Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1427
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: 86863
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Found at i:8318 original size:55 final size:54
Alignment explanation
Indices: 8038--8592 Score: 559
Period size: 55 Copynumber: 10.0 Consensus size: 54
8028 GATGTCTTTT
* * *
8038 CCTTTTAAAAGCCCCCACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCGGGACGC
1 CCTTTT-AAAGCCCACACAAGTTGGTGGCATTTTC-AGTCCTCAAAGAGCAGGAC-A
** * *
8095 CTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGC
1 C----CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGAC-A
** **
8154 CTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGTTTTT
1 C----CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGA-----CA
* * * * * * *
8217 TCTTTTCAAAGCCCATACAAGTTGGTGGCACCTTTCAGACCCCAAAGAACAGGACC
1 CCTTTT-AAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGACA
*
8273 CCTTTTGAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCAGGACA
*
8328 CCTTTTAAAGCCCACACAAGTTGGTGG------CA-TCCTCAAAGAGCTGGACA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGACA
* *
8375 CCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTT-AGTCCCCAAAGAGCAGGACA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA--TTTTCAGTCCTCAAAGAGCAGGACA
* * *
8430 CCTTTCAAAGCCCACACAAGTTGGTGGAATTTTCCAGTCCTCAAAGAGCAAGACA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCAGGACA
* *
8485 CCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGACA
* * *
8540 CCTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGA
8593 TACACTTTAT
Statistics
Matches: 432, Mismatches: 42, Indels: 50
0.82 0.08 0.10
Matches are distributed among these distances:
47 43 0.10
48 2 0.00
53 4 0.01
54 4 0.01
55 218 0.50
56 8 0.02
57 1 0.00
59 81 0.19
60 47 0.11
61 24 0.06
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (54 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGACA
Found at i:8510 original size:157 final size:159
Alignment explanation
Indices: 8045--8592 Score: 548
Period size: 157 Copynumber: 3.3 Consensus size: 159
8035 TTTCCTTTTA
* * * * *
8045 AAAGCCCCCACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAG
1 AAAGCCCACACAAGTTGGTGGCACCTTT-TAGTCCCCAAAGAGCAGGACACC-TTTC----AAAG
* ** ** *
8109 CCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCAC
60 CCCACACAAGTTGGTGGAATTTTCCAGTCCTCAAAGAGCAAGACACC---TC--TTAAAGCCCAC
** *
8173 ACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGTTTTTTCTTTTC
120 ACAAGTTGGTGG---C--CAGTCCTCAAAGAGCAGGA------CACCTTTC
* * * * * **
8224 AAAGCCCATACAAGTTGGTGGCACCTTTCAGACCCCAAAGAACAGGACCCCTTTTGAAGCCCACA
1 AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACA
* * *
8289 CAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTG
66 CAAGTTGGTGGAATTTTCCAGTCCTCAAAGAGCAAGACACCTCTTAAAGCCCACACAAGTTGGTG
*
8354 G-CA-TCCTCAAAGAGCTGGACACCTCTT-
131 GCCAGTCCTCAAAGAGCAGGACACCT-TTC
8381 AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACA
1 AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACA
8446 CAAGTTGGTGGAATTTTCCAGTCCTCAAAGAGCAAGACACCTCTTAAAGCCCACACAAGTTGGTG
66 CAAGTTGGTGGAATTTTCCAGTCCTCAAAGAGCAAGACACCTCTTAAAGCCCACACAAGTTGGTG
8511 GCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTC
131 G---C---CAGTCCTCAAAGAGCAGGACACCTTTC
* * *
8546 AAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGA
1 AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCCCAAAGAGCAGGA
8593 TACACTTTAT
Statistics
Matches: 323, Mismatches: 34, Indels: 38
0.82 0.09 0.10
Matches are distributed among these distances:
157 123 0.38
158 2 0.01
163 15 0.05
164 6 0.02
165 64 0.20
170 23 0.07
172 1 0.00
174 24 0.07
175 21 0.07
178 3 0.01
179 38 0.12
180 3 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (159 bp):
AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACA
CAAGTTGGTGGAATTTTCCAGTCCTCAAAGAGCAAGACACCTCTTAAAGCCCACACAAGTTGGTG
GCCAGTCCTCAAAGAGCAGGACACCTTTC
Found at i:8534 original size:212 final size:214
Alignment explanation
Indices: 8045--8568 Score: 590
Period size: 212 Copynumber: 2.4 Consensus size: 214
8035 TTTCCTTTTA
* * *
8045 AAAGCCCCCACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGC
1 AAAGCCCACACAAGTTGGTGGCATTTTC-AGTCCTCAAAGAGCAGGAC-AC----CTTTTAAAGC
*
8110 CCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACAC
60 CCACACAAGTTGGTGG------CAGTCCTCAAAGAGCGGGACACC--TTC-TTTAAAGCCCACAC
* ** * *
8175 AAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGTTTTTTCTTTTCAAAGCCCATACAAGTT
116 AAGTTGGTGGCACCTTCAGTCCCCAAAGAGCAGGA-----TCACCTTTCAAAGCCCACACAAGTT
* * * *
8240 GGTGGCACCTTTCAGACCCCAAAGAACAGGACCCCTTTT
176 GGTGGCAACTTTCAGACCCCAAAGAACAAGACACCTCTT
*
8279 GAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACA
1 AAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACA
*
8344 CAAGTTGGTGGCA-TCCTCAAAGAGCTGGACACC-TC-TTAAAGCCCACACAAGTTGGTGGCACC
65 CAAGTTGGTGGCAGTCCTCAAAGAGCGGGACACCTTCTTTAAAGCCCACACAAGTTGGTGGCACC
* * *
8406 TTTTAGTCCCCAAAGAGCAGGA-CACCTTTCAAAGCCCACACAAGTTGGTGG-AATTTTCCAGTC
130 -TTCAGTCCCCAAAGAGCAGGATCACCTTTCAAAGCCCACACAAGTTGGTGGCAACTTT-CAGAC
* *
8469 CTCAAAGAGCAAGACACCTCTT
193 CCCAAAGAACAAGACACCTCTT
* *
8491 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACA
1 AAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACA
*
8556 CGAGTTGGTGGCA
65 CAAGTTGGTGGCA
8569 CTTTTTAGTC
Statistics
Matches: 262, Mismatches: 24, Indels: 30
0.83 0.08 0.09
Matches are distributed among these distances:
211 4 0.02
212 116 0.44
213 3 0.01
217 27 0.10
218 19 0.07
219 2 0.01
222 18 0.07
223 2 0.01
229 26 0.10
233 1 0.00
234 43 0.16
235 1 0.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (214 bp):
AAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACAC
AAGTTGGTGGCAGTCCTCAAAGAGCGGGACACCTTCTTTAAAGCCCACACAAGTTGGTGGCACCT
TCAGTCCCCAAAGAGCAGGATCACCTTTCAAAGCCCACACAAGTTGGTGGCAACTTTCAGACCCC
AAAGAACAAGACACCTCTT
Found at i:9302 original size:21 final size:21
Alignment explanation
Indices: 9278--9335 Score: 116
Period size: 21 Copynumber: 2.8 Consensus size: 21
9268 AATTTATCCA
9278 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTGG
9299 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTGG
9320 AATGTATCGATACATT
1 AATGTATCGATACATT
9336 CTACAAATGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (21 bp):
AATGTATCGATACATTTGTGG
Found at i:9344 original size:21 final size:21
Alignment explanation
Indices: 9276--9354 Score: 97
Period size: 21 Copynumber: 3.8 Consensus size: 21
9266 AAAATTTATC
9276 CAAATGTATCGATACATTTGT
1 CAAATGTATCGATACATTTGT
**
9297 GGAATGTATCGATACATTTGT
1 CAAATGTATCGATACATTTGT
** *
9318 GGAATGTATCGATACATTCT-A
1 CAAATGTATCGATACATT-TGT
9339 CAAATGTATCGATACA
1 CAAATGTATCGATACA
9355 GGGTCCCAAC
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
21 51 0.98
22 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (21 bp):
CAAATGTATCGATACATTTGT
Found at i:9415 original size:19 final size:18
Alignment explanation
Indices: 9389--9457 Score: 76
Period size: 19 Copynumber: 4.0 Consensus size: 18
9379 AATTTCAGCG
9389 ATTTGTATCGATACATAA
1 ATTTGTATCGATACATAA
9407 ATGTTGTATCGATAC---A
1 AT-TTGTATCGATACATAA
9423 A--TGTATCGATACATAA
1 ATTTGTATCGATACATAA
*
9439 GTATTGTATCGATACATAA
1 AT-TTGTATCGATACATAA
9458 TTAGCTACTA
Statistics
Matches: 43, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.26
16 3 0.07
18 2 0.05
19 27 0.63
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (18 bp):
ATTTGTATCGATACATAA
Found at i:9428 original size:32 final size:32
Alignment explanation
Indices: 9392--9454 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
9382 TTCAGCGATT
*
9392 TGTATCGATACATAAATGTTGTATCGATACAA
1 TGTATCGATACATAAATATTGTATCGATACAA
*
9424 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAATATTGTATCGATACA
9455 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:0.16, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAATATTGTATCGATACAA
Found at i:9429 original size:13 final size:13
Alignment explanation
Indices: 9411--9435 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9401 ACATAAATGT
9411 TGTATCGATACAA
1 TGTATCGATACAA
9424 TGTATCGATACA
1 TGTATCGATACA
9436 TAAGTATTGT
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:11952 original size:51 final size:53
Alignment explanation
Indices: 11888--12280 Score: 203
Period size: 52 Copynumber: 7.5 Consensus size: 53
11878 AGTTTCTCAA
* * * *
11888 TTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* *
11939 TT-TTCTATAATCGGGGATACTCCAGCTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
* * * * * *
11993 TTCTTCACAATCGGGGATACTCCAAC-CCCA-TTAATCATCGGGGATACTCCAAC-CCCAT
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTAT-TTC---CA-A---AAACACCAAT
* * * * * ***
12051 TAT-TTC-CGA--GGGGATCCTCCAAC-CCTGACTTTATTTTC-AAAATATTGAT
1 T-TCTTCACAATCGGGGATACTCCAACTCC-GATTTTATTTCCAAAAACACCAAT
* * * * * *
12100 TT-TTCATAATCGGGGATACTCCAACCCCGGTTTTA-TTGCTAAAACACTAAT
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* * * * *
12151 TT-TTCCACAATCGAGGATACTCTAACCCCGGTTTTATTTTC-AAAACACCAATT
1 TTCTT-CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAA-T
* * *
12204 TTCCTT--TAATCGGGGATACTCCAACTCCAATTTTATTTCCAAAAATACCAAT
1 TT-CTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
*
12256 TT-TTCACAATCGAGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
12281 CTCGTTATTT
Statistics
Matches: 262, Mismatches: 50, Indels: 59
0.71 0.13 0.16
Matches are distributed among these distances:
48 6 0.02
49 4 0.02
50 7 0.03
51 64 0.24
52 90 0.34
53 29 0.11
54 20 0.08
55 21 0.08
56 3 0.01
57 6 0.02
58 8 0.03
59 4 0.02
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.32
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:12072 original size:28 final size:27
Alignment explanation
Indices: 12005--12075 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
11995 CTTCACAATC
**
12005 GGGGATACTCCAACCCCATTAATCATC
1 GGGGATACTCCAACCCCATTAATCAGA
* *
12032 GGGGATACTCCAACCCCATTATTTCCGA
1 GGGGATACTCCAACCCCATTA-ATCAGA
*
12060 GGGGATCCTCCAACCC
1 GGGGATACTCCAACCC
12076 TGACTTTATT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
27 21 0.55
28 17 0.45
ACGTcount: A:0.25, C:0.35, G:0.18, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCATTAATCAGA
Found at i:25088 original size:9 final size:8
Alignment explanation
Indices: 25066--25180 Score: 90
Period size: 8 Copynumber: 13.9 Consensus size: 8
25056 TCCTTCGTAC
25066 CAAAAAAA
1 CAAAAAAA
25074 CAAAAATAAA
1 C-AAAA-AAA
25084 CAAAAAAA
1 CAAAAAAA
25092 CAAACAAAA
1 CAAA-AAAA
25101 C-AAAAAA
1 CAAAAAAA
*
25108 -AACAAAA
1 CAAAAAAA
*
25115 TAAAAAAA
1 CAAAAAAA
25123 CAGAAAAAA
1 CA-AAAAAA
* *
25132 CCAAAAAC
1 CAAAAAAA
25140 CAAAAACAAA
1 C-AAAA-AAA
*
25150 CAAACAAA
1 CAAAAAAA
* *
25158 CAAACAAC
1 CAAAAAAA
*
25166 CAAACAAA
1 CAAAAAAA
25174 CAAAAAA
1 CAAAAAA
25181 GGGGTCTAGA
Statistics
Matches: 88, Mismatches: 11, Indels: 16
0.77 0.10 0.14
Matches are distributed among these distances:
7 9 0.10
8 46 0.52
9 26 0.30
10 7 0.08
ACGTcount: A:0.79, C:0.18, G:0.01, T:0.02
Consensus pattern (8 bp):
CAAAAAAA
Found at i:25089 original size:18 final size:17
Alignment explanation
Indices: 25066--25180 Score: 94
Period size: 17 Copynumber: 6.9 Consensus size: 17
25056 TCCTTCGTAC
25066 CAAAAAAACAAAAATAAA
1 CAAAAAAACAAAAA-AAA
*
25084 CAAAAAAACAAACAAAA
1 CAAAAAAACAAAAAAAA
*
25101 C--AAAAA-AAACAAAA
1 CAAAAAAACAAAAAAAA
* *
25115 TAAAAAAACAGAAAAAA
1 CAAAAAAACAAAAAAAA
* *
25132 CCAAAAACCAAAAACAAA
1 CAAAAAAACAAAAA-AAA
* * *
25150 CAAACAAAC-AAACAAC
1 CAAAAAAACAAAAAAAA
*
25166 CAAACAAACAAAAAA
1 CAAAAAAACAAAAAA
25181 GGGGTCTAGA
Statistics
Matches: 78, Mismatches: 14, Indels: 11
0.76 0.14 0.11
Matches are distributed among these distances:
14 8 0.10
15 5 0.06
16 16 0.21
17 27 0.35
18 22 0.28
ACGTcount: A:0.79, C:0.18, G:0.01, T:0.02
Consensus pattern (17 bp):
CAAAAAAACAAAAAAAA
Found at i:25096 original size:12 final size:12
Alignment explanation
Indices: 25075--25180 Score: 88
Period size: 12 Copynumber: 8.3 Consensus size: 12
25065 CCAAAAAAAC
*
25075 AAAAATAAACAA
1 AAAAACAAACAA
25087 AAAAACAAACAAA
1 AAAAACAAAC-AA
*
25100 ACAAAAAAAACAA
1 A-AAAACAAACAA
*
25113 AATAAAAAAACAGA
1 AA-AAACAAACA-A
25127 AAAAACCAAA-AA
1 AAAAA-CAAACAA
25139 CCAAAAACAAACAA
1 --AAAAACAAACAA
*
25153 ACAAACAAACAA
1 AAAAACAAACAA
**
25165 CCAAACAAACAA
1 AAAAACAAACAA
25177 AAAA
1 AAAA
25181 GGGGTCTAGA
Statistics
Matches: 79, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
12 35 0.44
13 23 0.29
14 21 0.27
ACGTcount: A:0.79, C:0.18, G:0.01, T:0.02
Consensus pattern (12 bp):
AAAAACAAACAA
Found at i:25098 original size:4 final size:4
Alignment explanation
Indices: 25081--25177 Score: 72
Period size: 4 Copynumber: 23.8 Consensus size: 4
25071 AAACAAAAAT
* * * * *
25081 AAAC AAAA AAAC AAAC AAAAC AAAAA AAAC AAAAT AAAA AAAC AGAAA
1 AAAC AAAC AAAC AAAC -AAAC -AAAC AAAC -AAAC AAAC AAAC A-AAC
* * *
25129 AAAC CAA- AAAC CAA- AAAC AAAC AAAC AAAC AAAC AACC AAAC AAAC
1 AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAC
25175 AAA
1 AAA
25178 AAAGGGGTCT
Statistics
Matches: 73, Mismatches: 15, Indels: 10
0.74 0.15 0.10
Matches are distributed among these distances:
3 4 0.05
4 55 0.75
5 14 0.19
ACGTcount: A:0.78, C:0.20, G:0.01, T:0.01
Consensus pattern (4 bp):
AAAC
Found at i:25129 original size:23 final size:23
Alignment explanation
Indices: 25066--25164 Score: 77
Period size: 22 Copynumber: 4.5 Consensus size: 23
25056 TCCTTCGTAC
*
25066 CAAAA-AAACAAAA-ATAAACAAA
1 CAAAACAAACAAAACA-AAAAAAA
25088 -AAAACAAACAAAACAAAAAAAA
1 CAAAACAAACAAAACAAAAAAAA
* *
25110 CAAAATAAA-AAAACAGAAAAAA
1 CAAAACAAACAAAACAAAAAAAA
* * *
25132 CCAAA-AACCAAAA-ACAAACAAA
1 CAAAACAAACAAAACA-AAAAAAA
25154 C-AAACAAACAA
1 CAAAACAAACAA
25165 CCAAACAAAC
Statistics
Matches: 63, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
21 10 0.16
22 45 0.71
23 8 0.13
ACGTcount: A:0.80, C:0.17, G:0.01, T:0.02
Consensus pattern (23 bp):
CAAAACAAACAAAACAAAAAAAA
Found at i:30083 original size:52 final size:49
Alignment explanation
Indices: 30027--30593 Score: 332
Period size: 49 Copynumber: 12.5 Consensus size: 49
30017 CGCTGAGATG
* *
30027 AGGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGCCAATATGCTGATTCA
1 AGGCCAGCGATATTGGGCTTA--AA-GATAAAGATGCCAATATGCTGATTCA
** * * * * *
30079 AGGCCAATGATATCGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCA
1 AGGCCAGCGATATTGGGCTTAAAGATAAAGATGCCAATATGCTGATTCA
* *
30128 AGGCCAGCGATATTGGGC-T-----T---G-TGCTAATGTGCTGATTCA
1 AGGCCAGCGATATTGGGCTTAAAGATAAAGATGCCAATATGCTGATTCA
* * * *
30167 AGGCCAGCGACATTGGTCTTAAAGGT-AAGGTGCCAATATGCTGATTCA
1 AGGCCAGCGATATTGGGCTTAAAGATAAAGATGCCAATATGCTGATTCA
** *
30215 AGGCCAATGATATTGGGC-T-----T----ATGCCAATGTGCTGATTCA
1 AGGCCAGCGATATTGGGCTTAAAGATAAAGATGCCAATATGCTGATTCA
* * ** *
30254 AGGCCAACGACATTGTTCTTAAAGATGAAAG-TGCCAATGTGCTGATTCA
1 AGGCCAGCGATATTGGGCTTAAAGAT-AAAGATGCCAATATGCTGATTCA
* *
30303 AGGCCAGCGATATTGGGC-T-----T---G-TGCTAATGTGCTGATTCA
1 AGGCCAGCGATATTGGGCTTAAAGATAAAGATGCCAATATGCTGATTCA
* * * * *
30342 AGGCCAACGACATTGGTCTTAAAGATAAAGGTGCCACTATGCTGATTCA
1 AGGCCAGCGATATTGGGCTTAAAGATAAAGATGCCAATATGCTGATTCA
* * *
30391 AGGCCAGCGATATTGGACTTAAAG-----G-TGCTAATGTGCTGATTCA
1 AGGCCAGCGATATTGGGCTTAAAGATAAAGATGCCAATATGCTGATTCA
* * * * *
30434 AGGCTAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCA
1 AGGCCAGCGATATTGGGCTTAAAGATAAAGATGCCAATATGCTGATTCA
*
30483 AGGCCAGCGATATTGGGC-T-----T---G-TGCCAATGTGCTGATTCA
1 AGGCCAGCGATATTGGGCTTAAAGATAAAGATGCCAATATGCTGATTCA
* * * * * *
30522 AGGCCAACGACATTGGTCTTAAAGA-CAAGGTGCCAATATGTTGATTCA
1 AGGCCAGCGATATTGGGCTTAAAGATAAAGATGCCAATATGCTGATTCA
* *
30570 AGGCCAGCAATATTGGACTTAAAG
1 AGGCCAGCGATATTGGGCTTAAAG
30594 GTGCCACGGA
Statistics
Matches: 406, Mismatches: 63, Indels: 96
0.72 0.11 0.17
Matches are distributed among these distances:
39 129 0.32
40 6 0.01
42 1 0.00
43 39 0.10
44 1 0.00
45 3 0.01
47 3 0.01
48 71 0.17
49 135 0.33
50 2 0.00
52 16 0.04
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (49 bp):
AGGCCAGCGATATTGGGCTTAAAGATAAAGATGCCAATATGCTGATTCA
Found at i:30122 original size:49 final size:48
Alignment explanation
Indices: 30061--30593 Score: 419
Period size: 39 Copynumber: 11.9 Consensus size: 48
30051 ATGTTAAAGA
* ** * *
30061 TGCCAATATGCTGATTCAAGGCCAATGATATCGGACTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGAT-AAGG
*
30110 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGC-T-----T---G
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATAAGG
* * *
30149 TGCTAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGGTAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATAAGG
* ** *
30197 TGCCAATATGCTGATTCAAGGCCAATGATATTGGGC-T-----T-A--
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATAAGG
* * * *
30236 TGCCAATGTGCTGATTCAAGGCCAACGACATTGTTCTTAAAGATGAAAG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGAT-AAGG
*
30285 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGC-T-----T---G
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATAAGG
* * *
30324 TGCTAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGAT-AAGG
* * *
30373 TGCCACTATGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATAAGG
* * *
30416 TGCTAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGAT-AAGG
* *
30465 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T---G
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATAAGG
* * *
30504 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATAAGG
* * * *
30552 TGCCAATATGTTGATTCAAGGCCAGCAATATTGGACTTAAAG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGTCTTAAAG
30594 GTGCCACGGA
Statistics
Matches: 385, Mismatches: 55, Indels: 89
0.73 0.10 0.17
Matches are distributed among these distances:
39 131 0.34
40 4 0.01
41 1 0.00
42 1 0.00
43 39 0.10
45 4 0.01
47 3 0.01
48 71 0.18
49 131 0.34
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (48 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATAAGG
Found at i:30322 original size:88 final size:88
Alignment explanation
Indices: 30060--30590 Score: 760
Period size: 88 Copynumber: 6.0 Consensus size: 88
30050 AATGTTAAAG
* * * * * *
30060 ATGCCAATATGCTGATTCAAGGCCAATGATATCGGACTTAAAGATGAAGGTGCCAATGTGCTGAT
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
30125 TCAAGGCCAGCGATATTGGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
* * * *
30148 GTGCTAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGGT-AAGGTGCCAATATGCTGAT
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
**
30212 TCAAGGCCAATGATATTGGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
* * *
30235 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGTTCTTAAAGATGAAAGTGCCAATGTGCTGAT
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
30300 TCAAGGCCAGCGATATTGGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
* * * *
30323 GTGCTAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATAAAGGTGCCACTATGCTGAT
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
*
30388 TCAAGGCCAGCGATATTGGACTT
66 TCAAGGCCAGCGATATTGGGCTT
* * *
30411 AAAGGTGCTAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGC
1 --A--TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGC
30476 TGATTCAAGGCCAGCGATATTGGGCTT
62 TGATTCAAGGCCAGCGATATTGGGCTT
* * *
30503 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGA-CAAGGTGCCAATATGTTGAT
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
* *
30567 TCAAGGCCAGCAATATTGGACTT
66 TCAAGGCCAGCGATATTGGGCTT
30590 A
1 A
30591 AAGGTGCCAC
Statistics
Matches: 394, Mismatches: 44, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
87 118 0.30
88 194 0.49
92 82 0.21
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (88 bp):
ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
TCAAGGCCAGCGATATTGGGCTT
Found at i:30355 original size:175 final size:176
Alignment explanation
Indices: 30060--30591 Score: 823
Period size: 175 Copynumber: 3.0 Consensus size: 176
30050 AATGTTAAAG
* * * * *
30060 ATGCCAATATGCTGATTCAAGGCCAATGATATCGGACTTAAAGATGAAGGTGCCAATGTGCTGAT
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATGTGCTGAT
*
30125 TCAAGGCCAGCGATATTGGGCTTGTGCTAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA
66 TCAAGGCCAGCGATATTGGGCTTGTGCTAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAA
* * *
30190 GGTAAGGTGCCAATATGCTGATTCAAGGCCAATGATATTGGGCTT-
131 GATAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTA
* *
30235 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGTTCTTAAAGATGAAAGTGCCAATGTGCTGAT
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATGTGCTGAT
30300 TCAAGGCCAGCGATATTGGGCTTGTGCTAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAA
66 TCAAGGCCAGCGATATTGGGCTTGTGCTAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAA
* *
30365 GATAAAGGTGCCACTATGCTGATTCAAGGCCAGCGATATTGGACTTAA
131 GAT-AAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT-A
* * * *
30413 AGGTGCTAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTG
1 A--TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATGTGCTG
*
30478 ATTCAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTA
64 ATTCAAGGCCAGCGATATTGGGCTTGTGCTAATGTGCTGATTCAAGGCCAACGACATTGGTCTTA
* * * *
30543 AAGACAAGGTGCCAATATGTTGATTCAAGGCCAGCAATATTGGACTTA
129 AAGATAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTA
30591 A
1 A
30592 AGGTGCCACG
Statistics
Matches: 328, Mismatches: 24, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
175 124 0.38
176 38 0.12
178 3 0.01
179 39 0.12
180 124 0.38
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (176 bp):
ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATGTGCTGAT
TCAAGGCCAGCGATATTGGGCTTGTGCTAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAA
GATAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTA
Found at i:30506 original size:180 final size:179
Alignment explanation
Indices: 30054--30599 Score: 857
Period size: 180 Copynumber: 3.1 Consensus size: 179
30044 CTTAGGAATG
* * * * * *
30054 TTAAAGATGCCAATATGCTGATTCAAGGCCAATGATATCGGACTTAAAGATGAAGGTGCCAATGT
1 TTAAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATGT
*
30119 GCTGATTCAAGGCCAGCGATATTGGGCTTGTGCTAATGTGCTGATTCAAGGCCAGCGACATTGGT
66 GCTGATTCAAGGCCAGCGATATTGGGCTTGTGCTAATGTGCTGATTCAAGGCCAACGACATTGGT
* ** *
30184 CTTAAAGGTAAGGTGCCAATATGCTGATTCAAGGCCAATGATATTGGGC
131 CTTAAAGATAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
30233 TT--A--TGCCAATGTGCTGATTCAAGGCCAACGACATTGTTCTTAAAGATGAAAGTGCCAATGT
1 TTAAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATGT
30294 GCTGATTCAAGGCCAGCGATATTGGGCTTGTGCTAATGTGCTGATTCAAGGCCAACGACATTGGT
66 GCTGATTCAAGGCCAGCGATATTGGGCTTGTGCTAATGTGCTGATTCAAGGCCAACGACATTGGT
*
30359 CTTAAAGATAAAGGTGCCACTATGCTGATTCAAGGCCAGCGATATTGGAC
131 CTTAAAGAT-AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * * *
30409 TTAAAGGTGCTAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGATGAAGGTGCCAATAT
1 TTAAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATGT
*
30474 GCTGATTCAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGT
66 GCTGATTCAAGGCCAGCGATATTGGGCTTGTGCTAATGTGCTGATTCAAGGCCAACGACATTGGT
* * *
30539 CTTAAAGACAAGGTGCCAATATGTTGATTCAAGGCCAGCAATATTGGAC
131 CTTAAAGATAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
30588 TTAAAGGTGCCA
1 TTAAAGGTGCCA
30600 CGGAGTTGTG
Statistics
Matches: 337, Mismatches: 25, Indels: 10
0.91 0.07 0.03
Matches are distributed among these distances:
175 123 0.36
176 38 0.11
177 1 0.00
178 1 0.00
179 50 0.15
180 124 0.37
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (179 bp):
TTAAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATGT
GCTGATTCAAGGCCAGCGATATTGGGCTTGTGCTAATGTGCTGATTCAAGGCCAACGACATTGGT
CTTAAAGATAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
Found at i:30633 original size:34 final size:32
Alignment explanation
Indices: 30590--31094 Score: 322
Period size: 34 Copynumber: 15.7 Consensus size: 32
30580 TATTGGACTT
*
30590 AAAGGTGCCACGGAGTTGTGGACTTATAAGAAA
1 AAAGGTGCCACGGAGTTGTGGACTTA-AAGGAA
* * *
30623 AAAGGATGCCACGGAGGTGTGGGCTTAAAAGGGA
1 AAAGG-TGCCACGGAGTTGTGGACTT-AAAGGAA
* * *
30657 AAAGGCTGCCACAGAGTTGTGAACTTAAAAAGAA
1 AAAGG-TGCCACGGAGTTGTGGACTT-AAAGGAA
* *
30691 AAAGATGCCAAGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTT-AAAGGAA
* *
30724 CAAGGTGCCACGCAGTTGTGGACTTGAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGACTT-AAA-GGAA
* * * *
30758 AAGGGTGCCACGAAGTCGTGGACTTAAA-AAGA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAGGA-A
30790 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTT-AAAGGAA
*
30823 CAAGGTGCCACGGAGTTGTGGACTT-----AA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAGGAA
* ** ** *
30850 AAGGGTGCCATAGAGTTGTGGGTTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGT-GGACTT-AAAGGAA
30884 AAAGGTGCCACGGAGTTGTGGACTT-----AA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAGGAA
* ** *
30911 AAGGGTGCCACAAAGTTGTGGACTTTGAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGAC-TT-AAAGGAA
* * *
30945 AAAGGTGCCACAGAGTCGTGGACTTTGAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGAC-TT-AAAGGAA
* ** * *
30979 AAAGGTGCCACAGAGTCATGGACTT--TGGGA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAGGAA
* * * *
31009 AGAGATGCCACTGAGTCGTGGACTT--A-GAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAGGAA
* * * * *
31038 AAGAGATGCCACTGAGTTGTCGACTTTGAAGAAA
1 AA-AGGTGCCACGGAGTTGTGGAC-TTAAAGGAA
* * *
31072 AAAGATGCCACTGAGTCGTGGAC
1 AAAGGTGCCACGGAGTTGTGGAC
31095 ATTGGGAAAA
Statistics
Matches: 383, Mismatches: 64, Indels: 50
0.77 0.13 0.10
Matches are distributed among these distances:
27 39 0.10
28 6 0.02
29 3 0.01
30 42 0.11
31 3 0.01
32 23 0.06
33 110 0.29
34 156 0.41
35 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.31, T:0.20
Consensus pattern (32 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAGGAA
Found at i:30700 original size:33 final size:33
Alignment explanation
Indices: 30590--31003 Score: 358
Period size: 34 Copynumber: 12.8 Consensus size: 33
30580 TATTGGACTT
* *
30590 AAAGGTGCCACGGAGTTGTGGACTT-ATAAGAAA
1 AAAGGTGCCACAGAGTTGTGGACTTAAAAAG-AA
* * * * *
30623 AAAGGATGCCACGGAGGTGTGGGCTTAAAAGGGA
1 AAAGG-TGCCACAGAGTTGTGGACTTAAAAAGAA
*
30657 AAAGGCTGCCACAGAGTTGTGAACTTAAAAAGAA
1 AAAGG-TGCCACAGAGTTGTGGACTTAAAAAGAA
* *
30691 AAAGATGCCA-AGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACA-GAGTTGTGGACTTAAAAAGAA
* **
30724 CAAGGTGCCAC-GCAGTTGTGGACTTGAAAGGGAA
1 AAAGGTGCCACAG-AGTTGTGGACTT-AAAAAGAA
* *
30758 AAGGGTGCCAC-GAAGTCGTGGACTTAAAAAG-A
1 AAAGGTGCCACAG-AGTTGTGGACTTAAAAAGAA
* *
30790 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACAGAGTTGTGGACTTAAAAAGAA
* *
30823 CAAGGTGCCACGGAGTTGTGGACTT-AAAAG--
1 AAAGGTGCCACAGAGTTGTGGACTTAAAAAGAA
* **
30853 ---GGTGCCATAGAGTTGTGGGTTTTAAAAAGAA
1 AAAGGTGCCACAGAGTTGT-GGACTTAAAAAGAA
*
30884 AAAGGTGCCACGGAGTTGTGGACTT-AAAAG--
1 AAAGGTGCCACAGAGTTGTGGACTTAAAAAGAA
* *
30914 ---GGTGCCACAAAGTTGTGGACTTTGAAAAGAA
1 AAAGGTGCCACAGAGTTGTGGAC-TTAAAAAGAA
* *
30945 AAAGGTGCCACAGAGTCGTGGACTTTGAAAAGAA
1 AAAGGTGCCACAGAGTTGTGGAC-TTAAAAAGAA
**
30979 AAAGGTGCCACAGAGTCATGGACTT
1 AAAGGTGCCACAGAGTTGTGGACTT
31004 TGGGAAGAGA
Statistics
Matches: 317, Mismatches: 42, Indels: 44
0.79 0.10 0.11
Matches are distributed among these distances:
27 32 0.10
28 6 0.02
29 10 0.03
32 38 0.12
33 85 0.27
34 143 0.45
35 3 0.01
ACGTcount: A:0.36, C:0.14, G:0.32, T:0.19
Consensus pattern (33 bp):
AAAGGTGCCACAGAGTTGTGGACTTAAAAAGAA
Found at i:30865 original size:27 final size:27
Alignment explanation
Indices: 30756--30935 Score: 110
Period size: 27 Copynumber: 6.0 Consensus size: 27
30746 CTTGAAAGGG
*
30756 AAAAGGGTGCCAC-GAAGTCGTGGACTT
1 AAAAGGGTGCCACAG-AGTTGTGGACTT
*
30783 AAAAAGAAAAGGTGCCACGGAGTTGTGGACTT
1 -AAAAG----GGTGCCACAGAGTTGTGGACTT
*
30815 AAAAGGAACAAGGTGCCACGGAGTTGTGGACTT
1 AAAA-G-----GGTGCCACAGAGTTGTGGACTT
* **
30848 AAAAGGGTGCCATAGAGTTGTGGGTTTT
1 AAAAGGGTGCCACAGAGTTGT-GGACTT
*
30876 AAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT
1 -AAAAG-----GGTGCCACAGAGTTGTGGACTT
*
30909 AAAAGGGTGCCACAAAGTTGTGGACTT
1 AAAAGGGTGCCACAGAGTTGTGGACTT
30936 TGAAAAGAAA
Statistics
Matches: 126, Mismatches: 12, Indels: 29
0.75 0.07 0.17
Matches are distributed among these distances:
27 34 0.27
28 9 0.07
29 5 0.04
31 4 0.03
32 26 0.21
33 34 0.27
34 14 0.11
ACGTcount: A:0.33, C:0.13, G:0.32, T:0.21
Consensus pattern (27 bp):
AAAAGGGTGCCACAGAGTTGTGGACTT
Found at i:30899 original size:61 final size:62
Alignment explanation
Indices: 30592--30969 Score: 338
Period size: 61 Copynumber: 5.9 Consensus size: 62
30582 TTGGACTTAA
* * * *
30592 AGGTGCCACGGAGTTGTGGAC-TT-ATAAGAAAAAAGGATGCCACGGAGGTGTGGGCTTAAAAGG
1 AGGTGCCACAGAGTTGTGGACTTTAAAAAG-AAAAAGG-TGCCACGGAGTTGTGGACTTAAAA--
30655 G
62 G
* * *
30656 AAAAGGCTGCCACAGAGTTGTGAAC-TTAAAAAGAAAAAGATGCCAAGGAGTTGTGGACTTAAAA
1 ---AGG-TGCCACAGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAA
30720 GG
62 -G
* ** * * *
30722 AACAAGGTGCCAC-GCAGTTGTGGACTTGAAAGGGAAAAGGGTGCCACGAAGTCGTGGACTTAAA
1 ----AGGTGCCACAG-AGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT-AA
30786 AAG
60 AAG
* * *
30789 AAAAGGTGCCACGGAGTTGTGGAC-TTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAG
1 ---AGGTGCCACAGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAG
* **
30853 -GGTGCCATAGAGTTGTGGGTTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAG
1 AGGTGCCACAGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAG
* * * *
30914 -GGTGCCACAAAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAGAGTCGTGGACTT
1 AGGTGCCACAGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT
30970 TGAAAAGAAA
Statistics
Matches: 266, Mismatches: 37, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
60 16 0.06
61 87 0.33
64 5 0.02
65 30 0.11
66 38 0.14
67 58 0.22
68 28 0.11
69 4 0.02
ACGTcount: A:0.35, C:0.13, G:0.32, T:0.20
Consensus pattern (62 bp):
AGGTGCCACAGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAG
Found at i:31025 original size:30 final size:30
Alignment explanation
Indices: 30881--31296 Score: 292
Period size: 30 Copynumber: 13.5 Consensus size: 30
30871 GTTTTAAAAA
* * *
30881 GAAAA-AGGTGCCACGGAGTTGTGGAC-TT
1 GAAAAGAGATGCCACTGAGTCGTGGACTTT
* ** *
30909 -AAAAG-GGTGCCACAAAGTTGTGGACTTT
1 GAAAAGAGATGCCACTGAGTCGTGGACTTT
* *
30937 GAAAAGAAAAAGGTGCCACAGAGTCGTGGACTTT
1 GAAAAG----AGATGCCACTGAGTCGTGGACTTT
* * *
30971 GAAAAGAAAAAGGTGCCACAGAGTCATGGACTTT
1 GAAAAG----AGATGCCACTGAGTCGTGGACTTT
** *
31005 GGGAAGAGATGCCACTGAGTCGTGGACTTA
1 GAAAAGAGATGCCACTGAGTCGTGGACTTT
* *
31035 GAAAAGAGATGCCACTGAGTTGTCGACTTT
1 GAAAAGAGATGCCACTGAGTCGTGGACTTT
* *
31065 GAAGAAAAAAGATGCCACTGAGTCGTGGACATT
1 ---GAAAAGAGATGCCACTGAGTCGTGGACTTT
** * * *
31098 GGGAA-A-ATGCCACCGAGTTGTGGATTTT
1 GAAAAGAGATGCCACTGAGTCGTGGACTTT
* *
31126 GAGAAA-AGATGCCACTAAGTCATGGA-TTT
1 GA-AAAGAGATGCCACTGAGTCGTGGACTTT
* * *
31155 -AAAAGAAAAGGATGCCACTAAGTCGTGGGCTTA
1 GAAAAG---A-GATGCCACTGAGTCGTGGACTTT
*
31188 GAAAAGAGATGCCACTGAGTCGTGGACTTA
1 GAAAAGAGATGCCACTGAGTCGTGGACTTT
*
31218 GAAAAGAGATGCCACTGAGTTGTGGACTTT
1 GAAAAGAGATGCCACTGAGTCGTGGACTTT
* * *
31248 GAAGAAAAAAGATGCCATTGAGTCGTGGACTTA
1 ---GAAAAGAGATGCCACTGAGTCGTGGACTTT
31281 GAAAAGAGATGCCACT
1 GAAAAGAGATGCCACT
31297 AAAGTCTGGC
Statistics
Matches: 320, Mismatches: 45, Indels: 44
0.78 0.11 0.11
Matches are distributed among these distances:
27 25 0.08
28 22 0.07
29 12 0.04
30 125 0.39
31 2 0.01
32 17 0.05
33 54 0.17
34 63 0.20
ACGTcount: A:0.35, C:0.15, G:0.29, T:0.21
Consensus pattern (30 bp):
GAAAAGAGATGCCACTGAGTCGTGGACTTT
Found at i:31088 original size:93 final size:92
Alignment explanation
Indices: 30941--31296 Score: 400
Period size: 93 Copynumber: 3.9 Consensus size: 92
30931 GACTTTGAAA
* * * * * * *
30941 AGAAAAAGGTGCCACAGAGTCGTGGACTTTGAAAAGAAAAAGGTGCCACAGAGTCATGGACTTTG
1 AGAAAAAGATGCCACTGAGTCGTGGACTTTGAAGA-AAAAAGATGCCACTGAGTCGTGGACTTAG
**
31006 GGAAGAGATGCCACTGAGTCGTGGACTT
65 AAAAGAGATGCCACTGAGTCGTGGACTT
* *
31034 AGAAAAGAGATGCCACTGAGTTGTCGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACATT-
1 AGAAAA-AGATGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGAC-TTA
** * * *
31098 GGGAA-A-ATGCCACCGAGTTGTGGATTT
64 GAAAAGAGATGCCACTGAGTCGTGGACTT
* * * * *
31125 TGAGAAAAGATGCCACTAAGTCATGGA-TTT-AA-AAGAAAAGGATGCCACTAAGTCGTGGGCTT
1 AGA-AAAAGATGCCACTGAGTCGTGGACTTTGAAGAA-AAAA-GATGCCACTGAGTCGTGGACTT
31187 AGAAAAGAGATGCCACTGAGTCGTGGACTT
63 AGAAAAGAGATGCCACTGAGTCGTGGACTT
* *
31217 AGAAAAGAGATGCCACTGAGTTGTGGACTTTGAAGAAAAAAGATGCCATTGAGTCGTGGACTTAG
1 AGAAAA-AGATGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTAG
31282 AAAAGAGATGCCACT
65 AAAAGAGATGCCACT
31297 AAAGTCTGGC
Statistics
Matches: 221, Mismatches: 30, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
88 2 0.01
89 8 0.04
90 24 0.11
91 40 0.18
92 41 0.19
93 72 0.33
94 32 0.14
95 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.29, T:0.21
Consensus pattern (92 bp):
AGAAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTAGA
AAAGAGATGCCACTGAGTCGTGGACTT
Found at i:31131 original size:28 final size:28
Alignment explanation
Indices: 31076--31132 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
31066 AAGAAAAAAG
* *
31076 ATGCCACTGAGTCGTGGACATTGGGAAA
1 ATGCCACCGAGTCGTGGACATTGAGAAA
* **
31104 ATGCCACCGAGTTGTGGATTTTGAGAAA
1 ATGCCACCGAGTCGTGGACATTGAGAAA
31132 A
1 A
31133 GATGCCACTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.25
Consensus pattern (28 bp):
ATGCCACCGAGTCGTGGACATTGAGAAA
Found at i:32223 original size:19 final size:21
Alignment explanation
Indices: 32185--32223 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
32175 GTAGCCTTGA
*
32185 CCATGCATTTTTTACTATGTT
1 CCATGCATTTTTAACTATGTT
32206 CCATGCA-TTTTAAC-ATGT
1 CCATGCATTTTTAACTATGT
32224 CCAACATCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 6 0.35
21 7 0.41
ACGTcount: A:0.23, C:0.21, G:0.10, T:0.46
Consensus pattern (21 bp):
CCATGCATTTTTAACTATGTT
Found at i:36388 original size:22 final size:21
Alignment explanation
Indices: 36346--36390 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
36336 GATGTGAAAA
* *
36346 TGAAGAATTTTGAGACGGATT
1 TGAAGAAATTTGAGAAGGATT
*
36367 TGAAGAAATTTGATGAATGATT
1 TGAAGAAATTTGA-GAAGGATT
36389 TG
1 TG
36391 TTAGGGTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.36, C:0.02, G:0.27, T:0.36
Consensus pattern (21 bp):
TGAAGAAATTTGAGAAGGATT
Found at i:37922 original size:16 final size:16
Alignment explanation
Indices: 37901--37931 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37891 CAACATTTCC
*
37901 TCTATTAAAACTTTTT
1 TCTATTAAAAATTTTT
37917 TCTATTAAAAATTTT
1 TCTATTAAAAATTTT
37932 GAAAGCCTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (16 bp):
TCTATTAAAAATTTTT
Found at i:42635 original size:20 final size:20
Alignment explanation
Indices: 42610--42662 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
42600 CGTTGGAATA
*
42610 ATGTATTGATACAAT-TCTTC
1 ATGTATCGATACAATGTC-TC
42630 ATGTATCGATACAATGTCTC
1 ATGTATCGATACAATGTCTC
42650 ATGTATCGATACA
1 ATGTATCGATACA
42663 TTTCACTTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 29 0.94
21 2 0.06
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACAATGTCTC
Found at i:42736 original size:19 final size:19
Alignment explanation
Indices: 42691--42765 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
42681 CTGCTAGTTT
*
42691 CATGTATCGATACAATTGAG
1 CATGTATCGATACAA-TGAA
* *
42711 TATGTATCGATACAATAAA
1 CATGTATCGATACAATGAA
42730 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
42749 CATGTATCGATACAATG
1 CATGTATCGATACAATG
42766 TATCGATACA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
19 36 0.72
20 14 0.28
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:42768 original size:13 final size:13
Alignment explanation
Indices: 42750--42776 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
42740 TACAATGAAC
42750 ATGTATCGATACA
1 ATGTATCGATACA
42763 ATGTATCGATACA
1 ATGTATCGATACA
42776 A
1 A
42777 GGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:49615 original size:52 final size:52
Alignment explanation
Indices: 49545--49665 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
49535 GAAAATTTAT
*
49545 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
* *
49597 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
49649 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
49666 AAGATCAGTG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:49678 original size:52 final size:51
Alignment explanation
Indices: 49545--49685 Score: 203
Period size: 52 Copynumber: 2.7 Consensus size: 51
49535 GAAAATTTAT
49545 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* * *
49597 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
49649 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
49686 ATGTATCGAT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.03
52 78 0.98
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:49692 original size:13 final size:13
Alignment explanation
Indices: 49674--49698 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49664 CAAAGATCAG
49674 TGTATCGATACAA
1 TGTATCGATACAA
49687 TGTATCGATACA
1 TGTATCGATACA
49699 TGTGAGTAAT
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:49781 original size:13 final size:13
Alignment explanation
Indices: 49763--49787 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49753 CAAAAAAATA
49763 TGTATCGATACAT
1 TGTATCGATACAT
49776 TGTATCGATACA
1 TGTATCGATACA
49788 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:49783 original size:33 final size:33
Alignment explanation
Indices: 49741--49807 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
49731 AGTAGCTTAA
49741 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
49774 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
49807 A
1 A
49808 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:50766 original size:49 final size:49
Alignment explanation
Indices: 50620--50778 Score: 147
Period size: 49 Copynumber: 3.1 Consensus size: 49
50610 AAAAGTGATA
* * * *
50620 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAG
1 AAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGAT--G
* ** * * * *
50671 AAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG
1 ---AA-GATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATG
*
50724 AAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAAATG
1 AAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATG
*
50773 ATGATG
1 AAGATG
50779 AGAAAAGTGA
Statistics
Matches: 84, Mismatches: 20, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
49 44 0.52
50 2 0.02
53 1 0.01
54 2 0.02
55 35 0.42
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (49 bp):
AAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATG
Found at i:50781 original size:171 final size:171
Alignment explanation
Indices: 50399--50943 Score: 724
Period size: 171 Copynumber: 3.2 Consensus size: 171
50389 CCACTGTGCA
* * * * * * *
50399 GATTCAAGGCCTGCCACACTGGACTTAAAGATGATGAGGATGGAAAGTGATAAA-AGGACCAATA
1 GATTCAAGGCCAGCAATATTGGACTTAAAGATGATGATGA-GAAAAGTGATAAAGATG-CCAATA
* * * * * **
50463 CGTTGATTCACGGCCAACGATATTGGG-TTGAAAGATGAGAAAAAGGA--TAAAAGAGCCAATAT
64 TGTTGATTCATGGCCAACGATATTGGGCTT-AAAGATGAGAAAAAGGATGTCAACGTGCTGAT-T
* * * * * * *
50525 GC--GGCTAGCGATATTGGACTTAAAGATAAAGGTGCCAATGTGCT
127 -CAAGGCCAGCTACATTGAACTTAAAGATGAAGATGCCAATATGCT
*
50569 GATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAAGTGATAAAGATGCCAATATG
1 GATTCAAGGCCAGCAATATTGGACTTAAAGATGATGATGAGAAAAGTGATAAAGATGCCAATATG
*
50634 TTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAG
66 TTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAG
50699 GCCAGCTACATTGAACTTAAAGATGAAGATGCCAATATGCT
131 GCCAGCTACATTGAACTTAAAGATGAAGATGCCAATATGCT
* * *
50740 GATTCAAGGCCAACGATATTGGACTTAAAAATGATGATGAGAAAAGTGATAAAGATGCCAATATG
1 GATTCAAGGCCAGCAATATTGGACTTAAAGATGATGATGAGAAAAGTGATAAAGATGCCAATATG
50805 TTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAG
66 TTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAG
*
50870 GCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCT
131 GCCAGCTACATTGAACTTAAAGAT-GAAGA--TGCCAATATGCT
*
50914 GATTCAAGGCCAGCTATATTGGACTTAAAG
1 GATTCAAGGCCAGCAATATTGGACTTAAAG
50944 GTGCCAATGT
Statistics
Matches: 334, Mismatches: 32, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
169 61 0.18
170 38 0.11
171 192 0.57
172 4 0.01
174 39 0.12
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.23
Consensus pattern (171 bp):
GATTCAAGGCCAGCAATATTGGACTTAAAGATGATGATGAGAAAAGTGATAAAGATGCCAATATG
TTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAG
GCCAGCTACATTGAACTTAAAGATGAAGATGCCAATATGCT
Found at i:51158 original size:49 final size:49
Alignment explanation
Indices: 50857--52051 Score: 1437
Period size: 49 Copynumber: 24.7 Consensus size: 49
50847 GGATGTCAAC
* *
50857 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAAT
* *
50909 ATGCTGATTCAAGGCCAGCTATATTGGAC-T-----TAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
*
50952 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCGAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAAT
* *
51004 ATGCTGATTCAAGGCCAGCTATATTGGAC-T-----TAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * **
51047 GTGCTGATTCAAGGCCAGCTACATTGGACTTAATGGT-GGGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
51095 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* *
51144 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * * *
51193 ATGCTGATTCAATGCCAGCGATATTGGAC-T-----TAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
*
51236 GTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * * * *
51285 ATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGCAA-GTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAAGGTGCCAAT
* *
51334 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * * * * * *
51383 ATGCTGAGTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* *
51432 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * * * * * *
51481 ATGCTGAGTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
*
51530 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * * * *
51579 ATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGCAA-GTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAAGGTGCCAAT
* *
51628 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * * * * * *
51677 ATGCTGAGTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
*
51726 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * * * *
51775 ATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGCAA-GTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAAGGTGCCAAT
* *
51824 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * * * *
51873 ATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGCAA-GTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAAGGTGCCAAT
* *
51922 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * *
51971 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * * *
52020 GTGCTGAGTCAAAGCCAGCTATATTGGGCTTA
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTA
52052 GAAGGGTTGC
Statistics
Matches: 985, Mismatches: 128, Indels: 63
0.84 0.11 0.05
Matches are distributed among these distances:
43 111 0.11
44 3 0.00
46 2 0.00
48 53 0.05
49 742 0.75
50 8 0.01
51 2 0.00
52 64 0.06
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
Found at i:51500 original size:196 final size:196
Alignment explanation
Indices: 50857--52051 Score: 1808
Period size: 196 Copynumber: 6.2 Consensus size: 196
50847 GGATGTCAAC
* *
50857 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT--AAAA-GTGCCAATATGCTGATTCAAG
*
50922 GCCAGCTATATTGGACTT-A-----AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
63 GCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGAC
*
50981 TTAAAGATGGAAAAGGTGCCGATATGCTGATTCAAGGCCAGCTATATTGGACTT-A-----AAGG
128 TTAAAGAT--AAAA-GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGG
51040 TGCCAAT
190 TGCCAAT
* * * *** *
51047 GTGCTGATTCAAGGCCAGCTACATTGGACTTAATGGT-GGGGTGCCAATGTGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATTCAAGGCC
* * * * *
51111 AGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
66 AGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTA
* * *
51176 AAGAT-GAAGATGCCAATATGCTGATTCAATGCCAGCGATATTGGACTT-A-----AAGGTGCCA
131 AAGATAAAAG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCA
51234 AT
195 AT
* * *
51236 GTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATTCAAGGCC
51301 AGCTATATTGGACTTAATGGTGCAA-GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT
66 AGCTATATTGGACTTAATGGTG-AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT
* *
51365 AAAGATAAAAGTGCCAATATGCTGAGTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGCCA
130 AAAGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCA
51430 AT
195 AT
*
51432 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGAGTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATTCAAGGCC
*
51497 AGCTATATTGGGCTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTA
66 AGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTA
*
51562 AAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGCAA-GTGCCA
131 AAGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTG-AAGGTGCCA
51626 AT
195 AT
*
51628 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGAGTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATTCAAGGCC
*
51693 AGCTATATTGGGCTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTA
66 AGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTA
*
51758 AAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGCAA-GTGCCA
131 AAGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTG-AAGGTGCCA
51822 AT
195 AT
51824 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATTCAAGGCC
51889 AGCTATATTGGACTTAATGGTGCAA-GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT
66 AGCTATATTGGACTTAATGGTG-AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT
* *
51953 AAAGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCA
130 AAAGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCA
52018 AT
195 AT
* * *
52020 GTGCTGAGTCAAAGCCAGCTATATTGGGCTTA
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTA
52052 GAAGGGTTGC
Statistics
Matches: 941, Mismatches: 44, Indels: 34
0.92 0.04 0.03
Matches are distributed among these distances:
186 37 0.04
187 1 0.00
188 1 0.00
189 83 0.09
190 154 0.16
191 6 0.01
192 48 0.05
195 4 0.00
196 603 0.64
197 4 0.00
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (196 bp):
GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATTCAAGGCC
AGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTA
AAGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAA
T
Found at i:52271 original size:34 final size:34
Alignment explanation
Indices: 52099--53190 Score: 1156
Period size: 34 Copynumber: 32.6 Consensus size: 34
52089 AAAAAAAAGA
* *
52099 TGCCACGGAGTTGTGGAC-TT-AAAAGGGAAAAAGAG
1 TGCCACGGAGTTGTGGGCTTTGAAAA--GAAGAAG-G
* *
52134 TGCCACGGAGTTGTGGGCTTTG-AAAGAAAAAAG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
*
52167 TGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAGAG
1 TGCCACGGAGTTGTGGGCTTTGAAAA-G-AAGAAG-G
** * *
52204 TGCCACAAAGTTGTGGGATTT-AAGAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
52237 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
* * *
52271 TTGCCACCGACTTGTGTGGGCTTT-AGAA-AA-AA-G
1 -TGCCACGGA-GT-TGTGGGCTTTGAAAAGAAGAAGG
*
52304 TGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
* *
52338 TGCCACGGAGTTGTGGGCTTTAAAAAAAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
* * * *
52372 TCCCACGGAGCTGTGGGCTTTAAAAAAAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
*
52406 TCCCACGGAGTTGTGGGCTTT----A-AAG-A-G
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
* *
52433 TGCCACGGAGTTATGGGCTTTGAAAAGGAAAAAAGAG
1 TGCCACGGAGTTGTGGGCTTTGAAAA-G-AAGAAG-G
**
52470 TGCCACAAAGTTGTGGGCTTT-AAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
52503 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
* * *
52537 TTGCCACCGACTTGTGTGGGCTTT-AGAA-AA-AA-G
1 -TGCCACGGA-GT-TGTGGGCTTTGAAAAGAAGAAGG
*
52570 TGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
52604 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
* * *
52638 TGCCACGGAGCTGTGGGCTTTAAAAAAAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
*
52672 TCCCACGGAGTTGTGGGCTTT----A-AAG-A-G
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
* *
52699 TGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAAAG
1 TGCCACGGAGTTGTGGGCTTTGAAAA-G--AAGAAGG
**
52736 TGCCACAAAGTTGTGGGCTTT-AAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
52769 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
* * *
52803 TTGCCACCGACTTGTGTGGGCTTT-AGAA-AA-AA-G
1 -TGCCACGGA-GT-TGTGGGCTTTGAAAAGAAGAAGG
*
52836 TGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
52870 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
* * *
52904 TGCCACGGAGCTGTGGGCTTTAAAAAAAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
*
52938 TCCCACGGAGTTGTGGGCTTT----A-AAG-A-G
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
*
52965 TGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAGAG
1 TGCCACGGAGTTGTGGGCTTTGAAAA-G-AAGAAG-G
**
53002 TGCCACAAAGTTGTGGGCTTT-AAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
53035 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
* * *
53069 TTGCCACCGACTTGTGTGGGCTTT-AGAA-AA-AA-G
1 -TGCCACGGA-GT-TGTGGGCTTTGAAAAGAAGAAGG
*
53102 TGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
*
53136 TGCCACGGAGTTGTGGGCTTTGAAAAAAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
*
53170 TCCCACGGAGTTGTGGGCTTT
1 TGCCACGGAGTTGTGGGCTTT
53191 AAAGAGTGCC
Statistics
Matches: 904, Mismatches: 85, Indels: 137
0.80 0.08 0.12
Matches are distributed among these distances:
27 62 0.07
28 3 0.00
29 9 0.01
30 39 0.04
31 19 0.02
32 40 0.04
33 118 0.13
34 388 0.43
35 66 0.07
36 42 0.05
37 118 0.13
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.21
Consensus pattern (34 bp):
TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
Found at i:52646 original size:266 final size:266
Alignment explanation
Indices: 52136--53193 Score: 1972
Period size: 266 Copynumber: 4.0 Consensus size: 266
52126 AAAAAGAGTG
52136 CCACGGAGTTGTGGGCTTTGAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAA
1 CCACGGAGTTGTGGGCTTT-AAAG-----AGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAA
* *
52201 GAGTGCCACAAAGTTGTGGGATTTAAGAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
60 GAGTGCCACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
52266 GAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAAAGTGCCACGGAGTCGTGGGCTTTGAAAAG
125 GAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAAAGTGCCACGGAGTCGTGGGCTTTGAAAAG
*
52331 AAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAAAGAAGGTCCCACGGAGCTGTGGGCTTTAAA
190 AAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAAAAGAAGGTCCCACGGAGCTGTGGGCTTTAAA
52396 AAAAAGAAGGTC
255 AAAAAGAAGGTC
*
52408 CCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGAGTTATGGGCTTTGAAAAGGAAAAAAGAGTGC
1 CCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAGAGTGC
52473 CACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGT
66 CACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGT
52538 TGCCACCGACTTGTGTGGGCTTTAGAAAAAAGTGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAG
131 TGCCACCGACTTGTGTGGGCTTTAGAAAAAAGTGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAG
* *
52603 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGCTGTGGGCTTTAAAAAAAAG
196 GTGCCACGGAGTTGTGGGCTTTGAAAAAAAGAAGGTCCCACGGAGCTGTGGGCTTTAAAAAAAAG
52668 AAGGTC
261 AAGGTC
*
52674 CCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAAAGTGC
1 CCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAGAGTGC
52739 CACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGT
66 CACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGT
52804 TGCCACCGACTTGTGTGGGCTTTAGAAAAAAGTGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAG
131 TGCCACCGACTTGTGTGGGCTTTAGAAAAAAGTGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAG
* *
52869 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGCTGTGGGCTTTAAAAAAAAG
196 GTGCCACGGAGTTGTGGGCTTTGAAAAAAAGAAGGTCCCACGGAGCTGTGGGCTTTAAAAAAAAG
52934 AAGGTC
261 AAGGTC
52940 CCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAGAGTGC
1 CCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAGAGTGC
53005 CACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGT
66 CACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGT
53070 TGCCACCGACTTGTGTGGGCTTTAGAAAAAAGTGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAG
131 TGCCACCGACTTGTGTGGGCTTTAGAAAAAAGTGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAG
*
53135 GTGCCACGGAGTTGTGGGCTTTGAAAAAAAGAAGGTCCCACGGAGTTGTGGGCTTTAAA
196 GTGCCACGGAGTTGTGGGCTTTGAAAAAAAGAAGGTCCCACGGAGCTGTGGGCTTTAAA
53194 GAGTGCCACG
Statistics
Matches: 774, Mismatches: 12, Indels: 6
0.98 0.02 0.01
Matches are distributed among these distances:
266 751 0.97
271 4 0.01
272 19 0.02
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.21
Consensus pattern (266 bp):
CCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAGAGTGC
CACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGT
TGCCACCGACTTGTGTGGGCTTTAGAAAAAAGTGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAG
GTGCCACGGAGTTGTGGGCTTTGAAAAAAAGAAGGTCCCACGGAGCTGTGGGCTTTAAAAAAAAG
AAGGTC
Found at i:53212 original size:27 final size:27
Alignment explanation
Indices: 53172--53341 Score: 106
Period size: 31 Copynumber: 5.7 Consensus size: 27
53162 AAAGAAGGTC
* *
53172 CCACGGAGTTGTGGGCTTTAAAGAGTG
1 CCACGGAGTCGTGGACTTTAAAGAGTG
* *
53199 CCACGGAGTCGTGGACTTTGAGACAAAATG
1 CCACGGAGTCGTGGACTTT-A-A-AGAGTG
*
53229 CCACTGAGTCGTGGACTTTAAAGAGAAGGATG
1 CCACGGAGTCGTGGACTTT-AA-AG-A-G-TG
* * *
53261 CCACTGCGTCGTGGACTTTGAGCAGAGATTG
1 CCACGGAGTCGTGGACTTT-A--A-AGAGTG
*
53292 CCACTGAGTCGTGGACTTTGAGAAGAGATTG
1 CCACGGAGTCGTGGACTTT-A-AAGAG--TG
*
53323 CCACTGAGTCGTGGACTTT
1 CCACGGAGTCGTGGACTTT
53342 TTTTTTATTT
Statistics
Matches: 118, Mismatches: 15, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
27 17 0.14
28 1 0.01
29 6 0.05
30 25 0.21
31 43 0.36
32 21 0.18
33 1 0.01
34 4 0.03
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.25
Consensus pattern (27 bp):
CCACGGAGTCGTGGACTTTAAAGAGTG
Found at i:53297 original size:31 final size:31
Alignment explanation
Indices: 53197--53341 Score: 181
Period size: 31 Copynumber: 4.7 Consensus size: 31
53187 CTTTAAAGAG
* *
53197 TGCCACGGAGTCGTGGACTTTGAGACA-A-AA
1 TGCCACTGAGTCGTGGACTTTGAG-CAGAGAT
*
53227 TGCCACTGAGTCGTGGACTTTAAAG-AGAAGGA-
1 TGCCACTGAGTCGTGGACTTT-GAGCAG-A-GAT
*
53259 TGCCACTGCGTCGTGGACTTTGAGCAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGCAGAGAT
*
53290 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGCAGAGAT
53321 TGCCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
53342 TTTTTTATTT
Statistics
Matches: 102, Mismatches: 6, Indels: 13
0.84 0.05 0.11
Matches are distributed among these distances:
29 1 0.01
30 22 0.22
31 56 0.55
32 22 0.22
33 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAGCAGAGAT
Found at i:53361 original size:15 final size:15
Alignment explanation
Indices: 53341--53370 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
53331 TCGTGGACTT
53341 TTTTTTTATTTTTTA
1 TTTTTTTATTTTTTA
*
53356 TTTTTTTTTTTTTTA
1 TTTTTTTATTTTTTA
53371 AAAAGGTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTTTTATTTTTTA
Found at i:55076 original size:21 final size:22
Alignment explanation
Indices: 55022--55081 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 22
55012 TACAAGGCCA
*
55022 TATTATTTCAATACAA--TGCC
1 TATTATATCAATACAATGTGCC
* *
55042 TATTGTATCTATACAATGTGCC
1 TATTATATCAATACAATGTGCC
55064 T-TTATATCAATACAATGT
1 TATTATATCAATACAATGT
55082 TGTGTTTTGC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
20 13 0.39
21 15 0.45
22 5 0.15
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.42
Consensus pattern (22 bp):
TATTATATCAATACAATGTGCC
Found at i:55778 original size:11 final size:10
Alignment explanation
Indices: 55751--55788 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
55741 CTAGAAATAA
55751 AAGAAAAAAG
1 AAGAAAAAAG
*
55761 AACAAAAAAG
1 AAGAAAAAAG
55771 ATAGAAAAAAG
1 A-AGAAAAAAG
55782 AA-AAAAA
1 AAGAAAAA
55789 GTGAGAAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 5 0.20
10 11 0.44
11 9 0.36
ACGTcount: A:0.82, C:0.03, G:0.13, T:0.03
Consensus pattern (10 bp):
AAGAAAAAAG
Found at i:55788 original size:19 final size:20
Alignment explanation
Indices: 55752--55802 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 20
55742 TAGAAATAAA
55752 AGAAAAAAGAACAAAAAAGAT-
1 AGAAAAAAG-ACAAAAAAG-TG
55773 AGAAAAAAGA-AAAAAAGTG
1 AGAAAAAAGACAAAAAAGTG
55792 AGAAAGAAAGA
1 AGAAA-AAAGA
55803 GAGATAGCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 1 0.04
19 12 0.43
20 6 0.21
21 9 0.32
ACGTcount: A:0.75, C:0.02, G:0.20, T:0.04
Consensus pattern (20 bp):
AGAAAAAAGACAAAAAAGTG
Found at i:56729 original size:58 final size:55
Alignment explanation
Indices: 56662--56859 Score: 180
Period size: 58 Copynumber: 3.4 Consensus size: 55
56652 CATGATCTGG
* * *
56662 GGACATTTATCCAATTTCATGCATGTTGGGATCATTTAGCTCATTTTCCATATTCTAC
1 GGACTTTTATGCAATTTCATGCATGTTGGG-TCATTTAG-TCATTTTCCATA-TCTAA
* ** * *
56720 GGACTTTTATGCAAATTCATGCATGTTAGGGTCATTTAAGTCATTTTTTATGATATAG
1 GGACTTTTATGCAATTTCATGCATGTT-GGGTCATTT-AGTCATTTTCCAT-ATCTAA
* * * *
56778 GGACTTTTATGCAATTTTATGTATGTTGAGGTTATTTAGGTTATTTTCCATAATCTAA
1 GGACTTTTATGCAATTTCATGCATGTTG-GGTCATTTA-GTCATTTTCCAT-ATCTAA
* * *
56836 GGACTTTCATTCAATTTTATGCAT
1 GGACTTTTATGCAATTTCATGCAT
56860 CTTAAAGATA
Statistics
Matches: 115, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
57 2 0.02
58 107 0.93
59 6 0.05
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.44
Consensus pattern (55 bp):
GGACTTTTATGCAATTTCATGCATGTTGGGTCATTTAGTCATTTTCCATATCTAA
Found at i:56804 original size:116 final size:116
Alignment explanation
Indices: 56646--56888 Score: 283
Period size: 116 Copynumber: 2.1 Consensus size: 116
56636 TATTTAGTTT
* *
56646 ATTTTTCATGATCTGGGGACATTTATCCAATTTCATGCATGTTG-GGATCATTTAGCTCATTTTC
1 ATTTTTCATGATATAGGGACATTTATCCAATTTCATGCATGTTGAGG-TCATTTAGCTCATTTTC
* * * * * *
56710 CATATTCTACGGACTTTTATGCAAATTCATGCATGTT-AGGGTCATTTAAGTC
65 CATAATCTAAGGACTTTCATGCAAATTCATGCATCTTAAAGAT-ATTTAAGTC
* * * * * * * *
56762 ATTTTTTATGATATAGGGACTTTTATGCAATTTTATGTATGTTGAGGTTATTTAGGTTATTTTCC
1 ATTTTTCATGATATAGGGACATTTATCCAATTTCATGCATGTTGAGGTCATTTAGCTCATTTTCC
* * *
56827 ATAATCTAAGGACTTTCATTCAATTTTATGCATCTTAAAGATATTTAAGTC
66 ATAATCTAAGGACTTTCATGCAAATTCATGCATCTTAAAGATATTTAAGTC
56878 ATTTTTCATGA
1 ATTTTTCATGA
56889 CTTACGAATT
Statistics
Matches: 105, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
116 100 0.95
117 5 0.05
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.45
Consensus pattern (116 bp):
ATTTTTCATGATATAGGGACATTTATCCAATTTCATGCATGTTGAGGTCATTTAGCTCATTTTCC
ATAATCTAAGGACTTTCATGCAAATTCATGCATCTTAAAGATATTTAAGTC
Found at i:59923 original size:2 final size:2
Alignment explanation
Indices: 59916--59948 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
59906 TTGCTTGGAA
59916 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
59949 TAAATTTGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:61127 original size:18 final size:16
Alignment explanation
Indices: 61096--61129 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
61086 TTTGGCAAAA
61096 TAAAATTTGAAATTTT
1 TAAAATTTGAAATTTT
61112 TAAAATTCTAGAAATTTT
1 TAAAATT-T-GAAATTTT
61130 AAATAAGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 1 0.06
18 8 0.50
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (16 bp):
TAAAATTTGAAATTTT
Found at i:62157 original size:24 final size:24
Alignment explanation
Indices: 62130--62180 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 24
62120 TTTAAATAAA
*
62130 AATAATATAT-CTTATT-TTTTT-
1 AATAATATATATTTATTATTTTTG
*
62151 AATAATATATATTTTTTATTTTTG
1 AATAATATATATTTATTATTTTTG
62175 AATAAT
1 AATAAT
62181 TTTATTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 10 0.40
22 4 0.16
23 5 0.20
24 6 0.24
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (24 bp):
AATAATATATATTTATTATTTTTG
Found at i:62769 original size:7 final size:7
Alignment explanation
Indices: 62759--62795 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
62749 AATATACTTT
62759 TTATTAA
1 TTATTAA
62766 TTATTAA
1 TTATTAA
62773 TTATTAA
1 TTATTAA
62780 TTATTAA
1 TTATTAA
62787 TTATTAA
1 TTATTAA
62794 TT
1 TT
62796 TTTATTTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
TTATTAA
Found at i:62829 original size:16 final size:17
Alignment explanation
Indices: 62810--62843 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
62800 TTTTTCATCA
62810 TTTTAACT-CAAAATAT
1 TTTTAACTACAAAATAT
*
62826 TTTTAATTACAAAATAT
1 TTTTAACTACAAAATAT
62843 T
1 T
62844 GAAAATTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTTAACTACAAAATAT
Found at i:63622 original size:28 final size:28
Alignment explanation
Indices: 63571--63629 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
63561 ACGTATTTTA
*
63571 TATCAAACTTTAAAAGAAAAAGAAATAT
1 TATCAAACTTTAAAAGAAAAAGAAAAAT
**
63599 TATCTAAACTTTAAAA-AGTAAGAAAAAT
1 TATC-AAACTTTAAAAGAAAAAGAAAAAT
63627 TAT
1 TAT
63630 TTTTAAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 16 0.59
29 11 0.41
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.29
Consensus pattern (28 bp):
TATCAAACTTTAAAAGAAAAAGAAAAAT
Found at i:71278 original size:18 final size:18
Alignment explanation
Indices: 71255--71294 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
71245 TATGGATAAG
* *
71255 ATTATATTTTTATTTTTT
1 ATTATAATTATATTTTTT
71273 ATTATAATTATATTTTTT
1 ATTATAATTATATTTTTT
71291 ATTA
1 ATTA
71295 ATTATAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
ATTATAATTATATTTTTT
Found at i:71288 original size:16 final size:16
Alignment explanation
Indices: 71264--71435 Score: 51
Period size: 16 Copynumber: 10.8 Consensus size: 16
71254 GATTATATTT
*
71264 TTATTTTTTATTATAA
1 TTATATTTTATTATAA
71280 TTATATTTT-TTATTAA
1 TTATATTTTATTA-TAA
* **
71296 TTATAATAAATTA-AA
1 TTATATTTTATTATAA
*
71311 --ATATTGTATT-T-A
1 TTATATTTTATTATAA
* * *
71323 TATAAATTTTAATATAT
1 T-TATATTTTATTATAA
*
71340 TTATAATTTA-TAT-A
1 TTATATTTTATTATAA
* *
71354 TTATATTAATTA-TGTGA
1 TTATATT--TTATTATAA
*
71371 TGT-TATTTTATTATTATT
1 T-TATATTTTATTA-TA-A
71389 TTATATTTTAATT-TAA
1 TTATATTTT-ATTATAA
71405 TTATATTTTTATTATATAA
1 TTATA-TTTTA-T-TATAA
*
71424 TTATATTATATT
1 TTATATTTTATT
71436 TAAAATTAAT
Statistics
Matches: 114, Mismatches: 21, Indels: 42
0.64 0.12 0.24
Matches are distributed among these distances:
12 1 0.01
13 7 0.06
14 6 0.05
15 18 0.16
16 38 0.33
17 20 0.18
18 13 0.11
19 11 0.10
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
TTATATTTTATTATAA
Found at i:71299 original size:25 final size:24
Alignment explanation
Indices: 71255--71304 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
71245 TATGGATAAG
** *
71255 ATTATATTTTTATTTTTTATTATA
1 ATTATATTTTTATTAATTATAATA
71279 ATTATATTTTTTATTAATTATAATA
1 ATTATA-TTTTTATTAATTATAATA
71304 A
1 A
71305 ATTAAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (24 bp):
ATTATATTTTTATTAATTATAATA
Found at i:71402 original size:24 final size:24
Alignment explanation
Indices: 71375--71436 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
71365 ATGTGATGTT
71375 ATTTTATTATTATTTTATATT-T-TA
1 ATTTTATTA-TATTTT-TATTATATA
*
71399 ATTTAATTATATTTTTATTATATA
1 ATTTTATTATATTTTTATTATATA
*
71423 ATTATATTATATTT
1 ATTTTATTATATTT
71437 AAAATTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 4 0.12
23 7 0.21
24 22 0.67
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (24 bp):
ATTTTATTATATTTTTATTATATA
Found at i:71417 original size:40 final size:41
Alignment explanation
Indices: 71373--71450 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 41
71363 TTATGTGATG
* * * * *
71373 TTATTTTATTATTATTTTATATTTTAATTTAAT-TATATTT
1 TTATTATATAATTATATTATATTTAAAATTAATGTATATTT
71413 TTATTATATAATTATATTATATTTAAAATTAATGTATA
1 TTATTATATAATTATATTATATTTAAAATTAATGTATA
71451 AATTGAGATA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
40 28 0.88
41 4 0.12
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (41 bp):
TTATTATATAATTATATTATATTTAAAATTAATGTATATTT
Found at i:71420 original size:11 final size:11
Alignment explanation
Indices: 71376--71436 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 11
71366 TGTGATGTTA
71376 TTTTATTATTAT
1 TTTTATTA-TAT
* *
71388 TTTATATTTTAA
1 TTT-TATTATAT
*
71400 TTTAATTATAT
1 TTTTATTATAT
71411 TTTTATTATAT
1 TTTTATTATAT
*
71422 AATTATATTATAT
1 --TTTTATTATAT
71435 TT
1 TT
71437 AAAATTAATG
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
11 17 0.44
12 8 0.21
13 14 0.36
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTTATTATAT
Found at i:75877 original size:52 final size:52
Alignment explanation
Indices: 75807--75927 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
75797 GAAAATTTAT
*
75807 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
75859 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
75911 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
75928 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:75940 original size:52 final size:51
Alignment explanation
Indices: 75807--75947 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
75797 GAAAATTTAT
75807 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
75859 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
75911 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
75948 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:75954 original size:13 final size:13
Alignment explanation
Indices: 75936--75960 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
75926 CAAAGATCAG
75936 TGTATCGATACAA
1 TGTATCGATACAA
75949 TGTATCGATACA
1 TGTATCGATACA
75961 TGTGAGTAAT
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:76044 original size:13 final size:13
Alignment explanation
Indices: 76026--76050 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
76016 CAAAAAAATA
76026 TGTATCGATACAT
1 TGTATCGATACAT
76039 TGTATCGATACA
1 TGTATCGATACA
76051 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:76046 original size:33 final size:33
Alignment explanation
Indices: 76004--76070 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
75994 AGTAGCTTAA
76004 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
76037 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
76070 A
1 A
76071 AATCATTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:76149 original size:21 final size:21
Alignment explanation
Indices: 76108--76149 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
76098 GTTGGGACCT
*
76108 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
76129 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
76150 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:77082 original size:22 final size:22
Alignment explanation
Indices: 77057--77125 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
77047 ATGCTGATTC
77057 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
* * * *
77079 AAGGTGCCA-ATGTGTT-GA-TTC
1 AA-G-GCCAGCTATATTGGACTTA
*
77100 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
77122 AAGG
1 AAGG
77126 TGAAGGTGCC
Statistics
Matches: 33, Mismatches: 9, Indels: 10
0.63 0.17 0.19
Matches are distributed among these distances:
19 4 0.12
20 4 0.12
21 6 0.18
22 10 0.30
23 5 0.15
24 4 0.12
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (22 bp):
AAGGCCAGCTATATTGGACTTA
Found at i:77135 original size:49 final size:49
Alignment explanation
Indices: 76995--77997 Score: 1267
Period size: 49 Copynumber: 20.7 Consensus size: 49
76985 GGATGTCAAC
* *
76995 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAAT
* *
77047 ATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* *
77090 GTGTTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * *
77139 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * * * *
77188 ATGTTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * *
77237 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * * *
77286 ATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGGTGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * *
77335 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * * *
77384 ATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGGTGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * *
77433 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * * * *
77482 ATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGGTGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * *
77531 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * * * *
77580 ATGTTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * *
77629 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * * *
77678 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * *
77727 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * * *
77776 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * *
77825 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * * *
77874 ATGTTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
*
77917 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAA-
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* *
77965 GATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 G-TGCTGATTCAAGGCCAGCTACATTGGACTTA
77998 GAAGGGTTGC
Statistics
Matches: 807, Mismatches: 131, Indels: 29
0.83 0.14 0.03
Matches are distributed among these distances:
43 74 0.09
45 1 0.00
47 1 0.00
48 2 0.00
49 701 0.87
52 28 0.03
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.26
Consensus pattern (49 bp):
GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
Found at i:77230 original size:98 final size:98
Alignment explanation
Indices: 76996--78002 Score: 1669
Period size: 98 Copynumber: 10.4 Consensus size: 98
76986 GATGTCAACG
* * * * * * *
76996 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAGG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGT-G--AAGGTGCCAATGTGCTGAGTCAAGG
* *
77061 CCAGCTATATTGGACTT-AA-A-G--G-TGCCAATG
63 CCAGCTACATTGGACTTAAAGATGATGATGCCAATA
* * *
77091 TGTTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
77156 GCTACATTGGACTTAAAGATGATGATGCCAATA
66 GCTACATTGGACTTAAAGATGATGATGCCAATA
*
77189 TGTTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
77254 GCTACATTGGACTTAAAGATGATGATGCCAATA
66 GCTACATTGGACTTAAAGATGATGATGCCAATA
*
77287 TGCTGATTCAAGGCCAGCAATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
77352 GCTACATTGGACTTAAAGATGATGATGCCAATA
66 GCTACATTGGACTTAAAGATGATGATGCCAATA
*
77385 TGCTGATTCAAGGCCAGCAATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
77450 GCTACATTGGACTTAAAGATGATGATGCCAATA
66 GCTACATTGGACTTAAAGATGATGATGCCAATA
*
77483 TGCTGATTCAAGGCTAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
77548 GCTACATTGGACTTAAAGATGATGATGCCAATA
66 GCTACATTGGACTTAAAGATGATGATGCCAATA
* * *
77581 TGTTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
77646 GCTACATTGGACTTAAAGATGATGATGCCAATA
66 GCTACATTGGACTTAAAGATGATGATGCCAATA
77679 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
77744 GCTACATTGGACTTAAAGATGATGATGCCAATA
66 GCTACATTGGACTTAAAGATGATGATGCCAATA
77777 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
77842 GCTACATTGGACTTAAAGATGATGATGCCAATA
66 GCTACATTGGACTTAAAGATGATGATGCCAATA
* *
77875 TGTTGATTCAAGGCCAGCGATATTGGACTT--A----AAGGTGCCAATGTGCTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
* *
77934 GCTACATTGGACTTAAAGATGAAGATGCCAAGA
66 GCTACATTGGACTTAAAGATGATGATGCCAATA
* *
77967 TGCTGATTCAAGGCCAGCTATATTGGGCTTAGAAGG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTA-AAGG
78003 GTTGCCACCG
Statistics
Matches: 873, Mismatches: 28, Indels: 20
0.95 0.03 0.02
Matches are distributed among these distances:
92 123 0.14
93 2 0.00
94 2 0.00
95 35 0.04
96 1 0.00
97 1 0.00
98 709 0.81
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (98 bp):
TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
GCTACATTGGACTTAAAGATGATGATGCCAATA
Found at i:78041 original size:33 final size:35
Alignment explanation
Indices: 77997--78066 Score: 126
Period size: 33 Copynumber: 2.1 Consensus size: 35
77987 TATTGGGCTT
77997 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-GGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
78031 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAGGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
78065 AG
1 AG
78067 GGAGAAAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 26 0.74
34 9 0.26
ACGTcount: A:0.20, C:0.17, G:0.37, T:0.26
Consensus pattern (35 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
Found at i:78186 original size:33 final size:33
Alignment explanation
Indices: 78051--78529 Score: 519
Period size: 33 Copynumber: 14.4 Consensus size: 33
78041 CACCGACTTG
78051 TGTGGGCTTTAGGAAGGGAGAAAGA-TGCCACGGAGT
1 TGTGGGCTTTA--AA-GGA-AAAGAGTGCCACGGAGT
* * *
78087 TATGGACTTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAA-GG-AAAAGAGTGCCACGGAGT
*
78122 TGTGGGCTTTAAAAAGAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTT-AAAGGAA-AAGAGTGCCACGGAGT
78156 TGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGT
78189 TGTGGGC-TTAGAAGGAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTA-AAGGAAAAGAGTGCCACGGAGT
* *
78222 TGTGGGC-TTAGAAGGAAAAGTGTGCCACAGAGT
1 TGTGGGCTTTA-AAGGAAAAGAGTGCCACGGAGT
* *
78255 TGTGGGCTTTAAAAGAAAAAGAATGCCACGGAGT
1 TGTGGGCTTT-AAAGGAAAAGAGTGCCACGGAGT
* *
78289 TGTGGGC-TTAGAAGGAAAAGAGTGCCACGTAAT
1 TGTGGGCTTTA-AAGGAAAAGAGTGCCACGGAGT
78322 TGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGT
* *
78355 TGTGGGC-TTAGAAGGAAAAGAGTGCCACGTAAT
1 TGTGGGCTTTA-AAGGAAAAGAGTGCCACGGAGT
* * *
78388 TGTGGGC-TTAGAAGGAAAAGAATGCCACGTAAT
1 TGTGGGCTTTA-AAGGAAAAGAGTGCCACGGAGT
78421 TGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGT
* * * *
78454 TGTGGGCTTTGAA-GAAAAAAATGCCACTGAGT
1 TGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGT
* * * * * *
78486 CGTGGACTTT-GA-GAAGAGATTGCCACTGAGT
1 TGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGT
* *
78517 CGTGGACTTTAAA
1 TGTGGGCTTTAAA
78530 AAGGTATTTG
Statistics
Matches: 393, Mismatches: 37, Indels: 30
0.85 0.08 0.07
Matches are distributed among these distances:
31 27 0.07
32 35 0.09
33 229 0.58
34 67 0.17
35 24 0.06
36 11 0.03
ACGTcount: A:0.32, C:0.12, G:0.34, T:0.21
Consensus pattern (33 bp):
TGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGT
Found at i:78265 original size:133 final size:133
Alignment explanation
Indices: 78051--78532 Score: 581
Period size: 133 Copynumber: 3.6 Consensus size: 133
78041 CACCGACTTG
* *
78051 TGTGGGCTTTAGGAAGGGAGAAAGA-TGCCACGGAGTTATGGACTTAAAAGGGAAAAAGAGTGCC
1 TGTGGGCTTTA-GAA-GGA-AAAGAGTGCCACGGAGTTGTGGACTTAGAA-GG-AAAAGAGTGCC
*
78115 ACGGAGTTGTGGGCTTTAAAAAGAAGAAG-GTGCCACGGAGTTGTGGGCTTTAAAGGAAAAGAGT
61 AC-GAGTTGTGGGCTTTAAAAAGAA-AAGAATGCCACGGAGTTGTGGGCTTTAAAGGAAAAGAGT
78179 GCCACGGAGT
124 GCCACGGAGT
* *
78189 TGTGGGC-TTAGAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAGTGTGCCACAGA
1 TGTGGGCTTTAGAAGGAAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGAAAAGAGTGCCAC-GA
78253 GTTGTGGGCTTT-AAAAGAAAAAGAATGCCACGGAGTTGTGGGC-TTAGAAGGAAAAGAGTGCCA
65 GTTGTGGGCTTTAAAAAG-AAAAGAATGCCACGGAGTTGTGGGCTTTA-AAGGAAAAGAGTGCCA
* *
78316 CGTAAT
128 CGGAGT
*
78322 TGTGGGCTTTA-AAGGAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAGAGTGCCACGTA
1 TGTGGGCTTTAGAAGGAAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGAAAAGAGTGCCACG-A
* * * * *
78386 ATTGTGGGC-TTAGAAGGAAAAGAATGCCACGTAATTGTGGGCTTTAAAGGAAAAGAGTGCCACG
65 GTTGTGGGCTTTAAAAAGAAAAGAATGCCACGGAGTTGTGGGCTTTAAAGGAAAAGAGTGCCACG
78450 GAGT
130 GAGT
* * * * * * *
78454 TGTGGGCTTT-GAA-GAAAAAAATGCCACTGAGTCGTGGACTTTG-A-GAAGAGATTGCCACTGA
1 TGTGGGCTTTAGAAGGAAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGAAAAGAGTGCCAC-GA
* *
78515 GTCGTGGACTTTAAAAAG
65 GTTGTGGGCTTTAAAAAG
78533 GTATTTGAAG
Statistics
Matches: 304, Mismatches: 29, Indels: 30
0.84 0.08 0.08
Matches are distributed among these distances:
129 19 0.06
130 8 0.03
131 24 0.08
132 69 0.23
133 137 0.45
134 10 0.03
135 24 0.08
136 3 0.01
137 3 0.01
138 7 0.02
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (133 bp):
TGTGGGCTTTAGAAGGAAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGAAAAGAGTGCCACGAG
TTGTGGGCTTTAAAAAGAAAAGAATGCCACGGAGTTGTGGGCTTTAAAGGAAAAGAGTGCCACGG
AGT
Found at i:78512 original size:31 final size:32
Alignment explanation
Indices: 78443--78526 Score: 107
Period size: 31 Copynumber: 2.7 Consensus size: 32
78433 AGGAAAAGAG
* * *
78443 TGCCACGGAGTTGTGGGCTTTGAAGAAAAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAA
* * *
78475 TGCCACTGAGTCGTGGACTTTG-AGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAA
78506 TGCCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
78527 AAAAAGGTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
31 27 0.59
32 19 0.41
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (32 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAAAA
Found at i:79483 original size:1 final size:1
Alignment explanation
Indices: 79477--79513 Score: 56
Period size: 1 Copynumber: 37.0 Consensus size: 1
79467 GTTGTTCTTC
* *
79477 TTTTTTTTTTCTTTTTTTTTTTGTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
79514 GGAAAAGAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:0.03, G:0.03, T:0.95
Consensus pattern (1 bp):
T
Found at i:79494 original size:14 final size:14
Alignment explanation
Indices: 79471--79513 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
79461 AAAGGGGTTG
*
79471 TTCTTCTTTTTTTT
1 TTCTTTTTTTTTTT
79485 TTCTTTTTTTTTTT
1 TTCTTTTTTTTTTT
79499 GTT-TTTTTTTTTTT
1 -TTCTTTTTTTTTTT
79513 T
1 T
79514 GGAAAAGAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 1 0.04
14 24 0.89
15 2 0.07
ACGTcount: A:0.00, C:0.07, G:0.02, T:0.91
Consensus pattern (14 bp):
TTCTTTTTTTTTTT
Found at i:79514 original size:15 final size:15
Alignment explanation
Indices: 79468--79514 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
79458 TGAAAAGGGG
*
79468 TTGTTCTTCTTTTTT
1 TTGTTCTTTTTTTTT
79483 TT-TTCTTTTTTTTT
1 TTGTTCTTTTTTTTT
*
79497 TTGTTTTTTTTTTTT
1 TTGTTCTTTTTTTTT
79512 TTG
1 TTG
79515 GAAAAGAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 13 0.45
15 16 0.55
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.87
Consensus pattern (15 bp):
TTGTTCTTTTTTTTT
Found at i:79768 original size:11 final size:11
Alignment explanation
Indices: 79751--79823 Score: 71
Period size: 10 Copynumber: 6.7 Consensus size: 11
79741 GACTTTGCAC
79751 TTTTTTTCTGTG
1 TTTTTTT-TGTG
*
79763 TTTTTTTTTTG
1 TTTTTTTTGTG
*
79774 -TTTTTTTGTT
1 TTTTTTTTGTG
79784 TTTTTTTTGTG
1 TTTTTTTTGTG
*
79795 TGTTTTTTTTTG
1 T-TTTTTTTGTG
*
79807 -TTTGTTTGT-
1 TTTTTTTTGTG
79816 TTTTTTTT
1 TTTTTTTT
79824 TATCACCTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
10 21 0.42
11 13 0.26
12 16 0.32
ACGTcount: A:0.00, C:0.01, G:0.14, T:0.85
Consensus pattern (11 bp):
TTTTTTTTGTG
Found at i:79768 original size:14 final size:13
Alignment explanation
Indices: 79751--79821 Score: 55
Period size: 14 Copynumber: 5.7 Consensus size: 13
79741 GACTTTGCAC
*
79751 TTTTTTTCTGTG-
1 TTTTTTTTTGTGT
79763 TTTTTTTTT-TG-
1 TTTTTTTTTGTGT
79774 --TTTTTTTGT-T
1 TTTTTTTTTGTGT
79784 TTTTTTTTGTGTGT
1 TTTTTTTT-TGTGT
*
79798 TTTTTTTTGTTTGT
1 TTTTTTTT-TGTGT
79812 TTGTTTTTTT
1 TT-TTTTTTT
79822 TTTATCACCT
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
9 7 0.14
10 1 0.02
11 2 0.04
12 14 0.28
13 3 0.06
14 17 0.34
15 6 0.12
ACGTcount: A:0.00, C:0.01, G:0.14, T:0.85
Consensus pattern (13 bp):
TTTTTTTTTGTGT
Found at i:79769 original size:13 final size:12
Alignment explanation
Indices: 79751--79807 Score: 66
Period size: 12 Copynumber: 4.9 Consensus size: 12
79741 GACTTTGCAC
*
79751 TTTTTTTCTGTG
1 TTTTTTTTTGTG
79763 TTTTTTTTT-TG
1 TTTTTTTTTGTG
79774 TTTTTTTGTT-T-
1 TTTTTTT-TTGTG
*
79785 TTTTTTTGTGTG
1 TTTTTTTTTGTG
79797 TTTTTTTTTGT
1 TTTTTTTTTGT
79808 TTGTTTGTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
10 1 0.03
11 17 0.44
12 21 0.54
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.84
Consensus pattern (12 bp):
TTTTTTTTTGTG
Found at i:79788 original size:33 final size:33
Alignment explanation
Indices: 79751--79824 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
79741 GACTTTGCAC
* *
79751 TTTTTTTCTGTGT-TTTTTTTTTGTTTTTTTGT
1 TTTTTTTTTGTGTGTTTTTTTTTGTTTGTTTGT
79783 TTTTTTTTTGTGTGTTTTTTTTTGTTTGTTTGT
1 TTTTTTTTTGTGTGTTTTTTTTTGTTTGTTTGT
79816 TTTTTTTTT
1 TTTTTTTTT
79825 ATCACCTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 12 0.31
33 27 0.69
ACGTcount: A:0.00, C:0.01, G:0.14, T:0.85
Consensus pattern (33 bp):
TTTTTTTTTGTGTGTTTTTTTTTGTTTGTTTGT
Found at i:79822 original size:19 final size:18
Alignment explanation
Indices: 79763--79824 Score: 88
Period size: 18 Copynumber: 3.4 Consensus size: 18
79753 TTTTTCTGTG
*
79763 TTTTTTTTTTGTTTTTTT
1 TTTTTTTTTTGTTTGTTT
*
79781 GTTTTTTTTTTGTGTGTTT
1 -TTTTTTTTTTGTTTGTTT
*
79800 TTTTTTGTTTGTTTGTTT
1 TTTTTTTTTTGTTTGTTT
79818 TTTTTTT
1 TTTTTTT
79825 ATCACCTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
18 22 0.58
19 16 0.42
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (18 bp):
TTTTTTTTTTGTTTGTTT
Found at i:79835 original size:33 final size:33
Alignment explanation
Indices: 79765--79836 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
79755 TTTCTGTGTT
* * ****
79765 TTTTTTTTGTTTTTTTGTTTTTTTTTTGTGTGT
1 TTTTTTTTGTTTGTTTGTTTTTTTTTTATCACC
79798 TTTTTTTTGTTTGTTTGTTTTTTTTTTATCACC
1 TTTTTTTTGTTTGTTTGTTTTTTTTTTATCACC
79831 TTTTTT
1 TTTTTT
79837 AAGGGAACTC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.03, C:0.04, G:0.11, T:0.82
Consensus pattern (33 bp):
TTTTTTTTGTTTGTTTGTTTTTTTTTTATCACC
Found at i:79836 original size:1 final size:1
Alignment explanation
Indices: 79763--79824 Score: 52
Period size: 1 Copynumber: 62.0 Consensus size: 1
79753 TTTTTCTGTG
* * * * * * * *
79763 TTTTTTTTTTGTTTTTTTGTTTTTTTTTTGTGTGTTTTTTTTTGTTTGTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
79825 ATCACCTTTT
Statistics
Matches: 45, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (1 bp):
T
Found at i:86782 original size:52 final size:52
Alignment explanation
Indices: 86712--86832 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
86702 GAAAATTTAT
*
86712 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
86764 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
86816 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
86833 AAGATCGTGT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Done.