAATAACAGGATT-G
64 AAATAACAGGGTTGG
* * * *
64143 AGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAATCGGGGTTAGAGTATCCCC
1 AGTATCCCTGATTATG-AAAATCGATGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCC
64203 GAGATGAAAA
Statistics
Matches: 237, Mismatches: 53, Indels: 13
0.78 0.17 0.04
Matches are distributed among these distances:
78 51 0.22
79 185 0.78
80 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (78 bp):
AGTATCCCTGATTATGAAAATCGATGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCGAAA
ATAACAGGGTTGG
Found at i:64113 original size:158 final size:156
Alignment explanation
Indices: 63828--64203 Score: 452
Period size: 158 Copynumber: 2.4 Consensus size: 156
63818 ACGGGGCTAA
* * *
63828 AGTATCCCTGATTATGGAAAATTGGTGTCTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCGAA
1 AGTATCCCCGATTATGGAAAATTGATGT-TTGGAAATAAAATCGGGGTTGGAGTATCCCCGCGAA
* * * *
63893 AATAATAGGGTTGGAGTGTCGCTGATTATAGAAAATCGATGTTTTGAAAATAAAATCAGGGTTGG
65 AATAATAGGGTTGGAGTATCGCTGATTATAGAAAATCAATATTTTAAAAATAAAATCAGGGTTGG
* *
63958 AGTATC-CTCTCGAAAATAACGGGGTAGG
130 AGTATCTC-CTCGAAAATAACAGGAT-GG
* * * ** * * *
63986 AGTATCCCCGATTATGGAAAATCGATGCTTTAGAAATTAGGTCGGAGTTGGAGTATCCCCGCTAG
1 AGTATCCCCGATTATGGAAAATTGATG-TTTGGAAATAAAATCGGGGTTGGAGTATCCCCGCGAA
* * * *
64051 AATAATGGGGTTGGAGTATC-CTCGATTCT-GAGAAATCAATATTTTAAAAATAAAGTCGGGGTT
65 AATAATAGGGTTGGAGTATCGCT-GATTATAGA-AAATCAATATTTTAAAAATAAAATCAGGGTT
*
64114 GGAGTATCTCCTCGAAAATAACAGGATTG
128 GGAGTATCTCCTCGAAAATAACAGGATGG
* *
64143 AGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAATCGGGGTTAGAGTATCCCCG
1 AGTATCCCCGATTATGGAAAATTGATG-TTTGGAAATAAAATCGGGGTTGGAGTATCCCCG
64204 AGATGAAAAA
Statistics
Matches: 183, Mismatches: 31, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
157 57 0.31
158 124 0.68
159 2 0.01
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.29
Consensus pattern (156 bp):
AGTATCCCCGATTATGGAAAATTGATGTTTGGAAATAAAATCGGGGTTGGAGTATCCCCGCGAAA
ATAATAGGGTTGGAGTATCGCTGATTATAGAAAATCAATATTTTAAAAATAAAATCAGGGTTGGA
GTATCTCCTCGAAAATAACAGGATGG
Found at i:64229 original size:50 final size:50
Alignment explanation
Indices: 64142--64265 Score: 149
Period size: 50 Copynumber: 2.5 Consensus size: 50
64132 TAACAGGATT
* ** * * * *
64142 GAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAATCGGGGTTA
1 GAGTATCCCCGA-GATGAAAAATCAATATTTTAGAAATAAAACCCGGGTTA
*
64193 GAGTATCCCCGAGATGAAAAATCAATATTTTAGAAATAAAGCCCGGGTTA
1 GAGTATCCCCGAGATGAAAAATCAATATTTTAGAAATAAAACCCGGGTTA
* *
64243 GAGTATCCCTGAGATAAAAAATC
1 GAGTATCCCCGAGATGAAAAATC
64266 TAGAAATTTA
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
50 51 0.81
51 12 0.19
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.27
Consensus pattern (50 bp):
GAGTATCCCCGAGATGAAAAATCAATATTTTAGAAATAAAACCCGGGTTA
Found at i:66612 original size:13 final size:13
Alignment explanation
Indices: 66594--66654 Score: 62
Period size: 13 Copynumber: 5.2 Consensus size: 13
66584 GTAAACCAAG
66594 AATGTATCGATAC
1 AATGTATCGATAC
*
66607 AATGTATCGATGC
1 AATGTATCGATAC
66620 -A---AT-GA-AC
1 AATGTATCGATAC
*
66627 AATGTATCGATAT
1 AATGTATCGATAC
66640 AATGTATCGATAC
1 AATGTATCGATAC
66653 AA
1 AA
66655 ATTATGAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
7 1 0.03
8 3 0.08
9 2 0.05
11 2 0.05
12 3 0.08
13 27 0.71
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:66643 original size:20 final size:20
Alignment explanation
Indices: 66605--66643 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
66595 ATGTATCGAT
*
66605 ACAATGTATCGATGCAATGA
1 ACAATGTATCGATACAATGA
*
66625 ACAATGTATCGATATAATG
1 ACAATGTATCGATACAATG
66644 TATCGATACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:67292 original size:61 final size:61
Alignment explanation
Indices: 67214--67875 Score: 721
Period size: 61 Copynumber: 10.8 Consensus size: 61
67204 AAATGGATCT
* * * * **
67214 TGCTCCTTGGGGACTGAAAAGTGCCACCAATTTGTGTGGGCTTTAAAAGGAAAAGGGGTCC
1 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
* * *
67275 TGCTCTTTGAGGACTG-AAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGAGAAA-GCACCC
1 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGCATCC
* * * *
67335 TGCTCTTTAAGGATTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
1 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
* * * *
67396 TGCTCCTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCT
1 TGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
** *
67458 TGCTCTTTGAGGACTAGCAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAAACGTCC
1 TGCTCTTTGAGGACT-G-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAAGGCATCC
** * * * * * *
67521 AACTCTTTAAGGACTG-AAGGTGCCAACAACTTATGTGGGTTTTGAAATGAGAAA-GCATCC
1 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGCATCC
*
67581 TGCTCTTTGAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCC
1 TGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
** * ** * **
67642 TATTCTTTGAGGACTAGAAAAGTGCCATTAACTTGTATGGGCTTTAAAAGGAAAAGGGGTCC
1 TGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
* * *
67704 TACTCTTTGAGGACTAGCAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCATCC
1 TGCTCTTTGAGGACT-G-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
* * **
67766 TGCTCTTTGAGGACT-AGAAGGTGCCATCAACTTGTGTGGGCTTTAAAAAGAAAAGGCATGT
1 TGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
* ** * *
67827 TGCTCTTTAAGGACTG-AAGGTGCCACCAGTTTGTGTAGGCTTTGAAAGG
1 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
67876 CGTCCTGCTC
Statistics
Matches: 511, Mismatches: 73, Indels: 35
0.83 0.12 0.06
Matches are distributed among these distances:
59 1 0.00
60 101 0.20
61 191 0.37
62 191 0.37
63 27 0.05
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (61 bp):
TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
Found at i:67439 original size:62 final size:61
Alignment explanation
Indices: 67234--67875 Score: 754
Period size: 62 Copynumber: 10.5 Consensus size: 61
67224 GGACTGAAAA
* **
67234 GTGCCACCAATTTGTGTGGGCTTTAAAAGGAAAAGGGGTCCTGCTCTTTGAGGACT-GAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAGAAG
* * * * * *
67294 GTGCCACCAGCTTGTGTGGGCTTTGAAAGGAGAAA-GCACCCTGCTCTTTAAGGATTGGAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGCATCCTGCTCTTTGAGGACTAGAAG
* * *
67355 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCCTTGAGGACTAGAAAA
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAG-AAG
* * *
67417 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCTTGCTCTTTGAGGACTAGCAAA
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAG-AAG
** * ** *
67479 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAAACGTCCAACTCTTTAAGGACT-GAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAAGGCATCCTGCTCTTTGAGGACTAGAAG
* * * * *
67540 GTGCCAACAACTTATGTGGGTTTTGAAATGAGAAA-GCATCCTGCTCTTTGAGGACTAGAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGCATCCTGCTCTTTGAGGACTAGAAG
* ** *
67601 GTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCTATTCTTTGAGGACTAGAAAA
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAG-AAG
** * ** * *
67663 GTGCCATTAACTTGTATGGGCTTTAAAAGGAAAAGGGGTCCTACTCTTTGAGGACTAGCAAA
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAG-AAG
* *
67725 ATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCATCCTGCTCTTTGAGGACTAGAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAGAAG
* * ** *
67786 GTGCCATCAACTTGTGTGGGCTTTAAAAAGAAAAGGCATGTTGCTCTTTAAGGACT-GAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAGAAG
** * *
67846 GTGCCACCAGTTTGTGTAGGCTTTGAAAGG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGG
67876 CGTCCTGCTC
Statistics
Matches: 499, Mismatches: 74, Indels: 18
0.84 0.13 0.03
Matches are distributed among these distances:
60 95 0.19
61 186 0.37
62 198 0.40
63 20 0.04
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (61 bp):
GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAGAAG
Found at i:67664 original size:246 final size:244
Alignment explanation
Indices: 67211--67875 Score: 920
Period size: 246 Copynumber: 2.7 Consensus size: 244
67201 ATAAAATGGA
* * * * * *
67211 TCTTGCTCCTTGGGGACT-GAAAAGTGCCACCAATTTGTGTGGGCTTTAAAAGGAAAAGGGGTCC
1 TCTTGCTCTTTGAGGACTAGCAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCC
* * * *
67275 TGCTCTTTGAGGACTGAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGAGAAAGCACCCTGCTC
66 TGCTCTTTGAGGACTGAAGGTGCCAACAACTTGTGTGGGCTTTGAAAAGAGAAAGCATCCTGCTC
* * * *
67340 TTTAAGGATTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCCTTG
131 TTTAAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCTACTCCTTG
*
67405 AGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
195 AGGACTAGAAAAGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAGGCG
*
67455 TCTTGCTCTTTGAGGACTAGCAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAAACGTC
1 TCTTGCTCTTTGAGGACTAGCAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAAAGCGTC
** * * * *
67520 CAACTCTTTAAGGACTGAAGGTGCCAACAACTTATGTGGGTTTTGAAATGAGAAAGCATCCTGCT
65 CTGCTCTTTGAGGACTGAAGGTGCCAACAACTTGTGTGGGCTTTGAAAAGAGAAAGCATCCTGCT
* * *
67585 CTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCTATTCTTT
130 CTTTAAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCTACTCCTT
** *
67650 GAGGACTAGAAAAGTGCCATTAACTTGTATGGGCTTTAAAAGGAAAAGGGG
194 GAGGACTAGAAAAGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAGGCG
* * * *
67701 TCCTACTCTTTGAGGACTAGCAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCATCC
1 TCTTGCTCTTTGAGGACTAGCAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCC
* * **
67766 TGCTCTTTGAGGACTAGAAGGTGCCATCAACTTGTGTGGGCTTTAAAAAGA-AAAGGCATGTTGC
66 TGCTCTTTGAGGACT-GAAGGTGCCAACAACTTGTGTGGGCTTTGAAAAGAGAAA-GCATCCTGC
** *
67830 TCTTTAAGGACTGAAGGTGCCACCAGTTTGTGTAGGCTTTGAAAGG
129 TCTTTAAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
67876 CGTCCTGCTC
Statistics
Matches: 370, Mismatches: 47, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
244 16 0.04
245 88 0.24
246 266 0.72
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (244 bp):
TCTTGCTCTTTGAGGACTAGCAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCC
TGCTCTTTGAGGACTGAAGGTGCCAACAACTTGTGTGGGCTTTGAAAAGAGAAAGCATCCTGCTC
TTTAAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCTACTCCTTGA
GGACTAGAAAAGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAGGCG
Found at i:72096 original size:21 final size:21
Alignment explanation
Indices: 72063--72107 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
72053 TTGCAAGTTG
*
72063 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
72085 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
72105 AAA
1 AAA
72108 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:73929 original size:15 final size:15
Alignment explanation
Indices: 73909--73939 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
73899 TAAAAATGTC
*
73909 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
73924 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
73939 C
1 C
73940 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:75326 original size:20 final size:20
Alignment explanation
Indices: 75301--75353 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
75291 TTTGCCTGCA
75301 TGTATCGATACAAAGATCAG
1 TGTATCGATACAAAGATCAG
75321 TGTATCGATACAAAGATCAG
1 TGTATCGATACAAAGATCAG
75341 TGTATCGATACAA
1 TGTATCGATACAA
75354 TGTATCGATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (20 bp):
TGTATCGATACAAAGATCAG
Found at i:75359 original size:13 final size:13
Alignment explanation
Indices: 75341--75365 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
75331 CAAAGATCAG
75341 TGTATCGATACAA
1 TGTATCGATACAA
75354 TGTATCGATACA
1 TGTATCGATACA
75366 TTTAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:75433 original size:19 final size:19
Alignment explanation
Indices: 75409--75459 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
75399 GCTTGAATTT
75409 TATCGATACAAAAAATATG
1 TATCGATACAAAAAATATG
***
75428 TATCGATACAATACTTTATG
1 TATCGATACAA-AAAATATG
75448 TATCGATACAAA
1 TATCGATACAAA
75460 TCGTTGAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (19 bp):
TATCGATACAAAAAATATG
Found at i:76304 original size:55 final size:52
Alignment explanation
Indices: 76200--76484 Score: 188
Period size: 49 Copynumber: 5.7 Consensus size: 52
76190 AAAAAGTGAT
* * * * * * **
76200 AAAGATGCCAATATGTTGATTCACGACCAACGATATTGGGCTTAAAGATGAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAACTACATTGAACTTAAAGATG-G-A
* * *
76254 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAACTACATTGAACTTAAAGATGGA
* * *
76307 AAAGGTGCCAATATGTTGATTCAAGGCCAACTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAACTACATTGAACTTAAAGATGGA
* * * * *
76350 AAAGGTGCCAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAATAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAACTACATTGAACTTAAAGATGGA
* * * * *
76400 -AAGGTGCCAATATGCTGATTTAAGGCCAGCGATATTGGACTT-AA-A-GG-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAACTACATTGAACTTAAAGATGGA
* * *
76447 CAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAACTACATTG
76485 GGCTTAAAAG
Statistics
Matches: 192, Mismatches: 29, Indels: 26
0.78 0.12 0.11
Matches are distributed among these distances:
43 36 0.19
44 1 0.01
46 1 0.01
47 2 0.01
48 37 0.19
49 38 0.20
51 1 0.01
52 30 0.16
53 6 0.03
54 5 0.03
55 35 0.18
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAACTACATTGAACTTAAAGATGGA
Found at i:76370 original size:43 final size:43
Alignment explanation
Indices: 76307--76492 Score: 201
Period size: 48 Copynumber: 4.1 Consensus size: 43
76297 TAAAGATGGA
* *
76307 AAAGGTGCCAATATGTTGATTCAAGGCCAACTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
76350 AAAGGTGCCAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAAT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T---T
* *
76397 ATGAAGGTGCCAATATGCTGATTTAAGGCCAGCGATATTGGACTT
1 A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
76442 AAAGGCAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT
1 --A---AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
76490 AAA
1 AAA
76493 AGGAGACGCC
Statistics
Matches: 119, Mismatches: 15, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
43 38 0.32
44 1 0.01
45 1 0.01
46 1 0.01
47 3 0.03
48 40 0.34
49 35 0.29
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:76568 original size:28 final size:27
Alignment explanation
Indices: 76512--76635 Score: 124
Period size: 28 Copynumber: 4.3 Consensus size: 27
76502 CACCAACTTG
76512 TGTGGGCTTTTGAGAGGTTTGCA-TCAACT
1 TGTGGGCTTTTGA-AGG-TTGCACT-AACT
*
76541 TGTGTGCTTTTGAAGGTTGCTACTAACT
1 TGTGGGCTTTTGAAGGTTGC-ACTAACT
* *
76569 TGTGGGCTTTTAAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTG-CACTAACT
* *
76597 TGTGGGCTTTTGAAAAGGGTGCCACTACCT
1 TGTGGGCTTTTG--AAGGTTG-CACTAACT
76627 TGTGGGCTT
1 TGTGGGCTT
76636 AAAAAGAAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
27 4 0.05
28 42 0.51
29 14 0.17
30 22 0.27
ACGTcount: A:0.17, C:0.16, G:0.30, T:0.37
Consensus pattern (27 bp):
TGTGGGCTTTTGAAGGTTGCACTAACT
Found at i:76620 original size:30 final size:30
Alignment explanation
Indices: 76538--76855 Score: 181
Period size: 30 Copynumber: 10.6 Consensus size: 30
76528 GTTTGCATCA
* * * *
76538 ACTTGTGTGCTTTTG--AAGGTTGCTACTA
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
*
76566 ACTTGTGGGCTTTT--AAAGGTTGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
76594 ACTTGTGGGCTTTTGAAAAGGGTGCCACT-
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
** * *
76623 ACCTTGTGGGCTTAAAAAGAAAAAGAGTGCTA-TAG
1 A-CTTGTGGGCTT---TTG-AAAAGGGTGCCACT-G
* * ** * *
76658 AGTTGTGAGCTTACAAAAGAAAAAGAGTGCCACGG
1 ACTTGTGGGCTT----TTG-AAAAGGGTGCCACTG
* * * * *
76693 AGTTGTGGACTTTGGAAAA-GATGCCACCG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
**
76722 ACTTGTGGGCTTCGGAAAAGGGTGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
* *
76752 ATTTGTGGGC-TTTG--AAGGTTGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
***
76779 ACTTGTGGGCTTTTGAAAAAAAATGCCACTG
1 ACTTGTGGGCTTTTG-AAAAGGGTGCCACTG
* *
76810 ACTTGTGGGC-TTTGAAAAAGATGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
*
76839 ACTTGTGGACTTTTGAA
1 ACTTGTGGGCTTTTGAA
76856 GGGTGAGGAA
Statistics
Matches: 237, Mismatches: 35, Indels: 34
0.77 0.11 0.11
Matches are distributed among these distances:
27 21 0.09
28 42 0.18
29 49 0.21
30 54 0.23
31 21 0.09
33 2 0.01
34 19 0.08
35 29 0.12
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (30 bp):
ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
Found at i:76696 original size:35 final size:34
Alignment explanation
Indices: 76626--76699 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 34
76616 TGCCACTACC
* * *
76626 TTGTGGGCTTAAAAAGAAAAAGAGTGCTATAGAG
1 TTGTGAGCTTAAAAAGAAAAAGAGTGCCACAGAG
*
76660 TTGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAG
1 TTGTGAGCTTA-AAAAGAAAAAGAGTGCCACAGAG
76695 TTGTG
1 TTGTG
76700 GACTTTGGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
34 10 0.29
35 25 0.71
ACGTcount: A:0.38, C:0.09, G:0.30, T:0.23
Consensus pattern (34 bp):
TTGTGAGCTTAAAAAGAAAAAGAGTGCCACAGAG
Found at i:76727 original size:29 final size:29
Alignment explanation
Indices: 76678--76851 Score: 181
Period size: 29 Copynumber: 5.9 Consensus size: 29
76668 TTACAAAAGA
* * *
76678 AAAAGAGTGCCACGGAGTTGTGGACTTTGG
1 AAAAGA-TGCCACTGACTTGTGGGCTTTGG
* *
76708 AAAAGATGCCACCGACTTGTGGGCTTCGG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* *
76737 AAAAGGGTGCCACTGATTTGTGGGCTTT-G
1 AAAA-GATGCCACTGACTTGTGGGCTTTGG
* * *
76766 -AAGGTTGCCACTGACTTGTGGGCTTTTGAA
1 AAAAGATGCCACTGACTTGTGGGC-TTTG-G
* *
76796 AAAAAATGCCACTGACTTGTGGGCTTTGA
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
*
76825 AAAAGATGCCACTGACTTGTGGACTTT
1 AAAAGATGCCACTGACTTGTGGGCTTT
76852 TGAAGGGTGA
Statistics
Matches: 122, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
27 18 0.15
28 5 0.04
29 50 0.41
30 29 0.24
31 20 0.16
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (29 bp):
AAAAGATGCCACTGACTTGTGGGCTTTGG
Done.