Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
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: 13158977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 60 of 64
Found at i:12200516 original size:17 final size:18
Alignment explanation
Indices: 12200491--12200524 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
12200481 TACTGCAGGA
12200491 CATGCATGG-TTTTCATT
1 CATGCATGGCTTTTCATT
*
12200508 CATGGATGGCTTTTCAT
1 CATGCATGGCTTTTCAT
12200525 GATATAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.44
Consensus pattern (18 bp):
CATGCATGGCTTTTCATT
Found at i:12203325 original size:20 final size:21
Alignment explanation
Indices: 12203299--12203355 Score: 75
Period size: 20 Copynumber: 2.8 Consensus size: 21
12203289 TATTATGCTT
12203299 GAAGAAAAATG-AAAAGAAGAA
1 GAAGAAAAA-GAAAAAGAAGAA
12203320 -AAGAAAAAGAAAAAGAAGAA
1 GAAGAAAAAGAAAAAGAAGAA
12203340 GAAGAAGAAA-AAAAAG
1 GAAGAA-AAAGAAAAAG
12203356 GAAAAAAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.03
20 18 0.55
21 11 0.33
22 3 0.09
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (21 bp):
GAAGAAAAAGAAAAAGAAGAA
Found at i:12203338 original size:3 final size:3
Alignment explanation
Indices: 12203299--12203348 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
12203289 TATTATGCTT
* * *
12203299 GAA GAA AAA TGAA -AA GAA GAA -AA GAA AAA GAA AAA GAA GAA GAA
1 GAA GAA GAA -GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
12203343 GAA GAA
1 GAA GAA
12203349 AAAAAAGGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
2 4 0.11
3 32 0.84
4 2 0.05
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (3 bp):
GAA
Found at i:12203761 original size:19 final size:17
Alignment explanation
Indices: 12203719--12203767 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
12203709 TATTTTCTCT
12203719 AAATTCAATTTA-TTTG
1 AAATTCAATTTATTTTG
*
12203735 AGATTCAATTTATTTTCG
1 AAATTCAATTTATTTT-G
*
12203753 AAAATTCAACTTATT
1 -AAATTCAATTTATT
12203768 CTTTTATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 11 0.41
17 3 0.11
18 1 0.04
19 12 0.44
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.47
Consensus pattern (17 bp):
AAATTCAATTTATTTTG
Found at i:12204279 original size:114 final size:114
Alignment explanation
Indices: 12204061--12204283 Score: 347
Period size: 114 Copynumber: 2.0 Consensus size: 114
12204051 TGCCACGTTA
* *
12204061 TCATGGTAGAAATAAGGAGGCCCAATAGCATCTTATGGAAGTGTTCTTTGAGTTATCTGATCTGG
1 TCATAGTAGAAATAAGGAGACCCAATAGCATCTTATGGAAGTGTTCTTTGAGTTATCTGATCTGG
* * * * * *
12204126 TTTGGTATGAACCCCAAAACCAATTATTATATTTAAAAGATGAATTTGC
66 TTCGGTAAGAACCACAAAACCAATCATTAGAATTAAAAGATGAATTTGC
*
12204175 TCATAGTAGAAATAAGGAGACCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATCTGG
1 TCATAGTAGAAATAAGGAGACCCAATAGCATCTTATGGAAGTGTTCTTTGAGTTATCTGATCTGG
* *
12204240 TTCGGTAAGAACCACAGAACCAATCATTAGAATTGAAAGATGAA
66 TTCGGTAAGAACCACAAAACCAATCATTAGAATTAAAAGATGAA
12204284 CTGCATGATC
Statistics
Matches: 98, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
114 98 1.00
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (114 bp):
TCATAGTAGAAATAAGGAGACCCAATAGCATCTTATGGAAGTGTTCTTTGAGTTATCTGATCTGG
TTCGGTAAGAACCACAAAACCAATCATTAGAATTAAAAGATGAATTTGC
Found at i:12205411 original size:218 final size:215
Alignment explanation
Indices: 12204974--12205629 Score: 813
Period size: 218 Copynumber: 3.0 Consensus size: 215
12204964 GATTTAAATC
** * * *
12204974 CATCATTCAATGGATCAACAGTGCCAGTTAAATTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTCAATGGATCAACTTTTCCAG--AAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGA
* *
12205039 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTTGATGGATCA
63 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTCATCA-TAGATGGATCA
* * * * *
12205104 ACATTGCTAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTG-A-A-GAAGAAAAAATTCATAA
127 ACTTTTCCA-G-AAAGTTCATAATGAGAAGAACT--T-ATCTGAAGAGGAAGAAGAAATTCATAA
12205166 TGAGAAGAATTTGTTCAACTTTTTGAATT
187 TGAGAAGAATTTGTTCAACTTTTTGAATT
12205195 CATCATTCAATGGATCAACTTTTCCAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGA
1 CATCATTCAATGGATCAACTTTTCCAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGA
* *
12205260 AGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTCATCATCGATGGATCAACTT
66 AGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTCATCATAGATGGATCAACTT
12205325 TTCCAGAAAGTTCATAATGA-AAGAACTTATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAA
131 TTCCAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAA
12205389 TTTGTTCAACTTTTTGTTTGAATT
196 TTTGTTCAAC---TT-TTTGAATT
* *
12205413 CATCATTCGATAGATCAACTTTTCCAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGA
1 CATCATTCAATGGATCAACTTTTCCAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGA
** *
12205478 AGAAGTTCATAATGAGAA-AATTTTGTTCAACCTTTTT-CATG-ACTCTATCATAGAAGGAGATA
66 AGAAGTTCATAATGAGAAGAA-TTTGTTCAA-CTTTTTGTTTGAATTC-ATCAT------AG---
* *
12205540 TATCAGCATCAACTTTTCCAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGT
119 -AT--GGATCAACTTTTCCAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAAT
*
12205605 TCATAATGAGAAGAACTTGTTCAAC
181 TCATAATGAGAAGAATTTGTTCAAC
12205630 CCTTTTCCAA
Statistics
Matches: 389, Mismatches: 23, Indels: 36
0.87 0.05 0.08
Matches are distributed among these distances:
211 5 0.01
212 2 0.01
213 1 0.00
214 42 0.11
215 13 0.03
216 1 0.00
217 23 0.06
218 159 0.41
219 35 0.09
221 24 0.06
224 1 0.00
228 2 0.01
230 29 0.07
231 52 0.13
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (215 bp):
CATCATTCAATGGATCAACTTTTCCAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGA
AGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTCATCATAGATGGATCAACTT
TTCCAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAA
TTTGTTCAACTTTTTGAATT
Found at i:12205430 original size:109 final size:110
Alignment explanation
Indices: 12204974--12205629 Score: 807
Period size: 108 Copynumber: 5.9 Consensus size: 110
12204964 GATTTAAATC
* ** * * *
12204974 CATCATTCAATGGATCAACAGTGCCAGTTAAATTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTCGATGGATCAACTTTTCCAG--AAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGA
* *
12205039 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATT
63 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATT
* * * * *
12205087 CATCATTTGATGGATCAACATTGCTAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTG-A-A-
1 CATCATTCGATGGATCAACTTTTCCA-G-AAAGTTCATAATGAGAAGAACT--T-ATCTGAAGAG
*
12205149 GAAGAAAAAATTCATAATGAGAAGAATTTGTTCAAC---TT-TTTGAATT
61 GAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATT
*
12205195 CATCATTCAATGGATCAACTTTTCCAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGA
1 CATCATTCGATGGATCAACTTTTCCAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGA
12205260 AGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATT
66 AGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATT
12205305 CATCA-TCGATGGATCAACTTTTCCAGAAAGTTCATAATGA-AAGAACTTATCTGAAGAGGAAGA
1 CATCATTCGATGGATCAACTTTTCCAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGA
12205368 AGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATT
66 AGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATT
*
12205413 CATCATTCGATAGATCAACTTTTCCAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGA
1 CATCATTCGATGGATCAACTTTTCCAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGA
* **
12205478 AGAAGTTCATAATGAGAA-AATTTTGTTCAACCTTTTTCATGACTCTATCATAGAAGGA
66 AGAAATTCATAATGAGAAGAA-TTTGTTCAA-C-TTTT--TG----T-T--T-GAA-TT
* *
12205536 GAT-ATATC-A-GCATCAACTTTTCCAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAG
1 CATCAT-TCGATGGATCAACTTTTCCAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAG
* *
12205598 AAGAAGTTCATAATGAGAAGAACTTGTTCAAC
65 AAGAAATTCATAATGAGAAGAATTTGTTCAAC
12205630 CCTTTTCCAA
Statistics
Matches: 489, Mismatches: 25, Indels: 51
0.87 0.04 0.09
Matches are distributed among these distances:
103 5 0.01
104 2 0.00
105 1 0.00
106 56 0.11
107 1 0.00
108 102 0.21
109 74 0.15
110 62 0.13
111 1 0.00
112 38 0.08
113 44 0.09
114 3 0.01
115 1 0.00
116 5 0.01
118 1 0.00
119 1 0.00
120 1 0.00
121 79 0.16
122 8 0.02
123 4 0.01
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (110 bp):
CATCATTCGATGGATCAACTTTTCCAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGA
AGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATT
Found at i:12205626 original size:20 final size:20
Alignment explanation
Indices: 12205564--12205627 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
12205554 TTTCCAGAAA
12205564 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* ***
12205584 -ATC-TGAA-GAGGAAGAAGAA
1 GTTCAT-AATGA-GAAGAACTT
12205603 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
12205623 GTTCA
1 GTTCA
12205628 ACCCTTTTCC
Statistics
Matches: 31, Mismatches: 8, Indels: 10
0.63 0.16 0.20
Matches are distributed among these distances:
18 3 0.10
19 10 0.32
20 15 0.48
21 3 0.10
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.25
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:12205654 original size:121 final size:122
Alignment explanation
Indices: 12205426--12205666 Score: 382
Period size: 121 Copynumber: 2.0 Consensus size: 122
12205416 CATTCGATAG
12205426 ATCAACTTTTCCAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAAT
1 ATCAACTTTTCCAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAAT
* * * *
12205491 GAGAAAATTTTGTTCAACCTTTTTCATGACTCTATCATAGAAGGAGATA-TATCAGC
66 GAGAAAATCTTGTTCAACCTTTTCCATAACTCTATCACAGAAGGAGATATTATCAGC
12205547 ATCAACTTTTCCAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAAT
1 ATCAACTTTTCCAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAAT
*
12205612 GAGAAGAA-CTTGTTCAACCCTTTTCCA-AATTAC-ATCACAGAAGGAGATATTATCA
66 GAGAA-AATCTTGTTCAA-CCTTTTCCATAACT-CTATCACAGAAGGAGATATTATCA
12205667 TCCCCAGCGG
Statistics
Matches: 111, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
121 95 0.86
122 16 0.14
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (122 bp):
ATCAACTTTTCCAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAAT
GAGAAAATCTTGTTCAACCTTTTCCATAACTCTATCACAGAAGGAGATATTATCAGC
Found at i:12205860 original size:3 final size:3
Alignment explanation
Indices: 12205852--12205902 Score: 77
Period size: 3 Copynumber: 16.7 Consensus size: 3
12205842 CTCCATTTTC
12205852 TAT TAT TATT TAT TAT TAT TAT TAT TAT T-T TAT ATAT TAT TAT TAT
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
12205898 TAT TA
1 TAT TA
12205903 CAAACAGGCC
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.04
3 37 0.82
4 6 0.13
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:12205884 original size:24 final size:25
Alignment explanation
Indices: 12205852--12205902 Score: 86
Period size: 24 Copynumber: 2.1 Consensus size: 25
12205842 CTCCATTTTC
*
12205852 TATTATTATTTATTATTATTATTAT
1 TATTATTATATATTATTATTATTAT
12205877 TATT-TTATATATTATTATTATTAT
1 TATTATTATATATTATTATTATTAT
12205901 TA
1 TA
12205903 CAAACAGGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 21 0.84
25 4 0.16
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (25 bp):
TATTATTATATATTATTATTATTAT
Found at i:12207474 original size:115 final size:115
Alignment explanation
Indices: 12207335--12207556 Score: 270
Period size: 115 Copynumber: 1.9 Consensus size: 115
12207325 ATTTTAATAT
* * * *
12207335 TTATTTATTTTCCAATATTAAGAAAGAG-CAGTCTTAAAATAACTGGATGCCCATTTTCTGATAT
1 TTATTTATTTTCCAATATAAAGAAAGAGTCAGTCTTAAAACAACTAGAAG-CCATTTTCTGATAT
* *
12207399 TTTTAAATAAATAAATATCTTATTTTATAAAT-TATATATTAATTGTTTTAA
65 TTCTAAATAAATAAATATCTTA-TTTATAAATATATAAATTAATTGTTTTAA
* ** ** * *
12207450 TTATTTATTTT-TAATATCAAAGAAAGAGTTTGTCTTAAGGCACCTAGAAGTCATTTTCTGATAT
1 TTATTTATTTTCCAATAT-AAAGAAAGAGTCAGTCTTAAAACAACTAGAAGCCATTTTCTGATAT
*
12207514 TTCTAAATAAATAAATATTTTATTTATAAATATATAAATTAAT
65 TTCTAAATAAATAAATATCTTATTTATAAATATATAAATTAAT
12207557 ATATATTTTC
Statistics
Matches: 90, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
114 14 0.16
115 63 0.70
116 13 0.14
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (115 bp):
TTATTTATTTTCCAATATAAAGAAAGAGTCAGTCTTAAAACAACTAGAAGCCATTTTCTGATATT
TCTAAATAAATAAATATCTTATTTATAAATATATAAATTAATTGTTTTAA
Found at i:12208158 original size:40 final size:40
Alignment explanation
Indices: 12208114--12208190 Score: 145
Period size: 40 Copynumber: 1.9 Consensus size: 40
12208104 TGAAATCTCA
*
12208114 AGGAATAACAATAAATTCTTTAATCATCACCGAGATTACT
1 AGGAATAACAACAAATTCTTTAATCATCACCGAGATTACT
12208154 AGGAATAACAACAAATTCTTTAATCATCACCGAGATT
1 AGGAATAACAACAAATTCTTTAATCATCACCGAGATT
12208191 GCTGGGGTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.43, C:0.18, G:0.10, T:0.29
Consensus pattern (40 bp):
AGGAATAACAACAAATTCTTTAATCATCACCGAGATTACT
Found at i:12215936 original size:21 final size:21
Alignment explanation
Indices: 12215912--12215973 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
12215902 GATAATTTTG
12215912 AAATTTATTT-TTTTAAAATAA
1 AAATTTATTTATTTTAAAA-AA
12215933 AAATTTATTATATTTATAAAAAA
1 AAATTTATT-TATTT-TAAAAAA
* * *
12215956 AAACTAATTTCTTTTAAA
1 AAATTTATTTATTTTAAA
12215974 TTACAAGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
21 13 0.37
22 5 0.14
23 12 0.34
24 5 0.14
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (21 bp):
AAATTTATTTATTTTAAAAAA
Found at i:12216864 original size:11 final size:11
Alignment explanation
Indices: 12216850--12216915 Score: 60
Period size: 11 Copynumber: 5.8 Consensus size: 11
12216840 AAAATTCAAG
12216850 AGCTCGATTCA
1 AGCTCGATTCA
**
12216861 AGCTCGATTTTG
1 AGCTCGA-TTCA
*
12216873 AGCTCAATTCA
1 AGCTCGATTCA
* **
12216884 AACTCGATTTTG
1 AGCTCGA-TTCA
12216896 AGCTCGATTCA
1 AGCTCGATTCA
12216907 AGCTCGATT
1 AGCTCGATT
12216916 TTGAGCTCAA
Statistics
Matches: 41, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
11 25 0.61
12 16 0.39
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (11 bp):
AGCTCGATTCA
Found at i:12216877 original size:23 final size:23
Alignment explanation
Indices: 12216849--12216923 Score: 132
Period size: 23 Copynumber: 3.3 Consensus size: 23
12216839 AAAAATTCAA
12216849 GAGCTCGATTCAAGCTCGATTTT
1 GAGCTCGATTCAAGCTCGATTTT
* *
12216872 GAGCTCAATTCAAACTCGATTTT
1 GAGCTCGATTCAAGCTCGATTTT
12216895 GAGCTCGATTCAAGCTCGATTTT
1 GAGCTCGATTCAAGCTCGATTTT
12216918 GAGCTC
1 GAGCTC
12216924 AAGGCCTAAG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (23 bp):
GAGCTCGATTCAAGCTCGATTTT
Found at i:12216903 original size:12 final size:12
Alignment explanation
Indices: 12216861--12216923 Score: 58
Period size: 12 Copynumber: 5.4 Consensus size: 12
12216851 GCTCGATTCA
12216861 AGCTCGATTTTG
1 AGCTCGATTTTG
* **
12216873 AGCTC-AATTCA
1 AGCTCGATTTTG
*
12216884 AACTCGATTTTG
1 AGCTCGATTTTG
**
12216896 AGCTCGA-TTCA
1 AGCTCGATTTTG
12216907 AGCTCGATTTTG
1 AGCTCGATTTTG
12216919 AGCTC
1 AGCTC
12216924 AAGGCCTAAG
Statistics
Matches: 37, Mismatches: 12, Indels: 4
0.70 0.23 0.08
Matches are distributed among these distances:
11 16 0.43
12 21 0.57
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (12 bp):
AGCTCGATTTTG
Found at i:12226240 original size:182 final size:182
Alignment explanation
Indices: 12225914--12226277 Score: 712
Period size: 182 Copynumber: 2.0 Consensus size: 182
12225904 TGCTACCAGA
12225914 TAAATTTGGCAATTTGGTGCACACCTAATATCTTCCGGTAATGGAGGATTTCGTTGTATGTCGCT
1 TAAATTTGGCAATTTGGTGCACACCTAATATCTTCCGGTAATGGAGGATTTCGTTGTATGTCGCT
12225979 AATATAGTTGGGGTTCTGCAATTTTGGCGTTTTTGTATCGTGAACTATATAAGCGACCATAGTAG
66 AATATAGTTGGGGTTCTGCAATTTTGGCGTTTTTGTATCGTGAACTATATAAGCGACCATAGTAG
12226044 TTAGAGGAAAAAAAAGGATGTAGTGGGTTGTTTAGTTTTGCTCCAATCATGG
131 TTAGAGGAAAAAAAAGGATGTAGTGGGTTGTTTAGTTTTGCTCCAATCATGG
12226096 TAAATTTGGCAATTTGGTGCACACCTAATATCTTCCGGTAATGGAGGATTTCGTTGTATGTCGCT
1 TAAATTTGGCAATTTGGTGCACACCTAATATCTTCCGGTAATGGAGGATTTCGTTGTATGTCGCT
12226161 AATATAGTTGGGGTTCTGCAATTTTGGCGTTTTTGTATCGTGAACTATATAAGGCGACCATAGTA
66 AATATAGTTGGGGTTCTGCAATTTTGGCGTTTTTGTATCGTGAACTATATAA-GCGACCATAGTA
12226226 GTTAGAGG-AAAAAAAGGATGTAGTGGGTTGTTTAGTTTTGCTCCAATCATGG
130 GTTAGAGGAAAAAAAAGGATGTAGTGGGTTGTTTAGTTTTGCTCCAATCATGG
12226278 GTGTGATATC
Statistics
Matches: 181, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
182 161 0.89
183 20 0.11
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.36
Consensus pattern (182 bp):
TAAATTTGGCAATTTGGTGCACACCTAATATCTTCCGGTAATGGAGGATTTCGTTGTATGTCGCT
AATATAGTTGGGGTTCTGCAATTTTGGCGTTTTTGTATCGTGAACTATATAAGCGACCATAGTAG
TTAGAGGAAAAAAAAGGATGTAGTGGGTTGTTTAGTTTTGCTCCAATCATGG
Found at i:12227115 original size:36 final size:38
Alignment explanation
Indices: 12227033--12227120 Score: 101
Period size: 36 Copynumber: 2.3 Consensus size: 38
12227023 TTAATATAAT
** *
12227033 AATAATAAAATAAATAAATAAAGATAAATAAAATTTAGTA
1 AATAAT-AAA-AAATAAATAAAGATAAATAAAATGAAATA
12227073 AA-AATAAAAAAT-AATAAAGATAAA-AAAATGAAATA
1 AATAATAAAAAATAAATAAAGATAAATAAAATGAAATA
12227108 AATAATAATAAAA
1 AATAATAA-AAAA
12227121 GGGTTAAATC
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
35 10 0.23
36 17 0.40
37 8 0.19
38 3 0.07
39 3 0.07
40 2 0.05
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.23
Consensus pattern (38 bp):
AATAATAAAAAATAAATAAAGATAAATAAAATGAAATA
Found at i:12227603 original size:15 final size:15
Alignment explanation
Indices: 12227583--12227615 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
12227573 TACTTCATCT
12227583 CAACACACACATAAC
1 CAACACACACATAAC
12227598 CAACACACACATAAC
1 CAACACACACATAAC
12227613 CAA
1 CAA
12227616 GTCAATTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.55, C:0.39, G:0.00, T:0.06
Consensus pattern (15 bp):
CAACACACACATAAC
Found at i:12228951 original size:85 final size:83
Alignment explanation
Indices: 12228769--12229330 Score: 531
Period size: 84 Copynumber: 6.7 Consensus size: 83
12228759 CTGAGTGTTA
* * * * * * *
12228769 TCGAACTCGAAGGT-TTTCGGTTGGCAGATAACTCTTCTCGACTTAAGCTATTCTGCAAATGATG
1 TCGAACTCGAAGGTCTTT-TG-TGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATG
* * *
12228833 TGCCTTGGAGTTGAGCGTAG
64 TGCCTCGAAGCTGAGCGTAG
* *
12228853 TCGAACTCGAAGGTCTTTTAGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGT
1 TCGAACTCGAAGGTCTTTT-GTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
* * *
12228918 ACTCTCAAAGCTGAGCGTAA
65 GC-CTCGAAGCTGAGCGTAG
* * * * * *
12228938 TCGAACTCGAAGGTCTTTGGTGACAAATAACCCTTCTAGCCTTGGGTTATGCTGTAAATAATGTG
1 TCGAACTCGAAGGTCTTTTGTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG
* * *
12229003 CCCTCGAAGCTAAGTGTAA
66 -CCTCGAAGCTGAGCGTAG
* * * * * * **
12229022 TCGAACTCG-AGGT-TCTT-TGGCAGATAGCCCTTCTCGACTTAAGCTATTATGCAAATGATGTG
1 TCGAACTCGAAGGTCTTTTGTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG
* *
12229084 CCTTGGAGCTGAGCGTAG
66 CCTCGAAGCTGAGCGTAG
* * * * *
12229102 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATAT
1 TCGAACTCGAAGGTCTTTTG-TGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
*
12229167 GCCCTCGAAACTGAGCGTAG
65 G-CCTCGAAGCTGAGCGTAG
* * * * * * *
12229187 TCGAACTCGAAGGTCTTTTATTGGCAAATAGCCCTTCTTA-CCTTGAGCTATGTTGTAAATAATG
1 TCGAACTCGAAGGTCTTTT-GTGGCAGATAACCCTTC-TAGCCTTGAGTTATGCTGCAAATGATG
* * *
12229251 TGCCTTGGAGCTGAGTGTAG
64 TGCCTCGAAGCTGAGCGTAG
* * *
12229271 TTGAACTCGAAGGTATTTTTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATG
1 TCGAACTCGAAGGTCTTTTGTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATG
12229331 TTTTTTTTAA
Statistics
Matches: 390, Mismatches: 76, Indels: 25
0.79 0.15 0.05
Matches are distributed among these distances:
80 22 0.06
81 37 0.09
82 6 0.02
83 36 0.09
84 187 0.48
85 101 0.26
86 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (83 bp):
TCGAACTCGAAGGTCTTTTGTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG
CCTCGAAGCTGAGCGTAG
Found at i:12229028 original size:169 final size:167
Alignment explanation
Indices: 12228707--12229329 Score: 562
Period size: 169 Copynumber: 3.7 Consensus size: 167
12228697 AACTTATTGA
* * * ** * * *
12228707 CAGATAGCCCTTATTGTCTTGAGCTATTCTGTAAATTTGGTTTGCCTAT-GAGCTGAGTGTTA-T
1 CAGATAGCCCTTCTAGCCTTGAGCTATGATGTAAA--TGATGTGCCT-TGGAGCTGAGCG-TAGT
* * * * * * * *
12228770 CGAACTCGAAGGT-TTTCGGTTGGCAGATAACTCTTCTCGACTTAAGCTATTCTGCAAATGATGT
62 CGAACTCGAAGGTCTTT-GG-TGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATAATAT
* * ** * *
12228834 G-CCTTGGAGTTGAGCGTAGTCGAACTCGAAGGTCTTTTAGTG
125 GCCCTCGAAACTAAGCGTAATCGAACTCGAAGGTCTTTTAGTG
* * * * *** *
12228876 ACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTACTCTCAAAGCTGAGCGTAATCG
1 -CAGATAGCCCTTCTAGCCTTGAGCTATGATGTAAATGATGTGC-CTTGGAGCTGAGCGTAGTCG
* * * * *
12228941 AACTCGAAGGTCTTTGGTGACAAATAACCCTTCTAGCCTTGGGTTATGCTGTAAATAATGTGCCC
64 AACTCGAAGGTCTTTGGTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATAATATGCCC
* *
12229006 TCGAAGCTAAGTGTAATCGAACTCG-AGGT-TCTTT-G-G
129 TCGAAACTAAGCGTAATCGAACTCGAAGGTCT-TTTAGTG
* * * * *
12229042 CAGATAGCCCTTCTCGACTTAAGCTATTATGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAGCCCTTCTAGCCTTGAGCTATGATGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* * * *
12229107 CTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCCT
66 CTCGAAGGTCTTTGG-TGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATAATATGCCCT
* * *
12229172 CGAAACTGAGCGTAGTCGAACTCGAAGGTCTTTTATTGG
130 CGAAACTAAGCGTAATCGAACTCGAAGGTCTTTTAGT-G
* * * * *
12229211 CAAATAGCCCTTCTTA-CCTTGAGCTATGTTGTAAATAATGTGCCTTGGAGCTGAGTGTAGTTGA
1 CAGATAGCCCTTC-TAGCCTTGAGCTATGATGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGA
* **
12229275 ACTCGAAGGTATTTTTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAAT
65 ACTCGAAGGTCTTTGGTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAAT
12229330 GTTTTTTTTA
Statistics
Matches: 368, Mismatches: 72, Indels: 28
0.79 0.15 0.06
Matches are distributed among these distances:
164 33 0.09
165 94 0.26
166 8 0.02
167 3 0.01
168 84 0.23
169 113 0.31
170 33 0.09
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (167 bp):
CAGATAGCCCTTCTAGCCTTGAGCTATGATGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
CTCGAAGGTCTTTGGTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATAATATGCCCTC
GAAACTAAGCGTAATCGAACTCGAAGGTCTTTTAGTG
Found at i:12229279 original size:249 final size:251
Alignment explanation
Indices: 12228757--12229307 Score: 718
Period size: 249 Copynumber: 2.2 Consensus size: 251
12228747 TTTGCCTATG
* * * * * *
12228757 AGCTGAGTGTTATCGAACTCGAAGGTTTTCGGTTGGCAGATAACTCTTCTCGACTTAAGCTATTC
1 AGCTAAGTGTAATCGAACTCGAAGG-ATTC-TTTGGCAGATAACCCTTCTCGACTTAAGCTATTA
*
12228822 TGCAAATGATGTGCCTTGGAGTTGAGCGTAGTCGAACTCGAAGGTCTTTTAGTGACAGATAACCC
64 TGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTAGTGACAGATAACCC
* * * * *
12228887 TTCTAGCCTTGAGTTATGCTGTAAATGATGTACTCTCAAAGCTGAGCGTAATCGAACTCGAAGGT
129 TTCTAGACTTAAGTTATGCTGCAAATGATATACCCTCAAAGCTGAGCGTAATCGAACTCGAAGGT
* * *
12228952 CTTTGGTGACAAATAACCCTTCTAGCCTTGGGTTATGCTGTAAATAATGTGCCCTCGA
194 CTTTAGTGACAAATAACCCTTCTAGCCTTGAGCTATGCTGTAAATAATGTGCCCTCGA
*
12229010 AGCTAAGTGTAATCGAACTCG-AGG-TTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTATG
1 AGCTAAGTGTAATCGAACTCGAAGGATTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATTATG
* *
12229073 CAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCCT
66 CAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTAG-TGACAGATAACCCT
* * *
12229137 TCTCGACTTAAGTTATGCTGCAAATGATATGCCCTCGAAA-CTGAGCGTAGTCGAACTCGAAGGT
130 TCTAGACTTAAGTTATGCTGCAAATGATATACCCTC-AAAGCTGAGCGTAATCGAACTCGAAGGT
* * * * * *
12229201 CTTTTATTGGCAAATAGCCCTTCTTA-CCTTGAGCTATGTTGTAAATAATGTG-CCTTGG
194 C-TTTAGTGACAAATAACCCTTC-TAGCCTTGAGCTATGCTGTAAATAATGTGCCCTCGA
* * * *
12229259 AGCTGAGTGTAGTTGAACTCGAAGGTATTTTTTGGCAGATAACCCTTCT
1 AGCTAAGTGTAATCGAACTCGAAGG-ATTCTTTGGCAGATAACCCTTCT
12229308 AGCCTTGAGT
Statistics
Matches: 260, Mismatches: 31, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
248 4 0.02
249 163 0.63
250 49 0.19
251 2 0.01
252 23 0.09
253 19 0.07
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (251 bp):
AGCTAAGTGTAATCGAACTCGAAGGATTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATTATG
CAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTAGTGACAGATAACCCTT
CTAGACTTAAGTTATGCTGCAAATGATATACCCTCAAAGCTGAGCGTAATCGAACTCGAAGGTCT
TTAGTGACAAATAACCCTTCTAGCCTTGAGCTATGCTGTAAATAATGTGCCCTCGA
Found at i:12236894 original size:22 final size:19
Alignment explanation
Indices: 12236852--12236920 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 19
12236842 TTAGTACCGG
*
12236852 TATTGTTCATCCAGTACCGA
1 TATTGTTCAT-CAGTATCGA
12236872 TATTGTTCTTGATCAGTATCGA
1 TATTGTTC---ATCAGTATCGA
* *
12236894 TACTATTCATCAAGTATCGA
1 TATTGTTCATC-AGTATCGA
12236914 TATTGTT
1 TATTGTT
12236921 ATTGCAGTCT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
19 3 0.08
20 21 0.52
22 14 0.35
23 2 0.05
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.42
Consensus pattern (19 bp):
TATTGTTCATCAGTATCGA
Found at i:12236956 original size:13 final size:13
Alignment explanation
Indices: 12236938--12236973 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
12236928 TCTCGTTAAG
12236938 GTATCGATACTCA
1 GTATCGATACTCA
12236951 GTATCGATACTCA
1 GTATCGATACTCA
12236964 GTATCGATAC
1 GTATCGATAC
12236974 CATCTAGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (13 bp):
GTATCGATACTCA
Found at i:12239375 original size:103 final size:103
Alignment explanation
Indices: 12239196--12239393 Score: 274
Period size: 103 Copynumber: 1.9 Consensus size: 103
12239186 ATAATGAAGT
* * *
12239196 AGTACCGATACTGTCAAAACATAATGCTAAAATCATATCGATAACATATATGCTATCGATACTAA
1 AGTACCGATACTGTCAAAACAGAATGCTAAAATCATACCGATAACATATATGATATCGATACTAA
*
12239261 AACTCAAAATAATG-AAGTAGTACCGATACTGCTGAGGC
66 AACCCAAAATAATGAAAG-AGTACCGATACTGCTGAGGC
* * ** *
12239299 AGTACCGATACTGTCAAAAGAGAATGCTAAAATGATACCGATTTCATATATGATATTGATAC-AG
1 AGTACCGATACTGTCAAAACAGAATGCTAAAATCATACCGATAACATATATGATATCGATACTA-
*
12239363 AAACCCATAATAATGAAAGAGTACCGATACT
65 AAACCCAAAATAATGAAAGAGTACCGATACT
12239394 ATCAAAATGA
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
102 1 0.01
103 79 0.95
104 3 0.04
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.25
Consensus pattern (103 bp):
AGTACCGATACTGTCAAAACAGAATGCTAAAATCATACCGATAACATATATGATATCGATACTAA
AACCCAAAATAATGAAAGAGTACCGATACTGCTGAGGC
Found at i:12248526 original size:302 final size:302
Alignment explanation
Indices: 12247617--12248526 Score: 1658
Period size: 302 Copynumber: 3.0 Consensus size: 302
12247607 TTCAAAAATT
*
12247617 ATTTTTGGGCTCGTTTAAGGCTCGAAATACTCTGTAAAATTGTTTCAAAAAGATTAAAACATAAT
1 ATTTTT-GGCTCGTTTAAGGCTCGAAATACTTTGTAAAATTGTTTCAAAAAGATTAAAACATAAT
* *
12247682 TTTACACTTAAGTAAGGCTTGAAGTTGACATTTGAAAAACTTGGAGTAATATGATAATATTCGAA
65 TTTACACTTAAGTAAGGCTTGAAATTGACATTTGAAAAACTTGGAGTAATATGTTAATATTCGAA
12247747 TAGTTTAATCGAATATATTTTCAAAAATGATTATAAGATCTTAAAAACCAATAACACTTAATTTG
130 TAGTTTAATCGAATATATTTTCAAAAATGATTATAAGATCTTAAAAACCAATAACACTTAATTTG
12247812 TTATATCGAAATATCAAAATGTTTTCAACAATCTCCCCCTTTTTGATATAACAAAACATTTTAGT
195 TTATATCGAAATATCAAAATGTTTTCAACAATCTCCCCCTTTTTGATATAACAAAACATTTTAGT
12247877 AAGTTTAAGATTTTCTTGTTGAAAATCATTTTTGAAGTCGAAA
260 AAGTTTAAGATTTTCTTGTTGAAAATCATTTTTGAAGTCGAAA
* * *
12247920 ATGTTTGACTCGTTTAAGGCTCGAAATACTTTGTAAAATTGTTTCAAAAAGATTACAACATAATT
1 ATTTTTGGCTCGTTTAAGGCTCGAAATACTTTGTAAAATTGTTTCAAAAAGATTAAAACATAATT
*
12247985 TTACACTTAAGTAAGGCTTGAAATTGACATTTGAAAAACTTGGAGTAATATGTTAATATTCAAAT
66 TTACACTTAAGTAAGGCTTGAAATTGACATTTGAAAAACTTGGAGTAATATGTTAATATTCGAAT
12248050 AGTTTAATCGAATATATTTTCAAAAATGATTATAAGATCTTAAAAACCAATAACACTTAATTTGT
131 AGTTTAATCGAATATATTTTCAAAAATGATTATAAGATCTTAAAAACCAATAACACTTAATTTGT
* *
12248115 TATATCTAAATATCAAAATGTTTTCAACGATCTCCCCCTTTTTGATATAACAAAACATTTTAGTA
196 TATATCGAAATATCAAAATGTTTTCAACAATCTCCCCCTTTTTGATATAACAAAACATTTTAGTA
*
12248180 AGTTTAAGATTTTCTTGTTGAAAATTATTTTTGAAGTCGAAA
261 AGTTTAAGATTTTCTTGTTGAAAATCATTTTTGAAGTCGAAA
*
12248222 ATTTTTGGCTCGTTTAAAGCTCGAAATACTTTGTAAAATTGTTTCAAAAAGATTAAAACATAATT
1 ATTTTTGGCTCGTTTAAGGCTCGAAATACTTTGTAAAATTGTTTCAAAAAGATTAAAACATAATT
* *
12248287 TTACACTTAAGTAAGACTTGAAATTGACATTTGAAAAACTTAGAGTAATATGTTAATATTCGAAT
66 TTACACTTAAGTAAGGCTTGAAATTGACATTTGAAAAACTTGGAGTAATATGTTAATATTCGAAT
* *
12248352 AGTTTAATCGAATATATTTTCAAAAATGATTATAAAATCTTAAAAACCAATAACACTTAAATTGT
131 AGTTTAATCGAATATATTTTCAAAAATGATTATAAGATCTTAAAAACCAATAACACTTAATTTGT
**
12248417 TATATCGAAATATCAAAATGTTTTCAACAATCTCCCATTTTTTGATATAACAAAACATTTTAGTA
196 TATATCGAAATATCAAAATGTTTTCAACAATCTCCCCCTTTTTGATATAACAAAACATTTTAGTA
12248482 AGTTTAAGATTTTCTTGTTGAAAATCATTTTTGAAGTCGAAA
261 AGTTTAAGATTTTCTTGTTGAAAATCATTTTTGAAGTCGAAA
12248524 ATT
1 ATT
12248527 AAAATTACTC
Statistics
Matches: 583, Mismatches: 24, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
302 578 0.99
303 5 0.01
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (302 bp):
ATTTTTGGCTCGTTTAAGGCTCGAAATACTTTGTAAAATTGTTTCAAAAAGATTAAAACATAATT
TTACACTTAAGTAAGGCTTGAAATTGACATTTGAAAAACTTGGAGTAATATGTTAATATTCGAAT
AGTTTAATCGAATATATTTTCAAAAATGATTATAAGATCTTAAAAACCAATAACACTTAATTTGT
TATATCGAAATATCAAAATGTTTTCAACAATCTCCCCCTTTTTGATATAACAAAACATTTTAGTA
AGTTTAAGATTTTCTTGTTGAAAATCATTTTTGAAGTCGAAA
Found at i:12250337 original size:20 final size:21
Alignment explanation
Indices: 12250312--12250360 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
12250302 TGTAGTTTTC
12250312 AAAACAATACAA-TT-AAATCA
1 AAAACAATA-AATTTAAAATCA
*
12250332 AAAACAACAAATTTAAAATCA
1 AAAACAATAAATTTAAAATCA
12250353 AAAACAAT
1 AAAACAAT
12250361 TTTTTTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 10 0.40
21 13 0.52
ACGTcount: A:0.67, C:0.14, G:0.00, T:0.18
Consensus pattern (21 bp):
AAAACAATAAATTTAAAATCA
Found at i:12259778 original size:27 final size:27
Alignment explanation
Indices: 12259747--12259801 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
12259737 AAGGAGATCG
12259747 CTTTCTGATTCTGATCTAAAGAAAAGA
1 CTTTCTGATTCTGATCTAAAGAAAAGA
12259774 CTTTCTGATTCTGATCTAAAGAAAAGA
1 CTTTCTGATTCTGATCTAAAGAAAAGA
12259801 C
1 C
12259802 GAGCTGATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (27 bp):
CTTTCTGATTCTGATCTAAAGAAAAGA
Found at i:12259808 original size:27 final size:27
Alignment explanation
Indices: 12259751--12259809 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
12259741 AGATCGCTTT
***
12259751 CTGATTCTGATCTAAAGAAAAGACTTT
1 CTGATTCTGATCTAAAGAAAAGACGAG
12259778 CTGATTCTGATCTAAAGAAAAGACGAG
1 CTGATTCTGATCTAAAGAAAAGACGAG
12259805 CTGAT
1 CTGAT
12259810 ACAAATATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (27 bp):
CTGATTCTGATCTAAAGAAAAGACGAG
Found at i:12266782 original size:27 final size:28
Alignment explanation
Indices: 12266744--12266797 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
12266734 AGATAATATG
12266744 ACTTAAAGTTGA-TTTTTAATGATTATA
1 ACTTAAAGTTGATTTTTTAATGATTATA
12266771 ACTTAAAGTTGATTTTTTTAATGATTA
1 ACTTAAAGTTGA-TTTTTTAATGATTA
12266798 AAAATAGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 12 0.48
29 13 0.52
ACGTcount: A:0.35, C:0.04, G:0.11, T:0.50
Consensus pattern (28 bp):
ACTTAAAGTTGATTTTTTAATGATTATA
Found at i:12269106 original size:20 final size:20
Alignment explanation
Indices: 12269081--12269173 Score: 105
Period size: 21 Copynumber: 4.5 Consensus size: 20
12269071 TTTTCCCAAT
12269081 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
12269101 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
12269121 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* * *
12269142 TCGCAACGCGAATTGAGAAAA
1 TCGCAATGCGAA-TAAGTAAA
12269163 TCGCAATGCGA
1 TCGCAATGCGA
12269174 TACTGACTAT
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
20 27 0.46
21 32 0.54
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:12269123 original size:41 final size:41
Alignment explanation
Indices: 12269078--12269173 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
12269068 CGATTTTCCC
*
12269078 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
12269119 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
*
12269160 AAATCGCAATGCGA
1 AATTCGCAATGCGA
12269174 TACTGACTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
Found at i:12269186 original size:41 final size:41
Alignment explanation
Indices: 12269100--12269234 Score: 123
Period size: 41 Copynumber: 3.3 Consensus size: 41
12269090 GAATAAGTAA
* * * *
12269100 ATCGCAACGCGAATTGGGAAATTCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGAGAAAATCGCAATGCG-ATACTG-ACT
12269141 ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
* * * * * *
12269182 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGAGAAAATCGCAATGCGATACTGACT
*
12269223 TTCGCAACGCGA
1 ATCGCAACGCGA
12269235 TACTGACTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
40 4 0.05
41 73 0.92
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
Found at i:12269187 original size:20 final size:20
Alignment explanation
Indices: 12269162--12269256 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
12269152 AATTGAGAAA
*
12269162 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
12269182 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
12269203 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
12269223 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
12269243 TTCGCAACGCGATA
1 ATCGCAACGCGATA
12269257 ATACATAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:12269472 original size:22 final size:22
Alignment explanation
Indices: 12269444--12269487 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
12269434 CACTCTCTCA
12269444 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
12269466 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
12269488 TATCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:12269774 original size:20 final size:20
Alignment explanation
Indices: 12269749--12269786 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
12269739 CGATTCTCTC
12269749 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
12269769 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
12269787 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:12271120 original size:18 final size:18
Alignment explanation
Indices: 12271099--12271143 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
12271089 TCCACTTCGG
*
12271099 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
12271117 GAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCCA
12271135 GAGCCATCA
1 GAGCCATCA
12271144 TCGATCCCGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:12271664 original size:19 final size:20
Alignment explanation
Indices: 12271610--12271676 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
12271600 TAGTTTACTT
* *
12271610 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
12271630 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
12271650 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
12271669 TCGCAACG
1 TCGCAACG
12271677 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:12271684 original size:14 final size:14
Alignment explanation
Indices: 12271665--12271720 Score: 67
Period size: 14 Copynumber: 3.7 Consensus size: 14
12271655 ATGCGAAATG
12271665 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
12271679 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
12271695 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
12271711 AAAATCGCAA
1 AAAATCGCAA
12271721 TGCGAAATGA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
14 19 0.53
16 8 0.22
18 9 0.25
ACGTcount: A:0.50, C:0.25, G:0.16, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:12271707 original size:32 final size:33
Alignment explanation
Indices: 12271649--12271739 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
12271639 GGAAATGGCT
12271649 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
12271682 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
12271714 ATCGCAATGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
12271740 TGCGATTTGT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 31 0.56
33 24 0.44
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:12271733 original size:19 final size:19
Alignment explanation
Indices: 12271649--12271744 Score: 88
Period size: 19 Copynumber: 5.6 Consensus size: 19
12271639 GGAAATGGCT
12271649 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
12271668 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
*
12271682 ATCGCAACGCGAAATG-AA
1 ATCGCAATGCGAAATGAAA
*
12271700 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
12271714 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
12271733 ATCGCAATGCGA
1 ATCGCAATGCGA
12271745 TTTGTGTTTC
Statistics
Matches: 62, Mismatches: 4, Indels: 22
0.70 0.05 0.25
Matches are distributed among these distances:
14 20 0.32
15 1 0.02
16 6 0.10
17 2 0.03
18 11 0.18
19 22 0.35
ACGTcount: A:0.46, C:0.22, G:0.20, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:12271779 original size:14 final size:14
Alignment explanation
Indices: 12271756--12271845 Score: 81
Period size: 14 Copynumber: 5.9 Consensus size: 14
12271746 TTGTGTTTCG
*
12271756 CGTTGTGATTTTGT
1 CGTTGCGATTTTGT
*
12271770 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
12271786 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
*
12271802 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
12271818 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
12271834 CGTTGCGATTTT
1 CGTTGCGATTTT
12271846 CATTTCGCAT
Statistics
Matches: 63, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
14 33 0.52
16 8 0.13
18 22 0.35
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:12271860 original size:19 final size:18
Alignment explanation
Indices: 12271770--12271902 Score: 120
Period size: 18 Copynumber: 7.6 Consensus size: 18
12271760 GTGATTTTGT
12271770 CGTTGCGATTTCATTTCG
1 CGTTGCGATTTCATTTCG
*
12271788 CGTTGCGATTT--TGT--
1 CGTTGCGATTTCATTTCG
12271802 CGTTGCGATTTCATTTCG
1 CGTTGCGATTTCATTTCG
*
12271820 CGTTGCGATTT--TGT--
1 CGTTGCGATTTCATTTCG
12271834 CGTTGCGATTTTCATTTCG
1 CGTTGCGA-TTTCATTTCG
* **
12271853 CATTGCGATAGCCATTTCTG
1 CGTTGCGAT-TTCATTTC-G
*
12271873 CGTTGCGATAGTCATTTCG
1 CGTTGCGAT-TTCATTTCG
12271892 CGTTGCGATTT
1 CGTTGCGATTT
12271903 TAAGTTTCGT
Statistics
Matches: 94, Mismatches: 10, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.20
15 3 0.03
16 6 0.06
17 2 0.02
18 24 0.26
19 23 0.24
20 17 0.18
ACGTcount: A:0.12, C:0.20, G:0.24, T:0.44
Consensus pattern (18 bp):
CGTTGCGATTTCATTTCG
Found at i:12271880 original size:20 final size:19
Alignment explanation
Indices: 12271846--12271900 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
12271836 TTGCGATTTT
*
12271846 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
12271865 CATTTCTGCGTTGCGATAGT
1 CATTTC-GCGTTGCGATAGC
12271885 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
12271901 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:12271919 original size:39 final size:32
Alignment explanation
Indices: 12271751--12271903 Score: 198
Period size: 32 Copynumber: 4.5 Consensus size: 32
12271741 GCGATTTGTG
*
12271751 TTTCGCGTTGTGATTTTGTCGTTGCGATTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
12271783 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
12271815 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
* * *
12271848 TTTCGCATTGCGATAGCCATTTCTGCGTTGCGATAGTCA
1 TTTCGCGTTGCGAT-----TTTGT-CGTTGCGAT-TTCA
12271887 TTTCGCGTTGCGATTTT
1 TTTCGCGTTGCGATTTT
12271904 AAGTTTCGTG
Statistics
Matches: 108, Mismatches: 5, Indels: 14
0.85 0.04 0.11
Matches are distributed among these distances:
32 58 0.54
33 18 0.17
34 3 0.03
38 5 0.05
39 24 0.22
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (32 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
Found at i:12273772 original size:14 final size:14
Alignment explanation
Indices: 12273753--12273788 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
12273743 ATTGTTTAAT
12273753 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
12273767 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
12273781 TGATTTGT
1 TGATTTGT
12273789 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:12274358 original size:14 final size:14
Alignment explanation
Indices: 12274339--12274374 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
12274329 ATTGTTTAAT
12274339 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
12274353 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
12274367 TGATTTGT
1 TGATTTGT
12274375 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:12277997 original size:19 final size:19
Alignment explanation
Indices: 12277975--12278072 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
12277965 GGAAATTACT
12277975 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
12277994 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
12278008 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
12278027 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
12278041 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
12278060 ATCGCAACGCGAA
1 ATCGCAATGCGAA
12278073 TTTAATTTCG
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 19 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 31 0.50
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:12278017 original size:33 final size:33
Alignment explanation
Indices: 12277975--12278068 Score: 179
Period size: 33 Copynumber: 2.8 Consensus size: 33
12277965 GGAAATTACT
12277975 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
12278008 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
12278041 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
12278069 CGAATTTAAT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:12278090 original size:19 final size:20
Alignment explanation
Indices: 12278068--12278110 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
12278058 AAATCGCAAC
12278068 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
12278087 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
12278107 GCGA
1 GCGA
12278111 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:12278095 original size:14 final size:14
Alignment explanation
Indices: 12278096--12278129 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
12278086 TGCGATTTTC
12278096 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
12278110 ATTCTCTCGTTGCG
1 ATTTTCGCGTTGCG
12278124 ATTTTC
1 ATTTTC
12278130 ATTTCGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:12278270 original size:14 final size:14
Alignment explanation
Indices: 12278251--12278287 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
12278241 CATCAATTAA
12278251 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
12278265 ACAAATCACCTTTT
1 ACAAATCAACTTTT
12278279 ACAAATCAA
1 ACAAATCAA
12278288 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:12279703 original size:21 final size:21
Alignment explanation
Indices: 12279637--12279703 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
12279627 GTGAATCGGG
*
12279637 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
12279657 CATCTTCAACGATGACAGTGGC
1 C-TCTTGAACGGTGGGAGGGGA
12279679 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
12279700 CTCT
1 CTCT
12279704 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 28 0.88
22 3 0.09
ACGTcount: A:0.21, C:0.19, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:12279722 original size:42 final size:41
Alignment explanation
Indices: 12279637--12279759 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
12279627 GTGAATCGGG
* * * * *
12279637 CTCTTGAATGGTGGGA-GGGACATCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGAC-TC-TCGAGGATGATAGGGGC
12279679 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
12279721 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
12279760 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.84
43 7 0.10
ACGTcount: A:0.24, C:0.17, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:12281877 original size:19 final size:19
Alignment explanation
Indices: 12281760--12281963 Score: 185
Period size: 19 Copynumber: 11.1 Consensus size: 19
12281750 TCTTTTGGTT
* *
12281760 GAAATGAATATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
12281779 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
12281799 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
12281817 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
12281833 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
12281851 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
12281866 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
* *
12281886 GAAATTAAAATCACAACGC
1 GAAATGAAAATCGCAACGC
12281905 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
12281924 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
*
12281943 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
12281962 GA
1 GA
12281964 TTTTGGTTTC
Statistics
Matches: 154, Mismatches: 18, Indels: 26
0.78 0.09 0.13
Matches are distributed among these distances:
14 19 0.12
15 3 0.02
16 2 0.01
17 1 0.01
18 4 0.03
19 80 0.52
20 43 0.28
21 2 0.01
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:12281917 original size:58 final size:57
Alignment explanation
Indices: 12281855--12281963 Score: 173
Period size: 58 Copynumber: 1.9 Consensus size: 57
12281845 GCGACCAGAC
*
12281855 AATCGCAACGCGAAATGAAAATCGCAACCGCGAAATTAAAATCACAACGCGAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAA-CGCGAAATGAAAATCACAACGCGAAATGAA
* * *
12281913 AATCGCAACGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGA
1 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATGAAAATCACAACGCGA
12281964 TTTTGGTTTC
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
57 20 0.43
58 27 0.57
ACGTcount: A:0.47, C:0.21, G:0.19, T:0.13
Consensus pattern (57 bp):
AATCGCAACGCGAAATGAAAATCGCAACGCGAAATGAAAATCACAACGCGAAATGAA
Found at i:12281934 original size:38 final size:38
Alignment explanation
Indices: 12281760--12281963 Score: 185
Period size: 33 Copynumber: 5.6 Consensus size: 38
12281750 TCTTTTGGTT
* * *
12281760 GAAATGAATATCGCAACGAGATAATGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGCGA-AATGAAAATCGCAACGC
** *
12281799 GGAAATGACTATCGCAA--CG--A-GAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
** * *
12281833 GAAATGACTATCGCGAC-C---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
* *
12281866 GAAATGAAAATCGCAACCGCGAAATTAAAATCACAACGC
1 GAAATGAAAATCGCAA-CGCGAAATGAAAATCGCAACGC
*
12281905 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
*
12281943 GAAATGAAAATCGCAATGCGA
1 GAAATGAAAATCGCAACGCGA
12281964 TTTTGGTTTC
Statistics
Matches: 143, Mismatches: 14, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
33 42 0.29
34 16 0.11
35 2 0.01
38 41 0.29
39 27 0.19
40 15 0.10
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.13
Consensus pattern (38 bp):
GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
Found at i:12281992 original size:19 final size:19
Alignment explanation
Indices: 12281959--12282003 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
12281949 AAAATCGCAA
*
12281959 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
12281978 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
12281997 TGCGATT
1 TGCGATT
12282004 ATCTCGTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.49
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:12282587 original size:20 final size:20
Alignment explanation
Indices: 12282562--12282613 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
12282552 CGCTAAGTAA
*
12282562 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGAAAGTAAGT
12282582 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGAAAGTAAGT
*
12282602 ATCTCGTTGCGA
1 ATCGCGTTGCGA
12282614 TTTTTTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (20 bp):
ATCGCGTTGCGAAAGTAAGT
Found at i:12282674 original size:41 final size:41
Alignment explanation
Indices: 12282583--12282717 Score: 121
Period size: 41 Copynumber: 3.3 Consensus size: 41
12282573 AAAGTCAGTA
* * * ** *
12282583 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCACATTGCGATTTTCCCAAT
* *
12282623 ATCGCATTGCGATAGTCAGTATCACATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCACATTGCGATTTTCCCAAT
* ** * *
12282665 TCGCGTTGCGAT-TTACTTATTCGCATTGCGAATTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCACATTGCGATTTTCCCAAT
12282706 TCGCGTTGCGAT
1 TCGCGTTGCGAT
12282718 TTACTTATTC
Statistics
Matches: 77, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
40 3 0.04
41 72 0.94
42 2 0.03
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCACATTGCGATTTTCCCAAT
Found at i:12282675 original size:21 final size:21
Alignment explanation
Indices: 12282649--12282719 Score: 90
Period size: 21 Copynumber: 3.4 Consensus size: 21
12282639 CAGTATCACA
12282649 TTGCGATTTTCCCAATTCGCG
1 TTGCGATTTTCCCAATTCGCG
* ** *
12282670 TTGCGA-TTTACTTATTCGCA
1 TTGCGATTTTCCCAATTCGCG
*
12282690 TTGCGAATTTCCCAATTCGCG
1 TTGCGATTTTCCCAATTCGCG
12282711 TTGCGATTT
1 TTGCGATTT
12282720 ACTTATTCGC
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 16 0.40
21 24 0.60
ACGTcount: A:0.17, C:0.24, G:0.18, T:0.41
Consensus pattern (21 bp):
TTGCGATTTTCCCAATTCGCG
Found at i:12282688 original size:20 final size:20
Alignment explanation
Indices: 12282663--12282736 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
12282653 GATTTTCCCA
*
12282663 ATTCGCGTTGCGATTTACTT
1 ATTCGCATTGCGATTTACTT
* **
12282683 ATTCGCATTGCGAATTTCCCA
1 ATTCGCATTGCG-ATTTACTT
*
12282704 ATTCGCGTTGCGATTTACTT
1 ATTCGCATTGCGATTTACTT
12282724 ATTCGCATTGCGA
1 ATTCGCATTGCGA
12282737 ATCGGGAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACTT
Found at i:12282718 original size:41 final size:41
Alignment explanation
Indices: 12282647--12282738 Score: 175
Period size: 41 Copynumber: 2.2 Consensus size: 41
12282637 GTCAGTATCA
*
12282647 CATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTATTCG
1 CATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTATTCG
12282688 CATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTATTCG
1 CATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTATTCG
12282729 CATTGCGAAT
1 CATTGCGAAT
12282739 CGGGAAAATC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (41 bp):
CATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTATTCG
Found at i:12295144 original size:19 final size:19
Alignment explanation
Indices: 12295120--12295168 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
12295110 TTACATTCAC
12295120 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
12295139 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
12295158 ATACAAAATTA
1 ATACAAAATTA
12295169 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:12297553 original size:202 final size:202
Alignment explanation
Indices: 12296766--12298202 Score: 1700
Period size: 202 Copynumber: 7.1 Consensus size: 202
12296756 TACGTAATTT
* * * * **
12296766 AAAAACGTATCGACACAAAACTCAAAA-GTGTCGATACATTATGTAGACCTATTCTCACATAAAA
1 AAAAA-GTATCGACAC-AAATTTAAAAGGTGTCGATACATTATGTATACCTATTTTCTTATAAAA
* * *
12296830 CCGATATATTTATACCA-GTTACA-T-TACAATATTACCTATTACATTATAATTATGGGTTTCGA
64 TCGGTATATTTATA-CAGGTTACATTGTA-AAT-TTACCTATTACATTATAATT-TCGGTTTCGA
* * * * * *
12296892 TGTTTTTCGGATCGATACTTTTTTATAAATGTATCGACATTTTATGCGTTCACCATT-TTG-GTC
125 TGTTTTTTGGATCGACAC-TTTTAATAAATGTATCGACACTTTATGTGTGCACC-TTGTTGAG-C
** ** *
12296955 ATTC--ATTCT-GGAC
187 AAACAAAGCCTCGCAC
* * * * * * **
12296968 AAATAGTATCGACACAAAATCTACAA-GTGTCGATACATTATGTAGACTTATTCTCACATAAAAT
1 AAAAAGTATCGACAC-AAATTTAAAAGGTGTCGATACATTATGTATACCTATTTTCTTATAAAAT
* ** * * *
12297032 CGGTATATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATGGGTATCGATGTT
65 CGGTATATTTATACAGGTTACATTGTAAATTTACCTATTACATTATAATT-TCGGTTTCGATGTT
* * ** * ** * * **
12297097 TTTGGGATCAATGCGTTTTAA-AAATGTATCGACACTTTGTGCATTCACCCTGTTTG-GCATTCA
129 TTTTGGATCGACAC-TTTTAATAAATGTATCGACACTTTATGTGTGCACCTTG-TTGAGCAAACA
* * *
12297160 TTA---T-GGAT
192 -AAGCCTCGCAC
* * * * * *
12297168 AAAATGTATCAACACAAATTTCAAAGGTGTCTATACATTAT-T-TATCTCTTTTCTTATAAAA-C
1 AAAAAGTATCGACACAAATTTAAAAGGTGTCGATACATTATGTATACCTATTTTCTTATAAAATC
* * **
12297230 TGGTATATTTATATC-GGTTACATTGTAAATTTACCTATTAAATTATAATATTCGATTTTAATGT
66 -GGTATATTTATA-CAGGTTACATTGTAAATTTACCTATTACATTATAAT-TTCGGTTTCGATGT
* * *
12297294 TTTGTGGATCGACACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTTGTTGAGGAAACAA
128 TTTTTGGATCGACACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTTGTTGAGCAAACAA
12297359 AGCCTCGCAC
193 AGCCTCGCAC
* *
12297369 AAAAAGTATAGACACAAATTTAAAAGGTGTCGATACATTATGTATACCTATTTTCTTATAAAACC
1 AAAAAGTATCGACACAAATTTAAAAGGTGTCGATACATTATGTATACCTATTTTCTTATAAAATC
* * *
12297434 AGTATATTTATACAGGTTACATTGTAAATTTACCTATTATATTATAATTTCCGTTTCGATGTTTT
66 GGTATATTTATACAGGTTACATTGTAAATTTACCTATTACATTATAATTTCGGTTTCGATGTTTT
* *
12297499 ATAGATCGACACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTTGTTGAGCAAACAAAGC
131 TTGGATCGACACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTTGTTGAGCAAACAAAGC
12297564 CTCGCAC
196 CTCGCAC
* *
12297571 AAAAAGTATAGACACAAATTTAAAAGGTGTCGATCCATTATGTATACCTATTTTCTTATAAAATC
1 AAAAAGTATCGACACAAATTTAAAAGGTGTCGATACATTATGTATACCTATTTTCTTATAAAATC
* * *
12297636 GATATATTTATACCGATTACATTGTAAATTTACCTATTACATTATAATTTTC-GTTTCGATGTTT
66 GGTATATTTATACAGGTTACATTGTAAATTTACCTATTACATTATAA-TTTCGGTTTCGATGTTT
* * *
12297700 TTTGGATCGAAACTTTTAATAAATGTAGCGACACTTTATGTGTGCACCTTTTTGAGCAAACAAAG
130 TTTGGATCGACACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTTGTTGAGCAAACAAAG
12297765 CCTCGCAC
195 CCTCGCAC
* * *
12297773 AAAATGTATCGACACAAATTTAAAAGGTGTCGATACGTTATGTATACCTATTTTCTTATAAATTC
1 AAAAAGTATCGACACAAATTTAAAAGGTGTCGATACATTATGTATACCTATTTTCTTATAAAATC
* *
12297838 GGTATATTTATACCGATTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCGATGTTT
66 GGTATATTTATACAGGTTACATTGTAAATTTACCTATTACATTATAA-TTTCGGTTTCGATGTTT
*
12297903 TTTGGATCGACACTTTTAATAATTGTATCGACACTTTATGTGTGCACCTTGTTGAGCAAACAATA
130 TTTGGATCGACACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTTGTTGAGCAAACAA-A
12297968 -CCTCGCAC
194 GCCTCGCAC
*
12297976 AAAAATTATCGACACAAATTTAAAAGGTGTCGATACATTATGTATACCTATTTTCTTATAAAATC
1 AAAAAGTATCGACACAAATTTAAAAGGTGTCGATACATTATGTATACCTATTTTCTTATAAAATC
* *
12298041 GGTATATTTATACCA-GTTACATTGTAAATTTACCTATTACATTATAATTTTTGGTTTCAATGTT
66 GGTATATTTATA-CAGGTTACATTGTAAATTTACCTATTACATTATAA-TTTCGGTTTCGATGTT
* *
12298105 TTTTGGATCGACACTTTTAATAACTGTATCGACACTTTATGCT-TGTACCTTGTTGAGCAAACAA
129 TTTTGGATCGACACTTTTAATAAATGTATCGACACTTTATG-TGTGCACCTTGTTGAGCAAACAA
*
12298169 TGCCTCGCAC
193 AGCCTCGCAC
12298179 AAAAAGTATCGACAC-AATTTAAAA
1 AAAAAGTATCGACACAAATTTAAAA
12298203 TGTAGTTGAA
Statistics
Matches: 1096, Mismatches: 111, Indels: 56
0.87 0.09 0.04
Matches are distributed among these distances:
197 11 0.01
198 103 0.09
199 11 0.01
200 62 0.06
201 163 0.15
202 395 0.36
203 347 0.32
204 4 0.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (202 bp):
AAAAAGTATCGACACAAATTTAAAAGGTGTCGATACATTATGTATACCTATTTTCTTATAAAATC
GGTATATTTATACAGGTTACATTGTAAATTTACCTATTACATTATAATTTCGGTTTCGATGTTTT
TTGGATCGACACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTTGTTGAGCAAACAAAGC
CTCGCAC
Found at i:12297980 original size:405 final size:405
Alignment explanation
Indices: 12296766--12298202 Score: 1766
Period size: 405 Copynumber: 3.6 Consensus size: 405
12296756 TACGTAATTT
* * * * * **
12296766 AAAAACGTATCGACACAAAACTCAAAA-GTGTCGATACATTATGTAGACCTATTCTCACATAAAA
1 AAAAA-GTATAGACAC-AAATTTAAAAGGTGTCGATACATTATGTATACCTATTTTCTTATAAAA
* ** *
12296830 CCGATATATTTATACCAGTTACA-T-TACAATATTACCTATTACATTATAATTATGGGTTTCGAT
64 TCGATATATTTATACCAGTTACATTGTA-AAT-TTACCTATTACATTATAATT-TTCGTTTCAAT
* * * * *
12296893 GTTTTTCGGATCGATACTTTTTTATAAATGTATCGACATTTTATGCGTTCACCATT-TTG-GTCA
126 GTTTTTTGGATCGACAC-TTTTAATAAATGTATCGACACTTTATGCGTGCACC-TTGTTGAG-CA
** ** * * * * * *
12296956 TTC--ATTCT-GGACAAATAGTATCGACACAAAATCTACAA-GTGTCGATACATTATGTAGACTT
188 AACAAAGCCTCGCACAAAAAGTATCGACAC-AAATTTAAAAGGTGTCGATACATTATGTATACCT
* ** ** *
12297017 ATTCTCACATAAAATCGGTATATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATT
252 ATTTTCTTATAAAATCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATT
* * * * * ** * ** *
12297082 ATGGGTATCGATGTTTTTGGGATCAATGCGTTTTAA-AAATGTATCGACACTTTGTGCATTCACC
317 TTCGGTTTCGATGTTTTTTGGATCGACAC-TTTTAATAAATGTATCGACACTTTATGTGTGCACC
* ** * * *
12297146 CTGTTTG-GCATTCATTA--T-GGAT
381 TTG-TTGAGCAAACAATACCTCGCAC
* * * * *
12297168 AAAATGTATCA-ACACAAATTTCAAAGGTGTCTATACATTAT-T-TATCTCTTTTCTTATAAAA-
1 AAAAAGTAT-AGACACAAATTTAAAAGGTGTCGATACATTATGTATACCTATTTTCTTATAAAAT
* * * * * *
12297229 CTGGTATATTTATATCGGTTACATTGTAAATTTACCTATTAAATTATAATATTCGATTTTAATGT
65 C-GATATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTTTCG-TTTCAATGT
* *
12297294 TTTGTGGATCGACACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTTGTTGAGGAAACAA
128 TTTTTGGATCGACACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTTGTTGAGCAAACAA
*
12297359 AGCCTCGCACAAAAAGTATAGACACAAATTTAAAAGGTGTCGATACATTATGTATACCTATTTTC
193 AGCCTCGCACAAAAAGTATCGACACAAATTTAAAAGGTGTCGATACATTATGTATACCTATTTTC
* * * * *
12297424 TTATAAAACCAGTATATTTATACAGGTTACATTGTAAATTTACCTATTATATTATAA-TTTCCGT
258 TTATAAAATCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGT
* *
12297488 TTCGATGTTTTATAGATCGACACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTTGTTGA
323 TTCGATGTTTTTTGGATCGACACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTTGTTGA
12297553 GCAAACAA-AGCCTCGCAC
388 GCAAACAATA-CCTCGCAC
*
12297571 AAAAAGTATAGACACAAATTTAAAAGGTGTCGATCCATTATGTATACCTATTTTCTTATAAAATC
1 AAAAAGTATAGACACAAATTTAAAAGGTGTCGATACATTATGTATACCTATTTTCTTATAAAATC
*
12297636 GATATATTTATACC-GATTACATTGTAAATTTACCTATTACATTATAATTTTCGTTTCGATGTTT
66 GATATATTTATACCAG-TTACATTGTAAATTTACCTATTACATTATAATTTTCGTTTCAATGTTT
* * * *
12297700 TTTGGATCGAAACTTTTAATAAATGTAGCGACACTTTATGTGTGCACCTTTTTGAGCAAACAAAG
130 TTTGGATCGACACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTTGTTGAGCAAACAAAG
* *
12297765 CCTCGCACAAAATGTATCGACACAAATTTAAAAGGTGTCGATACGTTATGTATACCTATTTTCTT
195 CCTCGCACAAAAAGTATCGACACAAATTTAAAAGGTGTCGATACATTATGTATACCTATTTTCTT
* *
12297830 ATAAATTCGGTATATTTATACCGATTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTT
260 ATAAAATCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTT
*
12297895 CGATGTTTTTTGGATCGACACTTTTAATAATTGTATCGACACTTTATGTGTGCACCTTGTTGAGC
325 CGATGTTTTTTGGATCGACACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTTGTTGAGC
12297960 AAACAATACCTCGCAC
390 AAACAATACCTCGCAC
* *
12297976 AAAAATTATCGACACAAATTTAAAAGGTGTCGATACATTATGTATACCTATTTTCTTATAAAATC
1 AAAAAGTATAGACACAAATTTAAAAGGTGTCGATACATTATGTATACCTATTTTCTTATAAAATC
* *
12298041 GGTATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTTTTGGTTTCAATGTTT
66 GATATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAA-TTTTCGTTTCAATGTTT
* * * *
12298106 TTTGGATCGACACTTTTAATAACTGTATCGACACTTTATGCTTGTACCTTGTTGAGCAAACAATG
130 TTTGGATCGACACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTTGTTGAGCAAACAAAG
12298171 CCTCGCACAAAAAGTATCGACAC-AATTTAAAA
195 CCTCGCACAAAAAGTATCGACACAAATTTAAAA
12298203 TGTAGTTGAA
Statistics
Matches: 893, Mismatches: 115, Indels: 51
0.84 0.11 0.05
Matches are distributed among these distances:
397 2 0.00
398 40 0.04
399 79 0.09
400 74 0.08
401 114 0.13
402 6 0.01
403 37 0.04
404 181 0.20
405 263 0.29
406 97 0.11
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (405 bp):
AAAAAGTATAGACACAAATTTAAAAGGTGTCGATACATTATGTATACCTATTTTCTTATAAAATC
GATATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTTTCGTTTCAATGTTTT
TTGGATCGACACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTTGTTGAGCAAACAAAGC
CTCGCACAAAAAGTATCGACACAAATTTAAAAGGTGTCGATACATTATGTATACCTATTTTCTTA
TAAAATCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTC
GATGTTTTTTGGATCGACACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTTGTTGAGCA
AACAATACCTCGCAC
Found at i:12298421 original size:18 final size:18
Alignment explanation
Indices: 12298398--12298434 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
12298388 CGAAATTTAT
12298398 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
12298416 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
12298434 A
1 A
12298435 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:12299747 original size:6 final size:6
Alignment explanation
Indices: 12299737--12299770 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
12299727 CTTGTTTGGA
* *
12299737 TCATCA TCATCT TCATCG TCATCT TCATCT TCAT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCAT
12299771 TGACCGCTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.21, C:0.32, G:0.03, T:0.44
Consensus pattern (6 bp):
TCATCT
Found at i:12301402 original size:179 final size:182
Alignment explanation
Indices: 12301095--12301973 Score: 779
Period size: 199 Copynumber: 4.6 Consensus size: 182
12301085 TTAAAAATGT
* *
12301095 ATCGACAC-TTT-ATGGGTGC-ACCCTTTTGGGCATTCCTTCTGGACAAAAAGTATCGACACAAA
1 ATCGACACTTTTAATGGATGCGACCCTTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAA
* * *
12301157 ATACACAAGTATCGACAAATTTTATAGACCTATTCTCTCATAAAACCGGTATATTTATATCGGTT
66 ATACACAAGTGTCGATAAATTTTATAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTT
* * *
12301222 ACATTGGAAATTTACCTATTATATTATAATTATCGGTTTCGATGTTTTTGGG
131 ACATTGAAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGG
*
12301274 ATCGACAC-TTT-ATGGGTGC-ACCCTTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAA
1 ATCGACACTTTTAATGGATGCGACCCTTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAA
* *
12301336 ATACACAAGTGTCGATAAATTTTATAGACCTATTCTCTCATAAAACTGATATATTTATACCGGTT
66 ATACACAAGTGTCGATAAATTTTATAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTT
* **
12301401 ACGTTGAAAAATTACCTATTACATTATAATTATTAGTTTCGATGTTTTTGGG
131 ACATTGAAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGG
* * * *
12301453 ATTGACACTTTTTAAAAATGTATCGACACTTTATGGTGCACCCTTTTGGGCATTCCTTCTAGACA
1 ATCGACAC-TTTT---AATG----G-------AT-GCG-ACCCTTTTGGGCATTCATTCTGGACA
* * * * * *
12301518 AAAAGTATCGACACAAAATACACAAGTGTCGATACATTTTGTAGACCTAATATCTAATAAAATCG
49 AAAAGTATCGACACAAAATACACAAGTGTCGATAAATTTTATAGACCTATTCTCTCATAAAACCG
12301583 GTATATTTATACCGGTTACATTGAAAAATTACCTATTA-ATTATAATTATCGGTTT-GATGTTTT
114 GTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTTT
*
12301646 TGGA
179 TGGG
* *
12301650 ATCGACACTTTTTAAAAATGTATAGACATTTTATGGGTGCACCCTTTTGGGCATTCATTATGGAC
1 ATCGACAC-TTTT---AATG----G-------AT--GCG-ACCCTTTTGGGCATTCATTCTGGAC
* * * * * *
12301715 AAAAAGTATCGACACAAATTCCAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
48 AAAAAGTATCGACACAAAATACACAAGTGTCGATAAATTTTATAGACCTATTCTCTCATAAAACC
* * * * *
12301780 GGCATA-GTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTAT-GAGTTTCGATGTT
113 GGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATCG-GTTTCGATGTT
12301843 TTTGGG
177 TTTGGG
* * *
12301849 ATCAATACTTTTTATAAATGTATCGACACTTTATGTGTGCACCCTTTTGGGCATTCATTCTGGAC
1 ATCGACAC--TTT-T-AATG----G-------A--TGCG-ACCCTTTTGGGCATTCATTCTGGAC
* * * * * *
12301914 AAAAAGTATCGACACAAATTCCAAAAGTGTCGATACATTGTGTAGACCTATTCTCTCATA
48 AAAAAGTATCGACACAAAATACACAAGTGTCGATAAATTTTATAGACCTATTCTCTCATA
12301974 TAGGGATGGC
Statistics
Matches: 617, Mismatches: 55, Indels: 36
0.87 0.08 0.05
Matches are distributed among these distances:
179 174 0.28
181 3 0.00
185 3 0.00
189 1 0.00
196 1 0.00
197 72 0.12
198 119 0.19
199 238 0.39
200 4 0.01
201 2 0.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (182 bp):
ATCGACACTTTTAATGGATGCGACCCTTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAA
ATACACAAGTGTCGATAAATTTTATAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTT
ACATTGAAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGG
Found at i:12301565 original size:199 final size:200
Alignment explanation
Indices: 12301274--12301973 Score: 1041
Period size: 199 Copynumber: 3.5 Consensus size: 200
12301264 TGTTTTTGGG
12301274 ATCGACACTTTATGGGTGCACCCTTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAAATA
1 ATCGACACTTTATGGGTGCACCCTTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAAATA
* * * * *
12301339 CACAAGTGTCGATAAATTTTATAGACCTATTCTCTCATAAAACTGATATATTTATACCGGTTACG
66 CAAAAGTGTCGATACATTTTGTAGACCTATTCTCTCATAAAACTGGTATATTTATACCGGTTACA
* *
12301404 TTGAAAAATTACCTATTACATTATAATTATTAGTTTCGATGTTTTTGGGATTGACACTTTTTAAA
131 TTGAAAAATTACCTATTACATTATAATTATCAGTTTCGATGTTTTTGGGATCGACACTTTTTAAA
12301469 AATGT
196 AATGT
* *
12301474 ATCGACACTTTAT-GGTGCACCCTTTTGGGCATTCCTTCTAGACAAAAAGTATCGACACAAAATA
1 ATCGACACTTTATGGGTGCACCCTTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAAATA
* * * *
12301538 CACAAGTGTCGATACATTTTGTAGACCTAATATCTAATAAAA-TCGGTATATTTATACCGGTTAC
66 CAAAAGTGTCGATACATTTTGTAGACCTATTCTCTCATAAAACT-GGTATATTTATACCGGTTAC
* *
12301602 ATTGAAAAATTACCTATTA-ATTATAATTATCGGTTT-GATGTTTTTGGAATCGACACTTTTTAA
130 ATTGAAAAATTACCTATTACATTATAATTATCAGTTTCGATGTTTTTGGGATCGACACTTTTTAA
12301665 AAATGT
195 AAATGT
* * * * *
12301671 ATAGACATTTTATGGGTGCACCCTTTTGGGCATTCATTATGGACAAAAAGTATCGACACAAATTC
1 ATCGACACTTTATGGGTGCACCCTTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAAATA
* * * * *
12301736 CAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGGCATA-GTATATCGGTTACA
66 CAAAAGTGTCGATACATTTTGTAGACCTATTCTCTCATAAAACTGGTATATTTATACCGGTTACA
* * * * * *
12301800 TTGTAAATTTACCTATTACATTATAATTATGAGTTTCGATGTTTTTGGGATCAATACTTTTTATA
131 TTGAAAAATTACCTATTACATTATAATTATCAGTTTCGATGTTTTTGGGATCGACACTTTTTAAA
12301865 AATGT
196 AATGT
* * *
12301870 ATCGACACTTTATGTGTGCACCCTTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAATTC
1 ATCGACACTTTATGGGTGCACCCTTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAAATA
*
12301935 CAAAAGTGTCGATACATTGTGTAGACCTATTCTCTCATA
66 CAAAAGTGTCGATACATTTTGTAGACCTATTCTCTCATA
12301974 TAGGGATGGC
Statistics
Matches: 453, Mismatches: 42, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
197 70 0.15
198 119 0.26
199 251 0.55
200 13 0.03
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.36
Consensus pattern (200 bp):
ATCGACACTTTATGGGTGCACCCTTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAAATA
CAAAAGTGTCGATACATTTTGTAGACCTATTCTCTCATAAAACTGGTATATTTATACCGGTTACA
TTGAAAAATTACCTATTACATTATAATTATCAGTTTCGATGTTTTTGGGATCGACACTTTTTAAA
AATGT
Found at i:12302195 original size:17 final size:17
Alignment explanation
Indices: 12302173--12302226 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
12302163 CGGGCTGGGT
12302173 ATATATATTTAATTTAA
1 ATATATATTTAATTTAA
* *
12302190 ATATATATAT-ATATTAT
1 ATATATATTTAAT-TTAA
12302207 ATATATATGTTAATTTAA
1 ATATATAT-TTAATTTAA
12302225 AT
1 AT
12302227 TAAATTTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
16 2 0.07
17 20 0.67
18 6 0.20
19 2 0.07
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
ATATATATTTAATTTAA
Found at i:12302230 original size:40 final size:38
Alignment explanation
Indices: 12302172--12302252 Score: 116
Period size: 38 Copynumber: 2.2 Consensus size: 38
12302162 TCGGGCTGGG
* *
12302172 TATATATAT-TTAATTTAAA-T--ATATATATATATTA
1 TATATATATGTTAATTTAAATTAAATTTATAAATATTA
12302206 TATATATATGTTAATTTAAATTAAATTTATAAATATTA
1 TATATATATGTTAATTTAAATTAAATTTATAAATATTA
12302244 TATATATAT
1 TATATATAT
12302253 ATAATAATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
34 9 0.22
35 10 0.24
36 1 0.02
38 21 0.51
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (38 bp):
TATATATATGTTAATTTAAATTAAATTTATAAATATTA
Found at i:12302261 original size:40 final size:41
Alignment explanation
Indices: 12302172--12302261 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 41
12302162 TCGGGCTGGG
* *
12302172 TATATAT-ATTTAATTTAAATATATATATATATTATATATA
1 TATATATAATTTAAATTAAATATATATAAATATTATATATA
*
12302212 TATGT-TAATTTAAATTAAAT-T-TATAAATATTATATATA
1 TATATATAATTTAAATTAAATATATATAAATATTATATATA
12302250 TATATAATAATT
1 TATAT-ATAATT
12302262 ATTTTTAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
38 20 0.47
39 2 0.05
40 21 0.49
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (41 bp):
TATATATAATTTAAATTAAATATATATAAATATTATATATA
Found at i:12302399 original size:29 final size:30
Alignment explanation
Indices: 12302333--12302400 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
12302323 CCCATCCCCA
* *
12302333 TCCCCATCCCCGTTTAACATAAATAGTTTT
1 TCCCCGTCCCCGTTTAACATAAATAGATTT
* * * *
12302363 TTCCCGTCCCCGTTTAGCTTAAA-CGATTT
1 TCCCCGTCCCCGTTTAACATAAATAGATTT
12302392 TCCCCGTCC
1 TCCCCGTCC
12302401 TCATTTAATT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
29 12 0.39
30 19 0.61
ACGTcount: A:0.19, C:0.35, G:0.10, T:0.35
Consensus pattern (30 bp):
TCCCCGTCCCCGTTTAACATAAATAGATTT
Found at i:12302808 original size:200 final size:199
Alignment explanation
Indices: 12302451--12303161 Score: 1095
Period size: 200 Copynumber: 3.6 Consensus size: 199
12302441 GCCATCACTA
* * *
12302451 CTCTCATAAAATCGGTATAGTTATACTGGTTACATTGTAAATTTACCTATTACATTATAATTATG
1 CTCTCAT-TAATCAGTATAGTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATG
*
12302516 GGTTTCGATGTTTTTGGGATTGAT-CCTTTTTATAAATGTATCGACACTTTATG-TGTGCACCCT
65 GGTTTCGATGTTTTTGGGATCGATACC-TTTTATAAATGTATCGACACTTTATGCT-TGCACCCT
* *
12302579 TTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAATTCTAAAAGTGCCGATACATTATGTAG
128 TTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAATTCCAAAAGTGTCGATACATTATGTAG
12302644 ACCTATT
193 ACCTATT
* **
12302651 ATCTCATTAATCCAGTATAGTTATACATGTTACATTGTAAATTTACCTATTACATTATAATTATG
1 CTCTCATTAAT-CAGTATAGTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATG
*
12302716 GGTTTCGATGTTTTTAGGATCGATACCTTTTATAAATGTATCGACACTTTATGCTTGCACCCTTT
65 GGTTTCGATGTTTTTGGGATCGATACCTTTTATAAATGTATCGACACTTTATGCTTGCACCCTTT
*
12302781 TGGGCATTTATTCTGGACAAAAAGTATCGACACAAATTCCAAAAGTGTCGATACATTATGTAGAC
130 TGGGCATTCATTCTGGACAAAAAGTATCGACACAAATTCCAAAAGTGTCGATACATTATGTAGAC
12302846 CTATT
195 CTATT
* * * *
12302851 CTCTCATAAAACTGATATAGTTATACCGGTTACATTGTAAATTTACCTATTACATTAAAATTATG
1 CTCTCATTAATCAG-TATAGTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATG
* * * * * *
12302916 GGTTTTGATGTTTTTGGGATTGATACTTTTTATAAATGTATTGACACTTTACGCGTGCACCCTTT
65 GGTTTCGATGTTTTTGGGATCGATACCTTTTATAAATGTATCGACACTTTATGCTTGCACCCTTT
* *
12302981 TGGGTATTCATTCTGGACAAAAAGTATCGACACAAATTCCAAAAGTGTCGATACATTATGTAGAT
130 TGGGCATTCATTCTGGACAAAAAGTATCGACACAAATTCCAAAAGTGTCGATACATTATGTAGAC
12303046 CTATT
195 CTATT
* * *
12303051 CTCTCATAAAATCGGTATAGTTATACCGGTTACATTGTAAATTTACATATT-CATTATAATTATG
1 CTCTCAT-TAATCAGTATAGTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATG
* *
12303115 GGTTTCGATGTTTTTGGGATCAATACTTTTTATAAATGTATCGACAC
65 GGTTTCGATGTTTTTGGGATCGATACCTTTTATAAATGTATCGACAC
12303162 ATCTACTTAC
Statistics
Matches: 471, Mismatches: 35, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
199 60 0.13
200 403 0.86
201 8 0.02
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (199 bp):
CTCTCATTAATCAGTATAGTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGG
GTTTCGATGTTTTTGGGATCGATACCTTTTATAAATGTATCGACACTTTATGCTTGCACCCTTTT
GGGCATTCATTCTGGACAAAAAGTATCGACACAAATTCCAAAAGTGTCGATACATTATGTAGACC
TATT
Found at i:12303613 original size:19 final size:19
Alignment explanation
Indices: 12303589--12303637 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
12303579 TTACATTCAC
12303589 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
12303608 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
12303627 ATACAAAATTA
1 ATACAAAATTA
12303638 ACCCCACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:12305432 original size:33 final size:33
Alignment explanation
Indices: 12305395--12305461 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
12305385 CTATCTTAAG
* *
12305395 TTCACCCCTCAATATCTCAACTTCTTTCACCAC
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
* * *
12305428 TTCACCTCTCAACACCTTAATTTCTTTCACCAC
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
12305461 T
1 T
12305462 CCATCTATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.40, G:0.00, T:0.36
Consensus pattern (33 bp):
TTCACCCCTCAACACCTCAACTTCTTTCACCAC
Found at i:12305933 original size:22 final size:23
Alignment explanation
Indices: 12305905--12305960 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
12305895 AACCTTCATT
*
12305905 TATAATAAAAT-TTATCATTTTA
1 TATAATAAAATACTATCATTTTA
*
12305927 TATAATAACTATACTATCATTTTA
1 TATAATAA-AATACTATCATTTTA
*
12305951 TATAAAAAAA
1 TATAATAAAA
12305961 CAAAAACGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 8 0.29
23 3 0.11
24 17 0.61
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (23 bp):
TATAATAAAATACTATCATTTTA
Found at i:12308260 original size:182 final size:181
Alignment explanation
Indices: 12307927--12308581 Score: 905
Period size: 182 Copynumber: 3.6 Consensus size: 181
12307917 TAGGCGTACT
12307927 TATTAAAGTATCGACACTTTCAATATATACGGTAGCTCTTTACCGGTTTTGTCATTTCGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATACGGTAGCTCTTTACCGGTTTTGTCATTTCGAGACCG
12307992 GTTTTGTCATA-TTTTACCTGTTATATCGTTATGGATCGATACATTATCATAAAGTATCGACACT
66 GTTTTGTCATATTTTTA-CTGTTATATCGTTATGGATCGATACATTATCATAAAGTATCGACACT
*
12308056 TTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCCCAAAGTGTCGATACTTA
130 TTATAGGCGCTAAAATTGCTTCTCTTTTAAATTCCCAAAGTGTCGATACTTA
* *
12308108 TATTAAAGTATCGACACTTTCAATATATCCGGTAG-TGTTTTACCGGTTTTGTC-TTTCCGAGAC
1 TATTAAAGTATCGACACTTTCAATATATACGGTAGCT-CTTTACCGGTTTTGTCATTT-CGAGAC
*
12308171 CGGTTTTGTCATATTTTTACATGTTATATCGTTATGGATCGATACATTATCATAAAGTATCAACA
64 CGGTTTTGTCATATTTTTAC-TGTTATATCGTTATGGATCGATACATTATCATAAAGTATCGACA
*
12308236 CTTTATAGGCGCTAAAATTGCTTCTCTTTTAAATTACCAAAGTGTCGATACTTA
128 CTTTATAGGCGCTAAAATTGCTTCTCTTTTAAATTCCCAAAGTGTCGATACTTA
* *
12308290 TATTAAAGTATCGACACTTTCAATATATTCGGTAGCTCTTTACCGGTTTTGTCGTTTCGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATACGGTAGCTCTTTACCGGTTTTGTCATTTCGAGACCG
* *
12308355 ATTTTGTCATATTTTTATCTGTTATATCGTTATGGATCGATACATCT-TTATAAAGTATCGACAC
66 GTTTTGTCATATTTTTA-CTGTTATATCGTTATGGATCGATACAT-TATCATAAAGTATCGACAC
* ** * * *
12308419 TTTATAGGTGCTATTATTGTTTCTCTTTTAAATTCACAAATTGTCGATACTTA
129 TTTATAGGCGCTAAAATTGCTTCTCTTTTAAATTCCCAAAGTGTCGATACTTA
** * * * * * * *
12308472 T-TTCAATCTAATCGATACTTTCAACATATTCAGTAGCACTTTACCGGTTTTTTCATAATT--AA
1 TATT-AAAGT-ATCGACACTTTCAATATATACGGTAGCTCTTTACCGGTTTTGTCAT--TTCGAG
* * *
12308534 ACTGG--TTGTCATATTTTTACCTGTTATATTGATATGGATCGATACATT
62 ACCGGTTTTGTCATATTTTTA-CTGTTATATCGTTATGGATCGATACATT
12308582 TTTTTTGGAT
Statistics
Matches: 431, Mismatches: 31, Indels: 25
0.89 0.06 0.05
Matches are distributed among these distances:
180 5 0.01
181 110 0.26
182 264 0.61
183 50 0.12
185 2 0.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.41
Consensus pattern (181 bp):
TATTAAAGTATCGACACTTTCAATATATACGGTAGCTCTTTACCGGTTTTGTCATTTCGAGACCG
GTTTTGTCATATTTTTACTGTTATATCGTTATGGATCGATACATTATCATAAAGTATCGACACTT
TATAGGCGCTAAAATTGCTTCTCTTTTAAATTCCCAAAGTGTCGATACTTA
Found at i:12310794 original size:2 final size:2
Alignment explanation
Indices: 12310787--12310855 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
12310777 ATCATTCGAC
12310787 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12310829 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
12310856 AATTATATTT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:12313188 original size:30 final size:30
Alignment explanation
Indices: 12313144--12313275 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
12313134 GAACTAATCA
*
12313144 TGGAAGAAGTGGTGGTGGTGGACATGGC--
1 TGGAGGAAGTGGTGGTGGTGGACATGGCAG
* * *
12313172 -GGTGGAAGCGGCGGTGGTGGACATGGCAG
1 TGGAGGAAGTGGTGGTGGTGGACATGGCAG
12313201 TGGAGGAAGTGGTGGTGGTGGACATGGCAG
1 TGGAGGAAGTGGTGGTGGTGGACATGGCAG
**
12313231 TGGAGGAAGTGGTGGTGGTGGACATGGTGG
1 TGGAGGAAGTGGTGGTGGTGGACATGGCAG
* *
12313261 AGGTGGAAGTGGTGG
1 TGGAGGAAGTGGTGG
12313276 AGGAAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
27 23 0.26
30 67 0.74
ACGTcount: A:0.19, C:0.07, G:0.55, T:0.20
Consensus pattern (30 bp):
TGGAGGAAGTGGTGGTGGTGGACATGGCAG
Found at i:12313258 original size:15 final size:15
Alignment explanation
Indices: 12313157--12313267 Score: 79
Period size: 15 Copynumber: 7.6 Consensus size: 15
12313147 AAGAAGTGGT
12313157 GGTGGTGGACATGGC
1 GGTGGTGGACATGGC
**
12313172 GGTGGAAG-C--GGC
1 GGTGGTGGACATGGC
12313184 GGTGGTGGACATGGC
1 GGTGGTGGACATGGC
* * *
12313199 AGTGGAGGA-AGTGGT
1 GGTGGTGGACA-TGGC
12313214 GGTGGTGGACATGGC
1 GGTGGTGGACATGGC
* * *
12313229 AGTGGAGGA-AGTGGT
1 GGTGGTGGACA-TGGC
*
12313244 GGTGGTGGACATGGT
1 GGTGGTGGACATGGC
*
12313259 GGAGGTGGA
1 GGTGGTGGA
12313268 AGTGGTGGAG
Statistics
Matches: 73, Mismatches: 16, Indels: 14
0.71 0.16 0.14
Matches are distributed among these distances:
12 9 0.12
13 1 0.01
14 3 0.04
15 58 0.79
16 2 0.03
ACGTcount: A:0.18, C:0.08, G:0.55, T:0.19
Consensus pattern (15 bp):
GGTGGTGGACATGGC
Found at i:12313267 original size:33 final size:33
Alignment explanation
Indices: 12313175--12313399 Score: 119
Period size: 33 Copynumber: 7.0 Consensus size: 33
12313165 ACATGGCGGT
* * *
12313175 GGAAGCGGCGGTGGTGGACAT-G-GCA-GTGGA
1 GGAAGTGGTGGTGGTGGACATGGTGGAGGTGGA
*
12313205 GGAAGTGGTGGTGGTGGACAT-G-GCA-GTGGA
1 GGAAGTGGTGGTGGTGGACATGGTGGAGGTGGA
12313235 GGAAGTGGTGGTGGTGGACATGGTGGAGGT---
1 GGAAGTGGTGGTGGTGGACATGGTGGAGGTGGA
* * * * ** *
12313265 GGAAGTGGTGGAGGAAGTAGC-GGCGATGGACATGGT
1 GGAAGTGGTGGTGG-TGGA-CATG-G-TGGAGGTGGA
** * *
12313301 GGTGGTGGTAGTAGTGGACATGGTGGAGGTGGA
1 GGAAGTGGTGGTGGTGGACATGGTGGAGGTGGA
* ** *
12313334 AGTGGTGGTGGTGGTGGACACGGTGGAGGTGGA
1 GGAAGTGGTGGTGGTGGACATGGTGGAGGTGGA
* ** ** *
12313367 AGTGGTGCCGGTGGTGGACACGGTGGAGGTGGA
1 GGAAGTGGTGGTGGTGGACATGGTGGAGGTGGA
12313400 AGTGGTGGGA
Statistics
Matches: 158, Mismatches: 26, Indels: 19
0.78 0.13 0.09
Matches are distributed among these distances:
30 62 0.39
31 4 0.03
32 4 0.03
33 74 0.47
34 2 0.01
35 3 0.02
36 9 0.06
ACGTcount: A:0.19, C:0.08, G:0.54, T:0.20
Consensus pattern (33 bp):
GGAAGTGGTGGTGGTGGACATGGTGGAGGTGGA
Found at i:12313273 original size:15 final size:15
Alignment explanation
Indices: 12313235--12313278 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
12313225 TGGCAGTGGA
*
12313235 GGAAGTGGTGGTGGT
1 GGAAGTGGTGGAGGT
12313250 GGACA-TGGTGGAGGT
1 GGA-AGTGGTGGAGGT
12313265 GGAAGTGGTGGAGG
1 GGAAGTGGTGGAGG
12313279 AAGTAGCGGC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 1 0.04
15 24 0.92
16 1 0.04
ACGTcount: A:0.18, C:0.02, G:0.59, T:0.20
Consensus pattern (15 bp):
GGAAGTGGTGGAGGT
Found at i:12313323 original size:24 final size:24
Alignment explanation
Indices: 12313291--12313341 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
12313281 GTAGCGGCGA
* *
12313291 TGGACATGGTGGTGGTGGTAGTAG
1 TGGACATGGTGGAGGTGGAAGTAG
*
12313315 TGGACATGGTGGAGGTGGAAGTGG
1 TGGACATGGTGGAGGTGGAAGTAG
12313339 TGG
1 TGG
12313342 TGGTGGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.18, C:0.04, G:0.53, T:0.25
Consensus pattern (24 bp):
TGGACATGGTGGAGGTGGAAGTAG
Found at i:12313372 original size:66 final size:64
Alignment explanation
Indices: 12313152--12313417 Score: 185
Period size: 66 Copynumber: 4.2 Consensus size: 64
12313142 CATGGAAGAA
* * * * * **
12313152 GTGGTGGTGGTGGACA---TGGCGGTGGAAGCGGCGGTG-GTGGACAT-G-GCA-GTGGAGGAA
1 GTGGTGGTGGTGGACACGGTGGAGGTGGAAGTGGTGGTGTGTGGACATGGTGGAGGTGGAAGTG
* ** * *
12313209 GTGGTGGTGGTGGACATGGCAGTGGAGGAAGTGGTGGTG-GTGGACATGGTGGAGGTGGAAGTG
1 GTGGTGGTGGTGGACACGGTGGAGGTGGAAGTGGTGGTGTGTGGACATGGTGGAGGTGGAAGTG
* ** * * * ** **
12313272 GTGGAGGAAGTAG-CGGCGATGGACATGGTGGTGGTGGTAGTAGTGGACATGGTGGAGGTGGAAG
1 GTGGTGGTGGTGGAC-ACGGTGGAGGTGGAAGTGGTGGT-GT-GTGGACATGGTGGAGGTGGAAG
12313336 TG
63 TG
*
12313338 GTGGTGGTGGTGGACACGGTGGAGGTGGAAGTGGTGCCG-GTGGTGGACACGGTGGAGGTGGAAG
1 GTGGTGGTGGTGGACACGGTGGAGGTGGAAGTGGTG--GTGT-GTGGACATGGTGGAGGTGGAAG
12313402 TG
63 TG
12313404 GTGG-GAGTGGTGGA
1 GTGGTG-GTGGTGGA
12313418 GGTGGAAGTG
Statistics
Matches: 158, Mismatches: 37, Indels: 19
0.74 0.17 0.09
Matches are distributed among these distances:
57 16 0.10
60 22 0.14
61 1 0.01
62 3 0.02
63 27 0.17
64 1 0.01
65 1 0.01
66 85 0.54
67 1 0.01
68 1 0.01
ACGTcount: A:0.18, C:0.07, G:0.55, T:0.20
Consensus pattern (64 bp):
GTGGTGGTGGTGGACACGGTGGAGGTGGAAGTGGTGGTGTGTGGACATGGTGGAGGTGGAAGTG
Found at i:12313404 original size:24 final size:24
Alignment explanation
Indices: 12313377--12313504 Score: 79
Period size: 24 Copynumber: 5.3 Consensus size: 24
12313367 AGTGGTGCCG
12313377 GTGGTGGACACGGTGGAGGTGGAA
1 GTGGTGGACACGGTGGAGGTGGAA
**
12313401 GTGGTGGGA-GTGGTGGAGGTGGAA
1 GTGGT-GGACACGGTGGAGGTGGAA
* **
12313425 GTGGTGGGA-GCGGTGGACATGGTGGTG
1 GTGGT-GGACACGGTGG--A-GGTGGAA
**
12313452 GTGGTGGACA---TGGAGGTGGCG
1 GTGGTGGACACGGTGGAGGTGGAA
* *
12313473 GTGGT-GCCTATGGTGGAGGTGGAA
1 GTGGTGGAC-ACGGTGGAGGTGGAA
12313497 GTGGTGGA
1 GTGGTGGA
12313505 GGAAGTAGTG
Statistics
Matches: 83, Mismatches: 11, Indels: 19
0.73 0.10 0.17
Matches are distributed among these distances:
20 2 0.02
21 12 0.14
22 1 0.01
24 50 0.60
25 4 0.05
26 4 0.05
27 10 0.12
ACGTcount: A:0.16, C:0.06, G:0.57, T:0.21
Consensus pattern (24 bp):
GTGGTGGACACGGTGGAGGTGGAA
Found at i:12313406 original size:9 final size:9
Alignment explanation
Indices: 12313394--12313459 Score: 50
Period size: 9 Copynumber: 7.7 Consensus size: 9
12313384 ACACGGTGGA
12313394 GGTGGAAGT
1 GGTGGAAGT
*
12313403 GGTGGGAGT
1 GGTGGAAGT
12313412 GGTGG-A--
1 GGTGGAAGT
12313418 GGTGGAAGT
1 GGTGGAAGT
* *
12313427 GGTGGGAGC
1 GGTGGAAGT
12313436 GGTGGACA-T
1 GGTGGA-AGT
**
12313445 GGTGGTGGT
1 GGTGGAAGT
12313454 GGTGGA
1 GGTGGA
12313460 CATGGAGGTG
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
6 5 0.11
7 1 0.02
8 1 0.02
9 36 0.82
10 1 0.02
ACGTcount: A:0.15, C:0.03, G:0.61, T:0.21
Consensus pattern (9 bp):
GGTGGAAGT
Found at i:12313414 original size:33 final size:32
Alignment explanation
Indices: 12313314--12313417 Score: 163
Period size: 33 Copynumber: 3.2 Consensus size: 32
12313304 GGTGGTAGTA
*
12313314 GTGGACATGGTGGAGGTGGAAGTGGTGGTGGTG
1 GTGGACACGGTGGAGGTGGAAGTGGTGG-GGTG
*
12313347 GTGGACACGGTGGAGGTGGAAGTGGTGCCGGTG
1 GTGGACACGGTGGAGGTGGAAGTGGTG-GGGTG
12313380 GTGGACACGGTGGAGGTGGAAGTGGTGGGAGTG
1 GTGGACACGGTGGAGGTGGAAGTGGTGGG-GTG
12313413 GTGGA
1 GTGGA
12313418 GGTGGAAGTG
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
32 1 0.02
33 65 0.98
ACGTcount: A:0.16, C:0.07, G:0.57, T:0.20
Consensus pattern (32 bp):
GTGGACACGGTGGAGGTGGAAGTGGTGGGGTG
Found at i:12313460 original size:18 final size:18
Alignment explanation
Indices: 12313410--12313476 Score: 75
Period size: 18 Copynumber: 3.7 Consensus size: 18
12313400 AGTGGTGGGA
*
12313410 GTGGTGGAGGTGGA-AGTG
1 GTGGTGGCGGTGGACA-TG
12313428 GTGG-GAGCGGTGGACATG
1 GTGGTG-GCGGTGGACATG
*
12313446 GTGGTGGTGGTGGACATG
1 GTGGTGGCGGTGGACATG
*
12313464 GAGGTGGCGGTGG
1 GTGGTGGCGGTGG
12313477 TGCCTATGGT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
17 1 0.02
18 39 0.93
19 2 0.05
ACGTcount: A:0.13, C:0.06, G:0.60, T:0.21
Consensus pattern (18 bp):
GTGGTGGCGGTGGACATG
Found at i:12313514 original size:15 final size:15
Alignment explanation
Indices: 12313496--12313548 Score: 72
Period size: 15 Copynumber: 3.5 Consensus size: 15
12313486 TGGAGGTGGA
12313496 AGTGGTGGAGGAAGT
1 AGTGGTGGAGGAAGT
*
12313511 AGTGGTGGCGGACA-T
1 AGTGGTGGAGGA-AGT
*
12313526 GGTGGTGGAGGAAGT
1 AGTGGTGGAGGAAGT
12313541 AGTGGTGG
1 AGTGGTGG
12313549 CGGACATGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
14 1 0.03
15 30 0.94
16 1 0.03
ACGTcount: A:0.21, C:0.04, G:0.55, T:0.21
Consensus pattern (15 bp):
AGTGGTGGAGGAAGT
Found at i:12313517 original size:30 final size:30
Alignment explanation
Indices: 12313496--12313564 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
12313486 TGGAGGTGGA
*
12313496 AGTGGTGGAGGAAGTAGTGGTGGCGGACAT
1 AGTGGTGGAGGAAGTAGTGGTGGAGGACAT
* *
12313526 GGTGGTGGAGGAAGTAGTGGTGGCGGACAT
1 AGTGGTGGAGGAAGTAGTGGTGGAGGACAT
*
12313556 GGTGGTGGA
1 AGTGGTGGA
12313565 AGTGGAGGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.20, C:0.06, G:0.54, T:0.20
Consensus pattern (30 bp):
AGTGGTGGAGGAAGTAGTGGTGGAGGACAT
Found at i:12313533 original size:39 final size:39
Alignment explanation
Indices: 12313490--12313644 Score: 208
Period size: 39 Copynumber: 4.3 Consensus size: 39
12313480 CTATGGTGGA
12313490 GGTGGAAGTGGTGGAGGAAGTAGTGGTGGCGGACA----
1 GGTGGAAGTGGTGGAGGAAGTAGTGGTGGCGGACATGGT
12313525 --T-G--GTGGTGGAGGAAGTAGTGGTGGCGGACATGGT
1 GGTGGAAGTGGTGGAGGAAGTAGTGGTGGCGGACATGGT
*
12313559 GGTGGAA---GTGGAGGAAGTAGTGGTAGCGGACATGGT
1 GGTGGAAGTGGTGGAGGAAGTAGTGGTGGCGGACATGGT
*
12313595 GGTGGAAGTGGTGGAGGAAGTAGCGGTGGCGGACATGGT
1 GGTGGAAGTGGTGGAGGAAGTAGTGGTGGCGGACATGGT
12313634 GGTGGAAGTGG
1 GGTGGAAGTGG
12313645 AGGAAGTGGC
Statistics
Matches: 105, Mismatches: 3, Indels: 20
0.82 0.02 0.16
Matches are distributed among these distances:
30 28 0.27
32 1 0.01
33 1 0.01
36 36 0.34
37 1 0.01
39 38 0.36
ACGTcount: A:0.21, C:0.06, G:0.54, T:0.19
Consensus pattern (39 bp):
GGTGGAAGTGGTGGAGGAAGTAGTGGTGGCGGACATGGT
Found at i:12313560 original size:15 final size:15
Alignment explanation
Indices: 12313512--12313563 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
12313502 GGAGGAAGTA
12313512 GTGGTGGCGGACATG
1 GTGGTGGCGGACATG
* *
12313527 GTGGTGGAGGA-AGTA
1 GTGGTGGCGGACA-TG
12313542 GTGGTGGCGGACATG
1 GTGGTGGCGGACATG
12313557 GTGGTGG
1 GTGGTGG
12313564 AAGTGGAGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
14 1 0.03
15 29 0.94
16 1 0.03
ACGTcount: A:0.15, C:0.08, G:0.56, T:0.21
Consensus pattern (15 bp):
GTGGTGGCGGACATG
Found at i:12313606 original size:12 final size:12
Alignment explanation
Indices: 12313541--12313644 Score: 52
Period size: 12 Copynumber: 8.4 Consensus size: 12
12313531 TGGAGGAAGT
12313541 AGTGGTGGCGGA
1 AGTGGTGGCGGA
*
12313553 CA-TGGTGGTGGA
1 -AGTGGTGGCGGA
* ** *
12313565 AGTGGAGGAAGT
1 AGTGGTGGCGGA
*
12313577 AGTGGTAGCGGA
1 AGTGGTGGCGGA
*
12313589 CA-TGGTGGTGGA
1 -AGTGGTGGCGGA
*
12313601 AGTGGTGGAGGA
1 AGTGGTGGCGGA
12313613 AGTAGCGGTGGCGGA
1 AGT---GGTGGCGGA
*
12313628 CA-TGGTGGTGGA
1 -AGTGGTGGCGGA
12313640 AGTGG
1 AGTGG
12313645 AGGAAGTGGC
Statistics
Matches: 68, Mismatches: 15, Indels: 17
0.68 0.15 0.17
Matches are distributed among these distances:
11 3 0.04
12 53 0.78
13 2 0.03
15 9 0.13
16 1 0.01
ACGTcount: A:0.21, C:0.07, G:0.53, T:0.19
Consensus pattern (12 bp):
AGTGGTGGCGGA
Found at i:12313645 original size:36 final size:36
Alignment explanation
Indices: 12313500--12313651 Score: 217
Period size: 36 Copynumber: 4.3 Consensus size: 36
12313490 GGTGGAAGTG
12313500 GTGGAGGAAGTAGTGGTGGCGGACA---TGGT-G--
1 GTGGAGGAAGTAGTGGTGGCGGACATGGTGGTGGAA
12313530 GTGGAGGAAGTAGTGGTGGCGGACATGGTGGTGGAA
1 GTGGAGGAAGTAGTGGTGGCGGACATGGTGGTGGAA
*
12313566 GTGGAGGAAGTAGTGGTAGCGGACATGGTGGTGGAA
1 GTGGAGGAAGTAGTGGTGGCGGACATGGTGGTGGAA
*
12313602 GTGGTGGAGGAAGTAGCGGTGGCGGACATGGTGGTGGAA
1 ---GTGGAGGAAGTAGTGGTGGCGGACATGGTGGTGGAA
12313641 GTGGAGGAAGT
1 GTGGAGGAAGT
12313652 GGCGGAGGAG
Statistics
Matches: 110, Mismatches: 3, Indels: 12
0.88 0.02 0.10
Matches are distributed among these distances:
30 25 0.23
33 4 0.04
34 1 0.01
36 46 0.42
39 34 0.31
ACGTcount: A:0.22, C:0.06, G:0.53, T:0.19
Consensus pattern (36 bp):
GTGGAGGAAGTAGTGGTGGCGGACATGGTGGTGGAA
Found at i:12313740 original size:42 final size:43
Alignment explanation
Indices: 12313641--12313740 Score: 100
Period size: 42 Copynumber: 2.3 Consensus size: 43
12313631 GGTGGTGGAA
* * * *
12313641 GTGGAGGAAGTGGCGGAGGAGGTAAAGGAAGCAGTGGTGGACATG
1 GTGGAGG-AGTAGTGGAGGAGGCAAAGGAA-CAGTGGTGGACACG
*
12313686 GTGGTGGA--AGTGGAGGAGGCAAAGG-A-AGTGGTGGACACG
1 GTGGAGGAGTAGTGGAGGAGGCAAAGGAACAGTGGTGGACACG
12313725 GTGGAGGTAGTAGTGG
1 GTGGAGG-AGTAGTGG
12313741 TGGTGGAGGA
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
39 18 0.39
40 1 0.02
41 1 0.02
42 19 0.41
44 1 0.02
45 6 0.13
ACGTcount: A:0.27, C:0.06, G:0.52, T:0.15
Consensus pattern (43 bp):
GTGGAGGAGTAGTGGAGGAGGCAAAGGAACAGTGGTGGACACG
Found at i:12315841 original size:230 final size:227
Alignment explanation
Indices: 12315436--12315879 Score: 780
Period size: 230 Copynumber: 1.9 Consensus size: 227
12315426 TATCTATCCC
* *
12315436 TTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGTTAATAT
1 TTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGTTAATAT
**
12315501 TGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTA
66 TGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTTTGTGTA
*
12315566 AATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACA
131 AATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATT-AAAAAAATTGAAACA
12315631 TAAATTACATAACTTTCAAAAAAGTATATATCAT
195 TAAATTACATAACTTT-AAAAAAGTATATATCAT
*
12315665 TTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGGTTAATA
1 TTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAGTTAATA
*
12315730 TTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTTTGTGT
65 TTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTTTGTGT
* *
12315795 AAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAATAAATTGAAACA
130 AAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATTGAAACA
12315860 TAAATTACATAACTTTAAAA
195 TAAATTACATAACTTTAAAA
12315880 GCAGTTTTAA
Statistics
Matches: 205, Mismatches: 9, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
228 4 0.02
229 61 0.30
230 140 0.68
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.39
Consensus pattern (227 bp):
TTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGTTAATAT
TGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTTTGTGTA
AATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATTGAAACAT
AAATTACATAACTTTAAAAAAGTATATATCAT
Found at i:12315968 original size:20 final size:19
Alignment explanation
Indices: 12315945--12315991 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
12315935 CGATATACCA
12315945 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
12315965 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
12315985 GGTAAAA
1 GGTAAAA
12315992 TTAAAAGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:12316135 original size:20 final size:19
Alignment explanation
Indices: 12316112--12316158 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
12316102 CGATATAACA
*
12316112 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAAAC
*
12316132 GGTATCAAAATGATAAAAAC
1 GGTA-AAAAATGATAAAAAC
12316152 GGTAAAA
1 GGTAAAA
12316159 TGATACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAAAC
Found at i:12319266 original size:155 final size:154
Alignment explanation
Indices: 12318985--12319293 Score: 609
Period size: 155 Copynumber: 2.0 Consensus size: 154
12318975 GCGTAATTAC
12318985 AGCAACAGGCGTTGGAAGCCAACAATAAAGAAAGTGTGAGAATATTTCTACCTTCTGGGGTGTCA
1 AGCAACAGGCGTTGGAAGCCAACAATAAAGAAAGTGTGAGAATATTTCTACCTTCTGGGGTGTCA
12319050 TATTGGATAACTATGTGAAATTCACCGACTGTGAGAAGGTAAGACACCATACCAATTGCAAATGA
66 TATTGGATAACTATGTGAAATTCACCGACTGTGAGAAGGTAAGACACCATACCAATTGCAAATGA
12319115 TGTTTTCGGATATAGAATGTTGAA
131 TGTTTTCGGATATAGAATGTTGAA
12319139 AGCAACAGGCGTTGGAAGCCAACAATAAAGAAAGTGTTGAGAATATTTCTACCTTCTGGGGTGTC
1 AGCAACAGGCGTTGGAAGCCAACAATAAAGAAAGTG-TGAGAATATTTCTACCTTCTGGGGTGTC
12319204 ATATTGGATAACTATGTGAAATTCACCGACTGTGAGAAGGTAAGACACCATACCAATTGCAAATG
65 ATATTGGATAACTATGTGAAATTCACCGACTGTGAGAAGGTAAGACACCATACCAATTGCAAATG
12319269 ATGTTTTCGGATATAGAATGTTGAA
130 ATGTTTTCGGATATAGAATGTTGAA
12319294 TTTTGTCAAA
Statistics
Matches: 154, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
154 36 0.23
155 118 0.77
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (154 bp):
AGCAACAGGCGTTGGAAGCCAACAATAAAGAAAGTGTGAGAATATTTCTACCTTCTGGGGTGTCA
TATTGGATAACTATGTGAAATTCACCGACTGTGAGAAGGTAAGACACCATACCAATTGCAAATGA
TGTTTTCGGATATAGAATGTTGAA
Found at i:12319686 original size:71 final size:69
Alignment explanation
Indices: 12319603--12319743 Score: 264
Period size: 71 Copynumber: 2.0 Consensus size: 69
12319593 TAATTTATGC
12319603 AGTATCATCATAATTGACATGTGTGGTTTTCAAATTTTGTAACAGATATGATTGCGGCATGTATG
1 AGTATCATCATAATTGACATGTGTGGTTTTCAAATTTTGTAACAGATATGATTGCGGCATG-ATG
12319668 TGATG
65 TGATG
12319673 AGTATTCATCATAATTGACATGTGTGGTTTTCAAATTTTGTAACAGATATGATTGCGGCATGATG
1 AGTA-TCATCATAATTGACATGTGTGGTTTTCAAATTTTGTAACAGATATGATTGCGGCATGATG
12319738 TGATG
65 TGATG
12319743 A
1 A
12319744 TGTGGATGGA
Statistics
Matches: 70, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
70 13 0.19
71 57 0.81
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (69 bp):
AGTATCATCATAATTGACATGTGTGGTTTTCAAATTTTGTAACAGATATGATTGCGGCATGATGT
GATG
Found at i:12319986 original size:19 final size:19
Alignment explanation
Indices: 12319946--12319985 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
12319936 GTCGAGTTAA
12319946 TTTGTATAAGATTTATAAT
1 TTTGTATAAGATTTATAAT
*
12319965 TTTGTATACGATTTAT-AT
1 TTTGTATAAGATTTATAAT
12319983 TTT
1 TTT
12319986 TTTATGTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.30, C:0.03, G:0.10, T:0.57
Consensus pattern (19 bp):
TTTGTATAAGATTTATAAT
Found at i:12320510 original size:197 final size:197
Alignment explanation
Indices: 12320068--12321138 Score: 1953
Period size: 197 Copynumber: 5.5 Consensus size: 197
12320058 TTAAGGGTCA
*
12320068 TGTCGATACTAATATAGTTT-TGTCGATATTTTTTTCCAGAATGAATT-AAAACAAGGTGCATCA
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATTAAAAACAAGGTGCATCA
12320131 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
66 ATAAAGTGTCGATCC-TATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
12320196 AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
130 AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
12320261 ATG
195 ATG
*
12320264 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATT-AAAACAATGTGCATC-
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATTAAAAACAAGGTGCATCA
12320327 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
66 ATAAAGTGTCGATCC-TATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
*
12320392 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
130 AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
12320457 ATG
195 ATG
*
12320460 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATGAATTAAAAACAAGGTGCATC
*
12320525 CATAAAGTGTCGATCC-ATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
65 AATAAAGTGTCGATCCTATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
12320589 AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
130 AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
12320654 ATG
195 ATG
* *
12320657 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTT-TCCAGAATGAATTAAAAACAAGGTGCATC
*
12320722 CATAAAGTGTCGATCC-ATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
65 AATAAAGTGTCGATCCTATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
12320786 AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGG-TTTATGAGAGAATAAGTCT-AATA
130 AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
12320849 ATG
195 ATG
12320852 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
12320917 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
65 AATAAAGTGTCGATCC-TATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
12320982 TAATATGTAA-TTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
129 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
12321046 AATG
194 AATG
12321050 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATTAAAAACAAGGTGCATCA
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATTAAAAACAAGGTGCATCA
12321115 ATAAAGTGTCGATCCTATATAAAA
66 ATAAAGTGTCGATCCTATATAAAA
12321139 GTTTTATGAG
Statistics
Matches: 855, Mismatches: 10, Indels: 20
0.97 0.01 0.02
Matches are distributed among these distances:
195 78 0.09
196 251 0.29
197 462 0.54
198 49 0.06
199 15 0.02
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (197 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATTAAAAACAAGGTGCATCA
ATAAAGTGTCGATCCTATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
ATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAA
TG
Found at i:12320832 original size:393 final size:392
Alignment explanation
Indices: 12320068--12321138 Score: 1940
Period size: 393 Copynumber: 2.7 Consensus size: 392
12320058 TTAAGGGTCA
*
12320068 TGTCGATACTAATATAGTTT-TGTCGATATTTTTTTCCAGAATGAATT-AAAACAAGGTGCATCA
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATTAAAAACAAGGTGCATCA
12320131 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
66 ATAAAGTGTCGATCCA-ATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
12320196 AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
130 AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
*
12320261 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATT-AAAACAATGTGCA
195 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATTAAAAACAAGGTGCA
*
12320325 TCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
260 CCATAAAGTGTCGATCC-TATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
12320390 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
324 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCT-AA
12320455 TAATG
388 TAATG
*
12320460 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATGAATTAAAAACAAGGTGCATC
*
12320525 CATAAAGTGTCGATCC-ATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
65 AATAAAGTGTCGATCCAATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
12320589 AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
130 AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
*
12320654 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCCCAGAATGAATTAAAAACAAGGTGC
195 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTT-TCCAGAATGAATTAAAAACAAGGTGC
12320719 ACCCATAAAGTGTCGATCC-ATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAA
259 A-CCATAAAGTGTCGATCCTATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAA
*
12320783 TGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGG-TTTATGAGAGAATAAGTCTAA
323 TGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAA
12320847 TAATG
388 TAATG
12320852 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
12320917 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
65 AATAAAGTGTCGATCCA-ATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
12320982 TAATATGTAA-TTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
129 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
12321046 AATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATTAAAAACAAGGTGC
194 AATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATTAAAAACAAGGTGC
*
12321111 ATCAATAAAGTGTCGATCCTATATAAAA
259 A-CCATAAAGTGTCGATCCTATATAAAA
12321139 GTTTTATGAG
Statistics
Matches: 657, Mismatches: 12, Indels: 19
0.95 0.02 0.03
Matches are distributed among these distances:
392 139 0.21
393 293 0.45
394 168 0.26
395 41 0.06
396 16 0.02
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (392 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATTAAAAACAAGGTGCATCA
ATAAAGTGTCGATCCAATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
ATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAA
TGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATTAAAAACAAGGTGCAC
CATAAAGTGTCGATCCTATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAATAA
TG
Found at i:12321229 original size:118 final size:119
Alignment explanation
Indices: 12321021--12321257 Score: 433
Period size: 118 Copynumber: 2.0 Consensus size: 119
12321011 AATTATACCG
12321021 GTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTT
1 GTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTT
*
12321086 CCAGAATGAATTAAAAACAAGGTGCATCAATAAAGTGTCGATCC-TATATAAAA
66 CCAGAATGAATTAAAAACAAGGTGCACCAATAAAGTGTCGATCCATATATAAAA
12321139 GTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTT
1 GTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTT
*
12321204 CCCAGAATGAATTAAAAAC-AGGTGCACCCATAAAGTGTCGATCCATATATAAAA
66 -CCAGAATGAATTAAAAACAAGGTGCACCAATAAAGTGTCGATCCATATATAAAA
12321258 CGTTCGATCC
Statistics
Matches: 115, Mismatches: 2, Indels: 3
0.96 0.02 0.03
Matches are distributed among these distances:
118 88 0.77
119 27 0.23
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (119 bp):
GTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTT
CCAGAATGAATTAAAAACAAGGTGCACCAATAAAGTGTCGATCCATATATAAAA
Found at i:12322864 original size:18 final size:18
Alignment explanation
Indices: 12322841--12322908 Score: 55
Period size: 21 Copynumber: 3.4 Consensus size: 18
12322831 ATCGGTCGCA
12322841 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* *
12322859 GAAGATGACGATGATGATGAT
1 GAAGATGA--A-GCTGACGAT
*
12322880 GATGACGATGAAGCTGGCGAT
1 GA--A-GATGAAGCTGACGAT
12322901 GAAGATGA
1 GAAGATGA
12322909 TGACGATGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
18 13 0.33
19 1 0.03
20 1 0.03
21 17 0.44
22 1 0.03
23 1 0.03
24 5 0.13
ACGTcount: A:0.37, C:0.09, G:0.35, T:0.19
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:12322865 original size:6 final size:6
Alignment explanation
Indices: 12322841--12322932 Score: 67
Period size: 6 Copynumber: 15.3 Consensus size: 6
12322831 ATCGGTCGCA
* * * * * *
12322841 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GATGAT GACGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* ** * * * *
12322889 GAAGCT GGCGAT GAAGAT GATGAC GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
12322933 TGATCCAAAC
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:12322876 original size:3 final size:3
Alignment explanation
Indices: 12322856--12322936 Score: 72
Period size: 3 Copynumber: 27.0 Consensus size: 3
12322846 TGAAGCTGAC
* * * * * ** *
12322856 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
12322904 GAT GAT GAC GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
12322937 CCAAACAAGT
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.36, C:0.06, G:0.35, T:0.23
Consensus pattern (3 bp):
GAT
Found at i:12322891 original size:42 final size:42
Alignment explanation
Indices: 12322841--12322932 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
12322831 ATCGGTCGCA
*
12322841 GAAGATGAAGCTGACGATGAAGATGACGATGATGATGATGAT
1 GAAGATGAAGCTGACGATGAAGATGACGACGATGATGATGAT
* * *
12322883 GACGATGAAGCTGGCGATGAAGATGATGACGATGATGATGAT
1 GAAGATGAAGCTGACGATGAAGATGACGACGATGATGATGAT
12322925 GAAGATGA
1 GAAGATGA
12322933 TGATCCAAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.21
Consensus pattern (42 bp):
GAAGATGAAGCTGACGATGAAGATGACGACGATGATGATGAT
Found at i:12322919 original size:12 final size:12
Alignment explanation
Indices: 12322841--12322936 Score: 84
Period size: 12 Copynumber: 8.0 Consensus size: 12
12322831 ATCGGTCGCA
* *
12322841 GAAGATGAAGCT
1 GAAGATGATGAT
* *
12322853 GACGATGAAGAT
1 GAAGATGATGAT
*
12322865 GACGATGATGAT
1 GAAGATGATGAT
* *
12322877 GATGATGACGAT
1 GAAGATGATGAT
* **
12322889 GAAGCTGGCGAT
1 GAAGATGATGAT
*
12322901 GAAGATGATGAC
1 GAAGATGATGAT
*
12322913 GATGATGATGAT
1 GAAGATGATGAT
12322925 GAAGATGATGAT
1 GAAGATGATGAT
12322937 CCAAACAAGT
Statistics
Matches: 69, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 69 1.00
ACGTcount: A:0.36, C:0.07, G:0.34, T:0.22
Consensus pattern (12 bp):
GAAGATGATGAT
Found at i:12322936 original size:18 final size:18
Alignment explanation
Indices: 12322844--12322936 Score: 78
Period size: 18 Copynumber: 5.2 Consensus size: 18
12322834 GGTCGCAGAA
* * *
12322844 GATGAAGCTGACGATGAA
1 GATGAAGATGAAGATGAT
* *
12322862 GATGACGATGATGATGAT
1 GATGAAGATGAAGATGAT
* * **
12322880 GATGACGATGAAGCTGGC
1 GATGAAGATGAAGATGAT
* *
12322898 GATGAAGATGATGACGAT
1 GATGAAGATGAAGATGAT
*
12322916 GATGATGATGAAGATGAT
1 GATGAAGATGAAGATGAT
12322934 GAT
1 GAT
12322937 CCAAACAAGT
Statistics
Matches: 58, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 58 1.00
ACGTcount: A:0.35, C:0.08, G:0.34, T:0.23
Consensus pattern (18 bp):
GATGAAGATGAAGATGAT
Found at i:12324899 original size:182 final size:184
Alignment explanation
Indices: 12324390--12325056 Score: 1220
Period size: 182 Copynumber: 3.7 Consensus size: 184
12324380 CTTTCAACAT
**
12324390 ATTATAATAAAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
*
12324455 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAAAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGG-AAGAA
*
12324520 AAATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
130 AAATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
12324575 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
12324640 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
12324705 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
12324759 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTAT-AA-ATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
12324822 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
12324887 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
* *
12324941 ATTATAATG---TAGATAATTTTGTAATATAACCGGTAT-AATATACCGGTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
*
12325002 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
12325057 CCATTTAAAA
Statistics
Matches: 474, Mismatches: 7, Indels: 7
0.97 0.01 0.01
Matches are distributed among these distances:
179 29 0.06
180 74 0.16
182 150 0.32
183 2 0.00
184 97 0.20
185 122 0.26
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (184 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:12327640 original size:23 final size:23
Alignment explanation
Indices: 12327613--12327664 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
12327603 TAAACATATG
12327613 TAGGTAGCCCTTATATAATGTAA
1 TAGGTAGCCCTTATATAATGTAA
* **
12327636 TAGGTATCGTTTATATAATGTAA
1 TAGGTAGCCCTTATATAATGTAA
12327659 TAGGTA
1 TAGGTA
12327665 ATGGTTATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (23 bp):
TAGGTAGCCCTTATATAATGTAA
Found at i:12327672 original size:23 final size:23
Alignment explanation
Indices: 12327623--12327672 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
12327613 TAGGTAGCCC
*
12327623 TTATATAATGTAATAGGTATCGT
1 TTATATAATGTAATAGGTATCGG
12327646 TTATATAATGTAATAGGTAAT-GG
1 TTATATAATGTAATAGGT-ATCGG
12327669 TTAT
1 TTAT
12327673 TGTAAAGTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 23 0.92
24 2 0.08
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.44
Consensus pattern (23 bp):
TTATATAATGTAATAGGTATCGG
Found at i:12328058 original size:23 final size:23
Alignment explanation
Indices: 12328027--12328089 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
12328017 ATAGGTAAAC
*
12328027 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
12328050 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
12328073 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
12328090 ATGGTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:12328097 original size:23 final size:23
Alignment explanation
Indices: 12328027--12328099 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
12328017 ATAGGTAAAC
* * **
12328027 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCGGTT
*
12328050 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
12328073 ATATAATGTAATAGGTAAT-GGTT
1 ATATAATGTAATAGGT-ATCGGTT
12328096 ATAT
1 ATAT
12328100 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 42 0.95
24 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:12328385 original size:424 final size:426
Alignment explanation
Indices: 12327510--12328511 Score: 1856
Period size: 424 Copynumber: 2.4 Consensus size: 426
12327500 AATTCGCAGT
12327510 ACACTGTT-AAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
12327574 AAAAGTATGGACACTTTCAATATAATAGGTAAAC--AT-ATG---TAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
12327633 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATTGTAAAGTGTCTATCCTTTTTATAA
131 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATTGTAAAGTGTCTATCCTTTTTATAA
12327698 AAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAA
196 AAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAA
12327763 GATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATTTATTATT
261 GATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATTTATTATT
12327828 AAATTTAAAATTCTAAATAATATTTTATAAAATATAAAACAATCAAATAATTTTTTGTGCAAATG
326 AAATTTAAAATTCTAAATAATATTTTATAAAATATAAAACAATCAAATAATTTTTTGTGCAAATG
12327893 AAATTATTAAATCAATTTGTAGGTGGAAAACATGAA
391 AAATTATTAAATCAATTTGTAGGTGGAAAACATGAA
12327929 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTAT-
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
12327993 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
12328058 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAATGG-T-TATTGTAAAGTGTCTATCCTTTTTAT
12328123 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAG-TTT
194 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
12328187 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTACGTTACGGTATA-TTATTA
259 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATTTATTA
12328250 TTAAATTT-AAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAA-TTTTTGTGCAA
324 TTAAATTTAAAATTCTAAATAATATTTTATAAAATAT-AAAACAATCAAATAATTTTTTGTGCAA
12328313 ATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
388 ATGAAATTATTAAATCAAT-TTGTAGGTGGAAAACATGAA
12328353 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTT-AAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
12328417 AAAAGTATGGACAC--TCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
12328480 TAATAGGTATCGTTTATATAATGTAATAGGTA
131 TAATAGGTATCGTTTATATAATGTAATAGGTA
12328512 TCTATCTCGC
Statistics
Matches: 571, Mismatches: 0, Indels: 21
0.96 0.00 0.04
Matches are distributed among these distances:
419 42 0.07
420 55 0.10
421 2 0.00
422 84 0.15
423 81 0.14
424 103 0.18
425 74 0.13
426 43 0.08
427 87 0.15
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.38
Consensus pattern (426 bp):
ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATTGTAAAGTGTCTATCCTTTTTATAA
AAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAA
GATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATTTATTATT
AAATTTAAAATTCTAAATAATATTTTATAAAATATAAAACAATCAAATAATTTTTTGTGCAAATG
AAATTATTAAATCAATTTGTAGGTGGAAAACATGAA
Found at i:12328512 original size:23 final size:23
Alignment explanation
Indices: 12328449--12328513 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
12328439 ATAGGTAAAC
* *
12328449 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCCCTT
**
12328472 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCCCTT
12328495 ATATAATGTAATAGGTATC
1 ATATAATGTAATAGGTATC
12328514 TATCTCGCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCCCTT
Done.