Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold302
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: 555664
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 3 of 4
Found at i:321519 original size:61 final size:61
Alignment explanation
Indices: 321413--322096 Score: 645
Period size: 61 Copynumber: 11.4 Consensus size: 61
321403 CTTCTTCTTC
* * * *
321413 CACTTTTCTAGTCCTCAAAAAGTAGGACGCCTTTTCCTTTCAAAGCCCACACAAGCTGGTGG
1 CACTTTTC-AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* *
321475 CATTTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
*
321536 CACTTTTCTAGTCCTCAAAGAGTAGGACGCC--TTCGCTTTTCAAAGCCCACACAAGTTGGTGG
1 CACTTTTC-AGTCCTCAAAGAGCAGGACGCCTTTTC-CTTTT-AAAGCCCACACAAGTTGGTGG
* *
321598 CAC-CTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* *
321658 CACTTTTCAGTCTTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACATAAGTTGGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * *
321713 CACCTTTCAGTCCTCAGAGAGCAGGA---C---TCCTTTTAAAGCCTACACAAGTTGGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * * **
321768 CAC-TTCCTAGCCCTCAAAGAGTAGGACGCTCTCTCCTTTCGCCTTTTTCTTTCAAAGCC-CACA
1 CACTTTTC-AGTCCTCAAAGAGCAGGACG--C-CT--TTT--CC----T-TTTAAAGCCCACAC-
*
321831 TAAGCTGGTGG
52 -AAGTTGGTGG
* * * * * *
321842 CATTTTTCAGACCTCAAAGAGCAGGACGTCTTCTCCTTTCAAAGCCCACACAAGCTGGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * *
321903 CATTTTTCAGTCCTCAAAGAGCAGGACGCCTTCTCATTTTAAAGCCCACACAAGTTGGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* *
321964 CACTTTTCAGTCTTCAAAGAGCAGGATGCC-TTT-C----AAAGCCCACACAAGTTGGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * *
322019 CACCTTTCAGTCCTTAGAGAGCAGGA---C---TACTTTTAAAGCCCACACAAGTTGGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
*
322074 CAC-TTCCTAGTCCTCAAAGAGCA
1 CACTTTTC-AGTCCTCAAAGAGCA
322097 AGACACTCTC
Statistics
Matches: 525, Mismatches: 57, Indels: 87
0.78 0.09 0.13
Matches are distributed among these distances:
50 2 0.00
51 2 0.00
52 2 0.00
54 6 0.01
55 160 0.30
59 1 0.00
60 52 0.10
61 186 0.35
62 59 0.11
63 4 0.01
66 1 0.00
67 2 0.00
68 2 0.00
69 2 0.00
71 2 0.00
72 4 0.01
73 6 0.01
74 29 0.06
75 3 0.01
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (61 bp):
CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
Found at i:321711 original size:55 final size:55
Alignment explanation
Indices: 321448--321796 Score: 369
Period size: 55 Copynumber: 6.0 Consensus size: 55
321438 GACGCCTTTT
* * *
321448 CCTTTCAAAGCCCACACAAGCTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGATG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACG
*
321503 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGTAGGACG
1 CC-TTT-C----AAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCCTCAAAGAGCAGGACG
*
321565 CCTTCGCTTTTCAAAGCCCACACAAGTTGGTGGCAC-CTTCAGTCCTCAAAGAGCAGGACG
1 ----C-C-TTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACG
*
321625 CCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCTTCAAAGAGCAGGACG
1 CCTT-T-C----AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACG
* * * *
321686 CCTTTCAAAGCCCACATAAGTTGGTGGCACCTTTCAGTCCTCAGAGAGCAGGACT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACG
* * * * *
321741 CCTTTTAAAGCCTACACAAGTTGGTGGCAC-TTCCTAGCCCTCAAAGAGTAGGACG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCCTCAAAGAGCAGGACG
321796 C
1 C
321797 TCTCTCCTTT
Statistics
Matches: 253, Mismatches: 21, Indels: 40
0.81 0.07 0.13
Matches are distributed among these distances:
54 5 0.02
55 92 0.36
56 5 0.02
57 1 0.00
59 1 0.00
60 44 0.17
61 56 0.22
62 42 0.17
66 2 0.01
67 5 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (55 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACG
Found at i:321930 original size:306 final size:305
Alignment explanation
Indices: 321502--323217 Score: 1388
Period size: 306 Copynumber: 5.8 Consensus size: 305
321492 AGAGCAGGAT
* * *
321502 GCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGTAGGACGCC
1 GCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCCTCAAAGAGCAGGACGCC
*
321567 TTCGCTTTTCAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGACGCCTTCT
65 TTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTCT
*
321631 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCTTCAAAGAGCAGGACGCCTTTCAAAG
130 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCTTCAAAGAGCAGGATGCCTTTCAAAG
* *
321696 CCCACATAAGTTGGTGGCACCTTTCAGTCCTCAGAGAGCAGGACTCCTTTTAAAGCCTACACAAG
195 CCCACACAAGTTGGTGGCACCTTTCAGTCCTCAGAGAGCAGGACTCCTTTTAAAGCCCACACAAG
* *
321761 TTGGTGGCACTTCCTAGCCCTCAAAGAGTAGGACGCTCTCTCCTTTC
260 TTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGAC-CTCTCTCCTTTC
* * * * *
321808 GCCTTTTTCTTTCAAAGCCCACATAAGCTGGTGGCATTTTTCAGACCTCAAAGAGCAGGACGTCT
1 GCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCT
* * **
321873 TCTCCTTTCAAAGCCCACACAAGCTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACGCCTTCTC
66 TCGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTCTC
*
321938 ATTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCTTCAAAGAGCAGGATGCCTTTCAAAGC
131 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCTTCAAAGAGCAGGATGCCTTTCAAAGC
* *
322003 CCACACAAGTTGGTGGCACCTTTCAGTCCTTAGAGAGCAGGACTACTTTTAAAGCCCACACAAGT
196 CCACACAAGTTGGTGGCACCTTTCAGTCCTCAGAGAGCAGGACTCCTTTTAAAGCCCACACAAGT
*
322068 TGGTGGCACTTCCTAGTCCTCAAAGAGCAAGACACTCTCTCCTTTC
261 TGGTGGCACTTCCTAGTCCTCAAAGAGCAGGAC-CTCTCTCCTTTC
** *
322114 GCCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTGAAGCCCACACGAGTTGGTGGCA-TTTTCCAG
1 G-CCTTT--T--T---------------CTTTCAAAGCCCACACAAGTTGGTGGCACTTTT-CAG
322178 TCCTCAAAGAGCAGGA-----T-GCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCT
45 TCCTCAAAGAGCAGGACGCCTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCT
* * *
322237 CAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTAGTGGCA-TTGTTCAATCCTCAA
110 CAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTT-TTCAGTCTTCAA
* *
322301 AGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGAT
174 AGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAGAGAGCAGGA-
* * * * *
322366 GCTTTCTTTTTCCAAATCCCATACAAGTTGGTGGCACTTTTCTAGTCCTTAAAGAGCAGGA----
238 -C--TCCTTTT--AAAGCCCACACAAGTTGGTGGCAC-TTCCTAGTCCTCAAAGAGCAGGACCTC
*
322427 T-GCCTTT-
297 TCTCCTTTC
*
322434 G-C-----CTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-AGTCCTCAAAGAGCAGGACGCCT
1 GCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCT
* * * *
322492 TCTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAGAGAGCAGGA------CTC
66 TCGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTCTC
* * * * *
322551 CTTTTAAAGCCCACACAAGTTGGTGGCAC-TTCCTAGTCCTCAAAGAACAAGACG-C--T-----
131 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCTTCAAAGAGCAGGATGCCTTTCAAAG
* * * * *
322607 CTCTC-C---TT--T--CACCCTTT-AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAA
195 CCCACACAAGTTGGTGGCA-CCTTTCAGTCCTCAGAGAGCAGGACTCCTTTTAAAGCCCACACAA
* *
322663 GTTAGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACAC-CT-T-C--T-
259 GTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGAC-CTCTCTCCTTTC
* * *
322705 -CC----T-TTT-AAAGCCCACACAAGTTAGTGGCATTTTTCAATCCTCAAAGAGCAGGA-----
1 GCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCT
* * *
322758 T-GCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAAGATG-CTT-TC
66 TCGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTCTC
* * * *
322820 TTTTTGCAAATCCCACACAAGTTGGTGGCTCTTTTCTAGTCCTT-AAAGAGTAGGA-------C-
131 CTTTT--AAAGCCCACACAAGTTGGTGGCACTTTTC-AGT-CTTCAAAGAGCAGGATGCCTTTCA
* * * *
322876 --G--C-C-C----TCGTGGCACC-TTCAGTCCTTAAAGAGCGAGACGCCTTCTCCTTTTAAAGC
192 AAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAGAGAGC-AG--G---ACTCCTTTTAAAGC
* *
322930 CCACACAAGTTGGTGGCACTT-TTCAGTCCTCAAAGAGCAGGA------TGCTTT-
251 CCACACAAGTTGGTGGCACTTCCT-AGTCCTCAAAGAGCAGGACCTCTCTCCTTTC
* * * * * *
322978 --C--TTT-TTGCAAATCCCACACAAGTTGGTGGCACTTTTCTAGTTCTGAAAGAGTAGGACGCT
1 GCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCCTCAAAGAGCAGGACGCC
* * * * *
323038 TTC-CTTTTGCAAATCCCACACAAGTTGGTGGCACTTTTCTAGTTCTCAAAGAGTAGGACGCCTT
65 TTCGCCTTT-CAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACGCCTT
* * * * * * *
323102 CGCCTTTCAAAGCCCAAACAAGTTGGTGGCAC-CTTCAATCCTCAAAGAGCAGGACGCCTTCTCC
128 CTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCTTCAAAGAGCAGGATGCCTT-T-C
* * *
323166 TTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAATCCTCAAAAGAGCAGGA
191 ----AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC-AGAGAGCAGGA
323218 TGCTTTCTTT
Statistics
Matches: 1168, Mismatches: 126, Indels: 237
0.76 0.08 0.15
Matches are distributed among these distances:
265 48 0.04
266 2 0.00
267 2 0.00
268 4 0.00
269 21 0.02
270 47 0.04
271 69 0.06
272 18 0.02
273 8 0.01
274 7 0.01
275 73 0.06
276 14 0.01
277 20 0.02
278 4 0.00
279 1 0.00
280 2 0.00
281 19 0.02
282 32 0.03
283 37 0.03
284 4 0.00
285 7 0.01
290 2 0.00
292 3 0.00
293 65 0.06
294 25 0.02
295 3 0.00
297 1 0.00
298 1 0.00
299 51 0.04
300 1 0.00
301 1 0.00
304 1 0.00
305 57 0.05
306 244 0.21
307 12 0.01
309 1 0.00
311 1 0.00
318 1 0.00
319 2 0.00
320 157 0.13
321 6 0.01
322 2 0.00
324 5 0.00
325 4 0.00
326 63 0.05
327 20 0.02
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (305 bp):
GCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCT
TCGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTCTC
CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCTTCAAAGAGCAGGATGCCTTTCAAAGC
CCACACAAGTTGGTGGCACCTTTCAGTCCTCAGAGAGCAGGACTCCTTTTAAAGCCCACACAAGT
TGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACCTCTCTCCTTTC
Found at i:322112 original size:116 final size:118
Alignment explanation
Indices: 321816--322113 Score: 326
Period size: 116 Copynumber: 2.6 Consensus size: 118
321806 TCGCCTTTTT
* * * * * * *
321816 CTTTCAAAGCCCACATAAGCTGGTGGCATTTTTCAGACCTCAAAGAGCAGGACGTCTTCTCCTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAAGACATC-TCTCCTTT
** *
321881 CAAAGCCCACACAAGCTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACGCCTTCT
65 CAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA--CCTTCA
* * *
321937 CATTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCTTCAAAGAGC-AG-GA--T-GCCTTT
1 C-TTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAAGACATCTCTCCTTT
* * *
321997 CAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTTAGAGAGCAGGA-C-T-A
65 CAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACCTTCA
*
322048 CTTTTAAAGCCCACACAAGTTGGTGGCAC-TTCCTAGTCCTCAAAGAGCAAGACACTCTCTCCTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCCTCAAAGAGCAAGACA-TCTCTCCTT
322112 TC
64 TC
322114 GCCCTTTAGT
Statistics
Matches: 149, Mismatches: 20, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
109 3 0.02
110 41 0.28
111 3 0.02
112 2 0.01
113 1 0.01
115 1 0.01
116 54 0.36
117 1 0.01
121 2 0.01
122 41 0.28
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (118 bp):
CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAAGACATCTCTCCTTTC
AAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACCTTCA
Found at i:322207 original size:55 final size:55
Alignment explanation
Indices: 322121--322596 Score: 503
Period size: 55 Copynumber: 8.2 Consensus size: 55
322111 TTCGCCCTTT
* ** *
322121 AGTCCTCAAAGAGCAGGACGCCTTTTGAAGCCCACACGAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTT-C
*
322176 AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
* *
322231 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTAGTGGCA-TTGTTC
1 AGTCCTCAAAGAGCAGGATGCCTT-T-C----AAAGCCCACACAAGTTGGTGGCACTT-TTC
*
322292 AATCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
1 AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
* *
322347 AGTCCTCAAAGAGCAGGATGCTTTCTTTTTCCAAATCCCATACAAGTTGGTGGCACTTTTC
1 AGTCCTCAAAGAGCAGGATGC---C--TTT-CAAAGCCCACACAAGTTGGTGGCACTTTTC
* *
322408 TAGTCCTTAAAGAGCAGGATGCCTTTGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-
1 -AGTCCTCAAAGAGCAGGA------TGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
* *
322469 AGTCCTCAAAGAGCAGGACGCCTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGATGCCTT-TC-----AAAGCCCACACAAGTTGGTGGCACTTTTC
* * *
322530 AGTCCTCAGAGAGCAGGACT-CCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTCC
1 AGTCCTCAAAGAGCAGGA-TGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
322584 TAGTCCTCAAAGA
1 -AGTCCTCAAAGA
322597 ACAAGACGCT
Statistics
Matches: 365, Mismatches: 25, Indels: 62
0.81 0.06 0.14
Matches are distributed among these distances:
54 8 0.02
55 151 0.41
56 6 0.02
57 1 0.00
58 1 0.00
59 1 0.00
60 51 0.14
61 96 0.26
62 43 0.12
63 3 0.01
65 1 0.00
68 3 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
Found at i:322261 original size:149 final size:149
Alignment explanation
Indices: 321972--322245 Score: 401
Period size: 149 Copynumber: 1.8 Consensus size: 149
321962 GGCACTTTTC
* * * *
321972 AGTCTTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTTAGA
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
*
322037 GAGCAGGACTACTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAAGACA
66 GAGCAGGACTACTTTCAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAAGACA
322102 CTCTCTCCTTTCGCCCTTT
131 CTCTCTCCTTTCGCCCTTT
** * *
322121 AGTCCTCAAAGAGCAGGACGCCTTTTGAAGCCCACACGAGTTGGTGGCA-TTTTCCAGTCCTCAA
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAA
* *
322185 AGAGCAGGA-TGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCA
65 AGAGCAGGACT-ACTTTCAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCA
322246 GGACGCCTTC
Statistics
Matches: 111, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
148 4 0.04
149 103 0.93
150 4 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (149 bp):
AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
GAGCAGGACTACTTTCAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAAGACA
CTCTCTCCTTTCGCCCTTT
Found at i:322319 original size:116 final size:116
Alignment explanation
Indices: 322116--322615 Score: 623
Period size: 116 Copynumber: 4.3 Consensus size: 116
322106 CTCCTTTCGC
* *
322116 CCTTT-AGTCCTCAAAGAGCAGGACG-----CCTTTTGAAGCCCACACGAGTTGGTGGCA-TTTT
1 CCTTTCAGTCCTCAAAGAGCAGGACGCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTT
322174 CCAGTCCTCAAAGAGCAGGA-TGCCTTTCAAAGCCCACACAAGTTGGTGGCA
66 -CAGTCCTCAAAGAGCAGGACTGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
322225 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTAGTGGCA-TTG
1 CCTTTCAGTCCTCAAAGAGCAGGACG-CTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTT-
*
322289 TTCAATCCTCAAAGAGCAGGA-TGCCTTTCAAAGCCCACACAAGTTGGTGGCA
64 TTCAGTCCTCAAAGAGCAGGACTGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
322341 CTTTTCAGTCCTCAAAGAGCAGGATGCTT-TCTTTTTCCAAATCCCATACAAGTTGGTGGCACTT
1 CCTTTCAGTCCTCAAAGAGCAGGACGCTTCTCCTTTT--AAAGCCCACACAAGTTGGTGGCACTT
*
322405 TTCTAGTCCTTAAAGAGCAGGATGCCTTTGCCTTTCAAAGCCCACACAAGTTGGTGGCA
64 TTC-AGTCCTCAAAGAGCAGGA---C--TGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
322464 CCTTT-AGTCCTCAAAGAGCAGGACGCCTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTT
1 CCTTTCAGTCCTCAAAGAGCAGGACG-CTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
* *
322528 TCAGTCCTCAGAGAGCAGGACT-CCTTTTAAAGCCCACACAAGTTGGTGGCA
65 TCAGTCCTCAAAGAGCAGGACTGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
322579 -CTTCCTAGTCCTCAAAGAACAAGACGCTCTCTCCTTT
1 CCTTTC-AGTCCTCAAAGAGCAGGACGCT-TCTCCTTT
322616 CACCCTTTAG
Statistics
Matches: 344, Mismatches: 24, Indels: 39
0.85 0.06 0.10
Matches are distributed among these distances:
109 5 0.01
110 20 0.06
114 9 0.03
115 33 0.10
116 150 0.44
117 20 0.06
118 1 0.00
121 16 0.05
122 45 0.13
123 38 0.11
124 7 0.02
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (116 bp):
CCTTTCAGTCCTCAAAGAGCAGGACGCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTT
CAGTCCTCAAAGAGCAGGACTGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:322660 original size:448 final size:451
Alignment explanation
Indices: 321413--323268 Score: 1555
Period size: 448 Copynumber: 4.0 Consensus size: 451
321403 CTTCTTCTTC
* * * *
321413 CACTTTTCTAGTCCTCAAAAAGTAGGACGCCTTT-TCCTTTCAAAGCCCACACAAGCTGGTGGCA
1 CACTTTTC-AGTCCTCAAAGAGCAGGACGCCTTTCT-TTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
321477 TTTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
64 CTTTTCAGTCCTTAAAGAGCAGGATGCCTTTGCCTTTCAAAGCCCACACAAGTTGGTGGCAC-CT
* * *
321542 TCTAGTCCTCAAAGAGTAGGACGCCTTCGCTTTTCAAAGCCCACACAAGTTGGTGGCACC-TTCA
128 T-TAGTCCTCAAAGAGCAGGACGCCTTCACTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCA
*
321606 GTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCT
192 GTCCTCAAAGAGCAGGA------CTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTT-AGTCC
* *
321671 TCAAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGCA-CCTTTCAGTCCTCAGAGAGC
249 TCAAAGAGCAGGACGCC-TT-----CCCACA-CA-TT-GT--CACCCTTTCAGTCCTCAAAGAGC
* * * * * *
321735 AGGACTCCTTTTAAAGCCTACACAAGTTGGTGGCA-CTTCCTAGCCCTCAAAGAGTAGGACGCTC
303 AGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACGC-C
* * *
321799 TCTCCTTTCGCCTTTTTCTTTCAAAGCCCACATAAGCTGGTGGCATTTTTCAGA-CCTCAAAGAG
366 T-T-C--T--CC----T-TTT-AAAGCCCACACAAGTTAGTGGCATTTTTCA-ATCCTCAAAGAG
* *
321863 CAGGACGTCTTCTCCTTTCAAAGCCCACACAAGCTGGTGG
418 CAGGA-----T-GCCTTTCAAAGCCCACACAAGTTGGTGG
* *
321903 CATTTTTCAGTCCTCAAAGAGCAGGACGCCTTCTCATTTT-AAAGCCCACACAAGTTGGTGGCAC
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCCTT-TCTTTTTCAAAGCCCACACAAGTTGGTGGCAC
321967 TTTTCAGT-CTTCAAAGAGCAGGA------TGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT
65 TTTTCAGTCCTT-AAAGAGCAGGATGCCTTTGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT
* * *
322025 TCAGTCCTTAGAGAGCAGGA---C-T-AC-TTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTA
129 T-AGTCCTCAAAGAGCAGGACGCCTTCACTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC-A
* * * * * *
322083 GTCCTCAAAGAGCAAGAC-AC---T----CTCTC-C---TT--TCGCCCTTTAGTCCTCAAAGAG
192 GTCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTAGTCCTCAAAGAG
** ** **
322134 CAGGACGCCTTTTGAAGCCCACACGAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCCT
257 CAGGACGCC--TT----CCCACAC-A-TT-GTCACCCTTT-CAGTCCTCAAAGAGCAGGACACCT
322199 TTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTA
312 TTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTA
*
322264 AAGCCCACACAAGTTAGTGGCATTGTTCAATCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACAC
377 AAGCCCACACAAGTTAGTGGCATTTTTCAATCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACAC
322329 AAGTTGGTGG
442 AAGTTGGTGG
* * *
322339 CACTTTTCAGTCCTCAAAGAGCAGGATG-CTTTCTTTTTCCAAATCCCATACAAGTTGGTGGCAC
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCTTTTT-CAAAGCCCACACAAGTTGGTGGCAC
322403 TTTTCTAGTCCTTAAAGAGCAGGATGCCTTTGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT
65 TTTTC-AGTCCTTAAAGAGCAGGATGCCTTTGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT
*
322468 TAGTCCTCAAAGAGCAGGACGCCTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
129 TAGTCCTCAAAGAGCAGGACGCCTTCACTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
* *
322533 CCTCAGAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAA
194 CCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTT--TAGTCCTCAAAGAG
* * *
322598 CAAGACG-C-TCTCTC-C-TT-TCACCCTTT-AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCC
257 CAGGACGCCTTCCCACACATTGTCACCCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCC
* *
322657 ACACAAGTTAGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTCTCCTTTTAAAGCCCACAC
322 ACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACAC
322722 AAGTTAGTGGCATTTTTCAATCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGG
387 AAGTTAGTGGCATTTTTCAATCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGG
* * * *
322787 CACTTTTCAGTCCTCAAAGAGCAAGATG-CTTTCTTTTTGCAAATCCCACACAAGTTGGTGGCTC
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCTTTTT-CAAAGCCCACACAAGTTGGTGGCAC
* *
322851 TTTTCTAGTCCTTAAAGAGTAGGA-------------C---G--C-C-C----TCGTGGCACCTT
65 TTTTC-AGTCCTTAAAGAGCAGGATGCCTTTGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT
* * * * *
322892 CAGTCCTTAAAGAGC-GAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAG
129 TAGTCCTCAAAGAGCAG-GACGCCTTCACTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAG
* * *
322956 TCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAATCCCACACAAGTTGGTGGCACTTTTCTAGTTC
193 TCCTCAAAGAGCAGGA--C--TCCTTTT--AAAGCCCACACAAGTTGGTGGCAC--TT-TAGTCC
* * * *
323021 TGAAAGAGTAGGACGCTTTCCTTTTGCAAATCCCACACAAGTTGGTGGCA-CTTTTCTAGTTCTC
249 TCAAAGAGCAGGACG----CC---T-----TCCCACAC-A-TT-GT--CACCCTTTC-AGTCCTC
* * * *
323085 AAAGAGTAGGACGCCTTCGCCTTTCAAAGCCCAAACAAGTTGGTGGCACC-TTCAATCCTCAAAG
296 AAAGAGCAGGA------CACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAG
* *
323149 AGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAATCCTCAAAAGAGC
355 AGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTAGTGGCATTTTTCAATCCTC-AAAGAGC
* *
323214 AGGATGCTTTCTTTTTTCAAAGACCACACGAGTTGGTGG
419 AGGATGC---C---TTTCAAAGCCCACACAAGTTGGTGG
323253 CACTTTTCAGTCCTCA
1 CACTTTTCAGTCCTCA
323269 CACCTATGCA
Statistics
Matches: 1170, Mismatches: 105, Indels: 206
0.79 0.07 0.14
Matches are distributed among these distances:
423 1 0.00
424 84 0.07
426 1 0.00
428 7 0.01
429 1 0.00
430 24 0.02
431 17 0.01
432 3 0.00
434 6 0.01
435 4 0.00
436 80 0.07
437 15 0.01
438 3 0.00
441 1 0.00
442 57 0.05
443 39 0.03
444 1 0.00
445 5 0.00
446 2 0.00
447 1 0.00
448 287 0.25
449 7 0.01
450 6 0.01
451 1 0.00
452 8 0.01
453 3 0.00
454 21 0.02
455 102 0.09
456 16 0.01
457 5 0.00
459 69 0.06
460 47 0.04
462 7 0.01
463 5 0.00
464 19 0.02
466 39 0.03
467 1 0.00
470 1 0.00
471 1 0.00
475 1 0.00
476 28 0.02
477 18 0.02
478 1 0.00
479 1 0.00
481 1 0.00
482 17 0.01
483 30 0.03
488 2 0.00
489 63 0.05
490 11 0.01
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (451 bp):
CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCTTTTTCAAAGCCCACACAAGTTGGTGGCACT
TTTCAGTCCTTAAAGAGCAGGATGCCTTTGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTA
GTCCTCAAAGAGCAGGACGCCTTCACTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
TCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTAGTCCTCAAAGAGCAGG
ACGCCTTCCCACACATTGTCACCCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACAC
AAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGT
TAGTGGCATTTTTCAATCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGG
Found at i:322679 original size:238 final size:237
Alignment explanation
Indices: 322182--322606 Score: 560
Period size: 238 Copynumber: 1.8 Consensus size: 237
322172 TTCCAGTCCT
322182 CAAAGAGCAGGATG----CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGA
1 CAAAGAGCAGGATGCCTACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGA
*
322243 GCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTAGTGGCATTGTTCAATCCTCAAAGAGCAG
66 GCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTAGTGGCACTGTTCAATCCTCAAAGAGCAG
* * * *
322308 GATGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCT
131 GATGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCTCAGTCCTCAAAGAACAAGACGCTTTCT
** ** * * * * *
322373 TTTTCCAAATCCCATACAAGTTGGTGGCACTTTTCTAGTCCT
196 TTACCCAAATCCCATACAAGTCAGTGACACCTTTCAAGCCCA
* *
322415 TAAAGAGCAGGATGCCTTTGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-AGTCCTCAAA
1 CAAAGAGCAGGATGCC--TACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
* * * *
322479 GAGCAGGACGCCTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCACCT-TTCAGTCCTCAGAGAG
64 GAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTAGTGGCA-CTGTTCAATCCTCAAAGAG
*
322543 CAGGACT-CCTTTTAAAGCCCACACAAGTTGGTGGCACTTC-CTAGTCCTCAAAGAACAAGACGC
128 CAGGA-TGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCTC-AGTCCTCAAAGAACAAGACGC
322606 T
191 T
322607 CTCTCCTTTC
Statistics
Matches: 172, Mismatches: 11, Indels: 13
0.88 0.06 0.07
Matches are distributed among these distances:
233 13 0.08
237 1 0.01
238 122 0.71
239 36 0.21
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (237 bp):
CAAAGAGCAGGATGCCTACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGA
GCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTAGTGGCACTGTTCAATCCTCAAAGAGCAG
GATGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCTCAGTCCTCAAAGAACAAGACGCTTTCT
TTACCCAAATCCCATACAAGTCAGTGACACCTTTCAAGCCCA
Found at i:322684 original size:55 final size:55
Alignment explanation
Indices: 322619--322809 Score: 258
Period size: 55 Copynumber: 3.4 Consensus size: 55
322609 CTCCTTTCAC
322619 CCTTT-AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTAGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTAGTGGCA
322673 CCTTTCAGTCCTCAAAGAGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTAGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACACCTT-T-C----AAAGCCCACACAAGTTAGTGGCA
** * ** *
322734 TTTTTCAATCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTAGTGGCA
*
322789 CTTTTCAGTCCTCAAAGAGCA
1 CCTTTCAGTCCTCAAAGAGCA
322810 AGATGCTTTC
Statistics
Matches: 122, Mismatches: 8, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
54 5 0.04
55 65 0.53
56 1 0.01
57 1 0.01
59 1 0.01
60 1 0.01
61 48 0.39
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (55 bp):
CCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTAGTGGCA
Found at i:322706 original size:94 final size:95
Alignment explanation
Indices: 322524--322709 Score: 261
Period size: 94 Copynumber: 2.0 Consensus size: 95
322514 GTTGGTGGCA
* * * *
322524 CCTTTCAGTCCTCAGAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTC
1 CCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTAGTGGCACTTCCTAGTC
*
322589 CTCAAAGAACAAGACGCTCTCTCCTTTCAC
66 CTCAAAGAACAAGACCCTCTCTCCTTTCAC
*
322619 CCTTT-AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTAGTGGCACCTTTC-AGT
1 CCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTAGTGGCA-CTTCCTAGT
* *
322682 CCTCAAAGAGCAGGACACCT-TCTCCTTT
65 CCTCAAAGAACAAGAC-CCTCTCTCCTTT
322710 TAAAGCCCAC
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
94 70 0.86
95 11 0.14
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (95 bp):
CCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTAGTGGCACTTCCTAGTC
CTCAAAGAACAAGACCCTCTCTCCTTTCAC
Found at i:322717 original size:61 final size:60
Alignment explanation
Indices: 322624--322875 Score: 256
Period size: 55 Copynumber: 4.3 Consensus size: 60
322614 TTCACCCTTT
*
322624 AGTCCTCAAAGAGCAGGACACCTTT-C----AAAGCCCACACAAGTTAGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTTTCCTTTTAAAGCCCACACAAGTTAGTGGCACTTTTC
*
322679 AGTCCTCAAAGAGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTAGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGACACCTT-TCCTTTTAAAGCCCACACAAGTTAGTGGCACTTTTC
* * * *
322740 AATCCTCAAAGAGCAGG--A---TGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
1 AGTCCTCAAAGAGCAGGACACCTTTCCTTTTAAAGCCCACACAAGTTAGTGGCACTTTTC
* ** * * * *
322795 AGTCCTCAAAGAGCAAGA-TGCTTTCTTTTTGCAAATCCCACACAAGTTGGTGGCTCTTTTC
1 AGTCCTCAAAGAGCAGGACACCTTTCCTTTT--AAAGCCCACACAAGTTAGTGGCACTTTTC
* *
322856 TAGTCCTTAAAGAGTAGGAC
1 -AGTCCTCAAAGAGCAGGAC
322876 GCCCTCGTGG
Statistics
Matches: 165, Mismatches: 18, Indels: 20
0.81 0.09 0.10
Matches are distributed among these distances:
55 71 0.43
56 2 0.01
57 1 0.01
59 6 0.04
61 70 0.42
62 15 0.09
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (60 bp):
AGTCCTCAAAGAGCAGGACACCTTTCCTTTTAAAGCCCACACAAGTTAGTGGCACTTTTC
Found at i:322746 original size:155 final size:151
Alignment explanation
Indices: 322464--322751 Score: 393
Period size: 155 Copynumber: 1.9 Consensus size: 151
322454 GTTGGTGGCA
* *
322464 CCTTTAGTCCTCAAAGAGCAGGACGCCTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 CCTTTAGTCCTCAAAGAGCAGGACACCTTCTC----TAAAGCCCACACAAGTTAGTGGCACCTTT
* * *
322529 CAGTCCTCAGAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAA
62 CAGTCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTAGTGGCACTTCCTAATCCTCAA
322594 AGAACAAGACGCTCTCTCCTTTCAC
127 AGAACAAGACGCTCTCTCCTTTCAC
322619 CCTTTAGTCCTCAAAGAGCAGGACACCTT-TC-AAAGCCCACACAAGTTAGTGGCACCTTTCAGT
1 CCTTTAGTCCTCAAAGAGCAGGACACCTTCTCTAAAGCCCACACAAGTTAGTGGCACCTTTCAGT
**
322682 CCTCAAAGAGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTAGTGGCA-TTTTTCAATCCT
66 CCTCAAAGAGCAGG--A----CTCCTTTTAAAGCCCACACAAGTTAGTGGCACTTCCT-AATCCT
322746 CAAAGA
124 CAAAGA
322752 GCAGGATGCC
Statistics
Matches: 119, Mismatches: 7, Indels: 14
0.85 0.05 0.10
Matches are distributed among these distances:
149 44 0.37
151 1 0.01
154 5 0.04
155 69 0.58
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.25
Consensus pattern (151 bp):
CCTTTAGTCCTCAAAGAGCAGGACACCTTCTCTAAAGCCCACACAAGTTAGTGGCACCTTTCAGT
CCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTAGTGGCACTTCCTAATCCTCAAAGAA
CAAGACGCTCTCTCCTTTCAC
Found at i:322801 original size:210 final size:209
Alignment explanation
Indices: 322435--322812 Score: 616
Period size: 210 Copynumber: 1.8 Consensus size: 209
322425 GATGCCTTTG
* * *
322435 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTCTCTTTT
1 CCTTTCAAAGCCCACACAAGTTAGTGGCACCTTTAGTCCTCAAAGAGCAGGACACCTTCTCCTTT
* * * *
322500 TAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAGAGAGCAGGACTCCTTTTAAAGCCCAC
66 TAAAGCCCACACAAGTTAGTGGCACCTTTCAATCCTCAAAGAGCAGGACTCCTTTCAAAGCCCAC
322565 ACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAACAAGACGCTCTCTCCTTTCACCCTTTAGTCCT
131 ACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAACAAGACGCTCTCTCCTTTCACCCTTTAGTCCT
322630 CAAAGAGCAGGACA
196 CAAAGAGCAGGACA
322644 CCTTTCAAAGCCCACACAAGTTAGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTCTCCTT
1 CCTTTCAAAGCCCACACAAGTTAGTGGCACCTTT-AGTCCTCAAAGAGCAGGACACCTTCTCCTT
**
322709 TTAAAGCCCACACAAGTTAGTGGCATTTTTCAATCCTCAAAGAGCAGGA-TGCCTTTCAAAGCCC
65 TTAAAGCCCACACAAGTTAGTGGCACCTTTCAATCCTCAAAGAGCAGGACT-CCTTTCAAAGCCC
* *
322773 ACACAAGTTGGTGGCACTT-TTCAGTCCTCAAAGAGCAAGA
129 ACACAAGTTGGTGGCACTTCCT-AGTCCTCAAAGAACAAGA
322813 TGCTTTCTTT
Statistics
Matches: 155, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
209 35 0.23
210 120 0.77
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (209 bp):
CCTTTCAAAGCCCACACAAGTTAGTGGCACCTTTAGTCCTCAAAGAGCAGGACACCTTCTCCTTT
TAAAGCCCACACAAGTTAGTGGCACCTTTCAATCCTCAAAGAGCAGGACTCCTTTCAAAGCCCAC
ACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAACAAGACGCTCTCTCCTTTCACCCTTTAGTCCT
CAAAGAGCAGGACA
Found at i:322815 original size:55 final size:55
Alignment explanation
Indices: 322624--322869 Score: 240
Period size: 61 Copynumber: 4.2 Consensus size: 55
322614 TTCACCCTTT
* ** *
322624 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTAGTGGCACCTTTC
1 AGTCCTCAAAGAGCAAGATGCCTTTCAAAGCCCACACAAGTTAGTGGCACTTTTC
* * * *
322679 AGTCCTCAAAGAGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTAGTGGCATTTTTC
1 AGTCCTCAAAGAGCA--AGA---T-GCCTTTCAAAGCCCACACAAGTTAGTGGCACTTTTC
* * *
322740 AATCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
1 AGTCCTCAAAGAGCAAGATGCCTTTCAAAGCCCACACAAGTTAGTGGCACTTTTC
* * *
322795 AGTCCTCAAAGAGCAAGATGCTTTCTTTTTGCAAATCCCACACAAGTTGGTGGCTCTTTTC
1 AGTCCTCAAAGAGCAAGATGC---C--TTT-CAAAGCCCACACAAGTTAGTGGCACTTTTC
*
322856 TAGTCCTTAAAGAG
1 -AGTCCTCAAAGAG
322870 TAGGACGCCC
Statistics
Matches: 159, Mismatches: 19, Indels: 19
0.81 0.10 0.10
Matches are distributed among these distances:
55 66 0.42
56 1 0.01
57 1 0.01
58 1 0.01
59 1 0.01
60 3 0.02
61 74 0.47
62 12 0.08
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.26
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAAGATGCCTTTCAAAGCCCACACAAGTTAGTGGCACTTTTC
Found at i:322835 original size:116 final size:117
Alignment explanation
Indices: 322626--322875 Score: 328
Period size: 116 Copynumber: 2.1 Consensus size: 117
322616 CACCCTTTAG
322626 TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTAGTGGCACCTTTCAGTCCTCAAAGA
1 TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTAGTGGCACCTTTCAGTCCTCAAAGA
*
322691 GCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTAGTGGCAT-TTTTC-AA
66 GCAAGACACCTTCTCCTTTTAAAGCCCACACAAGTTAGTGGC-TCTTTTCTAA
** * *
322742 TCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGA
1 TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTAGTGGCACCTTTCAGTCCTCAAAGA
** * * * *
322807 GCAAGA-TGCTT-TCTTTTTGCAAATCCCACACAAGTTGGTGGCTCTTTTCTAG
66 GCAAGACACCTTCTCCTTTT--AAAGCCCACACAAGTTAGTGGCTCTTTTCTAA
* *
322859 TCCTTAAAGAGTAGGAC
1 TCCTCAAAGAGCAGGAC
322876 GCCCTCGTGG
Statistics
Matches: 116, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
114 6 0.05
115 4 0.03
116 91 0.78
117 15 0.13
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.26
Consensus pattern (117 bp):
TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTAGTGGCACCTTTCAGTCCTCAAAGA
GCAAGACACCTTCTCCTTTTAAAGCCCACACAAGTTAGTGGCTCTTTTCTAA
Found at i:323054 original size:62 final size:60
Alignment explanation
Indices: 322882--323268 Score: 442
Period size: 62 Copynumber: 6.3 Consensus size: 60
322872 GGACGCCCTC
* *
322882 GTGGCAC-CTTCAGTCCTTAAAGAGC-GAGACGCCTTCTCCTTTT-AAAGCCCACACAAGTTG
1 GTGGCACTTTTCAGTCCTCAAAGAGCAG-GACG-CTT-TCCTTTTCAAAGCCCACACAAGTTG
* * *
322942 GTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAATCCCACACAAGTTG
1 GTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCTTTCCTTTT-CAAAGCCCACACAAGTTG
* * * *
323003 GTGGCACTTTTCTAGTTCTGAAAGAGTAGGACGCTTTCCTTTTGCAAATCCCACACAAGTTG
1 GTGGCACTTTTC-AGTCCTCAAAGAGCAGGACGCTTTCCTTTT-CAAAGCCCACACAAGTTG
* * * * *
323065 GTGGCACTTTTCTAGTTCTCAAAGAGTAGGACGCCTTCGCCTTTCAAAGCCCAAACAAGTTG
1 GTGGCACTTTTC-AGTCCTCAAAGAGCAGGACGCTTTC-CTTTTCAAAGCCCACACAAGTTG
* *
323127 GTGGCAC-CTTCAATCCTCAAAGAGCAGGACGCCTTCTCCTTTT-AAAGCCCACACAAGTTG
1 GTGGCACTTTTCAGTCCTCAAAGAGCAGGACG-CTT-TCCTTTTCAAAGCCCACACAAGTTG
* * * * *
323187 GTGGCACTTTTCAATCCTCAAAAGAGCAGGATGCTTTCTTTTTTCAAAGACCACACGAGTTG
1 GTGGCACTTTTCAGTCCTC-AAAGAGCAGGACGCTTTC-CTTTTCAAAGCCCACACAAGTTG
323249 GTGGCACTTTTCAGTCCTCA
1 GTGGCACTTTTCAGTCCTCA
323269 CACCTATGCA
Statistics
Matches: 287, Mismatches: 28, Indels: 23
0.85 0.08 0.07
Matches are distributed among these distances:
59 6 0.02
60 52 0.18
61 74 0.26
62 151 0.53
63 4 0.01
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (60 bp):
GTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCTTTCCTTTTCAAAGCCCACACAAGTTG
Found at i:323211 original size:122 final size:120
Alignment explanation
Indices: 322882--323268 Score: 483
Period size: 122 Copynumber: 3.2 Consensus size: 120
322872 GGACGCCCTC
*
322882 GTGGCACCTTCAGTCCTTAAAGAGC-GAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGG
1 GTGGCACCTTCAGTCCTCAAAGAGCAG-GACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGG
*
322946 CACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAATCCCACACAAGTTG
65 CACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTT-CAAAGCCCACACAAGTTG
* * * * *
323003 GTGGCACTTTTCTAGTTCTGAAAGAGTAGGACG-CTT-TCCTTTTGCAAATCCCACACAAGTTGG
1 GTGGCAC-CTTC-AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT--AAAGCCCACACAAGTTGG
* * * * ** *
323066 TGGCACTTTTCTAGTTCTCAAAGAGTAGGACGCCTTCGCCTTTCAAAGCCCAAACAAGTTG
62 TGGCACTTTTC-AGTCCTCAAAGAGCAGGATGCTTTC-TTTTTCAAAGCCCACACAAGTTG
*
323127 GTGGCACCTTCAATCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGC
1 GTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGC
* * *
323192 ACTTTTCAATCCTCAAAAGAGCAGGATGCTTTCTTTTTTCAAAGACCACACGAGTTG
66 ACTTTTCAGTCCTC-AAAGAGCAGGATGCTTTC-TTTTTCAAAGCCCACACAAGTTG
*
323249 GTGGCACTTTTCAGTCCTCA
1 GTGGCAC-CTTCAGTCCTCA
323269 CACCTATGCA
Statistics
Matches: 223, Mismatches: 32, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
121 19 0.09
122 90 0.40
123 59 0.26
124 52 0.23
125 3 0.01
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (120 bp):
GTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGC
ACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTCAAAGCCCACACAAGTTG
Found at i:323250 original size:184 final size:183
Alignment explanation
Indices: 322882--323268 Score: 487
Period size: 184 Copynumber: 2.1 Consensus size: 183
322872 GGACGCCCTC
* * * * * *
322882 GTGGCAC-CTTCAGTCCTTAAAGAG-CGAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTG
1 GTGGCACTTTTCAGTCCTCAAAGAGTAG-GACGCCTTCGCCTTTCAAAGCCCAAACAAGTTGGTG
* * * * *
322945 GCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAATCCCACACAAGTTGGTGGCAC
65 GCACTCTTCAATCCTCAAAGAGCAGGACGCTTTCCTTTT-CAAAGCCCACACAAGTTGGTGGCAC
* * * * **
323010 TTTTCTAGTTCTGAAAGAGTAGGACGCTTTCCTTTTGCAAATCCCACACAAGTTG
129 TTTTCTAATCCTAAAAGAGCAGGACGCTTTCCTTTTGCAAAGACCACACAAGTTG
*
323065 GTGGCACTTTTCTAGTTCTCAAAGAGTAGGACGCCTTCGCCTTTCAAAGCCCAAACAAGTTGGTG
1 GTGGCACTTTTC-AGTCCTCAAAGAGTAGGACGCCTTCGCCTTTCAAAGCCCAAACAAGTTGGTG
323130 GCAC-CTTCAATCCTCAAAGAGCAGGACGCCTTCTCCTTTT-AAAGCCCACACAAGTTGGTGGCA
65 GCACTCTTCAATCCTCAAAGAGCAGGACG-CTT-TCCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
323193 CTTTTC-AATCCTCAAAAGAGCAGGATGCTTTCTTTTTTCAAAGACCACACGAGTTG
128 CTTTTCTAATCCT-AAAAGAGCAGGACGCTTTCCTTTTGCAAAGACCACACAAGTTG
323249 GTGGCACTTTTCAGTCCTCA
1 GTGGCACTTTTCAGTCCTCA
323269 CACCTATGCA
Statistics
Matches: 175, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
183 18 0.10
184 99 0.57
185 51 0.29
186 7 0.04
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (183 bp):
GTGGCACTTTTCAGTCCTCAAAGAGTAGGACGCCTTCGCCTTTCAAAGCCCAAACAAGTTGGTGG
CACTCTTCAATCCTCAAAGAGCAGGACGCTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACTT
TTCTAATCCTAAAAGAGCAGGACGCTTTCCTTTTGCAAAGACCACACAAGTTG
Found at i:323881 original size:19 final size:19
Alignment explanation
Indices: 323857--323920 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
323847 TTTCAATGAT
323857 TTGTATCGATACATTAGTG
1 TTGTATCGATACATTAGTG
323876 TTGTATCGATACA--A---
1 TTGTATCGATACATTAGTG
323890 -TGTATCGATACATTAGTG
1 TTGTATCGATACATTAGTG
323908 TTGTATCGATACA
1 TTGTATCGATACA
323921 ATGTATCGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 12 0.31
15 1 0.03
17 1 0.03
19 25 0.64
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (19 bp):
TTGTATCGATACATTAGTG
Found at i:323895 original size:13 final size:13
Alignment explanation
Indices: 323877--323933 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
323867 ACATTAGTGT
323877 TGTATCGATACAA
1 TGTATCGATACAA
323890 TGTATCGATACATTA
1 TGTATCGATACA--A
323905 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
323922 TGTATCGATACA
1 TGTATCGATACA
323934 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 24 0.63
15 1 0.03
17 1 0.03
19 12 0.32
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:323899 original size:32 final size:32
Alignment explanation
Indices: 323858--323957 Score: 173
Period size: 32 Copynumber: 3.1 Consensus size: 32
323848 TTCAATGATT
323858 TGTATCGATACATTAGTGTTGTATCGATACAA
1 TGTATCGATACATTAGTGTTGTATCGATACAA
323890 TGTATCGATACATTAGTGTTGTATCGATACAA
1 TGTATCGATACATTAGTGTTGTATCGATACAA
* * *
323922 TGTATCGATACATAAGTTTTGTATCGATTCAA
1 TGTATCGATACATTAGTGTTGTATCGATACAA
323954 TGTA
1 TGTA
323958 CTGCTACGAA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 65 1.00
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATTAGTGTTGTATCGATACAA
Found at i:323946 original size:19 final size:18
Alignment explanation
Indices: 323856--323949 Score: 73
Period size: 19 Copynumber: 5.6 Consensus size: 18
323846 ATTTCAATGA
*
323856 TTTGTATCGATACATTAG
1 TTTGTATCGATACATAAG
323874 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
*
323890 --TGTATCGATACATTAG
1 TTTGTATCGATACATAAG
323906 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
323922 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
323938 TTTTGTATCGAT
1 -TTTGTATCGAT
323950 TCAATGTACT
Statistics
Matches: 60, Mismatches: 3, Indels: 25
0.68 0.03 0.28
Matches are distributed among these distances:
13 22 0.37
15 3 0.05
17 2 0.03
18 1 0.02
19 32 0.53
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:324023 original size:13 final size:13
Alignment explanation
Indices: 324005--324029 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
323995 ATTACTCAAA
324005 TGTATCGATACAT
1 TGTATCGATACAT
324018 TGTATCGATACA
1 TGTATCGATACA
324030 CTAATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:324082 original size:52 final size:52
Alignment explanation
Indices: 324038--324166 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
324028 CACTAATCTT
*
324038 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
324090 TGTATCGATTCATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
324142 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
324167 TCATAATTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:325037 original size:21 final size:22
Alignment explanation
Indices: 325004--325044 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
324994 CCATGATAAC
325004 AGCTCATGATTCATGCATTTTG
1 AGCTCATGATTCATGCATTTTG
*
325026 AGCT-ATGTTTCATGCATTT
1 AGCTCATGATTCATGCATTT
325045 ACAGCATGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (22 bp):
AGCTCATGATTCATGCATTTTG
Found at i:330138 original size:21 final size:20
Alignment explanation
Indices: 330112--330164 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
330102 TATAAGCCAA
**
330112 TGTATCGATACAATTTTTTGG
1 TGTATCGATACAA-TACTTGG
330133 TGTATCGATAC-ATACTTGG
1 TGTATCGATACAATACTTGG
330152 TGTATCGATACAA
1 TGTATCGATACAA
330165 GTTTGGTTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 16 0.55
20 2 0.07
21 11 0.38
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (20 bp):
TGTATCGATACAATACTTGG
Found at i:330170 original size:19 final size:18
Alignment explanation
Indices: 330112--330171 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 18
330102 TATAAGCCAA
330112 TGTATCGATACAATTTTTTGG
1 TGTATCGATACAA---TTTGG
*
330133 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
330152 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
330171 T
1 T
330172 TACTGCCAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 1 0.03
19 21 0.60
21 12 0.34
22 1 0.03
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.42
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:344937 original size:14 final size:13
Alignment explanation
Indices: 344917--344952 Score: 63
Period size: 14 Copynumber: 2.7 Consensus size: 13
344907 TGTCCTCCAC
344917 AAAAAAAAAGAAG
1 AAAAAAAAAGAAG
344930 ACAAAAAAAAGAAG
1 A-AAAAAAAAGAAG
344944 AAAAAAAAA
1 AAAAAAAAA
344953 CTAAACAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAGAAG
Found at i:346435 original size:30 final size:30
Alignment explanation
Indices: 346399--346862 Score: 734
Period size: 30 Copynumber: 15.8 Consensus size: 30
346389 TTCCTCACCC
*
346399 TTCAAAAGGCCACAAGTCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
346429 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
* *
346459 TTCAAAAGCCCACAAGTTAGTGGCAACC--
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
346487 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
*
346517 TTCAAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
*
346547 TTCAAAAGCCCACAAGTCAGTGGCAACC--
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
346575 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
346605 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
* *
346635 TTCAAAAGCCCACAAGTTAGTGGCAACC--
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
*
346663 TTCAAAAGCCTACAAGTCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
*
346693 TTCAAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
*
346723 TTCAAAAGCCCACAAGTCAGTGGCAACC--
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
346751 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
346781 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
* *
346811 TTC-AAAGCCCACAAATCAGTGGCAACC--
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
*
346838 TTCAAAAGCCCACAAGTCTGTGGCA
1 TTCAAAAGCCCACAAGTCAGTGGCA
346863 TCTTTTTCCT
Statistics
Matches: 402, Mismatches: 23, Indels: 20
0.90 0.05 0.04
Matches are distributed among these distances:
27 3 0.01
28 124 0.31
29 22 0.05
30 253 0.63
ACGTcount: A:0.32, C:0.31, G:0.17, T:0.19
Consensus pattern (30 bp):
TTCAAAAGCCCACAAGTCAGTGGCACCCTT
Found at i:346548 original size:88 final size:88
Alignment explanation
Indices: 346397--346862 Score: 853
Period size: 88 Copynumber: 5.3 Consensus size: 88
346387 CATTCCTCAC
*
346397 CCTTCAAAAGGCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTC
1 CCTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTC
*
346462 AAAAGCCCACAAGTTAGTGGCAA
66 AAAAGCCCACAAGTCAGTGGCAA
*
346485 CCTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCACTCTTTTC
1 CCTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTC
346550 AAAAGCCCACAAGTCAGTGGCAA
66 AAAAGCCCACAAGTCAGTGGCAA
346573 CCTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTC
1 CCTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTC
*
346638 AAAAGCCCACAAGTTAGTGGCAA
66 AAAAGCCCACAAGTCAGTGGCAA
* *
346661 CCTTCAAAAGCCTACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCACTCTTTTC
1 CCTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTC
346726 AAAAGCCCACAAGTCAGTGGCAA
66 AAAAGCCCACAAGTCAGTGGCAA
346749 CCTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTC
1 CCTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTC
*
346814 -AAAGCCCACAAATCAGTGGCAA
66 AAAAGCCCACAAGTCAGTGGCAA
*
346836 CCTTCAAAAGCCCACAAGTCTGTGGCA
1 CCTTCAAAAGCCCACAAGTCAGTGGCA
346863 TCTTTTTCCT
Statistics
Matches: 366, Mismatches: 12, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
87 47 0.13
88 319 0.87
ACGTcount: A:0.32, C:0.32, G:0.17, T:0.19
Consensus pattern (88 bp):
CCTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTC
AAAAGCCCACAAGTCAGTGGCAA
Found at i:346901 original size:33 final size:33
Alignment explanation
Indices: 346843--346932 Score: 110
Period size: 32 Copynumber: 2.8 Consensus size: 33
346833 CAACCTTCAA
* * *
346843 AAGCCCACAAGTCTGTGGCATCTTTTTCCTTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
* *
346876 AAGCCCACAACTCCGTGGTACC-TTTTCTTTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
* *
346908 AAGTCTACAACTCCGTGGCACCTTT
1 AAGCCCACAACTCCGTGGCACCTTT
346933 AAAACCAATA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
32 28 0.58
33 20 0.42
ACGTcount: A:0.20, C:0.30, G:0.14, T:0.36
Consensus pattern (33 bp):
AAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
Found at i:346989 original size:48 final size:48
Alignment explanation
Indices: 346929--347305 Score: 266
Period size: 52 Copynumber: 7.7 Consensus size: 48
346919 TCCGTGGCAC
* * * *
346929 CTTTAAAACCAATATCTCTGGCCTTGAATCAACATATTGGCACCTTGT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
* *
346977 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C----
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
* * * * *
347020 CTTTAAGTCCAATATCGCTGGACTTGAATCAGTATATTAGCGCCTTCATCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-T--T-AT
* * * * *
347072 CTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTCAC
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-AT
* *
347121 CTTTAA-ATCCAATACCACT-GCCTTGAATCAGCATATTGGCACCTTTAT
1 CTTTAAGA-CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTAT
* * * * * *
347169 CTTGAA-ACCCAATGTCGCTGGCCTTGAATCAGCACATTGACATTGTTCTCAT
1 CTTTAAGA-CCAATATCGCTGGCCTTGAATCAGCATATTGGCA----CCTTAT
** * *
347221 CTTTAATTCCAATATCGCTGGCCTTCAATCAGCATATTGGCGCCTTCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-AT
* * *
347270 CATTTTTAAAACCCAATGTCGTTGGCCTTGAATCAG
1 C---TTTAAGA-CCAATATCGCTGGCCTTGAATCAG
347306 TGCATTGGCA
Statistics
Matches: 259, Mismatches: 48, Indels: 39
0.75 0.14 0.11
Matches are distributed among these distances:
43 35 0.14
44 1 0.00
47 1 0.00
48 77 0.30
49 43 0.17
51 1 0.00
52 79 0.31
53 22 0.08
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (48 bp):
CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
Found at i:347038 original size:43 final size:44
Alignment explanation
Indices: 346926--347167 Score: 150
Period size: 48 Copynumber: 5.2 Consensus size: 44
346916 AACTCCGTGG
** * * *
346926 CACCTTTAAAACCAATATCTCTGGCCTTGAATCAACATATTGG-
1 CACCTTTAAGTCCAATATCACTGGCCTTGAATCAGCACATTGGC
* * *
346969 CACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG-
1 CA-C----CTTTAAGTCCAATATCACTGGCCTTGAATCAGCACATTGGC
* * * *
347017 CACCTTTAAGTCCAATATCGCTGGACTTGAATCAGTATATTAGCGCC
1 CACCTTTAAGTCCAATATCACTGGCCTTGAATCAGCACATT-G-G-C
*
347064 TTCATCATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACC
1 --CA-C--CTTTAAGTCCAATATCACTGGCCTTGAATCAGCACATTGG---C
* * *
347116 TTCACCTTTAAATCCAATACCACT-GCCTTGAATCAGCATATTGG-
1 --CACCTTTAAGTCCAATATCACTGGCCTTGAATCAGCACATTGGC
347160 CACCTTTA
1 CACCTTTA
347168 TCTTGAAACC
Statistics
Matches: 164, Mismatches: 19, Indels: 33
0.76 0.09 0.15
Matches are distributed among these distances:
42 8 0.05
43 35 0.21
44 2 0.01
45 1 0.01
47 1 0.01
48 56 0.34
49 18 0.11
50 2 0.01
51 2 0.01
52 39 0.24
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (44 bp):
CACCTTTAAGTCCAATATCACTGGCCTTGAATCAGCACATTGGC
Found at i:347098 original size:52 final size:52
Alignment explanation
Indices: 347020--347305 Score: 273
Period size: 52 Copynumber: 5.6 Consensus size: 52
347010 ACATTGGCAC
* * * * *
347020 CTTTAAGTCCAATATCGCTGGACTTGAATCAGTATATTAGCGCCTTCATCAT
1 CTTTAAATCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCAT
* * * *
347072 CTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTCA-C--
1 CTTTAAATCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCAT
* *
347121 CTTTAAATCCAATACCACT-GCCTTGAATCAGCATATTGGCACCTT--T-AT
1 CTTTAAATCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCAT
* * * * * **
347169 CTTGAAACCCAATGTCGCTGGCCTTGAATCAGCACATTGACATTGTTC-TCAT
1 CTTTAAATCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTTCATCAT
* * *
347221 CTTTAATTCCAATATCGCTGGCCTTCAATCAGCATATTGGCGCCTTCATCAT
1 CTTTAAATCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCAT
* * * *
347273 TTTTAAAACCCAATGTCGTTGGCCTTGAATCAG
1 CTTT-AAATCCAATATCGCTGGCCTTGAATCAG
347306 TGCATTGGCA
Statistics
Matches: 189, Mismatches: 36, Indels: 17
0.78 0.15 0.07
Matches are distributed among these distances:
48 39 0.21
49 36 0.19
50 2 0.01
51 5 0.03
52 84 0.44
53 23 0.12
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.33
Consensus pattern (52 bp):
CTTTAAATCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCAT
Found at i:348123 original size:32 final size:32
Alignment explanation
Indices: 348087--348154 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
348077 ACATTAGTGT
*
348087 TGTATCGATACATAAATATTGTATCAATACAA
1 TGTATCAATACATAAATATTGTATCAATACAA
* * *
348119 TGTATCAATACATAAGTTTTGTATCGATACAA
1 TGTATCAATACATAAATATTGTATCAATACAA
348151 TGTA
1 TGTA
348155 CTGCTACGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (32 bp):
TGTATCAATACATAAATATTGTATCAATACAA
Found at i:348124 original size:13 final size:13
Alignment explanation
Indices: 348106--348130 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
348096 ACATAAATAT
348106 TGTATCAATACAA
1 TGTATCAATACAA
348119 TGTATCAATACA
1 TGTATCAATACA
348131 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (13 bp):
TGTATCAATACAA
Found at i:348143 original size:19 final size:19
Alignment explanation
Indices: 348066--348149 Score: 72
Period size: 19 Copynumber: 4.7 Consensus size: 19
348056 ATTTCAACGA
*
348066 TTTGTATCGATACATTAGT
1 TTTGTATCGATACATAAGT
* *
348085 GTTGTATCGATACATAAAT
1 TTTGTATCGATACATAAGT
* *
348104 ATTGTATCAATAC--AA--
1 TTTGTATCGATACATAAGT
*
348119 --TGTATCAATACATAAGT
1 TTTGTATCGATACATAAGT
348136 TTTGTATCGATACA
1 TTTGTATCGATACA
348150 ATGTACTGCT
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
13 11 0.21
15 2 0.04
17 2 0.04
19 38 0.72
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:348220 original size:13 final size:13
Alignment explanation
Indices: 348202--348226 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
348192 ATTACTCAAA
348202 TGTATCGATACAT
1 TGTATCGATACAT
348215 TGTATCGATACA
1 TGTATCGATACA
348227 CTTATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:348224 original size:34 final size:33
Alignment explanation
Indices: 348181--348247 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 33
348171 GCCAAGAAAA
348181 TGTATCGATACA-TTACTCAAATGTATCGATACAT
1 TGTATCGATACACTTA-TC-AATGTATCGATACAT
**
348215 TGTATCGATACACTTATCTTTGTATCGATACAT
1 TGTATCGATACACTTATCAATGTATCGATACAT
348248 GCAGGCAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
33 13 0.43
34 14 0.47
35 3 0.10
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (33 bp):
TGTATCGATACACTTATCAATGTATCGATACAT
Found at i:349710 original size:310 final size:310
Alignment explanation
Indices: 349148--350387 Score: 2399
Period size: 310 Copynumber: 4.0 Consensus size: 310
349138 CCACGATAAT
*
349148 AACCCATGATTCATGCATTTTGAGCTATGTTTCATGCATTTACAGCATGTCCAGCACCTTCATGG
1 AACCCATGATTCATGCATTTTGAGCTATGTTTCATGCATTTACAACATGTCCAGCACCTTCATGG
*
349213 GTGTTATTCATACTCTTCTTGCATAAGCATCCCATTTTTCTTGTCAAAAATGCATGTTTATTGCC
66 GTGTTATTCATACTCTTCTTGCATAAGCATCCCATTTTTCTTGTAAAAAATGCATGTTTATTGCC
349278 TTAAAACAGATTTTCAAACACCCCCCAAGTTAAGTTCAAGCTAGCCTCAATCAATGAGGATTAGC
131 TTAAAACAGATTTTCAAACACCCCCCAAGTTAAGTTCAAGCTAGCCTCAATCAATGAGGATTAGC
349343 TTGGATTTAAGCTTTTTATCAAATTGACACTTCAATCTTGGGGTAAATTTAGTTTTTCAGGTTTG
196 TTGGATTTAAGCTTTTTATCAAATTGACACTTCAATCTTGGGGTAAATTTAGTTTTTCAGGTTTG
349408 GAATCATGATTAAATCAAGTCCAAAACTCTAATTTTTGAACCAAAATGGC
261 GAATCATGATTAAATCAAGTCCAAAACTCTAATTTTTGAACCAAAATGGC
349458 AACCCATGATTCATGCATTTTGAGCTATGTTTCATGCATTTACAACATGTCCAGCACCTTCATGG
1 AACCCATGATTCATGCATTTTGAGCTATGTTTCATGCATTTACAACATGTCCAGCACCTTCATGG
349523 GTGTTATTCATACTCTTCTTGCATAAGCATCCCATTTTTCTTGTAAAAAATGCATGTTTATTGCC
66 GTGTTATTCATACTCTTCTTGCATAAGCATCCCATTTTTCTTGTAAAAAATGCATGTTTATTGCC
* *
349588 TTAAAACATATTTTCAAACACCCCCCAAGTTAAGTTCAAGCTGGCCTCAATCAATGAGGATTAGC
131 TTAAAACAGATTTTCAAACACCCCCCAAGTTAAGTTCAAGCTAGCCTCAATCAATGAGGATTAGC
349653 TTGGATTTAAGCTTTTTATCAAATTGACACTTCAATCTTGGGGTAAATTTAGTTTTTCAGGTTTG
196 TTGGATTTAAGCTTTTTATCAAATTGACACTTCAATCTTGGGGTAAATTTAGTTTTTCAGGTTTG
*
349718 GAATCTTGATTAAATCAAGTCCAAAACTCTAATTTTTGAACCAAAATGGC
261 GAATCATGATTAAATCAAGTCCAAAACTCTAATTTTTGAACCAAAATGGC
349768 AACCCATGATTCATGCATTTTGAGCTATGTTTCATGCATTTACAACATGTCCAGCACCTTCATGG
1 AACCCATGATTCATGCATTTTGAGCTATGTTTCATGCATTTACAACATGTCCAGCACCTTCATGG
349833 GTGTTATTCATACTCTTCTTGCATAAGCATCCCATTTTTCTTGTAAAAAATGCATGTTTATTGCC
66 GTGTTATTCATACTCTTCTTGCATAAGCATCCCATTTTTCTTGTAAAAAATGCATGTTTATTGCC
349898 TTAAAACAGATTTTCAAACACCCCCCAAGTTAAGTTCAAGCTAGCCTCAATCAATGAGGATTAGC
131 TTAAAACAGATTTTCAAACACCCCCCAAGTTAAGTTCAAGCTAGCCTCAATCAATGAGGATTAGC
349963 TTGGATTTAAGCTTTTTATCAAATTGACACTTCAATCTTGGGGTAAATTTAGTTTTTCAGGTTTG
196 TTGGATTTAAGCTTTTTATCAAATTGACACTTCAATCTTGGGGTAAATTTAGTTTTTCAGGTTTG
*
350028 GAATCTTGATTAAATCAAGTCCAAAACTCTAATTTTTGAACCAAAATGGC
261 GAATCATGATTAAATCAAGTCCAAAACTCTAATTTTTGAACCAAAATGGC
*
350078 AACCCATGATTCATGCATTTTGAGCTATGTTTCATGCATTTACAGCATGTCCAGCACCTTCATGG
1 AACCCATGATTCATGCATTTTGAGCTATGTTTCATGCATTTACAACATGTCCAGCACCTTCATGG
*
350143 GTGTTATTCATACTCTTCTTGCATAAGCATCCCATTTTTCTTGTCAAAAATGCATGTTTATTGCC
66 GTGTTATTCATACTCTTCTTGCATAAGCATCCCATTTTTCTTGTAAAAAATGCATGTTTATTGCC
350208 TTAAAACAGATTTTCAAACACCCCCCAAGTTAAGTTCAAGCTAGCCTCAATCAATGAGGATTAGC
131 TTAAAACAGATTTTCAAACACCCCCCAAGTTAAGTTCAAGCTAGCCTCAATCAATGAGGATTAGC
*
350273 TTGGATTTAAGCTTTTTATCAAATTGACACTTCAATCTTAGGGTAAATTTAGTTTTTCAGGTTTG
196 TTGGATTTAAGCTTTTTATCAAATTGACACTTCAATCTTGGGGTAAATTTAGTTTTTCAGGTTTG
350338 GAATCATGATTAAATCAAGTCCAAAACTCTAATTTTTGAACCAAAATGGC
261 GAATCATGATTAAATCAAGTCCAAAACTCTAATTTTTGAACCAAAATGGC
350388 CTTCCATCAT
Statistics
Matches: 919, Mismatches: 11, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
310 919 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.36
Consensus pattern (310 bp):
AACCCATGATTCATGCATTTTGAGCTATGTTTCATGCATTTACAACATGTCCAGCACCTTCATGG
GTGTTATTCATACTCTTCTTGCATAAGCATCCCATTTTTCTTGTAAAAAATGCATGTTTATTGCC
TTAAAACAGATTTTCAAACACCCCCCAAGTTAAGTTCAAGCTAGCCTCAATCAATGAGGATTAGC
TTGGATTTAAGCTTTTTATCAAATTGACACTTCAATCTTGGGGTAAATTTAGTTTTTCAGGTTTG
GAATCATGATTAAATCAAGTCCAAAACTCTAATTTTTGAACCAAAATGGC
Found at i:352355 original size:51 final size:51
Alignment explanation
Indices: 352277--352560 Score: 336
Period size: 51 Copynumber: 5.6 Consensus size: 51
352267 AAATAGCGGG
* *
352277 GTTGGAGTATCCCCAATTATGAGAAATTGGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
* * * ** * *
352328 GTTGGAGTATTCCCTATTGTGAAAAATTGGCATTTTAGAAATAAAATCGAA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
* * *
352379 GTTGGAGTATCCCCGATTAT-AGAAAATTGGTGTTTTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTATGA-AAAATTGGTGTTTTGGAAATAAAATCGGA
* * * * *
352430 GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTCGAAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
* ** * * *
352481 GTTGGAGTATCCCCGATTGTGAAAAATTAATGTTTTAGAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
*
352532 GTTGGAGTACCCCCGATTATGAAAAATTG
1 GTTGGAGTATCCCCGATTATGAAAAATTG
352561 AGAAACTTAA
Statistics
Matches: 195, Mismatches: 36, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
50 1 0.01
51 194 0.99
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
Found at i:352560 original size:153 final size:153
Alignment explanation
Indices: 352273--352556 Score: 410
Period size: 153 Copynumber: 1.9 Consensus size: 153
352263 ACGAAAATAG
* * *
352273 CGGGGTTGGAGTATCCCCAATTATGAGAAATTGGTGTTTTGGAAATAAAATCGGAGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAGAAATTGGTGTTTCGAAAATAAAATCAGAGTTGGAGTAT
* * ** * *
352338 TCCCTATTGTGAAAAATTGGCATTTTAGAAATAAAATCGAAGTTGGAGTATCCCCGATTATAGAA
66 CCCCGATTGTGAAAAATTAACATTTTAGAAATAAAACCGAAGTTGGAGTACCCCCGATTATAGAA
352403 AATTGGTGTTTTGAAAATAAAAC
131 AATTGGTGTTTTGAAAATAAAAC
* *
352426 CGGGGTTGGAGTATCCCCGATTGTG-GAAAATTGGTGTTTCGAAAATAAAATCAGAGTTGGAGTA
1 CGGGGTTGGAGTATCCCCAATTATGAG-AAATTGGTGTTTCGAAAATAAAATCAGAGTTGGAGTA
** **
352490 TCCCCGATTGTGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTACCCCCGATTAT-GA
65 TCCCCGATTGTGAAAAATTAACATTTTAGAAATAAAACCGAAGTTGGAGTACCCCCGATTATAGA
352554 AAA
130 AAA
352557 ATTGAGAAAC
Statistics
Matches: 115, Mismatches: 15, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
152 6 0.05
153 109 0.95
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.30
Consensus pattern (153 bp):
CGGGGTTGGAGTATCCCCAATTATGAGAAATTGGTGTTTCGAAAATAAAATCAGAGTTGGAGTAT
CCCCGATTGTGAAAAATTAACATTTTAGAAATAAAACCGAAGTTGGAGTACCCCCGATTATAGAA
AATTGGTGTTTTGAAAATAAAAC
Found at i:354866 original size:13 final size:13
Alignment explanation
Indices: 354850--354880 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
354840 ATACAATGAG
*
354850 CAATTTATCGATA
1 CAATGTATCGATA
354863 CAATGTATCGATA
1 CAATGTATCGATA
354876 CAATG
1 CAATG
354881 CAAAATGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:354877 original size:33 final size:33
Alignment explanation
Indices: 354831--354897 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
354821 TACATTGTAA
* *
354831 AATGTATCAATACAATG-AGCAATTTATCGATAC
1 AATGTATCAATACAATGCA-AAATGTATCGATAC
*
354864 AATGTATCGATACAATGCAAAATGTATCGATAC
1 AATGTATCAATACAATGCAAAATGTATCGATAC
354897 A
1 A
354898 TCTGGGTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.28
Consensus pattern (33 bp):
AATGTATCAATACAATGCAAAATGTATCGATAC
Found at i:354952 original size:13 final size:13
Alignment explanation
Indices: 354934--354961 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
354924 ATACAAAGAT
354934 CAATGTATCGATA
1 CAATGTATCGATA
354947 CAATGTATCGATA
1 CAATGTATCGATA
354960 CA
1 CA
354962 TTGAATAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:354954 original size:33 final size:33
Alignment explanation
Indices: 354916--354981 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
354906 AACTTCCTAG
*
354916 ATGTATTGATACAAAG-ATCAATGTATCGATACA
1 ATGTATCGATACAAAGAAT-AATGTATCGATACA
**
354949 ATGTATCGATACATTGAATAATGTATCGATACA
1 ATGTATCGATACAAAGAATAATGTATCGATACA
354982 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACAAAGAATAATGTATCGATACA
Found at i:356063 original size:20 final size:20
Alignment explanation
Indices: 356038--356091 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
356028 GTTACAAGAA
* *
356038 ATGTATCAATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
356058 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
356078 ATGTATCGATACAA
1 ATGTATCGATACAA
356092 ACAGTGGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:357948 original size:36 final size:36
Alignment explanation
Indices: 357896--357970 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
357886 CGTTGCTGAG
*
357896 TATCAGCAATAGGGCAAAGGCAAATAGACACCATTT
1 TATCAGCAATAAGGCAAAGGCAAATAGACACCATTT
357932 TATCAGCAATAAGGCAAAGGCAAATAGACACCATTT
1 TATCAGCAATAAGGCAAAGGCAAATAGACACCATTT
357968 TAT
1 TAT
357971 TCAGGGTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (36 bp):
TATCAGCAATAAGGCAAAGGCAAATAGACACCATTT
Found at i:358109 original size:44 final size:44
Alignment explanation
Indices: 358044--358141 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 44
358034 TAGTATGCAG
*
358044 ATTTAAGGCCTAGACTTAAAGATAAGAAGGGTGCCAATGTGCTA
1 ATTTAAGGCCTAGACTTAAAGATAAGAAGAGTGCCAATGTGCTA
* * *
358088 ATTTAAGG-CTAG-CTATAAAAGATGAGAAGAGTGCCAATGTACTG
1 ATTTAAGGCCTAGACT-T-AAAGATAAGAAGAGTGCCAATGTGCTA
*
358132 ATTCAAGGCC
1 ATTTAAGGCC
358142 AGTGATATTG
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
42 2 0.04
43 5 0.11
44 38 0.83
45 1 0.02
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (44 bp):
ATTTAAGGCCTAGACTTAAAGATAAGAAGAGTGCCAATGTGCTA
Found at i:358466 original size:28 final size:28
Alignment explanation
Indices: 358372--358816 Score: 380
Period size: 28 Copynumber: 15.6 Consensus size: 28
358362 TAAAAATAAG
*
358372 TGCCACCTGACTTGTGTAGGC-TTGAAAAAGGT
1 TGCCA-CTGACTTGTG--GGCTTTG--AAAGGA
* * *
358404 TGCCACCGACTTGTATGGACTTTGAAAAGAGG
1 TGCCACTGACTTG--TGGGCTTTG-AAAG-GA
* *
358436 TGCCACTGACTTGTGGGCTTTGGAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* ** *
358464 TGCCACCGACTTGTGGGCTTAAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
*
358492 TGCCACTTG-CTTGTGTGCTTTAGAAAGG-
1 TGCCAC-TGACTTGTGGGCTTT-GAAAGGA
* * ** *
358520 TTCCACTGAATTGTGGGCTTAAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
358548 TGCCACTGACTTATGGACTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* **
358576 TGCCACTGACCTGTGGGCTTTGAAAAAA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* **
358604 TGCCACTGACTTGTGGACTTTGAAAAAA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * *
358632 AGCCACTGACCTATGAGCTTTG-AAGAGA
1 TGCCACTGACTTGTGGGCTTTGAAAG-GA
358660 TGCCACTGACTTGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
358688 TGCCACTGACCTATGGGCTTCG-AAGAGA
1 TGCCACTGACTTGTGGGCTTTGAAAG-GA
* *
358716 TGCTACTAACTTGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
*
358744 TGCTACTGACTTGTGGGCTTTG-AAGAGA
1 TGCCACTGACTTGTGGGCTTTGAAAG-GA
* **
358772 TGCCACTGACTTGTGGGCTTTAAAAAAA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
*
358800 TGCCACTAACTTGTGGG
1 TGCCACTGACTTGTGGG
358817 TTTTCAAGAG
Statistics
Matches: 341, Mismatches: 58, Indels: 32
0.79 0.13 0.07
Matches are distributed among these distances:
27 15 0.04
28 264 0.77
29 17 0.05
30 8 0.02
31 14 0.04
32 21 0.06
33 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (28 bp):
TGCCACTGACTTGTGGGCTTTGAAAGGA
Found at i:368891 original size:89 final size:88
Alignment explanation
Indices: 368767--369021 Score: 345
Period size: 89 Copynumber: 2.9 Consensus size: 88
368757 TTATCCAGCA
* *
368767 ACTAAATGGTATTGATGCATCAGGAAGCTTA-ATTTCCTTAGGGCAAGGTGCAGCCCATACATTC
1 ACTAAATGGTATTGATGCATCACGAAGC-TAGATTTCCTTTGGGCAAGGTG-AGCCCATACATTC
368831 CCAATCATATCCCCTTCACCCAACC
64 CCAATCATATCCCCTTCACCCAACC
*
368856 ACTAAATGGTATTGATGCATCACGAAGCCAGATTT-CTTTGGGCCAAGGTGTAGCCCATACATTC
1 ACTAAATGGTATTGATGCATCACGAAGCTAGATTTCCTTTGGG-CAAGGTG-AGCCCATACATTC
* * *
368920 CCAATTAGATCCCCTTCACTCAACC
64 CCAATCATATCCCCTTCACCCAACC
* *
368945 ACTAAATGGTATTGATGCATCACGAAGCTTGATTTTCCTTTGGGCAAAGGT-AGCCCACACATTC
1 ACTAAATGGTATTGATGCATCACGAAGCTAGA-TTTCCTTTGGGC-AAGGTGAGCCCATACATTC
**
369009 TTAATCATATCCC
64 CCAATCATATCCC
369022 TTTTATCCAA
Statistics
Matches: 147, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
88 7 0.05
89 124 0.84
90 4 0.03
91 12 0.08
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (88 bp):
ACTAAATGGTATTGATGCATCACGAAGCTAGATTTCCTTTGGGCAAGGTGAGCCCATACATTCCC
AATCATATCCCCTTCACCCAACC
Found at i:371359 original size:20 final size:21
Alignment explanation
Indices: 371334--371384 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
371324 ATTAATACAT
**
371334 TGTATCGATACATGACCA-AA
1 TGTATCGATACATGAAAAGAA
*
371354 TGTATCGATACTTGAAAAGAA
1 TGTATCGATACATGAAAAGAA
371375 TGTATCGATA
1 TGTATCGATA
371385 TAGGTCATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (21 bp):
TGTATCGATACATGAAAAGAA
Found at i:371465 original size:13 final size:13
Alignment explanation
Indices: 371447--371472 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
371437 ACACCCAATA
371447 TGTATCGATACAT
1 TGTATCGATACAT
371460 TGTATCGATACAT
1 TGTATCGATACAT
371473 CCCAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:371468 original size:32 final size:33
Alignment explanation
Indices: 371427--371494 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
371417 CCTTAACTGT
*
371427 TTGTATCGATACA-CCCAATATGTATCGATACA
1 TTGTATCGATACATCCCAAAATGTATCGATACA
371459 TTGTATCGATACATCCCAAAATGTATCGATACA
1 TTGTATCGATACATCCCAAAATGTATCGATACA
371492 TTG
1 TTG
371495 GCTTGTAACG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 13 0.38
33 21 0.62
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACATCCCAAAATGTATCGATACA
Found at i:377383 original size:8 final size:8
Alignment explanation
Indices: 377370--377395 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
377360 TTTTTATTAA
377370 ATTTTGTG
1 ATTTTGTG
377378 ATTTTGTG
1 ATTTTGTG
377386 ATTTTGTG
1 ATTTTGTG
377394 AT
1 AT
377396 GAATGATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:377620 original size:13 final size:13
Alignment explanation
Indices: 377598--377635 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
377588 CAGCATTCTC
* *
377598 TGTATTGATACAT
1 TGTATCGATACAG
377611 TGTATCGATACAG
1 TGTATCGATACAG
377624 TGTATCGATACA
1 TGTATCGATACA
377636 AAGGGTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:378114 original size:21 final size:21
Alignment explanation
Indices: 378070--378111 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
378060 CCCCTAGGCA
* *
378070 GCACCCACCAGGTCGCGATCG
1 GCACCCACCAGGTCGCAACCG
378091 GCACCC-CCAGGTCGCAACCG
1 GCACCCACCAGGTCGCAACCG
378111 G
1 G
378112 GCAGCTCCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.19, C:0.45, G:0.29, T:0.07
Consensus pattern (21 bp):
GCACCCACCAGGTCGCAACCG
Found at i:380160 original size:13 final size:13
Alignment explanation
Indices: 380142--380167 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
380132 ACACCTAATA
380142 TGTATCGATACAT
1 TGTATCGATACAT
380155 TGTATCGATACAT
1 TGTATCGATACAT
380168 CCCAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:380183 original size:33 final size:32
Alignment explanation
Indices: 380122--380189 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
380112 CCTTAACTGT
* *
380122 TTGTATCGATACACCTAATATGTATCGATACA
1 TTGTATCGATACACCCAAAATGTATCGATACA
380154 TTGTATCGATACATCCCAAAATGTATCGATACA
1 TTGTATCGATACA-CCCAAAATGTATCGATACA
380187 TTG
1 TTG
380190 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACACCCAAAATGTATCGATACA
Found at i:381906 original size:11 final size:11
Alignment explanation
Indices: 381890--381956 Score: 57
Period size: 11 Copynumber: 6.3 Consensus size: 11
381880 AGGTTCAACT
381890 AAAAAAAAGAA
1 AAAAAAAAGAA
381901 AAAAAAAA-AA
1 AAAAAAAAGAA
*
381911 AAAAAAGAGAA
1 AAAAAAAAGAA
* * *
381922 AGAAAAGAGAG
1 AAAAAAAAGAA
* *
381933 AAGAAACAG-A
1 AAAAAAAAGAA
*
381943 AACAAAAAGAA
1 AAAAAAAAGAA
381954 AAA
1 AAA
381957 TAAGGCTAGC
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
10 16 0.36
11 28 0.64
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:382061 original size:2 final size:2
Alignment explanation
Indices: 382054--382078 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
382044 TCATATCAGC
382054 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 T
382079 GTTTTCAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:383852 original size:97 final size:96
Alignment explanation
Indices: 383646--383961 Score: 454
Period size: 97 Copynumber: 3.3 Consensus size: 96
383636 AATTATATTT
* * *
383646 ATCGGGGATACTCTAACCCTATTCCTCCGAGGGGATACTCCAACTCCGCTTTT-AACACATCAAA
1 ATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAAC-CCGCTTTTAAACACATCAAA
*
383710 GTTTAAATATTATTCTTACTTAAATTGTCATC
65 GTTTAAATCTTATTCTTACTTAAATTGTCATC
* *
383742 ATCGGGGATACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCTACTTTTAAACACATCAAA
1 ATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCC-GCTTTTAAACACATCAAA
*
383807 GTGTAAATCTTATTCTTACTTAAATTGTCATC
65 GTTTAAATCTTATTCTTACTTAAATTGTCATC
* * * * *
383839 ATCAGGGACACTCCAACTCCATTCCTCCGAAGGGATACTTCAACCCCGCTTTTAAATACATCAAA
1 ATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAA-CCCGCTTTTAAACACATCAAA
* * * *
383904 GTTTAAATCTTAGTCTCATTTAAATTATCATC
65 GTTTAAATCTTATTCTTACTTAAATTGTCATC
383936 ATCGGGGACACTCCAACCCCATTCCT
1 ATCGGGGACACTCCAACCCCATTCCT
383962 TCAAAGTTTA
Statistics
Matches: 198, Mismatches: 19, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
95 2 0.01
96 47 0.24
97 146 0.74
98 3 0.02
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (96 bp):
ATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCGCTTTTAAACACATCAAAG
TTTAAATCTTATTCTTACTTAAATTGTCATC
Found at i:383979 original size:160 final size:160
Alignment explanation
Indices: 383802--384123 Score: 484
Period size: 160 Copynumber: 2.0 Consensus size: 160
383792 TTTAAACACA
*
383802 TCAAAGTGTAAATCTTATTCTTACTTAAATTGTCATCATCAGGGACACTCCAA-CTCCATTCCTC
1 TCAAAGTGTAAATCTTATTCTCACTTAAATTGTCATCATCAGGGACACTCCAACCT-CATTCCTC
* * * *
383866 CGAAGGGATACTTCAACCCCGCTTTTAAATACATCAAAGTTTAAATCTTAGTCTCATTTAAATTA
65 CGAAGGGATACTCCAACCCCGCTTTTAAACACATCAAAGTTTAAATCTTAGTCTCACTCAAATTA
**
383931 TCATCATCGGGGACACTCCAACCCCATTCCT
130 TCATCATAAGGGACACTCCAACCCCATTCCT
* * * *
383962 TCAAAGTTTAAATCTTATTCTCACTTAAATTGTCATCATCGGGGACATTCCAACCTCATTCCTTC
1 TCAAAGTGTAAATCTTATTCTCACTTAAATTGTCATCATCAGGGACACTCCAACCTCATTCCTCC
* * * *
384027 GAGGGGATACTCCAACCCCGCTTTTAAACACATCAAAGTTTAATTCTTATTCTCACTCAAATTGT
66 GAAGGGATACTCCAACCCCGCTTTTAAACACATCAAAGTTTAAATCTTAGTCTCACTCAAATTAT
*
384092 CATCATAAGGGACACTCCAACCCGATTCCT
131 CATCATAAGGGACACTCCAACCCCATTCCT
384122 TC
1 TC
384124 GAGGGGATAC
Statistics
Matches: 145, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
160 143 0.99
161 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (160 bp):
TCAAAGTGTAAATCTTATTCTCACTTAAATTGTCATCATCAGGGACACTCCAACCTCATTCCTCC
GAAGGGATACTCCAACCCCGCTTTTAAACACATCAAAGTTTAAATCTTAGTCTCACTCAAATTAT
CATCATAAGGGACACTCCAACCCCATTCCT
Found at i:383998 original size:63 final size:63
Alignment explanation
Indices: 383899--384026 Score: 211
Period size: 63 Copynumber: 2.0 Consensus size: 63
383889 TTTAAATACA
*
383899 TCAAAGTTTAAATCTTAGTCTCATTTAAATTATCATCATCGGGGACACTCCAACCCCATTCCT
1 TCAAAGTTTAAATCTTAGTCTCACTTAAATTATCATCATCGGGGACACTCCAACCCCATTCCT
* * * *
383962 TCAAAGTTTAAATCTTATTCTCACTTAAATTGTCATCATCGGGGACATTCCAACCTCATTCCT
1 TCAAAGTTTAAATCTTAGTCTCACTTAAATTATCATCATCGGGGACACTCCAACCCCATTCCT
384025 TC
1 TC
384027 GAGGGGATAC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.35
Consensus pattern (63 bp):
TCAAAGTTTAAATCTTAGTCTCACTTAAATTATCATCATCGGGGACACTCCAACCCCATTCCT
Found at i:384075 original size:97 final size:97
Alignment explanation
Indices: 383962--384148 Score: 304
Period size: 97 Copynumber: 1.9 Consensus size: 97
383952 CCCCATTCCT
* ** *
383962 TCAAAGTTTAAATCTTATTCTCACTTAAATTGTCATCATCGGGGACATTCCAACCTC-ATTCCTT
1 TCAAAGTTTAAATCTTATTCTCACTCAAATTGTCATCATAAGGGACACTCCAACC-CGATTCCTT
384026 CGAGGGGATACTCCAACCCCGCTTTTAAACACA
65 CGAGGGGATACTCCAACCCCGCTTTTAAACACA
*
384059 TCAAAGTTTAATTCTTATTCTCACTCAAATTGTCATCATAAGGGACACTCCAACCCGATTCCTTC
1 TCAAAGTTTAAATCTTATTCTCACTCAAATTGTCATCATAAGGGACACTCCAACCCGATTCCTTC
*
384124 GAGGGGATACTCCAACCCCGTTTTT
66 GAGGGGATACTCCAACCCCGCTTTT
384149 CAATCAAAAA
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
96 1 0.01
97 82 0.99
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.32
Consensus pattern (97 bp):
TCAAAGTTTAAATCTTATTCTCACTCAAATTGTCATCATAAGGGACACTCCAACCCGATTCCTTC
GAGGGGATACTCCAACCCCGCTTTTAAACACA
Found at i:388131 original size:13 final size:13
Alignment explanation
Indices: 388113--388138 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
388103 CAATTTTTTG
388113 TGTATCGATACAT
1 TGTATCGATACAT
388126 TGTATCGATACAT
1 TGTATCGATACAT
388139 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:388878 original size:21 final size:21
Alignment explanation
Indices: 388837--388880 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
388827 CTCTCCTTTA
* *
388837 TCTCCCCCATTTATTAATAAT
1 TCTCCCCCATTAATCAATAAT
388858 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCATTAATCAA-TAAT
388879 TC
1 TC
388881 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.27, C:0.32, G:0.02, T:0.39
Consensus pattern (21 bp):
TCTCCCCCATTAATCAATAAT
Found at i:389821 original size:13 final size:13
Alignment explanation
Indices: 389803--389841 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
389793 ATAATCACCC
*
389803 TGTATCGATACAG
1 TGTATCGATACAA
389816 TGTATCGATACAA
1 TGTATCGATACAA
389829 TGTATCGATACAA
1 TGTATCGATACAA
389842 AGAAAAATGT
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:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:389852 original size:20 final size:20
Alignment explanation
Indices: 389827--389905 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
389817 GTATCGATAC
389827 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
389847 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
389872 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
389892 CATGTATCGATACA
1 AATGTATCGATACA
389906 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:391944 original size:15 final size:15
Alignment explanation
Indices: 391924--391954 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
391914 ATTTCGTTTG
*
391924 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
391939 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
391954 G
1 G
391955 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:393788 original size:21 final size:21
Alignment explanation
Indices: 393759--393803 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
393749 AAGTTTTCAT
*
393759 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
393779 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
393801 TTT
1 TTT
393804 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:395955 original size:15 final size:16
Alignment explanation
Indices: 395935--395964 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
395925 CGTGTAAATG
395935 TATCGATACA-ATTTT
1 TATCGATACATATTTT
395950 TATCGATACATATTT
1 TATCGATACATATTT
395965 GAAAATATAG
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:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (16 bp):
TATCGATACATATTTT
Found at i:396036 original size:13 final size:13
Alignment explanation
Indices: 396018--396043 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
396008 ACAATTTTTG
396018 TGTATCGATACAT
1 TGTATCGATACAT
396031 TGTATCGATACAT
1 TGTATCGATACAT
396044 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:399424 original size:28 final size:28
Alignment explanation
Indices: 399337--399971 Score: 693
Period size: 28 Copynumber: 21.9 Consensus size: 28
399327 AGTCCATGAT
* *
399337 TCAGTGGCATTCCTTTTTAAAGCTCACAAG
1 TCAGTGGCA-TCC-TTTCAAAGCCCACAAG
* *
399367 TCAGTGGCATCTTTTCAAAAGCCCATAAG
1 TCAGTGGCATCCTTTC-AAAGCCCACAAG
399396 TCAGTGGCATCCTTTCAAAGCCCACAAG
1 TCAGTGGCATCCTTTCAAAGCCCACAAG
* * *
399424 TCAATGACATTCTTTCAAAGCCCACAAG
1 TCAGTGGCATCCTTTCAAAGCCCACAAG
* *
399452 TCAGTGGCATCCATTTTAAAGCCCATAAG
1 TCAGTGGCATCC-TTTCAAAGCCCACAAG
399481 TCAGTGGCATCCTTTCAAAGCCCACAAG
1 TCAGTGGCATCCTTTCAAAGCCCACAAG
*
399509 TCAGTGGCACCCTTTCAAAGCCCACAAG
1 TCAGTGGCATCCTTTCAAAGCCCACAAG
** *
399537 TCAGTGGTGTCCTTTCAAAGTCCACAAG
1 TCAGTGGCATCCTTTCAAAGCCCACAAG
* * *
399565 TTAGTGGCATCTTTTCAAAAGCCCATAAG
1 TCAGTGGCATCCTTTC-AAAGCCCACAAG
* *
399594 TTAGTGGCATCTTTTTTTTCAAAGCCCAC-AG
1 TCAGTGGCATC----CTTTCAAAGCCCACAAG
* *
399625 CTCTGTGGCACCCTTTCAAAGCCCACAAG
1 -TCAGTGGCATCCTTTCAAAGCCCACAAG
*
399654 TCAGTGGCATCCTTTCAAAGCCTACAAG
1 TCAGTGGCATCCTTTCAAAGCCCACAAG
*
399682 TTAGTGGCATCCTTTCAAAGCCCACAAG
1 TCAGTGGCATCCTTTCAAAGCCCACAAG
399710 TCAGTGGCATCCTTTCAAAGCCCACAAG
1 TCAGTGGCATCCTTTCAAAGCCCACAAG
*
399738 TTAGTGGCATCCTTTCAAAAGCCCACAAG
1 TCAGTGGCATCCTTTC-AAAGCCCACAAG
*
399767 TTAGTGGCATCCTTTCAAAAGCCCACAAG
1 TCAGTGGCATCCTTTC-AAAGCCCACAAG
* *
399796 TTAGTGGCACCCTTTCAAAGCCCACAAG
1 TCAGTGGCATCCTTTCAAAGCCCACAAG
* * * *
399824 TTAGTGGCATCTTTTCAAAAGCCCATAAC
1 TCAGTGGCATCCTTTC-AAAGCCCACAAG
*
399853 TCCGTGGCA-CCATTTCAAAGCCCACAAG
1 TCAGTGGCATCC-TTTCAAAGCCCACAAG
399881 TC-GTGGCA-CCATTCTCTAAAGCCCACACAAG
1 TCAGTGGCATCC-TT-TC-AAAG-CC-CACAAG
* *
399912 TCGGTGGCAACCCTTTCCAAAGTCCACACAAG
1 TCAGTGGC-ATCCTTT-CAAAG-CC-CACAAG
* * *
399944 TCGGTGGCAACCCCTTTCAAGGCCCACA
1 TCAGTGGC-A-TCCTTTCAAAGCCCACA
399972 CAAGTTTGTG
Statistics
Matches: 533, Mismatches: 51, Indels: 42
0.85 0.08 0.07
Matches are distributed among these distances:
27 11 0.02
28 272 0.51
29 157 0.29
30 15 0.03
31 12 0.02
32 49 0.09
33 15 0.03
34 2 0.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.25
Consensus pattern (28 bp):
TCAGTGGCATCCTTTCAAAGCCCACAAG
Found at i:399440 original size:57 final size:56
Alignment explanation
Indices: 399337--399971 Score: 693
Period size: 57 Copynumber: 11.0 Consensus size: 56
399327 AGTCCATGAT
* * * *
399337 TCAGTGGCATTCCTTTTTAAAGCTCACAAGTCAGTGGCATCTTTTCAAAAGCCCATAAG
1 TCAGTGGCA-TCC-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTC-AAAGCCCACAAG
* * *
399396 TCAGTGGCATCCTTTCAAAGCCCACAAGTCAATGACATTCTTTCAAAGCCCACAAG
1 TCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAG
* *
399452 TCAGTGGCATCCATTTTAAAGCCCATAAGTCAGTGGCATCCTTTCAAAGCCCACAAG
1 TCAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAG
* ** *
399509 TCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGTGTCCTTTCAAAGTCCACAAG
1 TCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAG
* * * * *
399565 TTAGTGGCATCTTTTCAAAAGCCCATAAGTTAGTGGCATCTTTTTTTTCAAAGCCCAC-AG
1 TCAGTGGCATCCTTTC-AAAGCCCACAAGTCAGTGGCATC----CTTTCAAAGCCCACAAG
* * *
399625 CTCTGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCTACAAG
1 -TCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAG
*
399682 TTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAG
1 TCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAG
* *
399738 TTAGTGGCATCCTTTCAAAAGCCCACAAGTTAGTGGCATCCTTTCAAAAGCCCACAAG
1 TCAGTGGCATCCTTTC-AAAGCCCACAAGTCAGTGGCATCCTTTC-AAAGCCCACAAG
* * * * * *
399796 TTAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAAGCCCATAAC
1 TCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTC-AAAGCCCACAAG
*
399853 TCCGTGGCA-CCATTTCAAAGCCCACAAGTC-GTGGCA-CCATTCTCTAAAGCCCACACAAG
1 TCAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCATCC-TT-TC-AAAG-CC-CACAAG
* * * * *
399912 TCGGTGGCAACCCTTTCCAAAGTCCACACAAGTCGGTGGCAACCCCTTTCAAGGCCCACA
1 TCAGTGGC-ATCCTTT-CAAAG-CC-CACAAGTCAGTGGC-A-TCCTTTCAAAGCCCACA
399972 CAAGTTTGTG
Statistics
Matches: 499, Mismatches: 53, Indels: 45
0.84 0.09 0.08
Matches are distributed among these distances:
55 1 0.00
56 165 0.33
57 192 0.38
58 32 0.06
59 20 0.04
60 27 0.05
61 31 0.06
62 6 0.01
63 10 0.02
64 8 0.02
65 3 0.01
66 2 0.00
67 2 0.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.25
Consensus pattern (56 bp):
TCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAG
Found at i:400728 original size:14 final size:14
Alignment explanation
Indices: 400709--400738 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
400699 TCGAAATACG
400709 GTGTTTTCAACTCC
1 GTGTTTTCAACTCC
400723 GTGTTTTCAACTCC
1 GTGTTTTCAACTCC
400737 GT
1 GT
400739 AAATTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.27, G:0.17, T:0.43
Consensus pattern (14 bp):
GTGTTTTCAACTCC
Found at i:402284 original size:97 final size:97
Alignment explanation
Indices: 402149--402484 Score: 512
Period size: 97 Copynumber: 3.5 Consensus size: 97
402139 AATTCTATTT
* * *
402149 ATCGAGGATACTCTAACCCTATTCCTCCGAGAGGATACTCCAACCTCGCTTTTAAACACATCAAA
1 ATCGAGGACACTCCAACCCCATTCCTCCGAGAGGATACTCCAACCTCGCTTTTAAACACATCAAA
402214 GTTTAAATCTTATTCTCACTTAAATTGTCATC
66 GTTTAAATCTTATTCTCACTTAAATTGTCATC
* **
402246 ATCGGGGACACTCCAACCCCATTCCTCCGAG-GAGATACTCCAACCTCGCTTTTAAACATGTCAA
1 ATCGAGGACACTCCAACCCCATTCCTCCGAGAG-GATACTCCAACCTCGCTTTTAAACACATCAA
* * *
402310 AGTTTAAATCTTGTTCTCACCTAAATTGTCATT
65 AGTTTAAATCTTATTCTCACTTAAATTGTCATC
* *
402343 ATCGAGGACACTCCAACCCTATTCCTCCGAGAGGATACTCCAACCTTGCTTTTAAACACATCAAA
1 ATCGAGGACACTCCAACCCCATTCCTCCGAGAGGATACTCCAACCTCGCTTTTAAACACATCAAA
* * *
402408 GTTTAGATCTTATTCTCACTCAAACTGTCATC
66 GTTTAAATCTTATTCTCACTTAAATTGTCATC
* *
402440 ATCGGGGACACTCCAACCCCATTCCTCCGAGAAGATACTCCAACC
1 ATCGAGGACACTCCAACCCCATTCCTCCGAGAGGATACTCCAACC
402485 CCGTTTTTCA
Statistics
Matches: 214, Mismatches: 23, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
96 1 0.00
97 212 0.99
98 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.12, T:0.28
Consensus pattern (97 bp):
ATCGAGGACACTCCAACCCCATTCCTCCGAGAGGATACTCCAACCTCGCTTTTAAACACATCAAA
GTTTAAATCTTATTCTCACTTAAATTGTCATC
Found at i:403429 original size:15 final size:15
Alignment explanation
Indices: 403409--403444 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
403399 ATTTTGGAAT
*
403409 AAATTTCACTAGAAA
1 AAATTTCACAAGAAA
403424 AAATTTCACAAGAAA
1 AAATTTCACAAGAAA
*
403439 GAATTT
1 AAATTT
403445 ATAGTATAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.53, C:0.11, G:0.08, T:0.28
Consensus pattern (15 bp):
AAATTTCACAAGAAA
Found at i:406550 original size:9 final size:8
Alignment explanation
Indices: 406533--406601 Score: 56
Period size: 8 Copynumber: 8.4 Consensus size: 8
406523 GTTAAAAAAG
406533 AAATAATA
1 AAATAATA
406541 AAAGTAAT-
1 AAA-TAATA
406549 AAATAATA
1 AAATAATA
406557 AAA-AATA
1 AAATAATA
406564 AAATGAAAGTCA
1 AAAT--AA-T-A
406576 AAATAAT-
1 AAATAATA
406583 AAATAA-A
1 AAATAATA
406590 TAAATAATA
1 -AAATAATA
406599 AAA
1 AAA
406602 AACCGAAGAA
Statistics
Matches: 51, Mismatches: 0, Indels: 20
0.72 0.00 0.28
Matches are distributed among these distances:
7 17 0.33
8 18 0.35
9 6 0.12
10 4 0.08
11 1 0.02
12 5 0.10
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.22
Consensus pattern (8 bp):
AAATAATA
Found at i:406557 original size:7 final size:7
Alignment explanation
Indices: 406533--406600 Score: 52
Period size: 7 Copynumber: 9.4 Consensus size: 7
406523 GTTAAAAAAG
406533 AAATAAT
1 AAATAAT
406540 AAAAGTAAT
1 -AAA-TAAT
406549 AAATAAT
1 AAATAAT
*
406556 AAAAAAT
1 AAATAAT
406563 -AA-AAT
1 AAATAAT
*
406568 GAAAGTCA-
1 -AAA-TAAT
406576 AAATAAT
1 AAATAAT
406583 AAATAAAT
1 AAAT-AAT
406591 AAATAAT
1 AAATAAT
406598 AAA
1 AAA
406601 AAACCGAAGA
Statistics
Matches: 50, Mismatches: 3, Indels: 15
0.74 0.04 0.22
Matches are distributed among these distances:
5 3 0.06
6 4 0.08
7 25 0.50
8 13 0.26
9 5 0.10
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.22
Consensus pattern (7 bp):
AAATAAT
Found at i:406641 original size:26 final size:26
Alignment explanation
Indices: 406583--406641 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
406573 TCAAAATAAT
*
406583 AAAT-AAATAAATAATAAAAAACCGA
1 AAATCAAATAAATAATAAAAAAACGA
* *
406608 AGAA-CAAATAAGTAATAAAAAAATGA
1 A-AATCAAATAAATAATAAAAAAACGA
406634 AAATCAAA
1 AAATCAAA
406642 ACAAAAATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
25 3 0.11
26 25 0.89
ACGTcount: A:0.71, C:0.07, G:0.07, T:0.15
Consensus pattern (26 bp):
AAATCAAATAAATAATAAAAAAACGA
Found at i:406648 original size:141 final size:141
Alignment explanation
Indices: 406457--406710 Score: 447
Period size: 141 Copynumber: 1.8 Consensus size: 141
406447 ACCAAAAGAG
* * *
406457 AAAAAACGGAAGAACAAATAAATAATAAATAAATGAAAATCAAAATAAAAATCAAAACTAAATT-
1 AAAAAACCGAAGAACAAATAAATAATAAAAAAATGAAAATCAAAACAAAAATCAAAACTAAATTG
406521 AGGTTAAAAAAGAAATAATAAAAGTAATAAATAATAAAAAATAAAATGAAAGTCAAAATAATAAA
66 A-GTTAAAAAAGAAATAATAAAAGTAATAAATAATAAAAAATAAAATGAAAGTCAAAATAATAAA
406586 TAAATAAATAAT
130 TAAATAAATAAT
* *
406598 AAAAAACCGAAGAACAAATAAGTAATAAAAAAATGAAAATCAAAACAAAAATCAAAATTAAATTG
1 AAAAAACCGAAGAACAAATAAATAATAAAAAAATGAAAATCAAAACAAAAATCAAAACTAAATTG
406663 AGTTAAAAAAGAAATAATAAAAGTAATAAATAATAAAAAATAAAATGA
66 AGTTAAAAAAGAAATAATAAAAGTAATAAATAATAAAAAATAAAATGA
406711 GCCTAATGGA
Statistics
Matches: 107, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
141 106 0.99
142 1 0.01
ACGTcount: A:0.69, C:0.05, G:0.07, T:0.19
Consensus pattern (141 bp):
AAAAAACCGAAGAACAAATAAATAATAAAAAAATGAAAATCAAAACAAAAATCAAAACTAAATTG
AGTTAAAAAAGAAATAATAAAAGTAATAAATAATAAAAAATAAAATGAAAGTCAAAATAATAAAT
AAATAAATAAT
Found at i:407472 original size:3 final size:3
Alignment explanation
Indices: 407464--407505 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
407454 AACCCACACT
*
407464 ATA ATA ATA ATA ATA CTA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
407506 TATTTAGATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:418800 original size:16 final size:16
Alignment explanation
Indices: 418781--418813 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
418771 GTAATTCAGA
418781 ATCTCATACTCATCTG
1 ATCTCATACTCATCTG
418797 ATCTCATACTCATCTG
1 ATCTCATACTCATCTG
418813 A
1 A
418814 GTTATTGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.30, G:0.06, T:0.36
Consensus pattern (16 bp):
ATCTCATACTCATCTG
Found at i:419415 original size:20 final size:20
Alignment explanation
Indices: 419390--419430 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
419380 TTTGATATAT
419390 ATATATATATAAGATTATTA
1 ATATATATATAAGATTATTA
* **
419410 ATATATTTATATTATTATTA
1 ATATATATATAAGATTATTA
419430 A
1 A
419431 GTCACTAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
ATATATATATAAGATTATTA
Found at i:423661 original size:21 final size:20
Alignment explanation
Indices: 423630--423669 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
423620 AAAATAAAAT
423630 AAAAAATTATA-ATCATAATC
1 AAAAAATTATATAT-ATAATC
423650 AAAAAATATATATATATAAT
1 AAAAAAT-TATATATATAAT
423670 ATATATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 9 0.50
22 2 0.11
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAAATTATATATATAATC
Found at i:430727 original size:81 final size:78
Alignment explanation
Indices: 430586--430744 Score: 255
Period size: 81 Copynumber: 2.0 Consensus size: 78
430576 GATAGGTGAT
* *
430586 CACCATTAGATTGATCCCTTCAAAAAATAAAAAGAAGAAATTGTGTTTCATTTTGTATGAACCCT
1 CACCATTAGATTGATCCCTTCAAAAAAAAAAAAGAAGAAACTGTGTTTCATTTTGTATGAACCCT
*
430651 CATTTCCTTTATA
66 CACTTCCTTTATA
*
430664 CACCATTAGATTGATCCCTTCAAAAAAAAAAAAAAAGAAGAAACTGTGTTTCGTTTTGTATGAAC
1 CACCATTAGATTGATCCCTTC---AAAAAAAAAAAAGAAGAAACTGTGTTTCATTTTGTATGAAC
430729 CCTCACTTCCTTTATA
63 CCTCACTTCCTTTATA
430745 TAATTACCCT
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
78 21 0.28
81 53 0.72
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (78 bp):
CACCATTAGATTGATCCCTTCAAAAAAAAAAAAGAAGAAACTGTGTTTCATTTTGTATGAACCCT
CACTTCCTTTATA
Found at i:432144 original size:14 final size:14
Alignment explanation
Indices: 432127--432153 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
432117 AGAGTGTTTG
432127 AAAAAAAAAATTAA
1 AAAAAAAAAATTAA
432141 AAAAAAAAAATTA
1 AAAAAAAAAATTA
432154 TCCAAATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (14 bp):
AAAAAAAAAATTAA
Found at i:432185 original size:21 final size:21
Alignment explanation
Indices: 432158--432213 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
432148 AAATTATCCA
432158 AATGTATCGATACATTTGTAGG
1 AATGTATCGATACATTTGT-GG
432180 -ATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTGG
432200 AATGTATCGATACA
1 AATGTATCGATACA
432214 GGGTCCCAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
20 2 0.06
21 31 0.94
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (21 bp):
AATGTATCGATACATTTGTGG
Found at i:432273 original size:19 final size:19
Alignment explanation
Indices: 432249--432316 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
432239 AATTCAACAA
432249 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
432268 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
432283 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
* *
432300 ATTATATCGATACATAA
1 TTTGTATCGATACATAA
432317 TTAGCTACTG
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 27 0.64
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:432288 original size:13 final size:13
Alignment explanation
Indices: 432270--432294 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
432260 ACATAAGTTT
432270 TGTATCGATACAA
1 TGTATCGATACAA
432283 TGTATCGATACA
1 TGTATCGATACA
432295 TAAGTATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:432292 original size:32 final size:32
Alignment explanation
Indices: 432251--432313 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
432241 TTCAACAATT
* *
432251 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTATATCGATACAA
432283 TGTATCGATACATAAGTATTATATCGATACA
1 TGTATCGATACATAAGTATTATATCGATACA
432314 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTATATCGATACAA
Found at i:432393 original size:33 final size:33
Alignment explanation
Indices: 432336--432398 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
432326 GCCAAGGAAA
***
432336 TGTATCGATACATTTTTCTGTGTATCGATATAT
1 TGTATCGATACATGGATCTGTGTATCGATATAT
*
432369 TGTATCGATACATGGATCTTTGTATCGATA
1 TGTATCGATACATGGATCTGTGTATCGATA
432399 CATTTGGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.44
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATATAT
Found at i:434805 original size:51 final size:52
Alignment explanation
Indices: 434745--435096 Score: 234
Period size: 52 Copynumber: 6.7 Consensus size: 52
434735 AATTCTCCAC
* * *
434745 AATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTCCT-AT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTCCTCAT
* * * *
434796 AATCGGGGATATTCCAACTCCGATTTTATTTCCAAAAAACACTAATTTCTTCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCC--AAAACACTAATTTCCTCAT
* * ** * * * * **
434850 AATCGGGGATACTCCAACCCCG--TTGATCATCGGGGATACTCCAA--CCCTGTT
1 AATCGGGGATACTCCAACCCCGATTTTAT-TTC--CAAAACACTAATTTCCTCAT
* * * * * *
434901 ATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTT-TTCAT
1 A-AT-C--GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTCCTCAT
* * * * * *
434956 AATCGGGGATATTCCAACCCCGGTTTTATTGCTAAAACACTAATTT-TTCCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTCCT-CAT
* * * * *
435008 AATCGGGGATACTCCAACCCCGGTTTTATTTTCGAAACACCAATTTTCCT-TT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAA-TTTCCTCAT
*
435060 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAA
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAA
435097 ATACCAATTT
Statistics
Matches: 229, Mismatches: 55, Indels: 33
0.72 0.17 0.10
Matches are distributed among these distances:
51 71 0.31
52 77 0.34
53 28 0.12
54 26 0.11
55 21 0.09
56 2 0.01
57 4 0.02
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (52 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTCCTCAT
Found at i:434937 original size:31 final size:28
Alignment explanation
Indices: 434854--434926 Score: 89
Period size: 27 Copynumber: 2.6 Consensus size: 28
434844 CTTCACAATC
*
434854 GGGGATACTCCAACCCCGTTGATCAT-C--
1 GGGGATACTCCAACCCCGTT-AT-TTCCGA
*
434881 GGGGATACTCCAACCCTGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTATTTCCGA
434909 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
434927 ACTTTATTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
25 1 0.03
26 3 0.08
27 19 0.47
28 17 0.43
ACGTcount: A:0.22, C:0.33, G:0.23, T:0.22
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCCGA
Found at i:435150 original size:28 final size:28
Alignment explanation
Indices: 435118--435189 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
435108 TCACAGTCGA
** * **
435118 GGATACTCCAACCTTGTTATTTCATCGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
*
435146 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
435174 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
435190 GCTTTATTCC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.22, C:0.33, G:0.19, T:0.25
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCAGAGG
Found at i:435207 original size:263 final size:263
Alignment explanation
Indices: 434740--435240 Score: 776
Period size: 263 Copynumber: 1.9 Consensus size: 263
434730 TTCTCAATTC
* * *
434740 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTCCTATAATCGGGGA
1 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTCCTATAATCGGGGA
* *
434805 TATTCCAACTCCGATTTTATTTCCAAAAAACACTAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACTAATTTCTTCACAATCGAGGATACTCCAACCC
* *
434870 CGTTGATCATCGGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATT
131 CGTTGATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATT
* * *
434935 TCCAAAATATTGATTTTTCATAATCGGGGATATTCCAACCCCGGTTTTATTGCTAAAACACTAAT
196 CCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAAT
435000 TTT
261 TTT
* * *
435003 TCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCGAAACACCAATTTTCCTTTAATCGGGG
1 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAA-TTTCCTATAATCGGGG
*
435068 ATACTCCAACTCCGATTTTATTTCCAAAAATAC-C-AATTT-TTCACAGTCGAGGATACTCCAAC
65 ATACTCCAACTCCGATTTTATTTCCAAAAA-ACACTAATTTCTTCACAATCGAGGATACTCCAAC
** *
435130 CTTGTT-ATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTT
129 CCCGTTGA--TCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTT
*
435194 TATTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCCG
192 TATTCCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCG
435241 TTATTTTCGA
Statistics
Matches: 216, Mismatches: 18, Indels: 8
0.89 0.07 0.03
Matches are distributed among these distances:
261 1 0.00
262 25 0.12
263 143 0.66
264 45 0.21
265 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (263 bp):
TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTCCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACTAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTGATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATT
CCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAAT
TTT
Found at i:435292 original size:79 final size:79
Alignment explanation
Indices: 435143--435347 Score: 223
Period size: 79 Copynumber: 2.6 Consensus size: 79
435133 GTTATTTCAT
* * *
435143 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
* * *
435208 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * * * ** *
435222 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCTCGATTTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAAT-A
435286 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* ** * *
435301 CGGGGATACTCCAGCCCCGTTATTTTTAAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
435348 TTATTATCTC
Statistics
Matches: 103, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 3 0.03
79 100 0.97
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:437427 original size:89 final size:88
Alignment explanation
Indices: 437297--437527 Score: 320
Period size: 89 Copynumber: 2.6 Consensus size: 88
437287 TCCTTTTTAT
* *
437297 CCAACAACTAAATGGTATTGATGCATCGGGAAGCCTAATTTCCTTAGGGCAAGGTGCAACCCATA
1 CCAACCACTAAATGGTATTGATGCATCGCGAAGCC-AATTTCCTTAGGGCAAGGTGCAACCCATA
*
437362 CATTCCCAATCATATCCCCTTCAC
65 CATTCCCAATCAGATCCCCTTCAC
* * * *
437386 CCAACCACTAAATGGTATTGATCCATCACGAAGCCAGATTT-CTTTGGGCCAAGGTGCAGCCCAT
1 CCAACCACTAAATGGTATTGATGCATCGCGAAGCCA-ATTTCCTTAGGG-CAAGGTGCAACCCAT
437450 ACATTCCCAATCAGATCCCCTTCAC
64 ACATTCCCAATCAGATCCCCTTCAC
* * *
437475 TCAACCACTAAATGGTATTGATGCATCGCGAAGCCTTATTTTCCTTGGGGCAA
1 CCAACCACTAAATGGTATTGATGCATCGCGAAGCC--AATTTCCTTAGGGCAA
437528 AGGTAGCCCA
Statistics
Matches: 125, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
88 7 0.06
89 105 0.84
90 6 0.05
91 7 0.06
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (88 bp):
CCAACCACTAAATGGTATTGATGCATCGCGAAGCCAATTTCCTTAGGGCAAGGTGCAACCCATAC
ATTCCCAATCAGATCCCCTTCAC
Found at i:437536 original size:89 final size:87
Alignment explanation
Indices: 437297--437560 Score: 316
Period size: 89 Copynumber: 3.0 Consensus size: 87
437287 TCCTTTTTAT
* * *
437297 CCAACAACTAAATGGTATTGATGCATCGGGAAGCCTAATTTCCTTAGGGCAAGGTGCAACCCATA
1 CCAACCACTAAATGGTATTGATGCATCGCGAAGCCT-ATTTCCTTAGGGCAAGGT-CAGCCCATA
437362 CATTCCCAATCATATCCCCTTCAC
64 CATTCCCAATCATATCCCCTTCAC
* * * *
437386 CCAACCACTAAATGGTATTGATCCATCACGAAGCCAGATTT-CTTTGGGCCAAGGTGCAGCCCAT
1 CCAACCACTAAATGGTATTGATGCATCGCGAAGCC-TATTTCCTTAGGG-CAAGGT-CAGCCCAT
*
437450 ACATTCCCAATCAGATCCCCTTCAC
63 ACATTCCCAATCATATCCCCTTCAC
* * *
437475 TCAACCACTAAATGGTATTGATGCATCGCGAAGCCTTATTTTCCTTGGGGCAAAGGT-AGCCCAG
1 CCAACCACTAAATGGTATTGATGCATCGCGAAGCC-TA-TTTCCTTAGGGC-AAGGTCAGCCCAT
* **
437539 ACAGTCTTAATCATATCCCCTT
63 ACATTCCCAATCATATCCCCTT
437561 TACCAATTAC
Statistics
Matches: 151, Mismatches: 19, Indels: 10
0.84 0.11 0.06
Matches are distributed among these distances:
88 6 0.04
89 130 0.86
90 4 0.03
91 11 0.07
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (87 bp):
CCAACCACTAAATGGTATTGATGCATCGCGAAGCCTATTTCCTTAGGGCAAGGTCAGCCCATACA
TTCCCAATCATATCCCCTTCAC
Found at i:442354 original size:695 final size:695
Alignment explanation
Indices: 441021--443102 Score: 3914
Period size: 695 Copynumber: 3.0 Consensus size: 695
441011 TTTAGATTAG
*
441021 GCTTCATTAAGTTACCTTTTTCAATAGTACCTTTTATGCCCATTTAGGGTTCAAATGAATGCGAA
1 GCTTCATTAAGTTACCTTTTTCAATAGTACCTTTTATGCCCATTTAGGGTTCAAATAAATGCGAA
*
441086 GTAAATTCAAAAAGCCTAACAGTGCAATGCTATCCCAATTTCTAGCACTTAGACAACTTAATAAC
66 GTAAATTCAAAAAGCCTAACAGTGCAATGCTATCCCTATTTCTAGCACTTAGACAACTTAATAAC
*
441151 CACCCTATGTTCACTCTTTTGAGGCATTTGAATGTCTTGAAATGAGTTTGATTAATACATAATAA
131 CACCCTATGTTCACTCTTTTGAGGCATTCGAATGTCTTGAAATGAGTTTGATTAATACATAATAA
441216 ATTATATCGATACATTGTTTCAAACGGTTATAAACGGCTATAATTTCAAATGTATATATCGATAC
196 ATTATATCGATACATTGTTTCAAACGGTTATAAACGGCTATAATTTCAAATGTATATATCGATAC
441281 ATTATGAATTGTATAGATACATAGCTACGGGAATGCATTGAAATAAGCACCAAACAAGTCAACAA
261 ATTATGAATTGTATAGATACATAGCTACGGGAATGCATTGAAATAAGCACCAAACAAGTCAACAA
441346 CGGCTAGAAACACAATCATTCAACCTCCAACGAGTATGTTGACATTCAAGCCTATAAATTTGAGT
326 CGGCTAGAAACACAATCATTCAACCTCCAACGAGTATGTTGACATTCAAGCCTATAAATTTGAGT
441411 TTTCAATAGCTGAACTAAATGAGAAGCAACCAAGAAACATCAAGAGATCAAAGCATTCAAAGTTT
391 TTTCAATAGCTGAACTAAATGAGAAGCAACCAAGAAACATCAAGAGATCAAAGCATTCAAAGTTT
441476 GATTTGTTTTTTCATTTTTAAGAGCTTTTACTTTTATGGTTGTTATTTTTCGAAAACTTTTTTGT
456 GATTTGTTTTTTCATTTTTAAGAGCTTTTACTTTTATGGTTGTTATTTTTCGAAAACTTTTTTGT
441541 ATTTGTTTTGAGCTCATTCTTTCACAAACACCAGCCTACTTAGAGGCAATTCTTGTTTGTAAAAT
521 ATTTGTTTTGAGCTCATTCTTTCACAAACACCAGCCTACTTAGAGGCAATTCTTGTTTGTAAAAT
441606 TTCTTTGTTTACGTAAAGTTGTGTTCAACCTTGAGTGATAATCTCTTAGGAACTTGGGGTATAGT
586 TTCTTTGTTTACGTAAAGTTGTGTTCAACCTTGAGTGATAATCTCTTAGGAACTTGGGGTATAGT
* *
441671 TTTCAAAGATATTGAGAGGTTGTTATCTTATCCTTTAAAAGAAAA
651 TTTCAAAGAGATTGAGAGGTTGTTATCTTAGCCTTTAAAAGAAAA
*
441716 GCTTCATTAAGTTACCTTTTTCAATAGTACCTTTTATGCCCATTTAGGGTTCAAATAAATGCAAA
1 GCTTCATTAAGTTACCTTTTTCAATAGTACCTTTTATGCCCATTTAGGGTTCAAATAAATGCGAA
441781 GTAAATTCAAAAAGCCTAACAGTGCAATGCTATCCCTATTTCTAGCACTTAGACAACTTAATAAC
66 GTAAATTCAAAAAGCCTAACAGTGCAATGCTATCCCTATTTCTAGCACTTAGACAACTTAATAAC
441846 CACCCTATGTTCACTCTTTTGAGGCATTCGAATGTCTTGAAATGAGTTTGATTAATACATAATAA
131 CACCCTATGTTCACTCTTTTGAGGCATTCGAATGTCTTGAAATGAGTTTGATTAATACATAATAA
441911 ATTATATCGATACATTGTTTCAAACGGTTATAAACGGCTATAATTTCAAATGTATATATCGATAC
196 ATTATATCGATACATTGTTTCAAACGGTTATAAACGGCTATAATTTCAAATGTATATATCGATAC
*
441976 ATTATGAATTGTATAGATACATAGCTACGGGAATGCATTGAAATAAGCACCAAACAAGTTAACAA
261 ATTATGAATTGTATAGATACATAGCTACGGGAATGCATTGAAATAAGCACCAAACAAGTCAACAA
442041 CGGCTAGAAACACAATCATTCAACCTCCAACGAGTATGTTGACATTCAAGCCTATAAATTTGAGT
326 CGGCTAGAAACACAATCATTCAACCTCCAACGAGTATGTTGACATTCAAGCCTATAAATTTGAGT
442106 TTTCAATAGCTGAACTAAATGAGAAGCAACCAAGAAACATCAAGAGATCAAAGCATTCAAAGTTT
391 TTTCAATAGCTGAACTAAATGAGAAGCAACCAAGAAACATCAAGAGATCAAAGCATTCAAAGTTT
442171 GATTTGTTTTTTCATTTTTAAGAGCTTTTACTTTTATGGTTGTTATTTTTCGAAAACTTTTTTGT
456 GATTTGTTTTTTCATTTTTAAGAGCTTTTACTTTTATGGTTGTTATTTTTCGAAAACTTTTTTGT
442236 ATTTGTTTTGAGCTCATTCTTTCACAAACACCAGCCTACTTAGAGGCAATTCTTGTTTGTAAAAT
521 ATTTGTTTTGAGCTCATTCTTTCACAAACACCAGCCTACTTAGAGGCAATTCTTGTTTGTAAAAT
* *
442301 TTCTTTGTTTACGTAAAGTTGTGTTCAACATTGAGTGATAATCTCTGAGGAACTTGGGGTATAGT
586 TTCTTTGTTTACGTAAAGTTGTGTTCAACCTTGAGTGATAATCTCTTAGGAACTTGGGGTATAGT
442366 TTTCAAAGAGATTGAGAGGTTGTTATCTTAGCCTTTAAAAGAAAA
651 TTTCAAAGAGATTGAGAGGTTGTTATCTTAGCCTTTAAAAGAAAA
442411 GCTTCATTAAGTTACCTTTTTCAATAGTACCTTTTATGCCCATTTAGGGTTCAAATAAATGCGAA
1 GCTTCATTAAGTTACCTTTTTCAATAGTACCTTTTATGCCCATTTAGGGTTCAAATAAATGCGAA
442476 GTAAATTCAAAAAGCCTAACAGTGCAATGCTATCCCTATTTCTAGCACTTAGACAACTTAATAAC
66 GTAAATTCAAAAAGCCTAACAGTGCAATGCTATCCCTATTTCTAGCACTTAGACAACTTAATAAC
442541 CACCCTATGTTCACTCTTTTGAGGCATTCGAATGTCTTGAAATGAGTTTGATTAATACATAATAA
131 CACCCTATGTTCACTCTTTTGAGGCATTCGAATGTCTTGAAATGAGTTTGATTAATACATAATAA
* * ** * *
442606 ATTATATCGATACATTGCTTCAAACGGTTATAAACAGCTATAATTTCAAATACATGTATCGATAT
196 ATTATATCGATACATTGTTTCAAACGGTTATAAACGGCTATAATTTCAAATGTATATATCGATAC
442671 ATTATGAATTGTATAGATACATAGCTACGGGAATGCATTGAAATAAGCACCAAACAAGTCAACAA
261 ATTATGAATTGTATAGATACATAGCTACGGGAATGCATTGAAATAAGCACCAAACAAGTCAACAA
* * *
442736 CGGCTAGAAACACAATTATTCAACCTCCAACGAGTATGTCGACATTTAAGCCTATAAATTTGAGT
326 CGGCTAGAAACACAATCATTCAACCTCCAACGAGTATGTTGACATTCAAGCCTATAAATTTGAGT
* *
442801 TTGCAACAGCTGAACTAAATGAGAAGCAACCAAGAAACATCAAGAGATCAAAGCATTCAAAGTTT
391 TTTCAATAGCTGAACTAAATGAGAAGCAACCAAGAAACATCAAGAGATCAAAGCATTCAAAGTTT
* * *
442866 GATTTATTTTTTCATTTTTAAGAGCTTTTACTTTTATTGTTGTTATTTTTCGAAAACTCTTTTGT
456 GATTTGTTTTTTCATTTTTAAGAGCTTTTACTTTTATGGTTGTTATTTTTCGAAAACTTTTTTGT
* *
442931 ATTTGTTTTGAGCTTATTCTTTCACAAACACCAGCCTACTTAGAGGCAATTCTTGTTTATAAAAT
521 ATTTGTTTTGAGCTCATTCTTTCACAAACACCAGCCTACTTAGAGGCAATTCTTGTTTGTAAAAT
*
442996 TTCCTTGTTTACGTAAAGTTGTGTTCAACCTTGAGTGATAATCTCTTAGGAACTTGGGGTATAGT
586 TTCTTTGTTTACGTAAAGTTGTGTTCAACCTTGAGTGATAATCTCTTAGGAACTTGGGGTATAGT
443061 TTTCGAAA-AGATTGAGAGGTTGTTATCTTAGCCTTTAAAAGA
651 TTTC-AAAGAGATTGAGAGGTTGTTATCTTAGCCTTTAAAAGA
443103 TAAGGTTTGT
Statistics
Matches: 1356, Mismatches: 30, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
695 1353 1.00
696 3 0.00
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (695 bp):
GCTTCATTAAGTTACCTTTTTCAATAGTACCTTTTATGCCCATTTAGGGTTCAAATAAATGCGAA
GTAAATTCAAAAAGCCTAACAGTGCAATGCTATCCCTATTTCTAGCACTTAGACAACTTAATAAC
CACCCTATGTTCACTCTTTTGAGGCATTCGAATGTCTTGAAATGAGTTTGATTAATACATAATAA
ATTATATCGATACATTGTTTCAAACGGTTATAAACGGCTATAATTTCAAATGTATATATCGATAC
ATTATGAATTGTATAGATACATAGCTACGGGAATGCATTGAAATAAGCACCAAACAAGTCAACAA
CGGCTAGAAACACAATCATTCAACCTCCAACGAGTATGTTGACATTCAAGCCTATAAATTTGAGT
TTTCAATAGCTGAACTAAATGAGAAGCAACCAAGAAACATCAAGAGATCAAAGCATTCAAAGTTT
GATTTGTTTTTTCATTTTTAAGAGCTTTTACTTTTATGGTTGTTATTTTTCGAAAACTTTTTTGT
ATTTGTTTTGAGCTCATTCTTTCACAAACACCAGCCTACTTAGAGGCAATTCTTGTTTGTAAAAT
TTCTTTGTTTACGTAAAGTTGTGTTCAACCTTGAGTGATAATCTCTTAGGAACTTGGGGTATAGT
TTTCAAAGAGATTGAGAGGTTGTTATCTTAGCCTTTAAAAGAAAA
Found at i:448807 original size:13 final size:13
Alignment explanation
Indices: 448789--448828 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
448779 ACAATATTCT
448789 ATGTATCGATACA
1 ATGTATCGATACA
448802 ATGTATCGATACA
1 ATGTATCGATACA
* *
448815 TTGTATCAATACA
1 ATGTATCGATACA
448828 A
1 A
448829 GGGTTACTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:450247 original size:3 final size:3
Alignment explanation
Indices: 450241--450268 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
450231 GAAGAAGATG
450241 CTC CTC CTC CTC CTC CTC CTC CTC CTC C
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC C
450269 ACCCGAAGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (3 bp):
CTC
Found at i:450589 original size:21 final size:22
Alignment explanation
Indices: 450564--450617 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
450554 TGTTTATAAA
450564 ATGTGATGTTTACT-TTCTTAT
1 ATGTGATGTTTACTATTCTTAT
* *
450585 ATGTGATGTTT-GTATTGTTAT
1 ATGTGATGTTTACTATTCTTAT
*
450606 ATGTGATATTTA
1 ATGTGATGTTTA
450618 TATGATGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 27 0.96
ACGTcount: A:0.22, C:0.04, G:0.19, T:0.56
Consensus pattern (22 bp):
ATGTGATGTTTACTATTCTTAT
Found at i:451512 original size:13 final size:13
Alignment explanation
Indices: 451494--451523 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
451484 GATACATGGC
*
451494 ACATTGTATCGAT
1 ACATTGTATCAAT
451507 ACATTGTATCAAT
1 ACATTGTATCAAT
451520 ACAT
1 ACAT
451524 GATGAATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (13 bp):
ACATTGTATCAAT
Found at i:451522 original size:33 final size:32
Alignment explanation
Indices: 451477--451545 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 32
451467 CTACCACTGT
* *
451477 TTGTATCGATACATG-GCACATTGTATCGATACA
1 TTGTATCAATACATGAG-A-ATTGTATCAATACA
451510 TTGTATCAATACATGATGAATTGTATCAATACA
1 TTGTATCAATACATGA-GAATTGTATCAATACA
451543 TTG
1 TTG
451546 CTTCAAACGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.36
Consensus pattern (32 bp):
TTGTATCAATACATGAGAATTGTATCAATACA
Found at i:454593 original size:22 final size:23
Alignment explanation
Indices: 454563--454630 Score: 88
Period size: 22 Copynumber: 3.0 Consensus size: 23
454553 TAGCTAGTTT
454563 TCTATTTTCTTCTCTATTTTTCC
1 TCTATTTTCTTCTCTATTTTTCC
* *
454586 TCT-TTTTCTT-TCTTTTTTTTC
1 TCTATTTTCTTCTCTATTTTTCC
454607 TCTATTTTC-TCTCTAATTTTTCC
1 TCTATTTTCTTCTCT-ATTTTTCC
454630 T
1 T
454631 AGCAGCTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
21 13 0.34
22 15 0.39
23 10 0.26
ACGTcount: A:0.07, C:0.24, G:0.00, T:0.69
Consensus pattern (23 bp):
TCTATTTTCTTCTCTATTTTTCC
Found at i:454619 original size:11 final size:11
Alignment explanation
Indices: 454563--454626 Score: 60
Period size: 11 Copynumber: 5.7 Consensus size: 11
454553 TAGCTAGTTT
454563 TCTATTTTCTTC
1 TCTATTTTC-TC
454575 TCTATTTT-TCC
1 TCTATTTTCT-C
*
454586 TCT-TTTTCTT
1 TCTATTTTCTC
* *
454596 TCTTTTTTTTC
1 TCTATTTTCTC
454607 TCTATTTTCTC
1 TCTATTTTCTC
454618 TCTAATTTT
1 TCT-ATTTT
454627 TCCTAGCAGC
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
10 8 0.19
11 22 0.51
12 13 0.30
ACGTcount: A:0.08, C:0.22, G:0.00, T:0.70
Consensus pattern (11 bp):
TCTATTTTCTC
Found at i:462035 original size:13 final size:13
Alignment explanation
Indices: 462017--462044 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
462007 ATACAAAGAT
462017 CAATGTATCGATA
1 CAATGTATCGATA
462030 CAATGTATCGATA
1 CAATGTATCGATA
462043 CA
1 CA
462045 TTGAATAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:462041 original size:33 final size:33
Alignment explanation
Indices: 461999--462064 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
461989 AAATTCCCAG
461999 ATGTATCGATACAAAG-ATCAATGTATCGATACA
1 ATGTATCGATACAAAGAAT-AATGTATCGATACA
**
462032 ATGTATCGATACATTGAATAATGTATCGATACA
1 ATGTATCGATACAAAGAATAATGTATCGATACA
462065 TTTCCTTCGC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (33 bp):
ATGTATCGATACAAAGAATAATGTATCGATACA
Found at i:463075 original size:49 final size:49
Alignment explanation
Indices: 462973--463767 Score: 566
Period size: 49 Copynumber: 16.5 Consensus size: 49
462963 TGTACTGAGA
* * * * *
462973 CAAGGCCAGCGACATTGGGCTTAGGAATG-TTAAAGATGCCAATATACTAATT
1 CAAGGCCAGCGATATTGGACTTA--AA-GATGAAAG-TGCCAATATGCTGATT
* * *
463025 CAAGGCTAACGATATCGGACTTAAAGATGAAAGTGCCAATATGCTGATT
1 CAAGGCCAGCGATATTGGACTTAAAGATGAAAGTGCCAATATGCTGATT
* * * *
463074 CAAGGCCAACGACATTGGTCTTAAAGAT-AAAGGTGCCAATATGATGATT
1 CAAGGCCAGCGATATTGGACTTAAAGATGAAA-GTGCCAATATGCTGATT
** *
463123 CAAGGCCAGCGATATCAGACTTAAAGATG-AAGATGCCAATGTGCTGATT
1 CAAGGCCAGCGATATTGGACTTAAAGATGAAAG-TGCCAATATGCTGATT
* * * *
463172 CAAGGCCGGCGACATTGGAATTAAAGATGAAGGTGCCAATATGCTGATT
1 CAAGGCCAGCGATATTGGACTTAAAGATGAAAGTGCCAATATGCTGATT
* *
463221 CAAGGCCAGCGATATTAGG-CTTAAAGATGAAGGTGCCAATATGCTAATT
1 CAAGGCCAGCGATATT-GGACTTAAAGATGAAAGTGCCAATATGCTGATT
* * * * * *
463270 CAAGGCCAGCGACATGGGGTCTTAAAGA-CAAGGTGCCAATATACTGATT
1 CAAGGCCAGCGATAT-TGGACTTAAAGATGAAAGTGCCAATATGCTGATT
* * *
463319 CACGGCCAGCAATATTGGAC-T-----T---A-TGCCAATGTGCTGATT
1 CAAGGCCAGCGATATTGGACTTAAAGATGAAAGTGCCAATATGCTGATT
* * * * *
463358 CAAGGCCAGCGACATTGGTCTTAGAGA-CAAGGTGCCAATATGCTGATT
1 CAAGGCCAGCGATATTGGACTTAAAGATGAAAGTGCCAATATGCTGATT
* *
463406 CAAGGCCAGCGATATTGGGC-T-----T---A-TGCCAATGTGCTGATT
1 CAAGGCCAGCGATATTGGACTTAAAGATGAAAGTGCCAATATGCTGATT
* * * * *
463445 CAAGGCTAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATT
1 CAAGGCCAGCGATATTGGACTTAAAGATGAAAGTGCCAATATGCTGATT
* ** *
463493 CAAGGCTAGAAATATTGGAC-TCAAGATGGTAAAGGTGCCAATATGCTGATT
1 CAAGGCCAGCGATATTGGACTTAAAGAT-G-AAA-GTGCCAATATGCTGATT
* * ** * * *
463544 CAAGGCCAGCTGAT-TCAAGGCCAGCGATATTGGACTTGAAGGTGCCAATGTGCTAATT
1 CAAGGCCAGC-GATAT--TGG--A-C-TTA-AAGA--TGAAAGTGCCAATATGCTGATT
* *
463602 CAAGGCCAGCGACATTGGTCTTAAAGAT-AAAGGTGCCAATATGCTGATT
1 CAAGGCCAGCGATATTGGACTTAAAGATGAAA-GTGCCAATATGCTGATT
* * * *
463651 CAAGGCCAACAATATTAGACTT-AA-A-G---GTGCCAATGTGCTGATT
1 CAAGGCCAGCGATATTGGACTTAAAGATGAAAGTGCCAATATGCTGATT
* * *
463694 CAAGGCTAGCGATATTGGTCTTAAAGAT-AAGGTGCCAATATGCTGATT
1 CAAGGCCAGCGATATTGGACTTAAAGATGAAAGTGCCAATATGCTGATT
*
463742 TAAGGCCAGCGATATTGGACTTAAAG
1 CAAGGCCAGCGATATTGGACTTAAAG
463768 GTGCCATGGA
Statistics
Matches: 589, Mismatches: 100, Indels: 112
0.74 0.12 0.14
Matches are distributed among these distances:
39 62 0.11
40 2 0.00
43 33 0.06
44 2 0.00
45 1 0.00
47 8 0.01
48 114 0.19
49 254 0.43
50 21 0.04
51 28 0.05
52 22 0.04
53 3 0.01
55 1 0.00
56 3 0.01
57 2 0.00
58 27 0.05
59 4 0.01
60 1 0.00
61 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
CAAGGCCAGCGATATTGGACTTAAAGATGAAAGTGCCAATATGCTGATT
Found at i:463136 original size:98 final size:97
Alignment explanation
Indices: 462973--463767 Score: 658
Period size: 98 Copynumber: 8.3 Consensus size: 97
462963 TGTACTGAGA
* * * * * * *
462973 CAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGCCAATATACTAATTCAAGGCTAACGAT
1 CAAGGCCAGCGACATTGGTCTTA--AA-GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGAT
*
463038 ATCGGACTTAAAGATGAAAGTGCCAATATGCTGATT
63 ATTGGACTTAAAGAT-AAAGTGCCAATATGCTGATT
* * *
463074 CAAGGCCAACGACATTGGTCTTAAAGATAAAGGTGCCAATATGATGATTCAAGGCCAGCGATATC
1 CAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATT
* * *
463139 AGACTTAAAGATGAAGATGCCAATGTGCTGATT
66 GGACTTAAAGATAAAG-TGCCAATATGCTGATT
* ** *
463172 CAAGGCCGGCGACATTGGAATTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATT
1 CAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATT
* *
463237 AGG-CTTAAAGATGAAGGTGCCAATATGCTAATT
66 -GGACTTAAAGAT-AAAGTGCCAATATGCTGATT
* * * * *
463270 CAAGGCCAGCGACATGGGGTCTTAAAGA-CAAGGTGCCAATATACTGATTCACGGCCAGCAATAT
1 CAAGGCCAGCGACAT-TGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATAT
*
463334 TGGAC-T-----T--A-TGCCAATGTGCTGATT
65 TGGACTTAAAGATAAAGTGCCAATATGCTGATT
* *
463358 CAAGGCCAGCGACATTGGTCTTAGAGA-CAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATT
1 CAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATT
* *
463422 GGGC-T-----T--A-TGCCAATGTGCTGATT
66 GGACTTAAAGATAAAGTGCCAATATGCTGATT
* * * **
463445 CAAGGCTAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATTCAAGGCTAGAAATATT
1 CAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATT
* *
463509 GGACTCAAGATGGTAAAGGTGCCAATATGCTGATT
66 GGACTTAA-A-GATAAA-GTGCCAATATGCTGATT
* * * ** * * *
463544 CAAGGCCAGCTGATTCA-AGGCCAGCGATATTGGACTTGAAGGTGCCAATGTGCTAATTCAAGGC
1 CAAGGCCAGC-GA--CATTGG---TC-TTA-AAGA--TAAAGGTGCCAATATGCTGATTCAAGGC
* *
463608 CAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
56 CAGCGATATTGGACTTAAAGATAAA-GTGCCAATATGCTGATT
* * * ** * *
463651 CAAGGCCA---ACA---ATATTAGACTTAAAGGTGCCAATGTGCTGATTCAAGGCTAGCGATATT
1 CAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATT
* *
463710 GGTCTTAAAGATAAGGTGCCAATATGCTGATT
66 GGACTTAAAGATAAAGTGCCAATATGCTGATT
* * *
463742 TAAGGCCAGCGATATTGGACTTAAAG
1 CAAGGCCAGCGACATTGGTCTTAAAG
463768 GTGCCATGGA
Statistics
Matches: 575, Mismatches: 85, Indels: 72
0.79 0.12 0.10
Matches are distributed among these distances:
87 128 0.22
88 29 0.05
91 24 0.04
92 49 0.09
94 2 0.00
95 3 0.01
97 11 0.02
98 188 0.33
99 38 0.07
100 2 0.00
101 25 0.04
102 2 0.00
103 1 0.00
104 1 0.00
105 2 0.00
106 2 0.00
107 31 0.05
108 1 0.00
109 36 0.06
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (97 bp):
CAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATT
GGACTTAAAGATAAAGTGCCAATATGCTGATT
Found at i:463357 original size:39 final size:39
Alignment explanation
Indices: 463303--463467 Score: 150
Period size: 39 Copynumber: 4.0 Consensus size: 39
463293 AAAGACAAGG
* * *
463303 TGCCAATATACTGATTCACGGCCAGCAATATTGGACTTA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
* * *
463342 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-------A
*
463388 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
1 --TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
* * * *
463429 TGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
463468 AAGACAAGGT
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
39 67 0.64
41 1 0.01
46 1 0.01
48 35 0.34
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (39 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
Found at i:463404 original size:87 final size:87
Alignment explanation
Indices: 463254--463513 Score: 412
Period size: 87 Copynumber: 3.0 Consensus size: 87
463244 AAGATGAAGG
* * * *
463254 TGCCAATATGCTAATTCAAGGCCAGCGACATGGGGTCTTAAAGACAAGGTGCCAATATACTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACAT-TGGTCTTAAAGACAAGGTGCCAATATGCTGATT
*
463319 CACGGCCAGCAATATTGGACTTA
65 CAAGGCCAGCAATATTGGACTTA
*
463342 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
* *
463407 AAGGCCAGCGATATTGGGCTTA
66 AAGGCCAGCAATATTGGACTTA
*
463429 TGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
* *
463494 AAGGCTAGAAATATTGGACT
66 AAGGCCAGCAATATTGGACT
463514 CAAGATGGTA
Statistics
Matches: 158, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
87 129 0.82
88 29 0.18
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (87 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
AAGGCCAGCAATATTGGACTTA
Found at i:463413 original size:48 final size:47
Alignment explanation
Indices: 463342--463767 Score: 320
Period size: 48 Copynumber: 8.9 Consensus size: 47
463332 ATTGGACTTA
* * *
463342 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGA-AAGG
*
463390 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT------A--
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGAAAGG
* * *
463429 TGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGACAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGA-AAGG
* ** * *
463477 TGCCAATATGCTGATTCAAGGCTAGAAATATTGGACTCAAGATGGTAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAA-A--G-AAAGG
* * * **
463528 TGCCAATATGCTGATTCAAGGCCAGCTGAT-TCAAGGCCAGCGATATTGGACTTGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGC-GATAT--TGG---TC-TTA-AAGA----AAGG
* * *
463586 TGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAG--AAAGG
* * * *
463635 TGCCAATATGCTGATTCAAGGCCAACAATATTAGACTT----AAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGAAAGG
* *
463678 TGCCAATGTGCTGATTCAAGGCTAGCGATATTGGTCTTAAAGATAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGA-AAGG
* *
463726 TGCCAATATGCTGATTTAAGGCCAGCGATATTGGACTTAAAG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAG
463768 GTGCCATGGA
Statistics
Matches: 298, Mismatches: 47, Indels: 66
0.73 0.11 0.16
Matches are distributed among these distances:
39 34 0.11
41 1 0.00
43 37 0.12
46 1 0.00
47 1 0.00
48 111 0.37
49 36 0.12
51 31 0.10
52 5 0.02
53 4 0.01
54 1 0.00
55 1 0.00
56 3 0.01
57 3 0.01
58 29 0.10
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (47 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGAAAGG
Found at i:463557 original size:15 final size:15
Alignment explanation
Indices: 463537--463568 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
463527 GTGCCAATAT
463537 GCTGATTCAAGGCCA
1 GCTGATTCAAGGCCA
463552 GCTGATTCAAGGCCA
1 GCTGATTCAAGGCCA
463567 GC
1 GC
463569 GATATTGGAC
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:0.25, C:0.28, G:0.28, T:0.19
Consensus pattern (15 bp):
GCTGATTCAAGGCCA
Found at i:463604 original size:43 final size:43
Alignment explanation
Indices: 463552--463773 Score: 228
Period size: 43 Copynumber: 4.9 Consensus size: 43
463542 TTCAAGGCCA
*
463552 GCTGATTCAAGGCCAGCGATATTGGACTTGAAGGTGCCAATGT
1 GCTGATTCAAGGCCAGCGATATTGGACTTGAAGGTGCCAATAT
* * *
463595 GCTAATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATAT
1 GCTGATTCAAGGCCAGCGATATTGGACTT---G---AAGGTGCCAATAT
* * * * *
463644 GCTGATTCAAGGCCAACAATATTAGACTTAAAGGTGCCAATGT
1 GCTGATTCAAGGCCAGCGATATTGGACTTGAAGGTGCCAATAT
* *
463687 GCTGATTCAAGGCTAGCGATATTGGTCTTAAAGATAAGGTGCCAATAT
1 GCTGATTCAAGGCCAGCGATATTGGACTT---G--AAGGTGCCAATAT
* *
463735 GCTGATTTAAGGCCAGCGATATTGGACTTAAAGGTGCCA
1 GCTGATTCAAGGCCAGCGATATTGGACTTGAAGGTGCCA
463774 TGGAGTTGTG
Statistics
Matches: 145, Mismatches: 23, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
43 71 0.49
46 1 0.01
48 38 0.26
49 35 0.24
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (43 bp):
GCTGATTCAAGGCCAGCGATATTGGACTTGAAGGTGCCAATAT
Found at i:463773 original size:91 final size:92
Alignment explanation
Indices: 463552--463773 Score: 365
Period size: 92 Copynumber: 2.4 Consensus size: 92
463542 TTCAAGGCCA
*
463552 GCTGATTCAAGGCCAGCGATATTGGACTTGAAGGTGCCAATGTGCTAATTCAAGGCCAGCGACAT
1 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTAATTCAAGGCCAGCGACAT
463617 TGGTCTTAAAGATAAAGGTGCCAATAT
66 TGGTCTTAAAGATAAAGGTGCCAATAT
* * * * * *
463644 GCTGATTCAAGGCCAACAATATTAGACTTAAAGGTGCCAATGTGCTGATTCAAGGCTAGCGATAT
1 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTAATTCAAGGCCAGCGACAT
463709 TGGTCTTAAAGAT-AAGGTGCCAATAT
66 TGGTCTTAAAGATAAAGGTGCCAATAT
*
463735 GCTGATTTAAGGCCAGCGATATTGGACTTAAAGGTGCCA
1 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCA
463774 TGGAGTTGTG
Statistics
Matches: 119, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
91 48 0.40
92 71 0.60
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (92 bp):
GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTAATTCAAGGCCAGCGACAT
TGGTCTTAAAGATAAAGGTGCCAATAT
Found at i:463807 original size:34 final size:33
Alignment explanation
Indices: 463764--464692 Score: 802
Period size: 33 Copynumber: 28.8 Consensus size: 33
463754 TATTGGACTT
* *
463764 AAAGGTGCCATGGAGTTGTGGACTT-ATAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
463796 AAAGGGATGCCACGAAGGTGTAGG-CTTAAAAGGGAA
1 AAA-GG-TGCCACGGAGTTGT-GGACTTAAAA-GGAA
* ** *
463832 AATGGTGCCACGGAGTCATGGACTTAAAAAG-A
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
463864 AAAGGTGCCACGGAGTTGTAGACTTAAAA-GAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
463896 ACAAGGTGCCATGGAGTTGTGGACTTAAAAAGAA
1 A-AAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
463930 AAAGATGCCACGAAGTTGTGGACTTAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
463960 ---GGTGCCACGGAGTTATGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
463990 AAAGATACCACGGAGTTGTAGACTT------AA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
464017 AAAGGTGCCA-GAGAGTCGTGGACTTAAAAAG-A
1 AAAGGTGCCACG-GAGTTGTGGACTTAAAAGGAA
* *
464049 AAAGGTGCCACGGAGTTATGGATTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* ** *
464082 CAAGGTGCCATAGAGTTGTGAACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
464115 AAAGATGCCATGGAGTTGTGAACTTAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
464145 ---GGTGCCACGAAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
464175 AAAGAGTGCCACGGAATTGT-GAGCTTTAAAAGGAA
1 AAAG-GTGCCACGGAGTTGTGGA-C-TTAAAAGGAA
*
464210 AAAGGTGCCACGGAGTTGTGGACTT-ATAGG--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
464240 ---GGTGCCACGTAGTTGTGGACTT-ACAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* ** *
464269 AAACGAATGCCATAGAGGTGTAGG-CTTAAAAAGGAA
1 AAA-G-GTGCCACGGAGTTGT-GGACTT-AAAAGGAA
* * *
464305 CAAGGTGCCACGGAGTCGTGGACTTAAAAAG-A
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
464337 AAAGGTGCCACGAAGTTGTAGACTTAAAAAG-A
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
464369 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
464402 CAAGGTGCCACGGAGTTATGGACTT-ATAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
** * *
464434 AAACGGATGCCATAGAGGTGTGGGCTTAAAAAGGAA
1 AAA-GG-TGCCACGGAGTTGTGGACTT-AAAAGGAA
* * *
464470 CAAGGTGCCACGGAGTCGTGGACTTAAAAAG-A
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* ** *
464502 AAAGGTGCCACAGAGTCATGGACTTAAAA-AAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
464534 GTAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
1 --AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* ** *
464569 CAAGGTGCCATAGAGTTGTGGACTTAAAAGGGA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
464602 AAAGGTGCCACGGAGTTATGGACTTAAAAGG-A
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
464634 AAATGTGCCACGGAGTTGTGGGCTTAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAA-GGAA
* * *
464668 AAGGGTGCCACGAAGTCGTGGACTT
1 AAAGGTGCCACGGAGTTGTGGACTT
464693 TGAAAAGAGA
Statistics
Matches: 727, Mismatches: 114, Indels: 110
0.76 0.12 0.12
Matches are distributed among these distances:
26 1 0.00
27 91 0.13
28 2 0.00
31 1 0.00
32 183 0.25
33 231 0.32
34 167 0.23
35 29 0.04
36 22 0.03
ACGTcount: A:0.37, C:0.13, G:0.31, T:0.19
Consensus pattern (33 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
Done.