Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold411
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: 403047
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
File 2 of 3
Found at i:172099 original size:20 final size:20
Alignment explanation
Indices: 172050--172113 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
172040 TTCATTCATC
*
172050 ATTTTTTTATTTTTGATAATTTT
1 ATTTTTTGATTTTT--TAA-TTT
*
172073 GATTTTTTGATTTTTTGATTT
1 -ATTTTTTGATTTTTTAATTT
*
172094 ATTTTTTTATTTTTTAATTT
1 ATTTTTTGATTTTTTAATTT
172114 CTTGATTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
20 18 0.50
21 3 0.08
22 2 0.06
24 13 0.36
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (20 bp):
ATTTTTTGATTTTTTAATTT
Found at i:172113 original size:28 final size:31
Alignment explanation
Indices: 172069--172139 Score: 85
Period size: 28 Copynumber: 2.4 Consensus size: 31
172059 TTTTTGATAA
* * *
172069 TTTTGATTTTTTGATTTTTTGA-TTT-A-TT
1 TTTTTATTTTTTAATTTCTTGATTTTAATTT
172097 TTTTTATTTTTTAATTTCTTGATTTTTAATTT
1 TTTTTATTTTTTAATTTCTTGA-TTTTAATTT
172129 TTTTTATTTTT
1 TTTTTATTTTT
172140 ATTAGTATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 19 0.53
30 3 0.08
31 1 0.03
32 13 0.36
ACGTcount: A:0.15, C:0.01, G:0.06, T:0.77
Consensus pattern (31 bp):
TTTTTATTTTTTAATTTCTTGATTTTAATTT
Found at i:172137 original size:16 final size:15
Alignment explanation
Indices: 172050--172140 Score: 62
Period size: 16 Copynumber: 6.0 Consensus size: 15
172040 TTCATTCATC
*
172050 ATTTTTTTATTTTTG
1 ATTTTTTTATTTTTA
* * *
172065 ATAATTTTGATTTTTTG
1 AT-TTTTTTA-TTTTTA
*
172082 ATTTTTTGA--TTT-
1 ATTTTTTTATTTTTA
172094 ATTTTTTTATTTTTTA
1 ATTTTTTTA-TTTTTA
* *
172110 ATTTCTTGATTTTTA
1 ATTTTTTTATTTTTA
172125 ATTTTTTTTATTTTTA
1 A-TTTTTTTATTTTTA
172141 TTAGTATGTT
Statistics
Matches: 61, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
12 8 0.13
13 3 0.05
15 12 0.20
16 30 0.49
17 8 0.13
ACGTcount: A:0.19, C:0.01, G:0.05, T:0.75
Consensus pattern (15 bp):
ATTTTTTTATTTTTA
Found at i:173850 original size:16 final size:15
Alignment explanation
Indices: 173793--173855 Score: 56
Period size: 16 Copynumber: 4.0 Consensus size: 15
173783 ATTTCGAGTT
*
173793 AATTTAGATTATTTTA
1 AATTTA-ATCATTTTA
*
173809 AACTTTAATAATTTTA
1 AA-TTTAATCATTTTA
*
173825 AGTTTAAATCATTTTA
1 AATTT-AATCATTTTA
173841 AATTCTAATC-TTTTA
1 AATT-TAATCATTTTA
173856 CTATTTTTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
15 8 0.20
16 27 0.68
17 5 0.12
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.52
Consensus pattern (15 bp):
AATTTAATCATTTTA
Found at i:185132 original size:13 final size:13
Alignment explanation
Indices: 185114--185138 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
185104 ATAATCACCC
185114 TGTATCGATACAA
1 TGTATCGATACAA
185127 TGTATCGATACA
1 TGTATCGATACA
185139 TTGAATTTCC
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:187219 original size:15 final size:15
Alignment explanation
Indices: 187199--187229 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
187189 ATTTCGTTTG
*
187199 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
187214 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
187229 G
1 G
187230 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:194007 original size:19 final size:20
Alignment explanation
Indices: 193983--194026 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
193973 AAAATATAAG
*
193983 AAAAATTAAGAT-ATAAAAT
1 AAAAATTAAGATGAAAAAAT
*
194002 AAAAA-TAATATGAAAAAAT
1 AAAAATTAAGATGAAAAAAT
194021 AAAAAT
1 AAAAAT
194027 ATTACCCCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.23
Consensus pattern (20 bp):
AAAAATTAAGATGAAAAAAT
Found at i:194260 original size:65 final size:64
Alignment explanation
Indices: 194178--194309 Score: 160
Period size: 64 Copynumber: 2.0 Consensus size: 64
194168 TGTACACTCT
* * * *
194178 AAATTAAATCAATATAACAAATTATAAAAAAATATGAGAT-AGATTGAGACATAACACGAACATA
1 AAATTAAATCAATATAACAAATCAT-AAAAAATATGAAATGA-ATTGAAACATAACACAAACATA
194242 C
64 C
* **
194243 AAATTGAATCACA-ATAACAAATCATGGAAAATATGAAATGAATTGAAACATAACACAAACATAC
1 AAATTAAATCA-ATATAACAAATCATAAAAAATATGAAATGAATTGAAACATAACACAAACATAC
194307 AAA
1 AAA
194310 CTTTTCTTTA
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
64 35 0.60
65 22 0.38
66 1 0.02
ACGTcount: A:0.58, C:0.12, G:0.09, T:0.21
Consensus pattern (64 bp):
AAATTAAATCAATATAACAAATCATAAAAAATATGAAATGAATTGAAACATAACACAAACATAC
Found at i:194741 original size:23 final size:21
Alignment explanation
Indices: 194693--194741 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
194683 AAGAAAATAA
*
194693 ATAAAAAATTTAGATATTTTT
1 ATAAAAAATTTAGATATCTTT
*
194714 ATAAAAATATTTAGGTATACTTT
1 ATAAAAA-ATTTAGATAT-CTTT
194737 ATAAA
1 ATAAA
194742 TATTATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 7 0.29
22 9 0.38
23 8 0.33
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (21 bp):
ATAAAAAATTTAGATATCTTT
Found at i:195253 original size:49 final size:47
Alignment explanation
Indices: 195199--195301 Score: 129
Period size: 49 Copynumber: 2.1 Consensus size: 47
195189 TTGAATTTAA
195199 TTTTATTTTAATTTT-T-TTATTATTTAAAATATATTAAATATAAAATTAT
1 TTTTATTTTAATTTTATATT-TT-TTTAAAAT-TATTAAA-ATAAAATTAT
* * *
195248 TTTTATATTAATTTTATATTTTTTTATAATTATTTAAATAAAATTAT
1 TTTTATTTTAATTTTATATTTTTTTAAAATTATTAAAATAAAATTAT
195295 TTTTATT
1 TTTTATT
195302 ATTCAAATAA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
47 16 0.33
48 6 0.12
49 21 0.44
50 3 0.06
51 2 0.04
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (47 bp):
TTTTATTTTAATTTTATATTTTTTTAAAATTATTAAAATAAAATTAT
Found at i:195258 original size:23 final size:23
Alignment explanation
Indices: 195228--195310 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 23
195218 TTATTTAAAA
195228 TATATTAAATATAAAATTATTTT
1 TATATTAAATATAAAATTATTTT
* * *
195251 TATATT-AATTTTATATT-TTTT
1 TATATTAAATATAAAATTATTTT
195272 TATAATTATTTAA-ATAAAATTATTTT
1 TAT-ATTA---AATATAAAATTATTTT
195298 TATTATTCAAATA
1 TA-TATT-AAATA
195311 ATAATTTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 16
0.67 0.09 0.24
Matches are distributed among these distances:
21 7 0.16
22 11 0.24
23 6 0.13
24 2 0.04
25 6 0.13
26 11 0.24
27 2 0.04
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (23 bp):
TATATTAAATATAAAATTATTTT
Found at i:197088 original size:29 final size:30
Alignment explanation
Indices: 197056--197115 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 30
197046 ATTGTTCACC
*
197056 TATTTATTTATTTAACTTGAT-T-AATTAAT
1 TATTAATTT-TTTAACTTGATGTAAATTAAT
* *
197085 TATTAATTTTTTTATTTGATGTAAATTAAT
1 TATTAATTTTTTAACTTGATGTAAATTAAT
197115 T
1 T
197116 TCAACTCATG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 9 0.35
29 9 0.35
30 8 0.31
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (30 bp):
TATTAATTTTTTAACTTGATGTAAATTAAT
Found at i:197908 original size:326 final size:325
Alignment explanation
Indices: 197309--198007 Score: 1016
Period size: 326 Copynumber: 2.2 Consensus size: 325
197299 GCTCCTAGGG
* *
197309 AAAAGATTCTAAATTTTTTTAATAGTTAAACACTT-AATAAAATTTAATTTCGATAGGAGAACTT
1 AAAAGATTCTAAATTTTTTTAATAGTTAAACACTTAAATAAAATTTAATTTCGAGAAGAGAACTT
* ** * *
197373 CTGTATAGGATTTTCATAAAAATTAATGGTTTCTTTTGAAAACTCTAAGTTTATCAATAATCTTG
66 CTGTATAGGATCTTCATAAAAACCAATGGTTTCTTTTAAAAACCCTAAGTTTATCAATAATCTTG
* * * *
197438 TATCATGGAAAAGATGAGAAAAACTTTTAGAAATAATCTTGAATTATGGAAAAGATTCTAAGTTT
131 CATCATGAAAAAGATGAAAAAAACTTTTAGAAATAATCTTGAATTATGAAAAAGATTCTAAGTTT
* *
197503 TTCAATATTTAAATACTTTAATAAAATTTAATTCCAACAATGGAGTTTCTTCATGAGAGTAAATT
196 TTCAATATTTAAACACTTTAATAAAATTTAATTCCAACAATGGAGTTTCTTCACGAGAGTAAATT
* * *
197568 AATTTTTCTTTTTTTTTTTAAGACTCTTTAGGTGATGAAGATTTTAAAATTATTCTCGAATGATG
261 AA-TTTTCTTTTTTTTTTGAAGACTCTTTAAGTGATGAAAATTTTAAAATTATTCTCGAATGATG
197633 A
325 A
*
197634 AAAAGATTCTAAATTTTTTTAATAGTTAAACACTTAAATAAAATTTAATTTCGACGACAG-GATC
1 AAAAGATTCTAAATTTTTTTAATAGTTAAACACTTAAATAAAATTTAATTTCGA-GA-AGAGAAC
* *
197698 TTTTTGTA-A-GATCTTCATAAGAACCAATGGTTTCTTTTAAAAACCCTAAGTTTATCAATAATC
64 -TTCTGTATAGGATCTTCATAAAAACCAATGGTTTCTTTTAAAAACCCTAAGTTTATCAATAATC
* * *
197761 TTGCATCATGAAAAATATGAAAAAAAATTTTTA-AAATAATCTTGAATTATGAAAAAGATTTTAA
128 TTGCATCATGAAAAAGATG-AAAAAAACTTTTAGAAATAATCTTGAATTATGAAAAAGATTCTAA
197825 GTTTTTCAATATTTAAACACTTTAATAAAATTTAATTCCAACAATGGAGTTTCTTCACGAGAGTA
192 GTTTTTCAATATTTAAACACTTTAATAAAATTTAATTCCAACAATGGAGTTTCTTCACGAGAGTA
* * *
197890 AATTAGTGTTT-TTTTTTTTTTGAAGATTCTTTAAGTGATGAAAATTTTAGAATTATTCTCGAAT
257 AATTAAT-TTTCTTTTTTTTTTGAAGACTCTTTAAGTGATGAAAATTTTAAAATTATTCTCGAAT
*
197954 GATGG
321 GATGA
* * * * *
197959 AAAAGATTCTAAA-TTTTTCAATATTTAACCACTTAATTCAAATTTAATT
1 AAAAGATTCTAAATTTTTTTAATAGTTAAACACTTAAATAAAATTTAATT
198008 CTGACAAAAA
Statistics
Matches: 337, Mismatches: 31, Indels: 13
0.88 0.08 0.03
Matches are distributed among these distances:
324 31 0.09
325 101 0.30
326 182 0.54
327 16 0.05
328 7 0.02
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.40
Consensus pattern (325 bp):
AAAAGATTCTAAATTTTTTTAATAGTTAAACACTTAAATAAAATTTAATTTCGAGAAGAGAACTT
CTGTATAGGATCTTCATAAAAACCAATGGTTTCTTTTAAAAACCCTAAGTTTATCAATAATCTTG
CATCATGAAAAAGATGAAAAAAACTTTTAGAAATAATCTTGAATTATGAAAAAGATTCTAAGTTT
TTCAATATTTAAACACTTTAATAAAATTTAATTCCAACAATGGAGTTTCTTCACGAGAGTAAATT
AATTTTCTTTTTTTTTTGAAGACTCTTTAAGTGATGAAAATTTTAAAATTATTCTCGAATGATGA
Found at i:199668 original size:55 final size:56
Alignment explanation
Indices: 199582--199704 Score: 221
Period size: 55 Copynumber: 2.2 Consensus size: 56
199572 TTACATGCGT
199582 GCAAAACAGATAGACCAAGAGATACAGGGTGGAAAAAAGGAAAGAGGAGAGGACAAA
1 GCAAAA-AGATAGACCAAGAGATACAGGGTGGAAAAAAGGAAAGAGGAGAGGACAAA
*
199639 GCAAAAAGA-AGACCAAGAGATACAGGGTGGCAAAAAGGAAAGAGGAGAGGACAAA
1 GCAAAAAGATAGACCAAGAGATACAGGGTGGAAAAAAGGAAAGAGGAGAGGACAAA
199694 GCAAAAAGATA
1 GCAAAAAGATA
199705 CAATGCATTA
Statistics
Matches: 64, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
55 54 0.84
56 4 0.06
57 6 0.09
ACGTcount: A:0.54, C:0.11, G:0.31, T:0.05
Consensus pattern (56 bp):
GCAAAAAGATAGACCAAGAGATACAGGGTGGAAAAAAGGAAAGAGGAGAGGACAAA
Found at i:200586 original size:2 final size:2
Alignment explanation
Indices: 200579--200618 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
200569 CAAAACGTTT
* *
200579 TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
200619 CAAGAAACGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:201309 original size:2 final size:2
Alignment explanation
Indices: 201298--201330 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
201288 TACCCTCGAT
201298 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
201331 CTCAAATAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:204201 original size:34 final size:33
Alignment explanation
Indices: 204158--204225 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 33
204148 TAATGTATTT
*
204158 AATAATAATCTTATTATTTATATTATTTTTTAAA
1 AATAATAATCTTATTATTTATACTA-TTTTTAAA
204192 AATAATAATCTTATTATTTATACTATTTTTAAA
1 AATAATAATCTTATTATTTATACTATTTTTAAA
204225 A
1 A
204226 GTCTTGATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 9 0.27
34 24 0.73
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (33 bp):
AATAATAATCTTATTATTTATACTATTTTTAAA
Found at i:204292 original size:9 final size:10
Alignment explanation
Indices: 204273--204323 Score: 50
Period size: 10 Copynumber: 4.8 Consensus size: 10
204263 TAACCCATTT
204273 AAAAATATAA
1 AAAAATATAA
204283 AAAAAT-TAA
1 AAAAATATAA
*
204292 ATTAAATATAATA
1 A-AAAATAT-A-A
204305 AAAAATATAA
1 AAAAATATAA
204315 TAAAAATAT
1 -AAAAATAT
204324 TTATATAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
9 4 0.12
10 11 0.32
11 10 0.29
12 7 0.21
13 2 0.06
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAAATATAA
Found at i:204321 original size:23 final size:21
Alignment explanation
Indices: 204272--204323 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
204262 ATAACCCATT
*
204272 TAAAAATATAAAAAAATTAAA
1 TAAAAATATAAAAAAAATAAA
*
204293 T-TAAATATAATAAAAAATATAA
1 TAAAAATATAA-AAAAAATA-AA
204315 TAAAAATAT
1 TAAAAATAT
204324 TTATATAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
20 8 0.32
21 8 0.32
22 3 0.12
23 6 0.24
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (21 bp):
TAAAAATATAAAAAAAATAAA
Found at i:204328 original size:15 final size:12
Alignment explanation
Indices: 204295--204320 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
204285 AAATTAAATT
204295 AAATATAATAAA
1 AAATATAATAAA
204307 AAATATAATAAA
1 AAATATAATAAA
204319 AA
1 AA
204321 TATTTATATA
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:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AAATATAATAAA
Found at i:205328 original size:3 final size:3
Alignment explanation
Indices: 205320--205356 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
205310 CAGAAAAAAG
205320 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
205357 GATATAAAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:205763 original size:19 final size:21
Alignment explanation
Indices: 205718--205771 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
205708 TTTCAATAAT
205718 TTGTATCGATACAAACAGTAA
1 TTGTATCGATACAAACAGTAA
* *
205739 TTGTATCGATACATA-AGT-G
1 TTGTATCGATACAAACAGTAA
205758 TTGTATCGATACAA
1 TTGTATCGATACAA
205772 TGTATCGCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 13 0.43
20 3 0.10
21 14 0.47
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (21 bp):
TTGTATCGATACAAACAGTAA
Found at i:208448 original size:59 final size:59
Alignment explanation
Indices: 208353--208473 Score: 215
Period size: 59 Copynumber: 2.1 Consensus size: 59
208343 TTTACAAAAA
* *
208353 TCATAAGGCAATGTTCCGTGTCGGTATCTCTTCAGTGCCTGACACGGAATATCAAGTTT
1 TCATAAGGCAATGTTCCGTGTCGGTATCTCTCCAGTGCCTGACACAGAATATCAAGTTT
*
208412 TCATAAGGCAATGTTCCGTGTCGGTATCTCTCCAGTGCTTGACACAGAATATCAAGTTT
1 TCATAAGGCAATGTTCCGTGTCGGTATCTCTCCAGTGCCTGACACAGAATATCAAGTTT
208471 TCA
1 TCA
208474 AAGTGAAATC
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (59 bp):
TCATAAGGCAATGTTCCGTGTCGGTATCTCTCCAGTGCCTGACACAGAATATCAAGTTT
Found at i:209703 original size:25 final size:25
Alignment explanation
Indices: 209669--209720 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
209659 GGTAAGCGAA
209669 TCCTAGCTTGACACATACCGCTTAG
1 TCCTAGCTTGACACATACCGCTTAG
* *
209694 TCCTAGCTTGACACATATCGTTTAG
1 TCCTAGCTTGACACATACCGCTTAG
209719 TC
1 TC
209721 GGGCACTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.33
Consensus pattern (25 bp):
TCCTAGCTTGACACATACCGCTTAG
Found at i:212428 original size:744 final size:744
Alignment explanation
Indices: 211002--212492 Score: 2671
Period size: 744 Copynumber: 2.0 Consensus size: 744
210992 GTTGGATAAT
211002 GCAAAAATCCAATCGTGGGCTGATTTGGCCAAAGCTTTCCTCATCCATTATCAGCATGTCTCGGA
1 GCAAAAATCCAATCGTGGGCTGATTTGGCCAAAGCTTTCCTCATCCATTATCAGCATGTCTCGGA
* *
211067 TTGCACCCCAGATCGTCTTTCTCTTATGAATTTGGAGAAAAAGTCCACCGAGAGCTTCAGACAAT
66 TTGCACCCCAGATCATCTTTCTCTTATGAATTTGGAGAAAAAGTCCACCGAGAGCTTCAAACAAT
*
211132 ATGCACAAAGATGGCGAGAGGAGGCGGCCTTGGTTCAACCACCCCTCACAGAAAAAAAGATGACT
131 ATGCACAAAGATGGCGAGAGGAGGCAGCCTTGGTTCAACCACCCCTCACAGAAAAAAAGATGACT
*
211197 GTCACATTCATTAACACCCTACGAGCTCCTTATTATGAGAAGCTTATAGGGAATGCCATGAAAAA
196 GTCACATTCATTAACACCCTACGAGCTCCTTATTATGAGAAGCTTATAGGGAATGCCACGAAAAA
** * *
211262 ATTCGTCGTTTTAGTCTTATCCGGTGAAATGATAGATGCTGCGATTAAGAGTGGCAAAATGTCTA
261 ATTCACCGATTTAGTCTTATCCGGTGAAATGATAGATGCCGCGATTAAGAGTGGCAAAATGTCTA
* *
211327 TAGGAGAGTCATTTGAAACAAGAAAGAAGCCTGCATTCGCTAGGAAGAAAGAGGGAGAGGCCAAT
326 TAGGAAAGTCATTTGAAACAAGAAAGAAGCCTGCATTCGCCAGGAAGAAAGAGGGAGAGGCCAAT
211392 GCCATTAGTTATGCCAACCCGACACAGCCAAAGCAGCATCAAACACCCAATTCTTACCACCGAAC
391 GCCATTAGTTATGCCAACCCGACACAGCCAAAGCAGCATCAAACACCCAATTCTTACCACCGAAC
211457 GACACCTTACCCAGGCCCAGTCATAATGCCTTCTCAGTCAGTGCATGCTGCAACTCATAGCCCAT
456 GACACCTTACCCAGGCCCAGTCATAATGCCTTCTCAGTCAGTGCATGCTGCAACTCATAGCCCAT
211522 CCCTTACTGTCCCATCGCAGTCCACCACAAAATAACCGACCCCAGGCTAACCCAAATGCCAACCC
521 CCCTTACTGTCCCATCGCAGTCCACCACAAAATAACCGACCCCAGGCTAACCCAAATGCCAACCC
211587 TAATGCCAATAATGCACCAAACAATCCAGGTGAGAACCAACGAAGGCAGTAATTCGATCCGATCC
586 TAATGCCAATAATGCACCAAACAATCCAGGTGAGAACCAACGAAGGCAGTAATTCGATCCGATCC
*
211652 CGATGACATACAAGGAGCTTTATCAAACTCTGCTTCAAAGTCACATGGTGGCTCCTGAGTATGTT
651 CGATGACATACAAGGAGCTTTATCAAACTCTGCTTCAAAGTCACATGGTGGCTCCTAAGTATGTT
211717 CCAGAGAAGAAGCCTCCATACCCTCACTG
716 CCAGAGAAGAAGCCTCCATACCCTCACTG
* * *
211746 GCAAAAATCCAATCGTGGGCTGATTTGGCCAATGCTTTCTTCATCCATTATTAGCATGTCTCGGA
1 GCAAAAATCCAATCGTGGGCTGATTTGGCCAAAGCTTTCCTCATCCATTATCAGCATGTCTCGGA
** *
211811 TTGGGCCCCGGATCATCTTTCTCTTATGAATTTGGAGAAAAAGTCCACCGAGAGCTTCAAACAAT
66 TTGCACCCCAGATCATCTTTCTCTTATGAATTTGGAGAAAAAGTCCACCGAGAGCTTCAAACAAT
*
211876 ATGCACAAAGATGGCGAGAGGAGGCAGCCTTGGTTCAACCACCCCTCACAGAAAAAGAGATGACT
131 ATGCACAAAGATGGCGAGAGGAGGCAGCCTTGGTTCAACCACCCCTCACAGAAAAAAAGATGACT
211941 GTCACATTCATTAACACCCTACGAGCTCCTTATTATGAGAAGCTTATAGGGAATGCCACGAAAAA
196 GTCACATTCATTAACACCCTACGAGCTCCTTATTATGAGAAGCTTATAGGGAATGCCACGAAAAA
212006 ATTCACCGATTTAGTCTTATCCGGTGAAAATGATAGATGCCGCGATTAAGAGTGGCAAAATGTCT
261 ATTCACCGATTTAGTCTTATCCGGTG-AAATGATAGATGCCGCGATTAAGAGTGGCAAAATGTCT
* *
212071 GTAGGAAAGTCATTTGAAACAAGCAAGAAGCCTGCATTCGCCAGGAAGAAAGAGGGAGAGGCCAA
325 ATAGGAAAGTCATTTGAAACAAGAAAGAAGCCTGCATTCGCCAGGAAGAAAGAGGGAGAGGCCAA
*
212136 TGCCATTAGTTATGCCAACCCGACACGGCCAAAGCAGCATCAAACACCCAATTCTTACCACCGAA
390 TGCCATTAGTTATGCCAACCCGACACAGCCAAAGCAGCATCAAACACCCAATTCTTACCACCGAA
** * * *
212201 CGACACCTTACCCAGGCCTGGTCATAATGCCTTCTTAGTCGGTGCATGCTGCAACTCATAGCTCA
455 CGACACCTTACCCAGGCCCAGTCATAATGCCTTCTCAGTCAGTGCATGCTGCAACTCATAGCCCA
*
212266 TCCCTTACTGTCCTATCGC-GTCCACCACAAAATAACCGACCCCAGGCTAACCCAAATGCCAACC
520 TCCCTTACTGTCCCATCGCAGTCCACCACAAAATAACCGACCCCAGGCTAACCCAAATGCCAACC
* *
212330 CTAATGCCAATAATGCACCAAACAATCCAGGT-ACGAACCAACGAAGGTAGTAATTCGATCCTAT
585 CTAATGCCAATAATGCACCAAACAATCCAGGTGA-GAACCAACGAAGGCAGTAATTCGATCCGAT
* *
212394 CCCGATGACATACAAGGAGCTTTATCAAACTCTGCTTCAAAGTCACCTGGTGGCTCCTAAGTGTG
649 CCCGATGACATACAAGGAGCTTTATCAAACTCTGCTTCAAAGTCACATGGTGGCTCCTAAGTATG
212459 TTCCAGAGAAGAAGCCTCCATACCCTCACTG
714 TTCCAGAGAAGAAGCCTCCATACCCTCACTG
212490 GCA
1 GCA
212493 TAACCCCAAT
Statistics
Matches: 714, Mismatches: 31, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
743 1 0.00
744 473 0.66
745 240 0.34
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.22
Consensus pattern (744 bp):
GCAAAAATCCAATCGTGGGCTGATTTGGCCAAAGCTTTCCTCATCCATTATCAGCATGTCTCGGA
TTGCACCCCAGATCATCTTTCTCTTATGAATTTGGAGAAAAAGTCCACCGAGAGCTTCAAACAAT
ATGCACAAAGATGGCGAGAGGAGGCAGCCTTGGTTCAACCACCCCTCACAGAAAAAAAGATGACT
GTCACATTCATTAACACCCTACGAGCTCCTTATTATGAGAAGCTTATAGGGAATGCCACGAAAAA
ATTCACCGATTTAGTCTTATCCGGTGAAATGATAGATGCCGCGATTAAGAGTGGCAAAATGTCTA
TAGGAAAGTCATTTGAAACAAGAAAGAAGCCTGCATTCGCCAGGAAGAAAGAGGGAGAGGCCAAT
GCCATTAGTTATGCCAACCCGACACAGCCAAAGCAGCATCAAACACCCAATTCTTACCACCGAAC
GACACCTTACCCAGGCCCAGTCATAATGCCTTCTCAGTCAGTGCATGCTGCAACTCATAGCCCAT
CCCTTACTGTCCCATCGCAGTCCACCACAAAATAACCGACCCCAGGCTAACCCAAATGCCAACCC
TAATGCCAATAATGCACCAAACAATCCAGGTGAGAACCAACGAAGGCAGTAATTCGATCCGATCC
CGATGACATACAAGGAGCTTTATCAAACTCTGCTTCAAAGTCACATGGTGGCTCCTAAGTATGTT
CCAGAGAAGAAGCCTCCATACCCTCACTG
Found at i:213494 original size:11 final size:11
Alignment explanation
Indices: 213474--213508 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
213464 AGTCAAAAGT
213474 AAACACAAAAA
1 AAACACAAAAA
213485 CAAA-ACAAAAA
1 -AAACACAAAAA
213496 AAACACAAAAA
1 AAACACAAAAA
213507 AA
1 AA
213509 GTGCAAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 3 0.14
11 16 0.73
12 3 0.14
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (11 bp):
AAACACAAAAA
Found at i:213515 original size:22 final size:22
Alignment explanation
Indices: 213460--213515 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
213450 AAAAATGATG
*
213460 AAAAAGTCAAAAGTAAACACAA
1 AAAAAGTCAAAAGAAAACACAA
**
213482 AAACAAAACAAAA-AAAACACAA
1 AAA-AAGTCAAAAGAAAACACAA
213504 AAAAAGTGCAAA
1 AAAAAGT-CAAA
213516 GCTAAAATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
21 2 0.07
22 18 0.67
23 7 0.26
ACGTcount: A:0.73, C:0.14, G:0.07, T:0.05
Consensus pattern (22 bp):
AAAAAGTCAAAAGAAAACACAA
Found at i:217551 original size:20 final size:20
Alignment explanation
Indices: 217526--217563 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
217516 ATGTATTGAT
217526 ATAATGTATCGATACATTAA
1 ATAATGTATCGATACATTAA
217546 ATAATGTATCGATACATT
1 ATAATGTATCGATACATT
217564 TCCTTGGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (20 bp):
ATAATGTATCGATACATTAA
Found at i:217552 original size:33 final size:33
Alignment explanation
Indices: 217496--217559 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 33
217486 AAATTCCCAG
*
217496 ATGTATCGATACAAAGATCAATGTATTGATATA
1 ATGTATCGATACAAAGATCAATGTATCGATATA
217529 ATGTATCGATACATTAA-AT-AATGTATCGATA
1 ATGTATCGATACA--AAGATCAATGTATCGATA
217560 CATTTCCTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 24 0.86
34 2 0.07
35 2 0.07
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.34
Consensus pattern (33 bp):
ATGTATCGATACAAAGATCAATGTATCGATATA
Found at i:219126 original size:39 final size:39
Alignment explanation
Indices: 219054--219131 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
219044 AAAGACAAGG
* *
219054 TGCCAATAGGCTGATTCAAAGCCAGCGATATTGGGCTTA
1 TGCCAATAGGCTGATTCAAAGCCAGCAACATTGGGCTTA
* * *
219093 TGCCAATATGCTGATTCAAGGCCAGCAACATTGGTCTTA
1 TGCCAATAGGCTGATTCAAAGCCAGCAACATTGGGCTTA
219132 AAGATGCCGG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (39 bp):
TGCCAATAGGCTGATTCAAAGCCAGCAACATTGGGCTTA
Found at i:219165 original size:49 final size:45
Alignment explanation
Indices: 218950--219227 Score: 227
Period size: 49 Copynumber: 6.2 Consensus size: 45
218940 CTTAGGTATA
* * * *
218950 TTAAAGA--TGCCAATATGTTGATTCAAGGCCAACGATATCGGAC
1 TTAAAGAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* * * *
218993 TTAAAGATGAAAATGCTAATGTGCTGATTCAAGGCCAGCGACATTGGTC
1 TTAAAGA-G---GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* * * *
219042 TTAAAGACAAGGTGCCAATAGGCTGATTCAAAGCCAGCGATATTGGGC
1 TTAAAG---AGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* *
219090 TT----A--TGCCAATATGCTGATTCAAGGCCAGCAACATTGGTC
1 TTAAAGAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
219129 TTAAAGATGCCGGTGCCAATATGCTGATTCAAGGCCAGCGACATT-GAC
1 TTAAAGA----GGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* *
219177 TT--AGAGGTGCCAATATGCTTATTCAAGGCCAGCGATATTGGAC
1 TTAAAGAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
219220 TTAGAAGA
1 TTA-AAGA
219228 AGATGCCACC
Statistics
Matches: 189, Mismatches: 23, Indels: 43
0.74 0.09 0.17
Matches are distributed among these distances:
39 33 0.17
41 1 0.01
42 32 0.17
43 13 0.07
46 6 0.03
48 36 0.19
49 66 0.35
51 1 0.01
52 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (45 bp):
TTAAAGAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
Found at i:219309 original size:28 final size:29
Alignment explanation
Indices: 219246--219428 Score: 191
Period size: 28 Copynumber: 6.4 Consensus size: 29
219236 CCAACTTGTA
**
219246 TGGGCTTTTGAAAAGGTTG-CACCAACTTG
1 TGGGCTTTTG-AAAGGTTGCCACTGACTTG
* *
219275 TGTGCTTTTG-AAGGTTGCCACTGATTTG
1 TGGGCTTTTGAAAGGTTGCCACTGACTTG
* * *
219303 TGGGCTTTTGAAAAGATACCACTGACTTG
1 TGGGCTTTTGAAAGGTTGCCACTGACTTG
*
219332 TGGGC--TTGAAAGGGGTGCCACTGACTTG
1 TGGGCTTTTGAAA-GGTTGCCACTGACTTG
*
219360 TGGGCTTTTG-AAGGTTGCCACTTACTTG
1 TGGGCTTTTGAAAGGTTGCCACTGACTTG
* *
219388 TGGGC-TTTGAAAAAGATGCCACTGACTTG
1 TGGGCTTTTG-AAAGGTTGCCACTGACTTG
219417 TGGGC-TTTGAAA
1 TGGGCTTTTGAAA
219429 AGGTGAGGAA
Statistics
Matches: 130, Mismatches: 17, Indels: 15
0.80 0.10 0.09
Matches are distributed among these distances:
27 17 0.13
28 56 0.43
29 54 0.42
30 3 0.02
ACGTcount: A:0.21, C:0.16, G:0.30, T:0.33
Consensus pattern (29 bp):
TGGGCTTTTGAAAGGTTGCCACTGACTTG
Found at i:219331 original size:57 final size:57
Alignment explanation
Indices: 219246--219430 Score: 189
Period size: 57 Copynumber: 3.3 Consensus size: 57
219236 CCAACTTGTA
* ** * * * *
219246 TGGGCTTTTGAAAAGGTTGCACCAACTTGTGTGCTTTTG-AAGGTTGCCACTGATTTG
1 TGGGCTTTTGAAAAGATACCACTAACTTGTGGGC-TTTGAAAGGATGCCACTGACTTG
* *
219303 TGGGCTTTTGAAAAGATACCACTGACTTGTGGGC-TTGAAAGGGGTGCCACTGACTTG
1 TGGGCTTTTGAAAAGATACCACTAACTTGTGGGCTTTGAAA-GGATGCCACTGACTTG
* * * * *
219360 TGGGCTTTTG-AAGGTTGCCACTTACTTGTGGGCTTTGAAAAAGATGCCACTGACTTG
1 TGGGCTTTTGAAAAGATACCACTAACTTGTGGGCTTTG-AAAGGATGCCACTGACTTG
219417 TGGGC-TTTGAAAAG
1 TGGGCTTTTGAAAAG
219431 GTGAGGAATG
Statistics
Matches: 108, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
55 3 0.03
56 25 0.23
57 77 0.71
58 3 0.03
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (57 bp):
TGGGCTTTTGAAAAGATACCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTG
Found at i:219360 original size:85 final size:86
Alignment explanation
Indices: 219270--219428 Score: 259
Period size: 85 Copynumber: 1.9 Consensus size: 86
219260 GGTTGCACCA
* *
219270 ACTTGTGTGCTTTTGAAGGTTGCCACTGATTTGTGGGCTTTTG-AAAAGATACCACTGACTTGTG
1 ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGC-TTTGAAAAAGATACCACTGACTTGTG
219334 GGC-TTGAAAGGGGTGCCACTG
65 GGCTTTGAAAGGGGTGCCACTG
* *
219355 ACTTGTGGGCTTTTGAAGGTTGCCACTTACTTGTGGGCTTTGAAAAAGATGCCACTGACTTGTGG
1 ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAAGATACCACTGACTTGTGG
219420 GCTTTGAAA
66 GCTTTGAAA
219429 AGGTGAGGAA
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
84 4 0.06
85 58 0.85
86 6 0.09
ACGTcount: A:0.21, C:0.16, G:0.30, T:0.33
Consensus pattern (86 bp):
ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAAGATACCACTGACTTGTGG
GCTTTGAAAGGGGTGCCACTG
Found at i:220588 original size:17 final size:17
Alignment explanation
Indices: 220563--220603 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
220553 GTGTCAATGG
*
220563 TTTTGTTGTTTTTTGGT
1 TTTTTTTGTTTTTTGGT
*
220580 TTTTTTTGTTTTTTTGT
1 TTTTTTTGTTTTTTGGT
220597 TTTTTTT
1 TTTTTTT
220604 TGCGAAGGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (17 bp):
TTTTTTTGTTTTTTGGT
Found at i:220592 original size:18 final size:18
Alignment explanation
Indices: 220571--220605 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
220561 GGTTTTGTTG
220571 TTTTTTGGTTTTTTTTGT
1 TTTTTTGGTTTTTTTTGT
*
220589 TTTTTTGTTTTTTTTTG
1 TTTTTTGGTTTTTTTTG
220606 CGAAGGACGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (18 bp):
TTTTTTGGTTTTTTTTGT
Found at i:220602 original size:8 final size:8
Alignment explanation
Indices: 220562--220602 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
220552 CGTGTCAATG
*
220562 GTTTTGTT
1 GTTTTTTT
*
220570 GTTTTTTG
1 GTTTTTTT
220578 GTTTTTTTT
1 G-TTTTTTT
220587 GTTTTTTT
1 GTTTTTTT
220595 GTTTTTTT
1 GTTTTTTT
220603 TTGCGAAGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
8 22 0.76
9 7 0.24
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (8 bp):
GTTTTTTT
Found at i:220603 original size:9 final size:9
Alignment explanation
Indices: 220563--220603 Score: 57
Period size: 10 Copynumber: 4.4 Consensus size: 9
220553 GTGTCAATGG
220563 TTTTGTTGTT
1 TTTTGTT-TT
220573 TTTTGGTTTT
1 TTTT-GTTTT
220583 TTTTG-TTT
1 TTTTGTTTT
220591 TTTTGTTTT
1 TTTTGTTTT
220600 TTTT
1 TTTT
220604 TGCGAAGGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 8 0.28
9 8 0.28
10 10 0.34
11 3 0.10
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (9 bp):
TTTTGTTTT
Found at i:226647 original size:20 final size:19
Alignment explanation
Indices: 226622--226728 Score: 91
Period size: 20 Copynumber: 5.7 Consensus size: 19
226612 TTTACCCAGA
226622 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTTT-CAT
*
226642 TGTATCGATACATTGCTCAT
1 TGTATCGATACATT-TTCAT
226662 TGTATCGAT--A---T-AT
1 TGTATCGATACATTTTCAT
* *
226675 TGTATCGATACATTGCTAAT
1 TGTATCGATACATT-TTCAT
* *
226695 TGTATCGGTACATTTTACAA
1 TGTATCGATACATTTT-CAT
226715 TGTATCGATACATT
1 TGTATCGATACATT
226729 CAGGCATTTT
Statistics
Matches: 72, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
13 11 0.15
14 1 0.01
15 1 0.01
18 1 0.01
19 2 0.03
20 55 0.76
21 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (19 bp):
TGTATCGATACATTTTCAT
Found at i:226678 original size:13 final size:13
Alignment explanation
Indices: 226659--226689 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
226649 ATACATTGCT
226659 CATTGTATCGATA
1 CATTGTATCGATA
*
226672 TATTGTATCGATA
1 CATTGTATCGATA
226685 CATTG
1 CATTG
226690 CTAATTGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:226719 original size:53 final size:52
Alignment explanation
Indices: 226622--226724 Score: 129
Period size: 53 Copynumber: 1.9 Consensus size: 52
226612 TTTACCCAGA
*
226622 TGTATCGATACATTTTGCATTGTATCGATACATTGCTCATTGTATCGATATAT
1 TGTATCGATACA-TTTGCATTGTATCGATACATTGCTCAATGTATCGATATAT
* *
226675 TGTATCGATACA-TTGCTAATTGTATCGGTACATT-TTACAATGTATCGATA
1 TGTATCGATACATTTGC--ATTGTATCGATACATTGCT-CAATGTATCGATA
226725 CATTCAGGCA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
51 4 0.09
52 1 0.02
53 39 0.89
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.42
Consensus pattern (52 bp):
TGTATCGATACATTTGCATTGTATCGATACATTGCTCAATGTATCGATATAT
Found at i:229088 original size:51 final size:51
Alignment explanation
Indices: 229026--229220 Score: 171
Period size: 51 Copynumber: 3.8 Consensus size: 51
229016 TTTCATTTCG
* ** * *
229026 GGGATACTCCAATCCCGATTTCATTTCCAAAACATTAATTTTTCTTAATCA
1 GGGATACTCCAATCCCGATTTTATTTCCAAAACACCAATTTTCCATAATCA
** * * *
229077 GGGATACTCCAATTTCGATTTTATTTCTAAAACACCCATTTTCCATAATCG
1 GGGATACTCCAATCCCGATTTTATTTCCAAAACACCAATTTTCCATAATCA
* * * **
229128 GGGATACTCCAA-CTCTGATTTTATTTCCAAAACACCAACTTTT-TACAATTG
1 GGGATACTCCAATC-CCGATTTTATTTCCAAAACACCAA-TTTTCCATAATCA
* * * *
229179 GGGATACTCC-AGCCCCAGTTTTATTTTCAAAACATCAATTTT
1 GGGATACTCCAATCCCGA-TTTTATTTCCAAAACACCAATTTT
229221 TCATCGGGAA
Statistics
Matches: 118, Mismatches: 22, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
50 7 0.06
51 107 0.91
52 4 0.03
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.36
Consensus pattern (51 bp):
GGGATACTCCAATCCCGATTTTATTTCCAAAACACCAATTTTCCATAATCA
Found at i:229275 original size:76 final size:78
Alignment explanation
Indices: 229178--229348 Score: 251
Period size: 79 Copynumber: 2.2 Consensus size: 78
229168 TTTTACAATT
*
229178 GGGGATACTCCAGCCCCAGTTTTATTT-TCAAAACATCAATTTTT-C-ATCGGGAATACTCCAAC
1 GGGGATACTCCAACCCCAGTTTTATTTCT-AAAACATCAATTTTTACAATCGGGAATACTCCAAC
229240 CCCGTTATTTTCGA
65 CCCGTTATTTTCGA
* * *
229254 GGGGATAC-CCTAACCCCAGTTTTATTTCTAAATCATCGATTTTTCACAATCGGGGATACTCCAA
1 GGGGATACTCC-AACCCCAGTTTTATTTCTAAAACATCAATTTTT-ACAATCGGGAATACTCCAA
229318 CCCCGTTATTTTCGA
64 CCCCGTTATTTTCGA
229333 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
229349 TGTTGTTATC
Statistics
Matches: 85, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
75 2 0.02
76 36 0.42
77 1 0.01
78 1 0.01
79 43 0.51
80 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (78 bp):
GGGGATACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTTTACAATCGGGAATACTCCAACC
CCGTTATTTTCGA
Found at i:235687 original size:61 final size:61
Alignment explanation
Indices: 235530--236170 Score: 704
Period size: 61 Copynumber: 10.4 Consensus size: 61
235520 CCCTTTTAGC
* * * *
235530 CCTTTAGTCCTCAAAGAGCAGGACGTCTTTTCCTTTTCAAAGCCCACACGAGTTGATGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
235591 CCCTTTAGTCCTCAAAGAGTAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
1 -CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
* *
235653 CCTTTAGTCCTCAAAGAGCATGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
235714 CCTTTAGTCCTCAAAGAGCATGACACTTTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGC--CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
235777 CCTTTAGTCCTCAAAGAGCAGGATGCC-TTTTC-CTTCAAAGCCCACACGAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * * *
235836 CCTTTTAGTCTTTAAAAAGCAGGACACTTTTTTTCCCTTTT-GAAGCCCACACAAGTTGGTGGCA
1 CC-TTTAGTCCTCAAAGAGCAGGACGC-CTTTTT--CTTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
235900 CTTTTCTAGTCCTCAGAA-AGTAGGACG-CGTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 C-CTT-TAGTCCTCA-AAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
** * *
235962 TTTTCTAGTCCTCAAAGAGCATGACGCC-TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTT-TAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
236023 -TTTTCCAGTCCTCAAAGAGCAGGATG-CTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCA
1 CCTTT--AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * * * *
236084 CCTTCCAATCCTCAAAGAGTAGGGCACTTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTT-TAGTCCTCAAAGAGCAGGACGC-CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
*
236147 CCTCCTAGTCCTCAAAGAGCAGGA
1 CCT-TTAGTCCTCAAAGAGCAGGA
236171 TGCACTTTAT
Statistics
Matches: 496, Mismatches: 61, Indels: 43
0.83 0.10 0.07
Matches are distributed among these distances:
59 27 0.05
60 30 0.06
61 203 0.41
62 85 0.17
63 108 0.22
64 25 0.05
65 16 0.03
66 2 0.00
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (61 bp):
CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:235790 original size:124 final size:122
Alignment explanation
Indices: 235530--236170 Score: 754
Period size: 123 Copynumber: 5.2 Consensus size: 122
235520 CCCTTTTAGC
* *
235530 CCTTTAGTCCTCAAAGAGCAGGACGTCTTTTCCTTTTCAAAGCCCACACGAGTTGATGGCACCCT
1 CCTTTAGTCCTCAAAGAGCAGGACG-CTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA-CCT
* ** * * *
235595 TTAGTCCTCAAAGAGTAGGATGC-CTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
64 TTAGTCCTCAAAGAGCAGGACACTTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
*
235653 CCTTTAGTCCTCAAAGAGCATGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTT
1 CCTTTAGTCCTCAAAGAGCAGGACG-CTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTT
*
235718 TAGTCCTCAAAGAGCATGACACTTTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
65 TAGTCCTCAAAGAGCAGGACAC-TTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
235777 CCTTTAGTCCTCAAAGAGCAGGATGCCTTTTC-CTTCAAAGCCCACACGAGTTGGTGGCACCTTT
1 CCTTTAGTCCTCAAAGAGCAGGACGCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACC-TT
* * * * *
235841 TAGTCTTTAAAAAGCAGGACACTTTTTTTCCCTTTTGAAGCCCACACAAGTTGGTGGCA
65 TAGTCCTCAAAGAGCAGGACACTTTTTTT-CTTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * **
235900 CTTTTCTAGTCCTCAGAA-AGTAGGACGCGTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCATT
1 C-CTT-TAGTCCTCA-AAGAGCAGGACGCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACC
* * * * *
235964 TTCTAGTCCTCAAAGAGCATGACGC--CTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
63 TT-TAGTCCTCAAAGAGCAGGACACTTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
236023 -TTTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCT
1 CCTTT--AGTCCTCAAAGAGCAGGACGCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCT
* * * *
236087 TCCAATCCTCAAAGAGTAGGGCACTTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
64 T-TAGTCCTCAAAGAGCAGGACACTTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
*
236147 CCTCCTAGTCCTCAAAGAGCAGGA
1 CCT-TTAGTCCTCAAAGAGCAGGA
236171 TGCACTTTAT
Statistics
Matches: 446, Mismatches: 56, Indels: 31
0.84 0.11 0.06
Matches are distributed among these distances:
120 1 0.00
121 5 0.01
122 122 0.27
123 138 0.31
124 110 0.25
125 25 0.06
126 45 0.10
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (122 bp):
CCTTTAGTCCTCAAAGAGCAGGACGCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTT
AGTCCTCAAAGAGCAGGACACTTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:236388 original size:46 final size:44
Alignment explanation
Indices: 236154--236660 Score: 442
Period size: 43 Copynumber: 11.5 Consensus size: 44
236144 GCACCTCCTA
* * ** **
236154 GTCCTCAAAGAGCAGGATGCACTTTATT-TTCCGCTTC-CCCCTT
1 GTCCTCAAAGAGCAGGACGCACTTCATTCTT-CTTTTCTCCTTTT
* *
236197 GTCCTCAAAGAGCAGGATGCACTTCATTTCCTCATTTTC-CCTTTT
1 GTCCTCAAAGAGCAGGACGCACTTCA-TTCTTC-TTTTCTCCTTTT
* * * *
236242 GTCCTCAAAGAGTAGGACACACTTTATT-TTCCTTTTCTCC-TCT
1 GTCCTCAAAGAGCAGGACGCACTTCATTCTT-CTTTTCTCCTTTT
* *
236285 GTCCTCAAAGAGCAGGACGCACTTTATT-TTCCTTCTCTCC-TTT
1 GTCCTCAAAGAGCAGGACGCACTTCATTCTT-CTTTTCTCCTTTT
*
236328 GTCCTCAAAGAGCAGGACACA-TTCCATTCCCTTCTTTTCTCCTTTT
1 GTCCTCAAAGAGCAGGACGCACTT-CATT--CTTCTTTTCTCCTTTT
*
236374 GTCCTCAAAGAGCAGGACGCACTTCATTTCCTTCTTTTC-CTTTTT
1 GTCCTCAAAGAGCAGGACGCACTTCA-TT-CTTCTTTTCTCCTTTT
* *
236419 AGTCCTCAAAGAGCAGGACGCACTTTATT-TTCCTTTTCTCC-TCT
1 -GTCCTCAAAGAGCAGGACGCACTTCATTCTT-CTTTTCTCCTTTT
* * *
236463 GTCCTCAAAGAGCAGGACGCATTTTATT-TTC-CTTCTCTCTTTT
1 GTCCTCAAAGAGCAGGACGCACTTCATTCTTCTTTTCTC-CTTTT
*
236506 GTCCTCAAAGAGCAGGA--CATGTTCCATTCCCTTCTTTTCTCCTTTT
1 GTCCTCAAAGAGCAGGACGCA-CTT-CATT--CTTCTTTTCTCCTTTT
*
236552 GTCCTCAAAGAGCAGGACGCACTTCATTTCTTTCTTTTC-CCTTCTA
1 GTCCTCAAAGAGCAGGACGCACTTCA-TTC-TTCTTTTCTCCTT-TT
*
236598 GTTCTCAAAGAGCAGGACGCACATT-ATT-TTCCTTTT-TCC-TTT
1 GTCCTCAAAGAGCAGGACGCAC-TTCATTCTT-CTTTTCTCCTTTT
* *
236640 ATCCTCAAAGAGCATGACGCA
1 GTCCTCAAAGAGCAGGACGCA
236661 TTTTGTTTTC
Statistics
Matches: 396, Mismatches: 37, Indels: 63
0.80 0.07 0.13
Matches are distributed among these distances:
41 7 0.02
42 25 0.06
43 151 0.38
44 23 0.06
45 53 0.13
46 120 0.30
47 15 0.04
48 2 0.01
ACGTcount: A:0.20, C:0.29, G:0.14, T:0.37
Consensus pattern (44 bp):
GTCCTCAAAGAGCAGGACGCACTTCATTCTTCTTTTCTCCTTTT
Found at i:236459 original size:178 final size:178
Alignment explanation
Indices: 236195--236689 Score: 789
Period size: 178 Copynumber: 2.8 Consensus size: 178
236185 CGCTTCCCCC
* *
236195 TTGTCCTCAAAGAGCAGGATGCACTTCATTTCC-TCATTTTCCCTTTT-GTCCTCAAAGAGTAGG
1 TTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTTC-TTTTCCCTTTTAGTCCTCAAAGAGCAGG
* *
236258 ACACACTTTATTTTCCTTTTCTCCTCTGTCCTCAAAGAGCAGGACGCACTTTATTTTCCTTCTCT
65 ACGCACTTTATTTTCCTTTTCTCCTCTGTCCTCAAAGAGCAGGACGCATTTTATTTTCCTTCTCT
236323 CCTTTGTCCTCAAAGAGCAGGACACATTCCATTCCCTTCTTTTCTCCTT
130 CCTTTGTCCTCAAAGAGCAGGACACATTCCATTCCCTTCTTTTCTCCTT
*
236372 TTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTTCTTTTCCTTTTTAGTCCTCAAAGAGCAGGA
1 TTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTTCTTTTCCCTTTTAGTCCTCAAAGAGCAGGA
236437 CGCACTTTATTTTCCTTTTCTCCTCTGTCCTCAAAGAGCAGGACGCATTTTATTTTCCTTCTCTC
66 CGCACTTTATTTTCCTTTTCTCCTCTGTCCTCAAAGAGCAGGACGCATTTTATTTTCCTTCTCTC
* **
236502 TTTTGTCCTCAAAGAGCAGGACATGTTCCATTCCCTTCTTTTCTCCTT
131 CTTTGTCCTCAAAGAGCAGGACACATTCCATTCCCTTCTTTTCTCCTT
* * *
236550 TTGTCCTCAAAGAGCAGGACGCACTTCATTTCTTTCTTTTCCCTTCTAGTTCTCAAAGAGCAGGA
1 TTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTTCTTTTCCCTTTTAGTCCTCAAAGAGCAGGA
* * * * * * *
236615 CGCACATTATTTTCCTTTT-TCCTTTATCCTCAAAGAGCATGACGCATTTTGTTTTCCTTTTTTT
66 CGCACTTTATTTTCCTTTTCTCCTCTGTCCTCAAAGAGCAGGACGCATTTTATTTTCC-TTCTCT
236679 CCTTTGTCCTC
130 CCTTTGTCCTC
236690 GAGAAGCAGG
Statistics
Matches: 295, Mismatches: 20, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
177 76 0.26
178 219 0.74
ACGTcount: A:0.19, C:0.28, G:0.13, T:0.40
Consensus pattern (178 bp):
TTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTTCTTTTCCCTTTTAGTCCTCAAAGAGCAGGA
CGCACTTTATTTTCCTTTTCTCCTCTGTCCTCAAAGAGCAGGACGCATTTTATTTTCCTTCTCTC
CTTTGTCCTCAAAGAGCAGGACACATTCCATTCCCTTCTTTTCTCCTT
Found at i:237671 original size:53 final size:53
Alignment explanation
Indices: 237525--237714 Score: 140
Period size: 53 Copynumber: 3.6 Consensus size: 53
237515 GCCAAGGAAA
* * * * * * *
237525 TGTATCGATCCATTATTCAATGTAT-AATACATTGTATCGATACATCGATCTT
1 TGTATCGATACATTCTACAATGTATCGATACATTGTATCGATACATTGCTCAT
* ** * * * * *
237577 TGTATCAATACA-TCTAGGAGGTTTAC-CTAGA-TGTATCGATACATT-TTGCAT
1 TGTATCGATACATTCTACAATGTAT-CGATACATTGTATCGATACATTGCT-CAT
* * *
237628 TGTATTGTTACATTGCT-CACTGTATCGATACATTGTATCGATACATTGCTCAT
1 TGTATCGATACATT-CTACAATGTATCGATACATTGTATCGATACATTGCTCAT
*
237681 TGTATCGATACATTTTACAATGTATCGATACATT
1 TGTATCGATACATTCTACAATGTATCGATACATT
237715 CAAACATTTT
Statistics
Matches: 101, Mismatches: 28, Indels: 17
0.69 0.19 0.12
Matches are distributed among these distances:
50 1 0.01
51 31 0.31
52 21 0.21
53 47 0.47
54 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (53 bp):
TGTATCGATACATTCTACAATGTATCGATACATTGTATCGATACATTGCTCAT
Found at i:237673 original size:33 final size:33
Alignment explanation
Indices: 237625--237694 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
237615 ATACATTTTG
* *
237625 CATTGTATTGTTACATTGCTCACTGTATCGATA
1 CATTGTATCGATACATTGCTCACTGTATCGATA
*
237658 CATTGTATCGATACATTGCTCATTGTATCGATA
1 CATTGTATCGATACATTGCTCACTGTATCGATA
237691 CATT
1 CATT
237695 TTACAATGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (33 bp):
CATTGTATCGATACATTGCTCACTGTATCGATA
Found at i:237681 original size:20 final size:20
Alignment explanation
Indices: 237656--237715 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
237646 ACTGTATCGA
237656 TACATTGTATCGATACATTGC
1 TACATTGTATCGATACATT-C
*
237677 T-CATTGTATCGATACATTT
1 TACATTGTATCGATACATTC
*
237696 TACAATGTATCGATACATTC
1 TACATTGTATCGATACATTC
237716 AAACATTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
19 1 0.03
20 33 0.94
21 1 0.03
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (20 bp):
TACATTGTATCGATACATTC
Found at i:237694 original size:13 final size:13
Alignment explanation
Indices: 237648--237675 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
237638 CATTGCTCAC
237648 TGTATCGATACAT
1 TGTATCGATACAT
237661 TGTATCGATACAT
1 TGTATCGATACAT
237674 TG
1 TG
237676 CTCATTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:240071 original size:51 final size:51
Alignment explanation
Indices: 239996--240207 Score: 250
Period size: 51 Copynumber: 4.2 Consensus size: 51
239986 AAATTTCTAG
* * * *
239996 ATTTTTCAT-TTCGGGGATACTCCAA-TCCCGATTTCATTTCCAAAACATCA
1 ATTTTTCATAATCAGGGATACTCCAACT-CCGATTTTATTTCCAAAACACCA
* * *
240046 ATTTTTCTTAATCAGGGATACTCCAACTCCGATTTTATTTCTAAAACACCC
1 ATTTTTCATAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAACACCA
* * *
240097 ATTTTCCATAATCAGGGATACTGCAACTCCGATTTTAATTCCAAAACACCA
1 ATTTTTCATAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAACACCA
* * * * *
240148 ACTTTTCACAATCGGGGATACTCCAAC-CCCAGTTTTATTTCCAAAACATCA
1 ATTTTTCATAATCAGGGATACTCCAACTCCGA-TTTTATTTCCAAAACACCA
240199 ATTTTTCAT
1 ATTTTTCAT
240208 CGAGGATACT
Statistics
Matches: 136, Mismatches: 23, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
50 11 0.08
51 124 0.91
52 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.34
Consensus pattern (51 bp):
ATTTTTCATAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAACACCA
Found at i:240250 original size:76 final size:76
Alignment explanation
Indices: 240161--240359 Score: 326
Period size: 76 Copynumber: 2.6 Consensus size: 76
240151 TTTCACAATC
* *
240161 GGGGATACTCCAACCCCAGTTTTATTTCCAAAACATCAATTTTTCATCGAGGATACTCCAACCCC
1 GGGGATACTCCAACCCCAGTTTTATTTCTAAAACATTAATTTTTCATCGAGGATACTCCAACCCC
240226 GTTATTTTCGA
66 GTTATTTTCGA
* * *
240237 GGGGATACCCCAACCCCAGTTTTATTTCTAAAACATTAATTTTTCATCGGGGATACTCCAACCCT
1 GGGGATACTCCAACCCCAGTTTTATTTCTAAAACATTAATTTTTCATCGAGGATACTCCAACCCC
240302 GTTATTTTCGA
66 GTTATTTTCGA
* * *
240313 GGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTCTCAT
1 GGGGATACTCCAACCCCAGTTTTATTTCTAAAACATTAATTTTTCAT
240360 AATCGGGGAT
Statistics
Matches: 114, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 114 1.00
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (76 bp):
GGGGATACTCCAACCCCAGTTTTATTTCTAAAACATTAATTTTTCATCGAGGATACTCCAACCCC
GTTATTTTCGA
Found at i:240389 original size:51 final size:51
Alignment explanation
Indices: 240313--240432 Score: 163
Period size: 51 Copynumber: 2.4 Consensus size: 51
240303 TTATTTTCGA
* *
240313 GGGGATACTCCAACCCCGGTTTTATTTCTAAAAT-ATTAATTTCTCATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCT-AAATCATCAATTTCTCACAATC
* * *
240364 GGGGATACTCCAATCCCC-TTTTTATTTCTAAATCATCGATTTTTCACAATC
1 GGGGATACTCCAA-CCCCGGTTTTATTTCTAAATCATCAATTTCTCACAATC
240415 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
240433 TTATTTTCGA
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
50 8 0.13
51 49 0.80
52 4 0.07
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.34
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAATCATCAATTTCTCACAATC
Found at i:240476 original size:130 final size:127
Alignment explanation
Indices: 240237--240481 Score: 341
Period size: 130 Copynumber: 1.9 Consensus size: 127
240227 TTATTTTCGA
* *
240237 GGGGATACCCCAACCCCAGTTTTATTTCTAAAACATTAATTTTTCATCGGGGATACTCCAACCCT
1 GGGGATACCCCAACCCCAGTTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCCC
* *
240302 GTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTCTCATAATC
66 GTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATCTCCAAAATATTAATTTCTCATAATC
* * * *
240364 GGGGATACTCCAATCCCC-TTTTTATTTCTAAATCATCGATTTTTCACAATCGGGGATACTCCAA
1 GGGGATACCCCAA-CCCCAGTTTTATTTCTAAAACATCAATTTTT--C-ATCGGGGATACTCCAA
* *
240428 CCCCGTTATTTTCGAGGGGATACTCTAA-CCCTGTTGTTATCTCCAAAATATTAA
62 CCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT-TTATCTCCAAAATATTAA
240482 ATTTTTCGTC
Statistics
Matches: 103, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
127 34 0.33
128 4 0.04
129 7 0.07
130 58 0.56
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (127 bp):
GGGGATACCCCAACCCCAGTTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCCC
GTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATCTCCAAAATATTAATTTCTCATAATC
Found at i:245937 original size:52 final size:52
Alignment explanation
Indices: 245857--245976 Score: 204
Period size: 52 Copynumber: 2.3 Consensus size: 52
245847 AAAAGTTACT
* * *
245857 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAGATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGACAAATTTGCC
*
245909 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGACAAATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGACAAATTTGCC
245961 TGCATGTATCGATACA
1 TGCATGTATCGATACA
245977 AAGATCGGTG
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 64 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.35
Consensus pattern (52 bp):
TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGACAAATTTGCC
Found at i:245989 original size:52 final size:52
Alignment explanation
Indices: 245857--245996 Score: 176
Period size: 52 Copynumber: 2.7 Consensus size: 52
245847 AAAAGTTACT
* * *
245857 TGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAGATTTGCC
1 TGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGACAAATTTGCC
*** *
245909 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGACAAATTTGCC
1 TGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGACAAATTTGCC
*
245961 TGCATGTATCGATACA-AAGATCGGTGTATCGATACA
1 TGCATGTATCGATACATAAGAT-AGTGTATCGATACA
245997 ATGTATCGAT
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 4 0.05
52 73 0.95
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (52 bp):
TGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGACAAATTTGCC
Found at i:246087 original size:33 final size:33
Alignment explanation
Indices: 246050--246116 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
246040 AGTAGCTTAA
246050 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
246083 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
246116 A
1 A
246117 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:246090 original size:13 final size:13
Alignment explanation
Indices: 246072--246096 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
246062 CAAAAAAATA
246072 TGTATCGATACAT
1 TGTATCGATACAT
246085 TGTATCGATACA
1 TGTATCGATACA
246097 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:246958 original size:67 final size:68
Alignment explanation
Indices: 246832--246958 Score: 159
Period size: 67 Copynumber: 1.9 Consensus size: 68
246822 ATTGGGTTTT
* * * *
246832 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGTAATATTGGACTTAAAGATGAAGATG
1 AAAGATGATAAAGATGCCAATATGCTGATGCAAGGCCAATAATATTGGACTTAAAGATGAAGATG
246897 AGA
66 AGA
* * * *
246900 AAAG-TGATAAAGATGCTAATATGTTGATGCACGGCCAATGATATTAGG-CTTAAAGATGA
1 AAAGATGATAAAGATGCCAATATGCTGATGCAAGGCCAATAATATT-GGACTTAAAGATGA
246959 GAAAAAGGAT
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
67 44 0.88
68 6 0.12
ACGTcount: A:0.39, C:0.10, G:0.25, T:0.25
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATGCTGATGCAAGGCCAATAATATTGGACTTAAAGATGAAGATG
AGA
Found at i:247180 original size:49 final size:49
Alignment explanation
Indices: 246971--247788 Score: 1034
Period size: 49 Copynumber: 16.7 Consensus size: 49
246961 AAAAGGATGT
* * ** *
246971 CAATGTGCTGATTCAAGGCTAGTTCCATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGC
*
247023 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
** *
247066 CAATGTGCTGATTCAAGGCCAGCTACGTTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
247114 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * * *
247163 CAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * * *
247212 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * *
247261 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * * *
247310 CAATATGCTAATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* *
247359 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGC
* * *
247411 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* *
247460 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGC
* * *
247512 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* *
247561 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGC
*
247613 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * * *
247656 CAATATGCTGATTCAAGGCTAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
247704 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * *
247753 CAATATGCTGATTCAGGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTA
247789 GAAGGGTTGC
Statistics
Matches: 666, Mismatches: 77, Indels: 49
0.84 0.10 0.06
Matches are distributed among these distances:
43 79 0.12
48 91 0.14
49 337 0.51
50 3 0.00
51 2 0.00
52 154 0.23
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
Found at i:247461 original size:101 final size:99
Alignment explanation
Indices: 246971--247788 Score: 1204
Period size: 101 Copynumber: 8.4 Consensus size: 99
246961 AAAAGGATGT
* * * * *
246971 CAATGTGCTGATTCAAGGCTAGTTCCATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G-AAAGGTGCCAATATGCTGATT
247036 CAAGGCCAGCTATATTGGACTT-A-----AAGGTGC
64 CAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
* * * *
247066 CAATGTGCTGATTCAAGGCCAGCTACGTTGGACTTAAAGGTG--AGGTGCCAATGTGCTGATTCA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAAGGTGCCAATATGCTGATTCA
* *
247129 AGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
66 AGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
*
247163 CAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGAT-AAAGGTGCCAATATGCTGATTCA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAAGGTGCCAATATGCTGATTCA
*
247227 AGGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
66 AGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
*
247261 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-AAAGGTGCCAATATGCTAATTCA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAAGGTGCCAATATGCTGATTCA
247325 AGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
66 AGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
247359 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G-AAAGGTGCCAATATGCTGATT
247424 CAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
64 CAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
247460 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G-AAAGGTGCCAATATGCTGATT
247525 CAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
64 CAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
247561 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G-AAAGGTGCCAATATGCTGATT
247626 CAAGGCCAGCTATATTGGACTT-A-----AAGGTGC
64 CAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
* * * * *
247656 CAATATGCTGATTCAAGGCTAGCTACATTGGACTTAAAGGTG--AGGTGCCAATGTGCTGATTCA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAAGGTGCCAATATGCTGATTCA
* *
247719 AGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
66 AGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
* * * * *
247753 CAATATGCTGATTCAGGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTA
247789 GAAGGGTTGC
Statistics
Matches: 678, Mismatches: 28, Indels: 32
0.92 0.04 0.04
Matches are distributed among these distances:
91 80 0.12
92 2 0.00
94 2 0.00
95 79 0.12
97 83 0.12
98 187 0.28
100 1 0.00
101 244 0.36
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (99 bp):
CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAAGGTGCCAATATGCTGATTCA
AGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
Found at i:247673 original size:21 final size:21
Alignment explanation
Indices: 247606--247673 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
247596 AAAGATGGAA
247606 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAATATGCTGATTC
* ** *
247627 AA-G-GCCAGCTATATTGGACTTA
1 AAGGTGCCA-ATATGCT-GA-TTC
247649 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAATATGCTGATTC
247670 AAGG
1 AAGG
247674 CTAGCTACAT
Statistics
Matches: 34, Mismatches: 8, Indels: 10
0.65 0.15 0.19
Matches are distributed among these distances:
19 4 0.12
20 5 0.15
21 10 0.29
22 6 0.18
23 5 0.15
24 4 0.12
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (21 bp):
AAGGTGCCAATATGCTGATTC
Found at i:247832 original size:33 final size:32
Alignment explanation
Indices: 247781--247891 Score: 165
Period size: 33 Copynumber: 3.5 Consensus size: 32
247771 CCAGCTATAT
*
247781 TGGGC-TTAGA-AGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAAGGTTGCCACCGACTTGTG
*
247811 TGGGCTTTAGAGAATGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAGAA-GGTTGCCACCGACTTGTG
247844 TGGGCTTTAGAGGAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAGA-GAAGGTTGCCACCGACTTGTG
247877 TGGGCTTTAGA-AAGG
1 TGGGCTTTAGAGAAGG
247892 GTGAAAGATG
Statistics
Matches: 74, Mismatches: 3, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
30 5 0.07
31 9 0.12
32 1 0.01
33 56 0.76
34 3 0.04
ACGTcount: A:0.20, C:0.17, G:0.35, T:0.28
Consensus pattern (32 bp):
TGGGCTTTAGAGAAGGTTGCCACCGACTTGTG
Found at i:247999 original size:34 final size:34
Alignment explanation
Indices: 247895--248124 Score: 328
Period size: 34 Copynumber: 6.9 Consensus size: 34
247885 AGAAAGGGTG
* * * *
247895 AAAGA-TGCCACGAAGTTGTGGACTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
* *
247928 CAAG-GTGCCACGGAGTTGTGGGCTT-TAA--AA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
247958 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
247992 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
248026 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
248060 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGG-A
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
* * * *
248093 AAAGAGTGCCACGTAGTCGTGGACTTAAAAGG
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGG
248125 GTGCCACGGA
Statistics
Matches: 182, Mismatches: 10, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
30 5 0.03
31 21 0.12
32 4 0.02
33 50 0.27
34 102 0.56
ACGTcount: A:0.33, C:0.13, G:0.35, T:0.19
Consensus pattern (34 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
Found at i:248130 original size:27 final size:27
Alignment explanation
Indices: 248092--248145 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
248082 GCTTAGAAGG
*
248092 AAAAGAGTGCCACGTAGTCGTGGACTT
1 AAAAGAGTGCCACGGAGTCGTGGACTT
*
248119 AAAAGGGTGCCACGGAGTCGTGGACTT
1 AAAAGAGTGCCACGGAGTCGTGGACTT
248146 TGAAAAGGTA
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:0.28, C:0.19, G:0.33, T:0.20
Consensus pattern (27 bp):
AAAAGAGTGCCACGGAGTCGTGGACTT
Found at i:256556 original size:30 final size:30
Alignment explanation
Indices: 256521--256736 Score: 263
Period size: 30 Copynumber: 7.1 Consensus size: 30
256511 TCTTCAAATC
256521 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* * *
256551 TCTCTTTTCTAAGTCCACGACTCAATGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* * * *
256581 TCATTTTCTTCCAAGTCCACAACTTAGTGGCA
1 TC-TCTTC-TCAAAGTCCACGACTCAGTGGCA
* *
256613 TCATTTTCTTCCAAGTCCACGACTCAGTGGCA
1 TC-TCTTC-TCAAAGTCCACGACTCAGTGGCA
* *
256645 T-TTTTCTTCAAAGTCCACAACTCAGTGGCA
1 TCTCTTC-TCAAAGTCCACGACTCAGTGGCA
256675 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* *
256705 TCTCTTCCCAAAGTCCACGACTCTGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
256735 TC
1 TC
256737 CTTTTAAGTC
Statistics
Matches: 166, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
30 109 0.66
31 7 0.04
32 50 0.30
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (30 bp):
TCTCTTCTCAAAGTCCACGACTCAGTGGCA
Found at i:256610 original size:62 final size:61
Alignment explanation
Indices: 256528--256748 Score: 272
Period size: 62 Copynumber: 3.7 Consensus size: 61
256518 ATCTCTCTTC
* * *
256528 TCAAAGTCCACGACTCAGTGGCATCTCTTTTCTAAGTCCACGACTCAATGGCATCATTTTCT
1 TCAAAGTCCACAACTCAGTGGCATCTCTTTTCAAAGTCCACGACTCAGTGGCATC-TTTTCT
* * * *
256590 TCCAAGTCCACAACTTAGTGGCATCATTTTCTTCCAAGTCCACGACTCAGTGGCAT-TTTTCT
1 TCAAAGTCCACAACTCAGTGGCATC-TCTT-TTCAAAGTCCACGACTCAGTGGCATCTTTTCT
* *
256652 TCAAAGTCCACAACTCAGTGGCATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTCTTC-
1 TCAAAGTCCACAACTCAGTGGCATCTCTTTTCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * *
256712 CCAAAGTCCACGACTCTGTGGCATC-CTTTT--AAGTCCA
1 TCAAAGTCCACAACTCAGTGGCATCTCTTTTCAAAGTCCA
256749 TAACTCCGTA
Statistics
Matches: 140, Mismatches: 16, Indels: 11
0.84 0.10 0.07
Matches are distributed among these distances:
57 7 0.05
59 4 0.03
60 45 0.32
61 7 0.05
62 51 0.36
63 3 0.02
64 23 0.16
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.30
Consensus pattern (61 bp):
TCAAAGTCCACAACTCAGTGGCATCTCTTTTCAAAGTCCACGACTCAGTGGCATCTTTTCT
Found at i:256867 original size:27 final size:27
Alignment explanation
Indices: 256806--257414 Score: 495
Period size: 27 Copynumber: 20.9 Consensus size: 27
256796 TCTTTTTCCG
256806 TTTAAGTCCACAACTCCGTGGCA-CCT
1 TTTAAGTCCACAACTCCGTGGCACCCT
* *
256832 TTTAAGTCCACAACTCTGTGGTACCCT
1 TTTAAGTCCACAACTCCGTGGCACCCT
*
256859 TTTAAGTCCACAACTCCATGGCATCTTTTTCCT
1 TTTAAGTCCACAACTCCGTGGCA-C-----CCT
*
256892 TTTAAGTCCACAACCCCGTGGCATTCTTTTTCCT
1 TTTAAGTCCACAACTCCGTGGCA--C-----CCT
*
256926 TTTAAGTCCATC-ACTCCATGGCACCCT
1 TTTAAGTCCA-CAACTCCGTGGCACCCT
256953 TTTAAGTCCACAACTCCGTGGCACCCT
1 TTTAAGTCCACAACTCCGTGGCACCCT
256980 TTTAAGTCCACAACTCCGTGGCATCTTTTTCCT
1 TTTAAGTCCACAACTCCGTGGCA-C-----CCT
*
257013 TTTAAGTCCACAAC-CCTGTTGCATTCTTTTTCCT
1 TTTAAGTCCACAACTCC-GTGGCA--C-----CCT
* * *
257047 TTTAAGTTCATAACTCCATGGCACCCT
1 TTTAAGTCCACAACTCCGTGGCACCCT
*
257074 TTTAAGTCCATAACTCCGTGGCACCCT
1 TTTAAGTCCACAACTCCGTGGCACCCT
* *
257101 TTTAAGTCCACAATTCCGTGGCACCCC
1 TTTAAGTCCACAACTCCGTGGCACCCT
* *
257128 TTTAAGCCCACAACTCAGTGGCACCATTTTTCCT
1 TTTAAGTCCACAACTCCGTGGCA-C------CCT
*
257162 TTTAAGCCCACAACTCCGTGGCACCATTTTCTT
1 TTTAAGTCCACAACTCCGTGGCACC-----C-T
* *
257195 TTTAAAGCCCACAACTTCGTGGCACCCT
1 TTT-AAGTCCACAACTCCGTGGCACCCT
* *
257223 TTTAAGTCCATAACTCCGTGGCATCCT
1 TTTAAGTCCACAACTCCGTGGCACCCT
*
257250 TTTAAGTCCATAACTCCGTGGCACCCT
1 TTTAAGTCCACAACTCCGTGGCACCCT
* *
257277 TTTAAGCCCACAGCTCCGTGGCATTCTTTTTCCT
1 TTTAAGTCCACAACTCCGTGGCA--C-----CCT
*
257311 TTTAAATCCACAACTCCGTGGCACCCT
1 TTTAAGTCCACAACTCCGTGGCACCCT
* * *
257338 TTTAAGTCCACAACTCTGTTGTACCCT
1 TTTAAGTCCACAACTCCGTGGCACCCT
* *
257365 TTTCAGTCCACAACTTCGTGGCACCCT
1 TTTAAGTCCACAACTCCGTGGCACCCT
*
257392 TTTAAGTCCATAACTCCGTGGCA
1 TTTAAGTCCACAACTCCGTGGCA
257415 TCTTTCTCCT
Statistics
Matches: 494, Mismatches: 49, Indels: 79
0.79 0.08 0.13
Matches are distributed among these distances:
26 22 0.04
27 280 0.57
28 7 0.01
29 2 0.00
32 6 0.01
33 51 0.10
34 123 0.25
35 3 0.01
ACGTcount: A:0.22, C:0.33, G:0.13, T:0.33
Consensus pattern (27 bp):
TTTAAGTCCACAACTCCGTGGCACCCT
Found at i:256995 original size:121 final size:121
Alignment explanation
Indices: 256715--257252 Score: 628
Period size: 121 Copynumber: 4.4 Consensus size: 121
256705 TCTCTTCCCA
* * * * * *
256715 AAGTCCACGACTCTGTGGCATCCTTTTAAGTCCATAACTCCGTAGCA-CCTTTCCCTTTTAAAGC
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTCCTTTT-AAGC
** * * *
256779 CCACAACTTCGTGGCACTCTTTTTCCGTTTAAGTCCACAACTCCGTGGCA-CCTTTT
65 CCACAACCCCGTGGCATTCTTTTTCCTTTTAAGTCCACAACTCCATGGCACCCTTTT
* * * * *
256835 AAGTCCACAACTCTGTGGTACCCTTTTAAGTCCACAACTCCATGGCATCTTTTTCCTTTTAAGTC
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTCCTTTTAAGCC
256900 CACAACCCCGTGGCATTCTTTTTCCTTTTAAGTCCATC-ACTCCATGGCACCCTTTT
66 CACAACCCCGTGGCATTCTTTTTCCTTTTAAGTCCA-CAACTCCATGGCACCCTTTT
* *
256956 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTC
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTCCTTTTAAGCC
* * * *
257021 CACAACCCTGTTGCATTCTTTTTCCTTTTAAGTTCATAACTCCATGGCACCCTTTT
66 CACAACCCCGTGGCATTCTTTTTCCTTTTAAGTCCACAACTCCATGGCACCCTTTT
* *
257077 AAGTCCATAACTCCGTGGCACCCTTTTAAGTCCACAATTCCGTGGCA-CC----CC-TTTAAGCC
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTCCTTTTAAGCC
* * * * *
257136 CACAACTCAGTGGCA-CCATTTTTCCTTTTAAGCCCACAACTCCGTGGCACCATTTTCTTTTT
66 CACAACCCCGTGGCATTC-TTTTTCCTTTTAAGTCCACAACTCCATGGCACC-----C-TTTT
* * *
257198 AAAGCCCACAACTTCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCATCCTTTT
1 -AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCTTTT
257253 AAGTCCATAA
Statistics
Matches: 363, Mismatches: 38, Indels: 27
0.85 0.09 0.06
Matches are distributed among these distances:
114 1 0.00
115 48 0.13
116 2 0.01
120 89 0.25
121 179 0.49
122 42 0.12
123 2 0.01
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (121 bp):
AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTCCTTTTAAGCC
CACAACCCCGTGGCATTCTTTTTCCTTTTAAGTCCACAACTCCATGGCACCCTTTT
Found at i:257168 original size:34 final size:33
Alignment explanation
Indices: 257128--257225 Score: 135
Period size: 34 Copynumber: 2.9 Consensus size: 33
257118 GTGGCACCCC
257128 TTTAAGCCCACAACTCAGTGGCACCATTTTTCCT
1 TTTAAGCCCACAACTC-GTGGCACCATTTTTCCT
*
257162 TTTAAGCCCACAACTCCGTGGCACCA-TTTTCTT
1 TTTAAGCCCACAACT-CGTGGCACCATTTTTCCT
*
257195 TTTAAAGCCCACAACTTCGTGGCACCCTTTT
1 TTT-AAGCCCACAAC-TCGTGGCACCATTTT
257226 AAGTCCATAA
Statistics
Matches: 58, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
33 9 0.16
34 44 0.76
35 5 0.09
ACGTcount: A:0.22, C:0.33, G:0.12, T:0.33
Consensus pattern (33 bp):
TTTAAGCCCACAACTCGTGGCACCATTTTTCCT
Found at i:257177 original size:88 final size:82
Alignment explanation
Indices: 257044--257497 Score: 333
Period size: 88 Copynumber: 5.2 Consensus size: 82
257034 CATTCTTTTT
* * * * *
257044 CCTTTTAAGTTCATAACTCCATGGCAC-CCTTTTAAGTCCATAACTCCGTGGCACCCTTTTAAGT
1 CCTTTTAAGTCCACAACTCCGTGGCACTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGC
257108 CCACAATTCCGTGGCAC
66 CCACAATTCCGTGGCAC
* * * *
257125 CCCTTTAAGCCCACAACTCAGTGGCACCATTTTTCCTTTTAAGCCCACAACTCCGTGGCACCATT
1 CCTTTTAAGTCCACAACTCCGTGGCA-C-----TCCTTTTAAGTCCACAACTCCGTGGCACC---
257190 TTCTTTTTAAAGCCCACAACTT-CGTGGCAC
57 --C-TTTT-AAGCCCACAA-TTCCGTGGCAC
* *
257220 CCTTTTAAGTCCATAACTCCGTGGCA-TCCTTTTAAGTCCATAACTCCGTGGCACCCTTTTAAGC
1 CCTTTTAAGTCCACAACTCCGTGGCACTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGC
**
257284 CCACAGCTCCGTGGCATTC
66 CCACAATTCCGTGGCA--C
* * * *
257303 TTTTTCCTTTTAAATCCACAACTCCGTGGCAC-CCTTTTAAGTCCACAACTCTGTTGTACCCTTT
1 -----CCTTTTAAGTCCACAACTCCGTGGCACTCCTTTTAAGTCCACAACTCCGTGGCACCCTTT
* *
257367 TCAGTCCACAACTT-CGTGGCAC
61 TAAGCCCACAA-TTCCGTGGCAC
* * * **
257389 CCTTTTAAGTCCATAACTCCGTGGCATCTTTCTCCTTTTAAATCCCACAAGTTAGTGGCACCCTT
1 CCTTTTAAGTCCACAACTCCGTGGCA-----CTCCTTTTAAGT-CCACAACTCCGTGGCACCCTT
* *
257454 TTCAAAAGCCCACAAGTCGGTGGCACC
60 TT---AAGCCCACAATTCCGTGGCA-C
*
257481 CCTTTTAAAGCCCACAA
1 CCTTTT-AAGTCCACAA
257498 GTCAATGGCA
Statistics
Matches: 294, Mismatches: 41, Indels: 64
0.74 0.10 0.16
Matches are distributed among these distances:
80 1 0.00
81 60 0.20
82 5 0.02
83 2 0.01
86 2 0.01
87 9 0.03
88 138 0.47
89 1 0.00
90 1 0.00
91 14 0.05
92 7 0.02
93 9 0.03
94 4 0.01
95 39 0.13
96 2 0.01
ACGTcount: A:0.23, C:0.33, G:0.13, T:0.31
Consensus pattern (82 bp):
CCTTTTAAGTCCACAACTCCGTGGCACTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGC
CCACAATTCCGTGGCAC
Found at i:257251 original size:149 final size:145
Alignment explanation
Indices: 256806--257414 Score: 668
Period size: 149 Copynumber: 4.2 Consensus size: 145
256796 TCTTTTTCCG
* * *
256806 TTTAAGTCCACAACTCCGTGGCA-CCTTTTAAGTCCACAACTCTGTGGTA-C-----CCTTTTAA
1 TTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCATCTTTTTCCTTTTAA
* * **
256864 GTCCACAACTCCATGGCATCTTTTTCCTTTTAAGTCCACAACCCCGTGGCATTCTTTTTCCTTTT
66 GTCCACAACTCCGTGGCA-CCTTTT-CTTTTAAGTCCACAACTTCGTGGCA--C-----CCTTTT
* *
256929 AAGTCCATCACTCCATGGCACCCT
122 AAGTCCATAACTCCGTGGCACCCT
*
256953 TTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAA
1 TTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCATCTTTTTCCTTTTAA
* * * * * *
257018 GTCCACAAC-CCTGTTGCATTCTTTTTCCTTTTAAGTTCATAACTCCATGGCACCCTTTTAAGTC
66 GTCCACAACTCC-GTGGCA--CCTTTT-CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTC
257082 CATAACTCCGTGGCACCCT
127 CATAACTCCGTGGCACCCT
* * * *
257101 TTTAAGTCCACAATTCCGTGGCACCCCTTTAAGCCCACAACTCAGTGGCACCATTTTTCCTTTTA
1 TTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCATC-TTTTTCCTTTTA
* *
257166 AGCCCACAACTCCGTGGCACCATTTTCTTTTTAAAGCCCACAACTTCGTGGCACCCTTTTAAGTC
65 AGTCCACAACTCCGTGGCACC-TTTTC-TTTT-AAGTCCACAACTTCGTGGCACCCTTTTAAGTC
*
257231 CATAACTCCGTGGCATCCT
127 CATAACTCCGTGGCACCCT
* *
257250 TTTAAGTCCATAACTCCGTGGCACCCTTTTAAGCCCACAGCTCCGTGGCATTCTTTTTCCTTTTA
1 TTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCA-TCTTTTTCCTTTTA
* * * *
257315 AATCCACAACTCCGTGGCACC----CTTTTAAGTCCACAAC-TCTGTTGTACCCTTTTCAGTCCA
65 AGTCCACAACTCCGTGGCACCTTTTCTTTTAAGTCCACAACTTC-GTGGCACCCTTTTAAGTCCA
* *
257375 CAACTTCGTGGCACCCT
129 TAACTCCGTGGCACCCT
*
257392 TTTAAGTCCATAACTCCGTGGCA
1 TTTAAGTCCACAACTCCGTGGCA
257415 TCTTTCTCCT
Statistics
Matches: 407, Mismatches: 39, Indels: 37
0.84 0.08 0.08
Matches are distributed among these distances:
141 2 0.00
142 64 0.16
143 4 0.01
144 1 0.00
147 25 0.06
148 107 0.26
149 148 0.36
150 3 0.01
153 3 0.01
154 21 0.05
155 29 0.07
ACGTcount: A:0.22, C:0.33, G:0.13, T:0.33
Consensus pattern (145 bp):
TTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCATCTTTTTCCTTTTAA
GTCCACAACTCCGTGGCACCTTTTCTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCATA
ACTCCGTGGCACCCT
Found at i:257340 original size:34 final size:34
Alignment explanation
Indices: 257274--257340 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
257264 TCCGTGGCAC
* * **
257274 CCTTTTAAGCCCACAGCTCCGTGGCATTCTTTTT
1 CCTTTTAAACCCACAACTCCGTGGCACCCTTTTT
*
257308 CCTTTTAAATCCACAACTCCGTGGCACCCTTTT
1 CCTTTTAAACCCACAACTCCGTGGCACCCTTTT
257341 AAGTCCACAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.18, C:0.34, G:0.12, T:0.36
Consensus pattern (34 bp):
CCTTTTAAACCCACAACTCCGTGGCACCCTTTTT
Found at i:257342 original size:115 final size:114
Alignment explanation
Indices: 256829--257497 Score: 466
Period size: 115 Copynumber: 5.6 Consensus size: 114
256819 CTCCGTGGCA
* * * *
256829 CCTTTTAAGTCCACAACTCTGTGGTACCCTTTTAAGTCCACAACTCCATGGCATCTTTTTCCTTT
1 CCTTTTAAATCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-C-----CCTTT
* * *
256894 TAAGTCCACAACCCCGTGGCATTCTTTTTCCTTTTAAGTCCATC-ACTCCATGGCA-C-----
60 TAAGTCCACAACTCCGTGGCA--C-----CCTTTTAAGCCCA-CAACTCCGTGGCATCTTTTT
*
256950 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTT
1 CCTTTTAAATCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-C-----CCTTT
* ** * *
257015 TAAGTCCACAAC-CCTGTTGCATTCTTTTTCCTTTTAAGTTCATAACTCCATGGCA-C-----
60 TAAGTCCACAACTCC-GTGGCA--C-----CCTTTTAAGCCCACAACTCCGTGGCATCTTTTT
* * * * *
257071 CCTTTTAAGTCCATAACTCCGTGGCACCCTTTTAAGTCCACAATTCCGTGGCACCCCTTTAAGCC
1 CCTTTTAAATCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
* * *
257136 CACAACTCAGTGGCACCATTTTTCCTTTTAAGCCCACAACTCCGTGGCACCATTTT
66 CACAACTCCGTGGCA-C------CCTTTTAAGCCCACAACTCCGTGGCATCTTTTT
* * * * *
257192 CTTTTTAAAGCCCACAACTTCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCATCCTTTTAAGT
1 CCTTTTAAA-TCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGT
* *
257257 CCATAACTCCGTGGCACCCTTTTAAGCCCACAGCTCCGTGGCATTCTTTTT
65 CCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCA-TCTTTTT
* * * *
257308 CCTTTTAAATCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTTGTACCCTTTTCAGTC
1 CCTTTTAAATCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
* * * *
257373 CACAACTTCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCATCTTTCT
66 CACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCATCTTTTT
* ** * * *
257422 CCTTTTAAATCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCGGTGGCACCCCTTTT
1 CCTTTTAAAT-CCACAACTCCGTGGCACCCTTTT---AAGTCCACAACTCCGTGGCA-CCCTTTT
*
257487 AAAGCCCACAA
61 -AAGTCCACAA
257498 GTCAATGGCA
Statistics
Matches: 473, Mismatches: 57, Indels: 37
0.83 0.10 0.07
Matches are distributed among these distances:
114 17 0.04
115 177 0.37
116 15 0.03
118 15 0.03
119 7 0.01
120 11 0.02
121 170 0.36
122 61 0.13
ACGTcount: A:0.22, C:0.33, G:0.13, T:0.32
Consensus pattern (114 bp):
CCTTTTAAATCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
CACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCATCTTTTT
Found at i:257467 original size:30 final size:29
Alignment explanation
Indices: 257432--257553 Score: 124
Period size: 29 Copynumber: 4.2 Consensus size: 29
257422 CCTTTTAAAT
*
257432 CCCACAAGTTAGTGGCACCCTTTTCAAAAG
1 CCCACAAGTCAGTGGCACCC-TTTCAAAAG
* *
257462 CCCACAAGTCGGTGGCACCCCTTT-TAAAG
1 CCCACAAGTCAGTGGCA-CCCTTTCAAAAG
* *
257491 CCCACAAGTCAATGGCAACC-TTCAAAAG
1 CCCACAAGTCAGTGGCACCCTTTCAAAAG
* **
257519 CACACAAGTTGGT-GCAACCCTTTCAAAAG
1 CCCACAAGTCAGTGGC-ACCCTTTCAAAAG
257548 CCCACA
1 CCCACA
257554 CAAGTTGGCG
Statistics
Matches: 75, Mismatches: 13, Indels: 9
0.77 0.13 0.09
Matches are distributed among these distances:
27 4 0.05
28 18 0.24
29 32 0.43
30 18 0.24
31 3 0.04
ACGTcount: A:0.32, C:0.33, G:0.16, T:0.19
Consensus pattern (29 bp):
CCCACAAGTCAGTGGCACCCTTTCAAAAG
Found at i:257645 original size:49 final size:49
Alignment explanation
Indices: 257570--258337 Score: 597
Period size: 49 Copynumber: 16.7 Consensus size: 49
257560 GGCGACGTCT
* *
257570 TCTTCTAAGTCCAATACCGCTAGCCTTGAATCAGCATATTGGCACCTTCA
1 TCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* *
257620 TCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGG------CA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
*
257663 ----TAAG-CCTAATATCGCTGGCCTTGAATCAGCATATTGACACCTTCA
1 TCTTTAAGTCC-AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * *
257708 TCTTCAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTTA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * * *
257757 TCTTTAAGACCAATGT-TCTGGCCTTGAATCAGCACATTGG------CA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
*
257799 -C---AAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCA-C--CA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
** * *
257841 TCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGG------CA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * * **
257884 -C---AAGCCCAATATCGCTGGCTTTGAATTAGCATATTGGCACCACCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * *
257929 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG------CA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * * * *
257972 ----TAAGCCCAATATCACTGGCCTTGAACCAACATATTGGCACCTT-G
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * *
258016 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG------CA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
*
258059 -C---AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* *
258104 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCGCCTTTGTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCA
* * * *
258156 TCTTTAAGTCTAATGTCGCTGGCCTTGAATCAGTACATTGGCACCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * * *
258205 TCTTTAACTCCAATATC-CTAGCCTTGAATCAGAATATTGGCGCCTTCGTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-T--TCA
* * * * * *
258256 TTTTTAAGACCAATGTCGCTGGCCTTAAATCAGCACATTGGCATCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* *
258305 GCTTTAAGTCCAATATCGTTGGCCTTGAATCAG
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
258338 TGTATTAGCA
Statistics
Matches: 573, Mismatches: 87, Indels: 117
0.74 0.11 0.15
Matches are distributed among these distances:
38 11 0.02
39 147 0.26
41 1 0.00
42 5 0.01
43 7 0.01
45 6 0.01
46 33 0.06
48 75 0.13
49 200 0.35
50 7 0.01
51 18 0.03
52 63 0.11
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (49 bp):
TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
Found at i:257685 original size:39 final size:39
Alignment explanation
Indices: 257623--258142 Score: 242
Period size: 39 Copynumber: 11.9 Consensus size: 39
257613 ACCTTCATCT
*
257623 TTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
1 TTAAG-CCAATATCGCTGGCCTTGAATCAGCATATTGGCA
*
257663 -TAAGCCTAATATCGCTGGCCTTGAATCAGCATATTGACACCTTCA
1 TTAAGCC-AATATCGCTGGCCTTGAATCAGCATATTG------GCA
*
257708 TCTTCAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTTA
1 --TT-AAG-CCAATATCGCTGGCCTTGAATCAGCATATTGG---C---A
* * *
257757 TCTTTAAGACCAATGT-TCTGGCCTTGAATCAGCACATTGGCA
1 ---TTAAG-CCAATATCGCTGGCCTTGAATCAGCATATTGGCA
* *
257799 -CAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCA
1 TTAAG-CCAATATCGCTGGCCTTGAATCAGCATATTGG---CA
* * *
257841 TCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 ---TT-AAGCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
* * *
257884 -CAAGCCCAATATCGCTGGCTTTGAATTAGCATATTGGCACCACCA
1 TTAAG-CCAATATCGCTGGCCTTGAATCAGCATATTGG------CA
* *
257929 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 ---TTAAG-CCAATATCGCTGGCCTTGAATCAGCATATTGGCA
* * *
257972 -TAAGCCCAATATCACTGGCCTTGAACCAACATATTGGCA
1 TTAAG-CCAATATCGCTGGCCTTGAATCAGCATATTGGCA
* *
258011 CCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 --------TTAAG-CCAATATCGCTGGCCTTGAATCAGCATATTGGCA
*
258059 -CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
1 TTAAG-CCAATATCGCTGGCCTTGAATCAGCATATTGG------CA
258104 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
1 ---TTAAG-CCAATATCGCTGGCCTTGAATCAGCATATT
258143 AGCGCCTTTG
Statistics
Matches: 370, Mismatches: 52, Indels: 107
0.70 0.10 0.20
Matches are distributed among these distances:
38 13 0.04
39 147 0.40
42 3 0.01
43 4 0.01
45 7 0.02
46 30 0.08
47 2 0.01
48 55 0.15
49 105 0.28
50 4 0.01
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.28
Consensus pattern (39 bp):
TTAAGCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
Found at i:257748 original size:88 final size:88
Alignment explanation
Indices: 257582--257750 Score: 275
Period size: 88 Copynumber: 1.9 Consensus size: 88
257572 TTCTAAGTCC
* *
257582 AATACCGCTAGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATATCGCTGGCCTTG
1 AATACCGCTAGCCTTGAATCAGCATATTGACACCTTCATCTTCAAGACCAATATCGCTGGCCTTG
*
257647 AATCAGCACATTGGCATAAGCCT
66 AATCAACACATTGGCATAAGCCT
* * *
257670 AATATCGCTGGCCTTGAATCAGCATATTGACACCTTCATCTTCAAGTCCAATATCGCTGGCCTTG
1 AATACCGCTAGCCTTGAATCAGCATATTGACACCTTCATCTTCAAGACCAATATCGCTGGCCTTG
*
257735 AATCAACATATTGGCA
66 AATCAACACATTGGCA
257751 CCTTTATCTT
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 74 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (88 bp):
AATACCGCTAGCCTTGAATCAGCATATTGACACCTTCATCTTCAAGACCAATATCGCTGGCCTTG
AATCAACACATTGGCATAAGCCT
Found at i:258059 original size:221 final size:215
Alignment explanation
Indices: 257580--258011 Score: 530
Period size: 221 Copynumber: 2.0 Consensus size: 215
257570 TCTTCTAAGT
* * *
257580 CCAATACCGCTAGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATATCGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA-C-TCATCTTTAAAACCAATATCGCTGGCCT
* * **
257645 TGAATCAGCACATTGGCATAAGCCTAATATCGCTGGCCTTGAATCAGCATATTGACACCTTCATC
64 TGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGACACCACCATC
* * * *
257710 TTCAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTTATCTTTAAGACCAATGTTC
129 TTCAAGACCAATATCGCTGGCCTTGAATCAACACATTGG--CC--TA---TTAAGACCAATATAC
* * *
257775 TGGCCTTGAATCAGCACATTGGCACAAGT
187 TGGCCTTGAACCAACACATTGGCACAAGA
* *
257804 CCAATATCGTTGGCCTTGAATCAGCATATTGGCAC-CATCTTTAAAACCAATGTCGCTGGCCTTG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACTCATCTTTAAAACCAATATCGCTGGCCTTG
* * *
257868 AATCAGCACATTGGCACAAGCCCAATATCGCTGGCTTTGAATTAGCATATTGGCACCACCATCTT
66 AATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGACACCACCATCTT
* * * *
257933 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG-C-A-TAAGCCCAATATCACTGGCCTTG
131 CAAGACCAATATCGCTGGCCTTGAATCAACACATTGGCCTATTAAGACCAATAT-ACTGGCCTTG
*
257995 AACCAACATATTGGCAC
195 AACCAACACATTGGCAC
258012 CTTGTCTTTA
Statistics
Matches: 184, Mismatches: 23, Indels: 14
0.83 0.10 0.06
Matches are distributed among these distances:
211 10 0.05
212 23 0.12
215 1 0.01
218 1 0.01
221 117 0.64
223 1 0.01
224 31 0.17
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (215 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACTCATCTTTAAAACCAATATCGCTGGCCTTG
AATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGACACCACCATCTT
CAAGACCAATATCGCTGGCCTTGAATCAACACATTGGCCTATTAAGACCAATATACTGGCCTTGA
ACCAACACATTGGCACAAGA
Found at i:258064 original size:87 final size:87
Alignment explanation
Indices: 257712--258138 Score: 653
Period size: 87 Copynumber: 4.9 Consensus size: 87
257702 CCTTCATCTT
* * *
257712 CAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTTATCTTTAAGACCAATGT-TCT
1 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTATCTTTAAGACCAATGTCGCT
257776 GGCCTTGAATCAGCACATTGGCA
65 GGCCTTGAATCAGCACATTGGCA
* * *
257799 CAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACC--ATCTTTAAAACCAATGTCGCTG
1 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTG
257862 GCCTTGAATCAGCACATTGGCA
66 GCCTTGAATCAGCACATTGGCA
* * **
257884 CAAGCCCAATATCGCTGGCTTTGAATTAGCATATTGGCACCACCATCTTTAAGACCAATGTCGCT
1 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTATCTTTAAGACCAATGTCGCT
257949 GGCCTTGAATCAGCACATTGGCA
65 GGCCTTGAATCAGCACATTGGCA
* * * * *
257972 TAAGCCCAATATCACTGGCCTTGAACCAACATATTGGCACCTTGTCTTTAAGACCAATGTCGCTG
1 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTG
258037 GCCTTGAATCAGCACATTGGCA
66 GCCTTGAATCAGCACATTGGCA
* *
258059 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-ATCTTTAAGACCAATGTCGCT
258124 GGCCTTGAATCAGCA
65 GGCCTTGAATCAGCA
258139 TATTAGCGCC
Statistics
Matches: 310, Mismatches: 25, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
84 16 0.05
85 62 0.20
87 121 0.39
88 111 0.36
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (87 bp):
CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTG
GCCTTGAATCAGCACATTGGCA
Found at i:258071 original size:175 final size:173
Alignment explanation
Indices: 257712--258138 Score: 667
Period size: 175 Copynumber: 2.5 Consensus size: 173
257702 CCTTCATCTT
* * * *
257712 CAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTTATCTTTAAGACCAATGT-TCT
1 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGCT
* ** * *
257776 GGCCTTGAATCAGCACATTGGCACAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCA
66 GGCCTTGAATCAGCACATTGGCACAAGCCCAATATCACTGGCCTTGAACCAACATATTGGCACCA
257841 TCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
131 TCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
* * **
257884 CAAGCCCAATATCGCTGGCTTTGAATTAGCATATTGGCACCACCATCTTTAAGACCAATGTCGCT
1 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGCT
*
257949 GGCCTTGAATCAGCACATTGGCATAAGCCCAATATCACTGGCCTTGAACCAACATATTGGCACCT
66 GGCCTTGAATCAGCACATTGGCACAAGCCCAATATCACTGGCCTTGAACCAACATATTGGCACC-
* *
258014 TGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
130 -ATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
* *
258059 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGCT
258124 GGCCTTGAATCAGCA
66 GGCCTTGAATCAGCA
258139 TATTAGCGCC
Statistics
Matches: 230, Mismatches: 22, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
172 54 0.23
173 60 0.26
175 116 0.50
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (173 bp):
CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGCT
GGCCTTGAATCAGCACATTGGCACAAGCCCAATATCACTGGCCTTGAACCAACATATTGGCACCA
TCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
Found at i:258278 original size:100 final size:101
Alignment explanation
Indices: 258064--258346 Score: 406
Period size: 100 Copynumber: 2.8 Consensus size: 101
258054 TGGCACAAGC
* *
258064 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCT
* * *
258129 TGAATCAGCATATTAGCGCCTTTGTCATCTTTAAGT
66 TGAATCAGAATATTAGCGCCTTCGTCATCTTTAAGA
* * * *
258165 CTAATGTCGCTGGCCTTGAATCAGTACATTGGCACCTTCATCTTTAACTCCAATATC-CTAGCCT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCT
* *
258229 TGAATCAGAATATTGGCGCCTTCGTCATTTTTAAGA
66 TGAATCAGAATATTAGCGCCTTCGTCATCTTTAAGA
* * * *
258265 CCAATGTCGCTGGCCTTAAATCAGCACATTGGCATCTTCAGCTTTAAGTCCAATATCGTTGGCCT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCT
**
258330 TGAATCAGTGTATTAGC
66 TGAATCAGAATATTAGC
258347 ATCTTTAACA
Statistics
Matches: 159, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
100 88 0.55
101 71 0.45
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.33
Consensus pattern (101 bp):
CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCT
TGAATCAGAATATTAGCGCCTTCGTCATCTTTAAGA
Found at i:258390 original size:101 final size:101
Alignment explanation
Indices: 258060--258436 Score: 420
Period size: 101 Copynumber: 3.8 Consensus size: 101
258050 ACATTGGCAC
* *
258060 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATCGCTG
1 AAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTG
*
258125 GCCTTGAATCAGCATATTAGCGCCTTTGTCA-TCTTT
66 GCCTTGAATCAGAATATTAGCGCCTTTGTCATTC-TT
* * * * *
258161 AAGTCTAATGTCGCTGGCCTTGAATCAGTACATTGGCACCTTCATCTTTAACTCCAATATC-CTA
1 AAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTG
* * *
258225 GCCTTGAATCAGAATATTGGCGCCTTCGTCATTTTT
66 GCCTTGAATCAGAATATTAGCGCCTTTGTCATTCTT
* * * * *
258261 AAGACCAATGTCGCTGGCCTTAAATCAGCACATTGGCATCTTCAGCTTTAAGTCCAATATCGTTG
1 AAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTG
** ** ** *
258326 GCCTTGAATCAGTGTATTAGCATCTTTAACATTCCT
66 GCCTTGAATCAGAATATTAGCGCCTTTGTCATTCTT
* ** * * ** * *
258362 AAGCCCAATGTCGTTGGCCTTGTCTCAGCACAGTGGCA--TTCTTCTGCAAGTCTAATGTCGCTG
1 AAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTG
*
258425 GCCATGAATCAG
66 GCCTTGAATCAG
258437 CACATTGTCA
Statistics
Matches: 230, Mismatches: 44, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
99 29 0.13
100 86 0.37
101 115 0.50
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.32
Consensus pattern (101 bp):
AAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTG
GCCTTGAATCAGAATATTAGCGCCTTTGTCATTCTT
Found at i:259249 original size:19 final size:21
Alignment explanation
Indices: 259201--259254 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
259191 TTTCAATAAT
259201 TTGTATCGATACAAACAGTAA
1 TTGTATCGATACAAACAGTAA
* * *
259222 TTATATCGATACATA-AGT-G
1 TTGTATCGATACAAACAGTAA
259241 TTGTATCGATACAA
1 TTGTATCGATACAA
259255 TGTATCGCTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 12 0.43
20 3 0.11
21 13 0.46
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (21 bp):
TTGTATCGATACAAACAGTAA
Found at i:259323 original size:13 final size:13
Alignment explanation
Indices: 259305--259332 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
259295 CATTACTCAA
259305 TGTATCGATACAT
1 TGTATCGATACAT
259318 TGTATCGATACAT
1 TGTATCGATACAT
259331 TG
1 TG
259333 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:259327 original size:33 final size:33
Alignment explanation
Indices: 259285--259350 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
259275 GCCAAGGAAA
259285 TGTATCGATACATT-ACTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCAATGTATCGATACAT
**
259318 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
259351 CTGGGAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:263922 original size:14 final size:15
Alignment explanation
Indices: 263903--263934 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
263893 TTTGAGTGCT
263903 TTTTTTTATTTA-TA
1 TTTTTTTATTTATTA
263917 TTTTTTTATTTATTA
1 TTTTTTTATTTATTA
263932 TTT
1 TTT
263935 ATATTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTTTTATTTATTA
Found at i:263934 original size:21 final size:22
Alignment explanation
Indices: 263908--263951 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
263898 GTGCTTTTTT
263908 TTATTTATATTTTT-TTATTTA
1 TTATTTATATTTTTATTATTTA
263929 TTATTTATATTTTTAATTATTTA
1 TTATTTATATTTTT-ATTATTTA
263952 AAATATTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 14 0.67
23 7 0.33
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (22 bp):
TTATTTATATTTTTATTATTTA
Found at i:263943 original size:19 final size:20
Alignment explanation
Indices: 263908--263949 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
263898 GTGCTTTTTT
*
263908 TTATTTATATTTTTTTATTTA
1 TTATTTATA-TTTTTTAATTA
263929 TTATTTATA-TTTTTAATTA
1 TTATTTATATTTTTTAATTA
263948 TT
1 TT
263950 TAAAATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 11 0.55
21 9 0.45
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (20 bp):
TTATTTATATTTTTTAATTA
Found at i:264219 original size:18 final size:18
Alignment explanation
Indices: 264171--264224 Score: 76
Period size: 18 Copynumber: 3.0 Consensus size: 18
264161 GAAAGAAGCA
264171 AAAGAAAGAAAAGAAAA-
1 AAAGAAAGAAAAGAAAAT
264188 AAAGAAAGAAAAAGAAAAT
1 AAAGAAAG-AAAAGAAAAT
264207 AAATGAAAG-AAAGAAAAT
1 AAA-GAAAGAAAAGAAAAT
264225 TTATGTGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
17 8 0.24
18 18 0.53
19 3 0.09
20 5 0.15
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.06
Consensus pattern (18 bp):
AAAGAAAGAAAAGAAAAT
Found at i:264219 original size:24 final size:23
Alignment explanation
Indices: 264175--264223 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
264165 GAAGCAAAAG
264175 AAAGAAAAGAAAAAAAGAAAGAA
1 AAAGAAAAGAAAAAAAGAAAGAA
* *
264198 AAAGAAAATAAATGAAAGAAAGAA
1 AAAGAAAAGAAA-AAAAGAAAGAA
264222 AA
1 AA
264224 TTTATGTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (23 bp):
AAAGAAAAGAAAAAAAGAAAGAA
Found at i:264271 original size:22 final size:23
Alignment explanation
Indices: 264233--264281 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
264223 ATTTATGTGT
* *
264233 TTATTTTTTGTTTATATTTTTTA
1 TTATTTATTGTTTATATTTCTTA
264256 TTATTTATT-TTTATATTTCTTA
1 TTATTTATTGTTTATATTTCTTA
264278 TTAT
1 TTAT
264282 GTAAAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (23 bp):
TTATTTATTGTTTATATTTCTTA
Found at i:264440 original size:342 final size:337
Alignment explanation
Indices: 263848--264773 Score: 1199
Period size: 343 Copynumber: 2.7 Consensus size: 337
263838 AATGAGGGGA
* * * * *
263848 AAAAAGGAAAAAA-AAAGAAAAAGCAAAGAAAGGTGAGAAAGAAAATTTGAGTGCTT-TTTTTTA
1 AAAAAGAAAAAAAGAAAGAAAAAG-AAAAAAATGAGAGAAAGAAAATTT-AGTGTTTATTTTTTA
263911 TTTATA-TTTTT-TTATTTATTATTTATATTTTTAATTATTTAAAATATTATAAATTTA-T-ATA
64 TTTATATTTTTTATTATTTATTATTTATATTTTT-ATTATTTAAAATATTATAAATTTATTAATA
*
263972 ---AT--AT-TTTTTTATGTTTTTATATTCATGTCATATTTATTGTTTTGTATTTTATTTTAATT
128 TTTATAAATATTTTTTATATTTTTATATTCATGTCATATTTATT-TTTTGTATTTTATTTTAATT
* * * * * *
264031 AATTTTTAATATATACATATCATTTTTTATATATTTAAGGTATT-AAAATTTATATAAAATTAAC
192 AAATTTTAATGTATACATGTTATTTTTTATATATTTAAAGTATTAAAAATTTATATAAAATCAAC
* *
264095 TACACTTTTAAATTTGGTGTTGACCCATGTCATATTTTTAAGTGTTTTTTTTTTACAAGGGAGAG
257 TACACTTTTAAATTTAGTGTTGACACATGTCATATTTTTAA--G-TTTTTTTTTACAAGGGAGAG
264160 AGAAAGAAGCAAAAGAAAG
319 AGAAAGAAGCAAAAGAAAG
* *
264179 -AAAAGAAAAAAAGAAAGAAAAAGAAAATAAATGAAAGAAAGAAAATTTATGTGTTTATTTTTTG
1 AAAAAGAAAAAAAGAAAGAAAAAGAAAA-AAATGAGAGAAAGAAAATTTA-GTGTTTATTTTTTA
* *
264243 TTTATATTTTTTATTATTTATT-TTTATATTTCTTATTATGTAAAATATTACAAATTTATGTAAT
64 TTTATATTTTTTATTATTTATTATTTATATTT-TTATTATTTAAAATATTATAAATTTAT-TAAT
* * *
264307 ATTTATAAATATTTTTTATATTTTTATATTAATGTCATATTTATTTTTTATATTTTGTTTTAATT
127 ATTTATAAATATTTTTTATATTTTTATATTCATGTCATATTTATTTTTTGTATTTTATTTTAATT
*
264372 AAATTTTAATGT-TAACATGTTATTTTTTATATATTTAAAATATTAAAAATTTATATAAAATCAA
192 AAATTTTAATGTAT-ACATGTTATTTTTTATATATTTAAAGTATTAAAAATTTATATAAAATCAA
** **
264436 CTACACTTTTAAATTTAGTGTTGACATGTGTCATATTTTTAAGTTTTTTTTTAGTAGGGAGAGAG
256 CTACACTTTTAAATTTAGTGTTGACACATGTCATATTTTTAAGTTTTTTTTTACAAGGGAGAGAG
*
264501 AAAGAAGGAAAAGAAAG
321 AAAGAAGCAAAAGAAAG
* * *
264518 AAAAAAAAAGGAAAAATAGAAAGAAAAAGAAAAAAATGAGAGAAA-AAAATTCACATGTTTATTT
1 ----AAAAA-GAAAAAAAGAAAGAAAAAGAAAAAAATGAGAGAAAGAAAATTTA-GTGTTTATTT
* * *
264582 TTTATTTATATTGTTTATTATTTATTGTTCATATTTTTTATTATTTAAAATATTATAAATTTATA
60 TTTATTTATATTTTTTATTATTTATTATTTATA-TTTTTATTATTTAAAATATTATAAATTTAT-
264647 TAATATTTATAAATATTTTTT-TATTCTTTTATATTCATGTCATATTTA-TTTTTGTATTTTATT
123 TAATATTTATAAATATTTTTTATA-T-TTTTATATTCATGTCATATTTATTTTTTGTATTTTATT
* *
264710 TTAATT-AATTTTAATGTATACATGTTATTTTTCATATATTTAAAGTATTAAAAACTTATATAAA
186 TTAATTAAATTTTAATGTATACATGTTATTTTTTATATATTTAAAGTATTAAAAATTTATATAAA
264774 TTTTACACAT
Statistics
Matches: 522, Mismatches: 44, Indels: 46
0.85 0.07 0.08
Matches are distributed among these distances:
330 15 0.03
331 32 0.06
332 12 0.02
333 36 0.07
334 11 0.02
335 1 0.00
336 3 0.01
339 38 0.07
340 2 0.00
341 56 0.11
342 88 0.17
343 95 0.18
344 87 0.17
345 46 0.09
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (337 bp):
AAAAAGAAAAAAAGAAAGAAAAAGAAAAAAATGAGAGAAAGAAAATTTAGTGTTTATTTTTTATT
TATATTTTTTATTATTTATTATTTATATTTTTATTATTTAAAATATTATAAATTTATTAATATTT
ATAAATATTTTTTATATTTTTATATTCATGTCATATTTATTTTTTGTATTTTATTTTAATTAAAT
TTTAATGTATACATGTTATTTTTTATATATTTAAAGTATTAAAAATTTATATAAAATCAACTACA
CTTTTAAATTTAGTGTTGACACATGTCATATTTTTAAGTTTTTTTTTACAAGGGAGAGAGAAAGA
AGCAAAAGAAAG
Found at i:264544 original size:19 final size:19
Alignment explanation
Indices: 264499--264564 Score: 71
Period size: 19 Copynumber: 3.4 Consensus size: 19
264489 GTAGGGAGAG
264499 AGAAAGAAGGAAAAGAAAGAA
1 AGAAA-AAGGAAAA-AAAGAA
* *
264520 AAAAAAAGGAAAAATAGAA
1 AGAAAAAGGAAAAAAAGAA
*
264539 AGAAAAA-GAAAAAAATGAG
1 AGAAAAAGGAAAAAAA-GAA
264558 AGAAAAA
1 AGAAAAA
264565 AATTCACATG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
18 7 0.18
19 20 0.51
20 8 0.21
21 4 0.10
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (19 bp):
AGAAAAAGGAAAAAAAGAA
Found at i:264615 original size:23 final size:20
Alignment explanation
Indices: 264573--264628 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 20
264563 AAAATTCACA
*
264573 TGTTTATTTTTTATTTATAT
1 TGTTTATTATTTATTTATAT
264593 TGTTTATTATTTATTGTTCATAT
1 TGTTTATTATTTA-T-TT-ATAT
*
264616 TTTTTATTATTTA
1 TGTTTATTATTTA
264629 AAATATTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 12 0.39
21 1 0.03
22 2 0.06
23 16 0.52
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.71
Consensus pattern (20 bp):
TGTTTATTATTTATTTATAT
Found at i:264749 original size:343 final size:339
Alignment explanation
Indices: 263846--264773 Score: 1207
Period size: 342 Copynumber: 2.7 Consensus size: 339
263836 AAAATGAGGG
* * * * *
263846 GAAAAAAGGAAAAAA-AAAGAAAAAGCAAAGAAAGGTGAGAAAGAAAATTTGAGTGCTT-TTTTT
1 GAAAAAAGGAAAAAAGAAAGAAAAAG-AAAAAAATGAGAGAAAGAAAA-TTCAGTGTTTATTTTT
*
263909 TATTTATATTTTT-TTATTTATTATTTATATTTTTAATTATTTAAAATATTAT-AA---ATT--T
64 TATTTATATTTTTATTATTTATT-TTTATATTTTTTATTATTTAAAATATTATAAATTTATTAAT
*
263967 A--TAT-AATATTTTTTTATGTTTTTATATTCATGTCATATTTATTGTTTTGTATTTTATTTTAA
128 ATTTATAAATATTTTTTTATATTTTTATATTCATGTCATATTTATT-TTTTGTATTTTATTTTAA
* * * * *
264029 TTAATTTTTAATATATACATATCATTTTTTATATATTTAAGGTATT-AAAATTTATATAAAATTA
192 TTAA-TTTTAATGTATACATGTTATTTTTTATATATTTAAAGTATTAAAAATTTATATAAAATCA
* *
264093 ACTACACTTTTAAATTTGGTGTTGACCCATGTCATATTTTTAAGTGTTTTTTTTTTACAAGGGAG
256 ACTACACTTTTAAATTTAGTGTTGACACATGTCATATTTTTAAG-GTTTTTTTTTTACAAGGGAG
264158 AGAGAAAGAAGCAAAAGAAA
320 AGAGAAAGAAGCAAAAGAAA
* * *
264178 G--AAAAGAAAAAAAGAAAGAAAAAGAAAATAAATGAAAGAAAGAAAATTTATGTGTTTATTTTT
1 GAAAAAAGGAAAAAAGAAAGAAAAAGAAAA-AAATGAGAGAAAGAAAATTCA-GTGTTTATTTTT
* * * *
264241 TGTTTATATTTTTTATTATTTATTTTTATATTTCTTATTATGTAAAATATTACAAATTTATGTAA
64 TATTTATA-TTTTTATTATTTATTTTTATATTTTTTATTATTTAAAATATTATAAATTTAT-TAA
* * *
264306 TATTTATAAATA-TTTTTTATATTTTTATATTAATGTCATATTTATTTTTTATATTTTGTTTTAA
127 TATTTATAAATATTTTTTTATATTTTTATATTCATGTCATATTTATTTTTTGTATTTTATTTTAA
*
264370 TTAAATTTTAATGT-TAACATGTTATTTTTTATATATTTAAAATATTAAAAATTTATATAAAATC
192 TT-AATTTTAATGTAT-ACATGTTATTTTTTATATATTTAAAGTATTAAAAATTTATATAAAATC
** **
264434 AACTACACTTTTAAATTTAGTGTTGACATGTGTCATATTTTTAA-G-TTTTTTTTTAGTAGGGAG
255 AACTACACTTTTAAATTTAGTGTTGACACATGTCATATTTTTAAGGTTTTTTTTTTACAAGGGAG
*
264497 AGAGAAAGAAGGAAAAGAAA
320 AGAGAAAGAAGCAAAAGAAA
*
264517 GAAAAAAAAAGGAAAAATAGAAAGAAAAAGAAAAAAATGAGAGAAA-AAAATTCACATGTTTATT
1 G---AAAAAAGGAAAAA-AGAAAGAAAAAGAAAAAAATGAGAGAAAGAAAATTCA-GTGTTTATT
*
264581 TTTTATTTATATTGTTTATTATTTATTGTTCATATTTTTTATTATTTAAAATATTATAAATTTAT
61 TTTTATTTATATT-TTTATTATTTATT-TTTATATTTTTTATTATTTAAAATATTATAAATTTAT
264646 ATAATATTTATAAATATTTTTTTAT-TCTTTTATATTCATGTCATATTTA-TTTTTGTATTTTAT
124 -TAATATTTATAAATATTTTTTTATAT-TTTTATATTCATGTCATATTTATTTTTTGTATTTTAT
* *
264709 TTTAATTAATTTTAATGTATACATGTTATTTTTCATATATTTAAAGTATTAAAAACTTATATAAA
187 TTTAATTAATTTTAATGTATACATGTTATTTTTTATATATTTAAAGTATTAAAAATTTATATAAA
264774 TTTTACACAT
Statistics
Matches: 520, Mismatches: 46, Indels: 49
0.85 0.07 0.08
Matches are distributed among these distances:
330 17 0.03
331 29 0.06
332 13 0.03
333 30 0.06
334 11 0.02
337 2 0.00
338 1 0.00
339 36 0.07
340 4 0.01
341 52 0.10
342 95 0.18
343 95 0.18
344 90 0.17
345 45 0.09
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (339 bp):
GAAAAAAGGAAAAAAGAAAGAAAAAGAAAAAAATGAGAGAAAGAAAATTCAGTGTTTATTTTTTA
TTTATATTTTTATTATTTATTTTTATATTTTTTATTATTTAAAATATTATAAATTTATTAATATT
TATAAATATTTTTTTATATTTTTATATTCATGTCATATTTATTTTTTGTATTTTATTTTAATTAA
TTTTAATGTATACATGTTATTTTTTATATATTTAAAGTATTAAAAATTTATATAAAATCAACTAC
ACTTTTAAATTTAGTGTTGACACATGTCATATTTTTAAGGTTTTTTTTTTACAAGGGAGAGAGAA
AGAAGCAAAAGAAA
Found at i:264799 original size:30 final size:32
Alignment explanation
Indices: 264765--264824 Score: 88
Period size: 30 Copynumber: 1.9 Consensus size: 32
264755 TATTAAAAAC
264765 TTATATAAATTTT-ACACATTAAT-TATTCCT
1 TTATATAAATTTTGACACATTAATATATTCCT
* *
264795 TTATATATATTTTGACACATTCATATATTC
1 TTATATAAATTTTGACACATTAATATATTC
264825 GTATCATGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 12 0.46
31 9 0.35
32 5 0.19
ACGTcount: A:0.35, C:0.13, G:0.02, T:0.50
Consensus pattern (32 bp):
TTATATAAATTTTGACACATTAATATATTCCT
Found at i:265678 original size:22 final size:21
Alignment explanation
Indices: 265637--265688 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
265627 AAATAATAAT
265637 TATTTAATATAATTTAATTTA
1 TATTTAATATAATTTAATTTA
265658 TATTT-ATATAATTATTAATTTA
1 TATTTAATATAA-T-TTAATTTA
*
265680 -ATTAAATAT
1 TATTTAATAT
265689 TTATAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 6 0.22
21 9 0.33
22 12 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TATTTAATATAATTTAATTTA
Found at i:265700 original size:26 final size:26
Alignment explanation
Indices: 265630--265701 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 26
265620 TTTTAAAAAA
* *
265630 TAATAATTATTTAATA-TAATTTAAT
1 TAATATTTATATAATATTAATTTAAT
*
265655 TTATATTTATATAATTATTAATTTAAT
1 TAATATTTATATAA-TATTAATTTAAT
265682 TAAATATTTATA-AATATTAA
1 T-AATATTTATATAATATTAA
265702 AAATCTCCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
25 11 0.28
26 8 0.20
27 12 0.30
28 9 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
TAATATTTATATAATATTAATTTAAT
Found at i:266201 original size:19 final size:19
Alignment explanation
Indices: 266177--266223 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
266167 ATTAGTTAAA
**
266177 TATTTTTTTAATTTTGTTT
1 TATTTTTTTAATTTTGCAT
**
266196 TATTTTTTTTGTTTTGCAT
1 TATTTTTTTAATTTTGCAT
266215 TATTTTTTT
1 TATTTTTTT
266224 GTTAAGCTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.13, C:0.02, G:0.06, T:0.79
Consensus pattern (19 bp):
TATTTTTTTAATTTTGCAT
Found at i:268776 original size:17 final size:16
Alignment explanation
Indices: 268722--268787 Score: 62
Period size: 17 Copynumber: 3.9 Consensus size: 16
268712 ATTTTTAATG
268722 ATAAAAATACATATT-
1 ATAAAAATACATATTA
* *
268737 ATACAAATGACACTAATA
1 ATAAAAAT-ACA-TATTA
268755 ATAAAAATACATATTAA
1 ATAAAAATACATATT-A
268772 ATAAATCAATACATAT
1 ATAAA--AATACATAT
268788 AAAATTCTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
15 7 0.17
16 6 0.15
17 12 0.29
18 7 0.17
19 9 0.22
ACGTcount: A:0.59, C:0.11, G:0.02, T:0.29
Consensus pattern (16 bp):
ATAAAAATACATATTA
Found at i:270142 original size:79 final size:79
Alignment explanation
Indices: 269936--270153 Score: 253
Period size: 79 Copynumber: 2.8 Consensus size: 79
269926 ACAACGAGGC
* * * *
269936 TGGAGTAT-CCCGATTATGAAAAATCGATGTTCTGAAAATAAAACCGAGGTTGGAGTATCCCCTC
1 TGGAGTATCCCCGATTATGAGAAATCGATATTTTGAAAATAAAACCGGGGTTGGAGTATCCCCTC
270000 GAAAATAACAGAAT
66 GAAAATAACAGAAT
* * * *
270014 TGGAGTATCCCTGATTAT-AGAAAATCGGTATTTTGAAAATAAAATCGGGGTCGGAGTATCCCCT
1 TGGAGTATCCCCGATTATGAG-AAATCGATATTTTGAAAATAAAACCGGGGTTGGAGTATCCCCT
** **
270078 CGAAAATAATGGGGT
65 CGAAAATAACAGAAT
* ** *
270093 TGGAGTATCCCCGATTATGAGAAATCAATATTTT-AGAAATAAGGCCGGGGTTGAAGTATCC
1 TGGAGTATCCCCGATTATGAGAAATCGATATTTTGA-AAATAAAACCGGGGTTGGAGTATCC
270154 TCGATTGTGA
Statistics
Matches: 116, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
78 10 0.09
79 104 0.90
80 2 0.02
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (79 bp):
TGGAGTATCCCCGATTATGAGAAATCGATATTTTGAAAATAAAACCGGGGTTGGAGTATCCCCTC
GAAAATAACAGAAT
Found at i:270159 original size:51 final size:51
Alignment explanation
Indices: 270088--270206 Score: 184
Period size: 51 Copynumber: 2.3 Consensus size: 51
270078 CGAAAATAAT
*
270088 GGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAGGCC
1 GGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGCC
* * * *
270139 GGGGTTGAAGTATCCTCGATTGTGAGAAATCAATATTTTGGAAATAAAGCC
1 GGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGCC
*
270190 AGGGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
270207 TCAAAAATAA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGCC
Found at i:270232 original size:158 final size:159
Alignment explanation
Indices: 270059--270707 Score: 737
Period size: 158 Copynumber: 4.1 Consensus size: 159
270049 AAAATAAAAT
* * * *
270059 CGGGGTCGGAGTATCCCCTCGA-AAATAATGGGGTTGGAGTATCCCCGATTATGAGAAATCAATA
1 CGGGGTTGGAGTATCCCCTCGAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATA
* *** * * *** * *
270123 TTTTAGAAATAAGGCCGGGGTT-GAAGTATCCTCGATTGT-GAGAAATCAATATTTTGGAAATAA
66 TTTTGGAAATAAAATCGGAGTTAG-AGTATCCCCGATTGTGGAG-AATTGGTGTTTTAGAAATAA
*
270186 AGCCAGGGTTGGAGTATCCCCTCAAAAATAA
129 AACCAGGGTTGGAGTATCCCCTCAAAAATAA
* * * * *
270217 CGGAGTTGGAGTAT--CCTCGATGAAATAACGGGATTAGAGTATCCCTGATTATGAAAAATTGAT
1 CGGGGTTGGAGTATCCCCTCGA-GAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAAT
*
270280 ATTTTGGAAATAAAATCGGAATTAGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAA
65 ATTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAA
**
270345 ACCAGGGTTGGAGTATCCCCTTGAAAATAA
130 ACCAGGGTTGGAGTATCCCCTCAAAAATAA
* * * **
270375 CGGGG-TGGAGTAT-TCC-CGATGAAATAACGAGGTTGGAGTATCCCCGATTGT-AAAAATTTGG
1 CGGGGTTGGAGTATCCCCTCGA-GAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAA-TTAA
* * * *
270436 TGTTTTGGAAATAAAATCAGAGTTAGAGTATCTCCGATTGTGGAGAATTGGTGTTTTAGAAATAG
64 TATTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAA
* *
270501 AATCGGGGTTGGAGTATCCCCTCAAAAATAA
129 AACCAGGGTTGGAGTATCCCCTCAAAAATAA
* * * *
270532 CGGGGTTGGAGTAT-CCC-CAATGAAATAACGGGGTTGGAGTATCCTCGATTGTGAAAAATTAGT
1 CGGGGTTGGAGTATCCCCTCGA-GAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAAT
* * *
270595 GTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATGGAGAATTGGTGTTTTAGAAATAAA
65 ATTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAA
* **
270660 ACC-GAGGTTAGAGTATCCCCTCGGAAATAA
130 ACCAG-GGTTGGAGTATCCCCTCAAAAATAA
*
270690 CGGGGTTAGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
270708 AATTATGAAA
Statistics
Matches: 426, Mismatches: 55, Indels: 19
0.85 0.11 0.04
Matches are distributed among these distances:
156 11 0.03
157 134 0.31
158 269 0.63
159 12 0.03
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (159 bp):
CGGGGTTGGAGTATCCCCTCGAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATA
TTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAA
CCAGGGTTGGAGTATCCCCTCAAAAATAA
Found at i:270308 original size:51 final size:51
Alignment explanation
Indices: 270249--270345 Score: 131
Period size: 51 Copynumber: 1.9 Consensus size: 51
270239 AAATAACGGG
* *
270249 ATTAGAGTATCCCTGATTATGAAAAATTGATATTTTGGAAATAAAATCGGA
1 ATTAGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAATCGGA
* * * * *
270300 ATTAGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAA
1 ATTAGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAA
270346 CCAGGGTTGG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 39 1.00
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (51 bp):
ATTAGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAATCGGA
Found at i:270359 original size:51 final size:51
Alignment explanation
Indices: 270304--270679 Score: 160
Period size: 51 Copynumber: 7.2 Consensus size: 51
270294 ATCGGAATTA
270304 GAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCAGGGTTG
1 GAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCAGGGTTG
*** * * * * *
270355 GAGTATCCCC--TTGAAAATAACGGGGTGGAGTATTCCCGATGAAAT--AACGA-GGTTG
1 GAGTATCCCCGATTGTGGAGAA----TTGGTGT-TT---TA-GAAATAAAACCAGGGTTG
* * * * * *
270410 GAGTATCCCCGATTGT-AAAAATTTGGTGTTTTGGAAATAAAATCAGAGTTA
1 GAGTATCCCCGATTGTGGAGAA-TTGGTGTTTTAGAAATAAAACCAGGGTTG
* * * *
270461 GAGTATCTCCGATTGTGGAGAATTGGTGTTTTAGAAATAGAATCGGGGTTG
1 GAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCAGGGTTG
* *** * * * **** * *
270512 GAGTATCCCCTCAAAAATAACGG-G-GTTGGAGTATCCCCAATGAAATAACGGGGTTG
1 GAGTAT-CCC-C---GATTGTGGAGAATTGGTGTTTTAGAAAT-AAA-ACCAGGGTTG
* * * * * *
270568 GAGTATCCTCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATC-GGAGTTG
1 GAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCAGG-GTTG
* *
270619 GAGTATCCCCGATTATGGAGAATTGGTGTTTTAGAAATAAAACC-GAGGTTA
1 GAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCAG-GGTTG
270670 GAGTATCCCC
1 GAGTATCCCC
270680 TCGGAAATAA
Statistics
Matches: 234, Mismatches: 65, Indels: 52
0.67 0.19 0.15
Matches are distributed among these distances:
48 5 0.02
49 6 0.03
50 5 0.02
51 118 0.50
52 11 0.05
53 20 0.09
54 13 0.06
55 20 0.09
56 27 0.12
57 4 0.02
58 5 0.02
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (51 bp):
GAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCAGGGTTG
Found at i:270420 original size:28 final size:28
Alignment explanation
Indices: 270349--270422 Score: 98
Period size: 27 Copynumber: 2.7 Consensus size: 28
270339 AATAAAACCA
*
270349 GGGTTGGAGTATCCCC-TTGAAAATAAC
1 GGGTTGGAGTATCCCCGATGAAAATAAC
* *
270376 GGGGTGGAGTATTCCCGATG-AAATAAC
1 GGGTTGGAGTATCCCCGATGAAAATAAC
270403 GAGGTTGGAGTATCCCCGAT
1 G-GGTTGGAGTATCCCCGAT
270423 TGTAAAAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
27 22 0.55
28 18 0.45
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCGATGAAAATAAC
Found at i:270536 original size:28 final size:28
Alignment explanation
Indices: 270504--270575 Score: 112
Period size: 28 Copynumber: 2.6 Consensus size: 28
270494 GAAATAGAAT
270504 CGGGGTTGGAGTATCCCCTCAA-AAATAA
1 CGGGGTTGGAGTATCCCC-CAAGAAATAA
270532 CGGGGTTGGAGTAT-CCCCAATGAAATAA
1 CGGGGTTGGAGTATCCCCCAA-GAAATAA
270560 CGGGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
270576 TCGATTGTGA
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
26 3 0.07
27 3 0.07
28 34 0.83
29 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCCAAGAAATAA
Found at i:270708 original size:158 final size:156
Alignment explanation
Indices: 270174--270710 Score: 747
Period size: 158 Copynumber: 3.4 Consensus size: 156
270164 GAAATCAATA
* * * * *
270174 TTTTGGAAATAAAGCCAGGGTTGGAGTATCCCCTCAAAAATAACGGAGTTGGAGTATCCTCGATG
1 TTTTAGAAATAAAACCAGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCAATG
* * * * *
270239 AAATAACGGGATTAGAGTATCCCTGATTATGAAAAATTGATATTTTGGAAATAAAATCGGAATTA
66 AAATAACGGGGTTGGAGTATCCC-GATTGTGAAAAATTG-TGTTTTGGAAATAAAATCGGAGTTA
270304 GAGTATCCCCGATTGTGGAGAATTGGTG
129 GAGTATCCCCGATTGTGGAGAATTGGTG
** * *
270332 TTTTAGAAATAAAACCAGGGTTGGAGTATCCCCTTGAAAATAACGGGG-TGGAGTATTCCCGATG
1 TTTTAGAAATAAAACCAGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCAATG
* *
270396 AAATAACGAGGTTGGAGTATCCCCGATTGT-AAAAATTTGGTGTTTTGGAAATAAAATCAGAGTT
66 AAATAACGGGGTTGGAGTAT-CCCGATTGTGAAAAA-TT-GTGTTTTGGAAATAAAATCGGAGTT
*
270460 AGAGTATCTCCGATTGTGGAGAATTGGTG
128 AGAGTATCCCCGATTGTGGAGAATTGGTG
* * *
270489 TTTTAGAAATAGAATCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCAATG
1 TTTTAGAAATAAAACCAGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCAATG
*
270554 AAATAACGGGGTTGGAGTATCCTCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCGGAGTTG
66 AAATAACGGGGTTGGAGTATCC-CGATTGTGAAAAATT-GTGTTTTGGAAATAAAATCGGAGTTA
*
270619 GAGTATCCCCGATTATGGAGAATTGGTG
129 GAGTATCCCCGATTGTGGAGAATTGGTG
* ** *
270647 TTTTAGAAATAAAACC-GAGGTTAGAGTATCCCCTCGGAAATAACGGGGTTAGAGTATCCCCAAT
1 TTTTAGAAATAAAACCAG-GGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCAAT
270711 TATGAAAAAT
Statistics
Matches: 338, Mismatches: 34, Indels: 14
0.88 0.09 0.04
Matches are distributed among these distances:
156 5 0.01
157 133 0.39
158 195 0.58
159 5 0.01
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (156 bp):
TTTTAGAAATAAAACCAGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCAATG
AAATAACGGGGTTGGAGTATCCCGATTGTGAAAAATTGTGTTTTGGAAATAAAATCGGAGTTAGA
GTATCCCCGATTGTGGAGAATTGGTG
Found at i:270756 original size:51 final size:51
Alignment explanation
Indices: 270698--270806 Score: 146
Period size: 51 Copynumber: 2.1 Consensus size: 51
270688 AACGGGGTTA
*
270698 GAGTATCCCCAATTATGAAAAATTGATGTTTTAGAAATAAAATTGAAGTTG
1 GAGTATCCCCAATTATGAAAAATTGATGTTTTAGAAATAAAATCGAAGTTG
* * * * * **
270749 GAGTATCCCCGATTTTGGAGAATTGGTGTTTTAGAAATAAAATCGGGGTTG
1 GAGTATCCCCAATTATGAAAAATTGATGTTTTAGAAATAAAATCGAAGTTG
270800 GAGTATC
1 GAGTATC
270807 TCCTCGGAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.34, C:0.09, G:0.24, T:0.33
Consensus pattern (51 bp):
GAGTATCCCCAATTATGAAAAATTGATGTTTTAGAAATAAAATCGAAGTTG
Found at i:270773 original size:130 final size:130
Alignment explanation
Indices: 270535--270888 Score: 523
Period size: 130 Copynumber: 2.7 Consensus size: 130
270525 AAAATAACGG
*** * * *
270535 GGTTGGAGTATCCCCAATGAAATAACGGGGTTGGAGTATCCTCGATTGTGAAAAATT-AGTGTTT
1 GGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATTGA-TGTTT
* *
270599 TGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATGGAGAATTGGTGTTTTAGAAATAAAACCG
65 TAGAAATAAAATCGAAGTTGGAGTATCCCCGATTATGGAGAATTGGTGTTTTAGAAATAAAACCG
270664 A
130 A
* *
270665 GGTTAGAGTATCCCCTCGGAAATAACGGGGTTAGAGTATCCCCAATTATGAAAAATTGATGTTTT
1 GGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATTGATGTTTT
* * * *
270730 AGAAATAAAATTGAAGTTGGAGTATCCCCGATTTTGGAGAATTGGTGTTTTAGAAATAAAATCGG
66 AGAAATAAAATCGAAGTTGGAGTATCCCCGATTATGGAGAATTGGTGTTTTAGAAATAAAACCGA
* *
270795 GGTTGGAGTATCTCCTCGGAAATAACGGGATTGGAGTAT-CCCAGATTATGAAAAATTGATGTTT
1 GGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCA-ATTATGAAAAATTGATGTTT
*
270859 TAGAAATAAAATCGAGGTTGGAGTATCCCC
65 TAGAAATAAAATCGAAGTTGGAGTATCCCC
270889 TCGGAAATAA
Statistics
Matches: 202, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
129 4 0.02
130 197 0.98
131 1 0.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (130 bp):
GGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATTGATGTTTT
AGAAATAAAATCGAAGTTGGAGTATCCCCGATTATGGAGAATTGGTGTTTTAGAAATAAAACCGA
Found at i:270830 original size:79 final size:79
Alignment explanation
Indices: 270745--270998 Score: 339
Period size: 79 Copynumber: 3.2 Consensus size: 79
270735 TAAAATTGAA
* * * * *
270745 GTTGGAGTATCCCCGATTTTGGAGAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCTCC
1 GTTGGAGTATCCCCGATTATGGAAAATTGATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCC
270810 TCGGAAATAACGGG
66 TCGGAAATAACGGG
* * *
270824 ATTGGAGTATCCCAGATTATGAAAAATTGATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGGAAAATTGATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCC
270889 TCGGAAATAACGGG
66 TCGGAAATAACGGG
* ** * *
270903 GTTGGAGTATCCCCGATTAT-GAAAATTTGATATTTTAGAAATAAAGCCAAGGTTGGAATATCCC
1 GTTGGAGTATCCCCGATTATGGAAAA-TTGATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCC
* * *
270967 CTGGGGAATAATGGG
65 CTCGGAAATAACGGG
*
270982 GTTGGAGTATCCTCGAT
1 GTTGGAGTATCCCCGAT
270999 GAAATAACGG
Statistics
Matches: 154, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
78 4 0.03
79 150 0.97
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.30
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATTATGGAAAATTGATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCC
TCGGAAATAACGGG
Found at i:271004 original size:28 final size:28
Alignment explanation
Indices: 270973--271026 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
270963 TCCCCTGGGG
* * *
270973 AATAATGGGGTTGGAGTATCCTCGATGA
1 AATAACGGGGTTAGAGTATCCCCGATGA
*
271001 AATAACGGGTTTAGAGTATCCCCGAT
1 AATAACGGGGTTAGAGTATCCCCGAT
271027 TATGAAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (28 bp):
AATAACGGGGTTAGAGTATCCCCGATGA
Found at i:279286 original size:10 final size:10
Alignment explanation
Indices: 279267--279316 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
279257 CCTTTACACC
*
279267 CAAAAAAAAA
1 CAAAATAAAA
279277 CAAAATAAAA
1 CAAAATAAAA
279287 CAAAATAAAAA
1 CAAAAT-AAAA
279298 CAAAATAAAA
1 CAAAATAAAA
*
279308 -AAAACAAAA
1 CAAAATAAAA
279317 AAACCAAGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
9 8 0.22
10 19 0.51
11 10 0.27
ACGTcount: A:0.84, C:0.10, G:0.00, T:0.06
Consensus pattern (10 bp):
CAAAATAAAA
Found at i:279297 original size:11 final size:11
Alignment explanation
Indices: 279267--279308 Score: 70
Period size: 10 Copynumber: 4.0 Consensus size: 11
279257 CCTTTACACC
279267 CAAAA-AAAAA
1 CAAAATAAAAA
279277 CAAAAT-AAAA
1 CAAAATAAAAA
279287 CAAAATAAAAA
1 CAAAATAAAAA
279298 CAAAATAAAAA
1 CAAAATAAAAA
279309 AAACAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 15 0.50
11 15 0.50
ACGTcount: A:0.83, C:0.10, G:0.00, T:0.07
Consensus pattern (11 bp):
CAAAATAAAAA
Found at i:279317 original size:10 final size:10
Alignment explanation
Indices: 279267--279330 Score: 65
Period size: 11 Copynumber: 5.9 Consensus size: 10
279257 CCTTTACACC
279267 CAAAAAAAAA
1 CAAAAAAAAA
*
279277 CAAAATAAAA
1 CAAAAAAAAA
279287 CAAAATAAAAA
1 CAAAA-AAAAA
279298 CAAAATAAAAA
1 CAAAA-AAAAA
*
279309 AAACAAAAAAA
1 CAA-AAAAAAA
279320 CCAAGAAAAAA
1 -CAA-AAAAAA
279331 TAGCAAATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
10 14 0.30
11 22 0.48
12 10 0.22
ACGTcount: A:0.83, C:0.11, G:0.02, T:0.05
Consensus pattern (10 bp):
CAAAAAAAAA
Found at i:279318 original size:21 final size:21
Alignment explanation
Indices: 279268--279320 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
279258 CTTTACACCC
279268 AAAAAAAAACAAAATAAAACA
1 AAAAAAAAACAAAATAAAACA
* *
279289 AAATAAAAACAAAATAAAAAA
1 AAAAAAAAACAAAATAAAACA
279310 AACAAAAAAAC
1 AA-AAAAAAAC
279321 CAAGAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 21 0.75
22 7 0.25
ACGTcount: A:0.85, C:0.09, G:0.00, T:0.06
Consensus pattern (21 bp):
AAAAAAAAACAAAATAAAACA
Found at i:280599 original size:28 final size:28
Alignment explanation
Indices: 280558--281061 Score: 523
Period size: 28 Copynumber: 17.6 Consensus size: 28
280548 AATGTTCATC
* *
280558 CCTTTTAAACCCCACAAGTCAGTGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
* *
280586 CCTTTCAAAGCCCACGCAAGTCAATGGCAC
1 CCTTTCAAAGCCCA--CAAGTCAGTGGCAT
* *
280616 CCTTTTAAAGCCCATGCAAGTTAGTGGCA-
1 CCTTTCAAAGCCCA--CAAGTCAGTGGCAT
* ** *
280645 CCTTTTCAAAGCTCATGAGGCAGTGGCA-
1 CC-TTTCAAAGCCCACAAGTCAGTGGCAT
*
280673 CCTTTTTCAAAGCCCACGAGTCAGTGGCA-
1 CC--TTTCAAAGCCCACAAGTCAGTGGCAT
*
280702 CTCTTTCAAAGCCCACAAGTCAGTGGCAC
1 C-CTTTCAAAGCCCACAAGTCAGTGGCAT
* *
280731 CCTTTCAAAGCCCACAAGTTAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
*
280759 CCTTTCAAAGCCCACAAATCAGTGGCA-
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
*
280786 CCTTTTCAAAACCCACAAGTCAGTGGCACT
1 CC-TTTCAAAGCCCACAAGTCAGTGGCA-T
* * *
280816 CTTTTCAAAGCCTACAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
*
280844 CCTTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
*
280872 CCTTTCAAAGCCCACGTAAGTCAGTGGCAC
1 CCTTTCAAAGCCCAC--AAGTCAGTGGCAT
*
280902 CCTTTCAAAGCCCACAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
*
280930 CCTTTCAAAGCTCACAAGTCAGTGGCA-
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
*
280957 CCTTTTCAAAGCCCACAAGTCAGTGACACT
1 CC-TTTCAAAGCCCACAAGTCAGTGGCA-T
* * * *
280987 CTTTTCAAAGCTCACAAGCCAGTGACACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCA-T
* * **
281016 CTTTTCAAAGCCCACAAGCCAGTAGTAACT
1 CCTTTCAAAGCCCACAAGTCAGT-GGCA-T
*
281046 CTTTTCAAAGCCCACA
1 CCTTTCAAAGCCCACA
281062 TGTGTCGGTG
Statistics
Matches: 418, Mismatches: 43, Indels: 28
0.85 0.09 0.06
Matches are distributed among these distances:
27 4 0.01
28 220 0.53
29 96 0.23
30 98 0.23
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (28 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCAT
Found at i:280764 original size:56 final size:56
Alignment explanation
Indices: 280557--281061 Score: 578
Period size: 56 Copynumber: 8.8 Consensus size: 56
280547 GAATGTTCAT
* * * *
280557 CCCTTTTAAACCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGCAAGTCAATGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA--CAAGTCAGTGGCA
* * * * ** *
280615 CCCTTTTAAAGCCCATGCAAGTTAGTGGCACCTTTTCAAAGCTCATGAGGCAGTGGCA
1 CCCTTTCAAAGCCCA--CAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
280673 CCTTTTTCAAAGCCCACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCA
1 CC-CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
280730 CCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAATCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * * *
280786 CCTTTTCAAAACCCACAAGTCAGTGGCACTCTTTTCAAAGCCTACAAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCA
*
280843 TCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACGTAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCAC--AAGTCAGTGGCA
* * *
280901 CCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCTCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * * * *
280957 CCTTTTCAAAGCCCACAAGTCAGTGACACTCTTTTCAAAGCTCACAAGCCAGTGACA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCA
* * ** *
281014 CTCTTTTCAAAGCCCACAAGCCAGTAGTAACTCTTTTCAAAGCCCACA
1 C-CCTTTCAAAGCCCACAAGTCAGT-GGCAC-CCTTTCAAAGCCCACA
281062 TGTGTCGGTG
Statistics
Matches: 386, Mismatches: 52, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
56 125 0.32
57 109 0.28
58 98 0.25
59 30 0.08
60 24 0.06
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (56 bp):
CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
Done.