Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold398
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: 1204187
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 7
Found at i:171725 original size:13 final size:13
Alignment explanation
Indices: 171707--171733 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
171697 TACAATGATC
171707 ATGTATCGATACA
1 ATGTATCGATACA
171720 ATGTATCGATACA
1 ATGTATCGATACA
171733 A
1 A
171734 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:171749 original size:33 final size:32
Alignment explanation
Indices: 171688--171752 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
171678 TGCCAGTTTC
* *
171688 ATGTATCGATACAATGATCATGTATCGATACA
1 ATGTATCGATACAAAGATAATGTATCGATACA
171720 ATGTATCGATACAAAGCATAATGTATCGATACA
1 ATGTATCGATACAAAG-ATAATGTATCGATACA
171753 TCTGGATGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (32 bp):
ATGTATCGATACAAAGATAATGTATCGATACA
Found at i:175892 original size:13 final size:13
Alignment explanation
Indices: 175874--175899 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
175864 CAATTTTTTG
175874 TGTATCGATACAT
1 TGTATCGATACAT
175887 TGTATCGATACAT
1 TGTATCGATACAT
175900 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:176647 original size:21 final size:21
Alignment explanation
Indices: 176606--176649 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
176596 CTCCCCTTTA
* *
176606 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
176627 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
176648 TC
1 TC
176650 ATATTCATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:178477 original size:13 final size:13
Alignment explanation
Indices: 178459--178484 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
178449 ATAAACACCT
178459 TGTATCGATACAA
1 TGTATCGATACAA
178472 TGTATCGATACAA
1 TGTATCGATACAA
178485 GGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:178541 original size:20 final size:20
Alignment explanation
Indices: 178470--178549 Score: 72
Period size: 20 Copynumber: 3.8 Consensus size: 20
178460 GTATCGATAC
178470 AATGTATCGATACA-AGGAAA
1 AATGTATCGATACATA-GAAA
*
178490 AATGTATCGATACATTGAATTTCCA
1 AATGTATCGATACATAGAA-----A
*
178515 GATGTATCGATACATAGAAA
1 AATGTATCGATACATAGAAA
*
178535 CATGTATCGATACAT
1 AATGTATCGATACAT
178550 TTTGGACATT
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACATAGAAA
Found at i:180583 original size:15 final size:15
Alignment explanation
Indices: 180563--180593 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
180553 ATTTCGTTTG
*
180563 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
180578 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
180593 G
1 G
180594 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:182442 original size:21 final size:21
Alignment explanation
Indices: 182396--182440 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
182386 AAGTTTTCAT
182396 TTTTC-TTAGCTAACTCATTA
1 TTTTCATTAGCTAACTCATTA
*
182416 TTTTCATTAGCTAACTTCTTTA
1 TTTTCATTAGCTAAC-TCATTA
182438 TTT
1 TTT
182441 CAGCTTGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.22, C:0.18, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTTCATTAGCTAACTCATTA
Found at i:190203 original size:33 final size:33
Alignment explanation
Indices: 190150--190224 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
190140 TTATAGCCAT
* *
190150 TTGAGACAATGTATCGATACAAT-T-CTTCATGTA
1 TTGATACAATGTATCAATACAATGTGC--CATGTA
*
190183 TTGATACATTGTATCAATACAATGTGCCATGTA
1 TTGATACAATGTATCAATACAATGTGCCATGTA
190216 TTGATACAA
1 TTGATACAA
190225 ACAATGGTAG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
33 34 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (33 bp):
TTGATACAATGTATCAATACAATGTGCCATGTA
Found at i:190298 original size:19 final size:19
Alignment explanation
Indices: 190252--190305 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
190242 ACTACCAGCT
*
190252 TCATGTATCGATACAATTA
1 TCATGTATCGATACAATGA
* *
190271 TGTATGTATTGATACAATGA
1 T-CATGTATCGATACAATGA
190291 TCATGTATCGATACA
1 TCATGTATCGATACA
190306 TCTGGATGTG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:198163 original size:32 final size:31
Alignment explanation
Indices: 198121--198311 Score: 195
Period size: 32 Copynumber: 6.3 Consensus size: 31
198111 TGGGTTTACC
*
198121 GAGGTTGCCACCAACTTGTGTGGGCTTTAAA
1 GAGGTTGCCACTAACTTGTGTGGGCTTTAAA
*
198152 GAAGGTTGCCACTAACTTGTGTAGGCTTTAAA
1 G-AGGTTGCCACTAACTTGTGTGGGCTTTAAA
* *
198184 -AGGGTTGCCACTGA-TTGTGTGGGCTTTAGA
1 GA-GGTTGCCACTAACTTGTGTGGGCTTTAAA
* * *
198214 GAAGGTTGCCACCAACTTATGTGGGCTTCGAAA
1 G-AGGTTGCCACTAACTTGTGTGGGCTT-TAAA
198247 G-GG-TGCCACTAAC-T-TGTGGGCTTTGAAA
1 GAGGTTGCCACTAACTTGTGTGGGCTTT-AAA
*
198275 GA-G-TGCCACTAACTTGTGTAGGC-TTAAA
1 GAGGTTGCCACTAACTTGTGTGGGCTTTAAA
198303 GAGG-TGCCA
1 GAGGTTGCCA
198312 TTGAATTGTG
Statistics
Matches: 136, Mismatches: 13, Indels: 24
0.79 0.08 0.14
Matches are distributed among these distances:
28 29 0.21
29 10 0.07
30 30 0.22
31 24 0.18
32 40 0.29
33 3 0.02
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (31 bp):
GAGGTTGCCACTAACTTGTGTGGGCTTTAAA
Found at i:198221 original size:62 final size:61
Alignment explanation
Indices: 198126--198321 Score: 215
Period size: 62 Copynumber: 3.2 Consensus size: 61
198116 TTACCGAGGT
* * *
198126 TGCCACCAACTTGTGTGGGCTTTAAAGAAGGTTGCCACTAACTTGTGTAGGCTTTAAAAGGG
1 TGCCACTAA-TTGTGTGGGCTTTAGAGAAGGTTGCCACTAACTTGTGTAGGCTTCAAAAGGG
* * * * *
198188 TTGCCACTGATTGTGTGGGCTTTAGAGAAGGTTGCCACCAACTTATGTGGGCTTCGAAAGGG
1 -TGCCACTAATTGTGTGGGCTTTAGAGAAGGTTGCCACTAACTTGTGTAGGCTTCAAAAGGG
*
198250 TGCCACTAACT-TGTGGGCTTT-GA-AAGAG-TGCCACTAACTTGTGTAGGCTT--AAAGAGG
1 TGCCACTAATTGTGTGGGCTTTAGAGAAG-GTTGCCACTAACTTGTGTAGGCTTCAAAAG-GG
*
198307 TGCCATTGAATTGTG
1 TGCCACT-AATTGTG
198322 GGCTTAAGTT
Statistics
Matches: 114, Mismatches: 15, Indels: 12
0.81 0.11 0.09
Matches are distributed among these distances:
56 4 0.04
57 8 0.07
58 25 0.22
59 5 0.04
60 10 0.09
61 9 0.08
62 46 0.40
63 7 0.06
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (61 bp):
TGCCACTAATTGTGTGGGCTTTAGAGAAGGTTGCCACTAACTTGTGTAGGCTTCAAAAGGG
Found at i:198274 original size:28 final size:28
Alignment explanation
Indices: 198139--198504 Score: 219
Period size: 28 Copynumber: 12.6 Consensus size: 28
198129 CACCAACTTG
198139 TGTGGGCTTT-AAAGAAGGTTGCCACTAACT
1 TGTGGGCTTTGAAAG--GG-TGCCACTAACT
* * *
198169 TGTGTAGGCTTTAAAAGGGTTGCCACTGATT
1 TGTG--GGCTTTGAAAGGG-TGCCACTAACT
* *
198200 GTGTGGGCTTTAGAGAAGGTTGCCACCAACTT
1 -TGTGGGCTTT-GA-AAGGGTGCCACTAAC-T
*
198232 ATGTGGGCTTCGAAAGGGTGCCACTAACT
1 -TGTGGGCTTTGAAAGGGTGCCACTAACT
*
198261 TGTGGGCTTTGAAAGAGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
*
198289 TGTGTAGGC-TT-AAAGAGGTGCCATTGAA-T
1 TGTG--GGCTTTGAAAG-GGTGCCACT-AACT
** *
198318 TGTGGGC-TT--AAGTTAATGCCATTAACT
1 TGTGGGCTTTGAAAG--GGTGCCACTAACT
* * *
198345 TATAGGCTTTGGAAA-GATGCCACTAA-T
1 TGTGGGCTTT-GAAAGGGTGCCACTAACT
* * * *
198372 ATGTGGGCTTTGAAAGGATCCCACTGACA
1 -TGTGGGCTTTGAAAGGGTGCCACTAACT
* * * *
198401 TGTGGGCTTTGAAAGGATTCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
* *
198429 TGTGGCCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
* * * * *
198457 TGTGGGCTTTGAGAATGATGCTATTGACT
1 TGTGGGCTTTGA-AAGGGTGCCACTAACT
198486 TGTGGGCTTTGAAAAGGGT
1 TGTGGGCTTTG-AAAGGGT
198505 CGTATTGACG
Statistics
Matches: 273, Mismatches: 41, Indels: 45
0.76 0.11 0.13
Matches are distributed among these distances:
26 5 0.02
27 23 0.08
28 122 0.45
29 42 0.15
30 29 0.11
31 24 0.09
32 24 0.09
33 4 0.01
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTAACT
Found at i:199091 original size:13 final size:13
Alignment explanation
Indices: 199073--199098 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
199063 TGAACGATTG
199073 CATTTCTGGTAAT
1 CATTTCTGGTAAT
199086 CATTTCTGGTAAT
1 CATTTCTGGTAAT
199099 GATATAACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (13 bp):
CATTTCTGGTAAT
Found at i:201652 original size:20 final size:20
Alignment explanation
Indices: 201627--201675 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
201617 AAGCCAATGC
**
201627 ATCGATACAATTTTTTGTGT
1 ATCGATACAATACTTTGTGT
201647 ATCGATAC-ATACTTTGTGT
1 ATCGATACAATACTTTGTGT
201666 ATCGATACAA
1 ATCGATACAA
201676 GTTTGGCTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (20 bp):
ATCGATACAATACTTTGTGT
Found at i:202347 original size:40 final size:41
Alignment explanation
Indices: 202301--202391 Score: 107
Period size: 39 Copynumber: 2.3 Consensus size: 41
202291 TTTTCTTTCT
*
202301 CCCTTAACTAAAG-TAATTTTAACAAATTCGTACATTCTCC
1 CCCTTAACTAAAGATAATTTTAACAAATTCATACATTCTCC
* * *
202341 CCCTTAA-T-AAGATAATTTTAGCAAATTTATGCATTCTCC
1 CCCTTAACTAAAGATAATTTTAACAAATTCATACATTCTCC
* *
202380 CCTTTCACTAAA
1 CCCTTAACTAAA
202392 AAAAATCTCC
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
38 3 0.07
39 29 0.69
40 8 0.19
41 2 0.05
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.36
Consensus pattern (41 bp):
CCCTTAACTAAAGATAATTTTAACAAATTCATACATTCTCC
Found at i:203751 original size:13 final size:13
Alignment explanation
Indices: 203733--203758 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
203723 CAATTTTTTG
203733 TGTATCGATACAT
1 TGTATCGATACAT
203746 TGTATCGATACAT
1 TGTATCGATACAT
203759 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:203823 original size:21 final size:21
Alignment explanation
Indices: 203797--203872 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
203787 CTGCCAAGAA
*
203797 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
203818 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
203838 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
203859 ATGTATCGATACAT
1 ATGTATCGATACAT
203873 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:203843 original size:20 final size:20
Alignment explanation
Indices: 203818--203890 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
203808 CATCTTTTTT
203818 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
203838 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
203859 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
203879 ATGTATCGATAC
1 ATGTATCGATAC
203891 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:203854 original size:41 final size:41
Alignment explanation
Indices: 203797--203890 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
203787 CTGCCAAGAA
*
203797 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
203838 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
203879 ATGTATCGATAC
1 ATGTATCGATAC
203891 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:206043 original size:13 final size:13
Alignment explanation
Indices: 206025--206063 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
206015 ATAATCACCC
*
206025 TGTATCGATACAG
1 TGTATCGATACAA
206038 TGTATCGATACAA
1 TGTATCGATACAA
206051 TGTATCGATACAA
1 TGTATCGATACAA
206064 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:206074 original size:20 final size:20
Alignment explanation
Indices: 206049--206127 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
206039 GTATCGATAC
206049 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
206069 AATGTATCGATACATAGAATCTCCA
1 AATGTATCGATACAAAGAA-----A
*
206094 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
206114 CATGTATCGATACA
1 AATGTATCGATACA
206128 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.24
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:208162 original size:15 final size:15
Alignment explanation
Indices: 208142--208172 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
208132 ATTTCGTTTG
*
208142 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
208157 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
208172 G
1 G
208173 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:211187 original size:13 final size:13
Alignment explanation
Indices: 211169--211194 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
211159 CAATTTTTTG
211169 TGTATCGATACAT
1 TGTATCGATACAT
211182 TGTATCGATACAT
1 TGTATCGATACAT
211195 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:211259 original size:21 final size:21
Alignment explanation
Indices: 211233--211308 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
211223 CTGCCAAGAA
*
211233 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
211254 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
211274 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
211295 ATGTATCGATACAT
1 ATGTATCGATACAT
211309 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:211279 original size:20 final size:20
Alignment explanation
Indices: 211254--211326 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
211244 CATCTTTTTT
211254 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
211274 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
211295 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
211315 ATGTATCGATAC
1 ATGTATCGATAC
211327 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:211290 original size:41 final size:41
Alignment explanation
Indices: 211233--211326 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
211223 CTGCCAAGAA
*
211233 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
211274 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
211315 ATGTATCGATAC
1 ATGTATCGATAC
211327 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:212377 original size:21 final size:20
Alignment explanation
Indices: 212348--212390 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
212338 GACTAGTGTG
* *
212348 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
212369 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
212389 GG
1 GG
212391 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:217883 original size:22 final size:22
Alignment explanation
Indices: 217855--217909 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
217845 TGGACATGTT
217855 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
*
217877 AAAAATGCATGAAACGTAATAA
1 AAAAATGCATGAAACATAATAA
217899 AAAAATGCATG
1 AAAAATGCATG
217910 GTCAAAGGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.60, C:0.09, G:0.13, T:0.18
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:218870 original size:20 final size:20
Alignment explanation
Indices: 218823--218897 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
218813 AAAAAGACAT
*
218823 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
218842 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
218863 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
218883 AATGTATCGATACAT
1 AATGTATCGATACAT
218898 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:218870 original size:40 final size:39
Alignment explanation
Indices: 218820--218897 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
218810 GGTAAAAAGA
* *
218820 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
218859 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
218898 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:219823 original size:59 final size:58
Alignment explanation
Indices: 219457--220287 Score: 817
Period size: 59 Copynumber: 14.1 Consensus size: 58
219447 TTTAAAAAAT
* * * * * * *
219457 GTGCCACTAGCTTGTGTAGGCTTTGAAAAAAGTTGCCACTGACACATGTGGGCTTTGAAAAGA
1 GTGCCACTAACTTGCGTGGGCTTTG--AAAGGGTGCCACTG--ACTTGTGGGCTTTG-AAAGG
** * * *
219520 GTGTTACTGACTTGCGTGGGCTTTAAAAGGGTGCCACTGACTTGCGTAGGCTTTGAAAGG
1 GTGCCACTAACTTGCGTGGGCTTTGAAAGGGTGCCACTGACTT--GTGGGCTTTGAAAGG
* * * *
219580 ATGCCATTGAC-T-CGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAA-G
1 GTGCCACTAACTTGCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGG
* * * *
219635 GTGCCACTGAC-T-CGTGGGCTTTGAAAAGGTACCACTGACTCGTGGGC-TTGAAAGG
1 GTGCCACTAACTTGCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGG
* * * *
219690 GTGCCACTGAC-T-CGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAAG
1 GTGCCACTAACTTGCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGG
*
219746 GTGCCACTGACTTGCGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGTGGGCTTTGAAAGG
1 GTGCCACTAACTTGCGTGGGCTTTGAAAGG-GTGCCACTGAC-T-TGTGGGCTTTGAAAGG
*
219807 GTGCCACTAAC-T-CGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGA
1 GTGCCACTAACTTGCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGG
* * * * * *
219863 GTGCCACTAAATT--GTGGGCTTCGCAATGGTGGCACTGACTTGTGGGCTTCGAAAGG
1 GTGCCACTAACTTGCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGG
*
219919 GTGCCACTAACTTACGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTAACTTGCGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGG
* ** * *
219978 GTGCCACTGACTT--GTGGGCTTTGAAAATAGTGCCACTAACTTGTGGGCTTTAAAAGG
1 GTGCCACTAACTTGCGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGG
*
220035 GTGCCACTAACTTGTGTGGGCTTTGAAAGGGGTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTAACTTGCGTGGGCTTTGAAA-GGGTGCCACTGACTTGTGGGCTTTGAAAGG
** * * *
220094 GTGCCACCGACTTGTGTGGGCTTTGAAAAGTGTTGCCACGGACTTGTGTGGGCTTTGAAATAGG
1 GTGCCACTAACTTGCGTGGGCTTTG-AAAG-GGTGCCACTGAC-T-TGTGGGCTTTG-AA-AGG
* * * **
220158 TTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTGAAATGG
1 GTGCCACTAACTTGCGTGGGCTTTGAAA-GGG-TGCCACTGAC-T-TGTGGGCTTTGAAA-GG
* * * * ** * *
220221 GTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTGCCACAGAGTTGTGGATTTTAAAAGA
1 G-TGCCACTAACTTGCGTGGGCTTTGAAA-GGGTGCCACTGACTTGTGGGCTTTGAAAGG
220281 GTGCCAC
1 GTGCCAC
220288 GGAGTTGTGG
Statistics
Matches: 668, Mismatches: 74, Indels: 56
0.84 0.09 0.07
Matches are distributed among these distances:
54 6 0.01
55 87 0.13
56 104 0.16
57 55 0.08
58 65 0.10
59 138 0.21
60 28 0.04
61 57 0.09
62 13 0.02
63 35 0.05
64 80 0.12
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.28
Consensus pattern (58 bp):
GTGCCACTAACTTGCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGG
Found at i:220138 original size:32 final size:29
Alignment explanation
Indices: 219457--221024 Score: 904
Period size: 28 Copynumber: 55.0 Consensus size: 29
219447 TTTAAAAAAT
*
219457 GTGCCACT-AGCTTGTGTAGGCTTTGAAAAAAG
1 GTGCCACTGA-CTTGTG--GGCTTTG-AAAAGG
* * *
219489 TTGCCACTGACACATGTGGGCTTTGAAAAGA
1 GTGCCACTG--ACTTGTGGGCTTTGAAAAGG
**
219520 GTGTTACTGACTTGCGTGGGCTTT-AAAAGG
1 GTGCCACTGACTT--GTGGGCTTTGAAAAGG
*
219550 GTGCCACTGACTTGCGTAGGCTTTG-AAAGG
1 GTGCCACTGACTT--GTGGGCTTTGAAAAGG
* * * *
219580 ATGCCATTGACTCGTGGGCTTTG-AAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG
219608 GTGCCACTGACTTGTGGGCTTTG-AAA-G
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG
*
219635 GTGCCACTGACTCGTGGGCTTTGAAAA-G
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG
* *
219663 GTACCACTGACTCGTGGGC-TTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG
* *
219690 GTGCCACTGACTCGTGGGCTTTG-AAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG
*
219718 GTGCCACTGACTCGTGGGCTTTGAAAA-G
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG
219746 GTGCCACTGACTTGCGTGGGCTTTG-AAAGG
1 GTGCCACTGACTT--GTGGGCTTTGAAAAGG
219776 AGTGCCACTGACTTGTGTGGGCTTTG-AAAGG
1 -GTGCCACTGAC-T-TGTGGGCTTTGAAAAGG
* *
219807 GTGCCACTAACTCGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG
*
219835 GTGCCACTGACTTGTGGGCTTTG-AAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG
* * * * *
219863 GTGCCACTAAATTGTGGGCTTCG-CAATG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG
* *
219891 GTGGCACTGACTTGTGGGCTTCG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG
*
219919 GTGCCACTAACTTACGTGGGCTTTGAAAAGG
1 GTGCCACTGACTT--GTGGGCTTTGAAAAGG
219950 GTGCCACTGACTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG
**
219978 GTGCCACTGACTTGTGGGCTTTGAAAATA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG
*
220007 GTGCCACTAACTTGTGGGCTTT-AAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG
* *
220035 GTGCCACTAACTTGTGTGGGCTTTGAAAGGG
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAAGG
220066 GTGCCACTGACTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG
*
220094 GTGCCACCGACTTGTGTGGGCTTTGAAAAGTG
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAAG-G
* *
220126 TTGCCACGGACTTGTGTGGGCTTTGAAATAGG
1 GTGCCACTGAC-T-TGTGGGCTTTGAAA-AGG
* ** *
220158 TTGCCACCAACTTGTGTGGGCTTTGAAATGG
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAAGG
** *
220189 GTTGCCACCAACTTGTGTGGGCTTTGAAATGG
1 G-TGCCACTGAC-T-TGTGGGCTTTGAAAAGG
** *
220221 GTTGCCACCAACTTGTGTGGGCTTTGAAATGG
1 G-TGCCACTGAC-T-TGTGGGCTTTGAAAAGG
* * * * *
220253 GTGCCACAGAGTTGT-GGATTTTAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG
* * * *
220281 GTGCCACGGAGTTGT-GGATTTTAAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG
* * * *
220309 GTGCCACGGAGTTGT-GGATTTTAAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG
* * * *
220337 GTGCCACAGAGTTGTGGAC--TCAAAAGAG
1 GTGCCACTGACTTGTGGGCTTTGAAAAG-G
* * * * *
220365 ATGCCACGGAGTTATGGAC-TT-AAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG
* * *
220392 GTGCCACAGAGTTGTGGAC-TT-AAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG
* * *
220419 GTGCCACGGAGTTGTGGAC-TT-AAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG
* * *
220446 GTGCCACAGAGTTGTGGAC-TT-AAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG
* * * **
220473 GTGCCACGGAGTTGTGGAC-TAAAAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG
* * * *
220501 GTGCCACAGAGTTCTGGAC-TT-AAAAGAG
1 GTGCCACTGACTTGTGGGCTTTGAAAAG-G
* * *
220529 ATGCCA-TGGAGTTGTGGAC-TT-AAAAGG
1 GTGCCACT-GACTTGTGGGCTTTGAAAAGG
* * *
220556 GTGCCACAGAGTTGTGGTC-TT-AAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG
* * *
220583 GATGCCACGGAGTTGTGGAC-TT-AAAAGG
1 G-TGCCACTGACTTGTGGGCTTTGAAAAGG
* * * *
220611 GTGCCACGGAGTTGTGGAC-TT-AAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG
* * * *
220638 ATGCCACGGAGTTGTGGACTTT-AAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG
* * *
220666 ATGCCAC-GAAGTTGTGGAC-TT-AAAAGG
1 GTGCCACTG-ACTTGTGGGCTTTGAAAAGG
* * * **
220693 GATGCCACGGAGTTGTGGAC-TAAAAAAGG
1 G-TGCCACTGACTTGTGGGCTTTGAAAAGG
* *
220722 GTGCCA-TAGAGTTGTGGAC-TT-AAAAGAG
1 GTGCCACT-GACTTGTGGGCTTTGAAAAG-G
* * * *
220750 ATGCCA-TGGAGTTATGGAC-TT-AAAAGG
1 GTGCCACT-GACTTGTGGGCTTTGAAAAGG
* * *
220777 GTGCCACGGAGTTGTGGAC-TT-AAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG
* * *
220804 GTGCCACAGAGTTGTGGTC-TT-AAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG
* * *
220831 GATGCCACGGAGTTGTGGAC-TT-AAAAGG
1 G-TGCCACTGACTTGTGGGCTTTGAAAAGG
* * * *
220859 GTGCCACGGAGTTGTGGAC-TT-AAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG
* * * *
220886 ATGCCACGGAGTTGTGGACTTT-AAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG
* * *
220914 ATGCCAC-GAAGTTGTGGAC-TT-AAAAGG
1 GTGCCACTG-ACTTGTGGGCTTTGAAAAGG
* * *
220941 GATGCCACGGAGTTGTGGAC-TT-AAAAGG
1 G-TGCCACTGACTTGTGGGCTTTGAAAAGG
* * * *
220969 GTGCCACGGAGTTATGGAC-TT-AAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG
* * *
220996 GTGCCACGGAGTTGTGGGCTTTAAAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG
221025 TCACACTACT
Statistics
Matches: 1364, Mismatches: 120, Indels: 107
0.86 0.08 0.07
Matches are distributed among these distances:
26 3 0.00
27 377 0.28
28 582 0.43
29 77 0.06
30 94 0.07
31 90 0.07
32 132 0.10
33 3 0.00
34 5 0.00
35 1 0.00
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.26
Consensus pattern (29 bp):
GTGCCACTGACTTGTGGGCTTTGAAAAGG
Found at i:220395 original size:55 final size:54
Alignment explanation
Indices: 220254--221021 Score: 1068
Period size: 55 Copynumber: 13.9 Consensus size: 54
220244 TTGAAATGGG
* * * * *
220254 TGCCACAGAGTTGTGGATTTTAAAAGAGTGCCACGGAGTTGTGGATTTTAAAAGGG
1 TGCCACGGAGTTGTGGA-CTTAAAAGGGTGCCACGGAGTTGTGGA-CTTAAAAGGA
* * *
220310 TGCCACGGAGTTGTGGATTTTAAAAGGGTGCCACAGAGTTGTGGACTCAAAAGAGA
1 TGCCACGGAGTTGTGGA-CTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GA
* * *
220366 TGCCACGGAGTTATGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGA
* *
220420 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGA
* * *
220474 TGCCACGGAGTTGTGGACTAAAAAAGGGTGCCACAGAGTTCTGGACTTAAAAGAGA
1 TGCCACGGAGTTGTGGACT-TAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GA
* * *
220530 TGCCATGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGTCTTAAAAGGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA-GGA
*
220585 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAA
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGA
* *
220639 TGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGAAGTTGTGGACTTAAAAGGGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA-GGA
* **
220695 TGCCACGGAGTTGTGGACTAAAAAAGGGTGCCATAGAGTTGTGGACTTAAAAGAGA
1 TGCCACGGAGTTGTGGACT-TAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GA
* * *
220751 TGCCATGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGA
* * *
220805 TGCCACAGAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGA
**
220860 TGCCACGGAGTTGTGGACTTAAAAGAATGCCACGGAGTTGTGGACTTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGA
* *
220915 TGCCACGAAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGA
* *
220970 TGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAA
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAA
221022 AGGTCACACT
Statistics
Matches: 648, Mismatches: 52, Indels: 25
0.89 0.07 0.03
Matches are distributed among these distances:
54 152 0.23
55 333 0.51
56 163 0.25
ACGTcount: A:0.30, C:0.14, G:0.33, T:0.23
Consensus pattern (54 bp):
TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGA
Found at i:220404 original size:27 final size:27
Alignment explanation
Indices: 220251--221021 Score: 1083
Period size: 28 Copynumber: 28.0 Consensus size: 27
220241 GCTTTGAAAT
* *
220251 GGGTGCCACAGAGTTGTGGATTTTAAAA
1 GGGTGCCACGGAGTTGTGGA-CTTAAAA
* *
220279 GAGTGCCACGGAGTTGTGGATTTTAAAA
1 GGGTGCCACGGAGTTGTGGA-CTTAAAA
*
220307 GGGTGCCACGGAGTTGTGGATTTTAAAA
1 GGGTGCCACGGAGTTGTGGA-CTTAAAA
* *
220335 GGGTGCCACAGAGTTGTGGACTCAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
220362 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
*
220390 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
220417 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
220444 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
220471 GGGTGCCACGGAGTTGTGGACTAAAAAA
1 GGGTGCCACGGAGTTGTGGACT-TAAAA
* *
220499 GGGTGCCACAGAGTTCTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
220526 GAGATGCCATGGAGTTGTGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
* *
220554 GGGTGCCACAGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
220581 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
220609 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
**
220636 GAATGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* *
220664 GGATGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
220691 GGGATGCCACGGAGTTGTGGACTAAAAAA
1 GGG-TGCCACGGAGTTGTGGACT-TAAAA
**
220720 GGGTGCCATAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* * *
220747 GAGATGCCATGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
220775 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
220802 GGGTGCCACAGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
220829 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
220857 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
**
220884 GAATGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* *
220912 GGATGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
220939 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
*
220967 GGGTGCCACGGAGTTATGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
220994 GGGTGCCACGGAGTTGTGGGCTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
221022 AGGTCACACT
Statistics
Matches: 672, Mismatches: 59, Indels: 24
0.89 0.08 0.03
Matches are distributed among these distances:
27 332 0.49
28 333 0.50
29 7 0.01
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.23
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:222066 original size:11 final size:11
Alignment explanation
Indices: 222034--222065 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
222024 AGGGTGAAAA
222034 GGTTTTTTTTT
1 GGTTTTTTTTT
222045 GGTTTTTTTTT
1 GGTTTTTTTTT
222056 -GTTTTTTTTT
1 GGTTTTTTTTT
222066 TAGGATTGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (11 bp):
GGTTTTTTTTT
Found at i:228446 original size:22 final size:21
Alignment explanation
Indices: 228416--228470 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 21
228406 TGGACATGTT
228416 AAAAATGCATGAAACATAATA
1 AAAAATGCATGAAACATAATA
*
228437 AAAAAGTGCATGAAACGTAATAA
1 AAAAA-TGCATGAAACATAAT-A
228460 AAAAATGCATG
1 AAAAATGCATG
228471 GTCAAAGGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
21 5 0.16
22 20 0.65
23 6 0.19
ACGTcount: A:0.58, C:0.09, G:0.15, T:0.18
Consensus pattern (21 bp):
AAAAATGCATGAAACATAATA
Found at i:229430 original size:20 final size:20
Alignment explanation
Indices: 229383--229457 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
229373 AAAAAGACAT
*
229383 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
229402 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
229423 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
229443 AATGTATCGATACAT
1 AATGTATCGATACAT
229458 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:229451 original size:40 final size:39
Alignment explanation
Indices: 229380--229457 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
229370 GGTAAAAAGA
* *
229380 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
229419 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
229458 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:232221 original size:21 final size:21
Alignment explanation
Indices: 232192--232236 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
232182 AAGTTTTTAT
*
232192 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
232212 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
232234 TTT
1 TTT
232237 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:258807 original size:52 final size:50
Alignment explanation
Indices: 258746--258853 Score: 144
Period size: 52 Copynumber: 2.1 Consensus size: 50
258736 AGATGCATCA
* * *
258746 ATACATTGAAAAATGTATTGATACATCTAAGTAGAAAAAATAAAATATATCG
1 ATACATTGAAAAATATATCGATACATCTAAGT--AAAAAACAAAATATATCG
** *
258798 ATACATTGAAAAATATATCGATACATCTGGGTAAAAAACAAAATGTATCG
1 ATACATTGAAAAATATATCGATACATCTAAGTAAAAAACAAAATATATCG
258848 ATACAT
1 ATACAT
258854 GTACTGTTGA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
50 22 0.44
52 28 0.56
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (50 bp):
ATACATTGAAAAATATATCGATACATCTAAGTAAAAAACAAAATATATCG
Found at i:259342 original size:32 final size:33
Alignment explanation
Indices: 259280--259343 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
259270 CACACCTAGA
* *
259280 TGTATCGATACATATTGCTTGGTATTGATACAT
1 TGTATCAATACATATTGCTTGGTATCGATACAT
*
259313 TGTATCAATACATGTT-CTTGGTATCGATACA
1 TGTATCAATACATATTGCTTGGTATCGATACA
259344 CCTTGAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCAATACATATTGCTTGGTATCGATACAT
Found at i:259416 original size:20 final size:20
Alignment explanation
Indices: 259391--259441 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
259381 AAAACTCACT
*
259391 TTGTATCGATACTTGATGAA
1 TTGTATCGATACATGATGAA
*
259411 TTGTATCGATACATGGTGAA
1 TTGTATCGATACATGATGAA
259431 TTGTATCGATA
1 TTGTATCGATA
259442 TATTGAGCCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:259935 original size:36 final size:32
Alignment explanation
Indices: 259875--259960 Score: 93
Period size: 36 Copynumber: 2.6 Consensus size: 32
259865 TAAGTGATTC
***
259875 AGAGGTTCTATCTTAGCTTTTGAAAAGGATAGAG
1 AGAGGTTCTATCTTAGCCCGTG-AAAGGATAG-G
259909 AAAGAGGTTCTATCTTAGCCCGTGAAAGGATAGG
1 --AGAGGTTCTATCTTAGCCCGTGAAAGGATAGG
259943 -GAGGTTTCTATCTTAGCC
1 AGAGG-TTCTATCTTAGCC
259961 ATGAAATATA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
31 4 0.09
32 13 0.28
34 1 0.02
35 9 0.20
36 19 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (32 bp):
AGAGGTTCTATCTTAGCCCGTGAAAGGATAGG
Found at i:264109 original size:167 final size:164
Alignment explanation
Indices: 263658--264115 Score: 555
Period size: 165 Copynumber: 2.8 Consensus size: 164
263648 TGTGAAATAT
* * * *
263658 AAAACTCGATTTTTTGAGAAAA-GGGAGATTTCAAAGAAAAAAATCCAAAACACATGAAAATGAA
1 AAAACTCCATTTTTTG-GAAAAGGGGA-ATTTC-AAGAAAAAATTCAAAAACACATGAAAATAAA
* * * *
263722 TGAATTTTTGAAAACTAATTTAATATCAAATAAATCATAATATTTTATGGATTTTAAAAATTAAA
63 TGAATTTTTCAAAACTAATTTAATATGAAATAAATAATAATATTTTATGAATTTTAAAAATTAAA
*
263787 AAACAAGAAAAAGCTCCCTAAAAAATTTTCACAGTAG
128 AAACAAGAAAAAGCTCCCTAAAAAATTTACACAGTAG
* * * * * *
263824 AAAACTCTATTTTTCGAAAATAGGAGAATTTCAAGAAAAAATTTAAAAACTCATGAAAATAAATG
1 AAAACTCCATTTTTTGGAAA-AGGGGAATTTCAAGAAAAAATTCAAAAACACATGAAAATAAATG
* * * * * *
263889 AGTTTTTTAAAATTGATTTATTATGAAATAAATAATAATATTTTATAAATTTTAAAAATTAAAAA
65 AATTTTTCAAAACTAATTTAATATGAAATAAATAATAATATTTTATGAATTTTAAAAATTAAAAA
*
263954 TA-AAGAAAAATC-CCTCTAAAAAAATTTACGA-AGTAG
130 -ACAAGAAAAAGCTCC-CT-AAAAAATTTAC-ACAGTAG
* *
263990 AAATCTCCATTTTTTGGAAACAGGGGAATTTCAAGCAACAAATTCAAAAACACATGAAAATAAAT
1 AAAACTCCATTTTTTGGAAA-AGGGGAATTTCAAG-AAAAAATTCAAAAACACATGAAAATAAAT
* * *
264055 GAATTTCTCAAAACTAATTTAATATGAATTAAGTAATAATATTTTATGAATTTTAAAAATT
64 GAATTTTTCAAAACTAATTTAATATGAAATAAATAATAATATTTTATGAATTTTAAAAATT
264116 TTAAACCCAT
Statistics
Matches: 247, Mismatches: 38, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
164 2 0.01
165 98 0.40
166 65 0.26
167 82 0.33
ACGTcount: A:0.50, C:0.09, G:0.10, T:0.31
Consensus pattern (164 bp):
AAAACTCCATTTTTTGGAAAAGGGGAATTTCAAGAAAAAATTCAAAAACACATGAAAATAAATGA
ATTTTTCAAAACTAATTTAATATGAAATAAATAATAATATTTTATGAATTTTAAAAATTAAAAAA
CAAGAAAAAGCTCCCTAAAAAATTTACACAGTAG
Found at i:265540 original size:42 final size:42
Alignment explanation
Indices: 265497--266528 Score: 452
Period size: 42 Copynumber: 24.5 Consensus size: 42
265487 CCAGGGCCTG
** * *
265497 AGCCGACAAGCAGACAAAGGATAAAGAAGTCTCCCGAGTCTG
1 AGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCGAGTCTA
* * * * * ** * *
265539 AGCCGATGGGCAAATAAAAAGCTGAAGAAGTCTCTTG-GGCTTG
1 AGCCGACGGGCAGA-CAAAAGATAAAGAAGTCTCCCGAGTC-TA
* * * * *
265582 AGCCGATGGGTAGACAAAGGATATAAG-AGTCTCCAG-GTATA
1 AGCCGACGGGCAGACAAAAGATA-AAGAAGTCTCCCGAGTCTA
* * * *
265623 AGTCGACGGGCAGACAAAGGATATAAG-AGTCTCCAG-GTATA
1 AGCCGACGGGCAGACAAAAGATA-AAGAAGTCTCCCGAGTCTA
* * * * *
265664 AGTCGACGGGCAGACAAAAAGATGAAA-AAGTTTCCTGAGTTTG
1 AGCCGACGGGCAGAC-AAAAGAT-AAAGAAGTCTCCCGAGTCTA
* * * *
265707 AGTCGACGGGCAGACAAAAGATAAAAAAAGTCTCACAAGTCTGA
1 AGCCGACGGGCAGACAAAAGAT-AAAGAAGTCTCCCGAGTCT-A
* * * * * * *
265751 A-CTGACTGGTAGATAAAAGATAAAGAAAGTCTCCCGGGTTTG
1 AGCCGACGGGCAGACAAAAGATAAAG-AAGTCTCCCGAGTCTA
* ** * *
265793 AGCCAATAGGCAAACAAAAGATAAAGAAGTCTCCCGGGTCTA
1 AGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCGAGTCTA
* * * *
265835 AGCCAATGGGTAGACAAAAGATAAAG-AGTCTCCCAAGTCTA
1 AGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCGAGTCTA
** * *
265876 AGCTAATGGGCAGACAAAAGATAAAGAAAGTCT-CCTAGGTCTA
1 AGCCGACGGGCAGACAAAAGATAAAG-AAGTCTCCCGA-GTCTA
* ** * * * *
265919 AGCCAACGACCAAACAAAGGATAAAGAAGTCTCTCGCGTCTA
1 AGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCGAGTCTA
**** * * * * * *
265961 AGCC-AATAACAGATAAAAGATAAAAAAATCTCTCGGGTCTG
1 AGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCGAGTCTA
** * * * * * *
266002 AGTTGACAGGCAGATAAAAGATAAAAAAGTCTCTCGAGTTTG
1 AGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCGAGTCTA
* * * * *
266044 AGCCGACGGGTAGACAAAAGATAAAAAAGTCTCCCAAGTTTG
1 AGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCGAGTCTA
* * ** *
266086 AGCCGACAGGCAGACAGAAGATAAAGAAAGTCTCTAGGGTCTA
1 AGCCGACGGGCAGACAAAAGATAAAG-AAGTCTCCCGAGTCTA
* ** * *
266129 AGACGATTGGCAGACAAAAGATAAAGAAATCTCCTGAGTCTA
1 AGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCGAGTCTA
* * *
266171 AGCCGACAGGCA-ATCAAAAGATATAGTAAAGTCTCTC-AGGTCTA
1 AGCCGACGGGCAGA-CAAAAGATAAAG--AAGTCTCCCGA-GTCTA
* * *
266215 AGTCGA---GCAGACAAAAAATAAAGAAGTCTCCCGGGTCTA
1 AGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCGAGTCTA
* ** * * * *
266254 AGTCGATAGACAAACAAAAGATAAAGAAGTCT-CCTAGGTTTCA
1 AGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCGA-GTCT-A
* ** * * * * *
266297 A-CTGATTGGCAGACAAAAGTTAAAAAAGTCTCTCGGGTCTG
1 AGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCGAGTCTA
* * * * * * *
266338 AGCCGACGAGCAAATAAAGGATAAAAAAAGTCT-TCGGGTCTA
1 AGCCGACGGGCAGACAAAAGAT-AAAGAAGTCTCCCGAGTCTA
* * *
266380 AGCCGATGGGTAGACAAAAGAT-AA-AAGTCTCCCAGGGTCTA
1 AGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCC-GAGTCTA
** * * * * *
266421 AGCTAACAGGCAAATAAAAGATATAGGAAAGTCTCCCTG-GTATA
1 AGCCGACGGGCAGACAAAAGATA-AAG-AAGTCTCCC-GAGTCTA
* * * * *
266465 AGCCAACGGGTAGACAAAAAAT-AAGAAAGTCTCTCGAGTATA
1 AGCCGACGGGCAGACAAAAGATAAAG-AAGTCTCCCGAGTCTA
* ** *
266507 AGCCAATAGGTAGACAAAAGAT
1 AGCCGACGGGCAGACAAAAGAT
266529 GAAAAGGTCT
Statistics
Matches: 767, Mismatches: 185, Indels: 76
0.75 0.18 0.07
Matches are distributed among these distances:
39 25 0.03
40 3 0.00
41 160 0.21
42 349 0.46
43 183 0.24
44 37 0.05
45 10 0.01
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (42 bp):
AGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCGAGTCTA
Found at i:265639 original size:41 final size:41
Alignment explanation
Indices: 265593--265681 Score: 178
Period size: 41 Copynumber: 2.2 Consensus size: 41
265583 GCCGATGGGT
265593 AGACAAAGGATATAAGAGTCTCCAGGTATAAGTCGACGGGC
1 AGACAAAGGATATAAGAGTCTCCAGGTATAAGTCGACGGGC
265634 AGACAAAGGATATAAGAGTCTCCAGGTATAAGTCGACGGGC
1 AGACAAAGGATATAAGAGTCTCCAGGTATAAGTCGACGGGC
265675 AGACAAA
1 AGACAAA
265682 AAGATGAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.39, C:0.17, G:0.28, T:0.16
Consensus pattern (41 bp):
AGACAAAGGATATAAGAGTCTCCAGGTATAAGTCGACGGGC
Found at i:266154 original size:210 final size:210
Alignment explanation
Indices: 265761--266553 Score: 504
Period size: 210 Copynumber: 3.8 Consensus size: 210
265751 ACTGACTGGT
* * * *
265761 AGATAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCAATAGGCAAACAAAAGATAAAGAAGTCTC
1 AGATAAAAGATAAAGAAAATCTCCCGGGTCTGAGCCAACAGGCAAACAAAAGATAAAAAAGTCTC
* * * * **
265826 CCGGGTCTAAGCCAATGGGTAGACAAAAGATAAAGAGTCTCCCAAGTCTAAGCTAATGGGCAGAC
66 CCGAGTCTAAGCCAACGGGTAGACAAAAGATAAAAAGTCTCCCAAGTCTAAGCCAACAGGCAGAC
* *
265891 AAAAGATAAAGAAAGTCTCCTAGGTCTAAGCCAACGACCAAACAAAGGATAAAGAAGTCT-CTCG
131 AAAAGATAAAGAAAGTCTCCTAGGTCTAAGCCAACGACCAAACAAAAGATAAAGAAATCTCCT-G
*
265955 CGTCTAAGCCAATAAC
195 AGTCTAAGCCAATAAC
* *** * *
265971 AGATAAAAGATAAA-AAAATCTCTCGGGTCTGAGTTGACAGGCAGATAAAAGATAAAAAAGTCTC
1 AGATAAAAGATAAAGAAAATCTCCCGGGTCTGAGCCAACAGGCAAACAAAAGATAAAAAAGTCTC
* * * * * * *
266035 TCGAGTTTGAGCCGACGGGTAGACAAAAGATAAAAAAGTCTCCCAAGTTTGAGCCGACAGGCAGA
66 CCGAGTCTAAGCCAACGGGTAGACAAAAGAT-AAAAAGTCTCCCAAGTCTAAGCCAACAGGCAGA
* * ** * *
266100 CAGAAGATAAAGAAAGTCT-CTAGGGTCTAAGACGATTG-GCAGACAAAAGATAAAGAAATCTCC
130 CAAAAGATAAAGAAAGTCTCCTA-GGTCTAAG-CCAACGACCAAACAAAAGATAAAGAAATCTCC
* * *
266163 TGAGTCTAAGCCGACAGGC
193 TGAGTCTAAGCCAATA-AC
* * * * * * * * * *
266182 A-ATCAAAAGATATAGTAAAGTCTCTCAGGTCTAAGTC--GA-GCAGACAAAAAATAAAGAAGTC
1 AGAT-AAAAGATAAAG-AAAATCTCCCGGGTCTGAGCCAACAGGCAAACAAAAGATAAAAAAGTC
* * * ** ** * * * * ** **
266243 TCCCGGGTCTAAGTCGATAGACAAACAAAAGATAAAGAAGTCTCCTAGGTTTCAA-CTGATTGGC
64 TCCCGAGTCTAAGCCAACGGGTAGACAAAAGATAAA-AAGTCTCCCAAGTCT-AAGCCAACAGGC
* * * * * * * *
266307 AGACAAAAGTTAAA-AAAGTCT-CTCGGGTCTGAGCCGACGAGCAAATAAAGGATAAAAAAAGTC
127 AGACAAAAGATAAAGAAAGTCTCCT-AGGTCTAAGCCAACGACCAAACAAAAGATAAAGAAA-TC
* * * ***
266370 TTC-GGGTCTAAGCCGATGGGT
190 TCCTGAGTCTAAGCCAAT-AAC
* * * * * *
266391 AGACAAAAGAT--A-AAAGTCTCCCAGGGTCTAAGCTAACAGGCAAATAAAAGATATAGGAAAGT
1 AGATAAAAGATAAAGAAAATCTCCC-GGGTCTGAGCCAACAGGCAAACAAAAGATA-A-AAAAGT
* * * * * *
266453 CTCCCTG-GTATAAGCCAACGGGTAGACAAAAAATAAGAAAGTCTCTCGAGTATAAGCCAATAGG
63 CTCCC-GAGTCTAAGCCAACGGGTAGACAAAAGATAA-AAAGTCTCCCAAGTCTAAGCCAACAGG
* * * *
266517 TAGACAAAAGATGAA-AAGGTCTCCTAGGTTTAAGCCA
126 CAGACAAAAGATAAAGAAAGTCTCCTAGGTCTAAGCCA
266554 GCGGGTAGAC
Statistics
Matches: 445, Mismatches: 113, Indels: 49
0.73 0.19 0.08
Matches are distributed among these distances:
205 9 0.02
206 8 0.02
207 1 0.00
208 3 0.01
209 135 0.30
210 180 0.40
211 88 0.20
212 4 0.01
213 17 0.04
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.18
Consensus pattern (210 bp):
AGATAAAAGATAAAGAAAATCTCCCGGGTCTGAGCCAACAGGCAAACAAAAGATAAAAAAGTCTC
CCGAGTCTAAGCCAACGGGTAGACAAAAGATAAAAAGTCTCCCAAGTCTAAGCCAACAGGCAGAC
AAAAGATAAAGAAAGTCTCCTAGGTCTAAGCCAACGACCAAACAAAAGATAAAGAAATCTCCTGA
GTCTAAGCCAATAAC
Found at i:266238 original size:336 final size:335
Alignment explanation
Indices: 265680--266540 Score: 780
Period size: 336 Copynumber: 2.6 Consensus size: 335
265670 CGGGCAGACA
* * * * *
265680 AAAAGATGAAAAAGTTTC-CTGAGTTTGAGTCGACGGGCAGACAAAAGATAAAAAAAGTCTCACA
1 AAAAGATAAAAAAGTCTCTC-GAGTTTGAGCCGACGGGTAGACAAAAGAT-AAAAAAGTCTCCCA
* * * * * * * *
265744 AGTCTGAACTGACTGGTAGATAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCAATAGGCAAACA
64 AGTCTGAACCGACAGGCAGACAAAAGATAAAGAAAGTCTCCAGGGTCTAAGACAATAGGCAAACA
* * ** * *
265809 AAAGATAAAGAAGTCTCCCGGGTCTAAGCCAATGGGTAGACAAAAGATAAAGAGTCTCCCAAGTC
129 AAAGATAAAGAAATCTCCCGAGTCTAAGCCAACAGGCAGACAAAAGATAAAAAGTCTCCCAAGTC
* * * *
265874 TAAGCTAATGGGCAGACAAAAGATAAAGAAAGTCTCCTAGGTCTAAG-CCA-ACGACCAAACAAA
194 TAAGCT-ACGAGCAGACAAAAAATAAAG-AAGTCTCCCAGGTCTAAGTCCATA-GA-CAAACAAA
* * *
265937 GGATAAAGAAGTCT-CTCGCGTCT-AAGC-CAATAACAGATAAAAGATAAAAAAATCTCTCGGGT
255 AGATAAAGAAGTCTCCTAG-GTCTCAA-CTCAATAACAGACAAAAGATAAAAAAATCTCTCGGGT
** *
265999 CTGAGTTGAC-AGGCAGAT
318 CTGAGCCGACGA-GCAAAT
266017 AAAAGATAAAAAAGTCTCTCGAGTTTGAGCCGACGGGTAGACAAAAGATAAAAAAGTCTCCCAAG
1 AAAAGATAAAAAAGTCTCTCGAGTTTGAGCCGACGGGTAGACAAAAGATAAAAAAGTCTCCCAAG
* * * * * * *
266082 TTTGAGCCGACAGGCAGACAGAAGATAAAGAAAGTCTCTAGGGTCTAAGACGATTGGCAGACAAA
66 TCTGAACCGACAGGCAGACAAAAGATAAAGAAAGTCTCCAGGGTCTAAGACAATAGGCAAACAAA
* * * *
266147 AGATAAAGAAATCTCCTGAGTCTAAGCCGACAGGCA-ATCAAAAGATATAGTAAAGTCTCTCAGG
131 AGATAAAGAAATCTCCCGAGTCTAAGCCAACAGGCAGA-CAAAAGATA-A--AAAGTCTCCCAAG
* *
266211 TCTAAG-T-CGAGCAGACAAAAAATAAAGAAGTCTCCCGGGTCTAAGTCGATAGACAAACAAAAG
192 TCTAAGCTACGAGCAGACAAAAAATAAAGAAGTCTCCCAGGTCTAAGTCCATAGACAAACAAAAG
* * * ** * *
266274 ATAAAGAAGTCTCCTAGGTTTCAACTGATTGGCAGACAAAAGTTAAAAAAGTCTCTCGGGTCTGA
257 ATAAAGAAGTCTCCTAGGTCTCAACTCAATAACAGACAAAAGATAAAAAAATCTCTCGGGTCTGA
266339 GCCGACGAGCAAAT
322 GCCGACGAGCAAAT
* * * * *
266353 AAAGGATAAAAAAAGTCT-TCGGGTCTAAGCCGATGGGTAGACAAAAGAT--AAAAGTCTCCCAG
1 AAAAGAT-AAAAAAGTCTCTCGAGTTTGAGCCGACGGGTAGACAAAAGATAAAAAAGTCTCCCA-
* ** * * * ** * * ** * *
266415 GGTCT-AAGCTAACAGGCAAATAAAAGATATAGGAAAGTCTCCCTGGTATAAGCCAACGGGTAGA
64 AGTCTGAA-CCGACAGGCAGACAAAAGATA-AAGAAAGTCTCCAGGGTCTAAGACAATAGGCAAA
* * * * * *
266479 CAAAAAAT-AAGAAAGTCTCTCGAGTATAAGCCAATAGGTAGACAAAAGATGAAAAGGTCTCC
127 CAAAAGATAAAGAAA-TCTCCCGAGTCTAAGCCAACAGGCAGACAAAAGAT-AAAAAGTCTCC
266541 TAGGTTTAAG
Statistics
Matches: 425, Mismatches: 81, Indels: 39
0.78 0.15 0.07
Matches are distributed among these distances:
334 20 0.05
335 67 0.16
336 262 0.62
337 58 0.14
338 2 0.00
339 16 0.04
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.18
Consensus pattern (335 bp):
AAAAGATAAAAAAGTCTCTCGAGTTTGAGCCGACGGGTAGACAAAAGATAAAAAAGTCTCCCAAG
TCTGAACCGACAGGCAGACAAAAGATAAAGAAAGTCTCCAGGGTCTAAGACAATAGGCAAACAAA
AGATAAAGAAATCTCCCGAGTCTAAGCCAACAGGCAGACAAAAGATAAAAAGTCTCCCAAGTCTA
AGCTACGAGCAGACAAAAAATAAAGAAGTCTCCCAGGTCTAAGTCCATAGACAAACAAAAGATAA
AGAAGTCTCCTAGGTCTCAACTCAATAACAGACAAAAGATAAAAAAATCTCTCGGGTCTGAGCCG
ACGAGCAAAT
Found at i:266561 original size:42 final size:42
Alignment explanation
Indices: 266460--266565 Score: 117
Period size: 42 Copynumber: 2.5 Consensus size: 42
266450 AGTCTCCCTG
*
266460 GTATAAGCCAACGGGTAGACAAAAAATAAGAAAGTCTCTCGA
1 GTATAAGCCAACGGGTAGACAAAAAATAAGAAAGTCTCTAGA
** * *
266502 GTATAAGCCAATAGGTAGACAAAAGATGAA-AAGGTCTCCTAG-
1 GTATAAGCCAACGGGTAGACAAAAAAT-AAGAAAGTCT-CTAGA
* *
266544 GTTTAAGCCAGCGGGTAGACAA
1 GTATAAGCCAACGGGTAGACAA
266566 GGGATCAAAG
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
42 48 0.91
43 5 0.09
ACGTcount: A:0.42, C:0.16, G:0.25, T:0.18
Consensus pattern (42 bp):
GTATAAGCCAACGGGTAGACAAAAAATAAGAAAGTCTCTAGA
Found at i:266750 original size:44 final size:44
Alignment explanation
Indices: 266702--267109 Score: 144
Period size: 44 Copynumber: 9.3 Consensus size: 44
266692 TGACTAATGC
*
266702 GGTAACCATACATCAAATCAGAATAAAAAGAATCTAACCAAGGT
1 GGTAACCATACGTCAAATCAGAATAAAAAGAATCTAACCAAGGT
* * * * * * * * ** *
266746 GGTAAACATACATCTAATAAG-A-AAGAGGCAAATTTGACTGAGGC
1 GGTAACCATACGTCAAATCAGAATAAAAAG--AATCTAACCAAGGT
*
266790 GGTAACCATACGTCAAATCGGAATCAAAAA-AATCTAACCAAGGT
1 GGTAACCATACGTCAAATCAGAAT-AAAAAGAATCTAACCAAGGT
* * * * * * *
266834 GATAACCATTCGTTAGA-CA-AA-AATGAAGTAGATTTAA-CTAGAGT
1 GGTAACCATACGTCAAATCAGAATAA-AAAG-A-ATCTAACCAAG-GT
* * * *
266878 GGTAACCATATGTCAAATC-GAAATGAAAATAACCTAACCAAGGT
1 GGTAACCATACGTCAAATCAG-AATAAAAAGAATCTAACCAAGGT
* * ** * * * *
266922 GGTAACCATACATCAGA-CAGAA-AGGAGGCAGATTTGA-CTAGGCCT
1 GGTAACCATACGTCAAATCAGAATAAAAAG-A-ATCTAACCAAGG--T
* *
266967 GGTAACCATACGTCAAATTAGAATGAAGAA-AATCTAACCAAGGT
1 GGTAACCATACGTCAAATCAGAAT-AAAAAGAATCTAACCAAGGT
* ** * * * * * *
267011 GGTAACCATACGTTAGAA-GGGAAGAGACAG-ATTTGA-CTAGGAT
1 GGTAACCATACGTCA-AATCAGAATAAAAAGAATCTAACCAAGG-T
* * * *
267054 GGTAACCATACATCAAATTAGAATAAAAAGAATCTAACTAGGGT
1 GGTAACCATACGTCAAATCAGAATAAAAAGAATCTAACCAAGGT
*
267098 GCTAACCATACG
1 GGTAACCATACG
267110 CTAGACAAGG
Statistics
Matches: 249, Mismatches: 85, Indels: 60
0.63 0.22 0.15
Matches are distributed among these distances:
40 2 0.01
41 2 0.01
42 13 0.05
43 41 0.16
44 141 0.57
45 30 0.12
46 13 0.05
47 4 0.02
48 3 0.01
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.21
Consensus pattern (44 bp):
GGTAACCATACGTCAAATCAGAATAAAAAGAATCTAACCAAGGT
Found at i:266782 original size:88 final size:88
Alignment explanation
Indices: 266651--267191 Score: 436
Period size: 88 Copynumber: 6.2 Consensus size: 88
266641 AAATTGTTTG
* *
266651 ACCAAGGTGG-AACCATACATC-A-AATAGGAAGGAGGCAGATTTGACTAATGCGGTAACCATAC
1 ACCAAGGTGGTAACCATACATCTAGAA-A-GAAAGAGGCAGATTTGACTAAGGCGGTAACCATAC
266713 ATCAAATCAGAATAAAAAGAATCTA
64 ATCAAATCAGAATAAAAAGAATCTA
* * * *
266738 ACCAAGGTGGTAAACATACATCTA-ATAAGAAAGAGGCAAATTTGACTGAGGCGGTAACCATACG
1 ACCAAGGTGGTAACCATACATCTAGA-AAGAAAGAGGCAGATTTGACTAAGGCGGTAACCATACA
*
266802 TCAAATCGGAATCAAAAA-AATCTA
65 TCAAATCAGAAT-AAAAAGAATCTA
* * * * * * *
266826 ACCAAGGTGATAACCATTCGT-TAGACAA-AAATGAAGTAGATTTAACT-AGAGTGGTAACCATA
1 ACCAAGGTGGTAACCATACATCTAGA-AAGAAA-GAGGCAGATTTGACTAAG-GCGGTAACCATA
** * * *
266888 TGTCAAATC-GAAATGAAAATAACCTA
63 CATCAAATCAG-AATAAAAAGAATCTA
*
266914 ACCAAGGTGGTAACCATACATC-AGACAGAAAGGAGGCAGATTTGACT-AGGCCTGGTAACCATA
1 ACCAAGGTGGTAACCATACATCTAGAAAGAAA-GAGGCAGATTTGACTAAGG-C-GGTAACCATA
* * *
266977 CGTCAAATTAGAATGAAGAA-AATCTA
63 CATCAAATCAGAAT-AAAAAGAATCTA
* * * * *
267003 ACCAAGGTGGTAACCATACGT-TAGAAGGGAAGAGACAGATTTGACT-AGGATGGTAACCATACA
1 ACCAAGGTGGTAACCATACATCTAGAAAGAAAGAGGCAGATTTGACTAAGG-CGGTAACCATACA
*
267066 TCAAATTAGAATAAAAAGAATCTA
65 TCAAATCAGAATAAAAAGAATCTA
* * * * * * * * *
267090 ACTAGGGTGCTAACCATAC-GCTAGACAAG---GAGGCAAATTTGACCACGGTGGTAACCATATA
1 ACCAAGGTGGTAACCATACATCTAGA-AAGAAAGAGGCAGATTTGACTAAGGCGGTAACCATACA
** * *
267151 T-AAATTGGAATACAAAGAATCTG
65 TCAAATCAGAATAAAAAGAATCTA
*
267174 ACCAGGGTGGTAACCATA
1 ACCAAGGTGGTAACCATA
267192 TGCCAGACAA
Statistics
Matches: 376, Mismatches: 58, Indels: 43
0.79 0.12 0.09
Matches are distributed among these distances:
84 35 0.09
85 25 0.07
86 6 0.02
87 73 0.19
88 173 0.46
89 59 0.16
90 5 0.01
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.20
Consensus pattern (88 bp):
ACCAAGGTGGTAACCATACATCTAGAAAGAAAGAGGCAGATTTGACTAAGGCGGTAACCATACAT
CAAATCAGAATAAAAAGAATCTA
Found at i:267254 original size:39 final size:39
Alignment explanation
Indices: 267180--267255 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 39
267170 TCTGACCAGG
* *
267180 GTGGTAACCATATGCCAGACAAGAAAAAAGTAGATTTAA
1 GTGGTAACCATACGCCAGACAAGAAAAAAGCAGATTTAA
* *
267219 GTGGTAACCATACGTCAGAC-AGAAAGGAAGCAGATTT
1 GTGGTAACCATACGCCAGACAAGAAA-AAAGCAGATTT
267256 GACCAAGGCG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 5 0.16
39 27 0.84
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (39 bp):
GTGGTAACCATACGCCAGACAAGAAAAAAGCAGATTTAA
Found at i:267369 original size:85 final size:85
Alignment explanation
Indices: 267221--267448 Score: 280
Period size: 85 Copynumber: 2.7 Consensus size: 85
267211 AGATTTAAGT
* * * * *
267221 GGTAACCATACGTC-AGACAGAAAGGAAGCAGATTTGACCAAGGCGGTAACTATACCTCCAATCA
1 GGTAACCATACGTCAAG-GAGAAA-G--GCAGATTTGACCAGGGTGGTAACTATACGTCAAATCA
* *
267285 AAATGAAAATAATCTGACTAAGGA
62 AAATGAAAAGAATCTGACCAAGGA
*
267309 GGTAACCATACGTCAAGGAGAAAGGCAGATTTGACCAGGGTGGTAACTATACGTTAAATCAAAAT
1 GGTAACCATACGTCAAGGAGAAAGGCAGATTTGACCAGGGTGGTAACTATACGTCAAATCAAAAT
*
267374 GAAAAGAGTCTGACCAAGGA
66 GAAAAGAATCTGACCAAGGA
* * * * *
267394 GGTAACTATATGTCAAGGAGAGATGCAGATTTGACCAGGATGGTAAC-ATACGTCA
1 GGTAACCATACGTCAAGGAGAAAGGCAGATTTGACCAGGGTGGTAACTATACGTCA
267449 GACAGGAAAG
Statistics
Matches: 124, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
84 7 0.06
85 95 0.77
87 1 0.01
88 19 0.15
89 2 0.02
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (85 bp):
GGTAACCATACGTCAAGGAGAAAGGCAGATTTGACCAGGGTGGTAACTATACGTCAAATCAAAAT
GAAAAGAATCTGACCAAGGA
Found at i:267398 original size:44 final size:43
Alignment explanation
Indices: 267250--267403 Score: 125
Period size: 44 Copynumber: 3.6 Consensus size: 43
267240 GAAAGGAAGC
* * * *
267250 AGATTTGACCAAGGCGGTAACTATACCTCCAATCAAAATGAAA
1 AGATCTGACCAAGGAGGTAACTATACGTTCAATCAAAATGAAA
* * * ** **
267293 ATAATCTGACTAAGGAGGTAACCATACG-TCAAGGAGAAA-G-GC
1 A-GATCTGACCAAGGAGGTAACTATACGTTCAATCA-AAATGAAA
* * * *
267335 AGATTTGACCAGGGTGGTAACTATACGTTAAATCAAAATGAAA
1 AGATCTGACCAAGGAGGTAACTATACGTTCAATCAAAATGAAA
267378 AGAGTCTGACCAAGGAGGTAACTATA
1 AGA-TCTGACCAAGGAGGTAACTATA
267404 TGTCAAGGAG
Statistics
Matches: 80, Mismatches: 25, Indels: 11
0.69 0.22 0.09
Matches are distributed among these distances:
41 23 0.29
42 6 0.08
43 9 0.11
44 42 0.52
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.21
Consensus pattern (43 bp):
AGATCTGACCAAGGAGGTAACTATACGTTCAATCAAAATGAAA
Found at i:267603 original size:48 final size:48
Alignment explanation
Indices: 267550--267895 Score: 215
Period size: 48 Copynumber: 7.2 Consensus size: 48
267540 GGAAATATGT
* *
267550 GAGTTTGACCAGGCCCTAACACCAATATAGTTAAACGAAGGATGAAAA
1 GAGTTTGACCAGGCCCTAACACCAATACAGTCAAACGAAGGATGAAAA
** * * * **
267598 GAGTTTGACTGGGCCCTAACACC-ATACAGTTAAATGAAGGAAGATTTA
1 GAGTTTGACCAGGCCCTAACACCAATACAGTCAAACGAAGGATGA-AAA
* ** ** * * *
267646 -AGTTTCAGTAGGTTCTAACACCAATACAATTAAAC-AAGGGATGAGAA
1 GAGTTTGACCAGGCCCTAACACCAATACAGTCAAACGAA-GGATGAAAA
* ** * * **
267693 GAGTTTGACCAGGCCCTGACACC-ATATTGTCAAACGAGGGAAGATTTA
1 GAGTTTGACCAGGCCCTAACACCAATACAGTCAAACGAAGGATGA-AAA
* * *
267741 -AGTTTGACCTAGGCCCTAACACCAATACAATCCAATG-AGAGATGAAAA
1 GAGTTTGACC-AGGCCCTAACACCAATACAGTCAAACGAAG-GATGAAAA
* * * *
267789 GAGTTTGACCAAGTCCTAA-AGCCAATACAGTCAAACG-GGGGTGGAAAA
1 GAGTTTGACCAGGCCCTAACA-CCAATACAGTCAAACGAAGGAT-GAAAA
* * ** * * **
267837 -AATTTGATCAATCCCTAACACCAATACAGTCAAATGAGGGACAAAAA
1 GAGTTTGACCAGGCCCTAACACCAATACAGTCAAACGAAGGATGAAAA
267884 GAGTTTGACCAG
1 GAGTTTGACCAG
267896 ATATAGTCAA
Statistics
Matches: 224, Mismatches: 59, Indels: 30
0.72 0.19 0.10
Matches are distributed among these distances:
47 96 0.43
48 107 0.48
49 21 0.09
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (48 bp):
GAGTTTGACCAGGCCCTAACACCAATACAGTCAAACGAAGGATGAAAA
Found at i:267664 original size:95 final size:95
Alignment explanation
Indices: 267565--267825 Score: 274
Period size: 95 Copynumber: 2.7 Consensus size: 95
267555 TGACCAGGCC
* * ** *
267565 CTAACACCAATATAGTTAAACGAA-GGATGAAAAGAGTTTGACTGGGCCCTAACACCATACAGTT
1 CTAACACCAATACAATTAAAC-AAGGGATGAAAAGAGTTTGACCAGGCCCTAACACCATACAGTC
*
267629 AAATGAAGGAAGATTTAAGTTTCAGTAGGTT
65 AAACGAAGGAAGATTTAAGTTTCAGTAGGTT
* * **
267660 CTAACACCAATACAATTAAACAAGGGATGAGAAGAGTTTGACCAGGCCCTGACACCATATTGTCA
1 CTAACACCAATACAATTAAACAAGGGATGAAAAGAGTTTGACCAGGCCCTAACACCATACAGTCA
* * * **
267725 AACGAGGGAAGATTTAAGTTTGACCTAGGCC
66 AACGAAGGAAGATTTAAGTTTCA-GTAGGTT
** ** * * *
267756 CTAACACCAATACAATCCAATGAGAGATGAAAAGAGTTTGACCAAGTCCTAA-AGCCAATACAGT
1 CTAACACCAATACAATTAAACAAGGGATGAAAAGAGTTTGACCAGGCCCTAACA-CC-ATACAGT
267820 CAAACG
64 CAAACG
267826 GGGGTGGAAA
Statistics
Matches: 136, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
94 2 0.01
95 74 0.54
96 49 0.36
97 11 0.08
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.21
Consensus pattern (95 bp):
CTAACACCAATACAATTAAACAAGGGATGAAAAGAGTTTGACCAGGCCCTAACACCATACAGTCA
AACGAAGGAAGATTTAAGTTTCAGTAGGTT
Found at i:269490 original size:33 final size:33
Alignment explanation
Indices: 269426--269490 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
269416 TTTGAAGTAG
* *
269426 TGTATCGATACAATTTCTCATGTATCAATACAT
1 TGTATCGATACAATTGCTCATGCATCAATACAT
*
269459 TGTATCGATACAATGTGC-CATGCATCGATACA
1 TGTATCGATACAAT-TGCTCATGCATCAATACA
269491 AACAGTGGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAATTGCTCATGCATCAATACAT
Found at i:271737 original size:13 final size:13
Alignment explanation
Indices: 271719--271743 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
271709 CATAAAATGT
271719 TGTATCGATACAA
1 TGTATCGATACAA
271732 TGTATCGATACA
1 TGTATCGATACA
271744 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:271741 original size:33 final size:33
Alignment explanation
Indices: 271699--271768 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
271689 TTCAACGATT
271699 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** * *
271732 TGTATCGATACATATTTTTTTGTATCGATACAG
1 TGTATCGATACATAAAATGTTGTATCGATACAA
271765 TGTA
1 TGTA
271769 AGCTACTGCC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:271826 original size:13 final size:13
Alignment explanation
Indices: 271808--271832 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
271798 ATTACTCACA
271808 TGTATCGATACAT
1 TGTATCGATACAT
271821 TGTATCGATACA
1 TGTATCGATACA
271833 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:271897 original size:52 final size:52
Alignment explanation
Indices: 271841--271960 Score: 231
Period size: 52 Copynumber: 2.3 Consensus size: 52
271831 CACTGATCTT
271841 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
*
271893 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
271945 TGTATCGATACATGCA
1 TGTATCGATACATGCA
271961 AGCATTTTTT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
Found at i:272239 original size:21 final size:21
Alignment explanation
Indices: 272214--272254 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
272204 ACACAAACAA
272214 AAGTCAAAAAAAAAAAAAAAG
1 AAGTCAAAAAAAAAAAAAAAG
* *
272235 AAGTCAAAAAACAAACAAAA
1 AAGTCAAAAAAAAAAAAAAA
272255 CAAAAAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.78, C:0.10, G:0.07, T:0.05
Consensus pattern (21 bp):
AAGTCAAAAAAAAAAAAAAAG
Found at i:272538 original size:16 final size:14
Alignment explanation
Indices: 272515--272604 Score: 99
Period size: 15 Copynumber: 6.0 Consensus size: 14
272505 GTTCTTTTCC
272515 AAAAAAAAGAAACAA
1 AAAAAAAAGAAA-AA
272530 AACAAAAAAGAAAAA
1 AA-AAAAAAGAAAAA
* *
272545 AAAGAAGAAGAAACA
1 AAA-AAAAAGAAAAA
*
272560 AAAAAAAACAAAAA
1 AAAAAAAAGAAAAA
272574 AAAAAAAAGGAAAAA
1 AAAAAAAA-GAAAAA
272589 ACAAAAAAACGAAAAA
1 A-AAAAAAA-GAAAAA
272605 CCCCTTTTCA
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
14 17 0.27
15 24 0.38
16 23 0.36
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (14 bp):
AAAAAAAAGAAAAA
Found at i:272591 original size:32 final size:30
Alignment explanation
Indices: 272515--272597 Score: 96
Period size: 31 Copynumber: 2.7 Consensus size: 30
272505 GTTCTTTTCC
* *
272515 AAAAAA-AAGAAACAAAACAAAAAAGAAAAA
1 AAAAAAGAAAAAACAAAA-AAAAAAAAAAAA
* *
272545 AAAGAAGAAGAAACAAAAAAAAACAAAAAAA
1 AAAAAAGAAAAAACAAAAAAAAA-AAAAAAA
272576 AAAAAAGGAAAAAACAAAAAAA
1 AAAAAA-GAAAAAACAAAAAAA
272598 CGAAAAACCC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
30 10 0.22
31 22 0.48
32 14 0.30
ACGTcount: A:0.86, C:0.06, G:0.08, T:0.00
Consensus pattern (30 bp):
AAAAAAGAAAAAACAAAAAAAAAAAAAAAA
Found at i:272603 original size:15 final size:14
Alignment explanation
Indices: 272516--272605 Score: 67
Period size: 16 Copynumber: 6.0 Consensus size: 14
272506 TTCTTTTCCA
*
272516 AAAAAAAGAAACAAA
1 AAAAAAAGAAA-AAC
272531 ACAAAAAAGAAAAA-
1 A-AAAAAAGAAAAAC
272545 AAAGAAGAAGAAACAA-
1 AAA-AA-AAGAAA-AAC
* *
272561 AAAAAAACAAAAAA
1 AAAAAAAGAAAAAC
272575 AAAAAAAGGAAAAAAC
1 AAAAAAA-G-AAAAAC
272591 AAAAAAACGAAAAAC
1 AAAAAAA-GAAAAAC
272606 CCCTTTTCAC
Statistics
Matches: 64, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
13 4 0.06
14 15 0.23
15 17 0.27
16 28 0.44
ACGTcount: A:0.83, C:0.08, G:0.09, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAAAAAC
Found at i:272604 original size:1 final size:1
Alignment explanation
Indices: 272515--272597 Score: 58
Period size: 1 Copynumber: 83.0 Consensus size: 1
272505 GTTCTTTTCC
* * * * * * * * *
272515 AAAAAAAAGAAACAAAACAAAAAAGAAAAAAAAGAAGAAGAAACAAAAAAAAACAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** *
272580 AAGGAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAA
272598 CGAAAAACCC
Statistics
Matches: 60, Mismatches: 22, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 60 1.00
ACGTcount: A:0.86, C:0.06, G:0.08, T:0.00
Consensus pattern (1 bp):
A
Found at i:272604 original size:31 final size:31
Alignment explanation
Indices: 272515--272604 Score: 100
Period size: 29 Copynumber: 3.0 Consensus size: 31
272505 GTTCTTTTCC
*
272515 AAAAAAAAGAAACAAAAC-AAAAAA-GAAAAA
1 AAAAAAAAGGAA-AAAACAAAAAAACGAAAAA
* *
272545 AAAGAAGAA-GAAACAA-AAAAAAAC-AAAAA
1 AAA-AAAAAGGAAAAAACAAAAAAACGAAAAA
272574 AAAAAAAAGGAAAAAACAAAAAAACGAAAAA
1 AAAAAAAAGGAAAAAACAAAAAAACGAAAAA
272605 CCCCTTTTCA
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
28 4 0.08
29 23 0.47
30 13 0.27
31 9 0.18
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (31 bp):
AAAAAAAAGGAAAAAACAAAAAAACGAAAAA
Found at i:273646 original size:34 final size:33
Alignment explanation
Indices: 273592--274142 Score: 466
Period size: 34 Copynumber: 16.9 Consensus size: 33
273582 TCCGTGGCAC
*
273592 CCTTCTAAGCCCACAACTCCGTGGCACCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACCTTTTT
* * *
273625 CTTTTTAAAGCCCACAGCTCCGTGGCACTCTTTTC
1 CCTTTT-AAGCCCACAACTCCGTGGCAC-CTTTTT
*
273660 CCATTTAAGCCCACAACTCCGTGGCA-C-----
1 CCTTTTAAGCCCACAACTCCGTGGCACCTTTTT
* * *
273687 CCTTTTAAGTCCACAACTCAGTGGCACC-TTCT
1 CCTTTTAAGCCCACAACTCCGTGGCACCTTTTT
* ** ** *
273719 -CATCAAAGCCCACAACTTTGTGGCACTCGTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCAC-CTTTTT
* * *
273752 CCTTCTAAGCCCACAGCTCCGTGGCACTCTTTTC
1 CCTTTTAAGCCCACAACTCCGTGGCAC-CTTTTT
* *
273786 CCGTTTAAGCCCACAACTCTGTGGCA-C-----
1 CCTTTTAAGCCCACAACTCCGTGGCACCTTTTT
273813 CCTTTTAAGCCCACAACTCCGTGGCACCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACCTTTTT
*
273846 CTTTTTACAGCCCACAACTCCGTGGCACTCTTTTT
1 CCTTTTA-AGCCCACAACTCCGTGGCAC-CTTTTT
*
273881 CCCTTGTTAAAGCCCACAACTCCGTGGCACCTTCTT
1 -CCTT-TT-AAGCCCACAACTCCGTGGCACCTTTTT
**
273917 --TTCAAAGCCCACAACTCCGTGGCA-C-----
1 CCTTTTAAGCCCACAACTCCGTGGCACCTTTTT
* * *
273942 CCTTTTAAGTCCACGACTACGTGGCA-CTCTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACCT-TTTT
* *
273975 CCTTTAAAGCCCACAACTACGTGGCA-CTCTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACCT-TTTT
* *
274008 CCTTCTAAGCCCACAACTCTGTGGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCAC-CTTTTT
*
274042 CCTTCTAAGCCCACAACTCCGTGGCACTCTTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCAC-C-TTTTT
*
274077 CCCTTTTAAAGCCCACAACTCCGTGGCACCTTGTT
1 -CCTTTT-AAGCCCACAACTCCGTGGCACCTTTTT
* * * *
274112 CTTTTTAAGTCCACAACTTCGTGGCATCTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACCTTT
274143 CACCCTTTCT
Statistics
Matches: 429, Mismatches: 55, Indels: 68
0.78 0.10 0.12
Matches are distributed among these distances:
27 67 0.16
28 2 0.00
30 1 0.00
31 40 0.09
32 3 0.01
33 88 0.21
34 144 0.34
35 26 0.06
36 14 0.03
37 43 0.10
38 1 0.00
ACGTcount: A:0.20, C:0.36, G:0.14, T:0.31
Consensus pattern (33 bp):
CCTTTTAAGCCCACAACTCCGTGGCACCTTTTT
Found at i:273701 original size:95 final size:92
Alignment explanation
Indices: 273575--274142 Score: 371
Period size: 95 Copynumber: 5.9 Consensus size: 92
273565 TCTTCAAAGT
* *
273575 CCACGACTCCGTGGCA-CCCTTCTAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCA
1 CCACAACTCCGTGGCATCCCTTTTAAGCCCACAACTCCGTGGCACC---TTCTTTTTAAAGCCCA
*
273639 CAGCTCCGTGGCACTCTTTTCCCATTTAAGC
63 CAACTCCGTGGCACTCTTTTCCC-TTTAAGC
* * ** *
273670 CCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCAGTGGCACCTTCTCATCAAAGCCCACAA
1 CCACAACTCCGTGGCATCCCTTTTAAGCCCACAACTCCGTGGCACCTTCTTTTTAAAGCCCACAA
**
273734 CTTTGTGGCACTCGTTTT-CCTTCTAAGC
66 CTCCGTGGCACTC-TTTTCCCTT-TAAGC
* * *
273762 CCACAGCTCCGTGGCACTCTTTTCCCGTTTAAGCCCACAACTCTGTGGCACC--C-TTTT-AAGC
1 CCACAACTCCGTGGCA------TCCCTTTTAAGCCCACAACTCCGTGGCACCTTCTTTTTAAAGC
**
273823 CCACAACTCCGTGGCAC-CTTTTTCTTTTTACAGC
60 CCACAACTCCGTGGCACTC-TTTTCCCTTTA-AGC
*
273857 CCACAACTCCGTGGCACTCTTTTTCCCTTGTTAAAGCCCACAACTCCGTGGCACCTTCTTTTCAA
1 CCACAACTCCGTGGCA-------TCCCTT-TT-AAGCCCACAACTCCGTGGCACCTTCTTTTTAA
* *
273922 AGCCCACAACTCCGTGGCA--C----CCTTTTAAGT
57 AGCCCACAACTCCGTGGCACTCTTTTCCCTTTAAGC
* * * *
273952 CCACGACTACGTGGCACTCTTTTCCTTTAAAGCCCACAACTACGTGGCACTCTT-TTCCTTCT-A
1 CCACAACTCCGTGGCA-TC----CCTTTTAAGCCCACAACTCCGTGGCAC-CTTCTT--TT-TAA
* *
274015 AGCCCACAACTCTGTGGCACTCTTTTTCCTTCTAAGC
57 AGCCCACAACTCCGTGGCACTCTTTTCCCTT-TAAGC
274052 CCACAACTCCGTGGCACTCTTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACCTTGTTCTTTT
1 CCACAACTCCGTGGCA--------TCCCTTTT-AAGCCCACAACTCCGTGGCACC---TTCTTTT
* *
274117 T-AAGTCCACAACTTCGTGGCA-TCTTT
54 TAAAGCCCACAACTCCGTGGCACTCTTT
274143 CACCCTTTCT
Statistics
Matches: 379, Mismatches: 49, Indels: 82
0.74 0.10 0.16
Matches are distributed among these distances:
89 2 0.01
91 24 0.06
92 52 0.14
93 29 0.08
94 7 0.02
95 97 0.26
96 15 0.04
97 3 0.01
98 21 0.06
99 29 0.08
100 19 0.05
101 4 0.01
102 20 0.05
103 11 0.03
104 38 0.10
105 2 0.01
106 2 0.01
107 4 0.01
ACGTcount: A:0.20, C:0.36, G:0.14, T:0.30
Consensus pattern (92 bp):
CCACAACTCCGTGGCATCCCTTTTAAGCCCACAACTCCGTGGCACCTTCTTTTTAAAGCCCACAA
CTCCGTGGCACTCTTTTCCCTTTAAGC
Found at i:273779 original size:126 final size:127
Alignment explanation
Indices: 273598--274074 Score: 580
Period size: 126 Copynumber: 3.8 Consensus size: 127
273588 GCACCCTTCT
* * *
273598 AAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTTAAAGCCCACAGCTCCGTGGCACTCTTTTCCC
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAAGCCCACAACTCCGTGGCACTCTTTTCCC
* *
273662 ATTTAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCAGTGGCACCTTCTCATCA
66 ATTTAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCAGTGGCACCTTCTCTTTA
** * *
273724 AAGCCCACAACTTTGTGGCACTCGTTTTCCTTCT-AAGCCCACAGCTCCGTGGCACTCTTTTCCC
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAAGCCCACAACTCCGTGGCACTCTTTTCCC
* * * * *
273788 GTTTAAGCCCACAACTCTGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTA
66 ATTTAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCAGTGGCACC---TTCTCTTTA
* *
273853 CAGCCCACAACTCCGTGGCACTCTTTTTCCCTTGTTAAAGCCCACAACTCCGTGGCACCTTCTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTT-CCTT-CTAAAGCCCACAACTCCGTGGCA-C-TCTTT
* *
273918 T--CA---AAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACGACT-ACGTGGCACTCTTTTCC
62 TCCCATTTAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCA-GTGGCAC-CTTCT-C
273977 TTTA
124 TTTA
* * *
273981 AAGCCCACAACTACGTGGCACTC-TTTTCCTTCT-AAGCCCACAACTCTGTGGCACTCTTTTTCC
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAAGCCCACAACTCCGTGGCACTCTTTTCCC
*
274044 -TTCTAAGCCCACAACTCCGTGGCACTCTTTT
66 ATT-TAAGCCCACAACTCCGTGGCACCCTTTT
274075 TTCCCTTTTA
Statistics
Matches: 303, Mismatches: 30, Indels: 35
0.82 0.08 0.10
Matches are distributed among these distances:
122 6 0.02
123 1 0.00
124 20 0.07
125 1 0.00
126 102 0.34
127 42 0.14
128 25 0.08
129 73 0.24
130 5 0.02
131 1 0.00
132 20 0.07
133 1 0.00
134 6 0.02
ACGTcount: A:0.20, C:0.36, G:0.14, T:0.30
Consensus pattern (127 bp):
AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAAGCCCACAACTCCGTGGCACTCTTTTCCC
ATTTAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCAGTGGCACCTTCTCTTTA
Found at i:274070 original size:195 final size:194
Alignment explanation
Indices: 273597--274108 Score: 578
Period size: 195 Copynumber: 2.6 Consensus size: 194
273587 GGCACCCTTC
* * *
273597 TAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAGCTCCGTGGCACTCTTTTCCC
1 TAAGCCCACAACT-CGTGGCACC-TTTTCCTTTT-AAGCCCACAACTCCGTGGCACTCTTTTTCC
* *
273662 ATTTAAGCCCACAACTCCGTGGCA--------CCCTTTT-AAGTCCACAACTCAGTGGCACCTTC
63 -TTTAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACCTTC
** *
273718 TCATCAAAGCCCACAACTTTGTGGCACTCGTTTTCCTTCTAAGCCCACAGCTCCGTGGCACTCTT
127 TCATCAAAGCCCACAACTCCGTGGCAC-C----TCCTTCTAAGCCCACAGCTACGTGGCACTCTT
273783 TTCCCGTT
187 TTCCCGTT
*
273791 TAAGCCCACAACTCTGTGGCA-C----CCTTTTAAGCCCACAACTCCGTGGCAC-CTTTTTCTTT
1 TAAGCCCACAACTC-GTGGCACCTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTC-CT
273850 TTACAGCCCACAACTCCGTGGCACTCTTTTTCCCTTGTTAAAGCCCACAACTCCGTGGCACCTTC
64 TTA-AGCCCACAACTCCGTGGCACTCTTTTTCCCTT-TTAAAGCCCACAACTCCGTGGCACCTTC
** * *
273915 TTTTCAAAGCCCACAACTCCGTGGCA-C-CCTTTTAAGTCCAC-GACTACGTGGCACTCTTTT-C
127 TCATCAAAGCCCACAACTCCGTGGCACCTCCTTCTAAGCCCACAG-CTACGTGGCACTCTTTTCC
273976 C-TT
191 CGTT
* *
273979 TAAAGCCCACAACTACGTGGCACTCTTTTCCTTCTAAGCCCACAACTCTGTGGCACTCTTTTTCC
1 T-AAGCCCACAACT-CGTGGCAC-CTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCC
274044 TTCTAAGCCCACAACTCCGTGGCACTCTTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACCTT
63 TT-TAAGCCCACAACTCCGTGGCACTC-TTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACCTT
274109 GTTCTTTTTA
Statistics
Matches: 277, Mismatches: 16, Indels: 49
0.81 0.05 0.14
Matches are distributed among these distances:
186 10 0.04
187 39 0.14
188 8 0.03
189 21 0.08
190 29 0.10
191 1 0.00
193 2 0.01
194 19 0.07
195 82 0.30
196 21 0.08
197 45 0.16
ACGTcount: A:0.20, C:0.36, G:0.14, T:0.30
Consensus pattern (194 bp):
TAAGCCCACAACTCGTGGCACCTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTT
AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACCTTCTCAT
CAAAGCCCACAACTCCGTGGCACCTCCTTCTAAGCCCACAGCTACGTGGCACTCTTTTCCCGTT
Found at i:274225 original size:65 final size:66
Alignment explanation
Indices: 274150--274281 Score: 239
Period size: 65 Copynumber: 2.0 Consensus size: 66
274140 TTTCACCCTT
*
274150 TCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTC-AAAGCCCACACAAGTCGGTGGCAACCATT
1 TCTAAAGCCCACACAAGTCGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGCAACCATT
274214 C
66 C
*
274215 TCTAAAGCCCACACAAGTCGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTT
1 TCTAAAGCCCACACAAGTCGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGCAACCATT
274280 C
66 C
274281 T
1 T
274282 AACCCCAATA
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
65 34 0.53
66 30 0.47
ACGTcount: A:0.29, C:0.35, G:0.18, T:0.18
Consensus pattern (66 bp):
TCTAAAGCCCACACAAGTCGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGCAACCATT
C
Found at i:274227 original size:33 final size:33
Alignment explanation
Indices: 274150--274281 Score: 239
Period size: 33 Copynumber: 4.0 Consensus size: 33
274140 TTTCACCCTT
*
274150 TCTAAAGCCCACACAAGTCGGTGGCAACCCTTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
274183 TC-AAAGCCCACACAAGTCGGTGGCAACCATTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
274215 TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
*
274248 TCTAAAGCCCACACAAGTCGGTGGCAACCCTTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
274281 T
1 T
274282 AACCCCAATA
Statistics
Matches: 96, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
32 31 0.32
33 65 0.68
ACGTcount: A:0.29, C:0.35, G:0.18, T:0.18
Consensus pattern (33 bp):
TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
Found at i:274339 original size:49 final size:48
Alignment explanation
Indices: 274286--274784 Score: 624
Period size: 49 Copynumber: 10.6 Consensus size: 48
274276 CCTTCTAACC
* *
274286 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTTTAAGT
274335 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C--CTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCATCTTTAAGT
* * *
274378 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA---C--CTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCATCTTTAAGT
274421 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C--CTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCATCTTTAAGT
* * *
274464 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCACCTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCAT---CTTTAAGT
*
274516 CCAATGTAGCTGGCCTTGAATCAACACATTGGCA---C--CTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCATCTTTAAGT
* * *
274559 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTTTAAGT
* * * *
274608 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTACGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTTTAAGT
*
274657 CCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTTTAAGT
*
274706 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCACCTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCATCTTTAAGT
274754 CCAATGTAGCTGGCCTTGAATCAGCACATTG
1 CCAATGTAGCTGGCCTTGAATCAGCACATTG
274785 ACATCCTTTT
Statistics
Matches: 406, Mismatches: 29, Indels: 31
0.87 0.06 0.07
Matches are distributed among these distances:
43 157 0.39
45 1 0.00
47 2 0.00
48 45 0.11
49 163 0.40
52 38 0.09
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (48 bp):
CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCATCTTTAAGT
Found at i:274573 original size:95 final size:92
Alignment explanation
Indices: 274286--274784 Score: 713
Period size: 95 Copynumber: 5.3 Consensus size: 92
274276 CCTTCTAACC
*
274286 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
274351 TGAATCAGCACATTGGCACCTTTAAGT
66 TGAATCAGCACATTGGCACCTTTAAGT
* *
274378 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA----C--CTTTAAGTCCAATGTAGCTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
274437 TGAATCAGCACATTGGCACCTTTAAGT
66 TGAATCAGCACATTGGCACCTTTAAGT
* *
274464 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCACCTTTAAGTCCAATGTAGCTGG
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCAT---CTTTAAGTCCAATGTAGCTGG
*
274529 CCTTGAATCAACACATTGGCACCTTTAAGT
63 CCTTGAATCAGCACATTGGCACCTTTAAGT
* * *
274559 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
*
274624 TGAATCAGCATATTGGCACCTTTATCTTTACGT
66 TGAATCAGCACATTGGCACCTTTA-----A-GT
* *
274657 CCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
274722 TGAATCAGCACATTGGCACTTCACCTTTAAGT
66 TGAATCAGCACATTGG-----CACCTTTAAGT
*
274754 CCAATGTAGCTGGCCTTGAATCAGCACATTG
1 CCAATATAGCTGGCCTTGAATCAGCACATTG
274785 ACATCCTTTT
Statistics
Matches: 375, Mismatches: 12, Indels: 35
0.89 0.03 0.08
Matches are distributed among these distances:
86 85 0.23
88 1 0.00
90 1 0.00
92 78 0.21
95 91 0.24
97 33 0.09
98 78 0.21
103 8 0.02
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (92 bp):
CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
TGAATCAGCACATTGGCACCTTTAAGT
Found at i:275035 original size:49 final size:49
Alignment explanation
Indices: 274862--275196 Score: 477
Period size: 49 Copynumber: 6.9 Consensus size: 49
274852 CTTTTCTCAT
* * *
274862 CTTCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
*
274911 CTTCATCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCA-
1 CTTCAT---CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
274962 ---C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* *
275006 CTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
275055 CTTTATCTTTACGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC
1 CTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
275104 CTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-
1 CTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
*
275152 CTTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
1 CTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
275197 ACATCCTTTT
Statistics
Matches: 259, Mismatches: 18, Indels: 19
0.88 0.06 0.06
Matches are distributed among these distances:
43 38 0.15
47 1 0.00
48 45 0.17
49 137 0.53
52 38 0.15
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (49 bp):
CTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:275220 original size:412 final size:412
Alignment explanation
Indices: 274456--275616 Score: 2234
Period size: 412 Copynumber: 2.8 Consensus size: 412
274446 ACATTGGCAC
*
274456 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCACCTTTAAGTCCAAT
1 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCACCTTTAAGTCCAAT
274521 GTAGCTGGCCTTGAATCAACACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
66 GTAGCTGGCCTTGAATCAACACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
274586 ATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCT
131 ATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCT
274651 TTACGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGC
196 TTACGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGC
274716 TGGCCTTGAATCAGCACATTGGCACTTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
261 TGGCCTTGAATCAGCACATTGGCACTTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
274781 ATTGACATCCTTTTTCTCATCATTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCT
326 ATTGACATCCTTTTTCTCATCATTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCT
274846 TTATCACTTTTCTCATCTTCAT
391 TTATCACTTTTCTCATCTTCAT
274868 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCACCTTTAAGTCCAAT
1 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCACCTTTAAGTCCAAT
274933 GTAGCTGGCCTTGAATCAACACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
66 GTAGCTGGCCTTGAATCAACACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
274998 ATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCT
131 ATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCT
275063 TTACGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGC
196 TTACGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGC
275128 TGGCCTTGAATCAGCACATTGGCACTTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
261 TGGCCTTGAATCAGCACATTGGCACTTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
275193 ATTGACATCCTTTTTCTCATCATTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCT
326 ATTGACATCCTTTTTCTCATCATTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCT
275258 TTATCACTTTTCTCATCTTCAT
391 TTATCACTTTTCTCATCTTCAT
275280 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCACCTTTAAGTCCAAT
1 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCACCTTTAAGTCCAAT
275345 GTAGCTGGCCTTGAATCAACACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
66 GTAGCTGGCCTTGAATCAACACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
275410 ATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCT
131 ATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCT
* * * * * *
275475 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGC
196 TTACGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGC
*
275540 TGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
261 TGGCCTTGAATCAGCACATTGGCACTTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
*
275605 ATTGGCA-CCTTT
326 ATTGACATCCTTT
275617 AAGTCCAATA
Statistics
Matches: 740, Mismatches: 9, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
411 5 0.01
412 735 0.99
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.32
Consensus pattern (412 bp):
CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCACCTTTAAGTCCAAT
GTAGCTGGCCTTGAATCAACACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
ATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCT
TTACGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGC
TGGCCTTGAATCAGCACATTGGCACTTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
ATTGACATCCTTTTTCTCATCATTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCT
TTATCACTTTTCTCATCTTCAT
Found at i:275447 original size:49 final size:49
Alignment explanation
Indices: 275274--275703 Score: 580
Period size: 49 Copynumber: 8.9 Consensus size: 49
275264 CTTTTCTCAT
*
275274 CTTCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
* * *
275323 CTTCATCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCA-
1 CTTCAT---CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
*
275374 ---C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
275418 CTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
* *
275467 CTTTATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
*
275516 CTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
* * *
275565 C-TCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-
1 CTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
*
275612 ---C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCAC
1 CTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
* * *
275656 CTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 C--TT-CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
275704 ACATCCTTTT
Statistics
Matches: 340, Mismatches: 23, Indels: 33
0.86 0.06 0.08
Matches are distributed among these distances:
43 77 0.23
45 1 0.00
47 1 0.00
48 45 0.13
49 142 0.42
50 1 0.00
52 73 0.21
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (49 bp):
CTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
Found at i:275825 original size:67 final size:68
Alignment explanation
Indices: 275716--275842 Score: 159
Period size: 67 Copynumber: 1.9 Consensus size: 68
275706 ATCCTTTTTC
* * * *
275716 TCATCTTTAAGCCTAAGATCGTTGGCCGTGAATCAACTTATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCTTTAAGCCTAAGATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
275780 TCT
66 TCT
* * * *
275783 TCATCTTTAAGTCC-AATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCTTTAAG-CCTAAGATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTT
275843 AAAACCCAAT
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:0.23, C:0.24, G:0.13, T:0.39
Consensus pattern (68 bp):
TCATCTTTAAGCCTAAGATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCT
Found at i:276661 original size:13 final size:13
Alignment explanation
Indices: 276643--276667 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
276633 CATAAAATGT
276643 TGTATCGATACAA
1 TGTATCGATACAA
276656 TGTATCGATACA
1 TGTATCGATACA
276668 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:276665 original size:33 final size:33
Alignment explanation
Indices: 276623--276692 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
276613 TTCAACGATT
276623 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
276656 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
276689 TGTA
1 TGTA
276693 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:276750 original size:13 final size:13
Alignment explanation
Indices: 276732--276756 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
276722 ATTACTCACA
276732 TGTATCGATACAT
1 TGTATCGATACAT
276745 TGTATCGATACA
1 TGTATCGATACA
276757 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:276821 original size:52 final size:52
Alignment explanation
Indices: 276765--276884 Score: 231
Period size: 52 Copynumber: 2.3 Consensus size: 52
276755 CACTGATCTT
276765 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
*
276817 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
276869 TGTATCGATACATGCA
1 TGTATCGATACATGCA
276885 AGAAACTTTT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
Found at i:285592 original size:13 final size:13
Alignment explanation
Indices: 285574--285603 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
285564 ATAATTCATC
*
285574 ATGTATCGATACA
1 ATGTATCAATACA
285587 ATGTATCAATACA
1 ATGTATCAATACA
285600 ATGT
1 ATGT
285604 GCCATGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (13 bp):
ATGTATCAATACA
Found at i:285693 original size:19 final size:19
Alignment explanation
Indices: 285649--285721 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
285639 CTGCCAGTTT
* **
285649 CATGTATCAATACAATTGTG
1 CATGTATCGATACAA-TGAA
285669 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
285688 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAATG-A-A
285709 -ATGTATCGATACA
1 CATGTATCGATACA
285722 TCTGGCTGTG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
19 18 0.38
20 28 0.60
21 1 0.02
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:287325 original size:9 final size:10
Alignment explanation
Indices: 287300--287349 Score: 61
Period size: 10 Copynumber: 5.3 Consensus size: 10
287290 TCTTTATTTC
287300 CTCATTTTTT
1 CTCATTTTTT
*
287310 -T-AATTTTT
1 CTCATTTTTT
*
287318 CT-TTTTTTT
1 CTCATTTTTT
287327 CTCATTTTTT
1 CTCATTTTTT
287337 CTCATTTTTT
1 CTCATTTTTT
287347 CTC
1 CTC
287350 TTCTTTTGCA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
8 6 0.18
9 9 0.26
10 19 0.56
ACGTcount: A:0.10, C:0.18, G:0.00, T:0.72
Consensus pattern (10 bp):
CTCATTTTTT
Found at i:287330 original size:27 final size:28
Alignment explanation
Indices: 287288--287345 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
287278 GGATACAACG
287288 TTTCTTTATTTCCTCATTTTTT-TAATT
1 TTTCTTTATTTCCTCATTTTTTCTAATT
* * *
287315 TTTCTTTTTTTTCTCATTTTTTCTCATT
1 TTTCTTTATTTCCTCATTTTTTCTAATT
287343 TTT
1 TTT
287346 TCTCTTCTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.74
Consensus pattern (28 bp):
TTTCTTTATTTCCTCATTTTTTCTAATT
Found at i:291628 original size:20 final size:19
Alignment explanation
Indices: 291602--291697 Score: 93
Period size: 20 Copynumber: 4.8 Consensus size: 19
291592 AAAAGGACAG
*
291602 AATGTATCGATACATTCATA
1 AATGTATCGATACATTGA-A
*
291622 CATGTATCGATACATTAGAA
1 AATGTATCGATACATT-GAA
* * **
291642 GATGTACCGATACATCTGGGT
1 AATGTATCGATACAT-T-GAA
291663 AATGTATCGATACATTGAAA
1 AATGTATCGATACATTG-AA
291683 AATGTATCGATACAT
1 AATGTATCGATACAT
291698 CTAGGTAAAA
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
19 1 0.02
20 45 0.73
21 16 0.26
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.31
Consensus pattern (19 bp):
AATGTATCGATACATTGAA
Found at i:291676 original size:41 final size:41
Alignment explanation
Indices: 291623--291705 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 41
291613 ACATTCATAC
* *
291623 ATGTATCGATACATT-AGAAGATGTACCGATACATCTGGGTA
1 ATGTATCGATACATTGA-AAAATGTACCGATACATCTAGGTA
*
291664 ATGTATCGATACATTGAAAAATGTATCGATACATCTAGGTA
1 ATGTATCGATACATTGAAAAATGTACCGATACATCTAGGTA
291705 A
1 A
291706 AAATGTGACT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 37 0.97
42 1 0.03
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
ATGTATCGATACATTGAAAAATGTACCGATACATCTAGGTA
Found at i:292737 original size:57 final size:57
Alignment explanation
Indices: 292630--293039 Score: 463
Period size: 57 Copynumber: 7.2 Consensus size: 57
292620 CCAACTTGTA
* * *
292630 TGGGCTTTAGAGAAA-GTTGCCACCGACTTGTGTAGGC-TTAAAAGGATGCCACTGACTTG
1 TGGGCTTT-GA-AAAGGGTGCCACTGACTTGTG--GGCTTTGAAAGGATGCCACTGACTTG
* * * * * * *
292689 TCGGTTTTGAGAA-GATGCCTCTAACTTGTGGGCTTTGAAGAGGGTGCCACTGACTTG
1 TGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAA-AGGATGCCACTGACTTG
* * * *
292746 TGGGCTCTGAAAA-GGTGCCACTGACTTGTGGGCTATGAACAAG-TGCCACTAACTTG
1 TGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAA-AGGATGCCACTGACTTG
*
292802 TGGGCTTTAAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTG
1 TGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTG
* *
292859 TGGGCTTTGAAAAGGGTGCCACTGATTTGTGGGCTTTGAAAGGATGCCATTGACTTG
1 TGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTG
* * * **
292916 TGGGATTTGAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGAATCA
1 TGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTG
* * * * * *
292973 TGGGGTTT-AGAAGGATGCCACTGACTCGTGGGCTTTGCAAGGATGCCACTAACTTG
1 TGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTG
*
293029 TGAGCTTTGAA
1 TGGGCTTTGAA
293040 GAGATGAACG
Statistics
Matches: 298, Mismatches: 48, Indels: 12
0.83 0.13 0.03
Matches are distributed among these distances:
55 3 0.01
56 74 0.25
57 213 0.71
58 2 0.01
59 6 0.02
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (57 bp):
TGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTG
Found at i:292771 original size:28 final size:28
Alignment explanation
Indices: 292630--293039 Score: 395
Period size: 28 Copynumber: 14.4 Consensus size: 28
292620 CCAACTTGTA
* *
292630 TGGGCTTTAGAGAAAGTTGCCACCGACTTG
1 TGGGCTTT-GA-AAAGGTGCCACTGACTTG
292660 TGTAGGC-TT-AAAAGGATGCCACTGACTTG
1 TG--GGCTTTGAAAAGG-TGCCACTGACTTG
* * * * * *
292689 TCGGTTTTGAGAAGATGCCTCTAACTTG
1 TGGGCTTTGAAAAGGTGCCACTGACTTG
*
292717 TGGGCTTTGAAGAGGGTGCCACTGACTTG
1 TGGGCTTTGAA-AAGGTGCCACTGACTTG
*
292746 TGGGCTCTGAAAAGGTGCCACTGACTTG
1 TGGGCTTTGAAAAGGTGCCACTGACTTG
* *
292774 TGGGCTATGAACAA-GTGCCACTAACTTG
1 TGGGCTTTGAA-AAGGTGCCACTGACTTG
*
292802 TGGGCTTTAAAAAGGGTGCCACTGACTTG
1 TGGGCTTTGAAAA-GGTGCCACTGACTTG
292831 TGGGCTTTG-AAAGGATGCCACTGACTTG
1 TGGGCTTTGAAAAGG-TGCCACTGACTTG
*
292859 TGGGCTTTGAAAAGGGTGCCACTGATTTG
1 TGGGCTTTGAAAA-GGTGCCACTGACTTG
*
292888 TGGGCTTTG-AAAGGATGCCATTGACTTG
1 TGGGCTTTGAAAAGG-TGCCACTGACTTG
* *
292916 TGGGATTTGAAAAGGGTGCCACTAACTTG
1 TGGGCTTTGAAAA-GGTGCCACTGACTTG
* **
292945 TGGGCTTTG-AAAGGATGCCACTGAATCA
1 TGGGCTTTGAAAAGG-TGCCACTGACTTG
* * *
292973 TGGGGTTT-AGAAGGATGCCACTGACTCG
1 TGGGCTTTGAAAAGG-TGCCACTGACTTG
* *
293001 TGGGCTTTG-CAAGGATGCCACTAACTTG
1 TGGGCTTTGAAAAGG-TGCCACTGACTTG
*
293029 TGAGCTTTGAA
1 TGGGCTTTGAA
293040 GAGATGAACG
Statistics
Matches: 317, Mismatches: 44, Indels: 39
0.79 0.11 0.10
Matches are distributed among these distances:
27 10 0.03
28 186 0.59
29 110 0.35
30 6 0.02
31 2 0.01
32 3 0.01
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (28 bp):
TGGGCTTTGAAAAGGTGCCACTGACTTG
Found at i:292799 original size:85 final size:86
Alignment explanation
Indices: 292647--293045 Score: 433
Period size: 85 Copynumber: 4.7 Consensus size: 86
292637 TAGAGAAAGT
* * * * *
292647 TGCCACCGACTTGTGTAGGC-TT-AAAAGGATGCCACTGACTTGTCGGTTTTGAGAAGATGCCTC
1 TGCCACTGACTTGTG--GGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCAC
*
292710 TAACTTGTGGGCTTTGAAGAGGG
64 TAACTTGTGGGCTTTGAAGAGGA
* *
292733 TGCCACTGACTTGTGGGCTCTGAAAAGG-TGCCACTGACTTGTGGGCTATGAACAAG-TGCCACT
1 TGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAA-AAGATGCCACT
* * *
292796 AACTTGTGGGCTTTAAAAAGGG
65 AACTTGTGGGCTTTGAAGAGGA
*
292818 TGCCACTGACTTGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACT
1 TGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAA-GATGCCACT
* *
292882 GATTTGTGGGCTTTGAA-AGGA
65 AACTTGTGGGCTTTGAAGAGGA
* * * * *
292903 TGCCATTGACTTGTGGGATTTGAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTG
1 TGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACT-
*
292968 AATCATG-GGG-TTT--AGAAGGA
65 AA-CTTGTGGGCTTTGAAG-AGGA
* * * * *
292988 TGCCACTGACTCGTGGGCTTTG-CAAGGATGCCACTAACTTGTGAGCTTTGAAGAGATG
1 TGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATG
293046 AACGTTCAAG
Statistics
Matches: 270, Mismatches: 32, Indels: 24
0.83 0.10 0.07
Matches are distributed among these distances:
83 1 0.00
84 41 0.15
85 149 0.55
86 77 0.29
87 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (86 bp):
TGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTA
ACTTGTGGGCTTTGAAGAGGA
Found at i:293255 original size:26 final size:26
Alignment explanation
Indices: 293226--293285 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
293216 TTATAAAAAA
* *
293226 ATGATGTATAATGATATTATGACTGC
1 ATGATGTAGAATGATATCATGACTGC
* * **
293252 ATGATGTGGAATGCTATCATGGTTGC
1 ATGATGTAGAATGATATCATGACTGC
293278 ATGATGTA
1 ATGATGTA
293286 AAGTCCTAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.08, G:0.25, T:0.37
Consensus pattern (26 bp):
ATGATGTAGAATGATATCATGACTGC
Found at i:294302 original size:17 final size:16
Alignment explanation
Indices: 294282--294338 Score: 69
Period size: 17 Copynumber: 3.4 Consensus size: 16
294272 CTAGAGCTCA
294282 TTTTTTTGTTTGTTTGT
1 TTTTTTTGTTT-TTTGT
*
294299 TTTTTTTGGTTTTTTCTT
1 TTTTTTT-GTTTTTT-GT
*
294317 TTTTTTTGTTTCTTGT
1 TTTTTTTGTTTTTTGT
294333 TTTTTT
1 TTTTTT
294339 CCTTGGTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
16 7 0.20
17 16 0.46
18 12 0.34
ACGTcount: A:0.00, C:0.04, G:0.12, T:0.84
Consensus pattern (16 bp):
TTTTTTTGTTTTTTGT
Found at i:294303 original size:18 final size:17
Alignment explanation
Indices: 294282--294380 Score: 83
Period size: 18 Copynumber: 5.5 Consensus size: 17
294272 CTAGAGCTCA
294282 TTTTTTTGTTTGTTTGTT
1 TTTTTTTGTTT-TTTGTT
* *
294300 TTTTTTGGTTTTTTCTT
1 TTTTTTTGTTTTTTGTT
*
294317 TTTTTTTGTTTCTTGTT
1 TTTTTTTGTTTTTTGTT
*
294334 TTTTTCCTTGGTTTTTTCTAT
1 TTTTT--TT-GTTTTTTGT-T
*
294355 TTTTTTTATTTTTCT-TAT
1 TTTTTTTGTTTTT-TGT-T
294373 TTTTTTTG
1 TTTTTTTG
294381 GTACGAAGCA
Statistics
Matches: 67, Mismatches: 9, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
17 24 0.36
18 25 0.37
19 5 0.07
20 7 0.10
21 6 0.09
ACGTcount: A:0.03, C:0.06, G:0.10, T:0.81
Consensus pattern (17 bp):
TTTTTTTGTTTTTTGTT
Found at i:294345 original size:37 final size:36
Alignment explanation
Indices: 294282--294382 Score: 116
Period size: 35 Copynumber: 2.8 Consensus size: 36
294272 CTAGAGCTCA
*
294282 TTTTTTTGTTTGTTTGTTTTTTTTGGTTTTTTCT-T
1 TTTTTTTGTTTCTTTGTTTTTTTTGGTTTTTTCTAT
294317 TTTTTTTGTTTC-TTGTTTTTTTCCTTGGTTTTTTCTAT
1 TTTTTTTGTTTCTTTG-TTTTTT--TTGGTTTTTTCTAT
* * *
294355 TTTTTTTATTTTTCTTATTTTTTTTGGT
1 TTTTTTTGTTTCT-TTGTTTTTTTTGGT
294383 ACGAAGCATG
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
34 3 0.05
35 17 0.30
37 17 0.30
38 11 0.20
39 6 0.11
40 2 0.04
ACGTcount: A:0.03, C:0.06, G:0.11, T:0.80
Consensus pattern (36 bp):
TTTTTTTGTTTCTTTGTTTTTTTTGGTTTTTTCTAT
Found at i:298520 original size:13 final size:13
Alignment explanation
Indices: 298502--298526 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
298492 CAAAGATCAG
298502 TGTATCGATACAA
1 TGTATCGATACAA
298515 TGTATCGATACA
1 TGTATCGATACA
298527 TTTGAGTAAT
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:298593 original size:19 final size:18
Alignment explanation
Indices: 298569--298631 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
298559 TAGCTTCTAT
298569 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
298588 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
298601 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
298620 TGTATCGATACA
1 TGTATCGATACA
298632 TTGTATCAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:298606 original size:13 final size:13
Alignment explanation
Indices: 298588--298644 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
298578 ACAAAACTTA
298588 TGTATCGATACAT
1 TGTATCGATACAT
298601 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
298619 ATGTATCGATACAT
1 -TGTATCGATACAT
*
298633 TGTATCAATACA
1 TGTATCGATACA
298645 ACACTTTTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 20 0.54
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:298608 original size:32 final size:32
Alignment explanation
Indices: 298567--298664 Score: 160
Period size: 32 Copynumber: 3.0 Consensus size: 32
298557 AGTAGCTTCT
*
298567 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
298599 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
* *
298631 ATTGTATCAATACAACACTTTTTGTATCGATAC
1 ATTGTATCGATACAACAC-TTATGTATCGATAC
298664 A
1 A
298665 AATCGTTGAA
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 48 0.77
33 14 0.23
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Found at i:299547 original size:55 final size:54
Alignment explanation
Indices: 299413--299891 Score: 290
Period size: 49 Copynumber: 9.5 Consensus size: 54
299403 GAAGAAGAAT
* * * * *
299413 GCCAATGTGCTGAGTCAAGGCCAGCGACATT-GGACTT--AA--AGAAGAA--T
1 GCCAATATGCTGATTTAAGGCCAGCGACATTGGGTCTTAAAATGAGAAGAAGGC
* * * * *
299460 GCCAATGTGTTGATTTAAAGCCAACGACATTGGGTTTTGAAAATGAGAAGAAGGC
1 GCCAATATGCTGATTTAAGGCCAGCGACATTGGGTCTT-AAAATGAGAAGAAGGC
* * *
299515 GCCAATATGCTAATTTAAGGCCAGCGATATTGGGTTTTGAAAATGAGAAGAAGGC
1 GCCAATATGCTGATTTAAGGCCAGCGACATTGGGTCTT-AAAATGAGAAGAAGGC
* * * * *
299570 GCCAATATGCTGATTTAAGGCCAGCAATATT-GGACTT--AA--AGATGAAGGA
1 GCCAATATGCTGATTTAAGGCCAGCGACATTGGGTCTTAAAATGAGAAGAAGGC
* * *
299619 GCCAATGTGCTGATTCAAGGCCAGCGACATT-GGTCTTAAAGATGA-AA-AAGGT
1 GCCAATATGCTGATTTAAGGCCAGCGACATTGGGTCTTAAA-ATGAGAAGAAGGC
* * * *
299671 GCCAATATGCTGATTCAAGGCCAGCGACATT-GGACTT-AAA-GA-TA-AAGGT
1 GCCAATATGCTGATTTAAGGCCAGCGACATTGGGTCTTAAAATGAGAAGAAGGC
* * * * *
299720 GCCAATGTGCTGATTCAAGGCCAGCGACATT-GGACTT--AA--AGACGAAGGT
1 GCCAATATGCTGATTTAAGGCCAGCGACATTGGGTCTTAAAATGAGAAGAAGGC
* * * * * *
299769 GCCAATGTGCTGATTCAAGGCCAGCAATATTGGG-CTT-AAA-GA-TA-AAGGT
1 GCCAATATGCTGATTTAAGGCCAGCGACATTGGGTCTTAAAATGAGAAGAAGGC
* * * * * * *
299818 GCCAATGTGCTGATTCAAGGTCAGCTACATT-GGACTT-AAA-GA-TA-AAGGT
1 GCCAATATGCTGATTTAAGGCCAGCGACATTGGGTCTTAAAATGAGAAGAAGGC
*
299867 GCCAATATGCTGATTCAAGGCCAGC
1 GCCAATATGCTGATTTAAGGCCAGC
299892 TATATTGGAC
Statistics
Matches: 371, Mismatches: 42, Indels: 36
0.83 0.09 0.08
Matches are distributed among these distances:
47 27 0.07
48 8 0.02
49 192 0.52
50 5 0.01
51 8 0.02
52 40 0.11
53 8 0.02
54 5 0.01
55 78 0.21
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.23
Consensus pattern (54 bp):
GCCAATATGCTGATTTAAGGCCAGCGACATTGGGTCTTAAAATGAGAAGAAGGC
Found at i:299957 original size:92 final size:92
Alignment explanation
Indices: 299565--300210 Score: 782
Period size: 92 Copynumber: 6.8 Consensus size: 92
299555 AAATGAGAAG
* * * *
299565 AAGGCGCCAATATGCTGATTTAAGGCCAGCAATATTGGACTTAAAGATGAAGGAGCCAATGTGCT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATGTGCT
* *
299630 GATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAA
60 GATTCAAGGCCAGCTACATTGGACTTAAAGAT---A
* *
299666 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCCAATGTGCT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----TAAAGGTGCCAATGTGCT
* **
299731 GATTCAAGGCCAGCGACATTGGACTTAAAGACG
60 GATTCAAGGCCAGCTACATTGGACTTAAAGATA
* * *
299764 AAGGTGCCAATGTGCTGATTCAAGGCCAGCAATATTGGGCTTAAAGATAAAGGTGCCAATGTGCT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----TAAAGGTGCCAATGTGCT
*
299829 GATTCAAGGTCAGCTACATTGGACTTAAAGATA
60 GATTCAAGGCCAGCTACATTGGACTTAAAGATA
299862 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCA
299927 AGGCCAGCTACATTGGACTTAAAGATA
66 AGGCCAGCTACATTGGACTTAAAGATA
* * *
299954 AAGGTGCCAATATGCTGATTCAAGGCTAGCTATATTGGACTTAAAAGTGCCAATGTGCTAATTCA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCA
*
300019 AGGCCAGCTACATTGGACTTAAAGATG
66 AGGCCAGCTACATTGGACTTAAAGATA
* *
300046 AAGGTGCCAATATGCTGATTCAAGGTCGGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCA
*
300111 AGGCCAGCTACATTCGAC-T-----TA
66 AGGCCAGCTACATTGGACTTAAAGATA
* * *
300132 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACCTAAAGATAAAGGTGCCAATATGCT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA-CT-----TAAAGGTGCCAATGTGCT
300197 GATTCAAGGCCAGC
60 GATTCAAGGCCAGC
300211 GATATTGGGC
Statistics
Matches: 497, Mismatches: 36, Indels: 33
0.88 0.06 0.06
Matches are distributed among these distances:
86 36 0.07
87 2 0.00
91 1 0.00
92 246 0.49
97 1 0.00
98 127 0.26
101 81 0.16
102 1 0.00
103 1 0.00
107 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (92 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCA
AGGCCAGCTACATTGGACTTAAAGATA
Found at i:300218 original size:49 final size:49
Alignment explanation
Indices: 299565--300210 Score: 809
Period size: 49 Copynumber: 13.6 Consensus size: 49
299555 AAATGAGAAG
* * * * * *
299565 AAGGCGCCAATATGCTGATTTAAGGCCAGCAATATTGGACTTAAAGATG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
* * *
299614 AAGGAGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAA
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---A
* *
299666 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATA
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
* **
299715 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
* * *
299764 AAGGTGCCAATGTGCTGATTCAAGGCCAGCAATATTGGGCTTAAAGATA
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
*
299813 AAGGTGCCAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAAGATA
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
* *
299862 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----TA
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
299905 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
* * *
299954 AAGGTGCCAATATGCTGATTCAAGGCTAGCTATATTGGACTT----A-A
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
* *
299998 AA-GTGCCAATGTGCTAATTCAAGGCCAGCTACATTGGACTTAAAGATG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
* * * *
300046 AAGGTGCCAATATGCTGATTCAAGGTCGGCTATATTGGAC-T-----TA
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
*
300089 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTCGAC-T-----TA
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
*
300132 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACCTAAAGATA
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
*
300181 AAGGTGCCAATATGCTGATTCAAGGCCAGC
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGC
300211 GATATTGGGC
Statistics
Matches: 528, Mismatches: 48, Indels: 42
0.85 0.08 0.07
Matches are distributed among these distances:
43 153 0.29
44 5 0.01
45 1 0.00
47 1 0.00
48 4 0.01
49 319 0.60
52 45 0.09
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
Found at i:300278 original size:33 final size:33
Alignment explanation
Indices: 300216--300389 Score: 246
Period size: 33 Copynumber: 5.4 Consensus size: 33
300206 CCAGCGATAT
*
300216 TGGGC-TTAGA-AA-GGTTGCCACCAATTTGTG
1 TGGGCTTTAGAGAATGGTTGCCACCAACTTGTG
* * * **
300246 TGGGCTTTAAAGAGTGGTTACCACCGGCTTGTG
1 TGGGCTTTAGAGAATGGTTGCCACCAACTTGTG
300279 TGGGCTTTAGAGAATGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAGAATGGTTGCCACCAACTTGTG
**
300312 TGGGCTTTAGAGAATGGTTGCCACTGACTTGTG
1 TGGGCTTTAGAGAATGGTTGCCACCAACTTGTG
*
300345 TGGGCTTTAGAGAATGCTTGCCACCAACTTGTG
1 TGGGCTTTAGAGAATGGTTGCCACCAACTTGTG
300378 TGGGCTTTAGAG
1 TGGGCTTTAGAG
300390 GGGGTGCCAC
Statistics
Matches: 125, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
30 5 0.04
31 4 0.03
32 1 0.01
33 115 0.92
ACGTcount: A:0.20, C:0.17, G:0.32, T:0.31
Consensus pattern (33 bp):
TGGGCTTTAGAGAATGGTTGCCACCAACTTGTG
Found at i:300432 original size:35 final size:35
Alignment explanation
Indices: 300393--300517 Score: 209
Period size: 35 Copynumber: 3.6 Consensus size: 35
300383 TTTAGAGGGG
300393 GTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGA
1 GTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGA
300428 GTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGA
1 GTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGA
*
300463 GTGCCACGGAGTTGTGGGCTTTAAAAAG-AAAAGA
1 GTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGA
* *
300497 -TGCCACTGAGTCGTGGACTTT
1 GTGCCACGGAGTTGTGGACTTT
300518 GAAGAAAAGG
Statistics
Matches: 86, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
33 18 0.21
34 6 0.07
35 62 0.72
ACGTcount: A:0.34, C:0.14, G:0.30, T:0.22
Consensus pattern (35 bp):
GTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGA
Found at i:300526 original size:31 final size:31
Alignment explanation
Indices: 300394--300830 Score: 376
Period size: 31 Copynumber: 13.9 Consensus size: 31
300384 TTAGAGGGGG
* * *
300394 TGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGA
1 TGCCACTGAGTCGTGGACTTT--GAAG-AAAAGA
* * *
300428 GTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGA
1 -TGCCACTGAGTCGTGGACTTT--GAAG-AAAAGA
* * * *
300463 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAGA
1 -TGCCACTGAGTCGTGGACTTT--GAAGAAAAGA
300497 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAA-GA
*
300529 TGCCACTGAGTCATGGACTTTG-AGACAAA-A
1 TGCCACTGAGTCGTGGACTTTGAAGA-AAAGA
* *
300559 TGCCACTGAGTCGTGGGCTTTG-AGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
*
300589 TTGCCACTAAGTCGTGGACTTTG-AGACAAA-A
1 -TGCCACTGAGTCGTGGACTTTGAAGA-AAAGA
* *
300620 TGCCACTGAGTCGTGGGCTTTGAGGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
*
300651 TACCACTGAGTCGTGGACTTTG--GAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAA-AGA
* * *
300681 TTGCCATTGAGTTGTGGACTTTGAGGAAAAGA
1 -TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
* *
300713 TGCCACTGAGTCATGGACTATG--GAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAA-AGA
* * * *
300743 TTGCCACTAAGTTGTGGACTTTGGAGAAAAAA
1 -TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
*
300775 TGCCACTGAGTCGTGGACTTTG-GGACAAA-A
1 TGCCACTGAGTCGTGGACTTTGAAGA-AAAGA
300805 TGCCACTGAGTCGTGGACTTT-AAGAA
1 TGCCACTGAGTCGTGGACTTTGAAGAA
300831 GGTATTTGAA
Statistics
Matches: 352, Mismatches: 33, Indels: 40
0.83 0.08 0.09
Matches are distributed among these distances:
29 11 0.03
30 80 0.23
31 135 0.38
32 33 0.09
33 26 0.07
34 6 0.02
35 61 0.17
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
Found at i:300716 original size:154 final size:153
Alignment explanation
Indices: 300490--300830 Score: 469
Period size: 154 Copynumber: 2.2 Consensus size: 153
300480 GCTTTAAAAA
300490 GAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCATGGACTTTGAGAC
1 GAAAAGATGCCACTGAGTCGTGGACTTTG-AGAAAAGGATGCCACTGAGTCATGGACTTTGAGAC
* * * *
300555 AAAATGCCACTGAGTCGTGGGCT-TTGAGAAGAGATTGCCACTAAGTCGTGGACTTT-GAGACAA
65 AAAATGCCACTGAGTCATGGACTATGGA-AAGAGATTGCCACTAAGTCGTGGACTTTGGAGAAAA
*
300618 AATGCCACTGAGTCGTGGGCTTTGAG
129 AATGCCACTGAGTCGTGGACTTTG-G
* * **
300644 GAAAAGATACCACTGAGTCGTGGACTTTG-G-AAAGAGATTGCCATTGAGTTGTGGACTTTGAGG
1 GAAAAGATGCCACTGAGTCGTGGACTTTGAGAAAAG-GA-TGCCACTGAGTCATGGACTTTGA-G
*
300707 A-AAAGATGCCACTGAGTCATGGACTATGGAAAGAGATTGCCACTAAGTTGTGGACTTTGGAGAA
63 ACAAA-ATGCCACTGAGTCATGGACTATGGAAAGAGATTGCCACTAAGTCGTGGACTTTGGAGAA
300771 AAAATGCCACTGAGTCGTGGACTTTGG
127 AAAATGCCACTGAGTCGTGGACTTTGG
*
300798 GACAAA-ATGCCACTGAGTCGTGGACTTTAAGAA
1 GA-AAAGATGCCACTGAGTCGTGGACTTTGAGAA
300831 GGTATTTGAA
Statistics
Matches: 166, Mismatches: 12, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
151 4 0.02
152 3 0.02
153 23 0.14
154 99 0.60
155 36 0.22
156 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.24
Consensus pattern (153 bp):
GAAAAGATGCCACTGAGTCGTGGACTTTGAGAAAAGGATGCCACTGAGTCATGGACTTTGAGACA
AAATGCCACTGAGTCATGGACTATGGAAAGAGATTGCCACTAAGTCGTGGACTTTGGAGAAAAAA
TGCCACTGAGTCGTGGACTTTGG
Found at i:300953 original size:8 final size:8
Alignment explanation
Indices: 300930--300967 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
300920 GATGCAAATA
300930 ATGATGTT
1 ATGATGTT
300938 ATTGATGTT
1 A-TGATGTT
300947 ATGATGTT
1 ATGATGTT
*
300955 ATGATGTC
1 ATGATGTT
300963 ATGAT
1 ATGAT
300968 TACAGCACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
8 20 0.71
9 8 0.29
ACGTcount: A:0.26, C:0.03, G:0.24, T:0.47
Consensus pattern (8 bp):
ATGATGTT
Found at i:302157 original size:12 final size:14
Alignment explanation
Indices: 302127--302163 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
302117 ACCTTTGCAC
302127 TTTTTTTGTGTGTG
1 TTTTTTTGTGTGTG
*
302141 TTTTTTTGT-TTTG
1 TTTTTTTGTGTGTG
302154 -TTTTTTGTGT
1 TTTTTTTGTGT
302164 TTACTTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 8 0.38
13 4 0.19
14 9 0.43
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (14 bp):
TTTTTTTGTGTGTG
Found at i:302164 original size:14 final size:14
Alignment explanation
Indices: 302128--302165 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
302118 CCTTTGCACT
*
302128 TTTTTTGTG-TGTG
1 TTTTTTGTGTTTTG
302141 TTTTTT-TGTTTTG
1 TTTTTTGTGTTTTG
302154 TTTTTTGTGTTT
1 TTTTTTGTGTTT
302166 ACTTTTGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 2 0.09
13 15 0.68
14 5 0.23
ACGTcount: A:0.00, C:0.00, G:0.21, T:0.79
Consensus pattern (14 bp):
TTTTTTGTGTTTTG
Found at i:309225 original size:19 final size:18
Alignment explanation
Indices: 309201--309298 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
309191 TAGCTTATAT
309201 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
309220 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
309233 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
309252 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
*
309265 TGTATCGATACACCACTTTA
1 TGTATCGATACA-AAC-TTA
309285 TGTATCGATACAAA
1 TGTATCGATACAAA
309299 TCGTTGAAAT
Statistics
Matches: 65, Mismatches: 1, Indels: 26
0.71 0.01 0.28
Matches are distributed among these distances:
13 22 0.34
14 2 0.03
16 4 0.06
18 1 0.02
19 24 0.37
20 12 0.18
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:309238 original size:13 final size:13
Alignment explanation
Indices: 309220--309276 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
309210 ACAAAACTTA
309220 TGTATCGATACAT
1 TGTATCGATACAT
309233 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
309251 ATGTATCGATACAT
1 -TGTATCGATACAT
309265 TGTATCGATACA
1 TGTATCGATACA
309277 CCACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:309238 original size:32 final size:32
Alignment explanation
Indices: 309199--309296 Score: 169
Period size: 32 Copynumber: 3.0 Consensus size: 32
309189 AGTAGCTTAT
*
309199 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
309231 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
*
309263 ATTGTATCGATACACCACTTTATGTATCGATAC
1 ATTGTATCGATACAACAC-TTATGTATCGATAC
309296 A
1 A
309297 AATCGTTGAA
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 48 0.76
33 15 0.24
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Found at i:319233 original size:20 final size:20
Alignment explanation
Indices: 319188--319237 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
319178 CCCTTGAATC
*
319188 TATCGATACAGCTTCAAATG
1 TATCGATACAGATTCAAATG
* *
319208 TTTCGATACAGATTGCACA-G
1 TATCGATACAGATT-CAAATG
319228 TATCGATACA
1 TATCGATACA
319238 TTGTATCGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 22 0.88
21 3 0.12
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (20 bp):
TATCGATACAGATTCAAATG
Found at i:319245 original size:13 final size:13
Alignment explanation
Indices: 319227--319251 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
319217 AGATTGCACA
319227 GTATCGATACATT
1 GTATCGATACATT
319240 GTATCGATACAT
1 GTATCGATACAT
319252 GACCAAATGT
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):
GTATCGATACATT
Found at i:319356 original size:19 final size:19
Alignment explanation
Indices: 319332--319383 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
319322 CTTAACTGTT
319332 TGTATCGATACA-CAAAAGA
1 TGTATCGATACATCAAAA-A
*
319351 TGTATCGATACATTCCAAAA
1 TGTATCGATACA-TCAAAAA
319371 TGTATCGATACAT
1 TGTATCGATACAT
319384 TGGCTTGTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 13 0.43
20 13 0.43
21 4 0.13
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.29
Consensus pattern (19 bp):
TGTATCGATACATCAAAAA
Found at i:319375 original size:20 final size:21
Alignment explanation
Indices: 319332--319384 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
319322 CTTAACTGTT
319332 TGTATCGATACA--CAAAAGA
1 TGTATCGATACATTCAAAAGA
*
319351 TGTATCGATACATTCCAAA-A
1 TGTATCGATACATTCAAAAGA
319371 TGTATCGATACATT
1 TGTATCGATACATT
319385 GGCTTGTAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 12 0.39
20 15 0.48
21 4 0.13
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATTCAAAAGA
Found at i:325317 original size:8 final size:8
Alignment explanation
Indices: 325304--325329 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
325294 ATTTGATTAA
325304 ATTTTGTG
1 ATTTTGTG
325312 ATTTTGTG
1 ATTTTGTG
325320 ATTTTGTG
1 ATTTTGTG
325328 AT
1 AT
325330 GAATGATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:327382 original size:17 final size:17
Alignment explanation
Indices: 327337--327372 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
327327 TAAGGGGGAG
327337 AAAA-AAACTTGTGATT
1 AAAAGAAACTTGTGATT
327353 AAAAGAAACTTGTGATT
1 AAAAGAAACTTGTGATT
327370 AAA
1 AAA
327373 GAATCTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.53, C:0.06, G:0.14, T:0.28
Consensus pattern (17 bp):
AAAAGAAACTTGTGATT
Done.