Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold339
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: 1314099
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
File 2 of 9
Found at i:138567 original size:40 final size:39
Alignment explanation
Indices: 138508--138585 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
138498 GGTAAAAAGA
* * *
138508 CATAATGTATCAATACATTGAAGAATGTATTGATACATT
1 CATAATGTATCAATACATTGAAAAATATATCGATACATT
*
138547 CATACATGTATCGATACATTGAAAAATATATCGATACAT
1 CATA-ATGTATCAATACATTGAAAAATATATCGATACAT
138586 CTAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (39 bp):
CATAATGTATCAATACATTGAAAAATATATCGATACATT
Found at i:143914 original size:19 final size:19
Alignment explanation
Indices: 143877--143916 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
143867 AAGGGCCACT
*
143877 TTTTTTTTCTTGATGTTCA
1 TTTTTTTTCTTGATATTCA
*
143896 TTTTTTTTCTTGCTATTCA
1 TTTTTTTTCTTGATATTCA
143915 TT
1 TT
143917 CCCATTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.10, C:0.12, G:0.07, T:0.70
Consensus pattern (19 bp):
TTTTTTTTCTTGATATTCA
Found at i:144284 original size:35 final size:35
Alignment explanation
Indices: 144238--144307 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
144228 TAATAGTAAG
*
144238 AAAGACGCGTTCACCAAAAGGTATGGCGACATTGC
1 AAAGACGCGTTCACCAAAAGGTATGCCGACATTGC
144273 AAAGACGCGTTCACCAAAAGGTATGCCGACATTGC
1 AAAGACGCGTTCACCAAAAGGTATGCCGACATTGC
144308 TCTCTTGCTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.17
Consensus pattern (35 bp):
AAAGACGCGTTCACCAAAAGGTATGCCGACATTGC
Found at i:148655 original size:115 final size:116
Alignment explanation
Indices: 148452--148675 Score: 432
Period size: 115 Copynumber: 1.9 Consensus size: 116
148442 AAGCATAGAA
*
148452 GAAGTAAAAATGCCAATGTCTTTGGTCTAGGCATGCATTGAGTCAAGTTGGATTACGTAATGCAG
1 GAAGTAAAAATGCCAATATCTTTGGTCTAGGCATGCATTGAGTCAAGTTGGATTACGTAATGCAG
148517 CAAAATGGTTGGAGGATAAGCTCAACAAACTTTTGTGACTTCCACACTATT
66 CAAAATGGTTGGAGGATAAGCTCAACAAACTTTTGTGACTTCCACACTATT
148568 GAAGTAAAAATGCCAATATCTTTGGTCT-GGCATGCATTGAGTCAAGTTGGATTACGTAATGCAG
1 GAAGTAAAAATGCCAATATCTTTGGTCTAGGCATGCATTGAGTCAAGTTGGATTACGTAATGCAG
148632 CAAAATGGTTGGAGGATAAGCTCAACAAACTTTTGTGACTTCCA
66 CAAAATGGTTGGAGGATAAGCTCAACAAACTTTTGTGACTTCCA
148676 TACTGTTGTA
Statistics
Matches: 107, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
115 80 0.75
116 27 0.25
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (116 bp):
GAAGTAAAAATGCCAATATCTTTGGTCTAGGCATGCATTGAGTCAAGTTGGATTACGTAATGCAG
CAAAATGGTTGGAGGATAAGCTCAACAAACTTTTGTGACTTCCACACTATT
Found at i:154128 original size:10 final size:10
Alignment explanation
Indices: 154099--154161 Score: 54
Period size: 10 Copynumber: 5.8 Consensus size: 10
154089 CCTTTACACC
154099 CAAAAAAAATA
1 CAAAAAAAA-A
*
154110 AAAACAAAAAA
1 CAAA-AAAAAA
*
154121 CAAAAAAAAG
1 CAAAAAAAAA
*
154131 CAAAAAAAAC
1 CAAAAAAAAA
154141 CAAGAAAAAATA
1 CAA-AAAAAA-A
154153 GCAAAAAAA
1 -CAAAAAAA
154162 CAGAAAGGGG
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
10 17 0.40
11 13 0.30
12 10 0.23
13 3 0.07
ACGTcount: A:0.81, C:0.11, G:0.05, T:0.03
Consensus pattern (10 bp):
CAAAAAAAAA
Found at i:154129 original size:17 final size:16
Alignment explanation
Indices: 154100--154139 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
154090 CTTTACACCC
*
154100 AAAAAAAATAAAAACA
1 AAAAAAAAAAAAAACA
*
154116 AAAAACAAAAAAAAGCA
1 AAAAA-AAAAAAAAACA
154133 AAAAAAA
1 AAAAAAA
154140 CCAAGAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.88, C:0.07, G:0.03, T:0.03
Consensus pattern (16 bp):
AAAAAAAAAAAAAACA
Found at i:154135 original size:23 final size:23
Alignment explanation
Indices: 154099--154161 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
154089 CCTTTACACC
*
154099 CAAAAAAAA-TAAAAACAAA-AAA
1 CAAAAAAAAGCAAAAA-AAACAAA
*
154121 CAAAAAAAAGCAAAAAAAACCAA
1 CAAAAAAAAGCAAAAAAAACAAA
* *
154144 GAAAAAATAGCAAAAAAA
1 CAAAAAAAAGCAAAAAAA
154162 CAGAAAGGGG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
22 12 0.34
23 23 0.66
ACGTcount: A:0.81, C:0.11, G:0.05, T:0.03
Consensus pattern (23 bp):
CAAAAAAAAGCAAAAAAAACAAA
Found at i:155210 original size:29 final size:29
Alignment explanation
Indices: 155115--155939 Score: 1007
Period size: 28 Copynumber: 28.4 Consensus size: 29
155105 CGTTCATCTC
155115 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
** * *
155144 TTCAAAGCTAATACGAGTCGGTGGCAACTCTT
1 TTCAAAGC--CCACAAGTCAGTGGC-ACTCTT
* * *
155176 TTCAAAACCTATAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
155205 TTCAAAGTCCACAAGTCAGTGGCATTCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
155234 TTCAAAGCCCACAAGTTAGTGACA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
**
155262 TTCAAAGCCCACAAGTCAGTGGCAC-CCG
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
155290 TTCAAGGCCCACGCAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCA--CAAGTCAGTGGCACTCTT
* *
155320 TTCAAAGCCCACAAGTTAGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
155349 TT-AAAGCCCACAAGTTAATGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
155377 TTCAAAGCCCATAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
155405 TTCAAAGCCCACAAGTCAGTAGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
155433 TTCAAAGCCCATAAGTCGGTGGCCCTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
155462 TTCAAAGCCCACACGAGTC-GATGGCCACTCTT
1 TTCAAAGCCCACA--AGTCAG-TGG-CACTCTT
*
155494 TTCAAAGCCCACAAGTCAGTGGCACTTTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
155523 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
155552 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
155580 TTCAAAGCCCATGCAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCA--CAAGTCAGTGGCACTCTT
* *
155610 TTCAAAGCCCATAAATCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
155639 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
155667 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
155695 TTCAAAGCTCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
155724 TTCAAAGCTCACAAGTTAGTGG-ATTC-T
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
155751 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
155779 TTCAAAGCCTCTACAAGTCAGTGGCACTCTT
1 TTCAAAGCC-C-ACAAGTCAGTGGCACTCTT
*
155810 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
155838 TTCAAAGCCCACAAGTCAGTGGCACTC-T
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
155866 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
155895 TTCAAAGCCCACACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-ACTCTT
*
155927 TACAAAGCCCACA
1 TTCAAAGCCCACA
155940 CAAGTTAATG
Statistics
Matches: 707, Mismatches: 61, Indels: 53
0.86 0.07 0.06
Matches are distributed among these distances:
27 22 0.03
28 274 0.39
29 233 0.33
30 89 0.13
31 39 0.06
32 50 0.07
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (29 bp):
TTCAAAGCCCACAAGTCAGTGGCACTCTT
Found at i:155274 original size:57 final size:56
Alignment explanation
Indices: 155115--155939 Score: 918
Period size: 57 Copynumber: 14.2 Consensus size: 56
155105 CGTTCATCTC
* ** * * *
155115 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCTAATACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGC--CCACAAGTCAGTGGC-A-TCCT
* * * * *
155176 TTCAAAACCTATAAGTCAGTGGCACTCTTTTCAAAGTCCACAAGTCAGTGGCATTCCT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCA-TCCT
* * * * *
155234 TTCAAAGCCCACAAGTTAGTGACATCCTTTCAAAGCCCACAAGTCAGTGGCACCCG
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
155290 TTCAAGGCCCACGCAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCA--CAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
* * * * * *
155348 TTTAAAGCCCACAAGTTAATGGCACTCTTTTCAAAGCCCATAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCATCCT
* * * * *
155405 TTCAAAGCCCACAAGTCAGTAGCACCCTTTCAAAGCCCATAAGTCGGTGGCCCTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGG-CATCCT
* **
155462 TTCAAAGCCCACACGAGTC-GATGGCCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTTTT
1 TTCAAAGCCCACA--AGTCAG-TGG-CAC-CCTTTCAAAGCCCACAAGTCAGTGGCA-TCCT
* *
155523 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
155580 TTCAAAGCCCATGCAAGTCAGTGGCACCCTTTCAAAGCCCATAAATCAGTGGCACTCTT
1 TTCAAAGCCCA--CAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-TCCT
*
155639 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
* * * * *
155695 TTCAAAGCTCACAAGTCAGTGGCACTCTTTTCAAAGCTCACAAGTTAGTGG-ATTCT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCATCCT
*
155751 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCTCTACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC-C-ACAAGTCAGTGGCA-TCCT
155810 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-CTCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATC-CT
* * *
155866 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACGAGTCGGTGGCAACTCT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACA--AGTCAGTGGCATC-CT
155926 TTACAAAGCCCACA
1 TT-CAAAGCCCACA
155940 CAAGTTAATG
Statistics
Matches: 664, Mismatches: 75, Indels: 50
0.84 0.10 0.06
Matches are distributed among these distances:
55 11 0.02
56 127 0.19
57 203 0.31
58 130 0.20
59 100 0.15
60 11 0.02
61 82 0.12
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (56 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:160119 original size:9 final size:9
Alignment explanation
Indices: 160107--160141 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
160097 CTAATTTTGA
160107 TTTTTTTCT
1 TTTTTTTCT
160116 TTTTTTTCT
1 TTTTTTTCT
*
160125 TTTTCTTCT
1 TTTTTTTCT
160134 TCTTTTTT
1 T-TTTTTT
160142 TCTTCTTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 18 0.78
10 5 0.22
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:160970 original size:8 final size:8
Alignment explanation
Indices: 160952--160985 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
160942 AACTTAGGTA
160952 ATTTATTTT
1 ATTT-TTTT
160961 ATTTTTTT
1 ATTTTTTT
160969 ATTTTTTT
1 ATTTTTTT
*
160977 AATTTTTT
1 ATTTTTTT
160985 A
1 A
160986 AATAAGGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
8 20 0.83
9 4 0.17
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (8 bp):
ATTTTTTT
Found at i:161220 original size:16 final size:17
Alignment explanation
Indices: 161186--161226 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
161176 GAAATGATTG
161186 ATTATAACATTTTTGTA
1 ATTATAACATTTTTGTA
*
161203 ATTATAATATTTTT-TA
1 ATTATAACATTTTTGTA
161219 ATTATAAC
1 ATTATAAC
161227 TTTAATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (17 bp):
ATTATAACATTTTTGTA
Found at i:161350 original size:3 final size:3
Alignment explanation
Indices: 161342--161413 Score: 144
Period size: 3 Copynumber: 24.0 Consensus size: 3
161332 TAAAAGAATA
161342 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
161390 TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT
161414 GACTGTAAAA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:163356 original size:22 final size:20
Alignment explanation
Indices: 163319--163360 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
163309 TTTTAAAAAT
163319 TTTTAAATACTTATTAGATAA
1 TTTTAAATACTTATTA-ATAA
*
163340 TTTTAAATATTTCATTAATAA
1 TTTTAAATACTT-ATTAATAA
163361 AATGCATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (20 bp):
TTTTAAATACTTATTAATAA
Found at i:163520 original size:175 final size:176
Alignment explanation
Indices: 163160--163487 Score: 416
Period size: 175 Copynumber: 1.9 Consensus size: 176
163150 AATATACCTA
* *
163160 ATAATTTTAAATATTTTGATAATAAAATGCATTTATCAAGTTAAAAAATTATGAAGTAATAAGCA
1 ATAATTTTAAATATTTTCATAATAAAATGCATTTATCAAGTTAAAAAATTATGAAATAATAAGCA
* * * *
163225 TCAAAGAAAAATGTAAATTGGCATTTTCATATTAAAATATGATAGTTTCTTAAGCGTTCAAAATT
66 TCAAAGAAAAATGTAAATTGGCATTTTCATATTAAAATACGATAGTTTCTCAAGCGATAAAAATT
163290 TATTTTACATAATTTTAAATTTTAAAAATTTTTAAATACTTATTAG
131 TATTTTACATAATTTTAAATTTTAAAAATTTTTAAATACTTATTAG
*
163336 ATAATTTTAAATA-TTTCATTAATAAAATGCATTTA-CTAGGTT-AAAAATTACT-AAATAATAA
1 ATAATTTTAAATATTTTCA-TAATAAAATGCATTTATC-AAGTTAAAAAATTA-TGAAATAATAA
** * ** * *
163397 GTTTTAAAGAAAAATGTATGTTGGCATTTTCATATTAAATTGCGA-ATGTTTCTCAAGC-ATAAA
63 GCATCAAAGAAAAATGTAAATTGGCATTTTCATATTAAAATACGATA-GTTTCTCAAGCGATAAA
* ** *
163460 AATTTGTTTTGTATAATTTTAGATTTTA
127 AATTTATTTTACATAATTTTAAATTTTA
163488 GTATTTTTTT
Statistics
Matches: 130, Mismatches: 18, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
174 28 0.22
175 68 0.52
176 34 0.26
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.42
Consensus pattern (176 bp):
ATAATTTTAAATATTTTCATAATAAAATGCATTTATCAAGTTAAAAAATTATGAAATAATAAGCA
TCAAAGAAAAATGTAAATTGGCATTTTCATATTAAAATACGATAGTTTCTCAAGCGATAAAAATT
TATTTTACATAATTTTAAATTTTAAAAATTTTTAAATACTTATTAG
Found at i:164414 original size:20 final size:20
Alignment explanation
Indices: 164386--164460 Score: 98
Period size: 20 Copynumber: 3.8 Consensus size: 20
164376 CTACCAAGGA
* *
164386 AATGAATCGACACATTATTC
1 AATGTATCGATACATTATTC
164406 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
164426 AATGTATCGATACATTGA-TC
1 AATGTATCGATACATT-ATTC
**
164446 TTTGTATCGATACAT
1 AATGTATCGATACAT
164461 CTGGGAATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 49 0.98
21 1 0.02
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (20 bp):
AATGTATCGATACATTATTC
Found at i:166552 original size:254 final size:254
Alignment explanation
Indices: 166096--166592 Score: 967
Period size: 254 Copynumber: 2.0 Consensus size: 254
166086 ATCATTTGCA
* *
166096 ATTTTTTGATACCAAATGAGTCCGGGGTGATTTTTCAAAGTTTGACACACCTTTTTCTGCATATG
1 ATTTTTCGATACCAAACGAGTCCGGGGTGATTTTTCAAAGTTTGACACACCTTTTTCTGCATATG
166161 CTCTGCCAGTAGTGCAATTCACCCTACTTTGAGAATTTATTCCACCTAGAAAACGATTTTTCTAG
66 CTCTGCCAGTAGTGCAATTCACCCTACTTTGAGAATTTATTCCACCTAGAAAACGATTTTTCTAG
166226 ATTTTTGGAATATTTTTAGATCGACCCCCATCAAGTCACCTTTCCAACGGTACCTCGTTTACCCT
131 ATTTTTGGAATATTTTTAGATCGACCCCCATCAAGTCACCTTTCCAACGGTACCTCGTTTACCCT
166291 CTAAAGCCTTCAAATCAATCCGAAATAAATTTGGAAAGCAGGATAGCGAGTTCGGGGTG
196 CTAAAGCCTTCAAATCAATCCGAAATAAATTTGGAAAGCAGGATAGCGAGTTCGGGGTG
166350 ATTTTTCGATACCAAACGAGTCCGGGGTGATTTTTCAAAGTTTGACACACCTTTTTCTGCATATG
1 ATTTTTCGATACCAAACGAGTCCGGGGTGATTTTTCAAAGTTTGACACACCTTTTTCTGCATATG
166415 CTCTGCCAGTAGTGCAATTCACCCTACTTTGAGAATTTATTCCACCTAGAAAACGATTTTTCTAG
66 CTCTGCCAGTAGTGCAATTCACCCTACTTTGAGAATTTATTCCACCTAGAAAACGATTTTTCTAG
166480 ATTTTTGGAATATTTTTAGATCGACCCCCATCAAGTCACCTTTCCAACGGTACCTCGTTTACCCT
131 ATTTTTGGAATATTTTTAGATCGACCCCCATCAAGTCACCTTTCCAACGGTACCTCGTTTACCCT
*
166545 CTAAAGCCTTCAAATCAATCCGAAATAAATTTGGAAAGCGGGATAGCG
196 CTAAAGCCTTCAAATCAATCCGAAATAAATTTGGAAAGCAGGATAGCG
166593 CGATGCTATC
Statistics
Matches: 240, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
254 240 1.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.33
Consensus pattern (254 bp):
ATTTTTCGATACCAAACGAGTCCGGGGTGATTTTTCAAAGTTTGACACACCTTTTTCTGCATATG
CTCTGCCAGTAGTGCAATTCACCCTACTTTGAGAATTTATTCCACCTAGAAAACGATTTTTCTAG
ATTTTTGGAATATTTTTAGATCGACCCCCATCAAGTCACCTTTCCAACGGTACCTCGTTTACCCT
CTAAAGCCTTCAAATCAATCCGAAATAAATTTGGAAAGCAGGATAGCGAGTTCGGGGTG
Found at i:172877 original size:31 final size:31
Alignment explanation
Indices: 172839--173174 Score: 247
Period size: 31 Copynumber: 10.7 Consensus size: 31
172829 ATCTCTATTC
172839 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * *
172870 TCAAAGTCCACGACCCAGTGGCAATATCTT-T
1 TCAAAGTCCACGACTCAGTGGC-ATCTTTTCT
** *
172901 TCAAAGTCCATAACTCAATGGCATC-TTT-T
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
*
172930 TCTAAGTCCACGACTCAGTGGCATCATTTTCT
1 TCAAAGTCCACGACTCAGTGGCATC-TTTTCT
*
172962 TCCTAAAGTCCACGACTCAGTGGCAATCTCTTC-
1 T-C-AAAGTCCACGACTCAGTGGC-ATCTTTTCT
* * *
172995 TCAAAGTCCATGACTTAGTGGCATCTTCTTCC
1 TCAAAGTCCACGACTCAGTGGCATCTT-TTCT
* * *
173027 T-AAAGTCCACGACTTAGTGGCATCTCTT-G
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * * *
173056 TCCAAGTCCACGATTTAGTGGCATCTTGTC-
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * * * *
173086 CCAAAATCCACAACTCTGTGGCATCCTTGTCCCT
1 TCAAAGTCCACGACTCAGTGGCAT-CTT-T-TCT
** * * *
173120 TTTAAGTCCACAACTCTGTGGCACCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* *
173151 TTATAAATCCACGACTTC-GTGGCA
1 TCA-AAGTCCACGAC-TCAGTGGCA
173175 CACTTTTAAG
Statistics
Matches: 245, Mismatches: 43, Indels: 33
0.76 0.13 0.10
Matches are distributed among these distances:
29 25 0.10
30 48 0.20
31 94 0.38
32 25 0.10
33 8 0.03
34 42 0.17
35 3 0.01
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.32
Consensus pattern (31 bp):
TCAAAGTCCACGACTCAGTGGCATCTTTTCT
Found at i:173000 original size:94 final size:93
Alignment explanation
Indices: 172841--173068 Score: 309
Period size: 94 Copynumber: 2.5 Consensus size: 93
172831 CTCTATTCTC
*
172841 AAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACCCAGTGGCAATATCTTTTCAAA
1 AAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACCCAGTGGCAATATCTTCTCAAA
*
172906 GTCCATAACTCAATGGCATCTT-TTTCT
66 GTCCATAACTCAATGGCATCTTCTTCCT
* *
172933 -AAGTCCACGACTCAGTGGCATCATTTTCTTCCTAAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGCATC-TTTTCTT-C-AAAGTCCACGACCCAGTGGCAATATCTTCTC
* * *
172997 AAAGTCCATGACTTAGTGGCATCTTCTTCCT
63 AAAGTCCATAACTCAATGGCATCTTCTTCCT
* * * *
173028 AAAGTCCACGACTTAGTGGCATCTCTT-GTCCAAGTCCACGA
1 AAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGA
173069 TTTAGTGGCA
Statistics
Matches: 120, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
91 22 0.18
92 17 0.14
93 2 0.02
94 51 0.43
95 7 0.06
96 21 0.17
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (93 bp):
AAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACCCAGTGGCAATATCTTCTCAAA
GTCCATAACTCAATGGCATCTTCTTCCT
Found at i:173127 original size:156 final size:155
Alignment explanation
Indices: 172836--173142 Score: 332
Period size: 156 Copynumber: 2.0 Consensus size: 155
172826 CAAATCTCTA
* *
172836 TTCTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACCCAGTGGCAATATCTTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTCAAAGTCCACGACCCAGTGGCAATATCTTG
* ** * * * *
172901 TCAAAGTCCATAACTCAATGGCATCTTTTTCTAAGTCCACGACTCAGTGGCATCATTTTCTTCCT
66 TCAAAGTCCACAACTCAATGGCATCTTTCCCAAAATCCACAACTCAGTGGCATCATTTCCTT-CT
*
172966 AAAGTCCACGACTCAGTGGCAATCTC
130 AAAGTCCACAACTCAGTGGCAATCTC
* * ** *
172992 TTCTCAAAGTCCATGACTTAGTGGCATCTTCTTCCT-AAAGTCCACGACTTAGTGGC-ATCTCTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTT-TTCCTCAAAGTCCACGACCCAGTGGCAATATCTT
* * * * * * *
173055 GTCCAAGTCCACGATTTAGTGGCATCTTGTCCCAAAATCCACAACTCTGTGGCATCCTTGTCCCT
65 GTCAAAGTCCACAACTCAATGGCATCTT-TCCCAAAATCCACAACTCAGTGGCATCATT-T-CCT
* *
173120 T-TTAAGTCCACAACTCTGTGGCA
127 TCTAAAGTCCACAACTCAGTGGCA
173143 CCTTTTCTTT
Statistics
Matches: 123, Mismatches: 24, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
155 27 0.22
156 88 0.72
157 5 0.04
158 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (155 bp):
TTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTCAAAGTCCACGACCCAGTGGCAATATCTTG
TCAAAGTCCACAACTCAATGGCATCTTTCCCAAAATCCACAACTCAGTGGCATCATTTCCTTCTA
AAGTCCACAACTCAGTGGCAATCTC
Found at i:173198 original size:27 final size:27
Alignment explanation
Indices: 173159--173316 Score: 129
Period size: 27 Copynumber: 5.6 Consensus size: 27
173149 CTTTATAAAT
* *
173159 CCACGACTTCGTGGCACACTTTTAAGC
1 CCACAACTCCGTGGCACACTTTTAAGC
* *
173186 CTACAACTCCGTGGCACCCTTTTAAGC
1 CCACAACTCCGTGGCACACTTTTAAGC
* *
173213 CCACAACTCCGTGGCACTCTTTTTCCCTTTAAGT
1 CCACAACTCCGTGGCACAC----T---TTTAAGC
* * **
173247 CCACAACTCAGTGGCACCCTTTTAAAT
1 CCACAACTCCGTGGCACACTTTTAAGC
* *
173274 CCATAACTCCGTGGCATC-CTTTTAAGT
1 CCACAACTCCGTGGCA-CACTTTTAAGC
173301 CCACAACTCCGTGGCA
1 CCACAACTCCGTGGCA
173317 TCTGTTTCCT
Statistics
Matches: 109, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
27 83 0.76
28 1 0.01
30 1 0.01
31 1 0.01
34 23 0.21
ACGTcount: A:0.23, C:0.35, G:0.15, T:0.28
Consensus pattern (27 bp):
CCACAACTCCGTGGCACACTTTTAAGC
Found at i:173282 original size:88 final size:87
Alignment explanation
Indices: 173116--173353 Score: 270
Period size: 88 Copynumber: 2.7 Consensus size: 87
173106 GCATCCTTGT
* * * * *
173116 CCCTTTTAAGTCCACAACTCTGTGGCAC-C-TTTTCTTTATAAATCCACGACTTC-GTGGCACAC
1 CCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTCCTT-TAAGTCCACAAC-TCAGTGGCACCC
173178 TTTTAAGCCTACAACTCCGTGGCA
64 TTTTAAGCCTACAACTCCGTGGCA
*
173202 CCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTAAGTCCACAACTCAGTGGCACCCT
1 CCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTT-CCTTTAAGTCCACAACTCAGTGGCACCCT
* *
173267 TTTAAATCC-ATAACTCCGTGGCA
65 TTT-AAGCCTACAACTCCGTGGCA
* * * * *
173290 TCCTTTTAAGTCCACAACTCCGTGGCA-TCTGTTTCCTTTCAAAGCCCACAAGTCAGTGGTACCC
1 CCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTCCTTT--AAGTCCACAACTCAGTGGCACCC
173354 CTTTCAAAAC
Statistics
Matches: 131, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
86 31 0.24
87 9 0.07
88 84 0.64
89 7 0.05
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.30
Consensus pattern (87 bp):
CCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTCCTTTAAGTCCACAACTCAGTGGCACCCTT
TTAAGCCTACAACTCCGTGGCA
Found at i:173397 original size:28 final size:30
Alignment explanation
Indices: 173324--173437 Score: 112
Period size: 29 Copynumber: 3.9 Consensus size: 30
173314 GCATCTGTTT
* ** * *
173324 CCTTTC-AAAGCCCACAAGTCAGTGGTACC
1 CCTTTCAAAAGCACACAAGTTGGTGGCAAC
* *
173353 CCTTTCAAAA-CCCACAAGTTAGTGGCAA-
1 CCTTTCAAAAGCACACAAGTTGGTGGCAAC
173381 CC-TTCAAAAGCACACAAGTTGGT-GCAAC
1 CCTTTCAAAAGCACACAAGTTGGTGGCAAC
173409 CCTTTCAAAAGCCCACACAAGTTGGTGGC
1 CCTTTCAAAAG--CACACAAGTTGGTGGC
173438 GTCTTCTTCT
Statistics
Matches: 73, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
27 11 0.15
28 15 0.21
29 29 0.40
30 3 0.04
31 13 0.18
32 2 0.03
ACGTcount: A:0.32, C:0.31, G:0.18, T:0.20
Consensus pattern (30 bp):
CCTTTCAAAAGCACACAAGTTGGTGGCAAC
Found at i:173425 original size:29 final size:30
Alignment explanation
Indices: 173324--173425 Score: 124
Period size: 29 Copynumber: 3.6 Consensus size: 30
173314 GCATCTGTTT
* * *
173324 CCTTTC-AAAGCCCACAAGTCAGTGGTACC
1 CCTTTCAAAAGCCCACAAGTTAGTGGCAAC
173353 CCTTTCAAAA-CCCACAAGTTAGTGGCAA-
1 CCTTTCAAAAGCCCACAAGTTAGTGGCAAC
* *
173381 CC-TTCAAAAGCACACAAGTTGGT-GCAAC
1 CCTTTCAAAAGCCCACAAGTTAGTGGCAAC
173409 CCTTTCAAAAGCCCACA
1 CCTTTCAAAAGCCCACA
173426 CAAGTTGGTG
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
27 11 0.17
28 15 0.24
29 34 0.54
30 3 0.05
ACGTcount: A:0.33, C:0.32, G:0.15, T:0.20
Consensus pattern (30 bp):
CCTTTCAAAAGCCCACAAGTTAGTGGCAAC
Found at i:173429 original size:31 final size:30
Alignment explanation
Indices: 173352--173435 Score: 106
Period size: 28 Copynumber: 2.9 Consensus size: 30
173342 TCAGTGGTAC
*
173352 CCCTTTCAAAA-CC-CACAAGTTAGTGGCAA
1 CCCTTTCAAAAGCCACACAAGTTGGT-GCAA
173381 -CC-TTCAAAAG-CACACAAGTTGGTGCAA
1 CCCTTTCAAAAGCCACACAAGTTGGTGCAA
173408 CCCTTTCAAAAGCCCACACAAGTTGGTG
1 CCCTTTCAAAAG-CCACACAAGTTGGTG
173436 GCGTCTTCTT
Statistics
Matches: 48, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
27 12 0.25
28 14 0.29
29 8 0.17
31 14 0.29
ACGTcount: A:0.33, C:0.30, G:0.17, T:0.20
Consensus pattern (30 bp):
CCCTTTCAAAAGCCACACAAGTTGGTGCAA
Found at i:173601 original size:48 final size:48
Alignment explanation
Indices: 173535--173894 Score: 389
Period size: 48 Copynumber: 7.8 Consensus size: 48
173525 CACATTGGCA
* * * *
173535 TAAGCCCAATATCACTGGCCTTAAATCAGCATATTGGCACCTTGTCTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTT
*
173583 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTCTT
* * * *
173632 TAAAACCAATGTCGTTGGCCTTAAATCAGCACATTGGCA---------
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTT
* *
173671 TAAG-CCTAATATCGCTGGCTTTGAATCAGCATATTGGCACCTTGTCTT
1 TAAGACC-AATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTT
*
173719 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTCTT
* * *
173768 TAAAACCAATGTCGCTGGCCTTGAATCAACACATTGGCA---------
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTT
* *
173807 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTT
* *
173855 TAAGACCAATGTCGCTGGTCTTGAATCAGCACATTGGCAC
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCAC
173895 AAGCCCAATA
Statistics
Matches: 260, Mismatches: 30, Indels: 44
0.78 0.09 0.13
Matches are distributed among these distances:
38 2 0.01
39 64 0.25
48 109 0.42
49 85 0.33
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (48 bp):
TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTT
Found at i:173620 original size:87 final size:87
Alignment explanation
Indices: 173447--173916 Score: 456
Period size: 87 Copynumber: 5.3 Consensus size: 87
173437 CGTCTTCTTC
* * *
173447 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAAACCAATGTCGCT
1 TAAGCCCAATATCGCTGGCCTTAAATCAGCATATTGGCACC-TTATCTTTAAGACCAATGTCGCT
*
173512 GGCCTTGAATCGGCACATTGGCA
65 GGCCTTGAATCAGCACATTGGCA
* *
173535 TAAGCCCAATATCACTGGCCTTAAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTG
1 TAAGCCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTG
*
173600 GCCTTGAATCAGCATATTGGCACCTTTA
66 GCCTTGAATCAGCACATTGG---C---A
** * * * *
173628 TCTTTAAAACCAATGTCGTTGGCCTTAAATCAGCACATTGG---C--A----TAAG-CCTAATAT
1 ----TAAGCCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTATCTTTAAGACC-AATGT
* *
173683 CGCTGGCTTTGAATCAGCATATTGGCA
61 CGCTGGCCTTGAATCAGCACATTGGCA
* * * *
173710 CCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAAACC
1 ---------TAAGCCCAATATCGCTGGCCTTAAATCAGCATATTGGCACC-TTATCTTTAAGACC
*
173775 AATGTCGCTGGCCTTGAATCAACACATTGGCA
56 AATGTCGCTGGCCTTGAATCAGCACATTGGCA
* *
173807 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTG
1 TAAGCCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTG
*
173872 GTCTTGAATCAGCACATTGGCA
66 GCCTTGAATCAGCACATTGGCA
*
173894 CAAGCCCAATATCGCTGGCCTTA
1 TAAGCCCAATATCGCTGGCCTTA
173917 GCCCAATATC
Statistics
Matches: 322, Mismatches: 33, Indels: 55
0.79 0.08 0.13
Matches are distributed among these distances:
82 1 0.00
85 1 0.00
87 142 0.44
88 109 0.34
90 2 0.01
93 2 0.01
94 1 0.00
97 62 0.19
98 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.30
Consensus pattern (87 bp):
TAAGCCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTG
GCCTTGAATCAGCACATTGGCA
Found at i:173698 original size:136 final size:136
Alignment explanation
Indices: 173442--173894 Score: 789
Period size: 136 Copynumber: 3.3 Consensus size: 136
173432 GGTGGCGTCT
* *
173442 TCTTCTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAAACCAATG
1 TCTT-TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAAACCAATG
* * *
173507 TCGCTGGCCTTGAATCGGCACATTGGCATAAGCCCAATATCACTGGCCTTAAATCAGCATATTGG
65 TCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGG
173572 CACCTTG
130 CACCTTG
173579 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAAACCAATGT
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAAACCAATGT
* * * *
173644 CGTTGGCCTTAAATCAGCACATTGGCATAAGCCTAATATCGCTGGCTTTGAATCAGCATATTGGC
66 CGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGC
173709 ACCTTG
131 ACCTTG
173715 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAAACCAATGT
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAAACCAATGT
*
173780 CGCTGGCCTTGAATCAACACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGC
66 CGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGC
173845 ACCTTG
131 ACCTTG
* *
173851 TCTTTAAGACCAATGTCGCTGGTCTTGAATCAGCACATTGGCAC
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCAC
173895 AAGCCCAATA
Statistics
Matches: 300, Mismatches: 16, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
136 296 0.99
137 4 0.01
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (136 bp):
TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAAACCAATGT
CGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGC
ACCTTG
Found at i:173827 original size:39 final size:39
Alignment explanation
Indices: 173773--173915 Score: 142
Period size: 39 Copynumber: 3.4 Consensus size: 39
173763 ATCTTTAAAA
* *
173773 CCAATGTCGCTGGCCTTGAATCAACACATTGGCATAAGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCATAAGC
* *
173812 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCA---------TAAGC
* * *
173860 CCAATGTCGCTGGTCTTGAATCAGCACATTGGCACAAGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCATAAGC
173899 CCAATATCGCTGGCCTT
1 CCAATATCGCTGGCCTT
173916 AGCCCAATAT
Statistics
Matches: 84, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
39 49 0.58
48 35 0.42
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (39 bp):
CCAATATCGCTGGCCTTGAATCAGCACATTGGCATAAGC
Found at i:173919 original size:20 final size:20
Alignment explanation
Indices: 173896--173935 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
173886 CATTGGCACA
173896 AGCCCAATATCGCTGGCCTT
1 AGCCCAATATCGCTGGCCTT
173916 AGCCCAATATCGCTGGCCTT
1 AGCCCAATATCGCTGGCCTT
173936 GAATCAGCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.35, G:0.20, T:0.25
Consensus pattern (20 bp):
AGCCCAATATCGCTGGCCTT
Found at i:173997 original size:52 final size:51
Alignment explanation
Indices: 173919--174453 Score: 565
Period size: 52 Copynumber: 10.6 Consensus size: 51
173909 TGGCCTTAGC
*
173919 CCAATATCGCTGGCCTTGAATCAGCATATTGGTACCTTCGTCATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TCGTCATCTTTAAGT
* * *
173971 CCAATATCGCTGGCCTTGAATCAGCATATTAGCGCA-TTTGTCATCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATT-G-GCACCTCGTCATCTTTAAGT
* * * * *
174023 CCAATGTTGCTGGCCTTGAATCAGCATATTAGCA-CT-TTCATCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCGTCATCTTTAAGT
* * * * ** *
174072 CCGATGTCGTTGGCCTTGAATCAGCACATTGGCACCTCAACCATCTTTAAGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTC-GTCATCTTTAAGT
* *
174124 CCAATATCACTGGCCTTGAATCAGCATATTGGCA--T-GTCATCTTTCAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCGTCATCTTTAAGT
* *
174172 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCT--TCATCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCGTCATCTTTAAGT
* * ** * * * ** *
174221 CCGATGTCATTGGCCTTAAATCAGCACATCGGCACCTCAACCATCTTTAAGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTC-GTCATCTTTAAGT
174273 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA---CGTCATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCGTCATCTTTAAGT
* * *
174321 CCAATGTCGCTGGCCTTGAATCAACACATTGGCACCT--TCATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCGTCATCTTTAAGT
* **
174370 CCAATATCGCTGGCCTTGAATCATCATATTGGCACCTTCGTCATCTTTAAAAC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TCGTCATCTTT-AAGT
* * *
174423 CCAATGTCGTTGGCCTTGAATCAGCACATTG
1 CCAATATCGCTGGCCTTGAATCAGCATATTG
174454 ACATTCTTCT
Statistics
Matches: 406, Mismatches: 60, Indels: 33
0.81 0.12 0.07
Matches are distributed among these distances:
48 82 0.20
49 128 0.32
50 9 0.02
52 155 0.38
53 30 0.07
54 2 0.00
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (51 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCGTCATCTTTAAGT
Found at i:174097 original size:101 final size:100
Alignment explanation
Indices: 173919--174453 Score: 555
Period size: 101 Copynumber: 5.3 Consensus size: 100
173909 TGGCCTTAGC
* *
173919 CCAATATCGCTGGCCTTGAATCAGCATATTGGTACCTTCGTCATCTTTAAGTCCAATATCGCTGG
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-CTT--TCATCTTTAAGTCCAATATCGCTGG
**
173984 CCTTGAATCAGCATATTAGCGCATTTGTCATCTTTAAGA
63 CCTTGAATCAGCATATT-GCGCATCCGTCATCTTTAAGA
* * * * * *
174023 CCAATGTTGCTGGCCTTGAATCAGCATATTAGCACTTTCATCTTTAAGACCGATGTCGTTGGCCT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACTTTCATCTTTAAGTCCAATATCGCTGGCCT
* *** *
174088 TGAATCAGCACATTG-GCACCTCAACCATCTTTAAGC
66 TGAATCAGCATATTGCGCA--TCCGTCATCTTTAAGA
* * * *
174124 CCAATATCACTGGCCTTGAATCAGCATATTGGCA-TGTCATCTTTCAGTCCAATATCGCTGGCCT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACTTTCATCTTTAAGTCCAATATCGCTGGCCT
* *
174188 TGAATCAGCACATTG-GCA-CCTTCATCTTTAAGA
66 TGAATCAGCATATTGCGCATCCGTCATCTTTAAGA
* ** * * * ** *
174221 CCGATGTCATTGGCCTTAAATCAGCACATCGGCACCTCAACCATCTTTAAGCCCAATATCGCTGG
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-CT--TTCATCTTTAAGTCCAATATCGCTGG
*
174286 CCTTGAATCAGCATATTG-GCA--CGTCATCTTTAAGT
63 CCTTGAATCAGCATATTGCGCATCCGTCATCTTTAAGA
* * *
174321 CCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACTTTCATCTTTAAGTCCAATATCGCTGGCCT
* * *
174386 TGAATCATCATATTG-GCACCTTCGTCATCTTTAAAA
66 TGAATCAGCATATTGCGCA--TCCGTCATCTTTAAGA
* *
174422 CCCAATGTCGTTGGCCTTGAATCAGCACATTG
1 -CCAATGTCGCTGGCCTTGAATCAGCATATTG
174454 ACATTCTTCT
Statistics
Matches: 364, Mismatches: 56, Indels: 24
0.82 0.13 0.05
Matches are distributed among these distances:
97 82 0.23
99 5 0.01
100 83 0.23
101 132 0.36
102 29 0.08
103 3 0.01
104 30 0.08
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (100 bp):
CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACTTTCATCTTTAAGTCCAATATCGCTGGCCT
TGAATCAGCATATTGCGCATCCGTCATCTTTAAGA
Found at i:174235 original size:149 final size:149
Alignment explanation
Indices: 173929--174453 Score: 703
Period size: 149 Copynumber: 3.5 Consensus size: 149
173919 CCAATATCGC
* * ** *
173929 TGGCCTTGAATCAGCATATTGGTACCTTCGTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCA
1 TGGCCTTGAATCAGCACATTGGCACCTTCACCATCTTTAAGCCCAATATCGCTGGCCTTGAATCA
* * * * *
173994 GCATATTAGCGCATTTGTCATCTTTAAGACCAATGTTGCTGGCCTTGAATCAGCATATTAGCACT
66 GCATATT-G-GCA--TGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
174059 TTCATCTTTAAGACCGATGTCGT
127 TTCATCTTTAAGACCGATGTCGT
*
174082 TGGCCTTGAATCAGCACATTGGCACC-TCAACCATCTTTAAGCCCAATATCACTGGCCTTGAATC
1 TGGCCTTGAATCAGCACATTGGCACCTTC-ACCATCTTTAAGCCCAATATCGCTGGCCTTGAATC
* *
174146 AGCATATTGGCATGTCATCTTTCAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTC
65 AGCATATTGGCATGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTC
*
174211 ATCTTTAAGACCGATGTCAT
130 ATCTTTAAGACCGATGTCGT
* *
174231 TGGCCTTAAATCAGCACATCGGCACC-TCAACCATCTTTAAGCCCAATATCGCTGGCCTTGAATC
1 TGGCCTTGAATCAGCACATTGGCACCTTC-ACCATCTTTAAGCCCAATATCGCTGGCCTTGAATC
* *
174295 AGCATATTGGCACGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTC
65 AGCATATTGGCATGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTC
* * * *
174360 ATCTTTAAGTCCAATATCGC
130 ATCTTTAAGACCGATGTCGT
* * ** * * *
174380 TGGCCTTGAATCATCATATTGGCACCTTCGTCATCTTTAAAACCCAATGTCGTTGGCCTTGAATC
1 TGGCCTTGAATCAGCACATTGGCACCTTCACCATCTTT-AAGCCCAATATCGCTGGCCTTGAATC
*
174445 AGCACATTG
65 AGCATATTG
174454 ACATTCTTCT
Statistics
Matches: 333, Mismatches: 36, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
149 231 0.69
150 33 0.10
151 3 0.01
152 3 0.01
153 63 0.19
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (149 bp):
TGGCCTTGAATCAGCACATTGGCACCTTCACCATCTTTAAGCCCAATATCGCTGGCCTTGAATCA
GCATATTGGCATGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
TCTTTAAGACCGATGTCGT
Found at i:175221 original size:19 final size:19
Alignment explanation
Indices: 175197--175259 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
175187 AAACAGTAAC
175197 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
175216 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
175229 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
175248 TGTATCGATACA
1 TGTATCGATACA
175260 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:175234 original size:13 final size:13
Alignment explanation
Indices: 175216--175273 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
175206 ACATAAGTGT
175216 TGTATCGATACAA
1 TGTATCGATACAA
175229 TGTATCGATACATAA
1 TGTATCGATAC--AA
175244 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
*
175261 TGTATCGCTACAA
1 TGTATCGATACAA
175274 AGCTACTGCC
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:175238 original size:32 final size:32
Alignment explanation
Indices: 175197--175272 Score: 143
Period size: 32 Copynumber: 2.4 Consensus size: 32
175187 AAACAGTAAC
175197 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
175229 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
175261 TGTATCGCTACA
1 TGTATCGATACA
175273 AAGCTACTGC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:180405 original size:14 final size:13
Alignment explanation
Indices: 180367--180406 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
180357 TAGCATGACA
180367 AGAAAATAAAAAG
1 AGAAAATAAAAAG
*
180380 AGTAAAAGAAAAAG
1 AG-AAAATAAAAAG
*
180394 AGAAAATTAAAAG
1 AGAAAATAAAAAG
180407 TTGTCAGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.72, C:0.00, G:0.17, T:0.10
Consensus pattern (13 bp):
AGAAAATAAAAAG
Found at i:182139 original size:14 final size:14
Alignment explanation
Indices: 182120--182147 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
182110 ACTATTAAAA
182120 AATATTTATATATT
1 AATATTTATATATT
182134 AATATTTATATATT
1 AATATTTATATATT
182148 TTTATAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
AATATTTATATATT
Found at i:182545 original size:24 final size:24
Alignment explanation
Indices: 182505--182569 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
182495 TAATCATAAT
* *
182505 TAATAAAAATTAAAATATTATATTA
1 TAATTAAAATTTAAATA-TATATTA
* * *
182530 T-ATTAATATTTTAATATATTTTA
1 TAATTAAAATTTAAATATATATTA
182553 TAATTAAAATTTAAATA
1 TAATTAAAATTTAAATA
182570 AAAATATTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
23 7 0.22
24 24 0.75
25 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TAATTAAAATTTAAATATATATTA
Found at i:186011 original size:7 final size:7
Alignment explanation
Indices: 185999--186023 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
185989 TCTGTACGCA
185999 TGTTTGG
1 TGTTTGG
186006 TGTTTGG
1 TGTTTGG
186013 TGTTTGG
1 TGTTTGG
186020 TGTT
1 TGTT
186024 GACTACCCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.40, T:0.60
Consensus pattern (7 bp):
TGTTTGG
Found at i:186618 original size:18 final size:19
Alignment explanation
Indices: 186586--186631 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
186576 ATAAAATTTT
186586 TATATTATAAA-TTAT-TAA
1 TATATTA-AAATTTATATAA
186604 TATATTAAAATTTATATAA
1 TATATTAAAATTTATATAA
186623 -ATA-TAAAAT
1 TATATTAAAAT
186632 ACTTTAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 9 0.35
18 14 0.54
19 3 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TATATTAAAATTTATATAA
Found at i:187887 original size:19 final size:19
Alignment explanation
Indices: 187839--187897 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
187829 ATTTATGTAA
*
187839 ATAAATTATA-AAATATA-
1 ATAAATTATATAAATAAAT
187856 AT-AATTGAT-TAAATAAAT
1 ATAAATT-ATATAAATAAAT
187874 ATAAATTATATAAA-AAATT
1 ATAAATTATATAAATAAA-T
187893 ATAAA
1 ATAAA
187898 ATGTATAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
16 4 0.11
17 10 0.29
18 7 0.20
19 14 0.40
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
ATAAATTATATAAATAAAT
Found at i:188323 original size:51 final size:51
Alignment explanation
Indices: 188243--188342 Score: 146
Period size: 51 Copynumber: 2.0 Consensus size: 51
188233 TAAACGACGA
* *
188243 AAAAAAAAAGAATTAAAAGTTAAATAATTAAATTTTTAATTTTTAGTTTTT
1 AAAAAAAAAGAATTAAAAGTTAAACAATTAAACTTTTAATTTTTAGTTTTT
* * * *
188294 AAAAAAATATAATTAAAATTTGAACAATTAAACTTTTAATTTTTAGTTT
1 AAAAAAAAAGAATTAAAAGTTAAACAATTAAACTTTTAATTTTTAGTTT
188343 AATTGGATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (51 bp):
AAAAAAAAAGAATTAAAAGTTAAACAATTAAACTTTTAATTTTTAGTTTTT
Found at i:188712 original size:20 final size:22
Alignment explanation
Indices: 188664--188717 Score: 69
Period size: 20 Copynumber: 2.6 Consensus size: 22
188654 TTTAACAAAT
188664 TGTATCGATACA-ATAGGGTAA
1 TGTATCGATACATATAGGGTAA
* *
188685 TATATCGATACATA-AGTG-AA
1 TGTATCGATACATATAGGGTAA
188705 TGTATCGATACAT
1 TGTATCGATACAT
188718 GTCTGAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 14 0.48
21 14 0.48
22 1 0.03
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (22 bp):
TGTATCGATACATATAGGGTAA
Found at i:188724 original size:20 final size:21
Alignment explanation
Indices: 188687--188737 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
188677 TAGGGTAATA
*
188687 TATCGATACATAAGTG-AATG
1 TATCGATACATAACTGAAATG
** *
188707 TATCGATACATGTCTGAAATT
1 TATCGATACATAACTGAAATG
188728 TATCGATACA
1 TATCGATACA
188738 AGAACATGTC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (21 bp):
TATCGATACATAACTGAAATG
Found at i:188846 original size:51 final size:52
Alignment explanation
Indices: 188773--188911 Score: 149
Period size: 51 Copynumber: 2.7 Consensus size: 52
188763 TCTAGAATGA
* * * *
188773 AAATATATAAATACATTT-TTCATTGTATCGATACATTCTAAG-TTTT-GACTC
1 AAATGTATCAATAC-TTTCTTCATTGTATCGATACATT-TAAGATTTTCAACCC
**
188824 AAATGTATCAATACTTTCTTCATTGTATCGATACATTTTGGATTTTCAACCC
1 AAATGTATCAATACTTTCTTCATTGTATCGATACATTTAAGATTTTCAACCC
* * * *
188876 AAATGTATCGATACATTCTTTAATGTATCGATACAT
1 AAATGTATCAATACTTTCTTCATTGTATCGATACAT
188912 ACAGACAAAT
Statistics
Matches: 75, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
50 5 0.07
51 35 0.47
52 35 0.47
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.42
Consensus pattern (52 bp):
AAATGTATCAATACTTTCTTCATTGTATCGATACATTTAAGATTTTCAACCC
Found at i:189982 original size:12 final size:12
Alignment explanation
Indices: 189965--189990 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
189955 TCCTCAATCA
189965 ATAGGGATTAAC
1 ATAGGGATTAAC
189977 ATAGGGATTAAC
1 ATAGGGATTAAC
189989 AT
1 AT
189991 GAGCTTAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (12 bp):
ATAGGGATTAAC
Found at i:191251 original size:97 final size:96
Alignment explanation
Indices: 191109--191298 Score: 265
Period size: 97 Copynumber: 2.0 Consensus size: 96
191099 GATATTCTAA
* * *
191109 CCCCATTCTTCTAAAGGGATACTCCAACCTTGTTTTTAAATTTGTCAAGGTTCAAATCTTATTTT
1 CCCCATTCTTCTAAAGGGATACTCCAACCTCGTTTTTAAACTTGTCAAGCTTCAAATCTTA-TTT
* *
191174 TGCCTAAATTGTCATCATCGGGGATACTCAAT
65 TACCTAAATTATCATCATCGGGGATACTCAAT
* *
191206 CCCCATTCTTCT-AAGGAGATACTTCAACCTCGTTTTTAAACTTGTCAAGCTTTAAATCTTATTT
1 CCCCATTCTTCTAAAGG-GATACTCCAACCTCGTTTTTAAACTTGTCAAGCTTCAAATCTTATTT
* * *
191270 TACTTAAATTATTATCGTCGGGGATACTC
65 TACCTAAATTATCATCATCGGGGATACTC
191299 CCGTATTCCT
Statistics
Matches: 82, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
96 31 0.38
97 51 0.62
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.39
Consensus pattern (96 bp):
CCCCATTCTTCTAAAGGGATACTCCAACCTCGTTTTTAAACTTGTCAAGCTTCAAATCTTATTTT
ACCTAAATTATCATCATCGGGGATACTCAAT
Found at i:200782 original size:51 final size:51
Alignment explanation
Indices: 200715--200832 Score: 155
Period size: 51 Copynumber: 2.3 Consensus size: 51
200705 TCGAAAATAA
* * * *
200715 CGGGGTTAGAGTATCCCCGATTGTGAAAAATCGATGCTTTAGAAATAAGGC
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATACTTTAGAAATAAAGC
* * * *
200766 CGGGGTTGGAGTATCCCCGATTGTGAGAAATTAATATTTTAGAAATAAAGT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATACTTTAGAAATAAAGC
*
200817 CGGGGTTGAAGTATCC
1 CGGGGTTGGAGTATCC
200833 TCTCGAAAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATACTTTAGAAATAAAGC
Found at i:200893 original size:28 final size:27
Alignment explanation
Indices: 200817--200893 Score: 111
Period size: 28 Copynumber: 2.8 Consensus size: 27
200807 GAAATAAAGT
*
200817 CGGGGTTGAAGTATCCTCTCGA-AAATAA
1 CGGGGTTGGAGTATCC-C-CGATAAATAA
200845 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAT-AAATAA
200873 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
200894 TGTGAAAATT
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
26 3 0.07
27 1 0.02
28 42 0.91
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.23
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCGATAAATAA
Found at i:200980 original size:157 final size:158
Alignment explanation
Indices: 200687--201016 Score: 445
Period size: 157 Copynumber: 2.1 Consensus size: 158
200677 AAAATAAAAT
200687 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATCGATGC
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATCGATGC
** * * * *
200752 TTTAGAAATAAGGCCGGGGTTGGAGTATCCCCGATTGTGAGAAATTAATATTTTAGAAATAAAGT
66 TTTAGAAATAAAACCGGAGTTAGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAACT
*
200817 CGGGGTTGAAGTATCCTCTC-GAAAATAA
131 CAGGGTTGAAGTATCCTCTCAG-AAATAA
* * *
200845 CGGGGTTGGAGTAT-CCC-CGATGAAATAACGGGGTTGGAGTATCCCCGATTGTG-AAAATTGGT
1 CGGGGTTGGAGTATCCCCTCGA--AAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATCGAT
* * * *
200907 GTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTGTGAAAAATTAGTATTTTAGAAATAAA
64 GCTTTAGAAATAAAACCGGAGTTAGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAAT-AA
* *
200972 ACT-AGGGTTGGAGTATCCTCTCAGAAATGA
128 ACTCAGGGTTGAAGTATCCTCTCAGAAATAA
201002 CGGGGTTGGAGTATC
1 CGGGGTTGGAGTATC
201017 TCCAATTGTG
Statistics
Matches: 151, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
156 3 0.02
157 99 0.66
158 49 0.32
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (158 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATCGATGC
TTTAGAAATAAAACCGGAGTTAGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAACT
CAGGGTTGAAGTATCCTCTCAGAAATAA
Found at i:200986 original size:51 final size:49
Alignment explanation
Indices: 200875--200989 Score: 158
Period size: 51 Copynumber: 2.3 Consensus size: 49
200865 TGAAATAACG
* * * *
200875 GGGTTGGAGTATCCCCGATTGTGAAAATTGGTGTTTTGGAAATAAAATC
1 GGGTTGGAGTATCCCCGATTGTGAAAATTAGTATTTTAGAAATAAAATA
*
200924 GGAGTTAGAGTATCCCCGATTGTGAAAAATTAGTATTTTAGAAATAAAACTA
1 GG-GTTGGAGTATCCCCGATTGTG-AAAATTAGTATTTTAGAAATAAAA-TA
200976 GGGTTGGAGTATCC
1 GGGTTGGAGTATCC
200990 TCTCAGAAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
49 2 0.04
50 20 0.35
51 32 0.56
52 3 0.05
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.31
Consensus pattern (49 bp):
GGGTTGGAGTATCCCCGATTGTGAAAATTAGTATTTTAGAAATAAAATA
Found at i:201026 original size:79 final size:77
Alignment explanation
Indices: 200928--201148 Score: 257
Period size: 79 Copynumber: 2.8 Consensus size: 77
200918 AAAATCGGAG
* *
200928 TTAGAGTATCCCCGATTGTGAAAAATTAGTATTTTAGAAATAAAACTAGGGTTGGAGTATCCTCT
1 TTAGAGTATCCCCGATTGTGAAAAATT-GTGTTTTAGAAATAAAACT-GGGTTGGAGTATCCCCT
* *
200993 CAGAAATGACGGGG
64 CAGAAATAACGGGA
* * *
201007 TTGGAGTATCTCCAATTGTGAAAAATTGGTGTTTTA-ATAATAAAA-TCGGGATTGGAGTATCCC
1 TTAGAGTATCCCCGATTGTGAAAAATT-GTGTTTTAGA-AATAAAACT-GGG-TTGGAGTATCCC
*
201070 CTCGGAAATAACGGGA
62 CTCAGAAATAACGGGA
* * *
201086 TTAGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACTGAGGTTGGAGGATCCC
1 TTAGAGTATCCCCGATTGTGAAAAATTG-TGTTTTAGAAATAAAACTG-GGTTGGAGTATCCC
201149 TGAGATGAAA
Statistics
Matches: 120, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
78 6 0.05
79 110 0.92
80 4 0.03
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (77 bp):
TTAGAGTATCCCCGATTGTGAAAAATTGTGTTTTAGAAATAAAACTGGGTTGGAGTATCCCCTCA
GAAATAACGGGA
Found at i:203513 original size:13 final size:13
Alignment explanation
Indices: 203495--203524 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
203485 GTAAACCCAG
*
203495 AATGTATTGATAC
1 AATGTATCGATAC
203508 AATGTATCGATAC
1 AATGTATCGATAC
203521 AATG
1 AATG
203525 AACAATGTAT
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:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:203531 original size:20 final size:20
Alignment explanation
Indices: 203506--203561 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
203496 ATGTATTGAT
203506 ACAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
* *
203526 ACAATGTATTGATTCAATGA
1 ACAATGTATCGATACAATGA
203546 ACAATGTATCGATACA
1 ACAATGTATCGATACA
203562 TCTGGGTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:212293 original size:21 final size:22
Alignment explanation
Indices: 212269--212316 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 22
212259 TTAAAAATAT
*
212269 AAAACTATAATA-AAATTTAAA
1 AAAACTAAAATAGAAATTTAAA
* *
212290 AAAAGTAAAATAGTAATTTTAAA
1 AAAACTAAAATAG-AAATTTAAA
212313 AAAA
1 AAAA
212317 ATCAGGATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 10 0.45
23 12 0.55
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (22 bp):
AAAACTAAAATAGAAATTTAAA
Found at i:212478 original size:11 final size:10
Alignment explanation
Indices: 212460--212513 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
212450 GAATATATAA
212460 AAAAATAATT
1 AAAAATAATT
212470 AAAATATAA-T
1 AAAA-ATAATT
*
212480 ATAAAT-A-T
1 AAAAATAATT
212488 AAAAATAATT
1 AAAAATAATT
212498 AAAATATAATAT
1 AAAA-ATAAT-T
212510 AAAA
1 AAAA
212514 GTAAGAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
8 7 0.19
9 3 0.08
10 13 0.35
11 9 0.24
12 5 0.14
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
AAAAATAATT
Found at i:212502 original size:17 final size:17
Alignment explanation
Indices: 212460--212506 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
212450 GAATATATAA
212460 AAAAATAATTAAAATAT
1 AAAAATAATTAAAATAT
212477 ---AAT-A-T-AAATAT
1 AAAAATAATTAAAATAT
212488 AAAAATAATTAAAATAT
1 AAAAATAATTAAAATAT
212505 AA
1 AA
212507 TATAAAAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 12
0.67 0.00 0.33
Matches are distributed among these distances:
11 6 0.25
12 1 0.04
13 1 0.04
14 6 0.25
15 1 0.04
16 1 0.04
17 8 0.33
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAAATAATTAAAATAT
Found at i:225352 original size:41 final size:41
Alignment explanation
Indices: 225295--225389 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 41
225285 CTAAATCTAT
* * *
225295 TATTTAAATCTATATTTCATATACGGATAAT-AGATTCGAGA
1 TATTTGAATCTGTATTTCACATACGGAT-ATCAGATTCGAGA
* * *
225336 TATTTGAATCTGTATTTTACATGCGGATATCAGATTTGAGA
1 TATTTGAATCTGTATTTCACATACGGATATCAGATTCGAGA
*
225377 TATTCGAATCTGT
1 TATTTGAATCTGT
225390 TCCCCTTTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
40 2 0.04
41 44 0.96
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.41
Consensus pattern (41 bp):
TATTTGAATCTGTATTTCACATACGGATATCAGATTCGAGA
Found at i:225768 original size:20 final size:20
Alignment explanation
Indices: 225745--225802 Score: 57
Period size: 18 Copynumber: 3.0 Consensus size: 20
225735 TTTTAAAATA
225745 TAATATATTTATATAAATTT
1 TAATATATTTATATAAATTT
** *
225765 TAATA-CGTTA-ATAATTTT
1 TAATATATTTATATAAATTT
*
225783 TATTATATATTATATAAATT
1 TAATATAT-TTATATAAATT
225803 CATATGATCA
Statistics
Matches: 28, Mismatches: 7, Indels: 5
0.70 0.17 0.12
Matches are distributed among these distances:
18 11 0.39
19 3 0.11
20 8 0.29
21 6 0.21
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
TAATATATTTATATAAATTT
Found at i:226313 original size:22 final size:22
Alignment explanation
Indices: 226288--226334 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
226278 ACACATACAC
*
226288 ATATGTATAATATAATTATCTT
1 ATATATATAATATAATTATCTT
226310 ATATATATAATATAATTATCTT
1 ATATATATAATATAATTATCTT
226332 ATA
1 ATA
226335 CATCGATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (22 bp):
ATATATATAATATAATTATCTT
Found at i:238984 original size:2 final size:2
Alignment explanation
Indices: 238979--239003 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
238969 AAAAAAGTCT
238979 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
239004 CGGGGAAGGG
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:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:239336 original size:25 final size:25
Alignment explanation
Indices: 239289--239336 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
239279 TATATTTATT
**
239289 TAAATTTAATTTAATTAGTTATAAA
1 TAAATTTAATTTAATTACATATAAA
*
239314 TAAATTTAATTTAATTTCATATA
1 TAAATTTAATTTAATTACATATA
239337 TGAGTGTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (25 bp):
TAAATTTAATTTAATTACATATAAA
Found at i:241714 original size:23 final size:24
Alignment explanation
Indices: 241663--241714 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
241653 TATTTTTTTT
* * *
241663 ATTTTTTAAAACAAATAAAGATCA
1 ATTTTTTAAAACAAAAAAACATAA
*
241687 TTTTTTTAAAA-AAAAAAACATAA
1 ATTTTTTAAAACAAAAAAACATAA
241710 ATTTT
1 ATTTT
241715 AAACTTTTCT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (24 bp):
ATTTTTTAAAACAAAAAAACATAA
Found at i:242263 original size:9 final size:9
Alignment explanation
Indices: 242249--242278 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
242239 CCATTTCATA
242249 TTTTTTTCT
1 TTTTTTTCT
242258 TTTTTTTCT
1 TTTTTTTCT
242267 TTTTCTTTCT
1 TTTT-TTTCT
242277 TT
1 TT
242279 CTTCTTCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.65
10 7 0.35
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:243584 original size:32 final size:32
Alignment explanation
Indices: 243535--243817 Score: 449
Period size: 32 Copynumber: 8.8 Consensus size: 32
243525 AAAATAGTGA
* * ** *
243535 TTTGAAAAGGGTTGCCACTGACTTGCATGAGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
243567 TTTTAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
243599 TTTGGAATGGGTTGCCACTGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
243631 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
243663 TTTGAAATGGGTTGCCACCGACTTGTGTAGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
243695 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
243727 TTTGAAATGAGTTGCCACTGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
243759 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
243791 TTTGAAAAGGGTTGCCACCGACTTGTG
1 TTTGAAATGGGTTGCCACCGACTTGTG
243818 GATTTAAAAG
Statistics
Matches: 231, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 231 1.00
ACGTcount: A:0.18, C:0.18, G:0.33, T:0.31
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:243843 original size:27 final size:27
Alignment explanation
Indices: 243795--244676 Score: 1314
Period size: 27 Copynumber: 32.2 Consensus size: 27
243785 GTGGGCTTTG
* * *
243795 AAAAGGGTTGCCACCGACTTGTGGATTT
1 AAAAGGG-TGCCACGGAGTTGTGGACTT
243823 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
243850 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* *
243877 AAAATGGTGCCACGGAGTTGAGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
243904 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
243931 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
243958 CAAAAGGGTGCCACGGAGTTGTGGACTT
1 -AAAAGGGTGCCACGGAGTTGTGGACTT
* *
243986 AAAAGGGGGCCACGGAGTTCTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
*
244014 AAAAGGGTGCCACGGAGTTTTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
* *
244042 TAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
244069 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* *
244096 AAAAGGGTGCCACGAAATTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
244123 AAAAGGGATGCCACAGAGTTGTGGACTT
1 AAAAGGG-TGCCACGGAGTTGTGGACTT
244151 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
244178 AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
244205 AAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
* * *
244233 AAAAGGGTGTCACGGAGTTCTGAACTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
244261 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
244288 AAAAGGGTGTCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* * *
244315 AAAAGGGTGACACAGAATTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
244342 AAAAGGGATGCCACGGAGTTGTGGACTT
1 AAAAGGG-TGCCACGGAGTTGTGGACTT
244370 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* *
244397 TAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
244424 AAAAGGGTGCCACGGAGTTGTGGACTA
1 AAAAGGGTGCCACGGAGTTGTGGACTT
244451 AAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
*
244479 AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* *
244506 AAAAGGATGCCACAGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
** ** *
244534 AAAAGAAAATGCCACTAAGTCGTGGACTT
1 AAAAG--GGTGCCACGGAGTTGTGGACTT
* **
244563 TAAAGGGTGCCACAAAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
244590 AAAAGGGTGCCACGGAGTTATGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
244617 AAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
244645 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
244672 TAAAG
1 AAAAG
244677 AGGTCACAAT
Statistics
Matches: 784, Mismatches: 60, Indels: 21
0.91 0.07 0.02
Matches are distributed among these distances:
27 522 0.67
28 240 0.31
29 6 0.01
30 16 0.02
ACGTcount: A:0.28, C:0.15, G:0.34, T:0.23
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:244145 original size:82 final size:81
Alignment explanation
Indices: 243795--244676 Score: 1314
Period size: 82 Copynumber: 10.7 Consensus size: 81
243785 GTGGGCTTTG
* * *
243795 AAAAGGGTTGCCACCGACTTGTGGATTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGC
1 AAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGC
243860 CACGGAGTTGTGGACTT
65 CACGGAGTTGTGGACTT
* *
243877 AAAATGGTGCCACGGAGTTGAGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
243942 ACGGAGTTGTGGACTT
66 ACGGAGTTGTGGACTT
* *
243958 CAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGGGCCACGGAGTTCTGGACTTTAAAAGGGTG
1 -AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTG
*
244023 CCACGGAGTTTTGGACTTT
64 CCACGGAGTTGTGGAC-TT
* *
244042 TAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
* *
244107 ACGAAATTGTGGACTT
66 ACGGAGTTGTGGACTT
*
244123 AAAAGGGATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGC
1 AAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGC
*
244188 CACAGAGTTGTGGACTT
65 CACGGAGTTGTGGACTT
* * *
244205 AAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGTCACGGAGTTCTGAACTTTAAAAGGGTG
1 AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTG
244270 CCACGGAGTTGTGGACTT
64 CCACGGAGTTGTGGACTT
* * * *
244288 AAAAGGGTGTCACGGAGTTGTGGACTTAAAAGGGTGACACAGAATTGTGGACTTAAAAGGGATGC
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGC
244353 CACGGAGTTGTGGACTT
65 CACGGAGTTGTGGACTT
* *
244370 AAAAGGGTGCCACGGAGTTGTGGACTTTAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCC
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
*
244435 ACGGAGTTGTGGACTA
66 ACGGAGTTGTGGACTT
* *
244451 AAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGATGC
1 AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGC
*
244516 CACAGAGTTGTGGACTTT
65 CACGGAGTTGTGGAC-TT
** ** * * **
244534 AAAAGAAAATGCCACTAAGTCGTGGACTTTAAAGGGTGCCACAAAGTTGTGGACTTAAAAGGGTG
1 AAAAG--GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTG
*
244599 CCACGGAGTTATGGACTT
64 CCACGGAGTTGTGGACTT
*
244617 AAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAG
1 AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
244677 AGGTCACAAT
Statistics
Matches: 728, Mismatches: 60, Indels: 24
0.90 0.07 0.03
Matches are distributed among these distances:
81 163 0.22
82 360 0.49
83 139 0.19
84 51 0.07
85 15 0.02
ACGTcount: A:0.28, C:0.15, G:0.34, T:0.23
Consensus pattern (81 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
ACGGAGTTGTGGACTT
Found at i:244184 original size:219 final size:218
Alignment explanation
Indices: 243784--244675 Score: 1367
Period size: 219 Copynumber: 4.1 Consensus size: 218
243774 CACCGACTTG
* * * *
243784 TGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGGA-TTTAAAAGGGTGCCACGGAGTTGTGGAC
1 TGTGGACTTT-AAAAGGG-TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGAC
* * * *
243848 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAATGGTGCCACGGAGTTGAGGACTTAAAAGGGTG
64 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAATTGTGGACTTAAAAGGGTG
* *
243913 CCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTCAAAAGGGTGCCACGGAGTT
129 CCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGGTGCCACAGAGTT
*
243978 GTGGACTTAAAAGGGGGCCACGGAGT
193 GTGGACTTAAAAGGGTGCCACGGAGT
* * *
244004 TCTGGACTTTAAAAGGGTGCCACGGAGTTTTGGACTTTTAAAGGGTGCCACAGAGTTGTGGACTT
1 TGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTT
244069 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAATTGTGGACTTAAAAGGGATGC
66 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAATTGTGGACTTAAAAGGG-TGC
244134 CACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGT
130 CACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGT
244199 GGACTTAAAAGGGTGCCACGGAGT
195 GGACTTAAAAGGGTGCCACGGAGT
* * * *
244223 TGTGGACTTTAAAAGGGTGTCACGGAGTTCTGAACTTTAAAAGGGTGCCACGGAGTTGTGGACTT
1 TGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTT
* *
244288 AAAAGGGTGTCACGGAGTTGTGGACTTAAAAGGGTGACAC-AGAATTGTGGACTTAAAAGGGATG
66 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGA-AATTGTGGACTTAAAAGGG-TG
* *
244352 CCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAGGGTGCCACAGAGTTG
129 CCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTG
244417 TGGACTTAAAAGGGTGCCACGGAGT
194 TGGACTTAAAAGGGTGCCACGGAGT
*
244442 TGTGGAC-TAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTT
1 TGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTT
* * ** * * * *
244506 AAAAGGATGCCACAGAGTTGTGGACTTTAAAAGAAAATGCCACTAAGTCGTGGACTTTAAAGGGT
66 AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAG--GGTGCCACGAAATTGTGGACTTAAAAGGGT
* * *
244571 GCCACAAAGTTGTGGACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTT
128 GCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTT
244636 GTGGACTTTAAAAGGGTGCCACGGAGT
193 GTGGAC-TTAAAAGGGTGCCACGGAGT
244663 TGTGGACTTTAAA
1 TGTGGACTTTAAA
244676 GAGGTCACAA
Statistics
Matches: 619, Mismatches: 44, Indels: 16
0.91 0.06 0.02
Matches are distributed among these distances:
218 89 0.14
219 356 0.58
220 121 0.20
221 48 0.08
222 5 0.01
ACGTcount: A:0.28, C:0.15, G:0.34, T:0.24
Consensus pattern (218 bp):
TGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTT
AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAATTGTGGACTTAAAAGGGTGCC
ACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTG
GACTTAAAAGGGTGCCACGGAGT
Found at i:245696 original size:9 final size:9
Alignment explanation
Indices: 245682--245706 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
245672 AAAAGGTTTT
245682 TTTTTTTGG
1 TTTTTTTGG
245691 TTTTTTTGG
1 TTTTTTTGG
245700 TTTTTTT
1 TTTTTTT
245707 TTTTTAGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (9 bp):
TTTTTTTGG
Found at i:246020 original size:23 final size:24
Alignment explanation
Indices: 245989--246039 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
245979 TATTTTGCTA
245989 TTGTACTTTTTCTTTTCA-TTTTT
1 TTGTACTTTTTCTTTTCACTTTTT
* *
246012 TTGTGCTTTTTCTTTTGACTTTTT
1 TTGTACTTTTTCTTTTCACTTTTT
246036 TTGT
1 TTGT
246040 CATTTAAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 16 0.64
24 9 0.36
ACGTcount: A:0.06, C:0.12, G:0.10, T:0.73
Consensus pattern (24 bp):
TTGTACTTTTTCTTTTCACTTTTT
Found at i:254700 original size:20 final size:20
Alignment explanation
Indices: 254667--254712 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
254657 ATTTGTATTA
*
254667 ATACAATAAATGAATGTATCG
1 ATAC-ATAAATGAATATATCG
*
254688 ATACATAAGTGAATATATCG
1 ATACATAAATGAATATATCG
254708 ATACA
1 ATACA
254713 AGACCATGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.48, C:0.11, G:0.13, T:0.28
Consensus pattern (20 bp):
ATACATAAATGAATATATCG
Found at i:257245 original size:27 final size:27
Alignment explanation
Indices: 257211--257285 Score: 132
Period size: 27 Copynumber: 2.8 Consensus size: 27
257201 GACTTTTTCA
257211 TCTGAGAGGATACTCTAACCCACCATC
1 TCTGAGAGGATACTCTAACCCACCATC
257238 TCTGAGAGGATACTCTAACCCACCATC
1 TCTGAGAGGATACTCTAACCCACCATC
* *
257265 TCTGAAAGGATACTCCAACCC
1 TCTGAGAGGATACTCTAACCC
257286 CATTTTTACT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21
Consensus pattern (27 bp):
TCTGAGAGGATACTCTAACCCACCATC
Found at i:258820 original size:20 final size:20
Alignment explanation
Indices: 258795--258866 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 20
258785 TACCCTGATG
258795 TATCGATACATTTTTCAATA
1 TATCGATACATTTTTCAATA
* * *
258815 TATCGATACATGTATGAATA
1 TATCGATACATTTTTCAATA
* * * *
258835 TATCGATATATTCTGCAATG
1 TATCGATACATTTTTCAATA
*
258855 TATCTATACATT
1 TATCGATACATT
258867 ATGTCTTTTT
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.42
Consensus pattern (20 bp):
TATCGATACATTTTTCAATA
Found at i:265205 original size:79 final size:79
Alignment explanation
Indices: 265038--265241 Score: 230
Period size: 79 Copynumber: 2.6 Consensus size: 79
265028 GAGATAATAA
* * * * ** *
265038 CGGGGTTGGAGTGTTCCCTTGAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTGTGAGAAATCAATGA
*
265103 TTAGAAAAAAAAAT
66 TTAGAAAAAAAAAC
*
265117 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTGTGAGAAATCAAT-A
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTGTGAGAAATCAATGA
* ** * *
265181 TTTTGGGAATAAAGC
66 -TTAGAAAAAAAAAC
* ** *
265196 CGGGGTTGGAGTATCCCCTCGGAGGTAACGGGATTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCC
265242 GATGAAATAA
Statistics
Matches: 105, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 1 0.01
79 104 0.99
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.24
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTGTGAGAAATCAATGA
TTAGAAAAAAAAAC
Found at i:265252 original size:107 final size:108
Alignment explanation
Indices: 265117--265321 Score: 272
Period size: 107 Copynumber: 1.9 Consensus size: 108
265107 AAAAAAAAAT
* *
265117 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTGTGAGAAATCAATA-
1 CGGGATTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCCCAATTGTGAAAAATCAATAT
* * *
265181 TTTTGGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAGGTAA
66 TTTTGGAAATAAAACCGGAGTTGGAGTATCCCCTCGGAGGTAA
* * ***
265224 CGGGATTGGAGTAT-CCC-CGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGT
1 CGGGATTGGAGTATCCCCTCGA--AAATAACGAGGTTGGAGTATCCCCAATTGTGAAAAATCAAT
*
265287 ATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
64 ATTTTTGGAAATAAAACCGGAGTTGGAGTATCCCC
265322 GATTAAAGGA
Statistics
Matches: 84, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
105 3 0.04
106 3 0.04
107 49 0.58
108 29 0.35
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (108 bp):
CGGGATTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCCCAATTGTGAAAAATCAATAT
TTTTGGAAATAAAACCGGAGTTGGAGTATCCCCTCGGAGGTAA
Found at i:265325 original size:52 final size:52
Alignment explanation
Indices: 265255--265643 Score: 289
Period size: 51 Copynumber: 7.4 Consensus size: 52
265245 GAAATAACGA
* *
265255 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTAGTTTTGGAAATAAAATCGG
* * *
265307 AGTTGGAGTATCCCCGATTAAAG-GAAAAATTGGT-GTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT---GTGAAAAATTGGTAGTTTTGGAAATAAAATCGG
* * * *
265360 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGT-GTTTTAGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTGT-GAAAAATTGGTAGTTTTGGAAATAAAATCGG
* *** *
265412 GGTTGGAGTATCCCCGATTATGAAAAATCAATA-TTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTAGTTTTGGAAATAAAATCGG
* *** * *
265463 GGTTGGAGTATCCCC--TCG-GAAATAACGGGGTTGG-AGTATCCCCGATGAT-TAA-CGG
1 GGTTGGAGTATCCCCGATTGTGAAA-AA-----TTGGTAGT-T-TTGGA-AATAAAATCGG
* * *
265518 GGTTGGAGTATCCCCGATTGTGAGAATTTGGTATTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTA-GTTTTGGAAATAAAATCGG
* * * * *
265571 AGTTGGAGTATCCCCGATTAT-AGAAAATTAGT-GTCTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGA-AAAATTGGTAGTTTTGGAAATAAAATCGG
* *
265622 AGTTGGAATATCCCCGATTGTG
1 GGTTGGAGTATCCCCGATTGTG
265644 GAGAATTGAG
Statistics
Matches: 265, Mismatches: 47, Indels: 50
0.73 0.13 0.14
Matches are distributed among these distances:
48 4 0.02
49 3 0.01
50 1 0.00
51 75 0.28
52 72 0.27
53 65 0.25
54 14 0.05
55 20 0.08
56 3 0.01
57 5 0.02
58 3 0.01
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (52 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTGGTAGTTTTGGAAATAAAATCGG
Found at i:265365 original size:53 final size:51
Alignment explanation
Indices: 265255--265477 Score: 234
Period size: 52 Copynumber: 4.3 Consensus size: 51
265245 GAAATAACGA
* * * * *
265255 GGTTGGAGTATCCTCGATT-GTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTAG-GAAAAATTAGT-GTTTTGAAAATAAAACCGG
* *
265307 AGTTGGAGTATCCCCGATTAAAGGAAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--AGGAAAAATTAGTGTTTTGAAAATAAAACCGG
* *
265360 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTT-AGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-AGGAAAAATTAGTGTTTTGA-AAATAAAACCGG
* * * * * **
265412 GGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTAGGAAAAATTAGTGTTTTGAAAATAAAACCGG
265463 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
265478 TCGGAAATAA
Statistics
Matches: 147, Mismatches: 19, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
51 38 0.26
52 63 0.43
53 34 0.23
54 11 0.07
55 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTAGGAAAAATTAGTGTTTTGAAAATAAAACCGG
Found at i:265405 original size:105 final size:103
Alignment explanation
Indices: 265255--265477 Score: 277
Period size: 105 Copynumber: 2.1 Consensus size: 103
265245 GAAATAACGA
* * * * *
265255 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCC
1 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTAGTTTTAGAAATAAAACCGGAGTTGGAGTATCC
*** *
265320 CCGATTAAAGGAAAAATTGGTGTTTTGAAAATAAAACCGG
66 CCGATT--AGGAAAAATCAATATTTTGAAAATAAAACCGG
* *
265360 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGT-GTTTTAGCAATAAAACCGGGGTTGGAGTATC
1 GGTTGGAGTATCCCCGATTGT-GAAAAATTAGTAGTTTTAGAAATAAAACCGGAGTTGGAGTATC
* * **
265424 CCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGG
65 CCCGATTAGGAAAAATCAATATTTTGAAAATAAAACCGG
265463 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
265478 TCGGAAATAA
Statistics
Matches: 102, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
103 39 0.38
105 53 0.52
106 10 0.10
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (103 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTAGTAGTTTTAGAAATAAAACCGGAGTTGGAGTATCC
CCGATTAGGAAAAATCAATATTTTGAAAATAAAACCGG
Found at i:265523 original size:27 final size:28
Alignment explanation
Indices: 265460--265535 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 28
265450 GAAATAAAGT
***
265460 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
265488 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
265515 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
265536 TGTGAGAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:268018 original size:13 final size:13
Alignment explanation
Indices: 268000--268025 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
267990 ACAAAGATCC
268000 ATGTATCGATACA
1 ATGTATCGATACA
268013 ATGTATCGATACA
1 ATGTATCGATACA
268026 TTTCCTTGGC
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:268085 original size:13 final size:13
Alignment explanation
Indices: 268067--268091 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
268057 ACAACACTTA
268067 TGTATCGATACAT
1 TGTATCGATACAT
268080 TGTATCGATACA
1 TGTATCGATACA
268092 AAACTTATGT
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:268089 original size:32 final size:32
Alignment explanation
Indices: 268048--268110 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
268038 TAGCTAATTA
*
268048 TGTATCGATACAACACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
268080 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
268111 AACTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:268112 original size:19 final size:19
Alignment explanation
Indices: 268045--268112 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
268035 CAGTAGCTAA
*
268045 TTATGTATCGATACAACAC
1 TTATGTATCGATACAAAAC
268064 TTATGTATCGATAC---A-
1 TTATGTATCGATACAAAAC
268079 -T-TGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
268096 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
268113 CTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 1 0.02
19 28 0.65
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:268174 original size:21 final size:21
Alignment explanation
Indices: 268148--268224 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
268138 GTTGGGACCC
* *
268148 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACA-TTCTACAAA
*
268169 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTACAAA
268190 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
268211 TGTATCGATACATT
1 TGTATCGATACATT
268225 TGGAAATTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:273019 original size:92 final size:92
Alignment explanation
Indices: 272842--273974 Score: 1660
Period size: 92 Copynumber: 12.0 Consensus size: 92
272832 CCTTTTCCAT
* * * * *
272842 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTCACCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
272906 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
272933 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
272998 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
273025 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
* *
273090 GCTGGCCTTGACTCAGCACATTAGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * * *
273117 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAGTGGCACCTTTATCTTTAAGTCCAATATA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
* *
273182 GCTGGCCTTGAATCAGCATATCGGCACCTTTTCC
66 GCTGGCCTTGAATCAGCACATTGGCA-------C
* * * * *
273216 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTCACCTTTAAGTCCAATG
1 --CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
273280 TAGCTGGCCTTGAATCAGCACATTGGCAC
64 TAGCTGGCCTTGAATCAGCACATTGGCAC
273309 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
273374 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
273401 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
* *
273466 GCTGGCCTTGACTCAGCACATTAGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * * *
273493 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAGTGGCACCTTTATCTTTAAGTCCAATATA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
* *
273558 GCTGGCCTTGAATCAGCATATCGGCACCTTTTCC
66 GCTGGCCTTGAATCAGCACATTGGCA-------C
* * * * *
273592 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTCACCTTTAAGTCCAATG
1 --CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
273656 TAGCTGGCCTTGAATCAGCACATTGGCAC
64 TAGCTGGCCTTGAATCAGCACATTGGCAC
273685 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
273750 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
273777 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
*
273842 GCTGGCCTTGACTCAGCACATTGGCACCTTC
66 GCTGGCCTTGAATCAGCACATTGGCA----C
* * * *
273873 ATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTCA
1 --CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCA
*
273938 ATGTAGCTGGCCTTGAATCAGCACATTGACATC
61 ATGTAGCTGGCCTTGAATCAGCACATTGGCA-C
273971 CTTT
1 CTTT
273975 TTCATCATCT
Statistics
Matches: 950, Mismatches: 62, Indels: 55
0.89 0.06 0.05
Matches are distributed among these distances:
91 117 0.12
92 577 0.61
93 2 0.00
96 5 0.01
98 42 0.04
99 2 0.00
100 87 0.09
101 118 0.12
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (92 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:273339 original size:284 final size:278
Alignment explanation
Indices: 272842--273974 Score: 1652
Period size: 284 Copynumber: 4.0 Consensus size: 278
272832 CCTTTTCCAT
* * * *
272842 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
272906 GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
66 GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
*
272971 GGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-CTTTAAGTC
131 GGCATCCTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCACTTTAAGTC
*
273034 CAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTT
196 CAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTT
* *
273099 GACTCAGCACATTAGCAC
261 GAATCAGCACATTGGCAC
* * *
273117 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAGTGGCACCTTTATCTTTAAGTCCAATATA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
* * * *
273182 GCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAAT
66 GCTGGCCTTGAATCAGCACATTGGCA-------C--CTTTAAGTCCAATATCGCTGGCCTTGAAT
* *
273247 CAGCACATTGGCA-CCTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-
122 CAGCATATTGGCATCCTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCA
*
273309 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
187 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
273374 GCTGGCCTTGAATCAGCACATTGGCAC
252 GCTGGCCTTGAATCAGCACATTGGCAC
*
273401 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
* * *
273466 GCTGGCCTTGACTCAGCACATTAGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAGT
66 GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
* * * *
273531 GGCA-CCTTTATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATC
131 GGCATCC-TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-----T-CA-C
* * * *
273595 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTCACCTTTAAGTCCAATGTAG
188 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
273659 CTGGCCTTGAATCAGCACATTGGCAC
253 CTGGCCTTGAATCAGCACATTGGCAC
*
273685 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
273750 GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
66 GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
* *
273815 GGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTA
131 GGCATCCTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---TCA-CTTTA
* * *
273880 AGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTCAATGTAGC
192 AGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAATGTAGC
*
273945 TGGCCTTGAATCAGCACATTGACATC
254 TGGCCTTGAATCAGCACATTGGCA-C
273971 CTTT
1 CTTT
273975 TTCATCATCT
Statistics
Matches: 775, Mismatches: 57, Indels: 41
0.89 0.07 0.05
Matches are distributed among these distances:
275 80 0.10
276 82 0.11
277 1 0.00
281 42 0.05
282 2 0.00
283 2 0.00
284 440 0.57
285 121 0.16
286 5 0.01
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (278 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
GGCATCCTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCACTTTAAGTC
CAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTT
GAATCAGCACATTGGCAC
Found at i:273513 original size:376 final size:376
Alignment explanation
Indices: 272820--273960 Score: 2149
Period size: 376 Copynumber: 3.0 Consensus size: 376
272810 AGCCTAGCCT
272820 AGCATATCGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 AGCATATCGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
272885 CTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCG
66 CTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCG
272950 CTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGC
131 CTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGC
273015 ACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAA
196 ACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAA
273080 GTCCAATGTAGCTGGCCTTGACTCAGCACATTAGCACCTTTAAGTCCAATATCGCTGGCCTTGAA
261 GTCCAATGTAGCTGGCCTTGACTCAGCACATTAGCACCTTTAAGTCCAATATCGCTGGCCTTGAA
273145 TCAGCATAGTGGCACCTTTATCTTTAAGTCCAATATAGCTGGCCTTGAATC
326 TCAGCATAGTGGCACCTTTATCTTTAAGTCCAATATAGCTGGCCTTGAATC
273196 AGCATATCGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 AGCATATCGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
273261 CTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCG
66 CTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCG
273326 CTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGC
131 CTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGC
273391 ACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAA
196 ACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAA
273456 GTCCAATGTAGCTGGCCTTGACTCAGCACATTAGCACCTTTAAGTCCAATATCGCTGGCCTTGAA
261 GTCCAATGTAGCTGGCCTTGACTCAGCACATTAGCACCTTTAAGTCCAATATCGCTGGCCTTGAA
273521 TCAGCATAGTGGCACCTTTATCTTTAAGTCCAATATAGCTGGCCTTGAATC
326 TCAGCATAGTGGCACCTTTATCTTTAAGTCCAATATAGCTGGCCTTGAATC
273572 AGCATATCGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 AGCATATCGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
273637 CTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCG
66 CTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCG
273702 CTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGC
131 CTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGC
273767 ACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAA
196 ACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAA
* *
273832 GTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGC
261 GTCCAATGTAGCTGGCCTTGACTCAGCACATTAGCA----C--CTTTAAGTCCAATATCGCTGGC
* *
273897 CTTGAATCAGCATA-TCGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATC
320 CTTGAATCAGCATAGT-GGCACC-TTT--ATCTTTAAGTCCAATATAGCTGGCCTTGAATC
273957 AGCA
1 AGCA
273961 CATTGACATC
Statistics
Matches: 751, Mismatches: 4, Indels: 11
0.98 0.01 0.01
Matches are distributed among these distances:
376 671 0.89
380 1 0.00
381 1 0.00
382 41 0.05
383 3 0.00
385 34 0.05
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (376 bp):
AGCATATCGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
CTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCG
CTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGC
ACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAA
GTCCAATGTAGCTGGCCTTGACTCAGCACATTAGCACCTTTAAGTCCAATATCGCTGGCCTTGAA
TCAGCATAGTGGCACCTTTATCTTTAAGTCCAATATAGCTGGCCTTGAATC
Found at i:274005 original size:56 final size:53
Alignment explanation
Indices: 273777--274013 Score: 213
Period size: 49 Copynumber: 4.6 Consensus size: 53
273767 ACATTGGCAC
* * * * *
273777 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA---TCT-TCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCTCAT
* * * *
273826 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC---T-TCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCTCAT
* *
273875 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCTCAT
* * *
273927 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACA-CC-TTTTC-TCAT
* * * * *
273983 CTTTGAGCCCAATATCGTTGGCCATGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
274014 ACATATTGGC
Statistics
Matches: 158, Mismatches: 20, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
49 83 0.53
52 41 0.26
53 2 0.01
54 5 0.03
56 27 0.17
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.33
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCTCAT
Found at i:274933 original size:13 final size:13
Alignment explanation
Indices: 274915--274939 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
274905 CAAAAAATGT
274915 TGTATCGATACAA
1 TGTATCGATACAA
274928 TGTATCGATACA
1 TGTATCGATACA
274940 TATTTTTTTG
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:275023 original size:13 final size:13
Alignment explanation
Indices: 275005--275029 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
274995 ATTACTCACA
275005 TGTATCGATACAT
1 TGTATCGATACAT
275018 TGTATCGATACA
1 TGTATCGATACA
275030 CTGATCTTTG
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:275166 original size:52 final size:52
Alignment explanation
Indices: 275038--275158 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
275028 CACTGATCTT
*
275038 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
275090 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
275142 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
275159 ATAAATTTTC
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:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:282042 original size:1 final size:1
Alignment explanation
Indices: 282036--282131 Score: 66
Period size: 1 Copynumber: 96.0 Consensus size: 1
282026 AGAAGTGATG
* * * * * * * * * *
282036 AAAAAAAAAAAAAACAAACAAAAAAAAAACACACAAAAAAAAACAACAAAAAACACAAAAAACAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
282101 AAAACAAAAAAAAAACAAACACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
282132 GTGCAAAGGT
Statistics
Matches: 67, Mismatches: 28, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 67 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:282058 original size:15 final size:15
Alignment explanation
Indices: 282040--282131 Score: 96
Period size: 15 Copynumber: 5.7 Consensus size: 15
282030 GTGATGAAAA
282040 AAAAAAAAAACAAAC
1 AAAAAAAAAACAAAC
*
282055 AAAAAAAAAACACAC
1 AAAAAAAAAACAAAC
282070 AAAAAAAAACAACAAA-
1 -AAAAAAAA-AACAAAC
282086 AAACACAAAAAACAAAAAAC
1 AAA-A-AAAAAAC---AAAC
282106 AAAAAAAAAACAAAC
1 AAAAAAAAAACAAAC
282121 ACAAAAAAAAA
1 A-AAAAAAAAA
282132 GTGCAAAGGT
Statistics
Matches: 66, Mismatches: 2, Indels: 17
0.78 0.02 0.20
Matches are distributed among these distances:
15 22 0.33
16 21 0.32
17 9 0.14
18 7 0.11
19 4 0.06
20 3 0.05
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAACAAAC
Found at i:282138 original size:19 final size:17
Alignment explanation
Indices: 282040--282131 Score: 95
Period size: 17 Copynumber: 5.5 Consensus size: 17
282030 GTGATGAAAA
282040 AAAAAAAAAAC-AA-AC
1 AAAAAAAAAACAAACAC
*
282055 AAAAAAAAAACACACA-
1 AAAAAAAAAACAAACAC
282071 AAAAAAAACAACAAA-A-
1 AAAAAAAA-AACAAACAC
* *
282087 AACACAAAAAACAAAAAAC
1 AA-AAAAAAAAC-AAACAC
282106 AAAAAAAAAACAAACAC
1 AAAAAAAAAACAAACAC
282123 AAAAAAAAA
1 AAAAAAAAA
282132 GTGCAAAGGT
Statistics
Matches: 65, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
15 11 0.17
16 15 0.23
17 28 0.43
18 9 0.14
19 2 0.03
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAACAAACAC
Found at i:282458 original size:1 final size:1
Alignment explanation
Indices: 282452--282480 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
282442 TAATCTTCAC
282452 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
282481 CCCCTTTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:283453 original size:31 final size:31
Alignment explanation
Indices: 283415--283623 Score: 316
Period size: 31 Copynumber: 6.7 Consensus size: 31
283405 AAATACCTTT
*
283415 TCAAAGTCCACGACCCAGTGGCAATCTCTTC
1 TCAAAGTCCACGACTCAGTGGCAATCTCTTC
283446 TCAAAGTCCACGACTCAGTGGCAATCTCTTC
1 TCAAAGTCCACGACTCAGTGGCAATCTCTTC
283477 TCAAAGTCCACGACTCAGTGGCAATCTCTTC
1 TCAAAGTCCACGACTCAGTGGCAATCTCTTC
* *
283508 TCAAAGTCCACGACCCAGTGGCAATCTCTGC
1 TCAAAGTCCACGACTCAGTGGCAATCTCTTC
*
283539 TCAAAGTCCACGACTCAGTGGC-ATCTTTTCC
1 TCAAAGTCCACGACTCAGTGGCAATCTCTT-C
* *
283570 TTTAAAGTCCACGACTCAGTGGC-AT-TTTGTC
1 -TCAAAGTCCACGACTCAGTGGCAATCTCT-TC
283601 TCAAAGTCCACGACTCAGTGGCA
1 TCAAAGTCCACGACTCAGTGGCA
283624 TTTTTTCTTC
Statistics
Matches: 166, Mismatches: 8, Indels: 8
0.91 0.04 0.04
Matches are distributed among these distances:
30 26 0.16
31 116 0.70
32 24 0.14
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (31 bp):
TCAAAGTCCACGACTCAGTGGCAATCTCTTC
Found at i:283636 original size:93 final size:93
Alignment explanation
Indices: 283415--283695 Score: 340
Period size: 93 Copynumber: 3.0 Consensus size: 93
283405 AAATACCTTT
*
283415 TCAAAGTCCACGACCCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTCTT-C-T
1 TCAAAGTCCACGACCCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGC-ATCTTTTCCTT
*
283478 CAAAGTCCACGACTCAGTGGCAATCTCTTC
65 TAAAGTCCACGACTCAGTGGC-ATCTCTTC
*
283508 TCAAAGTCCACGACCCAGTGGCAATCTCTGCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTT
1 TCAAAGTCCACGACCCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTT
*
283573 AAAGTCCACGACTCAGTGGCAT-TTTGTC
66 AAAGTCCACGACTCAGTGGCATCTCT-TC
* * * * *
283601 TCAAAGTCCACGACTCAGTGGC-ATTTTTTCTTCAAAGCCCAC-AGCTTC-GTGGCACCTTTTCC
1 TCAAAGTCCACGACCCAGTGGCAATCTCTTC-TCAAAGTCCACGA-C-TCAGTGGCATCTTTTCC
* * * *
283663 TTTAAAGCCCACAACTCCGTGGCACCTTCTTC
63 TTTAAAGTCCACGACTCAGTGGCATC-TCTTC
283695 T
1 T
283696 TTTCAAAGCC
Statistics
Matches: 165, Mismatches: 15, Indels: 15
0.85 0.08 0.08
Matches are distributed among these distances:
92 14 0.08
93 123 0.75
94 26 0.16
95 2 0.01
ACGTcount: A:0.23, C:0.32, G:0.16, T:0.28
Consensus pattern (93 bp):
TCAAAGTCCACGACCCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTT
AAAGTCCACGACTCAGTGGCATCTCTTC
Found at i:283709 original size:34 final size:33
Alignment explanation
Indices: 283603--284169 Score: 595
Period size: 34 Copynumber: 16.8 Consensus size: 33
283593 ATTTTGTCTC
* * * * *
283603 AAAGTCCACGACTCAGTGGCA-TTTTTTC-TTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* * *
283634 AAAGCCCACAGCTTCGTGGCACC-TTTTCCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
283666 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
283699 CAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTC-T-TTT
*
283735 -AAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTC-TTTT
283768 AAAGCCCACAACTCCGTGGCACCTTTTTCTGTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCT-TTT
*
283802 AAAGCCCACAACTCTGTGGCACACTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTC-TTTT
283837 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT
283873 CAAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* *
283907 GAAGCCCACAACTCTGTGGCACACTTTTT-TTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTT
283940 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--C-TTTT
*
283977 AAAGCCCACAACTCCGTGGCACCTTCTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCACC-T-TTTT-CTTTT
*
284013 -AAGCCCACAACTCCGTGGCA-----TCCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* *
284040 -AAGCCCATAACTCCGTGGCACTTTTTTCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTC-T-TTT
* *
284074 -AAGTCCATAACTCCGTGGCACCTTTTTTTTCTTTT
1 AAAGCCCACAACTCCGTGGCACC---TTTTTCTTTT
284109 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT
* *
284145 -AAGTCCACAACTCCGTGGCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTT
284170 CTCCCTTCCT
Statistics
Matches: 466, Mismatches: 36, Indels: 65
0.82 0.06 0.11
Matches are distributed among these distances:
27 23 0.05
28 1 0.00
31 21 0.05
32 25 0.05
33 62 0.13
34 148 0.32
35 80 0.17
36 43 0.09
37 59 0.13
38 4 0.01
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.34
Consensus pattern (33 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
Found at i:284066 original size:27 final size:27
Alignment explanation
Indices: 284006--284059 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
283996 CACCTTCTTT
*
284006 TCCTTCTAAGCCCACAACTCCGTGGCA
1 TCCTTTTAAGCCCACAACTCCGTGGCA
*
284033 TCCTTTTAAGCCCATAACTCCGTGGCA
1 TCCTTTTAAGCCCACAACTCCGTGGCA
284060 CTTTTTTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.37, G:0.15, T:0.26
Consensus pattern (27 bp):
TCCTTTTAAGCCCACAACTCCGTGGCA
Found at i:284183 original size:71 final size:70
Alignment explanation
Indices: 284040--284189 Score: 187
Period size: 71 Copynumber: 2.1 Consensus size: 70
284030 GCATCCTTTT
* * * **
284040 AAGCCCATAACTCCGTGGCACTTTTTTCATCTTTAAGTCCATAACTCCGTGGCACCTTTTTTTTC
1 AAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTTCTCCC
*
284105 TTTTA
66 TTCTA
* *
284110 AAGCCCACAACTCCGTGGCACTCTTTTTC-CCTTTTAAGTCCACAACTCCGTGGCATC-TTTCTC
1 AAGCCCACAACTCCGTGGCACT-TTTTTCATC-TTTAAGTCCACAACTCCGTGGCACCTTTTCTC
284173 CCTTCCTA
64 CCTT-CTA
284181 AAGCCCACA
1 AAGCCCACA
284190 CAAGTCGGTG
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
70 29 0.42
71 40 0.58
ACGTcount: A:0.21, C:0.33, G:0.11, T:0.35
Consensus pattern (70 bp):
AAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTTCTCCC
TTCTA
Found at i:284217 original size:33 final size:35
Alignment explanation
Indices: 284174--284243 Score: 126
Period size: 33 Copynumber: 2.1 Consensus size: 35
284164 ATCTTTCTCC
284174 CTTCCTAAAGCCCACACAAGTCGGTGGCAA-CCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
284208 CTTCC-AAAGCCCACACAAGTCGGTGGCAACCCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
284242 CT
1 CT
284244 AAGCCCAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 24 0.69
34 11 0.31
ACGTcount: A:0.26, C:0.37, G:0.17, T:0.20
Consensus pattern (35 bp):
CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
Found at i:284386 original size:21 final size:21
Alignment explanation
Indices: 284362--284428 Score: 50
Period size: 21 Copynumber: 3.1 Consensus size: 21
284352 ATGTAGCTGG
284362 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
* * *
284383 CCTTTAAGTC--CA-ATGTAGCTGG
1 CCTTGAA-TCAGCACAT-TGGC--A
284405 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
284426 CCT
1 CCT
284429 CACCTTTAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 11 0.33
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (21 bp):
CCTTGAATCAGCACATTGGCA
Found at i:284408 original size:22 final size:22
Alignment explanation
Indices: 284341--284408 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
284331 GCACCTTTAT
284341 CTTTAAGTCCAATGTAGCTGGC
1 CTTTAAGTCCAATGTAGCTGGC
* * *
284363 CTTGAA-TCAGCACAT-TGGC--AC
1 CTTTAAGTC--CA-ATGTAGCTGGC
284384 CTTTAAGTCCAATGTAGCTGGC
1 CTTTAAGTCCAATGTAGCTGGC
284406 CTT
1 CTT
284409 GAATCAGCAC
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 11 0.33
23 5 0.15
24 2 0.06
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.31
Consensus pattern (22 bp):
CTTTAAGTCCAATGTAGCTGGC
Found at i:284753 original size:92 final size:92
Alignment explanation
Indices: 284292--285708 Score: 1987
Period size: 92 Copynumber: 15.0 Consensus size: 92
284282 CCTTTTCCAT
* * * * * *
284292 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
284357 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * * * *
284384 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTCACCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
284448 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * * *
284475 CTTTAAGTCCAATATCGCTGGCCTTGAGTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
* *
284540 GCTGGCCTTGAATCAGCATATCGGCACCTTTTCC
66 GCTGGCCTTGAATCAGCACATTGGCA-------C
* * * * *
284574 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTCACCTTTAAGTCCAATG
1 --CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
284638 TAGCTGGCCTTGAATCAGCACATTGGCAC
64 TAGCTGGCCTTGAATCAGCACATTGGCAC
284667 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
284732 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
284759 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
* *
284824 GCTGGCCTTGACTCAGCACATTAGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * * *
284851 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAGTGGCACCTTTATCTTTAAGTCCAATATA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
* *
284916 GCTGGCCTTGAATCAGCATATCGGCACCTTTTCC
66 GCTGGCCTTGAATCAGCACATTGGCA-------C
* * * * *
284950 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTCACCTTTAAGTCCAATG
1 --CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
285014 TAGCTGGCCTTGAATCAGCACATTGGCAC
64 TAGCTGGCCTTGAATCAGCACATTGGCAC
285043 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
285108 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
285135 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
* *
285200 GCTGGCCTTGACTCAGCACATTAGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * * *
285227 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAGTGGCACCTTTATCTTTAAGTCCAATATA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
* *
285292 GCTGGCCTTGAATCAGCATATCGGCACCTTTTCC
66 GCTGGCCTTGAATCAGCACATTGGCA-------C
* * * * *
285326 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTCACCTTTAAGTCCAATG
1 --CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
285390 TAGCTGGCCTTGAATCAGCACATTGGCAC
64 TAGCTGGCCTTGAATCAGCACATTGGCAC
285419 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
285484 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
285511 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
*
285576 GCTGGCCTTGACTCAGCACATTGGCACCTTC
66 GCTGGCCTTGAATCAGCACATTGGCA----C
* * * *
285607 ATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTCA
1 --CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCA
*
285672 ATGTAGCTGGCCTTGAATCAGCACATTGACATC
61 ATGTAGCTGGCCTTGAATCAGCACATTGGCA-C
285705 CTTT
1 CTTT
285709 TTCATCATCT
Statistics
Matches: 1203, Mismatches: 82, Indels: 76
0.88 0.06 0.06
Matches are distributed among these distances:
91 202 0.17
92 661 0.55
93 3 0.00
96 5 0.00
98 42 0.03
99 3 0.00
100 130 0.11
101 157 0.13
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (92 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:284758 original size:284 final size:277
Alignment explanation
Indices: 284243--285699 Score: 1953
Period size: 284 Copynumber: 5.1 Consensus size: 277
284233 GCAACCCTTC
* * * * *
284243 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----TT-CA-CTTTAAGTCCAATATC
* * *
284308 GCTGGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
60 GCTGGCCTTGAATCAGCATATTGGCACC-TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
* * * * *
284373 CACATTGGCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAA
124 CACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTCATCTTTAA
*
284438 GTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAG
189 GTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAA
*
284503 TCAGCACATTGGCACCTTCATCTT
254 TCAGCATATTGGCACCTTCATCTT
* * * * *
284527 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTCCAATGTA
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----TT-CA-CTTTAAGTCCAATATC
* *
284592 GCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGC
60 GCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGC
284657 ACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAA
125 ACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTCATCTTTAA
284722 GTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAA
189 GTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAA
*
284787 TCAGCATATTGGCATCTTCATCTT
254 TCAGCATATTGGCACCTTCATCTT
* *
284811 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTAGCA--C-CTTTAAGTCCAATATCGCTGGC
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATTCACTTTAAGTCCAATATCGCTGGC
* * * * *
284873 CTTGAATCAGCATAGTGGCACCTTTATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATC
66 CTTGAATCAGCATATTGGCACC-TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT
* * * * *
284938 GGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTT
130 GGCA-------C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTCATCTT
285003 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
186 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
*
285068 GAATCAGCATATTGGCATCTTCATCTT
251 GAATCAGCATATTGGCACCTTCATCTT
285095 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA--C-CTTTAAGTCCAATATCGCTGGC
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATTCACTTTAAGTCCAATATCGCTGGC
* *
285157 CTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATT
66 CTTGAATCAGCATATTGGCA-CCTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT
* * *
285222 AGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAGTGGCACCTTTATCTTTAAGTCCA
130 GGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTCATCTTTAAGTCCA
* * * * *
285287 ATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCT
194 ATGTAGCTGGCCTTGAATCAGCACATTGGCA-------C--CTTTAAGTCCAATATCGCTGGCCT
* *
285352 TGAATCAGCACATTGGCACC-TCACCTT
250 TGAATCAGCATATTGGCACCTTCATCTT
285379 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA--C-CTTTAAGTCCAATATCGCTGGC
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATTCACTTTAAGTCCAATATCGCTGGC
*
285441 CTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT
66 CTTGAATCAGCATATTGGCA-CCTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT
285506 GGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCA
130 GGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTCATCTTTAAGTCCA
* *
285571 ATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGA
194 ATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCTGGCCTTGA
*
285636 ATCAGCATATCGGCACCTTTTCCATCTT
253 ATCAGCATATTGGCACC--TT-CATCTT
*
285664 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
285700 ACATCCTTTT
Statistics
Matches: 1073, Mismatches: 74, Indels: 51
0.90 0.06 0.04
Matches are distributed among these distances:
275 78 0.07
276 83 0.08
277 2 0.00
281 45 0.04
283 86 0.08
284 659 0.61
285 120 0.11
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (277 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATTCACTTTAAGTCCAATATCGCTGGC
CTTGAATCAGCATATTGGCACCTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
GCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTCATCTTTAAGTCCAAT
GTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
ATTGGCACCTTCATCTT
Found at i:284984 original size:376 final size:376
Alignment explanation
Indices: 284292--285694 Score: 2513
Period size: 376 Copynumber: 3.7 Consensus size: 376
284282 CCTTTTCCAT
* * * * * *
284292 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
* * *
284357 GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT
66 GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
* * * *
284422 GGCA-CCTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCA
131 GGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTAGCACCTTTAAGTCCA
* * * *
284486 ATATCGCTGGCCTTGAGTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGA
196 ATATCGCTGGCCTTGAATCAGCATAGTGGCACCTTTATCTTTAAGTCCAATATAGCTGGCCTTGA
284551 ATCAGCATATCGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
261 ATCAGCATATCGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
284616 CACCTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
326 CACCTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
284667 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
284732 GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
66 GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
284797 GGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTAGCACCTTTAAGTCCA
131 GGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTAGCACCTTTAAGTCCA
284862 ATATCGCTGGCCTTGAATCAGCATAGTGGCACCTTTATCTTTAAGTCCAATATAGCTGGCCTTGA
196 ATATCGCTGGCCTTGAATCAGCATAGTGGCACCTTTATCTTTAAGTCCAATATAGCTGGCCTTGA
284927 ATCAGCATATCGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
261 ATCAGCATATCGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
284992 CACCTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
326 CACCTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
285043 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
285108 GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
66 GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
285173 GGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTAGCACCTTTAAGTCCA
131 GGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTAGCACCTTTAAGTCCA
285238 ATATCGCTGGCCTTGAATCAGCATAGTGGCACCTTTATCTTTAAGTCCAATATAGCTGGCCTTGA
196 ATATCGCTGGCCTTGAATCAGCATAGTGGCACCTTTATCTTTAAGTCCAATATAGCTGGCCTTGA
285303 ATCAGCATATCGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
261 ATCAGCATATCGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
285368 CACCTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
326 CACCTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
285419 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
285484 GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
66 GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
*
285549 GGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTA
131 GGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTAGCA----C--CTTTA
* * *
285614 AGTCCAATATAGCTGGCCTTGAATCAGCATA-TCGGCACCTTTTCCATCTTTAAGTTCAATGTAG
190 AGTCCAATATCGCTGGCCTTGAATCAGCATAGT-GGCACC-TTT--ATCTTTAAGTCCAATATAG
285678 CTGGCCTTGAATCAGCA
251 CTGGCCTTGAATCAGCA
285695 CATTGACATC
Statistics
Matches: 996, Mismatches: 21, Indels: 12
0.97 0.02 0.01
Matches are distributed among these distances:
375 125 0.13
376 791 0.79
380 1 0.00
381 1 0.00
382 41 0.04
383 3 0.00
385 34 0.03
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (376 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
GGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTAGCACCTTTAAGTCCA
ATATCGCTGGCCTTGAATCAGCATAGTGGCACCTTTATCTTTAAGTCCAATATAGCTGGCCTTGA
ATCAGCATATCGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
CACCTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:285739 original size:56 final size:53
Alignment explanation
Indices: 285511--285747 Score: 213
Period size: 49 Copynumber: 4.6 Consensus size: 53
285501 ACATTGGCAC
* * * * *
285511 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA---TCT-TCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCTCAT
* * * *
285560 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC---T-TCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCTCAT
* *
285609 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCTCAT
* * *
285661 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACA-CC-TTTTC-TCAT
* * * * *
285717 CTTTGAGCCCAATATCGTTGGCCATGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
285748 ACATATTGGC
Statistics
Matches: 158, Mismatches: 20, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
49 83 0.53
52 41 0.26
53 2 0.01
54 5 0.03
56 27 0.17
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.33
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCTCAT
Found at i:286667 original size:13 final size:13
Alignment explanation
Indices: 286649--286673 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
286639 CAAAAAATGT
286649 TGTATCGATACAA
1 TGTATCGATACAA
286662 TGTATCGATACA
1 TGTATCGATACA
286674 TATTTTTTTG
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:286757 original size:13 final size:13
Alignment explanation
Indices: 286739--286763 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
286729 ATTACTCACA
286739 TGTATCGATACAT
1 TGTATCGATACAT
286752 TGTATCGATACA
1 TGTATCGATACA
286764 CTGATCTTTG
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:286900 original size:52 final size:52
Alignment explanation
Indices: 286772--286892 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
286762 CACTGATCTT
*
286772 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
286824 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
286876 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
286893 ATAAATTTTC
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:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:292820 original size:34 final size:35
Alignment explanation
Indices: 292782--292848 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
292772 CCTTACAACA
292782 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
292816 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
292849 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:293325 original size:13 final size:13
Alignment explanation
Indices: 293307--293332 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
293297 CAATTTTTTG
293307 TGTATCGATACAT
1 TGTATCGATACAT
293320 TGTATCGATACAT
1 TGTATCGATACAT
293333 ACTTTGTGTA
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:293344 original size:32 final size:33
Alignment explanation
Indices: 293287--293350 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
293277 TATAAGCCAA
**
293287 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
293320 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
293351 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:295286 original size:13 final size:13
Alignment explanation
Indices: 295268--295292 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
295258 ACTGAAGCAA
295268 TGTATCGATACAT
1 TGTATCGATACAT
295281 TGTATCGATACA
1 TGTATCGATACA
295293 ATCTGGAAAA
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:295893 original size:23 final size:24
Alignment explanation
Indices: 295848--295894 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
295838 CAAAGAATTG
*
295848 AACACAAATTCAATTAAGCACAAA
1 AACACAAATTCAATTAAGAACAAA
295872 AACACAAA-TCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
295895 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:296927 original size:84 final size:84
Alignment explanation
Indices: 296772--296931 Score: 200
Period size: 84 Copynumber: 1.9 Consensus size: 84
296762 CATTTTCGAC
* * * *
296772 TTGCAACTCATTTCTTTTCTCCTCTAATTCATTTATTTTCTTTTTAAAAGAATTATTTTCTAAAC
1 TTGCAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAATTATTCTCTAAAC
296837 TCATTGATTTACATTCATT
66 TCATTGATTTACATTCATT
* *
296856 TTGCAACTC-TTTCATATTCTTCTCTAATTCACTTAATTTC-TTTT-CAAGAATATCATTCTCTA
1 TTGCAACTCATTTC-TATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAAT-T-ATTCTCTA
* *
296918 TACTTATTGATTTA
63 AACTCATTGATTTA
296932 TTTTCTTCTT
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
82 6 0.09
83 9 0.14
84 50 0.77
ACGTcount: A:0.26, C:0.19, G:0.04, T:0.51
Consensus pattern (84 bp):
TTGCAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAATTATTCTCTAAAC
TCATTGATTTACATTCATT
Found at i:298500 original size:34 final size:35
Alignment explanation
Indices: 298462--298528 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
298452 CCTTACAACA
298462 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
298496 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
298529 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:299005 original size:13 final size:13
Alignment explanation
Indices: 298987--299012 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
298977 CAATTTTTTG
298987 TGTATCGATACAT
1 TGTATCGATACAT
299000 TGTATCGATACAT
1 TGTATCGATACAT
299013 ACTTTGTGTA
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:299024 original size:32 final size:33
Alignment explanation
Indices: 298967--299030 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
298957 TATAAGCCAA
**
298967 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
299000 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
299031 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Done.