Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_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: 8249038
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 38
Found at i:203914 original size:13 final size:13
Alignment explanation
Indices: 203898--203936 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
203888 ATCTTTAATA
*
203898 TATATTTCTTTTT
1 TATATTTCTTTTC
203911 TATATTTCTTTTC
1 TATATTTCTTTTC
203924 TATATTTCTTTTC
1 TATATTTCTTTTC
203937 AACAAAGAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (13 bp):
TATATTTCTTTTC
Found at i:204021 original size:101 final size:102
Alignment explanation
Indices: 203826--204012 Score: 295
Period size: 101 Copynumber: 1.8 Consensus size: 102
203816 TTTTTTTGTC
* *
203826 TTTCTTCTTCAACAAAGAGCAGTTTCATTTAAGTTTCCTCTTTTGTGCGTGGATTAAATTTCATC
1 TTTCTTCTTCAACAAAGAGCAGTTTCATTTAAGTTTCATCTTTTGTACGTGGATTAAATTTCATC
*
203891 TTTAATATATATTTCTTTTTTATATTTCTTTTCTATA
66 TTTAATATATATTTATTTTTTATATTTCTTTTCTATA
* * * *
203928 TTTCTT-TTCAACAAAGAGTAGTTTCCTTTAAGTTTCATCTTTTGTACGTTGATTAAATTTTATC
1 TTTCTTCTTCAACAAAGAGCAGTTTCATTTAAGTTTCATCTTTTGTACGTGGATTAAATTTCATC
*
203992 TTTCATATATATTTATTTTTT
66 TTTAATATATATTTATTTTTT
204013 GTCATTCTTC
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
101 71 0.92
102 6 0.08
ACGTcount: A:0.24, C:0.13, G:0.09, T:0.54
Consensus pattern (102 bp):
TTTCTTCTTCAACAAAGAGCAGTTTCATTTAAGTTTCATCTTTTGTACGTGGATTAAATTTCATC
TTTAATATATATTTATTTTTTATATTTCTTTTCTATA
Found at i:204603 original size:71 final size:71
Alignment explanation
Indices: 204507--204736 Score: 213
Period size: 74 Copynumber: 3.1 Consensus size: 71
204497 CTTTTTTGTC
*
204507 TTTCTTCTCCAACAAAGAGTAGTTTCATTTAAGTTTCTCTTTGT-GTGGA-TAATTTCATAT-TA
1 TTTCTT-TTCAACAAAGAGTAGTTTC-TTTAAGTTTCTCTTTGTAGT-GATTAATTT-ATATATA
204569 TATATTTCTT
62 TATATTTCTT
*
204579 TTTCTTTTCAACAAAGAGTAGTTTCTTTAAGTTTCATCTTTGTACGTGATTAATTTATTTCATAT
1 TTTCTTTTCAACAAAGAGTAGTTTCTTTAAGTTTC-TCTTTGTA-GTGATTAATTTATAT-ATAT
*
204644 ATATTTTTT
63 ATATTTCTT
* * * *
204653 TTTTTCTTTCAACAAA-AGTA-TTT-TTTAAGTTCCTCTTT-TGCGTGATTAAATTTCATCTTTC
1 TTTCT-TTTCAACAAAGAGTAGTTTCTTTAAGTTTCTCTTTGT-AGTGATT-AATTT-A--TAT-
204714 ATATATATTTCTT
59 ATATATATTTCTT
*
204727 TTTTTTTTCA
1 TTTCTTTTCA
204737 TTATTCTTCA
Statistics
Matches: 139, Mismatches: 7, Indels: 23
0.82 0.04 0.14
Matches are distributed among these distances:
70 17 0.12
71 35 0.25
72 21 0.15
73 16 0.12
74 40 0.29
75 10 0.07
ACGTcount: A:0.24, C:0.13, G:0.09, T:0.54
Consensus pattern (71 bp):
TTTCTTTTCAACAAAGAGTAGTTTCTTTAAGTTTCTCTTTGTAGTGATTAATTTATATATATATA
TTTCTT
Found at i:204957 original size:89 final size:89
Alignment explanation
Indices: 204580--206045 Score: 1691
Period size: 89 Copynumber: 16.8 Consensus size: 89
204570 ATATTTCTTT
204580 TTCTT-TTCAACAAAGAGTAGTTTC-TTTAAGTTTCATC-TTTGTACGT-GATT-AATTT-A--T
1 TTCTTCTTCAACAAAGAGTAGTTTCATTTAAGTTTCATCTTTTGTACGTGGATTAAATTTCATCT
204637 TTCATATATA-TT-TTTTTT-T--
66 TTCATATATATTTCTTTTTTGTCA
*
204656 TTC-T-TTCAACAAA-AGTA-TTT--TTTAAG-TTCCTCTTTTG--CGT-GATTAAATTTCATCT
1 TTCTTCTTCAACAAAGAGTAGTTTCATTTAAGTTTCATCTTTTGTACGTGGATTAAATTTCATCT
*
204711 TTCATATATATTTCTTTTTTTTTTCA
66 TTCATATATATTTC--TTTTTTGTCA
*
204737 TTATTCTTCAACAAA-AGTA-TTT--TTTAAGTTTCATCTTTTGTACGTGGATTAAATTTCATCT
1 TTCTTCTTCAACAAAGAGTAGTTTCATTTAAGTTTCATCTTTTGTACGTGGATTAAATTTCATCT
*
204798 TTC--ATATATTT-TTCTTT-T--
66 TTCATATATATTTCTTTTTTGTCA
* *
204816 TTCTTCTTCAACAAATAGTAGTTTCGTTTAAGTTTCATCTTTTGTACGTGGATTAAATTTCATCT
1 TTCTTCTTCAACAAAGAGTAGTTTCATTTAAGTTTCATCTTTTGTACGTGGATTAAATTTCATCT
204881 TTCATATATATTTCTTTTTTGTCA
66 TTCATATATATTTCTTTTTTGTCA
* * * * * *
204905 CTATTCTTCAACAAAGAGCAGTTTTATTTAAGTTTTC-TCTTTTTTGCGTGGATTAAATTTCATC
1 TTCTTCTTCAACAAAGAGTAGTTTCATTTAAG-TTTCATCTTTTGTACGTGGATTAAATTTCATC
* * * * *
204969 TTTTATATAAATTTATTTTTTTTCT
65 TTTCATATATATTTCTTTTTTGTCA
* *
204994 TTCTTCTTCAACAAAGAGTAGTTTCGTTTAAGTTTCATCTTTTGTACGTGGATTAAATTTTATCT
1 TTCTTCTTCAACAAAGAGTAGTTTCATTTAAGTTTCATCTTTTGTACGTGGATTAAATTTCATCT
205059 TTCATATATATTTCTTTTTTGTC-
66 TTCATATATATTTCTTTTTTGTCA
** * *
205082 TATCTTCTTCAACAAAGAGTAGTTTTGTTTAAGTTTCATATTGTGTACGTGGATTAAATTTCATC
1 T-TCTTCTTCAACAAAGAGTAGTTTCATTTAAGTTTCATCTTTTGTACGTGGATTAAATTTCATC
205147 TTTCATATATATTT-TCTTTTTGTCA
65 TTTCATATATATTTCT-TTTTTGTCA
*
205172 TTCTTCTTCAACAAAGAGTAGTTTCATTTAAGTTTCATCTTTTG-AGCGCGGATTAAATTTCATC
1 TTCTTCTTCAACAAAGAGTAGTTTCATTTAAGTTTCATCTTTTGTA-CGTGGATTAAATTTCATC
*
205236 TTTCATATATATTTCTTTTTTTTCA
65 TTTCATATATATTTCTTTTTTGTCA
*
205261 TTCTTCTTCAACAAAGTGTAGTTTCATTTAAGTTTCATCTTTTGTACGTGGATTAAATTTCATCT
1 TTCTTCTTCAACAAAGAGTAGTTTCATTTAAGTTTCATCTTTTGTACGTGGATTAAATTTCATCT
*
205326 TTCATATATATTTCTTTTTTGTCT
66 TTCATATATATTTCTTTTTTGTCA
* * * *** *
205350 TTCTTCTTCAACAAAGAGTTGTTTCATTTAAGTTTCCTCTTTTGTGCACAGCTTAAATTTCATC-
1 TTCTTCTTCAACAAAGAGTAGTTTCATTTAAGTTTCATCTTTTGTACGTGGATTAAATTTCATCT
*
205414 TTCTATATATATTTCTTTTTTTTGTCT
66 TTC-ATATATATTTC--TTTTTTGTCA
* * * * *
205441 TTTTTCTTTAACAAAGAGTACTTTCGTTTAAGTTTCATCTTTTGTGCGTGGATTAAATTTCATC-
1 TTCTTCTTCAACAAAGAGTAGTTTCATTTAAGTTTCATCTTTTGTACGTGGATTAAATTTCATCT
* * *
205505 TTC-TAT-TAATTCTTTTTTTTTCTTTTTT
66 TTCATATATATTTC-TTTTTTGTC-----A
* **
205533 TGTCTTCTTCAACAAATAGTAGTTTTTGTTTAAGTTTCATCTTTTGTACGTGGATTAAATTT-AT
1 T-TCTTCTTCAACAAAGAGTAG-TTTCATTTAAGTTTCATCTTTTGTACGTGGATTAAATTTCAT
*
205597 CTTTCATATATATTTATTTTTTGTCA
64 CTTTCATATATATTTCTTTTTTGTCA
* * *
205623 TTCTTCTTCAATAAAGAGTAGTTTTCATTTAAGTTTTC-TCTTTTGTGCGCGGATTAAATTTCAT
1 TTCTTCTTCAACAAAGAGTAG-TTTCATTTAAG-TTTCATCTTTTGTACGTGGATTAAATTTCAT
*
205687 CTTTCATATATATTTCCTTTTTGTCA
64 CTTTCATATATATTTCTTTTTTGTCA
* ** * *
205713 TTTTTCTTCAACAAAGAGTAGTTTTGTTTAAGTTTCATATTTTGTA-GGGGATTAAATTTCATCT
1 TTCTTCTTCAACAAAGAGTAGTTTCATTTAAGTTTCATCTTTTGTACGTGGATTAAATTTCATCT
** * *
205777 TTTGTATATATTTATTTTTTGTCT
66 TTCATATATATTTCTTTTTTGTCA
* *
205801 TTGTTCTTCAACAAAGAGTAGTTT--TGTT---TTTCATCTTTTGTACGGGGATTAAATTTCATC
1 TTCTTCTTCAACAAAGAGTAGTTTCAT-TTAAGTTTCATCTTTTGTACGTGGATTAAATTTCATC
*
205861 TTTCATATATATTTCTTTTTTGTCT
65 TTTCATATATATTTCTTTTTTGTCA
* * * *
205886 TTCTCCTTCAACAAAGAGTAGTTTCATTTAAGTTTCATTTTTTATACGTGGATTAAATTTTATCT
1 TTCTTCTTCAACAAAGAGTAGTTTCATTTAAGTTTCATCTTTTGTACGTGGATTAAATTTCATCT
*
205951 TTCATATATATTTCTTTTTTGTCT
66 TTCATATATATTTCTTTTTTGTCA
* * ** * * * * * * *
205975 TTGTTTTTCAACAAATTGTAATTTTATTTAAATTTCATC-CTTGTATGTGGGTTAAGTTTCATCT
1 TTCTTCTTCAACAAAGAGTAGTTTCATTTAAGTTTCATCTTTTGTACGTGGATTAAATTTCATCT
206039 TTCATAT
66 TTCATAT
206046 GTGAGTGTAT
Statistics
Matches: 1210, Mismatches: 121, Indels: 106
0.84 0.08 0.07
Matches are distributed among these distances:
70 7 0.01
71 10 0.01
72 11 0.01
73 3 0.00
74 15 0.01
75 12 0.01
76 3 0.00
78 6 0.00
79 15 0.01
80 4 0.00
81 6 0.00
82 6 0.00
83 64 0.05
84 23 0.02
85 77 0.06
86 11 0.01
87 31 0.03
88 104 0.09
89 602 0.50
90 57 0.05
91 67 0.06
92 2 0.00
93 19 0.02
94 40 0.03
95 11 0.01
96 4 0.00
ACGTcount: A:0.23, C:0.13, G:0.10, T:0.53
Consensus pattern (89 bp):
TTCTTCTTCAACAAAGAGTAGTTTCATTTAAGTTTCATCTTTTGTACGTGGATTAAATTTCATCT
TTCATATATATTTCTTTTTTGTCA
Found at i:205021 original size:178 final size:178
Alignment explanation
Indices: 204063--206045 Score: 2192
Period size: 178 Copynumber: 11.5 Consensus size: 178
204053 CTTTTTTTAT
*
204063 TTTCATATATA-TT-TTTTTTGTC-TTC-T-TTCAACAAATAGTAG-TTT-TTTAAGTTTC--CT
1 TTTCATATATATTTCTTTTTTGTCATTCTTCTTCAACAAAGAGTAGTTTTATTTAAGTTTCATCT
204119 TTTGTACGTGGATT-AA-TTCAT-TTTC--ATATATTTCTTTTTTGTCTTTCTTCTTCAACAAAG
66 TTTGTACGTGGATTAAATTTCATCTTTCATATATATTTCTTTTTTGTCTTTCTTCTTCAACAAAG
* * * *
204179 AATAGTTTTGTTTAAGTTTCATCTTTTGAATGTGGATTAAATTTCATC
131 AGTAGTTTCGTTTAAGTTTCATCTTTTGTACGTGGATTAAATTTCATC
* **
204227 TTTCATATATATTTCTTTTTTGGT--TT-TTTTTCAACAAAGAGTAGTTTCGTTTAAGTTTCATC
1 TTTCATATATATTTCTTTTTT-GTCATTCTTCTTCAACAAAGAGTAGTTTTATTTAAGTTTCATC
* *
204289 -TTTG-A-ATGGA-TAAA-TTCATCTTTCATATATATTTATTTTTTG---TT-TT-TTCAACAAA
65 TTTTGTACGTGGATTAAATTTCATCTTTCATATATATTTCTTTTTTGTCTTTCTTCTTCAACAAA
* * ** * *
204344 GAGTAGTTTCATTTAAGTTTCTTCTTTTGGGCGTGGATTTAATTTTATC
130 GAGTAGTTTCGTTTAAGTTTCATCTTTTGTACGTGGATTAAATTTCATC
* * * **
204393 TTTCATATATATTTCTTTTTTTGTCTTTCTTATTCAACAATGAGTAGTTTCGTTTAAGTTTCATC
1 TTTCATATATATTTC-TTTTTTGTCATTCTTCTTCAACAAAGAGTAGTTTTATTTAAGTTTCATC
** * *
204458 TTTTGTTTGTGGATTAAATTTCATATTTCATATATATTTCTTTTTTGTCTTTCTTCTCCAACAAA
65 TTTTGTACGTGGATTAAATTTCATCTTTCATATATATTTCTTTTTTGTCTTTCTTCTTCAACAAA
*
204523 GAGTAGTTTCATTTAAGTTTC-TC-TTTGT--GTGGA-T-AATTTCA--
130 GAGTAGTTTCGTTTAAGTTTCATCTTTTGTACGTGGATTAAATTTCATC
* *
204564 TAT--TATATATTTC----TT-T--TTCTT-TTCAACAAAGAGTAG-TTTCTTTAAGTTTCATC-
1 TTTCATATATATTTCTTTTTTGTCATTCTTCTTCAACAAAGAGTAGTTTTATTTAAGTTTCATCT
204617 TTTGTACGT-GATT-AATTT-A--TTTCATATATA--T-TTTTTT-T-TTTC-T-TTCAACAAA-
66 TTTGTACGTGGATTAAATTTCATCTTTCATATATATTTCTTTTTTGTCTTTCTTCTTCAACAAAG
*
204669 AGTA-TTT--TTTAAG-TTCCTCTTTTG--CGT-GATTAAATTTCATC
131 AGTAGTTTCGTTTAAGTTTCATCTTTTGTACGTGGATTAAATTTCATC
* *
204710 TTTCATATATATTTCTTTTTTTTTTCATTATTCTTCAACAAA-AGTA--TTT-TTTAAGTTTCAT
1 TTTCATATATATTTC--TTTTTTGTCATTCTTCTTCAACAAAGAGTAGTTTTATTTAAGTTTCAT
*
204771 CTTTTGTACGTGGATTAAATTTCATCTTTC--ATATA-TT-TTTCTT-T-TTTCTTCTTCAACAA
64 CTTTTGTACGTGGATTAAATTTCATCTTTCATATATATTTCTTTTTTGTCTTTCTTCTTCAACAA
*
204830 ATAGTAGTTTCGTTTAAGTTTCATCTTTTGTACGTGGATTAAATTTCATC
129 AGAGTAGTTTCGTTTAAGTTTCATCTTTTGTACGTGGATTAAATTTCATC
* * *
204880 TTTCATATATATTTCTTTTTTGTCACTATTCTTCAACAAAGAGCAGTTTTATTTAAGTTTTC-TC
1 TTTCATATATATTTCTTTTTTGTCATTCTTCTTCAACAAAGAGTAGTTTTATTTAAG-TTTCATC
* * * * * *
204944 TTTTTTGCGTGGATTAAATTTCATCTTTTATATAAATTTATTTTTTTTCTTTCTTCTTCAACAAA
65 TTTTGTACGTGGATTAAATTTCATCTTTCATATATATTTCTTTTTTGTCTTTCTTCTTCAACAAA
*
205009 GAGTAGTTTCGTTTAAGTTTCATCTTTTGTACGTGGATTAAATTTTATC
130 GAGTAGTTTCGTTTAAGTTTCATCTTTTGTACGTGGATTAAATTTCATC
* *
205058 TTTCATATATATTTCTTTTTTGTC-TATCTTCTTCAACAAAGAGTAGTTTTGTTTAAGTTTCATA
1 TTTCATATATATTTCTTTTTTGTCAT-TCTTCTTCAACAAAGAGTAGTTTTATTTAAGTTTCATC
* *
205122 TTGTGTACGTGGATTAAATTTCATCTTTCATATATATTT-TCTTTTTGTCATTCTTCTTCAACAA
65 TTTTGTACGTGGATTAAATTTCATCTTTCATATATATTTCT-TTTTTGTCTTTCTTCTTCAACAA
* *
205186 AGAGTAGTTTCATTTAAGTTTCATCTTTTG-AGCGCGGATTAAATTTCATC
129 AGAGTAGTTTCGTTTAAGTTTCATCTTTTGTA-CGTGGATTAAATTTCATC
* * *
205236 TTTCATATATATTTCTTTTTTTTCATTCTTCTTCAACAAAGTGTAGTTTCATTTAAGTTTCATCT
1 TTTCATATATATTTCTTTTTTGTCATTCTTCTTCAACAAAGAGTAGTTTTATTTAAGTTTCATCT
205301 TTTGTACGTGGATTAAATTTCATCTTTCATATATATTTCTTTTTTGTCTTTCTTCTTCAACAAAG
66 TTTGTACGTGGATTAAATTTCATCTTTCATATATATTTCTTTTTTGTCTTTCTTCTTCAACAAAG
* * * * *** *
205366 AGTTGTTTCATTTAAGTTTCCTCTTTTGTGCACAGCTTAAATTTCATC
131 AGTAGTTTCGTTTAAGTTTCATCTTTTGTACGTGGATTAAATTTCATC
* * * * **
205414 -TTCTATATATATTTCTTTTTTTTGTCTTTTTTCTTTAACAAAGAGTACTTTCGTTTAAGTTTCA
1 TTTC-ATATATATTTC--TTTTTTGTCATTCTTCTTCAACAAAGAGTAGTTTTATTTAAGTTTCA
* * *
205478 TCTTTTGTGCGTGGATTAAATTTCATC-TTC-TAT-TAATTCTTTTTTTTTCTTTTTTTGTCTTC
63 TCTTTTGTACGTGGATTAAATTTCATCTTTCATATATATTTC-TTTTTTGTC-----TT-TCTTC
* *
205540 TTCAACAAATAGTAGTTTTTGTTTAAGTTTCATCTTTTGTACGTGGATTAAATTT-ATC
121 TTCAACAAAGAGTAG-TTTCGTTTAAGTTTCATCTTTTGTACGTGGATTAAATTTCATC
* *
205598 TTTCATATATATTTATTTTTTGTCATTCTTCTTCAATAAAGAGTAGTTTTCATTTAAGTTTTC-T
1 TTTCATATATATTTCTTTTTTGTCATTCTTCTTCAACAAAGAGTAGTTTT-ATTTAAG-TTTCAT
* * *
205662 CTTTTGTGCGCGGATTAAATTTCATCTTTCATATATATTTCCTTTTTGTCATTT-TTCTTCAACA
64 CTTTTGTACGTGGATTAAATTTCATCTTTCATATATATTTCTTTTTTGTC-TTTCTTCTTCAACA
* * *
205726 AAGAGTAGTTTTGTTTAAGTTTCATATTTTGTA-GGGGATTAAATTTCATC
128 AAGAGTAGTTTCGTTTAAGTTTCATCTTTTGTACGTGGATTAAATTTCATC
** * * * *
205776 TTTTGTATATATTTATTTTTTGTCTTTGTTCTTCAACAAAGAGTAGTTTT-GTT---TTTCATCT
1 TTTCATATATATTTCTTTTTTGTCATTCTTCTTCAACAAAGAGTAGTTTTATTTAAGTTTCATCT
* *
205837 TTTGTACGGGGATTAAATTTCATCTTTCATATATATTTCTTTTTTGTCTTTCTCCTTCAACAAAG
66 TTTGTACGTGGATTAAATTTCATCTTTCATATATATTTCTTTTTTGTCTTTCTTCTTCAACAAAG
* * * *
205902 AGTAGTTTCATTTAAGTTTCATTTTTTATACGTGGATTAAATTTTATC
131 AGTAGTTTCGTTTAAGTTTCATCTTTTGTACGTGGATTAAATTTCATC
* * * ** * *
205950 TTTCATATATATTTCTTTTTTGTCTTTGTTTTTCAACAAATTGTAATTTTATTTAAATTTCATC-
1 TTTCATATATATTTCTTTTTTGTCATTCTTCTTCAACAAAGAGTAGTTTTATTTAAGTTTCATCT
* * * *
206014 CTTGTATGTGGGTTAAGTTTCATCTTTCATAT
66 TTTGTACGTGGATTAAATTTCATCTTTCATAT
206046 GTGAGTGTAT
Statistics
Matches: 1577, Mismatches: 136, Indels: 199
0.82 0.07 0.10
Matches are distributed among these distances:
141 3 0.00
142 10 0.01
143 7 0.00
144 10 0.01
145 4 0.00
146 10 0.01
147 1 0.00
148 14 0.01
149 1 0.00
150 6 0.00
151 1 0.00
153 11 0.01
154 2 0.00
155 15 0.01
156 17 0.01
157 16 0.01
158 21 0.01
159 21 0.01
160 25 0.02
161 10 0.01
162 9 0.01
163 5 0.00
164 16 0.01
165 2 0.00
166 81 0.05
167 35 0.02
168 40 0.03
169 65 0.04
170 37 0.02
171 21 0.01
172 45 0.03
173 100 0.06
174 89 0.06
175 9 0.01
176 7 0.00
177 60 0.04
178 481 0.31
179 51 0.03
180 67 0.04
181 2 0.00
182 29 0.02
183 34 0.02
184 38 0.02
185 44 0.03
186 5 0.00
ACGTcount: A:0.23, C:0.13, G:0.10, T:0.53
Consensus pattern (178 bp):
TTTCATATATATTTCTTTTTTGTCATTCTTCTTCAACAAAGAGTAGTTTTATTTAAGTTTCATCT
TTTGTACGTGGATTAAATTTCATCTTTCATATATATTTCTTTTTTGTCTTTCTTCTTCAACAAAG
AGTAGTTTCGTTTAAGTTTCATCTTTTGTACGTGGATTAAATTTCATC
Found at i:205228 original size:267 final size:266
Alignment explanation
Indices: 204063--206045 Score: 2213
Period size: 267 Copynumber: 7.7 Consensus size: 266
204053 CTTTTTTTAT
*
204063 TTTCATATATA-TT-TTTTTTGTCTTC-T-TTCAACAAATAGTAGTTT--TTTAAGTTTC--CTT
1 TTTCATATATATTTCTTTTTTGTCTTCTTCTTCAACAAAGAGTAGTTTCATTTAAGTTTCATCTT
*
204120 TTGTACGTGGATT-AA-TTCAT-TTTCATATAT-TTCT-TTTTTGTCTTTCTTCTTCAACAAAGA
66 TTGTACGTGGATTAAATTTCATCTTTCATATATATTTTCTTTTTGTCTTTCTTCTTCAACAAAGA
* **
204180 ATAGTTTTGTTTAAGTTTCATCTTTTGAATGTGGATTAAATTTCATCTTTCATATATATTTCTTT
131 GTAGTTTTGTTTAAGTTTCATCTTTTGAGCGTGGATTAAATTTCATCTTTCATATATATTTCTTT
* *
204245 TTTGGT-TTT-TT-TTCAACAAAGAGTAGTTTCGTTTAAGTTTCATC-TTTG-A-ATGGA-TAAA
196 TTT-TTCTTTCTTCTTCAACAAAGAGTAGTTTCGTTTAAGTTTCATCTTTTGTACGTGGATTAAA
204303 -TTCATC
260 TTTCATC
* *
204309 TTTCATATATATTTATTTTTTG--TT-TT-TTCAACAAAGAGTAGTTTCATTTAAGTTTCTTCTT
1 TTTCATATATATTTCTTTTTTGTCTTCTTCTTCAACAAAGAGTAGTTTCATTTAAGTTTCATCTT
** * * * * *
204370 TTGGGCGTGGATTTAATTTTATCTTTCATATATATTTCTTTTTTTGTCTTTCTTATTCAACAATG
66 TTGTACGTGGATTAAATTTCATCTTTCATATATATTT-TCTTTTTGTCTTTCTTCTTCAACAAAG
* *** *
204435 AGTAGTTTCGTTTAAGTTTCATCTTTTGTTTGTGGATTAAATTTCATATTTCATATATATTTCTT
130 AGTAGTTTTGTTTAAGTTTCATCTTTTGAGCGTGGATTAAATTTCATCTTTCATATATATTTCTT
* * *
204500 TTTTGTCTTTCTTCTCCAACAAAGAGTAGTTTCATTTAAGTTTC-TC-TTTGT--GTGGA-T-AA
195 TTTTTTCTTTCTTCTTCAACAAAGAGTAGTTTCGTTTAAGTTTCATCTTTTGTACGTGGATTAAA
204559 TTTCA--
260 TTTCATC
*
204564 TAT--TATATATTTC----TT-T-TTCTT-TTCAACAAAGAGTAGTTTC-TTTAAGTTTCATC-T
1 TTTCATATATATTTCTTTTTTGTCTTCTTCTTCAACAAAGAGTAGTTTCATTTAAGTTTCATCTT
204618 TTGTACGT-GATT-AATTT-A--TTTCATATATA--TT-TTTTT-T-TTTC-T-TTCAACAAA-A
66 TTGTACGTGGATTAAATTTCATCTTTCATATATATTTTCTTTTTGTCTTTCTTCTTCAACAAAGA
*
204670 GTA--TTT-TTTAAG-TTCCTCTTTT--GCGT-GATTAAATTTCATCTTTCATATATATTTCTTT
131 GTAGTTTTGTTTAAGTTTCATCTTTTGAGCGTGGATTAAATTTCATCTTTCATATATATTTC--T
* *
204728 TTTTTTTCATTATTCTTCAACAAA-AGTA-TTT--TTTAAGTTTCATCTTTTGTACGTGGATTAA
194 TTTTTTTCTTTCTTCTTCAACAAAGAGTAGTTTCGTTTAAGTTTCATCTTTTGTACGTGGATTAA
204789 ATTTCATC
259 ATTTCATC
* * *
204797 TTTC--ATATATTT-TTCTTT-T-TTCTTCTTCAACAAATAGTAGTTTCGTTTAAGTTTCATCTT
1 TTTCATATATATTTCTTTTTTGTCTTCTTCTTCAACAAAGAGTAGTTTCATTTAAGTTTCATCTT
** *
204857 TTGTACGTGGATTAAATTTCATCTTTCATATATA-TTTCTTTTTTGTCACTATTCTTCAACAAAG
66 TTGTACGTGGATTAAATTTCATCTTTCATATATATTTTC-TTTTTGTCTTTCTTCTTCAACAAAG
* * ** * * *
204921 AGCAGTTTTATTTAAGTTTTC-TCTTTTTTGCGTGGATTAAATTTCATCTTTTATATAAATTTAT
130 AGTAGTTTTGTTTAAG-TTTCATCTTTTGAGCGTGGATTAAATTTCATCTTTCATATATATTTCT
204985 TTTTTTTCTTTCTTCTTCAACAAAGAGTAGTTTCGTTTAAGTTTCATCTTTTGTACGTGGATTAA
194 TTTTTTTCTTTCTTCTTCAACAAAGAGTAGTTTCGTTTAAGTTTCATCTTTTGTACGTGGATTAA
*
205050 ATTTTATC
259 ATTTCATC
** *
205058 TTTCATATATATTTCTTTTTTGTCTATCTTCTTCAACAAAGAGTAGTTTTGTTTAAGTTTCATAT
1 TTTCATATATATTTCTTTTTTGTCT-TCTTCTTCAACAAAGAGTAGTTTCATTTAAGTTTCATCT
* *
205123 TGTGTACGTGGATTAAATTTCATCTTTCATATATATTTTCTTTTTGTCATTCTTCTTCAACAAAG
65 TTTGTACGTGGATTAAATTTCATCTTTCATATATATTTTCTTTTTGTCTTTCTTCTTCAACAAAG
** *
205188 AGTAGTTTCATTTAAGTTTCATCTTTTGAGCGCGGATTAAATTTCATCTTTCATATATATTTCTT
130 AGTAGTTTTGTTTAAGTTTCATCTTTTGAGCGTGGATTAAATTTCATCTTTCATATATATTTCTT
* * *
205253 TTTTTTCATTCTTCTTCAACAAAGTGTAGTTTCATTTAAGTTTCATCTTTTGTACGTGGATTAAA
195 TTTTTTCTTTCTTCTTCAACAAAGAGTAGTTTCGTTTAAGTTTCATCTTTTGTACGTGGATTAAA
205318 TTTCATC
260 TTTCATC
* *
205325 TTTCATATATATTTCTTTTTTGTCTTTCTTCTTCAACAAAGAGTTGTTTCATTTAAGTTTCCTCT
1 TTTCATATATATTTCTTTTTTGTC-TTCTTCTTCAACAAAGAGTAGTTTCATTTAAGTTTCATCT
* *** * * * *
205390 TTTGTGCACAGCTTAAATTTCATC-TTCTATATATATTTCTTTTTTTTGTCTTTTTTCTTTAACA
65 TTTGTACGTGGATTAAATTTCATCTTTC-ATATATA-TT-TTCTTTTTGTCTTTCTTCTTCAACA
* * * *
205454 AAGAGTACTTTCGTTTAAGTTTCATCTTTTGTGCGTGGATTAAATTTCATC-TTC-TAT-TAATT
127 AAGAGTAGTTTTGTTTAAGTTTCATCTTTTGAGCGTGGATTAAATTTCATCTTTCATATATATTT
* *
205516 CTTTTTTTTTCTTTTTTTGTCTTCTTCAACAAATAGTAGTTTTTGTTTAAGTTTCATCTTTTGTA
192 C-TTTTTTTTC-----TT-TCTTCTTCAACAAAGAGTAG-TTTCGTTTAAGTTTCATCTTTTGTA
205581 CGTGGATTAAATTT-ATC
249 CGTGGATTAAATTTCATC
* *
205598 TTTCATATATATTTATTTTTTGTCATTCTTCTTCAATAAAGAGTAGTTTTCATTTAAGTTTTC-T
1 TTTCATATATATTTCTTTTTTGTC-TTCTTCTTCAACAAAGAGTAG-TTTCATTTAAG-TTTCAT
* * *
205662 CTTTTGTGCGCGGATTAAATTTCATCTTTCATATATATTTCCTTTTTGTCATTT-TTCTTCAACA
63 CTTTTGTACGTGGATTAAATTTCATCTTTCATATATATTTTCTTTTTGTC-TTTCTTCTTCAACA
* **
205726 AAGAGTAGTTTTGTTTAAGTTTCATATTTTGTAG-G-GGATTAAATTTCATCTTTTGTATATATT
127 AAGAGTAGTTTTGTTTAAGTTTCATCTTTTG-AGCGTGGATTAAATTTCATCTTTCATATATATT
* * * * *
205789 TATTTTTTGTCTTTGTTCTTCAACAAAGAGTAGTTTTG-TT---TTTCATCTTTTGTACGGGGAT
191 TCTTTTTTTTCTTTCTTCTTCAACAAAGAGTAGTTTCGTTTAAGTTTCATCTTTTGTACGTGGAT
205850 TAAATTTCATC
256 TAAATTTCATC
* *
205861 TTTCATATATATTTCTTTTTTGTCTTTCTCCTTCAACAAAGAGTAGTTTCATTTAAGTTTCATTT
1 TTTCATATATATTTCTTTTTTGTC-TTCTTCTTCAACAAAGAGTAGTTTCATTTAAGTTTCATCT
* * * *
205926 TTTATACGTGGATTAAATTTTATCTTTCATATATA-TTTCTTTTTTGTCTTTGTTTTTCAACAAA
65 TTTGTACGTGGATTAAATTTCATCTTTCATATATATTTTC-TTTTTGTCTTTCTTCTTCAACAAA
** * * * * * * *
205990 TTGTAATTTTATTTAAATTTCATC-CTTGTA-TGTGGGTTAAGTTTCATCTTTCATAT
129 GAGTAGTTTTGTTTAAGTTTCATCTTTTG-AGCGTGGATTAAATTTCATCTTTCATAT
206046 GTGAGTGTAT
Statistics
Matches: 1511, Mismatches: 129, Indels: 178
0.83 0.07 0.10
Matches are distributed among these distances:
225 10 0.01
226 2 0.00
227 36 0.02
228 6 0.00
229 26 0.02
230 10 0.01
231 13 0.01
232 2 0.00
233 10 0.01
234 4 0.00
235 8 0.01
236 9 0.01
237 22 0.01
238 14 0.01
239 14 0.01
240 5 0.00
241 6 0.00
242 1 0.00
243 11 0.01
244 11 0.01
245 3 0.00
246 36 0.02
247 11 0.01
248 25 0.02
249 17 0.01
250 36 0.02
251 11 0.01
252 7 0.00
253 19 0.01
254 5 0.00
255 11 0.01
256 98 0.06
257 43 0.03
258 36 0.02
259 29 0.02
261 57 0.04
262 127 0.08
263 53 0.04
264 5 0.00
265 3 0.00
266 18 0.01
267 326 0.22
268 12 0.01
269 68 0.05
271 15 0.01
272 50 0.03
273 80 0.05
274 83 0.05
275 7 0.00
ACGTcount: A:0.23, C:0.13, G:0.10, T:0.53
Consensus pattern (266 bp):
TTTCATATATATTTCTTTTTTGTCTTCTTCTTCAACAAAGAGTAGTTTCATTTAAGTTTCATCTT
TTGTACGTGGATTAAATTTCATCTTTCATATATATTTTCTTTTTGTCTTTCTTCTTCAACAAAGA
GTAGTTTTGTTTAAGTTTCATCTTTTGAGCGTGGATTAAATTTCATCTTTCATATATATTTCTTT
TTTTTCTTTCTTCTTCAACAAAGAGTAGTTTCGTTTAAGTTTCATCTTTTGTACGTGGATTAAAT
TTCATC
Found at i:210466 original size:2 final size:2
Alignment explanation
Indices: 210459--210487 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
210449 ATAATAGTAC
210459 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
210488 CACAAAAGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:212990 original size:139 final size:138
Alignment explanation
Indices: 212727--213162 Score: 482
Period size: 139 Copynumber: 3.1 Consensus size: 138
212717 ATAAATTGAT
* * * * * * * * * * *
212727 GACAACACGGTTCCTACGTGATG-AGTAAGTGTGATTGTCTGAGGGTGACAATGCTCCTTCGCGT
1 GACAACACAGTTCCTATGTGATGAAG-AAGTCTGGTTATCTGAGGATGACACTACTCATACGC-A
* * * *
212791 TTGAGGAGATCTGGTTGGTGGACAACATTGTTCCTACGTGATGAGGATGTCTA-CCATCTTTAGG
64 TTGAGGAGATCTGGTCGGTGGAGAA-ATTGTTCCTACGTGATGAGGACGTCTAGCCGTCTTTAGG
212855 GATAATTTGGA
128 GATAATTTGGA
* * * *
212866 AACAAGACAGTTCCTATGTGATGAAGAAGTCTGGTTATCTGAGGATGACGCTACTCCTACGCATT
1 GACAACACAGTTCCTATGTGATGAAGAAGTCTGGTTATCTGAGGATGACACTACTCATACGCATT
** * *
212931 GAGGAGATCTGGTCGGTGGATGAAATT-TTACCTACGTGATGAAAACATTTAGCCGTCTTTAGGG
66 GAGGAGATCTGGTCGGTGGA-GAAATTGTT-CCTACGTGATGAGGACGTCTAGCCGTCTTTAGGG
*
212995 ATAAATTGGA
129 ATAATTTGGA
* ** * * * *
213005 GACAACACGGTTCCTACATGATGAGGAAGTCTTGTTATCTGAGGATGATACTGCTCATACGCATT
1 GACAACACAGTTCCTATGTGATGAAGAAGTCTGGTTATCTGAGGATGACACTACTCATACGCATT
* * * *
213070 GAAGAGATCTGGTCGGTGGACGACATTGTTCTTATGTGATGAGGACGTCTAGCCGTCTTTAGGGA
66 GAGGAGATCTGGTCGGTGGA-GAAATTGTTCCTACGTGATGAGGACGTCTAGCCGTCTTTAGGGA
213135 TAATTTGGA
130 TAATTTGGA
213144 GACAACACAGTTCCTATGT
1 GACAACACAGTTCCTATGT
213163 TTAAAGAGAA
Statistics
Matches: 246, Mismatches: 46, Indels: 10
0.81 0.15 0.03
Matches are distributed among these distances:
137 2 0.01
138 40 0.16
139 200 0.81
140 4 0.02
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (138 bp):
GACAACACAGTTCCTATGTGATGAAGAAGTCTGGTTATCTGAGGATGACACTACTCATACGCATT
GAGGAGATCTGGTCGGTGGAGAAATTGTTCCTACGTGATGAGGACGTCTAGCCGTCTTTAGGGAT
AATTTGGA
Found at i:213299 original size:67 final size:67
Alignment explanation
Indices: 213158--213360 Score: 248
Period size: 67 Copynumber: 3.0 Consensus size: 67
213148 ACACAGTTCC
* * * ** * * **
213158 TATGTTTAAAGAGAAATTATCTCAAGCGTGACAAAAATGT-TTTCGAGAGAATTAATCTCAAAGG
1 TATGTTTCAAGAGAACTTGTCTCAAGCGAAACAAAACTTTGTTTCGAGAGAAACAATCTCAAAGG
213222 TT
66 TT
* * *
213224 TCTGTTTCAAGAGAAAC-TGTCTTAAGCGAAACAAAACTTTGTTTCGAGATAAACAATCTCAAAG
1 TATGTTTCAAGAG-AACTTGTCTCAAGCGAAACAAAACTTTGTTTCGAGAGAAACAATCTCAAAG
*
213288 ATT
65 GTT
* *
213291 TATTTTTCAAGAGAACTTGTCTCAAGCGAGACAAAACTTTGTTTCGAGAGAAACAATCTCAAAGG
1 TATGTTTCAAGAGAACTTGTCTCAAGCGAAACAAAACTTTGTTTCGAGAGAAACAATCTCAAAGG
213356 TT
66 TT
213358 TAT
1 TAT
213361 ATATTTTGTT
Statistics
Matches: 115, Mismatches: 19, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
66 31 0.27
67 84 0.73
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (67 bp):
TATGTTTCAAGAGAACTTGTCTCAAGCGAAACAAAACTTTGTTTCGAGAGAAACAATCTCAAAGG
TT
Found at i:213477 original size:101 final size:99
Alignment explanation
Indices: 213308--213659 Score: 336
Period size: 99 Copynumber: 3.5 Consensus size: 99
213298 CAAGAGAACT
* * * * *
213308 TGTCTCAAGCGAGACAAAACTTTGTTTCGAGAGAAACAATCTCAAAGGTTTATATATTTTGTTTC
1 TGTCTCAAGCGAGACGAAA-TTTGTTT--AAAAAAACAATCTCAAATG-TTA-AAATTTTGTTTC
*
213373 AAGTGAAATAATTTCCAAATTTTGTGTTTTGAGGGAAAAC
61 AAGTGAAACAATTT-CAAATTTTGTGTTTTGAGGGAAAAC
* *
213413 TGTCTCAAGCGAGATGAAATTTGTTTAAAAAAACAATCTCAAATGTTACCAATTTTGTTTCAAGT
1 TGTCTCAAGCGAGACGAAATTTGTTTAAAAAAACAATCTCAAATGTTA-AAATTTTGTTTCAAGT
* * * *
213478 GAAACAATTTCAAAATTTGTGTTTCGAAGAAAAAC
65 GAAACAATTTCAAATTTTGTGTTTTGAGGGAAAAC
* * * ** * * **
213513 TGTCTCAAGTGAGATGAATTTTGTTT-TGAGAACAATCTCAAGTGAGATAAATTTTGTTTCAAGT
1 TGTCTCAAGCGAGACGAAATTTGTTTAAAAAAACAATCTCAAATGTTA-AAATTTTGTTTCAAGT
*
213577 GAAACAATTTAAAATATTT-T-TTGTTG-GGG-AAAC
65 GAAACAATTTCAAAT-TTTGTGTT-TTGAGGGAAAAC
* *
213610 TTTCTCAAGTGAGACGAAATTTGTTTTTAAGAAAAACAATCTCAAATGTT
1 TGTCTCAAGCGAGACGAAATTTG--TTTAA-AAAAACAATCTCAAATGTT
213660 CGTGACATAA
Statistics
Matches: 204, Mismatches: 37, Indels: 16
0.79 0.14 0.06
Matches are distributed among these distances:
97 24 0.12
98 3 0.01
99 49 0.24
100 48 0.24
101 40 0.20
102 16 0.08
104 7 0.03
105 17 0.08
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (99 bp):
TGTCTCAAGCGAGACGAAATTTGTTTAAAAAAACAATCTCAAATGTTAAAATTTTGTTTCAAGTG
AAACAATTTCAAATTTTGTGTTTTGAGGGAAAAC
Found at i:213729 original size:38 final size:37
Alignment explanation
Indices: 213675--213749 Score: 96
Period size: 38 Copynumber: 2.0 Consensus size: 37
213665 CATAAGGAAG
* * * *
213675 ACTGTCTCAAGTGAGACGAATTTTTTTTTTTAAGAAAA
1 ACTGTCTAAAGCGAGACGAA-ATTTGTTTTTAAGAAAA
*
213713 ACTGTCTAAAGCGAGACTAAATTTGTTTTTAAGAAAA
1 ACTGTCTAAAGCGAGACGAAATTTGTTTTTAAGAAAA
213750 CAATCTCAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
37 15 0.47
38 17 0.53
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (37 bp):
ACTGTCTAAAGCGAGACGAAATTTGTTTTTAAGAAAA
Found at i:213774 original size:36 final size:36
Alignment explanation
Indices: 213679--213804 Score: 105
Period size: 36 Copynumber: 3.4 Consensus size: 36
213669 AGGAAGACTG
* **
213679 TCTCAAGTGAGACGAATTTTTTTTTTTAAGAAAAACTG
1 TCTCAAGTGAGACGAA-TTTTGTTTTTAAG-AAAACAA
* * * *
213717 TCTAAAGCGAGACTAAATTTGTTTTTAAGAAAACAA
1 TCTCAAGTGAGACGAATTTTGTTTTTAAGAAAACAA
*
213753 TCTCAAGTGAGATC-AATTTTG-TTTAAAGAAAA-AA
1 TCTCAAGTGAGA-CGAATTTTGTTTTTAAGAAAACAA
*
213787 TGTCTCTAGTGAGACGAA
1 --TCTCAAGTGAGACGAA
213805 ACTGTAACAC
Statistics
Matches: 72, Mismatches: 12, Indels: 10
0.77 0.13 0.11
Matches are distributed among these distances:
34 2 0.03
35 11 0.15
36 34 0.47
37 12 0.17
38 13 0.18
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (36 bp):
TCTCAAGTGAGACGAATTTTGTTTTTAAGAAAACAA
Found at i:214552 original size:22 final size:22
Alignment explanation
Indices: 214519--214601 Score: 78
Period size: 23 Copynumber: 3.7 Consensus size: 22
214509 TATATTTGCA
214519 CCGAAGTG-CCACATAGAATGTC
1 CCGAAG-GACCACATAGAATGTC
* *
214541 CCGAAGGACCACATAGGTATATC
1 CCGAAGGACCACATA-GAATGTC
* * *
214564 CCAAAGGACTACGTAGAAATGTC
1 CCGAAGGACCACATAG-AATGTC
*
214587 CCGAATGACCACATA
1 CCGAAGGACCACATA
214602 CATATATACT
Statistics
Matches: 47, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
21 1 0.02
22 14 0.30
23 32 0.68
ACGTcount: A:0.36, C:0.27, G:0.20, T:0.17
Consensus pattern (22 bp):
CCGAAGGACCACATAGAATGTC
Found at i:214570 original size:23 final size:23
Alignment explanation
Indices: 214527--214622 Score: 77
Period size: 23 Copynumber: 4.1 Consensus size: 23
214517 CACCGAAGTG
* *
214527 CCACATAGA-ATGTCCCGAAGGA
1 CCACATAGATATATCCCAAAGGA
*
214549 CCACATAGGTATATCCCAAAGGA
1 CCACATAGATATATCCCAAAGGA
* * * * * *
214572 CTACGTAGAAATGTCCCGAATGA
1 CCACATAGATATATCCCAAAGGA
*
214595 CCACATACATATATACTCCAAAGGA
1 CCACATAGATATAT-C-CCAAAGGA
214620 CCA
1 CCA
214623 AATATGTGTC
Statistics
Matches: 54, Mismatches: 17, Indels: 3
0.73 0.23 0.04
Matches are distributed among these distances:
22 8 0.15
23 36 0.67
24 1 0.02
25 9 0.17
ACGTcount: A:0.39, C:0.27, G:0.17, T:0.18
Consensus pattern (23 bp):
CCACATAGATATATCCCAAAGGA
Found at i:238129 original size:98 final size:101
Alignment explanation
Indices: 238009--238190 Score: 253
Period size: 98 Copynumber: 1.8 Consensus size: 101
237999 CGTTGGAGCC
238009 AGGGCGTATGGATACCCCTGCAGGGGGTATCAGTAAACCCAGGTATAGATACAC-AT-AGGGGTA
1 AGGGCGTATGGATACCCCTGCAGGGGGTATCAGTAAACCCAGGTATAGATACACTATAAGGGGTA
* *
238072 TCGGTACCCTTTTGCATTCGGTGTTTGAGCAGTCAT
66 TCGATACCCATTTGCATTCGGTGTTTGAGCAGTCAT
* * * * * * *
238108 AGGG-GTATGGATACCCCTGCAGGGGTTATCGGTACACCCGGGTATGGATACCCTTTGAAGGGGT
1 AGGGCGTATGGATACCCCTGCAGGGGGTATCAGTAAACCCAGGTATAGATACACTAT-AAGGGGT
238172 ATCGATACCCATTTGCATT
65 ATCGATACCCATTTGCATT
238191 TTTGCTCAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
98 43 0.61
99 5 0.07
101 23 0.32
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (101 bp):
AGGGCGTATGGATACCCCTGCAGGGGGTATCAGTAAACCCAGGTATAGATACACTATAAGGGGTA
TCGATACCCATTTGCATTCGGTGTTTGAGCAGTCAT
Found at i:238228 original size:18 final size:18
Alignment explanation
Indices: 238207--238265 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 18
238197 CAAATTTTAA
*
238207 TTTAATGGATACCAATTG
1 TTTAAAGGATACCAATTG
238225 TTTACAAAAGGATACCAATTG
1 TTT---AAAGGATACCAATTG
* *
238246 TTAAAAAGATACCAATTG
1 TTTAAAGGATACCAATTG
238264 TT
1 TT
238266 GGGAATATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
18 19 0.54
21 16 0.46
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.34
Consensus pattern (18 bp):
TTTAAAGGATACCAATTG
Found at i:238237 original size:21 final size:20
Alignment explanation
Indices: 238213--238265 Score: 83
Period size: 21 Copynumber: 2.7 Consensus size: 20
238203 TTAATTTAAT
238213 GGATACCAATTGTTTACAAAA
1 GGATACCAATTGTTTA-AAAA
238234 GGATACCAATTG-TTAAAAA
1 GGATACCAATTGTTTAAAAA
238253 -GATACCAATTGTT
1 GGATACCAATTGTT
238266 GGGAATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.35
19 5 0.16
20 3 0.10
21 12 0.39
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (20 bp):
GGATACCAATTGTTTAAAAA
Found at i:243489 original size:9 final size:8
Alignment explanation
Indices: 243472--243584 Score: 74
Period size: 8 Copynumber: 13.6 Consensus size: 8
243462 AATAAGAAAG
243472 AAAAATGA
1 AAAAATGA
243480 AAAAAGTG-
1 AAAAA-TGA
243488 AAAAATGA
1 AAAAATGA
243496 AAAAAGTGAA
1 AAAAA-TG-A
243506 AAATGAAGTGA
1 AAA--AA-TGA
*
243517 AAAAATAA
1 AAAAATGA
*
243525 AAAAATAAAA
1 AAAAAT--GA
243535 AAAAATGA
1 AAAAATGA
*
243543 GAAAA-GA
1 AAAAATGA
243550 AAAAATG-
1 AAAAATGA
243557 -AAAATGA
1 AAAAATGA
243564 AAAAAT-A
1 AAAAATGA
*
243571 AGAAAAAGA
1 A-AAAATGA
243580 AAAAA
1 AAAAA
243585 GGGTTCAAGA
Statistics
Matches: 87, Mismatches: 5, Indels: 26
0.74 0.04 0.22
Matches are distributed among these distances:
6 6 0.07
7 10 0.11
8 42 0.48
9 8 0.09
10 12 0.14
11 4 0.05
12 5 0.06
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.11
Consensus pattern (8 bp):
AAAAATGA
Found at i:243492 original size:16 final size:16
Alignment explanation
Indices: 243471--243512 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
243461 AAATAAGAAA
243471 GAAAAATGAAAAAAGT
1 GAAAAATGAAAAAAGT
243487 GAAAAATGAAAAAAGT
1 GAAAAATGAAAAAAGT
243503 GAAAAATGAA
1 GAAAAATGAA
243513 GTGAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.19, T:0.12
Consensus pattern (16 bp):
GAAAAATGAAAAAAGT
Found at i:243535 original size:28 final size:28
Alignment explanation
Indices: 243483--243536 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
243473 AAAATGAAAA
* *
243483 AAGTGAAAAATGAAAAAAGTGAAAAATG
1 AAGTGAAAAATGAAAAAAATAAAAAATG
243511 AAGTGAAAAAAT-AAAAAAATAAAAAA
1 AAGTG-AAAAATGAAAAAAATAAAAAA
243537 AAATGAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 17 0.74
29 6 0.26
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (28 bp):
AAGTGAAAAATGAAAAAAATAAAAAATG
Found at i:243565 original size:47 final size:48
Alignment explanation
Indices: 243488--243584 Score: 135
Period size: 47 Copynumber: 2.0 Consensus size: 48
243478 GAAAAAAGTG
* * *
243488 AAAAATGAAAAAAGTGAAAAATGAAGTGAAAAAATAA-AAAAATAAAA
1 AAAAATGAAAAAAGTAAAAAATGAAATGAAAAAATAAGAAAAAGAAAA
*
243535 AAAAATGAGAAAAG-AAAAAATGAAAATGAAAAAATAAGAAAAAGAAAA
1 AAAAATGAAAAAAGTAAAAAATG-AAATGAAAAAATAAGAAAAAGAAAA
243583 AA
1 AA
243585 GGGTTCAAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
46 7 0.16
47 26 0.59
48 11 0.25
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.10
Consensus pattern (48 bp):
AAAAATGAAAAAAGTAAAAAATGAAATGAAAAAATAAGAAAAAGAAAA
Found at i:247912 original size:11 final size:11
Alignment explanation
Indices: 247896--247921 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
247886 GCGACTCTAA
247896 AATTCAAATTT
1 AATTCAAATTT
247907 AATTCAAATTT
1 AATTCAAATTT
247918 AATT
1 AATT
247922 TTTTTAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (11 bp):
AATTCAAATTT
Found at i:253602 original size:17 final size:18
Alignment explanation
Indices: 253577--253610 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
253567 CACACACTGT
*
253577 ATTATTAAAA-TAAATTA
1 ATTAGTAAAATTAAATTA
253594 ATTAGTAAAATTAAATT
1 ATTAGTAAAATTAAATT
253611 GATTTATTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (18 bp):
ATTAGTAAAATTAAATTA
Found at i:253830 original size:2 final size:2
Alignment explanation
Indices: 253825--253875 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
253815 ATACAAATAA
253825 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
253867 AT AT AT AT A
1 AT AT AT AT A
253876 CATACATAGG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:254020 original size:30 final size:29
Alignment explanation
Indices: 253948--254028 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 29
253938 GTAAGTATTT
253948 GAAATTATAAGGGACCAAAATAGCTAAAATA
1 GAAATTA-AA-GGACCAAAATAGCTAAAATA
* *
253979 TAAACTCAAAGGACCAAAATAG-TACAAATA
1 GAAA-TTAAAGGACCAAAATAGCTA-AAATA
*
254009 GGAAATTAAAGGACTAAAAT
1 -GAAATTAAAGGACCAAAAT
254029 GTTAAAAACA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
29 2 0.05
30 30 0.71
31 8 0.19
32 2 0.05
ACGTcount: A:0.56, C:0.11, G:0.15, T:0.19
Consensus pattern (29 bp):
GAAATTAAAGGACCAAAATAGCTAAAATA
Found at i:256421 original size:29 final size:28
Alignment explanation
Indices: 256401--256463 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 28
256391 TTTCAAAAGT
*
256401 AAATAAGTCCTTTAAATTTTTAAAAATC
1 AAATAAATCCTTTAAATTTTTAAAAATC
* * *
256429 CAATAAATCTTTTAAATTTTTTAAAAT-
1 AAATAAATCCTTTAAATTTTTAAAAATC
*
256456 AATTAAAT
1 AAATAAAT
256464 GTTCATAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
27 6 0.21
28 23 0.79
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.43
Consensus pattern (28 bp):
AAATAAATCCTTTAAATTTTTAAAAATC
Found at i:257010 original size:21 final size:21
Alignment explanation
Indices: 256981--257025 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
256971 GATAAAATAA
*
256981 TTATCTAAAATATTATTATTT
1 TTATCTAAAATATTAATATTT
*
257002 TTATTTAAAATATTAATATTT
1 TTATCTAAAATATTAATATTT
257023 TTA
1 TTA
257026 AAATTTTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
TTATCTAAAATATTAATATTT
Found at i:257082 original size:12 final size:12
Alignment explanation
Indices: 257067--257091 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
257057 AACTAATAAA
257067 AAATAATCTTTT
1 AAATAATCTTTT
257079 AAATAATCTTTT
1 AAATAATCTTTT
257091 A
1 A
257092 TCAGATATAT
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:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (12 bp):
AAATAATCTTTT
Found at i:259715 original size:37 final size:37
Alignment explanation
Indices: 259660--259731 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
259650 CCGACCATTC
*
259660 CCATCCCTACAACCTACAAGGAAAATGTCATTTTAGT
1 CCATCCCTACAACCTACAAGGAAAATGCCATTTTAGT
**
259697 CCATCCCTACAATTTACAAGGAAAATGCCATTTTA
1 CCATCCCTACAACCTACAAGGAAAATGCCATTTTA
259732 ATCCTTTCGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.28
Consensus pattern (37 bp):
CCATCCCTACAACCTACAAGGAAAATGCCATTTTAGT
Found at i:260346 original size:60 final size:60
Alignment explanation
Indices: 260278--260400 Score: 140
Period size: 60 Copynumber: 2.0 Consensus size: 60
260268 TATTCCCGAT
* * * * *
260278 TATAAGATATTGCTTTATTGAATTTCTCAACTATTAAAAAG-TATAAAATAGTCCCTCAAC
1 TATAAGATACTGCTTTATTGAATCTCTAAACAATT-AAAAGCTATAAAATAGTCACTCAAC
* * * * *
260338 TATAAGATACTGTTTTGTTGAATCTCTAAACAATTAACAGCTCTAAAATGGTCACTCAAC
1 TATAAGATACTGCTTTATTGAATCTCTAAACAATTAAAAGCTATAAAATAGTCACTCAAC
260398 TAT
1 TAT
260401 TCATATATTT
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
59 4 0.08
60 48 0.92
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (60 bp):
TATAAGATACTGCTTTATTGAATCTCTAAACAATTAAAAGCTATAAAATAGTCACTCAAC
Found at i:261163 original size:23 final size:23
Alignment explanation
Indices: 261128--261175 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
261118 ATCAAGTACA
*
261128 ATAATATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
261151 ATAATGTAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
261174 AT
1 AT
261176 TGACCTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:262004 original size:70 final size:70
Alignment explanation
Indices: 261890--262044 Score: 247
Period size: 70 Copynumber: 2.2 Consensus size: 70
261880 ATACATTTTT
* *** *
261890 ATAAAGTATCGACACTTTATTGGTGCTATAACTTCTTTTCTTTTAAATTCCAAAAGTGTCGATAC
1 ATAAAGTATCGACACATTATTGACACTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATAC
261955 TTATA
66 TTATA
*
261960 ATAAAGTATCGACACATTATTGACACTATAACTTCTTCTGTTTTAAATTCCAAAAGTGTCGATAC
1 ATAAAGTATCGACACATTATTGACACTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATAC
262025 TTATA
66 TTATA
*
262030 ATTAAGTATCGACAC
1 ATAAAGTATCGACAC
262045 TTTCAACATA
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 78 1.00
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (70 bp):
ATAAAGTATCGACACATTATTGACACTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATAC
TTATA
Found at i:262453 original size:112 final size:113
Alignment explanation
Indices: 262212--262559 Score: 564
Period size: 112 Copynumber: 3.1 Consensus size: 113
262202 GATGCTTATA
* * * *
262212 ATAAAGTATCAACACTATCAACATATCCAGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
262277 TTTGTCATTTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTT
66 TTTGTCATTTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTT
* **
262325 AAAAAGTATCGACACTTTCAATATATATGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
262390 TTTGTCA-TTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTT
*
262437 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGATTTACCTGTTTTGTCA-TT-TAGACC-GT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
262499 TTTGTCATTTTTTTTACCTG-T-TATTGTTATGGATCAATATATTTTT
66 TTTGTCATTTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTT
262545 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
262560 AAACCGACAA
Statistics
Matches: 220, Mismatches: 14, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
108 38 0.17
109 10 0.05
110 18 0.08
111 2 0.01
112 87 0.40
113 65 0.30
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.45
Consensus pattern (113 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTT
Found at i:272557 original size:16 final size:16
Alignment explanation
Indices: 272536--272566 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
272526 CACCATAAAC
272536 CCGAACCCGACCTGAA
1 CCGAACCCGACCTGAA
272552 CCGAACCCGACCTGA
1 CCGAACCCGACCTGA
272567 CCCAAACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.45, G:0.19, T:0.06
Consensus pattern (16 bp):
CCGAACCCGACCTGAA
Found at i:277637 original size:9 final size:9
Alignment explanation
Indices: 277631--277728 Score: 71
Period size: 8 Copynumber: 10.6 Consensus size: 9
277621 ACCTTATAGT
277631 TTATATATA
1 TTATATATA
277640 TTATATATAA
1 TTATATAT-A
277650 TT-TATAGT-
1 TTATATA-TA
* *
277658 TTACACTTTA
1 TTATA-TATA
277668 TATATATATA
1 T-TATATATA
277678 CTTATACTTATA
1 -TTATA--TATA
277690 CTTATATATA
1 -TTATATATA
277700 -TATATATA
1 TTATATATA
277708 -TATATATA
1 TTATATATA
277716 -TATATATA
1 TTATATATA
277724 TTATA
1 TTATA
277729 ATTGTTCTAA
Statistics
Matches: 75, Mismatches: 4, Indels: 20
0.76 0.04 0.20
Matches are distributed among these distances:
8 26 0.35
9 18 0.24
10 17 0.23
11 4 0.05
12 10 0.13
ACGTcount: A:0.42, C:0.05, G:0.01, T:0.52
Consensus pattern (9 bp):
TTATATATA
Found at i:277639 original size:11 final size:10
Alignment explanation
Indices: 277625--277725 Score: 55
Period size: 10 Copynumber: 9.6 Consensus size: 10
277615 ATATATACCT
277625 TATAGTTTATA
1 TATA-TTTATA
277636 TATA-TTATA
1 TATATTTATA
277645 TATAATTTATA
1 TAT-ATTTATA
*
277656 GTTTACACTTTATA
1 ---TATA-TTTATA
*
277670 TATATATACT-
1 TATATTTA-TA
*
277680 TATACTTATA
1 TATATTTATA
*
277690 CT-TATATATA
1 -TATATTTATA
*
277700 TATATATATA
1 TATATTTATA
*
277710 TATATATATA
1 TATATTTATA
277720 TATATT
1 TATATT
277726 ATAATTGTTC
Statistics
Matches: 72, Mismatches: 8, Indels: 21
0.71 0.08 0.21
Matches are distributed among these distances:
9 10 0.14
10 39 0.54
11 14 0.19
13 1 0.01
14 8 0.11
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (10 bp):
TATATTTATA
Found at i:277673 original size:2 final size:2
Alignment explanation
Indices: 277666--277728 Score: 71
Period size: 2 Copynumber: 32.0 Consensus size: 2
277656 GTTTACACTT
277666 TA TA TA TA TA TA CT- TA TA CT- TA TA CT- TA TA TA TA TA TA TA
1 TA TA TA TA TA TA -TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA
277706 TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
277729 ATTGTTCTAA
Statistics
Matches: 54, Mismatches: 0, Indels: 14
0.79 0.00 0.21
Matches are distributed among these distances:
1 4 0.07
2 47 0.87
3 3 0.06
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:277994 original size:24 final size:24
Alignment explanation
Indices: 277949--277994 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
277939 TTTAGTACAT
*
277949 TTTTATATTAATATCAGCTTCAAA
1 TTTTATATTAATATCAACTTCAAA
*
277973 TTTTATAATTAAT-TCAATTTCA
1 TTTTAT-ATTAATATCAACTTCA
277995 TCCCTCATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.37, C:0.11, G:0.02, T:0.50
Consensus pattern (24 bp):
TTTTATATTAATATCAACTTCAAA
Found at i:278663 original size:22 final size:23
Alignment explanation
Indices: 278638--278861 Score: 121
Period size: 22 Copynumber: 10.3 Consensus size: 23
278628 ATAAAGTGTG
278638 AGTATATA-TATATAAAGTATAA
1 AGTATATAGTATATAAAGTATAA
* *
278660 AGTATATA--ATATAGAGTAAAAA
1 AGTATATAGTATATAAAGT-ATAA
* * *
278682 AGTGTGTGGT-TAT-AAGTATTAA
1 AGTATATAGTATATAAAGTA-TAA
*
278704 A-TATAAAGTATAT-AAGTATATA
1 AGTATATAGTATATAAAGTATA-A
* *
278726 AATATA-AGTAT-TATA-TATAA
1 AGTATATAGTATATAAAGTATAA
278746 AGTATATAAGTATAT-AAGTACTAA
1 AGTATAT-AGTATATAAAGTA-TAA
278770 AGTATATA--ATATAAAGTATTAA
1 AGTATATAGTATATAAAGTA-TAA
*
278792 ACTATATA--ATAT-AAGTATTAA
1 AGTATATAGTATATAAAGTA-TAA
*
278813 A-TATAAAGTAT-TAAAGTATATA
1 AGTATATAGTATATAAAGTATA-A
*
278835 AATATA-AGTAT-TAAA-TATAA
1 AGTATATAGTATATAAAGTATAA
*
278855 AATATAT
1 AGTATAT
278862 TAATTATCAT
Statistics
Matches: 165, Mismatches: 17, Indels: 41
0.74 0.08 0.18
Matches are distributed among these distances:
20 18 0.11
21 41 0.25
22 81 0.49
23 15 0.09
24 10 0.06
ACGTcount: A:0.53, C:0.01, G:0.10, T:0.36
Consensus pattern (23 bp):
AGTATATAGTATATAAAGTATAA
Found at i:278732 original size:36 final size:37
Alignment explanation
Indices: 278692--278861 Score: 235
Period size: 36 Copynumber: 4.7 Consensus size: 37
278682 AGTGTGTGGT
278692 TATAAGTATTAAATATAAAGTATAT-AAGTATATAAA
1 TATAAGTATTAAATATAAAGTATATAAAGTATATAAA
* *
278728 TATAAGTATTATATATAAAGTATAT-AAGTATATAAG
1 TATAAGTATTAAATATAAAGTATATAAAGTATATAAA
*
278764 TACTAAAGTA-TATAATATAAAGTAT-TAAACTATAT-AA
1 TA-T-AAGTATTA-AATATAAAGTATATAAAGTATATAAA
278801 TATAAGTATTAAATATAAAGTAT-TAAAGTATATAAA
1 TATAAGTATTAAATATAAAGTATATAAAGTATATAAA
*
278837 TATAAGTATTAAATATAAAATATAT
1 TATAAGTATTAAATATAAAGTATAT
278862 TAATTATCAT
Statistics
Matches: 120, Mismatches: 7, Indels: 13
0.86 0.05 0.09
Matches are distributed among these distances:
35 26 0.22
36 63 0.52
37 8 0.07
38 23 0.19
ACGTcount: A:0.54, C:0.01, G:0.08, T:0.37
Consensus pattern (37 bp):
TATAAGTATTAAATATAAAGTATATAAAGTATATAAA
Found at i:278822 original size:57 final size:58
Alignment explanation
Indices: 278692--278860 Score: 200
Period size: 57 Copynumber: 3.1 Consensus size: 58
278682 AGTGTGTGGT
278692 TATAAGTAT-TAAATATA-AAGTA-TATAAGTATATAAATATAAGTA-T---TATAT-A
1 TATAAGTATATAAATATATAAGTACTA-AAGTATATAAATATAAGTATTAAATATATAA
*
278743 TA-AAGTATATAAGTATATAAGTACTAAAGTATAT-AATATAAAGTATTAAACTATATAA
1 TATAAGTATATAAATATATAAGTACTAAAGTATATAAATAT-AAGTATTAAA-TATATAA
* *
278801 TATAAGTAT-TAAATATA-AAGTATTAAAGTATATAAATATAAGTATTAAATATAAAA
1 TATAAGTATATAAATATATAAGTACTAAAGTATATAAATATAAGTATTAAATATATAA
278857 TATA
1 TATA
278861 TTAATTATCA
Statistics
Matches: 102, Mismatches: 4, Indels: 19
0.82 0.03 0.15
Matches are distributed among these distances:
50 6 0.06
51 14 0.14
52 18 0.18
53 3 0.03
56 10 0.10
57 30 0.29
58 15 0.15
59 6 0.06
ACGTcount: A:0.54, C:0.01, G:0.08, T:0.37
Consensus pattern (58 bp):
TATAAGTATATAAATATATAAGTACTAAAGTATATAAATATAAGTATTAAATATATAA
Found at i:279551 original size:3 final size:3
Alignment explanation
Indices: 279543--279592 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
279533 CAATCCCCTG
*
279543 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
279591 TT
1 TT
279593 GTTGATGTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:290332 original size:21 final size:21
Alignment explanation
Indices: 290307--290354 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
290297 CCGAAGTGCT
290307 ACATAATTGTCCCAAATGACC
1 ACATAATTGTCCCAAATGACC
**
290328 ACATAATTGTCCTGAATGACC
1 ACATAATTGTCCCAAATGACC
*
290349 ATATAA
1 ACATAA
290355 AACCCTCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.27
Consensus pattern (21 bp):
ACATAATTGTCCCAAATGACC
Found at i:291003 original size:20 final size:20
Alignment explanation
Indices: 290978--291029 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
290968 CTTGAAAATG
290978 GTATCGATACTA-CCAACTCA
1 GTATCGATACTATCCAAC-CA
*
290998 GTATCGATACCCTATTCAACCA
1 GTATCGATA--CTATCCAACCA
291020 GTATCGATAC
1 GTATCGATAC
291030 CCTATTCAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
20 10 0.36
22 14 0.50
23 4 0.14
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.27
Consensus pattern (20 bp):
GTATCGATACTATCCAACCA
Found at i:291024 original size:22 final size:22
Alignment explanation
Indices: 290991--291052 Score: 97
Period size: 22 Copynumber: 2.8 Consensus size: 22
290981 TCGATACTAC
290991 CAACTCAGTATCGATACCCTATT
1 CAAC-CAGTATCGATACCCTATT
291014 CAACCAGTATCGATACCCTATT
1 CAACCAGTATCGATACCCTATT
* *
291036 CAACTAGCATCGATACC
1 CAACCAGTATCGATACC
291053 ACCATTATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
22 33 0.89
23 4 0.11
ACGTcount: A:0.32, C:0.32, G:0.10, T:0.26
Consensus pattern (22 bp):
CAACCAGTATCGATACCCTATT
Found at i:293577 original size:20 final size:20
Alignment explanation
Indices: 293554--293603 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
293544 TTTGAGTTAA
293554 TTAAAATATGTTTAAAG-TGT
1 TTAAAATATGTTTAAAGCT-T
*
293574 TTAAAATTTGTTTAAAGCTT
1 TTAAAATATGTTTAAAGCTT
*
293594 TTAATATATG
1 TTAAAATATG
293604 AAAATCACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (20 bp):
TTAAAATATGTTTAAAGCTT
Found at i:295418 original size:20 final size:19
Alignment explanation
Indices: 295375--295423 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
295365 TTTGAGTTAA
*
295375 TTAAAATATGTTTAAAAGT
1 TTAAAATTTGTTTAAAAGT
295394 TTAAAATTTGTTT-AAAGCTT
1 TTAAAATTTGTTTAAAAG--T
295414 TTAAAATTTG
1 TTAAAATTTG
295424 AAAATCACTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 4 0.15
19 12 0.44
20 11 0.41
ACGTcount: A:0.41, C:0.02, G:0.10, T:0.47
Consensus pattern (19 bp):
TTAAAATTTGTTTAAAAGT
Found at i:295601 original size:20 final size:20
Alignment explanation
Indices: 295576--295615 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
295566 TTTAAGTAAT
*
295576 AGTTTCGAAACTTTCATCAA
1 AGTTTCAAAACTTTCATCAA
295596 AGTTTCAAAACTTTCATCAA
1 AGTTTCAAAACTTTCATCAA
295616 CAGTGTGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.35
Consensus pattern (20 bp):
AGTTTCAAAACTTTCATCAA
Found at i:295690 original size:20 final size:20
Alignment explanation
Indices: 295649--295701 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
295639 CTTTCTCAGT
*
295649 AGTTTTGAAACTTGAATCAA
1 AGTTTTGAAACTTCAATCAA
*
295669 AGTTTTGAAACTATCCAT-AA
1 AGTTTTGAAACT-TCAATCAA
*
295689 AGTTTCGAAACTT
1 AGTTTTGAAACTT
295702 TATGTGAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 1 0.03
20 25 0.86
21 3 0.10
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (20 bp):
AGTTTTGAAACTTCAATCAA
Found at i:296440 original size:21 final size:21
Alignment explanation
Indices: 296391--296442 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 21
296381 ACTAGAGTAC
296391 TGGTATCCATACCAGATGACT
1 TGGTATCCATACCAGATGACT
* *
296412 T-ATATCCATACCAGATGAGT
1 TGGTATCCATACCAGATGACT
296432 TGGTATCCATA
1 TGGTATCCATA
296443 TCCAAGGATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 18 0.67
21 9 0.33
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (21 bp):
TGGTATCCATACCAGATGACT
Found at i:297614 original size:20 final size:20
Alignment explanation
Indices: 297572--297642 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 20
297562 AAAAATGTTT
* *
297572 TATGAATAGTATTG-TACTG
1 TATGAATAGTATCGATATTG
297591 TATGAATAGTATCGATATTG
1 TATGAATAGTATCGATATTG
* * *
297611 TATGCATATTACCGATATTG
1 TATGAATAGTATCGATATTG
* *
297631 TGTGAACAGTAT
1 TATGAATAGTAT
297643 TGAACAATAC
Statistics
Matches: 41, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
19 13 0.32
20 28 0.68
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.39
Consensus pattern (20 bp):
TATGAATAGTATCGATATTG
Found at i:299868 original size:20 final size:20
Alignment explanation
Indices: 299815--299886 Score: 99
Period size: 20 Copynumber: 3.6 Consensus size: 20
299805 AAACAATACT
*
299815 ATCGCAACGCGAATAGGAAA
1 ATCGCAACGCGAATAGTAAA
* * *
299835 ATCACAATGTGAATAGTAAA
1 ATCGCAACGCGAATAGTAAA
*
299855 ATCGTAACGCGAATAGTAAA
1 ATCGCAACGCGAATAGTAAA
299875 ATCGCAACGCGA
1 ATCGCAACGCGA
299887 TTTTCAAATT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAATAGTAAA
Found at i:299909 original size:117 final size:117
Alignment explanation
Indices: 299743--299975 Score: 358
Period size: 117 Copynumber: 2.0 Consensus size: 117
299733 CAAAAATCAC
*
299743 AACGCGAATAGTAAAATCGCAACGCGATTTTCAAATTAGCAACGCTAATTACAAATATAGGTAAA
1 AACGCGAATAGTAAAATCGCAACGCGATTTTCAAATTAACAACGCTAATTACAAATATAGGTAAA
* * *
299808 CAATACTATCGCAACGCGAATAGGAAAATCACAATGTGAATAGTAAAATCGT
66 CAATACTATCGCAACGCAAATAGGAAAATCACAACGCGAATAGTAAAATCGT
*** **
299860 AACGCGAATAGTAAAATCGCAACGCGATTTTCAAATTAACAATTTTAATTACCGATATAGGTAAA
1 AACGCGAATAGTAAAATCGCAACGCGATTTTCAAATTAACAACGCTAATTACAAATATAGGTAAA
* * *
299925 CAGTACTATCGCAATGCAAATAGGAAAATTACAACGCGAATAGTAAAATCG
66 CAATACTATCGCAACGCAAATAGGAAAATCACAACGCGAATAGTAAAATCG
299976 CAATAAATTC
Statistics
Matches: 104, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
117 104 1.00
ACGTcount: A:0.44, C:0.17, G:0.16, T:0.23
Consensus pattern (117 bp):
AACGCGAATAGTAAAATCGCAACGCGATTTTCAAATTAACAACGCTAATTACAAATATAGGTAAA
CAATACTATCGCAACGCAAATAGGAAAATCACAACGCGAATAGTAAAATCGT
Found at i:300062 original size:57 final size:56
Alignment explanation
Indices: 299980--300130 Score: 214
Period size: 57 Copynumber: 2.6 Consensus size: 56
299970 AAATCGCAAT
* *
299980 AAATTCGTAACGCTAATTAGCGATATAGGTAAACAGTACTATCGCAACGCGAATAGG
1 AAATTCGCAACGCTAATTA-CGATATAGGTAAACAGTACTATCGCAACGCGAATAGC
* **
300037 AGAA-TCGCAACGCTAATTACTGATATAGGTAAACAGTACTATCGCAACGCGATTTTC
1 A-AATTCGCAACGCTAATTAC-GATATAGGTAAACAGTACTATCGCAACGCGAATAGC
300094 AAATTCGCAACGCTAATTACCGATATAGGTAAACAGT
1 AAATTCGCAACGCTAATTA-CGATATAGGTAAACAGT
300131 CAAAATGATT
Statistics
Matches: 85, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
56 3 0.04
57 79 0.93
58 3 0.04
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (56 bp):
AAATTCGCAACGCTAATTACGATATAGGTAAACAGTACTATCGCAACGCGAATAGC
Found at i:300380 original size:57 final size:57
Alignment explanation
Indices: 300301--300423 Score: 194
Period size: 57 Copynumber: 2.2 Consensus size: 57
300291 AATTTGTGAA
* * *
300301 AATTA-CGTTGCGAATTTAAAAATCGCGTTGCGATAGTAGTGTTTACCTATGTCGGT
1 AATTAGCGTTACGAATTTAAAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGT
* *
300357 AATTAGCGTTACGAATTTGAAAATCTCGTTGCGATAGTACTGTTTACCTATATCGGT
1 AATTAGCGTTACGAATTTAAAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGT
300414 AATTAGCGTT
1 AATTAGCGTT
300424 GCGATTTTCC
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
56 5 0.08
57 56 0.92
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.37
Consensus pattern (57 bp):
AATTAGCGTTACGAATTTAAAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGT
Found at i:300444 original size:57 final size:57
Alignment explanation
Indices: 300301--300447 Score: 188
Period size: 57 Copynumber: 2.6 Consensus size: 57
300291 AATTTGTGAA
* * * *
300301 AATTA-CGTTGCGAATTTAAAAATCGCGTTGCGATAGTAGTGTTTACCTATGTCGGT
1 AATTAGCGTTACGAATTTCAAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGT
* *
300357 AATTAGCGTTACGAATTTGAAAATCTCGTTGCGATAGTACTGTTTACCTATATCGGT
1 AATTAGCGTTACGAATTTCAAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGT
* * ** *
300414 AATTAGCGTTGCGATTTTCCTATTCGCGTTGCGA
1 AATTAGCGTTACGAATTTCAAAATCGCGTTGCGA
300448 ATTTGTTGGT
Statistics
Matches: 78, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
56 5 0.06
57 73 0.94
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (57 bp):
AATTAGCGTTACGAATTTCAAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGT
Found at i:302937 original size:15 final size:16
Alignment explanation
Indices: 302907--302944 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
302897 TTTATTTATT
302907 TTAATATATATATAATA
1 TTAAT-TATATATAATA
302924 TTAATTAT-TATAATA
1 TTAATTATATATAATA
*
302939 ATAATT
1 TTAATT
302945 TAATTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 12 0.60
16 3 0.15
17 5 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAATTATATATAATA
Found at i:305786 original size:2 final size:2
Alignment explanation
Indices: 305779--305818 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
305769 GCTTATTTAA
305779 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
305819 GTTGAATAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:310571 original size:62 final size:63
Alignment explanation
Indices: 310490--310628 Score: 208
Period size: 62 Copynumber: 2.2 Consensus size: 63
310480 AATACGTTGA
** * * *
310490 TATGACGGTGACAATAATATGATAAGTAATGAAGAAATACATAATAATAAG-GTAAAGTATAT
1 TATGACGGTCCCAATAATATGATAAGTAATGAAGAAATAAATAATAATAAGACTAAAATATAT
* *
310552 TATGATGGTTCCAATAATATGATAAGTAATGAAGAAATAAATAATAATAAGACTAAAATATAT
1 TATGACGGTCCCAATAATATGATAAGTAATGAAGAAATAAATAATAATAAGACTAAAATATAT
310615 TATGACGGTCCCAA
1 TATGACGGTCCCAA
310629 ACATTTGGGA
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
62 47 0.69
63 21 0.31
ACGTcount: A:0.49, C:0.07, G:0.16, T:0.28
Consensus pattern (63 bp):
TATGACGGTCCCAATAATATGATAAGTAATGAAGAAATAAATAATAATAAGACTAAAATATAT
Found at i:310772 original size:3 final size:3
Alignment explanation
Indices: 310764--310788 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
310754 ATTAGATCCG
310764 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
310789 CTGGAATGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:315166 original size:31 final size:31
Alignment explanation
Indices: 315128--315191 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
315118 TCAAACGGTC
*
315128 GGGGACCATATTACAAATAGACTAAATGTTG
1 GGGGACCATATTACAAATAGACTAAATGCTG
** *
315159 GGGGACCATATTGTAAATGGACTAAATGCTG
1 GGGGACCATATTACAAATAGACTAAATGCTG
315190 GG
1 GG
315192 AGACTGTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.25
Consensus pattern (31 bp):
GGGGACCATATTACAAATAGACTAAATGCTG
Found at i:316686 original size:15 final size:16
Alignment explanation
Indices: 316666--316695 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
316656 GATTGGGTAA
316666 GAATTTGGGG-TTTTT
1 GAATTTGGGGATTTTT
316681 GAATTTGGGGATTTT
1 GAATTTGGGGATTTT
316696 AAGGGTTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (16 bp):
GAATTTGGGGATTTTT
Found at i:320200 original size:23 final size:23
Alignment explanation
Indices: 320169--320252 Score: 114
Period size: 23 Copynumber: 3.7 Consensus size: 23
320159 ATAATTATGT
320169 CGAAGGACCACATAGGTTTGTCC
1 CGAAGGACCACATAGGTTTGTCC
* * * *
320192 TGAAGGACCATATAGATTTATCC
1 CGAAGGACCACATAGGTTTGTCC
* *
320215 CAAAAGACCACATAGGTTTGTCC
1 CGAAGGACCACATAGGTTTGTCC
320238 CGAAGGACCACATAG
1 CGAAGGACCACATAG
320253 AACCCTCGAC
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.21
Consensus pattern (23 bp):
CGAAGGACCACATAGGTTTGTCC
Found at i:320856 original size:18 final size:19
Alignment explanation
Indices: 320805--320857 Score: 63
Period size: 18 Copynumber: 2.7 Consensus size: 19
320795 ACTCCCACTA
320805 CAGTACCGATACCTCCCTT
1 CAGTACCGATACCTCCCTT
*
320824 CTATGGTATCGATACC-CCCTT
1 C-A--GTACCGATACCTCCCTT
320845 CAGTACCGATACC
1 CAGTACCGATACC
320858 ATTTCAACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
18 10 0.34
19 1 0.03
20 2 0.07
21 6 0.21
22 10 0.34
ACGTcount: A:0.23, C:0.38, G:0.13, T:0.26
Consensus pattern (19 bp):
CAGTACCGATACCTCCCTT
Found at i:320916 original size:2 final size:2
Alignment explanation
Indices: 320911--320943 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
320901 ATACTCTTGG
320911 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
320944 TCTTATCGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:323255 original size:22 final size:20
Alignment explanation
Indices: 323223--323282 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
323213 GTTACCTATG
*
323223 TCCTTCAGGACATATGAATAGA-
1 TCCTTCGGGACATA-G-AT-GAC
323245 TCCTTCGGGACATAGATGAC
1 TCCTTCGGGACATAGATGAC
323265 GTCCTTCGGGACATAGAT
1 -TCCTTCGGGACATAGAT
323283 TTCACATGCC
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
19 2 0.06
20 2 0.06
21 18 0.51
22 13 0.37
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (20 bp):
TCCTTCGGGACATAGATGAC
Found at i:332334 original size:27 final size:28
Alignment explanation
Indices: 332303--332371 Score: 88
Period size: 27 Copynumber: 2.5 Consensus size: 28
332293 TTAACTTTTT
332303 GGTCAAAGTCAACATGTCACAA-TCAAT-
1 GGTCAAAGTCAACATGTCA-AAGTCAATG
* *
332330 TGTCAAAGTCAGCATGTCAAAGTCAATG
1 GGTCAAAGTCAACATGTCAAAGTCAATG
*
332358 GGTCAATGTCAACA
1 GGTCAAAGTCAACA
332372 GGTTGAATCC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
26 2 0.06
27 22 0.63
28 11 0.31
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (28 bp):
GGTCAAAGTCAACATGTCAAAGTCAATG
Found at i:332347 original size:14 final size:13
Alignment explanation
Indices: 332304--332354 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
332294 TAACTTTTTG
332304 GTCAAAGTCAACAT
1 GTCAAAGTC-ACAT
332318 GTCACAA-TCA-ATT
1 GTCA-AAGTCACA-T
332331 GTCAAAGTCAGCAT
1 GTCAAAGTCA-CAT
332345 GTCAAAGTCA
1 GTCAAAGTCA
332355 ATGGGTCAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
12 3 0.09
13 9 0.28
14 17 0.53
15 3 0.09
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.24
Consensus pattern (13 bp):
GTCAAAGTCACAT
Found at i:334572 original size:35 final size:35
Alignment explanation
Indices: 334533--334653 Score: 206
Period size: 35 Copynumber: 3.5 Consensus size: 35
334523 AATTCATAAA
* *
334533 CAAACTACAATATTAAAATATCAAATCTCAAGACT
1 CAAACCACAATATTAAAATATCAAATCTCAAGATT
* *
334568 CAAACCACAATATTAAAATGTCAAATCTCAATATT
1 CAAACCACAATATTAAAATATCAAATCTCAAGATT
334603 CAAACCACAATATTAAAATATCAAATCTCAAGATT
1 CAAACCACAATATTAAAATATCAAATCTCAAGATT
334638 CAAACCACAATATTAA
1 CAAACCACAATATTAA
334654 CTCTAGAATA
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 80 1.00
ACGTcount: A:0.51, C:0.21, G:0.02, T:0.26
Consensus pattern (35 bp):
CAAACCACAATATTAAAATATCAAATCTCAAGATT
Found at i:334677 original size:35 final size:39
Alignment explanation
Indices: 334638--334728 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 39
334628 TCTCAAGATT
*
334638 CAAACCACAATATTAACTCT-AG-AA-T-AATCCATAAA
1 CAAACCATAATATTAACTCTAAGAAATTAAATCCATAAA
* *
334673 CAAACCATAATATTAAGTCTAAGACAATTAAATTCATAAA
1 CAAACCATAATATTAACTCTAAGA-AATTAAATCCATAAA
334713 CAAACCATAATATTAA
1 CAAACCATAATATTAA
334729 AGTGTTAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
35 18 0.38
36 2 0.04
38 2 0.04
39 1 0.02
40 25 0.52
ACGTcount: A:0.53, C:0.19, G:0.03, T:0.25
Consensus pattern (39 bp):
CAAACCATAATATTAACTCTAAGAAATTAAATCCATAAA
Found at i:334677 original size:70 final size:70
Alignment explanation
Indices: 334480--334688 Score: 233
Period size: 70 Copynumber: 2.9 Consensus size: 70
334470 AAACCGTAAA
* * * * *
334480 CAAATCTCAAGACTCAAACCAAAATGTTAAGTCTAGAACAATAAATTCATAAACAAACTACAATA
1 CAAATCTCAAGACTCAAACCACAATATTAAATCTAG---AAT-AATCCATAAACAAACCACAATA
334545 TTAAAATAT
62 TTAAAATAT
* * * **
334554 CAAATCTCAAGACTCAAACCACAATATTAAAATGTCA-AAT-CTCAATATTCAAACCACAATATT
1 CAAATCTCAAGACTCAAACCACAATATT-AAATCT-AGAATAATCCATAAACAAACCACAATATT
334617 AAAATAT
64 AAAATAT
* * *
334624 CAAATCTCAAGATTCAAACCACAATATTAACTCTAGAATAATCCATAAACAAACCATAATATTAA
1 CAAATCTCAAGACTCAAACCACAATATTAAATCTAGAATAATCCATAAACAAACCACAATATTAA
334689 GTCTAAGACA
Statistics
Matches: 113, Mismatches: 18, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
68 1 0.01
69 7 0.06
70 71 0.63
72 3 0.03
74 26 0.23
75 4 0.04
76 1 0.01
ACGTcount: A:0.51, C:0.20, G:0.04, T:0.25
Consensus pattern (70 bp):
CAAATCTCAAGACTCAAACCACAATATTAAATCTAGAATAATCCATAAACAAACCACAATATTAA
AATAT
Found at i:335833 original size:25 final size:25
Alignment explanation
Indices: 335805--335855 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
335795 CCATATATAA
**
335805 TTGCACTCGAAAGTTTCACGTAGAG
1 TTGCACTCGAAAGTGCCACGTAGAG
335830 TTGCACTCGAAAGTGCCACGTAGAG
1 TTGCACTCGAAAGTGCCACGTAGAG
335855 T
1 T
335856 GTACAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (25 bp):
TTGCACTCGAAAGTGCCACGTAGAG
Found at i:343375 original size:25 final size:25
Alignment explanation
Indices: 343331--343410 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 25
343321 TACTACCGCT
* *
343331 TAGAGTTGCACT-TAAAGTGTCGCA
1 TAGAATTGCACTCGAAAGTGTCGCA
* *
343355 TATAATTGCACTCGAAAGTGTCGCG
1 TAGAATTGCACTCGAAAGTGTCGCA
* * *
343380 TAGAGTTGCACTCGAAAGTGCCGCG
1 TAGAATTGCACTCGAAAGTGTCGCA
343405 TAGAAT
1 TAGAAT
343411 GTACACAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
24 10 0.21
25 37 0.79
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (25 bp):
TAGAATTGCACTCGAAAGTGTCGCA
Found at i:346487 original size:21 final size:21
Alignment explanation
Indices: 346461--346516 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
346451 AAACAATAGT
346461 TTGCATTATCATGAATTTATA
1 TTGCATTATCATGAATTTATA
346482 TTGCATTATCATGAATTTATA
1 TTGCATTATCATGAATTTATA
346503 TTGCATTATCATGA
1 TTGCATTATCATGA
346517 CTTCGAATCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (21 bp):
TTGCATTATCATGAATTTATA
Found at i:347574 original size:343 final size:343
Alignment explanation
Indices: 346948--347606 Score: 1147
Period size: 343 Copynumber: 1.9 Consensus size: 343
346938 GTTATTTTAG
*
346948 TTATTTCACAGCTCGATGACATTTTGGTAATTTCTTTCAATCCAAACATATGCACTTTTTCTGAT
1 TTATTTCACAGCTCGATGACATTTTGGTAAATTCTTTCAATCCAAACATATGCACTTTTTCTGAT
* *
347013 AATTGGTTAAGTATGTCCTTTCTGGGTTATTTTTCACCTTCAAGGGAAATCTTAATCTTTTTACA
66 AATTGGTCAAGTATATCCTTTCTGGGTTATTTTTCACCTTCAAGGGAAATCTTAATCTTTTTACA
* * * *
347078 TTACAAAAGCATTTTGGTTAAATTTAAGTTTCAAGGGTATTCCAATCTTTTCATTCTGTTCAATC
131 TTACAAAAGCAGTTTGGTCAAATTTAAGTTTCAAGGGTATTCCAATCTTTTCATTCCGTCCAATC
*
347143 TTTCTATTTAATTCAATTTTTTTCGAATAATTCAAACATGAATAGTACTTTCAATATTTTATTCT
196 TTTCCATTTAATTCAATTTTTTTCGAATAATTCAAACATGAATAGTACTTTCAATATTTTATTCT
*
347208 TTAGGTGCTTGCTGATAAATCAACAATTATAGGTCTTATACTTTCTCAAATGTTAGGATTCGATT
261 TTAGGTGCTTGCTGATAAATCAACAATTATAGGTCTTATACCTTCTCAAATGTTAGGATTCGATT
347273 TGAATATCGAAGGTTATT
326 TGAATATCGAAGGTTATT
* *
347291 TTATTTCGCAGCTTGATGACATTTTGGTAAATTCTTTCAATCCAAACATATGCACTTTTTCTGAT
1 TTATTTCACAGCTCGATGACATTTTGGTAAATTCTTTCAATCCAAACATATGCACTTTTTCTGAT
*
347356 AATTGGTCAAGTATATCCTTTCTGGGTTATTTTTCACCTTCAAGGGAAATCTTGATCTTTTTACA
66 AATTGGTCAAGTATATCCTTTCTGGGTTATTTTTCACCTTCAAGGGAAATCTTAATCTTTTTACA
** *
347421 TTACAAGGGCAGTTTGGTCAAATTTAAGTTTCAAGGGTATTCCATTCTTTTCATTCCGTCCAATC
131 TTACAAAAGCAGTTTGGTCAAATTTAAGTTTCAAGGGTATTCCAATCTTTTCATTCCGTCCAATC
*
347486 TTTCCATTTAATTCAATTTTTTTCGAATAATTCAAACATGAATAGTACTTTTAATATTTTATTCT
196 TTTCCATTTAATTCAATTTTTTTCGAATAATTCAAACATGAATAGTACTTTCAATATTTTATTCT
* * *
347551 TTAGGTGTTTGTTGATAAATCAACAATTATAGGTCTTGTACCTTCTCAAATGTTAG
261 TTAGGTGCTTGCTGATAAATCAACAATTATAGGTCTTATACCTTCTCAAATGTTAG
347607 AATCTGATTA
Statistics
Matches: 297, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
343 297 1.00
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (343 bp):
TTATTTCACAGCTCGATGACATTTTGGTAAATTCTTTCAATCCAAACATATGCACTTTTTCTGAT
AATTGGTCAAGTATATCCTTTCTGGGTTATTTTTCACCTTCAAGGGAAATCTTAATCTTTTTACA
TTACAAAAGCAGTTTGGTCAAATTTAAGTTTCAAGGGTATTCCAATCTTTTCATTCCGTCCAATC
TTTCCATTTAATTCAATTTTTTTCGAATAATTCAAACATGAATAGTACTTTCAATATTTTATTCT
TTAGGTGCTTGCTGATAAATCAACAATTATAGGTCTTATACCTTCTCAAATGTTAGGATTCGATT
TGAATATCGAAGGTTATT
Found at i:355754 original size:21 final size:18
Alignment explanation
Indices: 355729--355776 Score: 51
Period size: 21 Copynumber: 2.5 Consensus size: 18
355719 ACATATTTTT
*
355729 TATTTTTTAATATTTTTAA
1 TATTTTTTAAT-TATTTAA
*
355748 TAAATTTATTAATTATTTAA
1 T--ATTTTTTAATTATTTAA
355768 TATTTTTTA
1 TATTTTTTA
355777 TTTTAGTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
18 7 0.29
19 1 0.04
20 7 0.29
21 9 0.38
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TATTTTTTAATTATTTAA
Found at i:357032 original size:70 final size:70
Alignment explanation
Indices: 356919--357060 Score: 275
Period size: 70 Copynumber: 2.0 Consensus size: 70
356909 GAGAGATAGA
356919 TTCTACATCAGCACCACAATACAAACGTTTAAGGGTTGAATTATTTTGATTTCTTAGTACAATAA
1 TTCTACATCAGCACCACAATACAAACGTTTAAGGGTTGAATTATTTTGATTTCTTAGTACAATAA
356984 CTTAT
66 CTTAT
*
356989 TTCTACATCAGCCCCACAATACAAACGTTTAAGGGTTGAATTATTTTGATTTCTTAGTACAATAA
1 TTCTACATCAGCACCACAATACAAACGTTTAAGGGTTGAATTATTTTGATTTCTTAGTACAATAA
357054 CTTAT
66 CTTAT
357059 TT
1 TT
357061 GGGTGCAAAA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (70 bp):
TTCTACATCAGCACCACAATACAAACGTTTAAGGGTTGAATTATTTTGATTTCTTAGTACAATAA
CTTAT
Found at i:361128 original size:16 final size:16
Alignment explanation
Indices: 361107--361137 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
361097 AGTGAGGAAA
*
361107 AATAATACAAAAATAT
1 AATAATAAAAAAATAT
361123 AATAATAAAAAAATA
1 AATAATAAAAAAATA
361138 CATAGAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (16 bp):
AATAATAAAAAAATAT
Found at i:362946 original size:84 final size:83
Alignment explanation
Indices: 362806--363040 Score: 362
Period size: 84 Copynumber: 2.8 Consensus size: 83
362796 AGTCGACTTA
* * * *
362806 AGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAG
1 AGTTATGCTGTAAATGATGTGCCCTCGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAG
362871 ATAACCCTTCTAGCCTTG
66 ATAACCCTTCTAGCCTTG
* * * **
362889 AGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTCGGGGGTCTTTGGTGACA
1 AGTTATGCTGTAAATGATGTGCCCTCG-AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACA
362954 GATAACCCTTCTAGCCTTG
65 GATAACCCTTCTAGCCTTG
* *
362973 AGTTATGCTGTAAATGATGTGCCCTCGAGCTGAGCGTAGTCGAACTCGAAGGTATTTGGTTACAG
1 AGTTATGCTGTAAATGATGTGCCCTCGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAG
363038 ATA
66 ATA
363041 TCCCCTCGAA
Statistics
Matches: 135, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
83 57 0.42
84 78 0.58
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (83 bp):
AGTTATGCTGTAAATGATGTGCCCTCGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAG
ATAACCCTTCTAGCCTTG
Found at i:363146 original size:130 final size:133
Alignment explanation
Indices: 362910--363155 Score: 345
Period size: 130 Copynumber: 1.9 Consensus size: 133
362900 AAATGATGTG
* * * *
362910 CCCTCGAAGCTGAGTGTAATCAAACTCGGGGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAG
1 CCCTCGAAGCTGAGTATAATCAAACTCAGGGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAG
* * * * *
362975 TTATGCTGTAAATGATGTGCCCTCGAGCTGAGCGTAGTCGAACTCGAAGGTATTTGGTTACAGAT
66 CTATACTGCAAATGATGTGCCCTCGAGCTGAGCATAGTCGAACTCAAAGGTATTTGGTTACAGAT
363040 ATC
131 ATC
* * *
363043 CCCTCGAAGCTGAGTATAATCGAACTCAGGGGTCTTT-G-G-CAGATAGCCCTTCTCGACTTAAG
1 CCCTCGAAGCTGAGTATAATCAAACTCAGGGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAG
* *
363105 CTATACTGCAAATGATGTGCCGTTGAGCTGAGCATAGTCGAACTCAAAGGT
66 CTATACTGCAAATGATGTGCCCTCGAGCTGAGCATAGTCGAACTCAAAGGT
363156 CTTTTGTTGG
Statistics
Matches: 99, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
130 63 0.64
131 1 0.01
132 1 0.01
133 34 0.34
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (133 bp):
CCCTCGAAGCTGAGTATAATCAAACTCAGGGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAG
CTATACTGCAAATGATGTGCCCTCGAGCTGAGCATAGTCGAACTCAAAGGTATTTGGTTACAGAT
ATC
Found at i:363192 original size:84 final size:83
Alignment explanation
Indices: 363078--363284 Score: 263
Period size: 84 Copynumber: 2.5 Consensus size: 83
363068 TCAGGGGTCT
* * *
363078 TTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCGTT-GAGCTGAGCATAG
1 TTGGCAGATAGCCCTTCTAGCCTTGAGCTATACTGCAAATGATGTGCC-TTGGAGCTGAGCATAG
363142 TCGAACTCAAAGGTCTTTTG
65 TCGAACTCAAAGGTC-TTTG
* * ** * * *
363162 TTGGCAAATAGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGTTGAGCGTGGT
1 TTGGCAGATAGCCCTTCTAGCCTTGAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCATAGT
*
363227 CGAACTCGAAGGTCTTTG
66 CGAACTCAAAGGTCTTTG
* * *
363245 CTGGCAGATAACCCTTCTAGCCTTGAGTTATACTGCAAAT
1 TTGGCAGATAGCCCTTCTAGCCTTGAGCTATACTGCAAAT
363285 TCTATCTTTT
Statistics
Matches: 105, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
83 39 0.37
84 66 0.63
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (83 bp):
TTGGCAGATAGCCCTTCTAGCCTTGAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCATAGT
CGAACTCAAAGGTCTTTG
Found at i:373515 original size:12 final size:12
Alignment explanation
Indices: 373498--373528 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
373488 CACATACTTC
373498 CTCATTGTTACA
1 CTCATTGTTACA
373510 CTCATTGTTACA
1 CTCATTGTTACA
373522 CTCATTG
1 CTCATTG
373529 ATTTCCCCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.23, C:0.26, G:0.10, T:0.42
Consensus pattern (12 bp):
CTCATTGTTACA
Found at i:373637 original size:4 final size:4
Alignment explanation
Indices: 373628--374110 Score: 957
Period size: 4 Copynumber: 120.8 Consensus size: 4
373618 AGAGGGAAAT
*
373628 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAT ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
373676 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
373724 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
373772 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
373820 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
373868 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
373916 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
373964 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
374012 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
374060 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
374108 ATA
1 ATA
374111 TACGAGAGAA
Statistics
Matches: 477, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 477 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:386563 original size:21 final size:21
Alignment explanation
Indices: 386526--386582 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
386516 AAATTCCTAT
*
386526 GTATCGATACTTCTATTAGGGA
1 GTATTGATAC-TCTATTAGGGA
386548 GTATTGATACTCTATTAGGGA
1 GTATTGATACTCTATTAGGGA
386569 GTATTGATACTCTA
1 GTATTGATACTCTA
386583 CCCTTGGTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 25 0.74
22 9 0.26
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (21 bp):
GTATTGATACTCTATTAGGGA
Found at i:392243 original size:24 final size:24
Alignment explanation
Indices: 392216--392263 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
392206 TTTTGTTGCC
392216 ATGCATGGATGATTACTTGTTGTT
1 ATGCATGGATGATTACTTGTTGTT
392240 ATGCATGGATGATTACTTGTTGTT
1 ATGCATGGATGATTACTTGTTGTT
392264 TCAATTTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.08, G:0.25, T:0.46
Consensus pattern (24 bp):
ATGCATGGATGATTACTTGTTGTT
Found at i:395815 original size:29 final size:29
Alignment explanation
Indices: 395781--395860 Score: 124
Period size: 29 Copynumber: 2.8 Consensus size: 29
395771 TGAAATATAT
* *
395781 AAAATTCTCAGTTTCATATATAATGTTTA
1 AAAATTCTCAATTTCATACATAATGTTTA
*
395810 AAAATTCTTAATTTCATACATAATGTTTA
1 AAAATTCTCAATTTCATACATAATGTTTA
*
395839 AAAATTCTCAATTTCATTCATA
1 AAAATTCTCAATTTCATACATA
395861 GTATTTTCTA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.40, C:0.12, G:0.04, T:0.44
Consensus pattern (29 bp):
AAAATTCTCAATTTCATACATAATGTTTA
Found at i:396974 original size:17 final size:17
Alignment explanation
Indices: 396952--397035 Score: 66
Period size: 17 Copynumber: 4.8 Consensus size: 17
396942 TCCTATATAT
396952 ATATATATAATATTAAA
1 ATATATATAATATTAAA
396969 ATATATAATATATATTTTAAA
1 ATATAT-ATA-ATA--TTAAA
396990 ATATA-ATATATATTAAA
1 ATATATATA-ATATTAAA
* * *
397007 AAACTATATATTTTTAAA
1 ATA-TATATAATATTAAA
397025 ATA-A-ATAATAT
1 ATATATATAATAT
397036 ATATATATTA
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
15 5 0.09
16 1 0.02
17 13 0.24
18 13 0.24
19 13 0.24
21 10 0.18
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATATATAATATTAAA
Found at i:396974 original size:19 final size:19
Alignment explanation
Indices: 396950--397056 Score: 87
Period size: 21 Copynumber: 5.4 Consensus size: 19
396940 ATTCCTATAT
396950 ATATATATATAATATTAAA
1 ATATATATATAATATTAAA
*
396969 ATATATAATATATATTTTAAA
1 ATATAT-ATATA-ATATTAAA
396990 ATATA-ATAT-ATATTAAA
1 ATATATATATAATATTAAA
* *
397007 A-A-ACTATATATTTTTAAA
1 ATATA-TATATAATATTAAA
397025 ATAAATAATATATATATATTAAA
1 AT--AT-ATATATA-ATATTAAA
397048 ACTATATAT
1 A-TATATAT
397057 GTTTTAAAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 22
0.71 0.06 0.22
Matches are distributed among these distances:
15 1 0.01
16 1 0.01
17 12 0.17
18 7 0.10
19 10 0.14
20 5 0.07
21 17 0.24
22 8 0.11
23 8 0.11
24 1 0.01
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
ATATATATATAATATTAAA
Found at i:397031 original size:39 final size:38
Alignment explanation
Indices: 396987--397080 Score: 118
Period size: 40 Copynumber: 2.3 Consensus size: 38
396977 TATATATTTT
396987 AAAATATAATATATATTAAAAAACTATATAT-TTTTAAAA
1 AAAATATAATATATATT--AAAACTATATATGTTTTAAAA
*
397026 TAAATAATATATATATATTAAAACTATATATGTTTTAAAA
1 AAAAT-ATA-ATATATATTAAAACTATATATGTTTTAAAA
397066 AAATTATATAATATA
1 AAA--ATATAATATA
397081 CTTTTTACAA
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
39 16 0.33
40 18 0.38
41 12 0.25
42 2 0.04
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.40
Consensus pattern (38 bp):
AAAATATAATATATATTAAAACTATATATGTTTTAAAA
Found at i:397040 original size:41 final size:39
Alignment explanation
Indices: 396952--397080 Score: 131
Period size: 39 Copynumber: 3.3 Consensus size: 39
396942 TCCTATATAT
* * * *
396952 ATATATATAATATTAAAATATATAATATATATTTTAAAATATA
1 ATATATAT-ATATTAAAA-CTAT-ATATGT-TTTAAAAAAATA
*
396995 ATATATAT-TA-AAAAACTATATAT-TTTTAAAATAAATA
1 ATATATATATATTAAAACTATATATGTTTTAAAA-AAATA
*
397032 ATATATATATATTAAAACTATATATGTTTTAAAAAAATT
1 ATATATATATATTAAAACTATATATGTTTTAAAAAAATA
397071 ATATA-ATATA
1 ATATATATATA
397081 CTTTTTACAA
Statistics
Matches: 76, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
36 6 0.08
37 13 0.17
38 11 0.14
39 24 0.32
40 12 0.16
41 2 0.03
43 8 0.11
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.43
Consensus pattern (39 bp):
ATATATATATATTAAAACTATATATGTTTTAAAAAAATA
Found at i:397073 original size:20 final size:19
Alignment explanation
Indices: 397004--397075 Score: 65
Period size: 20 Copynumber: 3.7 Consensus size: 19
396994 AATATATATT
397004 AAAAAACTATATATTTTTA
1 AAAAAACTATATATTTTTA
* *
397023 AAATAAA-TAATATATATATA
1 AAA-AAACT-ATATATTTTTA
**
397043 TTAAAACTATATATGTTTTA
1 AAAAAACTATATAT-TTTTA
*
397063 AAAAAATTATATA
1 AAAAAACTATATA
397076 ATATACTTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 7
0.71 0.16 0.12
Matches are distributed among these distances:
19 13 0.32
20 27 0.68
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (19 bp):
AAAAAACTATATATTTTTA
Found at i:397151 original size:22 final size:21
Alignment explanation
Indices: 397126--397187 Score: 67
Period size: 19 Copynumber: 3.0 Consensus size: 21
397116 TATTAAAACT
397126 ATATATGTTTTTAAAATATATA
1 ATATAT-TTTTTAAAATATATA
*
397148 ATATATTTTTATAAAA-A-CT-
1 ATATATTTTT-TAAAATATATA
*
397167 ATATATTTTTTAATATATATA
1 ATATATTTTTTAAAATATATA
397188 TCAAAACTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
18 4 0.12
19 11 0.33
20 2 0.06
21 5 0.15
22 11 0.33
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (21 bp):
ATATATTTTTTAAAATATATA
Found at i:397151 original size:39 final size:39
Alignment explanation
Indices: 397109--397188 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 39
397099 TATAGTTTTA
397109 ATATATATATTAAAACTATATATGTTTTTAAAATATATAAT
1 ATATATATATTAAAACTATATAT-TTTTTAAAATATAT-AT
* * * *
397150 ATATTTTTATAAAAACTATATATTTTTTAATATATATAT
1 ATATATATATTAAAACTATATATTTTTTAAAATATATAT
397189 CAAAACTACA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 2 0.06
40 13 0.37
41 20 0.57
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (39 bp):
ATATATATATTAAAACTATATATTTTTTAAAATATATAT
Found at i:397194 original size:70 final size:70
Alignment explanation
Indices: 397034--397260 Score: 246
Period size: 70 Copynumber: 3.1 Consensus size: 70
397024 AATAAATAAT
* *
397034 ATATATATATTAAAACTATATATGTTTTAAAAAAATTATATAATATACTTTTTACAAAAGAC-AT
1 ATATATATATTAAAACTATATATGTTTT--TAAAA-TATATAATATA-TTTTTATAAAA-ACTAT
*
397098 ATATAGTTTTA
61 ATAT-TTTTTA
397109 ATATATATATTAAAACTATATATGTTTTTAAAATATATAATATATTTTTATAAAAACTATATATT
1 ATATATATATTAAAACTATATATGTTTTTAAAATATATAATATATTTTTATAAAAACTATATATT
397174 TTTTA
66 TTTTA
* * **
397179 ATATATATATCAAAAC--TACATGTTTTTCAAAACATATATAATATATACTT-TAAAAACTATAT
1 ATATATATATTAAAACTATATATGTTTTT--AAA-ATATATAATATATTTTTATAAAAACTATAT
*
397241 ACTTATTTAA
63 A-TT-TTTTA
*
397251 AAATATATAT
1 ATATATATAT
397261 GATATATAAA
Statistics
Matches: 137, Mismatches: 9, Indels: 15
0.85 0.06 0.09
Matches are distributed among these distances:
68 10 0.07
70 38 0.28
71 33 0.24
72 24 0.18
73 4 0.03
75 28 0.20
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (70 bp):
ATATATATATTAAAACTATATATGTTTTTAAAATATATAATATATTTTTATAAAAACTATATATT
TTTTA
Found at i:397841 original size:2 final size:2
Alignment explanation
Indices: 397836--397866 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
397826 TCACACACAC
397836 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
397867 ATTATTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:408046 original size:24 final size:24
Alignment explanation
Indices: 408019--408100 Score: 130
Period size: 24 Copynumber: 3.5 Consensus size: 24
408009 AAACGAATAC
408019 TAAATGAACAAGTTCGCAAACATA
1 TAAATGAACAAGTTCGCAAACATA
*
408043 TAAATGAACATGTTCGCAAACATA
1 TAAATGAACAAGTTCGCAAACATA
*
408067 TAAATGAACATGTTCGCAAACAT-
1 TAAATGAACAAGTTCGCAAACATA
*
408090 TAAACGAACAA
1 TAAATGAACAA
408101 CAATAAATTA
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
23 9 0.16
24 46 0.84
ACGTcount: A:0.49, C:0.17, G:0.12, T:0.22
Consensus pattern (24 bp):
TAAATGAACAAGTTCGCAAACATA
Found at i:414332 original size:35 final size:37
Alignment explanation
Indices: 414230--414332 Score: 115
Period size: 36 Copynumber: 2.8 Consensus size: 37
414220 GTTTCTCTTG
*
414230 AAACAAAGTGTCGTCTCGC-TAGAGACAATTTTTCTTAA
1 AAACAAA-TTTCGTCTCGCTTA-AGACAATTTTTCTTAA
* * *
414268 AAACAAATTT-GACTCGCTTGAGACAATTTTTC-TCA
1 AAACAAATTTCGTCTCGCTTAAGACAATTTTTCTTAA
*
414303 AAACAAATTTCGTCTCCCTTAAGAC-ATTTT
1 AAACAAATTTCGTCTCGCTTAAGACAATTTT
414333 CCCCCCGAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
35 17 0.30
36 29 0.52
37 3 0.05
38 7 0.12
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (37 bp):
AAACAAATTTCGTCTCGCTTAAGACAATTTTTCTTAA
Found at i:414640 original size:65 final size:65
Alignment explanation
Indices: 414491--414703 Score: 245
Period size: 65 Copynumber: 3.3 Consensus size: 65
414481 CTTTTAGCAT
* * * * *
414491 GTTTCTCTTGAAACAAGTTTTGTCTC-CCTTGAGACAGTCTCTCTTGAAAC-ATTATCTTTGAGT
1 GTTTCCCTTGAAACAAATTTTGTCTCTCC-TGATACAGTTTCTCTTGAAACAATCATCTTTGAGT
414554 A
65 A
* * * *
414555 GTTTCCCTTGAAACGAATTTTGTCTCTCCTGATACAGTTTCTCTTAAAACAATCATCTGTGAGTC
1 GTTTCCCTTGAAACAAATTTTGTCTCTCCTGATACAGTTTCTCTTGAAACAATCATCTTTGAGTA
* * *
414620 GTTTCCCTTGAAACAAATTTTATCTCTCTTAAGATA-A-TTTCTCTTGCAACAATCATCTTTGAG
1 GTTTCCCTTGAAACAAATTTTGTCTCTCCT--GATACAGTTTCTCTTGAAACAATCATCTTTGAG
*
414683 TTT
64 -TA
414686 GTTTCCCTTGAAACAAAT
1 GTTTCCCTTGAAACAAAT
414704 ACCTAAATAT
Statistics
Matches: 128, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
64 41 0.32
65 63 0.49
66 20 0.16
67 4 0.03
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (65 bp):
GTTTCCCTTGAAACAAATTTTGTCTCTCCTGATACAGTTTCTCTTGAAACAATCATCTTTGAGTA
Found at i:415257 original size:3 final size:3
Alignment explanation
Indices: 415249--415286 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
415239 TCTACAAAAA
*
415249 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
415287 ATTAATTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:419349 original size:15 final size:15
Alignment explanation
Indices: 419329--419360 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
419319 TTCACAGCCA
419329 TATTTCGTAAATCAT
1 TATTTCGTAAATCAT
419344 TATTTCGTAAATCAT
1 TATTTCGTAAATCAT
419359 TA
1 TA
419361 AAAAAAGGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.12, G:0.06, T:0.47
Consensus pattern (15 bp):
TATTTCGTAAATCAT
Found at i:420553 original size:34 final size:34
Alignment explanation
Indices: 420514--420818 Score: 210
Period size: 34 Copynumber: 8.6 Consensus size: 34
420504 TATATATATG
* * *
420514 TATATATTATATAATTTTGAAAACCTTTTGAAAA
1 TATATAATATATAATTTTTAAAACATTTTGAAAA
*
420548 TATATATTATATATAGTTTTTAAAACATTTTGAAAA
1 TATATA--ATATATAATTTTTAAAACATTTTGAAAA
*
420584 TATATAATATATAGTTTTTAAAACATTTTGAAAA
1 TATATAATATATAATTTTTAAAACATTTTGAAAA
*
420618 TATATAATATATAGTTTTTTAAAAAGCATTTTGAAAACA
1 TATATAATATATA-ATTTTT-AAAA-CATTTTG-AAA-A
*
420657 TATATATATTATATAGTTTTTTTTAAAAACCATTTTGAAAAA
1 TATATA-A-TATATA---ATTTTT-AAAA-CATTTTG-AAAA
* * * *
420699 CATATAACATATAGTTTTAAAAACATTTTTG---A
1 TATATAATATATAATTTTTAAAACA-TTTTGAAAA
* * * *
420731 -A-A-ACTATATAATTTTGAAAATATTTTTAAAAATA
1 TATATAATATATAATTTTTAAAACA-TTTT-GAAA-A
* *
420765 TATATAATATATAA-TTTTAAAATATTTTAAAAAA
1 TATATAATATATAATTTTTAAAACATTTT-GAAAA
*
420799 TATATATTATATAGATTTTT
1 TATATAATATATA-ATTTTT
420819 GGAAAATATT
Statistics
Matches: 229, Mismatches: 20, Indels: 42
0.79 0.07 0.14
Matches are distributed among these distances:
29 20 0.09
30 1 0.00
31 1 0.00
32 1 0.00
34 61 0.27
35 18 0.08
36 57 0.25
37 19 0.08
38 3 0.01
39 7 0.03
40 6 0.03
41 7 0.03
42 6 0.03
43 22 0.10
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (34 bp):
TATATAATATATAATTTTTAAAACATTTTGAAAA
Found at i:420554 original size:36 final size:36
Alignment explanation
Indices: 420514--420818 Score: 239
Period size: 36 Copynumber: 8.5 Consensus size: 36
420504 TATATATATG
* * *
420514 TATATATTATATAATTTTGAAAACCTTTTGAAAATA
1 TATATATTATATAGTTTTTAAAACATTTTGAAAATA
420550 TATAT-TATATATAGTTTTTAAAACATTTTGAAAATA
1 TATATAT-TATATAGTTTTTAAAACATTTTGAAAATA
420586 TATA-A-TATATAGTTTTTAAAACATTTTGAAAATA
1 TATATATTATATAGTTTTTAAAACATTTTGAAAATA
420620 TATA-A-TATATAGTTTTTTAAAAAGCATTTTGAAAACATA
1 TATATATTATATAG-TTTTT-AAAA-CATTTTG-AAA-ATA
420659 TATATATTATATAGTTTTTTTTAAAAACCATTTTGAAAA-A
1 TATATATTATATAG---TTTTT-AAAA-CATTTTGAAAATA
* ** *
420699 CATATAACATATAGTTTTAAAAACATTTTTGAAAACTA
1 TATATATTATATAGTTTTTAAAACA-TTTTGAAAA-TA
* *
420737 TATA-ATT-T-T-G-----AAAATATTTTTAAAAATA
1 TATATATTATATAGTTTTTAAAACA-TTTTGAAAATA
* * * *
420765 TATATAATATATA-ATTTTAAAATATTTT-AAAAAA
1 TATATATTATATAGTTTTTAAAACATTTTGAAAATA
420799 TATATATTATATAGATTTTT
1 TATATATTATATAG-TTTTT
420819 GGAAAATATT
Statistics
Matches: 227, Mismatches: 17, Indels: 50
0.77 0.06 0.17
Matches are distributed among these distances:
28 6 0.03
29 16 0.07
30 1 0.00
31 1 0.00
34 59 0.26
35 13 0.06
36 63 0.28
37 12 0.05
38 7 0.03
39 7 0.03
40 13 0.06
41 8 0.04
42 3 0.01
43 18 0.08
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (36 bp):
TATATATTATATAGTTTTTAAAACATTTTGAAAATA
Found at i:420750 original size:29 final size:28
Alignment explanation
Indices: 420707--420768 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 28
420697 AACATATAAC
* *
420707 ATATAGTTTTAAAAACATTTTTGAAAACT
1 ATATAATTTTAAAAACATTTTT-AAAAAT
* *
420736 ATATAATTTTGAAAATATTTTTAAAAAT
1 ATATAATTTTAAAAACATTTTTAAAAAT
420764 ATATA
1 ATATA
420769 TAATATATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 10 0.34
29 19 0.66
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (28 bp):
ATATAATTTTAAAAACATTTTTAAAAAT
Found at i:420757 original size:79 final size:77
Alignment explanation
Indices: 420598--420762 Score: 185
Period size: 79 Copynumber: 2.1 Consensus size: 77
420588 TAATATATAG
* *
420598 TTTTTAAAACATTTTGAAAATATATAATATATAGTTTTTTAAAAAGCATTTTGAAAACATATATA
1 TTTTTAAAACATTTTGAAAACATATAACATATAG-TTTTTAAAAAGCATTTTGAAAACATATATA
* *
420663 TATTATATAGTTT
65 TATTATAAAATTT
420676 TTTTTAAAAACCATTTTGAAAAACATATAACATATAG-TTTTAAAAA-CATTTTTGAAAAC-TAT
1 TTTTT-AAAA-CATTTTG-AAAACATATAACATATAGTTTTTAAAAAGCA-TTTTGAAAACATAT
* *
420738 ATA-ATTTTGAAAATAT
62 ATATATTAT-AAAATTT
*
420754 TTTTAAAAA
1 TTTTTAAAA
420763 TATATATAAT
Statistics
Matches: 75, Mismatches: 7, Indels: 11
0.81 0.08 0.12
Matches are distributed among these distances:
77 8 0.11
78 21 0.28
79 23 0.31
80 7 0.09
81 16 0.21
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.43
Consensus pattern (77 bp):
TTTTTAAAACATTTTGAAAACATATAACATATAGTTTTTAAAAAGCATTTTGAAAACATATATAT
ATTATAAAATTT
Found at i:420762 original size:12 final size:12
Alignment explanation
Indices: 420713--420801 Score: 54
Period size: 12 Copynumber: 7.0 Consensus size: 12
420703 TAACATATAG
*
420713 TTTTAAAAACAT
1 TTTTAAAAATAT
420725 TTTTGAAAACTATAT
1 TTTT-AAAA--ATAT
*
420740 AATTTTGAAAATAT
1 --TTTTAAAAATAT
420754 TTTTAAAAATAT
1 TTTTAAAAATAT
* * * *
420766 ATATAATATATAA
1 TTTTAA-AAATAT
420779 TTTT-AAAATAT
1 TTTTAAAAATAT
*
420790 TTTAAAAAATAT
1 TTTTAAAAATAT
420802 ATATTATATA
Statistics
Matches: 58, Mismatches: 12, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
11 7 0.12
12 27 0.47
13 10 0.17
14 4 0.07
15 3 0.05
16 3 0.05
17 4 0.07
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (12 bp):
TTTTAAAAATAT
Found at i:420825 original size:38 final size:35
Alignment explanation
Indices: 420735--420828 Score: 127
Period size: 34 Copynumber: 2.6 Consensus size: 35
420725 TTTTGAAAAC
*
420735 TATATAATTTTGAAAATATTTTTAAAAATATATATAA
1 TATATAATTTTGAAAATA-TTTTAAAAA-ATATATAT
420772 TATATAATTTT-AAAATATTTTAAAAAATATATAT
1 TATATAATTTTGAAAATATTTTAAAAAATATATAT
420806 TATATAGATTTTTGGAAAATATT
1 TATATA-A-TTTT-GAAAATATT
420829 CTTTTTTTAG
Statistics
Matches: 52, Mismatches: 1, Indels: 7
0.87 0.02 0.12
Matches are distributed among these distances:
34 13 0.25
35 10 0.19
36 10 0.19
37 11 0.21
38 8 0.15
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (35 bp):
TATATAATTTTGAAAATATTTTAAAAAATATATAT
Found at i:420844 original size:16 final size:16
Alignment explanation
Indices: 420825--420905 Score: 51
Period size: 16 Copynumber: 5.1 Consensus size: 16
420815 TTTTGGAAAA
420825 TATTCTT-TTTTTAGTT
1 TATTCTTATTTTTA-TT
*
420841 TATTTTTATTTTTATT
1 TATTCTTATTTTTATT
*
420857 TATTTACCT-TTTTTATT
1 TA-TT-CTTATTTTTATT
* ** * *
420874 TTTTAATATTATTACT
1 TATTCTTATTTTTATT
420890 TATT-TTATTTTTATT
1 TATTCTTATTTTTATT
420905 T
1 T
420906 TCATTTTGTT
Statistics
Matches: 49, Mismatches: 12, Indels: 9
0.70 0.17 0.13
Matches are distributed among these distances:
15 10 0.20
16 21 0.43
17 17 0.35
18 1 0.02
ACGTcount: A:0.20, C:0.05, G:0.01, T:0.74
Consensus pattern (16 bp):
TATTCTTATTTTTATT
Found at i:420873 original size:23 final size:21
Alignment explanation
Indices: 420843--420905 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 21
420833 TTTTAGTTTA
420843 TTTTTATTTTTATTTATTTACCT
1 TTTTTATTTTTATTTA-TTA-CT
420866 TTTTTATTTTTTAATATTATTACT
1 TTTTTA-TTTTT-AT-TTATTACT
420890 TATTTTATTTTTATTT
1 T-TTTTATTTTTATTT
420906 TCATTTTGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
22 2 0.06
23 8 0.22
24 13 0.36
25 10 0.28
26 3 0.08
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTTTATTTTTATTTATTACT
Found at i:421632 original size:163 final size:168
Alignment explanation
Indices: 421444--421778 Score: 599
Period size: 163 Copynumber: 2.0 Consensus size: 168
421434 CACAGAACAT
421444 CGAAAGCCATAACCAGGAAAAAACCGAGAACCCAAACCACACAAGAACGAAACCCACGATCGAAA
1 CGAAAGCCATAACCAGGAAAAAACCGAGAACCCAAACCACACAAGAACGAAACCCACGATCGAAA
421509 CCAACAGTGAAACAACCACAAACAAAATCGAAACCC-A-AACAACAC-AAAGAAACAGAG-AGGT
66 CCAACAGTGAAACAACCACAAACAAAATCGAAACCCAACAACAACACAAAAGAAACAGAGAAGGT
421570 AAATACACAAT-AAAATAAAAACCGAAGCATCAACCAC
131 AAATACACAATAAAAATAAAAACCGAAGCATCAACCAC
*
421607 CGAAAGCCATAACCAGGAGAAAACCGAGAACCCAAACCACACAAGAACGAAACCCACGATCGAAA
1 CGAAAGCCATAACCAGGAAAAAACCGAGAACCCAAACCACACAAGAACGAAACCCACGATCGAAA
421672 CCAACAGTGAAACAACCACAAACAAAATCGAAACCCGAATACAACAACACAAAAGAAACAGAGAA
66 CCAACAGTGAAACAACCACAAACAAAATCGAAACCC--A-ACAACAACACAAAAGAAACAGAGAA
421737 GGTAAATACACAATAAAAATAAAAACCGAAGCATCAACCAC
128 GGTAAATACACAATAAAAATAAAAACCGAAGCATCAACCAC
421778 C
1 C
421779 AAGAGCTCAC
Statistics
Matches: 163, Mismatches: 1, Indels: 8
0.95 0.01 0.05
Matches are distributed among these distances:
163 100 0.61
167 1 0.01
168 8 0.05
169 12 0.07
170 15 0.09
171 27 0.17
ACGTcount: A:0.54, C:0.27, G:0.13, T:0.06
Consensus pattern (168 bp):
CGAAAGCCATAACCAGGAAAAAACCGAGAACCCAAACCACACAAGAACGAAACCCACGATCGAAA
CCAACAGTGAAACAACCACAAACAAAATCGAAACCCAACAACAACACAAAAGAAACAGAGAAGGT
AAATACACAATAAAAATAAAAACCGAAGCATCAACCAC
Found at i:422323 original size:5 final size:5
Alignment explanation
Indices: 422302--422336 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
422292 GTCATTTTTC
422302 TTATT TTCATGT TTATT TTATT TTATT TTATT TTA
1 TTATT TT-AT-T TTATT TTATT TTATT TTATT TTA
422337 ATCTCGTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 21 0.75
6 4 0.14
7 3 0.11
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.74
Consensus pattern (5 bp):
TTATT
Found at i:422391 original size:3 final size:3
Alignment explanation
Indices: 422383--422420 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
422373 ATATATACAT
422383 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
422421 TACTTCTTAT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:422575 original size:10 final size:9
Alignment explanation
Indices: 422562--422620 Score: 50
Period size: 10 Copynumber: 6.3 Consensus size: 9
422552 TTAAAAATAG
422562 TTTTTTATAA
1 TTTTTTAT-A
422572 TTTTTT-TA
1 TTTTTTATA
*
422580 TAGTTTTATA
1 T-TTTTTATA
422590 TTTTTTATAA
1 TTTTTTAT-A
422600 TTTTTT-TA
1 TTTTTTATA
*
422608 TAGTTTTATA
1 T-TTTTTATA
422618 TTT
1 TTT
422621 AGTAAATCTC
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
8 4 0.10
9 17 0.43
10 19 0.47
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (9 bp):
TTTTTTATA
Found at i:422576 original size:11 final size:11
Alignment explanation
Indices: 422562--422614 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
422552 TTAAAAATAG
422562 TTTTTTATAAT
1 TTTTTTATAAT
422573 TTTTTTAT-A-
1 TTTTTTATAAT
*
422582 -GTTTTAT-A-
1 TTTTTTATAAT
422590 TTTTTTATAAT
1 TTTTTTATAAT
*
422601 TTTTTTATAGT
1 TTTTTTATAAT
422612 TTT
1 TTT
422615 ATATTTAGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
8 7 0.19
9 6 0.17
10 2 0.06
11 21 0.58
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.74
Consensus pattern (11 bp):
TTTTTTATAAT
Found at i:422594 original size:28 final size:28
Alignment explanation
Indices: 422562--422620 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
422552 TTAAAAATAG
422562 TTTTTTATAATTTTTTTATAGTTTTATA
1 TTTTTTATAATTTTTTTATAGTTTTATA
422590 TTTTTTATAATTTTTTTATAGTTTTATA
1 TTTTTTATAATTTTTTTATAGTTTTATA
422618 TTT
1 TTT
422621 AGTAAATCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (28 bp):
TTTTTTATAATTTTTTTATAGTTTTATA
Found at i:426090 original size:95 final size:95
Alignment explanation
Indices: 425907--426083 Score: 264
Period size: 95 Copynumber: 1.9 Consensus size: 95
425897 ATATATACAC
** *
425907 AATAAAGCTTGAACTGTCCCTCTAAAGCAATTAGTTAAACGCCTTGGCTTTATGGATAAGATTCA
1 AATAAAGCTTGAACTGTCCCTCTAAAGCAATTAGTTAAACGCCCCGACTTTATGGATAAGATTCA
*
425972 GCTAGCCTGATAAAGGTGATTATACTATAA
66 GCTAGCCTAATAAAGGTGATTATACTATAA
** * * * *
426002 AATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTATGTATAATATTCA
1 AATAAAGCTTGAACTGTCCCTCTAAAGCAATTAGTTAAACGCCCCGACTTTATGGATAAGATTCA
426067 GCTAGCCTAATAAAGGT
66 GCTAGCCTAATAAAGGT
426084 ACTTATAATA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
95 72 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (95 bp):
AATAAAGCTTGAACTGTCCCTCTAAAGCAATTAGTTAAACGCCCCGACTTTATGGATAAGATTCA
GCTAGCCTAATAAAGGTGATTATACTATAA
Found at i:427375 original size:84 final size:83
Alignment explanation
Indices: 427229--428268 Score: 890
Period size: 84 Copynumber: 12.4 Consensus size: 83
427219 AATTTTTTCT
* * * * * *
427229 ATTTGCAGCATAACTCAAGGCTAAAAAGGTTATCTACCAACCATAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAGCTCAAGGCGAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACG
427294 CTCAGCTCCAAGGCACATC
65 CTCAGCTCCAAGGCACATC
* * *
427313 ATTTGCAGCATAGCTTAAGGCGAGAAGGGTTATCTGCCACCAAAAGACCTTTGAGTTTGACTACG
1 ATTTGCAGCATAGCTCAAGGCGAGAAGGGTTATCTGCCACC-AAAGACCTTCGAGTTCGACTACG
427378 CTCAGCTCCAAGGCACATC
65 CTCAGCTCCAAGGCACATC
* * * * *
427397 ATTTGCAGCATAACTCAATGCTAGAAGGGTTATCTTCCAACCAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAGCTCAAGGCGAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACG
* *
427462 CTCAACT-CAACGGAACATC
65 CTCAGCTCCAA-GGCACATC
* * * * * * *
427481 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAATCAAAGACCCTCGAGTTTGGCTACG
1 ATTTGCAGCATAGCTCAAGGCGAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACG
*
427546 CTCAGCTTCAAGGGCACATC
65 CTCAGCTCCAA-GGCACATC
* * * * * *
427566 ATTTGCAGTATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGATCTTTGAGTTCGACTACG
1 ATTTGCAGCATAGCTCAAGGCGAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACG
* ***
427631 CTCAGCTCTAAGGTGTATC
65 CTCAGCTCCAAGGCACATC
* * * * *
427650 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAGCTCAAGGCGAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACG
*
427715 CTCATCTCCAAGGCACATC
65 CTCAGCTCCAAGGCACATC
* * * * * * * * *
427734 ATTTGTAGCATAGCTTAAGTCGAAAAGGGCTATCTG---CCAAAGACCCTCGAGTTCAATTACAC
1 ATTTGCAGCATAGCTCAAGGCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGC
* * *
427796 TGAGCTTCGAGGGCACATC
66 TCAGC-TCCAAGGCACATC
* * * * * * *
427815 ATTTGTAGCATAACTCAAGACTAGAAGGGTTATCTGCCAACAAAAGACCTTTGAATTCGACTACG
1 ATTTGCAGCATAGCTCAAGGCGAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACG
*
427880 CTCAGCT-CAATGACACATC
65 CTCAGCTCCAA-GGCACATC
* * * * * * * *
427899 ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTTCCAACCAAAGACCTTCGAGTTTGATTACA
1 ATTTGCAGCATAGCTCAAGGCGAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACG
* * * *
427964 CTCATCTTCGAGGGCACATT
65 CTCAGC-TCCAAGGCACATC
* * * * *
427984 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGACTACGC
1 ATTTGCAGCATAGCTCAAGGCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGC
* * *
428049 TCAGCTTCGAGGGCAAATC
66 TCAGC-TCCAAGGCACATC
* * * ** * * * * *
428068 ATTTGTAACATAGCTTAAGTTGAGAAGGGCTATCTG---CCAAAGACCCTCGTGTTCGATTACAC
1 ATTTGCAGCATAGCTCAAGGCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGC
* * *
428130 TCAGCTTCGAGGGCACATT
66 TCAGC-TCCAAGGCACATC
* * * ** * * * * *
428149 ATTTGTAACCTAGCTCAAGGTAAGAAGGGCTATTTGCCAACAAAATACCTTCGAGTTCGGCTACG
1 ATTTGCAGCATAGCTCAAGGCGAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACG
*
428214 CTCAGCTCCAAGGCACATT
65 CTCAGCTCCAAGGCACATC
** * * * *
428233 ATTTATAGTATAGCTCAAGGCAATAAGGGCTATCTG
1 ATTTGCAGCATAGCTCAAGGCGAGAAGGGTTATCTG
428269 TCAATACGAT
Statistics
Matches: 777, Mismatches: 163, Indels: 32
0.80 0.17 0.03
Matches are distributed among these distances:
80 24 0.03
81 110 0.14
83 7 0.01
84 477 0.61
85 158 0.20
86 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.25
Consensus pattern (83 bp):
ATTTGCAGCATAGCTCAAGGCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGC
TCAGCTCCAAGGCACATC
Found at i:427653 original size:169 final size:167
Alignment explanation
Indices: 427229--428268 Score: 950
Period size: 169 Copynumber: 6.2 Consensus size: 167
427219 AATTTTTTCT
* * * *
427229 ATTTGCAGCATAACTCAAGGCTAAAAAGGTTATCTACCAACCATAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* * *
427294 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGGCGAGAAGGGTTATCTGCCACCAAAAG
66 CTCAGCTCGAAGGCACATCATTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGCCAAC-AAAG
* *
427359 ACCTTTGAGTTTGACTACGCTCAGCTCCAAGGCACATC
130 ACCTTTGAGTTCGACTACGCTCAGCTTCAAGGCACATC
* * *
427397 ATTTGCAGCATAACTCAATGCTAGAAGGGTTATCTTCCAACCAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* * * * *
427462 CTCAACTC-AACGGAACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAATCAAA
66 CTCAGCTCGAA-GGCACATCATTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGCCAA-CAAA
* * * *
427526 GACCCTCGAGTTTGGCTACGCTCAGCTTCAAGGGCACATC
129 GACCTTTGAGTTCGACTACGCTCAGCTTCAA-GGCACATC
* * * *
427566 ATTTGCAGTATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGATCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* *** * *
427631 CTCAGCTCTAAGGTGTATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAG
66 CTCAGCTCGAAGGCACATCATTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGCCAA-CAAAG
* *
427696 ACCTTTGAGTTCGACTACGCTCATCTCCAAGGCACATC
130 ACCTTTGAGTTCGACTACGCTCAGCTTCAAGGCACATC
* * * * * * * * * * *
427734 ATTTGTAGCATAGCTTAAGTCGAAAAGGGCTATCTG----CCAAAGACCCTCGAGTTCAATTACA
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* * * * * *
427795 CTGAGCTTCGAGGGCACATCATTTGTAGCATAACTCAAGACTAGAAGGGTTATCTGCCAACAAAA
66 CTCAGC-TCGAAGGCACATCATTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGCCAAC-AAA
* *
427860 GACCTTTGAATTCGACTACGCTCAGC-TCAATGACACATC
129 GACCTTTGAGTTCGACTACGCTCAGCTTCAA-GGCACATC
* * * * * * * * *
427899 ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTTCCAACCAAAGACCTTCGAGTTTGATTACA
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* * * * * * *
427964 CTCATCTTCGAGGGCACATTATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAG
66 CTCAGC-TCGAAGGCACATCATTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGCCAACAAAG
* * *
428029 ACCTTCGAGTTCGACTACGCTCAGCTTCGAGGGCAAATC
130 ACCTTTGAGTTCGACTACGCTCAGCTTC-AAGGCACATC
* * * * * * * * *
428068 ATTTGTAACATAGCTTAA-GTTGAGAAGGGCTATCTG----CCAAAGACCCTCGTGTTCGATTAC
1 ATTTGCAGCATAACTCAAGGCT-AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
* * * * * * * * ** * *
428128 ACTCAGCTTCGAGGGCACATTATTTGTAACCTAGCTCAAGGTAAGAAGGGCTATTTGCCAACAAA
65 GCTCAGC-TCGAAGGCACATCATTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGCCAAC-AA
* * * * *
428193 ATACCTTCGAGTTCGGCTACGCTCAGCTCCAAGGCACATT
128 AGACCTTTGAGTTCGACTACGCTCAGCTTCAAGGCACATC
** * * * * *
428233 ATTTATAGTATAGCTCAAGGCAATAAGGGCTATCTG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTG
428269 TCAATACGAT
Statistics
Matches: 740, Mismatches: 116, Indels: 35
0.83 0.13 0.04
Matches are distributed among these distances:
164 27 0.04
165 215 0.29
166 30 0.04
167 2 0.00
168 203 0.27
169 260 0.35
170 3 0.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.25
Consensus pattern (167 bp):
ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
CTCAGCTCGAAGGCACATCATTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGCCAACAAAGA
CCTTTGAGTTCGACTACGCTCAGCTTCAAGGCACATC
Found at i:427678 original size:253 final size:250
Alignment explanation
Indices: 427259--428268 Score: 1045
Period size: 253 Copynumber: 4.0 Consensus size: 250
427249 CTAAAAAGGT
* * * *
427259 TATCTACCAACCATAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCA
1 TATCTGCCAA-CAAAGACCCTCGAGTTCGACTACGCTCAGCTTCAAGGGCACATCATTTGCAGCA
* * * * *
427323 TAGCTTAAGGCGAGAAGGGTTATCTGCCACCAAAAGACCTTTGAGTTTGACTACGCTCAGCTCCA
65 TAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCT-CA
* *
427388 AGGCACATCATTTGCAGCATAACTCAA-TGCTAGAAGGGTTATCTTCCAACCAAAGACCTTTGAG
129 AGGCACATCATTTGCAGCATAACTTAAGT-CAAGAAGGGTTATCTTCCAACCAAAGACCTTTGAG
* *
427452 TTCGACTACGCTCAACTCAACGGAACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
193 TTCGACTACGCTCATCTCAA-GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
* * *
427511 TATCTGCCAATCAAAGACCCTCGAGTTTGGCTACGCTCAGCTTCAAGGGCACATCATTTGCAGTA
1 TATCTGCCAA-CAAAGACCCTCGAGTTCGACTACGCTCAGCTTCAAGGGCACATCATTTGCAGCA
*
427576 TAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGATCTTTGAGTTCGACTACGCTCAGCTCTA
65 TAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTC-A
*** * *
427641 AGGTGTATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGACCTTTGAGT
129 AGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTTCCAACCAAAGACCTTTGAGT
* *
427706 TCGACTACGCTCATCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAAAAGGGC
194 TCGACTACGCTCATCT-CAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
* * * * * *
427764 TATCTG-C--CAAAGACCCTCGAGTTCAATTACACTGAGCTTCGAGGGCACATCATTTGTAGCAT
1 TATCTGCCAACAAAGACCCTCGAGTTCGACTACGCTCAGCTTCAAGGGCACATCATTTGCAGCAT
* *
427826 AACTCAAGACTAGAAGGGTTATCTGCCAACAAAAGACCTTTGAATTCGACTACGCTCAGCTCAAT
66 AACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAA-
* * * *
427891 GACACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTTCCAACCAAAGACCTTCGAGTT
130 GGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTTCCAACCAAAGACCTTTGAGTT
* * * * * * * * * * *
427956 TGATTACACTCATCTTCGAGGGCACATTATTTACAGCATAACTCAAGGCTAGAAGGGT
195 CGACTACGCTCATC-TC-AAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
* * * * * *
428014 TATCTGTCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTTCGAGGGCAAATCATTTGTAACAT
1 TATCTGCCAACAAAGACCCTCGAGTTCGACTACGCTCAGCTTCAAGGGCACATCATTTGCAGCAT
* * * * * * * * *
428079 AGCTTAA-GTTGAGAAGGGCTATCTG-C--C-AAAGACCCTCGTGTTCGATTACACTCAGCTTCG
66 AACTCAAGGCT-AGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGC-TC-
* * * * * * * * * * *
428139 AGGGCACATTATTTGTAACCTAGCTCAAGGT-AAGAAGGGCTAT-TTGCCAACAAAATACCTTCG
128 AAGGCACATCATTTGCAGCATAACTTAA-GTCAAGAAGGGTTATCTT-CCAACCAAAGACCTTTG
* * * ** * * * * *
428202 AGTTCGGCTACGCTCAGCTCCAAGGCACATTATTTATAGTATAGCTCAAGGCAATAAGGGC
191 AGTTCGACTACGCTCATCT-CAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
428263 TATCTG
1 TATCTG
428269 TCAATACGAT
Statistics
Matches: 645, Mismatches: 97, Indels: 35
0.83 0.12 0.05
Matches are distributed among these distances:
248 2 0.00
249 238 0.37
250 101 0.16
251 4 0.01
252 43 0.07
253 253 0.39
254 4 0.01
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (250 bp):
TATCTGCCAACAAAGACCCTCGAGTTCGACTACGCTCAGCTTCAAGGGCACATCATTTGCAGCAT
AACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAAG
GCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTTCCAACCAAAGACCTTTGAGTTC
GACTACGCTCATCTCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
Found at i:428012 original size:334 final size:331
Alignment explanation
Indices: 427229--428267 Score: 1154
Period size: 334 Copynumber: 3.1 Consensus size: 331
427219 AATTTTTTCT
* * * * *
427229 ATTTGCAGCATAACTCAAGGCTAA-AAAGGTTATCTACCAACCATAGACCTTCGAGTTCGACTAC
1 ATTTGCAGTATAGCTCAAGGC-AAGAAGGGCTATCTACCAACCAAAGACCTTCGAGTTCGACTAC
*
427293 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGGCGAGAAGGGTTATCTGCC-ACCAAA
65 GCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGCCAACC-AA
* * * * *
427357 AGACCTTTGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAA-TGCTAG
129 AGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAGT-CGAG
* * * * * * * * * *
427421 AAGGGTTATCTTCCAACCAAAGACCTTTGAGTTCGACTACGCTCAAC-TCAACGGAACATCATTT
193 AAGGGCTATC-T---GCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTT
* * * * *
427485 GCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAATC-AAAGACCCTCGAGTTTGGCTACGCTC
254 GTAGCATAGCTCAAG-CTAGAAGGGCTATCTGCCAA-CAAAAGACCTTCGAGTTCGGCTACGCTC
427549 AGCTTCAAGGGCACATC
317 AGC-TCAA-GGCACATC
* * * * * * *
427566 ATTTGCAGTATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGATCTTTGAGTTCGACTACG
1 ATTTGCAGTATAGCTCAAGGCAAGAAGGGCTATCTACCAACCAAAGACCTTCGAGTTCGACTACG
* *** * *
427631 CTCAGCTCTAAGGTGTATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAG
66 CTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGCCAACCAAAG
* *
427696 ACCTTTGAGTTCGACTACGCTCATCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAAAAG
131 ACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAG
* *
427761 GGCTATCTGCCAAAGACCCTCGAGTTCAATTACACTGAGCTTCGAGGGCACATCATTTGTAGCAT
196 GGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGTAGCAT
* * * * *
427826 AACTCAAGACTAGAAGGGTTATCTGCCAACAAAAGACCTTTGAATTCGACTACGCTCAGCTCAAT
261 AGCTCAAG-CTAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGGCTACGCTCAGCTCAA-
*
427891 GACACATC
324 GGCACATC
* * * * * * *
427899 ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTTCCAACCAAAGACCTTCGAGTTTGATTACA
1 ATTTGCAGTATAGCTCAAGGCAAGAAGGGCTATCTACCAACCAAAGACCTTCGAGTTCGACTACG
* * * * * * * *
427964 CTCATCTTCGAGGGCACATTATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAA-CAAA
66 CTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGCCAACCAAA
* * * * * *
428028 GACCTTCGAGTTCGACTACGCTCAGCTTCGAGGGCAAATCATTTGTAACATAGCTTAAGTTGAGA
130 GACCTTTGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGA
* * *
428093 AGGGCTATCTGCCAAAGACCCTCGTGTTCGATTACACTCAGCTTCGAGGGCACATTATTTGTAAC
194 AGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGTAGC
* * * *
428158 CTAGCTCAAGGTAAGAAGGGCTATTTGCCAACAAAATACCTTCGAGTTCGGCTACGCTCAGCTCC
259 ATAGCTCAAGCT-AGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGGCTACGCTCAGCT-C
*
428223 AAGGCACATT
322 AAGGCACATC
** *
428233 ATTTATAGTATAGCTCAAGGCAATAAGGGCTATCT
1 ATTTGCAGTATAGCTCAAGGCAAGAAGGGCTATCT
428268 GTCAATACGA
Statistics
Matches: 590, Mismatches: 103, Indels: 21
0.83 0.14 0.03
Matches are distributed among these distances:
333 122 0.21
334 288 0.49
335 3 0.01
336 2 0.00
337 171 0.29
338 4 0.01
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (331 bp):
ATTTGCAGTATAGCTCAAGGCAAGAAGGGCTATCTACCAACCAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGCCAACCAAAG
ACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAG
GGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGTAGCAT
AGCTCAAGCTAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGGCTACGCTCAGCTCAAGG
CACATC
Found at i:428231 original size:418 final size:416
Alignment explanation
Indices: 427267--428251 Score: 1212
Period size: 418 Copynumber: 2.4 Consensus size: 416
427257 GTTATCTACC
* *
427267 AACCATAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAG
1 AACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAG
** * * *
427332 GCGAGAAGGGTTATCTGCCACCAAAAGACCTTTGAGTTTGACTACGCTCAGCTCCAAGGCACATC
66 GTAAGAAGGGCTATCTGCCA-CAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * *
427397 ATTTGCAGCATAACTCAATGCTAGAAGGGTTATCTTCCAACCAAAGACCTTTGAGTTCGACTACG
130 ATTTGTAGCATAACTCAA-GCTAGAAGGGTTATCTGCCAACAAAAGACCTTTGAATTCGACTACG
* *
427462 CTCAACTCAACGGAACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAATCAAAG
194 CTCAACTCAACGGAACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAACCAAAG
* * * *
427527 ACCCTCGAGTTTGGCTACGCTCAGCTTCAAGGGCACATCATTTGCAGTATAACTCAAGGCTAGAA
259 ACCCTCGAGTTTGACTACACTCAGCTTCAAGGGCACATCATTTACAGCATAACTCAAGGCTAGAA
* * * ***
427592 GGGTTATCTGCCAACAAAAGATCTTTGAGTTCGACTACGCTCAGCTCTAAGGTGTATCATTTGCA
324 GGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCGAAGGCAAATCATTTGCA
* *
427657 GCATAACTTAAGTCGAGAAGGGTTATCT
389 ACATAACTTAAGTCGAGAAGGGCTATCT
* *
427685 ACCAACCAAAGACCTTTGAGTTCGACTACGCTCATCTCCAAGGCACATCATTTGTAGCATAGCTT
1 ---AACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGTAGCATAGCTT
* * * * * * *
427750 AA-GTCGAA-AAGGGCTATCTG-C-C-AAAGACCCTCGAGTTCAATTACACTGAGCTTCGAGGGC
63 AAGGT--AAGAAGGGCTATCTGCCACAAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGC
427810 ACATCATTTGTAGCATAACTCAAGACTAGAAGGGTTATCTGCCAACAAAAGACCTTTGAATTCGA
125 ACATCATTTGTAGCATAACTCAAG-CTAGAAGGGTTATCTGCCAACAAAAGACCTTTGAATTCGA
* * *
427875 CTACGCTCAGCTCAA-TGACACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTTCCAA
189 CTACGCTCAACTCAACGGA-ACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAA
* * * * *
427939 CCAAAGACCTTCGAGTTTGATTACACTCATCTTCGAGGGCACATTATTTACAGCATAACTCAAGG
253 CCAAAGACCCTCGAGTTTGACTACACTCAGCTTCAAGGGCACATCATTTACAGCATAACTCAAGG
* *
428004 CTAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGACTACGCTCAGCTTCGAGGGCAAATC
318 CTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGC-TCGAAGGCAAATC
* * *
428068 ATTTGTAACATAGCTTAAGTTGAGAAGGGCTATCT
382 ATTTGCAACATAACTTAAGTCGAGAAGGGCTATCT
* * * * * * * * * * *
428103 -GCCAAAGACCCTCGTGTTCGATTACACTCAGCTTCGAGGGCACATTATTTGTAACCTAGCTCAA
1 AACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGTAGCATAGCTTAA
* * *
428167 GGTAAGAAGGGCTATTTGCCAACAAAATACCTTCGAGTTCGGCTACGCTCAGCTCCAAGGCACAT
65 GGTAAGAAGGGCTATCTGCC-ACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
* * * *
428232 TATTTATAGTATAGCTCAAG
129 CATTTGTAGCATAACTCAAG
428252 GCAATAAGGG
Statistics
Matches: 477, Mismatches: 74, Indels: 29
0.82 0.13 0.05
Matches are distributed among these distances:
414 27 0.06
415 36 0.08
416 3 0.01
417 52 0.11
418 263 0.55
419 22 0.05
420 2 0.00
421 71 0.15
422 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.25
Consensus pattern (416 bp):
AACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAG
GTAAGAAGGGCTATCTGCCACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCA
TTTGTAGCATAACTCAAGCTAGAAGGGTTATCTGCCAACAAAAGACCTTTGAATTCGACTACGCT
CAACTCAACGGAACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAACCAAAGAC
CCTCGAGTTTGACTACACTCAGCTTCAAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGG
GTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCGAAGGCAAATCATTTGCAAC
ATAACTTAAGTCGAGAAGGGCTATCT
Done.