Multiple sequence alignment - TraesCS4D01G060700

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS4D01G060700 chr4D 100.000 2520 0 0 1 2520 36562157 36559638 0.000000e+00 4654
1 TraesCS4D01G060700 chr4D 98.249 1542 14 1 967 2495 398658403 398659944 0.000000e+00 2686
2 TraesCS4D01G060700 chr4D 91.270 1913 62 39 542 2433 455275590 455273762 0.000000e+00 2510
3 TraesCS4D01G060700 chr4D 91.642 335 23 2 212 541 36464874 36464540 2.280000e-125 459
4 TraesCS4D01G060700 chr4D 88.690 168 19 0 219 386 36447199 36447032 3.290000e-49 206
5 TraesCS4D01G060700 chr4D 88.889 162 18 0 209 370 36441121 36440960 1.530000e-47 200
6 TraesCS4D01G060700 chr4D 93.966 116 7 0 431 546 36440877 36440762 2.580000e-40 176
7 TraesCS4D01G060700 chr4D 92.793 111 8 0 431 541 36446949 36446839 7.210000e-36 161
8 TraesCS4D01G060700 chr2D 96.586 1992 21 7 542 2495 645194647 645196629 0.000000e+00 3258
9 TraesCS4D01G060700 chr2D 98.220 1629 15 2 880 2495 634132363 634133990 0.000000e+00 2835
10 TraesCS4D01G060700 chr6D 96.225 1987 32 12 541 2496 17067057 17069031 0.000000e+00 3214
11 TraesCS4D01G060700 chr6D 95.726 1989 37 15 542 2496 100358866 100360840 0.000000e+00 3158
12 TraesCS4D01G060700 chr6D 96.497 1570 16 5 956 2495 436433018 436434578 0.000000e+00 2558
13 TraesCS4D01G060700 chr6D 95.367 626 4 3 1886 2495 463819967 463819351 0.000000e+00 972
14 TraesCS4D01G060700 chr5D 95.523 1988 22 15 541 2496 543865237 543867189 0.000000e+00 3116
15 TraesCS4D01G060700 chr5D 98.384 1671 13 2 839 2495 447966329 447967999 0.000000e+00 2924
16 TraesCS4D01G060700 chr5D 96.643 1579 14 5 946 2495 537773843 537772275 0.000000e+00 2586
17 TraesCS4D01G060700 chr5D 78.307 189 33 7 3 186 450144508 450144323 5.700000e-22 115
18 TraesCS4D01G060700 chr1D 94.461 2022 33 21 542 2496 10554226 10556235 0.000000e+00 3040
19 TraesCS4D01G060700 chr1D 88.269 861 73 15 726 1583 96400583 96401418 0.000000e+00 1005
20 TraesCS4D01G060700 chr1D 80.412 194 34 4 3 193 62689029 62688837 7.270000e-31 145
21 TraesCS4D01G060700 chr7D 94.422 1990 56 17 533 2496 617526514 617528474 0.000000e+00 3009
22 TraesCS4D01G060700 chrUn 91.915 2016 99 26 542 2520 111372139 111370151 0.000000e+00 2761
23 TraesCS4D01G060700 chrUn 78.866 194 31 9 4 193 287739006 287739193 3.400000e-24 122
24 TraesCS4D01G060700 chrUn 79.255 188 29 9 10 193 302748393 302748212 3.400000e-24 122
25 TraesCS4D01G060700 chr3D 96.603 1678 19 4 847 2495 537296654 537298322 0.000000e+00 2748
26 TraesCS4D01G060700 chr3D 91.903 2013 85 24 540 2520 536922084 536924050 0.000000e+00 2743
27 TraesCS4D01G060700 chr3D 97.746 1597 20 4 920 2500 21251981 21250385 0.000000e+00 2736
28 TraesCS4D01G060700 chr3D 83.854 192 28 3 3 193 7109226 7109415 1.990000e-41 180
29 TraesCS4D01G060700 chr6A 95.482 1505 42 17 542 2023 575493460 575494961 0.000000e+00 2379
30 TraesCS4D01G060700 chr7A 89.612 1829 65 56 732 2500 46108320 46106557 0.000000e+00 2209
31 TraesCS4D01G060700 chr2A 88.573 1829 74 55 732 2500 18472016 18473769 0.000000e+00 2095
32 TraesCS4D01G060700 chr2A 89.981 1617 50 45 942 2500 605196766 605195204 0.000000e+00 1986
33 TraesCS4D01G060700 chr4A 84.587 545 46 15 3 541 565741513 565742025 8.040000e-140 507
34 TraesCS4D01G060700 chr4A 82.005 439 56 15 2 430 565755110 565755535 3.990000e-93 351
35 TraesCS4D01G060700 chr4A 86.957 230 22 4 209 430 565750156 565750385 4.160000e-63 252
36 TraesCS4D01G060700 chr4A 91.453 117 4 2 431 541 565750428 565750544 3.360000e-34 156
37 TraesCS4D01G060700 chr4B 92.013 313 18 3 236 541 53014787 53015099 1.380000e-117 433
38 TraesCS4D01G060700 chr4B 90.741 216 13 3 333 541 52942540 52942325 5.310000e-72 281
39 TraesCS4D01G060700 chr4B 81.089 349 40 16 211 542 53042864 53043203 3.220000e-64 255
40 TraesCS4D01G060700 chr4B 82.278 316 30 16 244 542 52930346 52930040 1.500000e-62 250
41 TraesCS4D01G060700 chr4B 91.892 111 9 0 431 541 52939621 52939511 3.360000e-34 156
42 TraesCS4D01G060700 chr4B 91.892 111 9 0 431 541 53019669 53019779 3.360000e-34 156
43 TraesCS4D01G060700 chr1A 84.783 184 22 6 3 184 576067441 576067262 1.990000e-41 180
44 TraesCS4D01G060700 chr1B 80.702 171 30 3 3 171 62288883 62288714 2.030000e-26 130
45 TraesCS4D01G060700 chr3A 80.982 163 27 3 3 164 439726691 439726850 2.630000e-25 126


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS4D01G060700 chr4D 36559638 36562157 2519 True 4654.0 4654 100.0000 1 2520 1 chr4D.!!$R2 2519
1 TraesCS4D01G060700 chr4D 398658403 398659944 1541 False 2686.0 2686 98.2490 967 2495 1 chr4D.!!$F1 1528
2 TraesCS4D01G060700 chr4D 455273762 455275590 1828 True 2510.0 2510 91.2700 542 2433 1 chr4D.!!$R3 1891
3 TraesCS4D01G060700 chr2D 645194647 645196629 1982 False 3258.0 3258 96.5860 542 2495 1 chr2D.!!$F2 1953
4 TraesCS4D01G060700 chr2D 634132363 634133990 1627 False 2835.0 2835 98.2200 880 2495 1 chr2D.!!$F1 1615
5 TraesCS4D01G060700 chr6D 17067057 17069031 1974 False 3214.0 3214 96.2250 541 2496 1 chr6D.!!$F1 1955
6 TraesCS4D01G060700 chr6D 100358866 100360840 1974 False 3158.0 3158 95.7260 542 2496 1 chr6D.!!$F2 1954
7 TraesCS4D01G060700 chr6D 436433018 436434578 1560 False 2558.0 2558 96.4970 956 2495 1 chr6D.!!$F3 1539
8 TraesCS4D01G060700 chr6D 463819351 463819967 616 True 972.0 972 95.3670 1886 2495 1 chr6D.!!$R1 609
9 TraesCS4D01G060700 chr5D 543865237 543867189 1952 False 3116.0 3116 95.5230 541 2496 1 chr5D.!!$F2 1955
10 TraesCS4D01G060700 chr5D 447966329 447967999 1670 False 2924.0 2924 98.3840 839 2495 1 chr5D.!!$F1 1656
11 TraesCS4D01G060700 chr5D 537772275 537773843 1568 True 2586.0 2586 96.6430 946 2495 1 chr5D.!!$R2 1549
12 TraesCS4D01G060700 chr1D 10554226 10556235 2009 False 3040.0 3040 94.4610 542 2496 1 chr1D.!!$F1 1954
13 TraesCS4D01G060700 chr1D 96400583 96401418 835 False 1005.0 1005 88.2690 726 1583 1 chr1D.!!$F2 857
14 TraesCS4D01G060700 chr7D 617526514 617528474 1960 False 3009.0 3009 94.4220 533 2496 1 chr7D.!!$F1 1963
15 TraesCS4D01G060700 chrUn 111370151 111372139 1988 True 2761.0 2761 91.9150 542 2520 1 chrUn.!!$R1 1978
16 TraesCS4D01G060700 chr3D 537296654 537298322 1668 False 2748.0 2748 96.6030 847 2495 1 chr3D.!!$F3 1648
17 TraesCS4D01G060700 chr3D 536922084 536924050 1966 False 2743.0 2743 91.9030 540 2520 1 chr3D.!!$F2 1980
18 TraesCS4D01G060700 chr3D 21250385 21251981 1596 True 2736.0 2736 97.7460 920 2500 1 chr3D.!!$R1 1580
19 TraesCS4D01G060700 chr6A 575493460 575494961 1501 False 2379.0 2379 95.4820 542 2023 1 chr6A.!!$F1 1481
20 TraesCS4D01G060700 chr7A 46106557 46108320 1763 True 2209.0 2209 89.6120 732 2500 1 chr7A.!!$R1 1768
21 TraesCS4D01G060700 chr2A 18472016 18473769 1753 False 2095.0 2095 88.5730 732 2500 1 chr2A.!!$F1 1768
22 TraesCS4D01G060700 chr2A 605195204 605196766 1562 True 1986.0 1986 89.9810 942 2500 1 chr2A.!!$R1 1558
23 TraesCS4D01G060700 chr4A 565741513 565742025 512 False 507.0 507 84.5870 3 541 1 chr4A.!!$F1 538
24 TraesCS4D01G060700 chr4B 52939511 52942540 3029 True 218.5 281 91.3165 333 541 2 chr4B.!!$R2 208

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
234 235 0.108804 TCGACTTCGAAGACCATGCC 60.109 55.0 31.08 9.61 46.3 4.4 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1776 1876 0.71238 AGGGCCCATTTTCTCATGGT 59.288 50.0 27.56 0.0 42.2 3.55 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 26 1.009900 CCGCTCGGACTATCGACAC 60.010 63.158 1.35 0.00 37.50 3.67
26 27 1.009900 CGCTCGGACTATCGACACC 60.010 63.158 0.00 0.00 35.18 4.16
28 29 1.381928 GCTCGGACTATCGACACCCA 61.382 60.000 0.00 0.00 35.18 4.51
37 38 5.296151 ACTATCGACACCCATTCATCAAT 57.704 39.130 0.00 0.00 0.00 2.57
38 39 5.684704 ACTATCGACACCCATTCATCAATT 58.315 37.500 0.00 0.00 0.00 2.32
46 47 7.201723 CGACACCCATTCATCAATTTGAATAGA 60.202 37.037 2.68 0.00 42.90 1.98
52 53 9.674824 CCATTCATCAATTTGAATAGAAGTAGC 57.325 33.333 2.68 0.00 42.90 3.58
53 54 9.378597 CATTCATCAATTTGAATAGAAGTAGCG 57.621 33.333 2.68 0.00 42.90 4.26
54 55 8.716646 TTCATCAATTTGAATAGAAGTAGCGA 57.283 30.769 2.68 0.00 30.82 4.93
55 56 8.131455 TCATCAATTTGAATAGAAGTAGCGAC 57.869 34.615 2.68 0.00 0.00 5.19
56 57 7.763985 TCATCAATTTGAATAGAAGTAGCGACA 59.236 33.333 2.68 0.00 0.00 4.35
57 58 7.899178 TCAATTTGAATAGAAGTAGCGACAA 57.101 32.000 0.00 0.00 0.00 3.18
58 59 8.317891 TCAATTTGAATAGAAGTAGCGACAAA 57.682 30.769 0.00 0.00 0.00 2.83
59 60 8.946085 TCAATTTGAATAGAAGTAGCGACAAAT 58.054 29.630 0.00 0.00 38.00 2.32
76 77 4.647611 ACAAATATTGTCAAGACGGTGGA 58.352 39.130 0.00 0.00 40.56 4.02
77 78 5.253330 ACAAATATTGTCAAGACGGTGGAT 58.747 37.500 0.00 0.00 40.56 3.41
78 79 5.710099 ACAAATATTGTCAAGACGGTGGATT 59.290 36.000 0.00 0.00 40.56 3.01
79 80 6.128007 ACAAATATTGTCAAGACGGTGGATTC 60.128 38.462 0.00 0.00 40.56 2.52
80 81 2.920724 TTGTCAAGACGGTGGATTCA 57.079 45.000 0.00 0.00 0.00 2.57
81 82 2.455674 TGTCAAGACGGTGGATTCAG 57.544 50.000 0.00 0.00 0.00 3.02
82 83 1.967779 TGTCAAGACGGTGGATTCAGA 59.032 47.619 0.00 0.00 0.00 3.27
83 84 2.367241 TGTCAAGACGGTGGATTCAGAA 59.633 45.455 0.00 0.00 0.00 3.02
84 85 3.007940 TGTCAAGACGGTGGATTCAGAAT 59.992 43.478 0.00 0.00 0.00 2.40
85 86 4.003648 GTCAAGACGGTGGATTCAGAATT 58.996 43.478 0.00 0.00 0.00 2.17
86 87 5.175859 GTCAAGACGGTGGATTCAGAATTA 58.824 41.667 0.00 0.00 0.00 1.40
87 88 5.063564 GTCAAGACGGTGGATTCAGAATTAC 59.936 44.000 0.00 0.48 0.00 1.89
88 89 4.138487 AGACGGTGGATTCAGAATTACC 57.862 45.455 15.68 15.68 0.00 2.85
90 91 2.498481 ACGGTGGATTCAGAATTACCGA 59.502 45.455 35.60 9.44 46.13 4.69
91 92 3.134081 ACGGTGGATTCAGAATTACCGAT 59.866 43.478 35.60 25.00 46.13 4.18
92 93 3.494626 CGGTGGATTCAGAATTACCGATG 59.505 47.826 30.50 13.89 46.13 3.84
93 94 4.451900 GGTGGATTCAGAATTACCGATGT 58.548 43.478 12.33 0.00 0.00 3.06
94 95 5.607477 GGTGGATTCAGAATTACCGATGTA 58.393 41.667 12.33 0.00 0.00 2.29
95 96 6.231211 GGTGGATTCAGAATTACCGATGTAT 58.769 40.000 12.33 0.00 0.00 2.29
96 97 6.710744 GGTGGATTCAGAATTACCGATGTATT 59.289 38.462 12.33 0.00 0.00 1.89
97 98 7.876068 GGTGGATTCAGAATTACCGATGTATTA 59.124 37.037 12.33 0.00 0.00 0.98
98 99 8.709646 GTGGATTCAGAATTACCGATGTATTAC 58.290 37.037 0.00 0.00 0.00 1.89
99 100 8.647796 TGGATTCAGAATTACCGATGTATTACT 58.352 33.333 0.00 0.00 0.00 2.24
100 101 9.490379 GGATTCAGAATTACCGATGTATTACTT 57.510 33.333 0.00 0.00 0.00 2.24
103 104 9.661563 TTCAGAATTACCGATGTATTACTTTGT 57.338 29.630 0.00 0.00 0.00 2.83
108 109 9.895138 AATTACCGATGTATTACTTTGTAAGGT 57.105 29.630 0.00 0.00 0.00 3.50
109 110 9.895138 ATTACCGATGTATTACTTTGTAAGGTT 57.105 29.630 0.00 0.00 0.00 3.50
110 111 9.723601 TTACCGATGTATTACTTTGTAAGGTTT 57.276 29.630 0.00 0.00 0.00 3.27
111 112 8.625786 ACCGATGTATTACTTTGTAAGGTTTT 57.374 30.769 0.00 0.00 0.00 2.43
112 113 8.508875 ACCGATGTATTACTTTGTAAGGTTTTG 58.491 33.333 0.00 0.00 0.00 2.44
113 114 8.508875 CCGATGTATTACTTTGTAAGGTTTTGT 58.491 33.333 0.00 0.00 0.00 2.83
114 115 9.325150 CGATGTATTACTTTGTAAGGTTTTGTG 57.675 33.333 0.00 0.00 0.00 3.33
147 148 4.621068 AAATGACTACATGCATTGTCCG 57.379 40.909 16.71 1.49 39.87 4.79
148 149 2.022764 TGACTACATGCATTGTCCGG 57.977 50.000 16.71 0.00 39.87 5.14
149 150 1.277842 TGACTACATGCATTGTCCGGT 59.722 47.619 16.71 6.17 39.87 5.28
150 151 2.290008 TGACTACATGCATTGTCCGGTT 60.290 45.455 16.71 0.00 39.87 4.44
151 152 2.083774 ACTACATGCATTGTCCGGTTG 58.916 47.619 0.00 0.00 39.87 3.77
152 153 0.808125 TACATGCATTGTCCGGTTGC 59.192 50.000 0.00 7.89 39.87 4.17
154 155 3.353600 TGCATTGTCCGGTTGCAG 58.646 55.556 16.24 1.76 41.18 4.41
155 156 1.228094 TGCATTGTCCGGTTGCAGA 60.228 52.632 16.24 0.56 41.18 4.26
156 157 1.236616 TGCATTGTCCGGTTGCAGAG 61.237 55.000 16.24 6.48 41.18 3.35
157 158 1.926511 GCATTGTCCGGTTGCAGAGG 61.927 60.000 0.00 0.00 36.40 3.69
158 159 0.606401 CATTGTCCGGTTGCAGAGGT 60.606 55.000 0.00 0.00 0.00 3.85
159 160 0.321653 ATTGTCCGGTTGCAGAGGTC 60.322 55.000 0.00 0.59 0.00 3.85
160 161 1.407656 TTGTCCGGTTGCAGAGGTCT 61.408 55.000 0.00 0.00 0.00 3.85
161 162 1.374758 GTCCGGTTGCAGAGGTCTG 60.375 63.158 0.00 2.37 46.40 3.51
162 163 2.046892 CCGGTTGCAGAGGTCTGG 60.047 66.667 9.03 0.00 43.94 3.86
163 164 2.046892 CGGTTGCAGAGGTCTGGG 60.047 66.667 9.03 0.00 43.94 4.45
164 165 2.883828 CGGTTGCAGAGGTCTGGGT 61.884 63.158 9.03 0.00 43.94 4.51
165 166 1.003233 GGTTGCAGAGGTCTGGGTC 60.003 63.158 9.03 0.00 43.94 4.46
166 167 1.754745 GTTGCAGAGGTCTGGGTCA 59.245 57.895 9.03 0.00 43.94 4.02
167 168 0.326264 GTTGCAGAGGTCTGGGTCAT 59.674 55.000 9.03 0.00 43.94 3.06
168 169 1.067295 TTGCAGAGGTCTGGGTCATT 58.933 50.000 9.03 0.00 43.94 2.57
169 170 0.615331 TGCAGAGGTCTGGGTCATTC 59.385 55.000 9.03 0.00 43.94 2.67
170 171 0.908198 GCAGAGGTCTGGGTCATTCT 59.092 55.000 9.03 0.00 43.94 2.40
171 172 1.134551 GCAGAGGTCTGGGTCATTCTC 60.135 57.143 9.03 0.00 43.94 2.87
172 173 1.484240 CAGAGGTCTGGGTCATTCTCC 59.516 57.143 0.00 0.00 40.20 3.71
173 174 1.364328 AGAGGTCTGGGTCATTCTCCT 59.636 52.381 0.00 0.00 0.00 3.69
174 175 1.760029 GAGGTCTGGGTCATTCTCCTC 59.240 57.143 0.00 0.00 34.30 3.71
175 176 1.364328 AGGTCTGGGTCATTCTCCTCT 59.636 52.381 0.00 0.00 0.00 3.69
176 177 2.192263 GGTCTGGGTCATTCTCCTCTT 58.808 52.381 0.00 0.00 0.00 2.85
177 178 3.012959 AGGTCTGGGTCATTCTCCTCTTA 59.987 47.826 0.00 0.00 0.00 2.10
178 179 3.386402 GGTCTGGGTCATTCTCCTCTTAG 59.614 52.174 0.00 0.00 0.00 2.18
179 180 4.282496 GTCTGGGTCATTCTCCTCTTAGA 58.718 47.826 0.00 0.00 0.00 2.10
180 181 4.712337 GTCTGGGTCATTCTCCTCTTAGAA 59.288 45.833 0.00 0.00 39.71 2.10
181 182 5.187967 GTCTGGGTCATTCTCCTCTTAGAAA 59.812 44.000 0.00 0.00 38.90 2.52
182 183 5.785423 TCTGGGTCATTCTCCTCTTAGAAAA 59.215 40.000 0.00 0.00 38.90 2.29
183 184 6.272324 TCTGGGTCATTCTCCTCTTAGAAAAA 59.728 38.462 0.00 0.00 38.90 1.94
207 208 9.741647 AAAAAGAAGAAACTTTGAGATTGCTAG 57.258 29.630 0.00 0.00 39.57 3.42
208 209 7.446001 AAGAAGAAACTTTGAGATTGCTAGG 57.554 36.000 0.00 0.00 0.00 3.02
209 210 5.942826 AGAAGAAACTTTGAGATTGCTAGGG 59.057 40.000 0.00 0.00 0.00 3.53
210 211 5.505181 AGAAACTTTGAGATTGCTAGGGA 57.495 39.130 0.00 0.00 0.00 4.20
211 212 5.249420 AGAAACTTTGAGATTGCTAGGGAC 58.751 41.667 0.00 0.00 0.00 4.46
212 213 4.917906 AACTTTGAGATTGCTAGGGACT 57.082 40.909 0.00 0.00 46.37 3.85
213 214 6.213600 AGAAACTTTGAGATTGCTAGGGACTA 59.786 38.462 0.00 0.00 41.75 2.59
214 215 6.374417 AACTTTGAGATTGCTAGGGACTAA 57.626 37.500 0.00 0.00 42.17 2.24
215 216 6.567602 ACTTTGAGATTGCTAGGGACTAAT 57.432 37.500 0.00 0.00 42.17 1.73
216 217 6.587273 ACTTTGAGATTGCTAGGGACTAATC 58.413 40.000 0.00 0.00 42.17 1.75
217 218 4.855715 TGAGATTGCTAGGGACTAATCG 57.144 45.455 0.00 0.00 42.17 3.34
218 219 4.470602 TGAGATTGCTAGGGACTAATCGA 58.529 43.478 0.00 0.00 42.17 3.59
219 220 4.278669 TGAGATTGCTAGGGACTAATCGAC 59.721 45.833 0.00 0.00 42.17 4.20
220 221 4.475345 AGATTGCTAGGGACTAATCGACT 58.525 43.478 0.00 0.00 42.17 4.18
221 222 4.896482 AGATTGCTAGGGACTAATCGACTT 59.104 41.667 0.00 0.00 42.17 3.01
222 223 4.650754 TTGCTAGGGACTAATCGACTTC 57.349 45.455 0.00 0.00 42.17 3.01
223 224 2.617308 TGCTAGGGACTAATCGACTTCG 59.383 50.000 0.00 0.00 42.17 3.79
225 226 3.314635 GCTAGGGACTAATCGACTTCGAA 59.685 47.826 5.27 0.00 46.60 3.71
226 227 4.555116 GCTAGGGACTAATCGACTTCGAAG 60.555 50.000 23.43 23.43 46.60 3.79
227 228 3.618351 AGGGACTAATCGACTTCGAAGA 58.382 45.455 31.08 10.18 46.03 2.87
228 229 3.377798 AGGGACTAATCGACTTCGAAGAC 59.622 47.826 31.08 23.33 46.03 3.01
229 230 5.698298 AGGGACTAATCGACTTCGAAGACC 61.698 50.000 31.08 19.50 46.03 3.85
230 231 8.758660 TAGGGACTAATCGACTTCGAAGACCA 62.759 46.154 31.08 14.72 46.60 4.02
231 232 9.959585 TAGGGACTAATCGACTTCGAAGACCAT 62.960 44.444 31.08 16.41 46.60 3.55
233 234 3.418675 TCGACTTCGAAGACCATGC 57.581 52.632 31.08 11.38 46.30 4.06
234 235 0.108804 TCGACTTCGAAGACCATGCC 60.109 55.000 31.08 9.61 46.30 4.40
235 236 1.413767 CGACTTCGAAGACCATGCCG 61.414 60.000 31.08 16.30 43.02 5.69
236 237 1.696832 GACTTCGAAGACCATGCCGC 61.697 60.000 31.08 5.34 34.32 6.53
237 238 1.448540 CTTCGAAGACCATGCCGCT 60.449 57.895 20.74 0.00 34.32 5.52
238 239 1.699656 CTTCGAAGACCATGCCGCTG 61.700 60.000 20.74 0.00 34.32 5.18
239 240 2.125552 CGAAGACCATGCCGCTGA 60.126 61.111 0.00 0.00 0.00 4.26
240 241 1.741401 CGAAGACCATGCCGCTGAA 60.741 57.895 0.00 0.00 0.00 3.02
241 242 1.699656 CGAAGACCATGCCGCTGAAG 61.700 60.000 0.00 0.00 0.00 3.02
242 243 1.986575 GAAGACCATGCCGCTGAAGC 61.987 60.000 0.00 0.00 37.78 3.86
243 244 3.512516 GACCATGCCGCTGAAGCC 61.513 66.667 0.00 0.00 37.91 4.35
247 248 4.845580 ATGCCGCTGAAGCCCGAG 62.846 66.667 0.00 0.00 37.91 4.63
271 272 4.740822 GGCCCGCTGGTGAACCAT 62.741 66.667 1.88 0.00 46.46 3.55
272 273 2.270850 GCCCGCTGGTGAACCATA 59.729 61.111 1.88 0.00 46.46 2.74
273 274 1.819632 GCCCGCTGGTGAACCATAG 60.820 63.158 1.88 0.26 46.46 2.23
274 275 1.153168 CCCGCTGGTGAACCATAGG 60.153 63.158 1.88 9.18 46.46 2.57
275 276 1.622607 CCCGCTGGTGAACCATAGGA 61.623 60.000 19.26 0.00 46.46 2.94
276 277 0.469917 CCGCTGGTGAACCATAGGAT 59.530 55.000 14.74 0.00 46.46 3.24
277 278 1.586422 CGCTGGTGAACCATAGGATG 58.414 55.000 1.88 0.00 46.46 3.51
278 279 1.138859 CGCTGGTGAACCATAGGATGA 59.861 52.381 1.88 0.00 46.46 2.92
279 280 2.565841 GCTGGTGAACCATAGGATGAC 58.434 52.381 1.88 0.00 46.46 3.06
280 281 2.826428 CTGGTGAACCATAGGATGACG 58.174 52.381 1.88 0.00 46.46 4.35
281 282 1.484653 TGGTGAACCATAGGATGACGG 59.515 52.381 0.00 0.00 42.01 4.79
282 283 1.202651 GGTGAACCATAGGATGACGGG 60.203 57.143 0.00 0.00 35.64 5.28
283 284 1.128200 TGAACCATAGGATGACGGGG 58.872 55.000 0.00 0.00 0.00 5.73
284 285 1.129058 GAACCATAGGATGACGGGGT 58.871 55.000 0.00 0.00 0.00 4.95
285 286 1.070289 GAACCATAGGATGACGGGGTC 59.930 57.143 0.00 0.00 0.00 4.46
286 287 0.763223 ACCATAGGATGACGGGGTCC 60.763 60.000 0.00 0.00 34.64 4.46
308 309 4.824515 CGGGGCTCCTCTCCGACT 62.825 72.222 0.00 0.00 45.96 4.18
309 310 2.835895 GGGGCTCCTCTCCGACTC 60.836 72.222 0.00 0.00 0.00 3.36
310 311 3.213402 GGGCTCCTCTCCGACTCG 61.213 72.222 0.00 0.00 0.00 4.18
311 312 2.124653 GGCTCCTCTCCGACTCGA 60.125 66.667 0.00 0.00 0.00 4.04
312 313 2.474612 GGCTCCTCTCCGACTCGAC 61.475 68.421 0.00 0.00 0.00 4.20
313 314 2.815298 GCTCCTCTCCGACTCGACG 61.815 68.421 0.00 0.00 0.00 5.12
314 315 1.153608 CTCCTCTCCGACTCGACGA 60.154 63.158 0.00 0.00 35.09 4.20
315 316 0.740164 CTCCTCTCCGACTCGACGAA 60.740 60.000 0.00 0.00 35.09 3.85
316 317 0.740164 TCCTCTCCGACTCGACGAAG 60.740 60.000 0.00 0.00 35.09 3.79
350 351 1.388531 GTCCCAGTCTCCTCCTCCA 59.611 63.158 0.00 0.00 0.00 3.86
367 368 0.747644 CCACGCCCATGTATCTGCAA 60.748 55.000 0.00 0.00 0.00 4.08
368 369 1.311859 CACGCCCATGTATCTGCAAT 58.688 50.000 0.00 0.00 0.00 3.56
369 370 1.002142 CACGCCCATGTATCTGCAATG 60.002 52.381 0.00 0.00 0.00 2.82
377 378 0.451383 GTATCTGCAATGCACGGCAA 59.549 50.000 2.72 7.04 43.62 4.52
417 418 1.474077 GCTCGTGCCCATTTCAAGATT 59.526 47.619 0.00 0.00 0.00 2.40
447 449 3.637184 GGCTTACCCGGTTTCAAGA 57.363 52.632 0.00 0.00 0.00 3.02
449 451 2.443416 GGCTTACCCGGTTTCAAGATT 58.557 47.619 0.00 0.00 0.00 2.40
456 458 2.514803 CCGGTTTCAAGATTGAAGGGT 58.485 47.619 7.95 0.00 46.68 4.34
1776 1876 1.475034 GGCTGCCGAATAGATGTTGGA 60.475 52.381 1.35 0.00 0.00 3.53
2460 4535 3.327626 GGTTCTTCTTCGGGTTCTTCTC 58.672 50.000 0.00 0.00 0.00 2.87
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.998670 CGATAGTCCGAGCGGAATACTA 59.001 50.000 19.53 14.49 45.77 1.82
1 2 1.805345 CGATAGTCCGAGCGGAATACT 59.195 52.381 19.53 12.89 45.77 2.12
8 9 1.009900 GGTGTCGATAGTCCGAGCG 60.010 63.158 0.00 0.00 39.43 5.03
20 21 4.700268 TCAAATTGATGAATGGGTGTCG 57.300 40.909 0.00 0.00 0.00 4.35
26 27 9.674824 GCTACTTCTATTCAAATTGATGAATGG 57.325 33.333 13.37 11.15 46.63 3.16
38 39 9.378551 ACAATATTTGTCGCTACTTCTATTCAA 57.621 29.630 0.00 0.00 40.56 2.69
55 56 5.818136 ATCCACCGTCTTGACAATATTTG 57.182 39.130 1.59 0.00 0.00 2.32
56 57 5.943416 TGAATCCACCGTCTTGACAATATTT 59.057 36.000 1.59 0.00 0.00 1.40
57 58 5.496556 TGAATCCACCGTCTTGACAATATT 58.503 37.500 1.59 0.00 0.00 1.28
58 59 5.097742 TGAATCCACCGTCTTGACAATAT 57.902 39.130 1.59 0.00 0.00 1.28
59 60 4.221924 TCTGAATCCACCGTCTTGACAATA 59.778 41.667 1.59 0.00 0.00 1.90
60 61 3.007940 TCTGAATCCACCGTCTTGACAAT 59.992 43.478 1.59 0.00 0.00 2.71
61 62 2.367241 TCTGAATCCACCGTCTTGACAA 59.633 45.455 1.59 0.00 0.00 3.18
62 63 1.967779 TCTGAATCCACCGTCTTGACA 59.032 47.619 1.59 0.00 0.00 3.58
63 64 2.743636 TCTGAATCCACCGTCTTGAC 57.256 50.000 0.00 0.00 0.00 3.18
64 65 3.981071 ATTCTGAATCCACCGTCTTGA 57.019 42.857 0.00 0.00 0.00 3.02
65 66 4.332819 GGTAATTCTGAATCCACCGTCTTG 59.667 45.833 14.66 0.00 0.00 3.02
66 67 4.514401 GGTAATTCTGAATCCACCGTCTT 58.486 43.478 14.66 0.00 0.00 3.01
67 68 3.430374 CGGTAATTCTGAATCCACCGTCT 60.430 47.826 29.71 9.23 41.12 4.18
68 69 2.864343 CGGTAATTCTGAATCCACCGTC 59.136 50.000 29.71 11.14 41.12 4.79
69 70 2.498481 TCGGTAATTCTGAATCCACCGT 59.502 45.455 32.83 13.02 43.91 4.83
70 71 3.173668 TCGGTAATTCTGAATCCACCG 57.826 47.619 30.97 30.97 44.42 4.94
71 72 4.451900 ACATCGGTAATTCTGAATCCACC 58.548 43.478 17.78 17.78 34.86 4.61
72 73 7.730364 AATACATCGGTAATTCTGAATCCAC 57.270 36.000 2.92 5.14 34.86 4.02
73 74 8.647796 AGTAATACATCGGTAATTCTGAATCCA 58.352 33.333 2.92 0.00 34.86 3.41
74 75 9.490379 AAGTAATACATCGGTAATTCTGAATCC 57.510 33.333 2.92 0.88 34.86 3.01
77 78 9.661563 ACAAAGTAATACATCGGTAATTCTGAA 57.338 29.630 0.00 0.00 34.86 3.02
82 83 9.895138 ACCTTACAAAGTAATACATCGGTAATT 57.105 29.630 0.00 0.00 32.19 1.40
83 84 9.895138 AACCTTACAAAGTAATACATCGGTAAT 57.105 29.630 0.00 0.00 32.19 1.89
84 85 9.723601 AAACCTTACAAAGTAATACATCGGTAA 57.276 29.630 0.00 0.00 32.19 2.85
85 86 9.723601 AAAACCTTACAAAGTAATACATCGGTA 57.276 29.630 0.00 0.00 0.00 4.02
86 87 8.508875 CAAAACCTTACAAAGTAATACATCGGT 58.491 33.333 0.00 0.00 0.00 4.69
87 88 8.508875 ACAAAACCTTACAAAGTAATACATCGG 58.491 33.333 0.00 0.00 0.00 4.18
88 89 9.325150 CACAAAACCTTACAAAGTAATACATCG 57.675 33.333 0.00 0.00 0.00 3.84
121 122 8.341903 CGGACAATGCATGTAGTCATTTTATTA 58.658 33.333 21.47 0.00 44.12 0.98
122 123 7.195646 CGGACAATGCATGTAGTCATTTTATT 58.804 34.615 21.47 0.00 44.12 1.40
123 124 6.238731 CCGGACAATGCATGTAGTCATTTTAT 60.239 38.462 21.47 0.00 44.12 1.40
124 125 5.065859 CCGGACAATGCATGTAGTCATTTTA 59.934 40.000 21.47 0.00 44.12 1.52
125 126 4.142403 CCGGACAATGCATGTAGTCATTTT 60.142 41.667 21.47 0.00 44.12 1.82
126 127 3.378112 CCGGACAATGCATGTAGTCATTT 59.622 43.478 21.47 0.00 44.12 2.32
127 128 2.945008 CCGGACAATGCATGTAGTCATT 59.055 45.455 21.47 0.00 44.12 2.57
128 129 2.092968 ACCGGACAATGCATGTAGTCAT 60.093 45.455 21.47 9.36 44.12 3.06
129 130 1.277842 ACCGGACAATGCATGTAGTCA 59.722 47.619 21.47 0.00 44.12 3.41
130 131 2.024176 ACCGGACAATGCATGTAGTC 57.976 50.000 9.46 15.20 44.12 2.59
131 132 2.083774 CAACCGGACAATGCATGTAGT 58.916 47.619 9.46 0.00 44.12 2.73
132 133 1.202177 GCAACCGGACAATGCATGTAG 60.202 52.381 9.46 0.00 44.12 2.74
133 134 0.808125 GCAACCGGACAATGCATGTA 59.192 50.000 9.46 0.00 44.12 2.29
134 135 1.177895 TGCAACCGGACAATGCATGT 61.178 50.000 19.52 0.00 44.52 3.21
135 136 1.585517 TGCAACCGGACAATGCATG 59.414 52.632 19.52 0.00 44.52 4.06
136 137 4.093966 TGCAACCGGACAATGCAT 57.906 50.000 19.52 0.00 44.52 3.96
137 138 1.228094 TCTGCAACCGGACAATGCA 60.228 52.632 21.16 21.16 46.97 3.96
138 139 1.503542 CTCTGCAACCGGACAATGC 59.496 57.895 9.46 13.75 40.45 3.56
139 140 0.606401 ACCTCTGCAACCGGACAATG 60.606 55.000 9.46 2.34 0.00 2.82
140 141 0.321653 GACCTCTGCAACCGGACAAT 60.322 55.000 9.46 0.00 0.00 2.71
141 142 1.070786 GACCTCTGCAACCGGACAA 59.929 57.895 9.46 0.00 0.00 3.18
142 143 1.837051 AGACCTCTGCAACCGGACA 60.837 57.895 9.46 1.80 0.00 4.02
143 144 1.374758 CAGACCTCTGCAACCGGAC 60.375 63.158 9.46 0.00 37.15 4.79
144 145 2.583441 CCAGACCTCTGCAACCGGA 61.583 63.158 9.46 0.00 42.47 5.14
145 146 2.046892 CCAGACCTCTGCAACCGG 60.047 66.667 0.00 0.00 42.47 5.28
146 147 2.046892 CCCAGACCTCTGCAACCG 60.047 66.667 0.00 0.00 42.47 4.44
147 148 1.003233 GACCCAGACCTCTGCAACC 60.003 63.158 0.00 0.00 42.47 3.77
148 149 0.326264 ATGACCCAGACCTCTGCAAC 59.674 55.000 0.00 0.00 42.47 4.17
149 150 1.003580 GAATGACCCAGACCTCTGCAA 59.996 52.381 0.00 0.00 42.47 4.08
150 151 0.615331 GAATGACCCAGACCTCTGCA 59.385 55.000 0.00 0.00 42.47 4.41
151 152 0.908198 AGAATGACCCAGACCTCTGC 59.092 55.000 0.00 0.00 42.47 4.26
152 153 1.484240 GGAGAATGACCCAGACCTCTG 59.516 57.143 0.00 0.00 43.40 3.35
153 154 1.364328 AGGAGAATGACCCAGACCTCT 59.636 52.381 0.00 0.00 0.00 3.69
154 155 1.760029 GAGGAGAATGACCCAGACCTC 59.240 57.143 0.00 0.00 36.23 3.85
155 156 1.364328 AGAGGAGAATGACCCAGACCT 59.636 52.381 0.00 0.00 0.00 3.85
156 157 1.872773 AGAGGAGAATGACCCAGACC 58.127 55.000 0.00 0.00 0.00 3.85
157 158 4.282496 TCTAAGAGGAGAATGACCCAGAC 58.718 47.826 0.00 0.00 0.00 3.51
158 159 4.609866 TCTAAGAGGAGAATGACCCAGA 57.390 45.455 0.00 0.00 0.00 3.86
159 160 5.683876 TTTCTAAGAGGAGAATGACCCAG 57.316 43.478 0.00 0.00 35.41 4.45
160 161 6.448369 TTTTTCTAAGAGGAGAATGACCCA 57.552 37.500 0.00 0.00 35.41 4.51
181 182 9.741647 CTAGCAATCTCAAAGTTTCTTCTTTTT 57.258 29.630 0.00 0.00 35.77 1.94
182 183 8.355913 CCTAGCAATCTCAAAGTTTCTTCTTTT 58.644 33.333 0.00 0.00 35.77 2.27
183 184 7.040132 CCCTAGCAATCTCAAAGTTTCTTCTTT 60.040 37.037 0.00 0.00 38.04 2.52
184 185 6.432472 CCCTAGCAATCTCAAAGTTTCTTCTT 59.568 38.462 0.00 0.00 0.00 2.52
185 186 5.942826 CCCTAGCAATCTCAAAGTTTCTTCT 59.057 40.000 0.00 0.00 0.00 2.85
186 187 5.940470 TCCCTAGCAATCTCAAAGTTTCTTC 59.060 40.000 0.00 0.00 0.00 2.87
187 188 5.707764 GTCCCTAGCAATCTCAAAGTTTCTT 59.292 40.000 0.00 0.00 0.00 2.52
188 189 5.013599 AGTCCCTAGCAATCTCAAAGTTTCT 59.986 40.000 0.00 0.00 0.00 2.52
189 190 5.249420 AGTCCCTAGCAATCTCAAAGTTTC 58.751 41.667 0.00 0.00 0.00 2.78
190 191 5.248380 AGTCCCTAGCAATCTCAAAGTTT 57.752 39.130 0.00 0.00 0.00 2.66
191 192 4.917906 AGTCCCTAGCAATCTCAAAGTT 57.082 40.909 0.00 0.00 0.00 2.66
192 193 6.567602 ATTAGTCCCTAGCAATCTCAAAGT 57.432 37.500 0.00 0.00 0.00 2.66
193 194 5.694006 CGATTAGTCCCTAGCAATCTCAAAG 59.306 44.000 0.00 0.00 0.00 2.77
194 195 5.362717 TCGATTAGTCCCTAGCAATCTCAAA 59.637 40.000 0.00 0.00 0.00 2.69
195 196 4.893524 TCGATTAGTCCCTAGCAATCTCAA 59.106 41.667 0.00 0.00 0.00 3.02
196 197 4.278669 GTCGATTAGTCCCTAGCAATCTCA 59.721 45.833 0.00 0.00 0.00 3.27
197 198 4.521256 AGTCGATTAGTCCCTAGCAATCTC 59.479 45.833 0.00 0.00 0.00 2.75
198 199 4.475345 AGTCGATTAGTCCCTAGCAATCT 58.525 43.478 0.00 0.00 0.00 2.40
199 200 4.857509 AGTCGATTAGTCCCTAGCAATC 57.142 45.455 0.00 0.00 0.00 2.67
200 201 4.261656 CGAAGTCGATTAGTCCCTAGCAAT 60.262 45.833 0.00 0.00 43.02 3.56
201 202 3.066342 CGAAGTCGATTAGTCCCTAGCAA 59.934 47.826 0.00 0.00 43.02 3.91
202 203 2.617308 CGAAGTCGATTAGTCCCTAGCA 59.383 50.000 0.00 0.00 43.02 3.49
203 204 2.877168 TCGAAGTCGATTAGTCCCTAGC 59.123 50.000 0.00 0.00 44.22 3.42
216 217 1.413767 CGGCATGGTCTTCGAAGTCG 61.414 60.000 23.85 8.69 41.45 4.18
217 218 1.696832 GCGGCATGGTCTTCGAAGTC 61.697 60.000 23.85 18.42 0.00 3.01
218 219 1.741770 GCGGCATGGTCTTCGAAGT 60.742 57.895 23.85 2.44 0.00 3.01
219 220 1.448540 AGCGGCATGGTCTTCGAAG 60.449 57.895 19.35 19.35 0.00 3.79
220 221 1.741401 CAGCGGCATGGTCTTCGAA 60.741 57.895 1.45 0.00 0.00 3.71
221 222 2.125552 CAGCGGCATGGTCTTCGA 60.126 61.111 1.45 0.00 0.00 3.71
222 223 1.699656 CTTCAGCGGCATGGTCTTCG 61.700 60.000 1.45 0.00 0.00 3.79
223 224 1.986575 GCTTCAGCGGCATGGTCTTC 61.987 60.000 1.45 0.00 0.00 2.87
224 225 2.042831 GCTTCAGCGGCATGGTCTT 61.043 57.895 1.45 0.00 0.00 3.01
225 226 2.437359 GCTTCAGCGGCATGGTCT 60.437 61.111 1.45 0.00 0.00 3.85
226 227 3.512516 GGCTTCAGCGGCATGGTC 61.513 66.667 1.45 0.00 43.26 4.02
230 231 4.845580 CTCGGGCTTCAGCGGCAT 62.846 66.667 1.45 0.00 43.26 4.40
262 263 1.202651 CCCGTCATCCTATGGTTCACC 60.203 57.143 0.00 0.00 0.00 4.02
263 264 1.202651 CCCCGTCATCCTATGGTTCAC 60.203 57.143 0.00 0.00 0.00 3.18
264 265 1.128200 CCCCGTCATCCTATGGTTCA 58.872 55.000 0.00 0.00 0.00 3.18
265 266 1.070289 GACCCCGTCATCCTATGGTTC 59.930 57.143 0.00 0.00 32.09 3.62
266 267 1.129058 GACCCCGTCATCCTATGGTT 58.871 55.000 0.00 0.00 32.09 3.67
267 268 0.763223 GGACCCCGTCATCCTATGGT 60.763 60.000 0.00 0.00 33.68 3.55
268 269 1.816863 CGGACCCCGTCATCCTATGG 61.817 65.000 0.00 0.00 42.73 2.74
269 270 1.666011 CGGACCCCGTCATCCTATG 59.334 63.158 0.00 0.00 42.73 2.23
270 271 4.192950 CGGACCCCGTCATCCTAT 57.807 61.111 0.00 0.00 42.73 2.57
291 292 4.824515 AGTCGGAGAGGAGCCCCG 62.825 72.222 0.00 0.00 44.22 5.73
292 293 2.835895 GAGTCGGAGAGGAGCCCC 60.836 72.222 0.00 0.00 36.95 5.80
293 294 3.213402 CGAGTCGGAGAGGAGCCC 61.213 72.222 4.10 0.00 36.95 5.19
294 295 2.124653 TCGAGTCGGAGAGGAGCC 60.125 66.667 13.54 0.00 36.95 4.70
295 296 2.815298 CGTCGAGTCGGAGAGGAGC 61.815 68.421 13.54 0.00 36.95 4.70
296 297 0.740164 TTCGTCGAGTCGGAGAGGAG 60.740 60.000 13.54 0.00 36.95 3.69
297 298 0.740164 CTTCGTCGAGTCGGAGAGGA 60.740 60.000 13.54 1.74 38.57 3.71
298 299 1.020333 ACTTCGTCGAGTCGGAGAGG 61.020 60.000 13.54 14.39 38.57 3.69
299 300 1.589320 CTACTTCGTCGAGTCGGAGAG 59.411 57.143 13.54 8.41 38.57 3.20
300 301 1.067283 ACTACTTCGTCGAGTCGGAGA 60.067 52.381 13.54 9.62 38.57 3.71
301 302 1.357907 ACTACTTCGTCGAGTCGGAG 58.642 55.000 13.54 7.25 41.63 4.63
302 303 2.164422 TCTACTACTTCGTCGAGTCGGA 59.836 50.000 13.54 0.00 0.00 4.55
303 304 2.534298 TCTACTACTTCGTCGAGTCGG 58.466 52.381 13.54 0.00 0.00 4.79
304 305 3.856521 TCTTCTACTACTTCGTCGAGTCG 59.143 47.826 6.09 6.09 0.00 4.18
305 306 4.259930 GCTCTTCTACTACTTCGTCGAGTC 60.260 50.000 0.00 0.00 0.00 3.36
306 307 3.618150 GCTCTTCTACTACTTCGTCGAGT 59.382 47.826 0.00 0.00 0.00 4.18
307 308 3.866910 AGCTCTTCTACTACTTCGTCGAG 59.133 47.826 0.00 0.00 0.00 4.04
308 309 3.859443 AGCTCTTCTACTACTTCGTCGA 58.141 45.455 0.00 0.00 0.00 4.20
309 310 3.001533 GGAGCTCTTCTACTACTTCGTCG 59.998 52.174 14.64 0.00 0.00 5.12
310 311 3.001533 CGGAGCTCTTCTACTACTTCGTC 59.998 52.174 14.64 0.00 0.00 4.20
311 312 2.937799 CGGAGCTCTTCTACTACTTCGT 59.062 50.000 14.64 0.00 0.00 3.85
312 313 2.937799 ACGGAGCTCTTCTACTACTTCG 59.062 50.000 14.64 6.37 0.00 3.79
313 314 3.313249 GGACGGAGCTCTTCTACTACTTC 59.687 52.174 14.64 0.00 0.00 3.01
314 315 3.281158 GGACGGAGCTCTTCTACTACTT 58.719 50.000 14.64 0.00 0.00 2.24
315 316 2.421811 GGGACGGAGCTCTTCTACTACT 60.422 54.545 14.64 0.00 0.00 2.57
316 317 1.948834 GGGACGGAGCTCTTCTACTAC 59.051 57.143 14.64 0.00 0.00 2.73
317 318 1.562942 TGGGACGGAGCTCTTCTACTA 59.437 52.381 14.64 0.00 0.00 1.82
318 319 0.331954 TGGGACGGAGCTCTTCTACT 59.668 55.000 14.64 0.00 0.00 2.57
319 320 0.741915 CTGGGACGGAGCTCTTCTAC 59.258 60.000 14.64 8.48 36.31 2.59
320 321 0.331954 ACTGGGACGGAGCTCTTCTA 59.668 55.000 14.64 3.98 38.67 2.10
321 322 0.968393 GACTGGGACGGAGCTCTTCT 60.968 60.000 14.64 0.00 38.67 2.85
322 323 0.968393 AGACTGGGACGGAGCTCTTC 60.968 60.000 14.64 10.32 38.67 2.87
323 324 0.968393 GAGACTGGGACGGAGCTCTT 60.968 60.000 14.64 0.14 36.97 2.85
324 325 1.379309 GAGACTGGGACGGAGCTCT 60.379 63.158 14.64 0.00 36.97 4.09
325 326 2.419739 GGAGACTGGGACGGAGCTC 61.420 68.421 4.71 4.71 38.32 4.09
326 327 2.363147 GGAGACTGGGACGGAGCT 60.363 66.667 0.00 0.00 38.67 4.09
327 328 2.363147 AGGAGACTGGGACGGAGC 60.363 66.667 0.00 0.00 41.13 4.70
328 329 1.755008 GGAGGAGACTGGGACGGAG 60.755 68.421 0.00 0.00 44.43 4.63
329 330 2.212794 GAGGAGGAGACTGGGACGGA 62.213 65.000 0.00 0.00 44.43 4.69
330 331 1.755008 GAGGAGGAGACTGGGACGG 60.755 68.421 0.00 0.00 44.43 4.79
331 332 1.755008 GGAGGAGGAGACTGGGACG 60.755 68.421 0.00 0.00 44.43 4.79
350 351 1.311859 CATTGCAGATACATGGGCGT 58.688 50.000 0.00 0.00 0.00 5.68
367 368 1.216178 GGAATTGCTTGCCGTGCAT 59.784 52.632 0.00 0.00 38.76 3.96
368 369 2.650196 GGAATTGCTTGCCGTGCA 59.350 55.556 0.00 0.00 38.80 4.57
369 370 2.504681 CGGAATTGCTTGCCGTGC 60.505 61.111 0.00 0.00 40.17 5.34
377 378 0.465097 CTCTCATGGCCGGAATTGCT 60.465 55.000 5.05 0.00 0.00 3.91
417 418 0.600782 GGTAAGCCGTCGTTGGTTCA 60.601 55.000 0.00 0.00 0.00 3.18
444 446 1.847088 GGCCCTCTACCCTTCAATCTT 59.153 52.381 0.00 0.00 0.00 2.40
447 449 1.777272 GATGGCCCTCTACCCTTCAAT 59.223 52.381 0.00 0.00 0.00 2.57
449 451 1.048724 CGATGGCCCTCTACCCTTCA 61.049 60.000 0.00 0.00 0.00 3.02
456 458 1.342074 CAGGATTCGATGGCCCTCTA 58.658 55.000 0.00 0.00 0.00 2.43
530 538 1.936767 TATTGGCCCCCTCCTGCTTG 61.937 60.000 0.00 0.00 0.00 4.01
685 693 0.032267 CTCGAATCGCTAACCCCTCC 59.968 60.000 0.00 0.00 0.00 4.30
1210 1288 2.821969 CCCACATTTCTTCAGAACCTGG 59.178 50.000 0.00 0.00 33.13 4.45
1776 1876 0.712380 AGGGCCCATTTTCTCATGGT 59.288 50.000 27.56 0.00 42.20 3.55
2460 4535 2.445654 GCCTGGAGGAGGAGGAGG 60.446 72.222 0.00 0.00 46.33 4.30


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.