Multiple sequence alignment - TraesCS1A01G205000

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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 TraesCS1A01G205000 chr1A 100.000 2525 0 0 1 2525 367010027 367012551 0.000000e+00 4663.0
1 TraesCS1A01G205000 chr1D 93.818 2119 71 19 134 2214 294219096 294221192 0.000000e+00 3133.0
2 TraesCS1A01G205000 chr1D 96.429 56 2 0 2376 2431 294221485 294221540 2.670000e-15 93.5
3 TraesCS1A01G205000 chr1B 93.005 2130 91 13 129 2214 395967313 395969428 0.000000e+00 3055.0
4 TraesCS1A01G205000 chr1B 96.450 169 4 2 2265 2431 395969530 395969698 6.880000e-71 278.0
5 TraesCS1A01G205000 chr7D 77.542 1180 215 34 360 1518 45663323 45664473 0.000000e+00 665.0
6 TraesCS1A01G205000 chr4A 78.304 802 159 12 652 1444 657519623 657518828 1.040000e-138 503.0
7 TraesCS1A01G205000 chr4A 77.681 802 164 12 652 1444 658239345 658240140 2.270000e-130 475.0
8 TraesCS1A01G205000 chr4A 77.910 421 73 11 376 793 657524025 657523622 6.980000e-61 244.0
9 TraesCS1A01G205000 chr4A 78.862 246 45 6 387 628 657519856 657519614 2.600000e-35 159.0
10 TraesCS1A01G205000 chr2B 92.784 97 6 1 2426 2522 195596662 195596757 3.390000e-29 139.0
11 TraesCS1A01G205000 chr6B 94.318 88 5 0 2436 2523 644773951 644773864 4.380000e-28 135.0
12 TraesCS1A01G205000 chr2A 91.000 100 7 2 2426 2525 416910046 416909949 1.580000e-27 134.0
13 TraesCS1A01G205000 chr5B 83.871 93 14 1 2430 2522 111699757 111699848 1.240000e-13 87.9
14 TraesCS1A01G205000 chr5B 85.246 61 8 1 59 119 558381047 558380988 7.540000e-06 62.1
15 TraesCS1A01G205000 chr3A 88.889 63 7 0 832 894 38013065 38013003 7.490000e-11 78.7
16 TraesCS1A01G205000 chr3B 86.364 66 9 0 829 894 46328609 46328674 3.480000e-09 73.1
17 TraesCS1A01G205000 chr3D 85.714 63 9 0 832 894 28123966 28123904 1.620000e-07 67.6


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 TraesCS1A01G205000 chr1A 367010027 367012551 2524 False 4663.00 4663 100.000000 1 2525 1 chr1A.!!$F1 2524
1 TraesCS1A01G205000 chr1D 294219096 294221540 2444 False 1613.25 3133 95.123500 134 2431 2 chr1D.!!$F1 2297
2 TraesCS1A01G205000 chr1B 395967313 395969698 2385 False 1666.50 3055 94.727500 129 2431 2 chr1B.!!$F1 2302
3 TraesCS1A01G205000 chr7D 45663323 45664473 1150 False 665.00 665 77.542000 360 1518 1 chr7D.!!$F1 1158
4 TraesCS1A01G205000 chr4A 658239345 658240140 795 False 475.00 475 77.681000 652 1444 1 chr4A.!!$F1 792
5 TraesCS1A01G205000 chr4A 657518828 657524025 5197 True 302.00 503 78.358667 376 1444 3 chr4A.!!$R1 1068

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
27 28 0.237235 GTTGACGCGAAGATGGCAAA 59.763 50.0 15.93 0.0 34.38 3.68 F
406 4190 0.927767 AGGTACTCATCCGTCTCCCT 59.072 55.0 0.00 0.0 0.00 4.20 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1379 5179 0.741221 GACCATGAAGACGCCTCCAC 60.741 60.0 0.0 0.0 0.0 4.02 R
2268 6208 0.103823 TCCTCCCCACCCCAGTTTAA 60.104 55.0 0.0 0.0 0.0 1.52 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
23 24 4.335082 TTTTATGTTGACGCGAAGATGG 57.665 40.909 15.93 0.00 0.00 3.51
24 25 1.286501 TATGTTGACGCGAAGATGGC 58.713 50.000 15.93 0.00 0.00 4.40
25 26 0.673333 ATGTTGACGCGAAGATGGCA 60.673 50.000 15.93 2.33 0.00 4.92
27 28 0.237235 GTTGACGCGAAGATGGCAAA 59.763 50.000 15.93 0.00 34.38 3.68
28 29 1.135689 GTTGACGCGAAGATGGCAAAT 60.136 47.619 15.93 0.00 34.38 2.32
29 30 1.164411 TGACGCGAAGATGGCAAATT 58.836 45.000 15.93 0.00 0.00 1.82
30 31 1.539388 TGACGCGAAGATGGCAAATTT 59.461 42.857 15.93 0.00 0.00 1.82
31 32 2.744741 TGACGCGAAGATGGCAAATTTA 59.255 40.909 15.93 0.00 0.00 1.40
32 33 3.376859 TGACGCGAAGATGGCAAATTTAT 59.623 39.130 15.93 0.00 0.00 1.40
33 34 3.694734 ACGCGAAGATGGCAAATTTATG 58.305 40.909 15.93 0.00 0.00 1.90
34 35 3.128589 ACGCGAAGATGGCAAATTTATGT 59.871 39.130 15.93 0.00 0.00 2.29
35 36 4.104776 CGCGAAGATGGCAAATTTATGTT 58.895 39.130 0.00 0.00 0.00 2.71
39 40 6.324819 CGAAGATGGCAAATTTATGTTGACT 58.675 36.000 0.00 0.00 34.88 3.41
40 41 7.471721 CGAAGATGGCAAATTTATGTTGACTA 58.528 34.615 0.00 0.00 34.88 2.59
41 42 7.641411 CGAAGATGGCAAATTTATGTTGACTAG 59.359 37.037 0.00 0.00 34.88 2.57
43 44 5.973899 TGGCAAATTTATGTTGACTAGCA 57.026 34.783 0.00 0.00 34.88 3.49
44 45 5.708948 TGGCAAATTTATGTTGACTAGCAC 58.291 37.500 0.00 0.00 34.88 4.40
45 46 5.242615 TGGCAAATTTATGTTGACTAGCACA 59.757 36.000 0.00 0.00 34.88 4.57
46 47 6.071447 TGGCAAATTTATGTTGACTAGCACAT 60.071 34.615 7.68 7.68 34.88 3.21
47 48 6.813152 GGCAAATTTATGTTGACTAGCACATT 59.187 34.615 7.82 0.00 30.83 2.71
48 49 7.009540 GGCAAATTTATGTTGACTAGCACATTC 59.990 37.037 7.82 0.00 30.83 2.67
49 50 7.756722 GCAAATTTATGTTGACTAGCACATTCT 59.243 33.333 7.82 0.00 0.00 2.40
50 51 9.630098 CAAATTTATGTTGACTAGCACATTCTT 57.370 29.630 7.82 0.00 0.00 2.52
53 54 9.630098 ATTTATGTTGACTAGCACATTCTTTTG 57.370 29.630 7.82 0.00 0.00 2.44
56 57 3.485394 TGACTAGCACATTCTTTTGGCA 58.515 40.909 0.00 0.00 0.00 4.92
57 58 3.888323 TGACTAGCACATTCTTTTGGCAA 59.112 39.130 0.00 0.00 0.00 4.52
58 59 4.340666 TGACTAGCACATTCTTTTGGCAAA 59.659 37.500 8.93 8.93 0.00 3.68
59 60 4.874970 ACTAGCACATTCTTTTGGCAAAG 58.125 39.130 13.04 7.78 40.91 2.77
60 61 4.584325 ACTAGCACATTCTTTTGGCAAAGA 59.416 37.500 13.04 9.92 45.63 2.52
104 105 7.351414 TCATCAATTAAACTTGTCACTCTCG 57.649 36.000 0.00 0.00 0.00 4.04
105 106 7.151976 TCATCAATTAAACTTGTCACTCTCGA 58.848 34.615 0.00 0.00 0.00 4.04
107 108 6.277605 TCAATTAAACTTGTCACTCTCGACA 58.722 36.000 0.00 0.00 44.05 4.35
118 119 6.887368 TGTCACTCTCGACAAACATAATTTG 58.113 36.000 0.00 0.00 42.82 2.32
119 120 5.790495 GTCACTCTCGACAAACATAATTTGC 59.210 40.000 0.00 0.00 35.88 3.68
120 121 5.088739 CACTCTCGACAAACATAATTTGCC 58.911 41.667 0.00 0.00 32.93 4.52
121 122 5.003804 ACTCTCGACAAACATAATTTGCCT 58.996 37.500 0.00 0.00 32.93 4.75
123 124 5.000591 TCTCGACAAACATAATTTGCCTGA 58.999 37.500 0.00 0.00 32.93 3.86
124 125 5.647658 TCTCGACAAACATAATTTGCCTGAT 59.352 36.000 0.00 0.00 32.93 2.90
125 126 6.150976 TCTCGACAAACATAATTTGCCTGATT 59.849 34.615 0.00 0.00 32.93 2.57
127 128 7.471721 TCGACAAACATAATTTGCCTGATTAG 58.528 34.615 0.00 0.00 32.93 1.73
141 142 4.154195 GCCTGATTAGAAACATGTTCGTGT 59.846 41.667 12.39 0.00 0.00 4.49
147 148 6.674005 TTAGAAACATGTTCGTGTACGTAC 57.326 37.500 18.90 18.90 39.56 3.67
161 162 2.851104 GTACACGTTCCGCACTGC 59.149 61.111 0.00 0.00 0.00 4.40
169 173 1.068417 TTCCGCACTGCACGTAGTT 59.932 52.632 1.11 0.00 41.61 2.24
178 182 1.390123 CTGCACGTAGTTCCGATTGTG 59.610 52.381 0.00 0.00 41.61 3.33
185 189 3.059044 CGTAGTTCCGATTGTGTTCGAAG 59.941 47.826 0.00 0.00 41.62 3.79
238 242 9.762381 AGAAAATAATAAATACCCAGGACACAA 57.238 29.630 0.00 0.00 0.00 3.33
244 248 1.348064 TACCCAGGACACAAGGACAG 58.652 55.000 0.00 0.00 0.00 3.51
258 268 6.057533 CACAAGGACAGCATATTCCTCATAA 58.942 40.000 0.00 0.00 41.72 1.90
260 270 6.543831 ACAAGGACAGCATATTCCTCATAAAC 59.456 38.462 0.00 0.00 41.72 2.01
280 290 3.775202 ACAGAGAGGAAACAATCGATCG 58.225 45.455 9.36 9.36 0.00 3.69
406 4190 0.927767 AGGTACTCATCCGTCTCCCT 59.072 55.000 0.00 0.00 0.00 4.20
606 4391 4.845580 ATCCTGCCCGAGCGCTTG 62.846 66.667 18.28 18.28 44.31 4.01
864 4655 2.652530 GGCGACAAGGACCACGTA 59.347 61.111 0.00 0.00 0.00 3.57
894 4685 1.604378 CCACTCGAGCCCCTTCAAT 59.396 57.895 13.61 0.00 0.00 2.57
921 4712 4.374702 GTGTGCGCCGACAAGCTG 62.375 66.667 4.18 0.00 0.00 4.24
1138 4932 4.059304 TGCCACCGGATGCCCATT 62.059 61.111 9.46 0.00 0.00 3.16
1344 5138 1.065109 GCAAACGGTGTTGGGTGTC 59.935 57.895 0.00 0.00 0.00 3.67
1379 5179 8.291740 TGAGAATGTGATATTTGTGTCAACAAG 58.708 33.333 0.00 0.00 46.66 3.16
1464 5264 0.452585 TCGCCGAATGTACGACATCA 59.547 50.000 0.00 0.00 37.97 3.07
1528 5331 5.133221 ACATGAATGTACAAGGATAAGGCC 58.867 41.667 0.00 0.00 39.68 5.19
1556 5359 7.554959 AGTCTTTTCCAATACTTCTGGAGTA 57.445 36.000 0.00 0.00 43.79 2.59
1561 5364 5.934402 TCCAATACTTCTGGAGTACCTTC 57.066 43.478 0.00 0.00 43.38 3.46
1566 5369 0.606604 TTCTGGAGTACCTTCCGTGC 59.393 55.000 0.00 0.00 40.27 5.34
1567 5370 0.251653 TCTGGAGTACCTTCCGTGCT 60.252 55.000 0.00 0.00 40.56 4.40
1571 5374 1.347320 GAGTACCTTCCGTGCTTTCG 58.653 55.000 0.00 0.00 37.57 3.46
1632 5435 0.389817 TTCGGCTGGTGATGAACTCG 60.390 55.000 0.00 0.00 0.00 4.18
1996 5832 3.733443 ACCATTGCCACTTCTGTTTTC 57.267 42.857 0.00 0.00 0.00 2.29
2015 5851 3.454371 TCCAGAGTTTATTAGCTCGGC 57.546 47.619 0.00 0.00 36.88 5.54
2133 5970 2.813754 TGTCAGATTTGTGTTAGCAGGC 59.186 45.455 0.00 0.00 0.00 4.85
2214 6051 6.932400 AGTATCGTGGTTGTTTGATGTTTCTA 59.068 34.615 0.00 0.00 0.00 2.10
2216 6053 5.996219 TCGTGGTTGTTTGATGTTTCTATG 58.004 37.500 0.00 0.00 0.00 2.23
2226 6166 8.865090 TGTTTGATGTTTCTATGTAAATTGGGT 58.135 29.630 0.00 0.00 0.00 4.51
2245 6185 3.994000 GGGGGAGGATGAAGAGGG 58.006 66.667 0.00 0.00 0.00 4.30
2246 6186 1.318380 GGGGGAGGATGAAGAGGGA 59.682 63.158 0.00 0.00 0.00 4.20
2247 6187 0.327576 GGGGGAGGATGAAGAGGGAA 60.328 60.000 0.00 0.00 0.00 3.97
2248 6188 1.596496 GGGGAGGATGAAGAGGGAAA 58.404 55.000 0.00 0.00 0.00 3.13
2249 6189 1.213182 GGGGAGGATGAAGAGGGAAAC 59.787 57.143 0.00 0.00 0.00 2.78
2250 6190 2.200955 GGGAGGATGAAGAGGGAAACT 58.799 52.381 0.00 0.00 0.00 2.66
2251 6191 2.092699 GGGAGGATGAAGAGGGAAACTG 60.093 54.545 0.00 0.00 0.00 3.16
2252 6192 2.092699 GGAGGATGAAGAGGGAAACTGG 60.093 54.545 0.00 0.00 0.00 4.00
2253 6193 1.918957 AGGATGAAGAGGGAAACTGGG 59.081 52.381 0.00 0.00 0.00 4.45
2254 6194 1.916181 GGATGAAGAGGGAAACTGGGA 59.084 52.381 0.00 0.00 0.00 4.37
2255 6195 2.511637 GGATGAAGAGGGAAACTGGGAT 59.488 50.000 0.00 0.00 0.00 3.85
2256 6196 3.716872 GGATGAAGAGGGAAACTGGGATA 59.283 47.826 0.00 0.00 0.00 2.59
2257 6197 4.166144 GGATGAAGAGGGAAACTGGGATAA 59.834 45.833 0.00 0.00 0.00 1.75
2258 6198 5.340027 GGATGAAGAGGGAAACTGGGATAAA 60.340 44.000 0.00 0.00 0.00 1.40
2259 6199 5.592587 TGAAGAGGGAAACTGGGATAAAA 57.407 39.130 0.00 0.00 0.00 1.52
2260 6200 5.570320 TGAAGAGGGAAACTGGGATAAAAG 58.430 41.667 0.00 0.00 0.00 2.27
2261 6201 5.312178 TGAAGAGGGAAACTGGGATAAAAGA 59.688 40.000 0.00 0.00 0.00 2.52
2262 6202 5.443230 AGAGGGAAACTGGGATAAAAGAG 57.557 43.478 0.00 0.00 0.00 2.85
2263 6203 4.228438 AGAGGGAAACTGGGATAAAAGAGG 59.772 45.833 0.00 0.00 0.00 3.69
2264 6204 4.183916 AGGGAAACTGGGATAAAAGAGGA 58.816 43.478 0.00 0.00 0.00 3.71
2265 6205 4.606255 AGGGAAACTGGGATAAAAGAGGAA 59.394 41.667 0.00 0.00 0.00 3.36
2266 6206 5.075900 AGGGAAACTGGGATAAAAGAGGAAA 59.924 40.000 0.00 0.00 0.00 3.13
2267 6207 5.185249 GGGAAACTGGGATAAAAGAGGAAAC 59.815 44.000 0.00 0.00 0.00 2.78
2269 6209 6.493802 GGAAACTGGGATAAAAGAGGAAACTT 59.506 38.462 0.00 0.00 44.43 2.66
2270 6210 7.668469 GGAAACTGGGATAAAAGAGGAAACTTA 59.332 37.037 0.00 0.00 44.43 2.24
2271 6211 9.074576 GAAACTGGGATAAAAGAGGAAACTTAA 57.925 33.333 0.00 0.00 44.43 1.85
2272 6212 9.429109 AAACTGGGATAAAAGAGGAAACTTAAA 57.571 29.630 0.00 0.00 44.43 1.52
2273 6213 8.405418 ACTGGGATAAAAGAGGAAACTTAAAC 57.595 34.615 0.00 0.00 44.43 2.01
2274 6214 8.225416 ACTGGGATAAAAGAGGAAACTTAAACT 58.775 33.333 0.00 0.00 44.43 2.66
2275 6215 8.404107 TGGGATAAAAGAGGAAACTTAAACTG 57.596 34.615 0.00 0.00 44.43 3.16
2276 6216 7.450323 TGGGATAAAAGAGGAAACTTAAACTGG 59.550 37.037 0.00 0.00 44.43 4.00
2277 6217 7.093902 GGGATAAAAGAGGAAACTTAAACTGGG 60.094 40.741 0.00 0.00 44.43 4.45
2278 6218 7.093902 GGATAAAAGAGGAAACTTAAACTGGGG 60.094 40.741 0.00 0.00 44.43 4.96
2279 6219 4.808767 AAGAGGAAACTTAAACTGGGGT 57.191 40.909 0.00 0.00 44.43 4.95
2280 6220 4.100279 AGAGGAAACTTAAACTGGGGTG 57.900 45.455 0.00 0.00 44.43 4.61
2281 6221 3.154710 GAGGAAACTTAAACTGGGGTGG 58.845 50.000 0.00 0.00 44.43 4.61
2282 6222 2.158370 AGGAAACTTAAACTGGGGTGGG 60.158 50.000 0.00 0.00 37.44 4.61
2296 6236 0.621862 GGTGGGGAGGATGAAGAGGT 60.622 60.000 0.00 0.00 0.00 3.85
2334 6274 8.129840 TGCAGTTCAAGTAAGCGTTAATTTTAA 58.870 29.630 0.00 0.00 0.00 1.52
2431 6512 7.752239 CAGGTTGCATTTTATCAGTTCTGTTAG 59.248 37.037 0.00 0.00 0.00 2.34
2432 6513 6.528072 GGTTGCATTTTATCAGTTCTGTTAGC 59.472 38.462 0.00 0.00 0.00 3.09
2433 6514 5.868257 TGCATTTTATCAGTTCTGTTAGCG 58.132 37.500 0.00 0.00 0.00 4.26
2434 6515 4.730521 GCATTTTATCAGTTCTGTTAGCGC 59.269 41.667 0.00 0.00 0.00 5.92
2435 6516 4.577687 TTTTATCAGTTCTGTTAGCGCG 57.422 40.909 0.00 0.00 0.00 6.86
2436 6517 1.556564 TATCAGTTCTGTTAGCGCGC 58.443 50.000 26.66 26.66 0.00 6.86
2437 6518 1.413767 ATCAGTTCTGTTAGCGCGCG 61.414 55.000 28.44 28.44 0.00 6.86
2438 6519 2.086426 CAGTTCTGTTAGCGCGCGA 61.086 57.895 37.18 19.65 0.00 5.87
2439 6520 1.801913 AGTTCTGTTAGCGCGCGAG 60.802 57.895 37.18 21.91 0.00 5.03
2451 6532 2.099062 CGCGAGCTGCATTGGTTC 59.901 61.111 0.00 0.00 46.97 3.62
2452 6533 2.393768 CGCGAGCTGCATTGGTTCT 61.394 57.895 0.00 0.00 46.97 3.01
2453 6534 1.083806 CGCGAGCTGCATTGGTTCTA 61.084 55.000 0.00 0.00 46.97 2.10
2454 6535 1.303309 GCGAGCTGCATTGGTTCTAT 58.697 50.000 1.02 0.00 45.45 1.98
2455 6536 1.003116 GCGAGCTGCATTGGTTCTATG 60.003 52.381 1.02 0.00 45.45 2.23
2456 6537 1.600957 CGAGCTGCATTGGTTCTATGG 59.399 52.381 1.02 0.00 0.00 2.74
2457 6538 1.336125 GAGCTGCATTGGTTCTATGGC 59.664 52.381 1.02 0.00 0.00 4.40
2458 6539 0.029834 GCTGCATTGGTTCTATGGCG 59.970 55.000 0.00 0.00 0.00 5.69
2459 6540 1.667236 CTGCATTGGTTCTATGGCGA 58.333 50.000 0.00 0.00 0.00 5.54
2460 6541 1.600957 CTGCATTGGTTCTATGGCGAG 59.399 52.381 0.00 0.00 0.00 5.03
2461 6542 1.209261 TGCATTGGTTCTATGGCGAGA 59.791 47.619 0.00 0.00 0.00 4.04
2462 6543 1.599542 GCATTGGTTCTATGGCGAGAC 59.400 52.381 0.00 0.00 0.00 3.36
2463 6544 1.860950 CATTGGTTCTATGGCGAGACG 59.139 52.381 0.00 0.00 0.00 4.18
2464 6545 0.892755 TTGGTTCTATGGCGAGACGT 59.107 50.000 0.00 0.00 0.00 4.34
2465 6546 0.172578 TGGTTCTATGGCGAGACGTG 59.827 55.000 0.00 0.00 0.00 4.49
2466 6547 0.172803 GGTTCTATGGCGAGACGTGT 59.827 55.000 0.00 0.00 0.00 4.49
2467 6548 1.403780 GGTTCTATGGCGAGACGTGTT 60.404 52.381 0.00 0.00 0.00 3.32
2468 6549 2.334838 GTTCTATGGCGAGACGTGTTT 58.665 47.619 0.00 0.00 0.00 2.83
2469 6550 1.990799 TCTATGGCGAGACGTGTTTG 58.009 50.000 0.00 0.00 0.00 2.93
2470 6551 1.271379 TCTATGGCGAGACGTGTTTGT 59.729 47.619 0.00 0.00 0.00 2.83
2471 6552 1.390123 CTATGGCGAGACGTGTTTGTG 59.610 52.381 0.00 0.00 0.00 3.33
2472 6553 0.531974 ATGGCGAGACGTGTTTGTGT 60.532 50.000 0.00 0.00 0.00 3.72
2473 6554 0.741574 TGGCGAGACGTGTTTGTGTT 60.742 50.000 0.00 0.00 0.00 3.32
2474 6555 0.315869 GGCGAGACGTGTTTGTGTTG 60.316 55.000 0.00 0.00 0.00 3.33
2475 6556 0.923911 GCGAGACGTGTTTGTGTTGC 60.924 55.000 0.00 0.00 35.65 4.17
2476 6557 0.371989 CGAGACGTGTTTGTGTTGCA 59.628 50.000 0.00 0.00 0.00 4.08
2477 6558 1.003972 CGAGACGTGTTTGTGTTGCAT 60.004 47.619 0.00 0.00 0.00 3.96
2478 6559 2.538737 CGAGACGTGTTTGTGTTGCATT 60.539 45.455 0.00 0.00 0.00 3.56
2479 6560 3.434637 GAGACGTGTTTGTGTTGCATTT 58.565 40.909 0.00 0.00 0.00 2.32
2480 6561 3.178267 AGACGTGTTTGTGTTGCATTTG 58.822 40.909 0.00 0.00 0.00 2.32
2481 6562 2.920490 GACGTGTTTGTGTTGCATTTGT 59.080 40.909 0.00 0.00 0.00 2.83
2482 6563 2.920490 ACGTGTTTGTGTTGCATTTGTC 59.080 40.909 0.00 0.00 0.00 3.18
2483 6564 2.035839 CGTGTTTGTGTTGCATTTGTCG 60.036 45.455 0.00 0.00 0.00 4.35
2484 6565 2.920490 GTGTTTGTGTTGCATTTGTCGT 59.080 40.909 0.00 0.00 0.00 4.34
2485 6566 4.099120 GTGTTTGTGTTGCATTTGTCGTA 58.901 39.130 0.00 0.00 0.00 3.43
2486 6567 4.559251 GTGTTTGTGTTGCATTTGTCGTAA 59.441 37.500 0.00 0.00 0.00 3.18
2487 6568 5.061064 GTGTTTGTGTTGCATTTGTCGTAAA 59.939 36.000 0.00 0.00 0.00 2.01
2488 6569 5.807520 TGTTTGTGTTGCATTTGTCGTAAAT 59.192 32.000 0.00 0.00 0.00 1.40
2489 6570 5.879948 TTGTGTTGCATTTGTCGTAAATG 57.120 34.783 17.54 17.54 39.84 2.32
2490 6571 4.926244 TGTGTTGCATTTGTCGTAAATGT 58.074 34.783 20.56 0.00 39.25 2.71
2491 6572 5.344066 TGTGTTGCATTTGTCGTAAATGTT 58.656 33.333 20.56 0.00 39.25 2.71
2492 6573 5.807520 TGTGTTGCATTTGTCGTAAATGTTT 59.192 32.000 20.56 0.00 39.25 2.83
2493 6574 6.119502 GTGTTGCATTTGTCGTAAATGTTTG 58.880 36.000 20.56 6.08 39.25 2.93
2494 6575 4.963237 TGCATTTGTCGTAAATGTTTGC 57.037 36.364 20.56 13.08 39.25 3.68
2495 6576 4.615949 TGCATTTGTCGTAAATGTTTGCT 58.384 34.783 20.56 0.00 39.25 3.91
2496 6577 5.763088 TGCATTTGTCGTAAATGTTTGCTA 58.237 33.333 20.56 5.35 39.25 3.49
2497 6578 5.627367 TGCATTTGTCGTAAATGTTTGCTAC 59.373 36.000 20.56 9.33 39.25 3.58
2498 6579 5.856455 GCATTTGTCGTAAATGTTTGCTACT 59.144 36.000 20.56 0.00 39.25 2.57
2499 6580 7.018826 GCATTTGTCGTAAATGTTTGCTACTA 58.981 34.615 20.56 0.00 39.25 1.82
2500 6581 7.007099 GCATTTGTCGTAAATGTTTGCTACTAC 59.993 37.037 20.56 5.24 39.25 2.73
2501 6582 6.470557 TTGTCGTAAATGTTTGCTACTACC 57.529 37.500 0.00 0.00 0.00 3.18
2502 6583 5.539979 TGTCGTAAATGTTTGCTACTACCA 58.460 37.500 0.00 0.00 0.00 3.25
2503 6584 6.167685 TGTCGTAAATGTTTGCTACTACCAT 58.832 36.000 0.00 0.00 0.00 3.55
2504 6585 6.311935 TGTCGTAAATGTTTGCTACTACCATC 59.688 38.462 0.00 0.00 0.00 3.51
2505 6586 5.517411 TCGTAAATGTTTGCTACTACCATCG 59.483 40.000 0.00 0.00 0.00 3.84
2506 6587 5.290158 CGTAAATGTTTGCTACTACCATCGT 59.710 40.000 0.00 0.00 0.00 3.73
2507 6588 5.796350 AAATGTTTGCTACTACCATCGTC 57.204 39.130 0.00 0.00 0.00 4.20
2508 6589 2.871133 TGTTTGCTACTACCATCGTCG 58.129 47.619 0.00 0.00 0.00 5.12
2509 6590 2.488937 TGTTTGCTACTACCATCGTCGA 59.511 45.455 0.00 0.00 0.00 4.20
2510 6591 3.106672 GTTTGCTACTACCATCGTCGAG 58.893 50.000 0.00 0.00 0.00 4.04
2511 6592 2.320745 TGCTACTACCATCGTCGAGA 57.679 50.000 0.00 0.00 0.00 4.04
2512 6593 2.847441 TGCTACTACCATCGTCGAGAT 58.153 47.619 0.00 0.00 41.01 2.75
2513 6594 3.211865 TGCTACTACCATCGTCGAGATT 58.788 45.455 0.00 0.00 37.52 2.40
2514 6595 3.630769 TGCTACTACCATCGTCGAGATTT 59.369 43.478 0.00 0.00 37.52 2.17
2515 6596 3.975670 GCTACTACCATCGTCGAGATTTG 59.024 47.826 0.00 0.00 37.52 2.32
2516 6597 2.810650 ACTACCATCGTCGAGATTTGC 58.189 47.619 0.00 0.00 37.52 3.68
2517 6598 2.427453 ACTACCATCGTCGAGATTTGCT 59.573 45.455 0.00 0.00 37.52 3.91
2518 6599 3.630769 ACTACCATCGTCGAGATTTGCTA 59.369 43.478 0.00 0.00 37.52 3.49
2519 6600 2.810650 ACCATCGTCGAGATTTGCTAC 58.189 47.619 0.00 0.00 37.52 3.58
2520 6601 2.165641 ACCATCGTCGAGATTTGCTACA 59.834 45.455 0.00 0.00 37.52 2.74
2521 6602 3.181475 ACCATCGTCGAGATTTGCTACAT 60.181 43.478 0.00 0.00 37.52 2.29
2522 6603 3.804325 CCATCGTCGAGATTTGCTACATT 59.196 43.478 0.00 0.00 37.52 2.71
2523 6604 4.982295 CCATCGTCGAGATTTGCTACATTA 59.018 41.667 0.00 0.00 37.52 1.90
2524 6605 5.635280 CCATCGTCGAGATTTGCTACATTAT 59.365 40.000 0.00 0.00 37.52 1.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 4.730613 GCCATCTTCGCGTCAACATAAAAT 60.731 41.667 5.77 0.00 0.00 1.82
2 3 3.425625 GCCATCTTCGCGTCAACATAAAA 60.426 43.478 5.77 0.00 0.00 1.52
5 6 1.286501 GCCATCTTCGCGTCAACATA 58.713 50.000 5.77 0.00 0.00 2.29
6 7 0.673333 TGCCATCTTCGCGTCAACAT 60.673 50.000 5.77 0.00 0.00 2.71
7 8 0.882484 TTGCCATCTTCGCGTCAACA 60.882 50.000 5.77 0.00 0.00 3.33
10 11 1.164411 AATTTGCCATCTTCGCGTCA 58.836 45.000 5.77 0.00 0.00 4.35
13 14 3.694734 ACATAAATTTGCCATCTTCGCG 58.305 40.909 0.00 0.00 0.00 5.87
14 15 5.004726 GTCAACATAAATTTGCCATCTTCGC 59.995 40.000 0.00 0.00 0.00 4.70
15 16 6.324819 AGTCAACATAAATTTGCCATCTTCG 58.675 36.000 0.00 0.00 0.00 3.79
16 17 7.433425 GCTAGTCAACATAAATTTGCCATCTTC 59.567 37.037 0.00 0.00 0.00 2.87
17 18 7.093814 TGCTAGTCAACATAAATTTGCCATCTT 60.094 33.333 0.00 0.00 0.00 2.40
18 19 6.377996 TGCTAGTCAACATAAATTTGCCATCT 59.622 34.615 0.00 0.00 0.00 2.90
19 20 6.473455 GTGCTAGTCAACATAAATTTGCCATC 59.527 38.462 0.00 0.00 0.00 3.51
20 21 6.071447 TGTGCTAGTCAACATAAATTTGCCAT 60.071 34.615 0.00 0.00 0.00 4.40
23 24 7.756722 AGAATGTGCTAGTCAACATAAATTTGC 59.243 33.333 0.00 0.00 0.00 3.68
24 25 9.630098 AAGAATGTGCTAGTCAACATAAATTTG 57.370 29.630 0.00 0.00 0.00 2.32
27 28 9.630098 CAAAAGAATGTGCTAGTCAACATAAAT 57.370 29.630 7.86 0.00 0.00 1.40
28 29 8.081633 CCAAAAGAATGTGCTAGTCAACATAAA 58.918 33.333 7.86 0.00 0.00 1.40
29 30 7.592938 CCAAAAGAATGTGCTAGTCAACATAA 58.407 34.615 7.86 0.00 0.00 1.90
30 31 6.349280 GCCAAAAGAATGTGCTAGTCAACATA 60.349 38.462 7.86 0.00 0.00 2.29
31 32 5.565439 GCCAAAAGAATGTGCTAGTCAACAT 60.565 40.000 0.00 0.00 0.00 2.71
32 33 4.261572 GCCAAAAGAATGTGCTAGTCAACA 60.262 41.667 0.00 0.00 0.00 3.33
33 34 4.229876 GCCAAAAGAATGTGCTAGTCAAC 58.770 43.478 0.00 0.00 0.00 3.18
34 35 3.888323 TGCCAAAAGAATGTGCTAGTCAA 59.112 39.130 0.00 0.00 0.00 3.18
35 36 3.485394 TGCCAAAAGAATGTGCTAGTCA 58.515 40.909 0.00 0.00 0.00 3.41
78 79 8.446273 CGAGAGTGACAAGTTTAATTGATGAAT 58.554 33.333 0.00 0.00 34.20 2.57
79 80 7.655732 TCGAGAGTGACAAGTTTAATTGATGAA 59.344 33.333 0.00 0.00 34.20 2.57
80 81 7.116376 GTCGAGAGTGACAAGTTTAATTGATGA 59.884 37.037 0.00 0.00 38.75 2.92
81 82 7.095649 TGTCGAGAGTGACAAGTTTAATTGATG 60.096 37.037 0.00 0.00 45.40 3.07
83 84 6.277605 TGTCGAGAGTGACAAGTTTAATTGA 58.722 36.000 0.00 0.00 45.40 2.57
84 85 6.525121 TGTCGAGAGTGACAAGTTTAATTG 57.475 37.500 0.00 0.00 45.40 2.32
94 95 6.565811 GCAAATTATGTTTGTCGAGAGTGACA 60.566 38.462 0.00 0.00 46.63 3.58
96 97 5.106712 GGCAAATTATGTTTGTCGAGAGTGA 60.107 40.000 0.00 0.00 0.00 3.41
97 98 5.088739 GGCAAATTATGTTTGTCGAGAGTG 58.911 41.667 0.00 0.00 0.00 3.51
98 99 5.003804 AGGCAAATTATGTTTGTCGAGAGT 58.996 37.500 0.00 0.00 38.88 3.24
100 101 5.000591 TCAGGCAAATTATGTTTGTCGAGA 58.999 37.500 0.00 5.98 38.88 4.04
102 103 5.895636 ATCAGGCAAATTATGTTTGTCGA 57.104 34.783 7.09 6.95 38.88 4.20
103 104 7.471721 TCTAATCAGGCAAATTATGTTTGTCG 58.528 34.615 7.09 3.05 38.88 4.35
104 105 9.638239 TTTCTAATCAGGCAAATTATGTTTGTC 57.362 29.630 2.77 2.77 34.47 3.18
105 106 9.423061 GTTTCTAATCAGGCAAATTATGTTTGT 57.577 29.630 7.09 0.00 0.00 2.83
108 109 9.590451 CATGTTTCTAATCAGGCAAATTATGTT 57.410 29.630 0.00 0.00 0.00 2.71
109 110 8.752187 ACATGTTTCTAATCAGGCAAATTATGT 58.248 29.630 0.00 0.00 0.00 2.29
111 112 9.807649 GAACATGTTTCTAATCAGGCAAATTAT 57.192 29.630 13.36 0.00 0.00 1.28
112 113 7.967854 CGAACATGTTTCTAATCAGGCAAATTA 59.032 33.333 13.36 0.00 0.00 1.40
113 114 6.808212 CGAACATGTTTCTAATCAGGCAAATT 59.192 34.615 13.36 0.00 0.00 1.82
114 115 6.071952 ACGAACATGTTTCTAATCAGGCAAAT 60.072 34.615 13.36 0.00 0.00 2.32
115 116 5.240623 ACGAACATGTTTCTAATCAGGCAAA 59.759 36.000 13.36 0.00 0.00 3.68
118 119 4.154195 ACACGAACATGTTTCTAATCAGGC 59.846 41.667 13.36 0.00 0.00 4.85
119 120 5.862924 ACACGAACATGTTTCTAATCAGG 57.137 39.130 13.36 0.00 0.00 3.86
120 121 6.089016 ACGTACACGAACATGTTTCTAATCAG 59.911 38.462 13.36 4.47 43.02 2.90
121 122 5.921976 ACGTACACGAACATGTTTCTAATCA 59.078 36.000 13.36 0.00 43.02 2.57
123 124 6.862608 TGTACGTACACGAACATGTTTCTAAT 59.137 34.615 24.10 0.84 43.02 1.73
124 125 6.142161 GTGTACGTACACGAACATGTTTCTAA 59.858 38.462 35.43 4.86 45.87 2.10
125 126 5.624900 GTGTACGTACACGAACATGTTTCTA 59.375 40.000 35.43 5.23 45.87 2.10
127 128 4.680979 GTGTACGTACACGAACATGTTTC 58.319 43.478 35.43 14.37 45.87 2.78
158 159 1.390123 CACAATCGGAACTACGTGCAG 59.610 52.381 0.00 0.00 34.94 4.41
161 162 2.090041 CGAACACAATCGGAACTACGTG 59.910 50.000 0.00 0.00 39.12 4.49
169 173 1.693467 CGACTTCGAACACAATCGGA 58.307 50.000 0.00 0.00 42.92 4.55
178 182 0.108804 TGAGCCATCCGACTTCGAAC 60.109 55.000 0.00 0.00 43.02 3.95
228 232 0.037303 ATGCTGTCCTTGTGTCCTGG 59.963 55.000 0.00 0.00 0.00 4.45
239 243 6.291377 TCTGTTTATGAGGAATATGCTGTCC 58.709 40.000 0.00 0.00 0.00 4.02
258 268 4.177026 CGATCGATTGTTTCCTCTCTGTT 58.823 43.478 10.26 0.00 0.00 3.16
260 270 2.537625 GCGATCGATTGTTTCCTCTCTG 59.462 50.000 21.57 0.00 0.00 3.35
269 279 3.925238 GCGGCGCGATCGATTGTT 61.925 61.111 21.57 0.00 38.10 2.83
400 4184 3.157252 GATGGCTGCGGAGGGAGA 61.157 66.667 5.93 0.00 32.53 3.71
406 4190 2.042537 AGAGAGGATGGCTGCGGA 60.043 61.111 0.00 0.00 0.00 5.54
894 4685 2.964925 GCGCACACCAAGACGACA 60.965 61.111 0.30 0.00 0.00 4.35
1138 4932 5.015515 CAGATAGAGGCCATGATGACTAGA 58.984 45.833 5.01 0.00 0.00 2.43
1344 5138 2.591571 TCACATTCTCATCTCCAGCG 57.408 50.000 0.00 0.00 0.00 5.18
1379 5179 0.741221 GACCATGAAGACGCCTCCAC 60.741 60.000 0.00 0.00 0.00 4.02
1464 5264 2.158325 ACTTGTGAATGGGTGGATGGTT 60.158 45.455 0.00 0.00 0.00 3.67
1528 5331 9.757227 CTCCAGAAGTATTGGAAAAGACTATAG 57.243 37.037 0.00 0.00 43.79 1.31
1566 5369 6.664515 TCAAAATTGCTACAGTAACCGAAAG 58.335 36.000 0.00 0.00 0.00 2.62
1567 5370 6.621316 TCAAAATTGCTACAGTAACCGAAA 57.379 33.333 0.00 0.00 0.00 3.46
1571 5374 7.335924 TGGAGTATCAAAATTGCTACAGTAACC 59.664 37.037 9.15 5.68 36.25 2.85
1655 5458 7.866393 GTCTAGTACTGCTCACTAAACAAAAGA 59.134 37.037 5.39 0.00 0.00 2.52
1871 5707 2.069273 AGAACAAGAGCCGTCATTTCG 58.931 47.619 0.00 0.00 0.00 3.46
1996 5832 3.460857 AGCCGAGCTAATAAACTCTGG 57.539 47.619 0.00 0.00 36.99 3.86
2133 5970 6.088749 GTGTAGCAGCATATAATCTGAAGTCG 59.911 42.308 8.32 0.00 32.26 4.18
2233 6173 1.918957 CCCAGTTTCCCTCTTCATCCT 59.081 52.381 0.00 0.00 0.00 3.24
2234 6174 1.916181 TCCCAGTTTCCCTCTTCATCC 59.084 52.381 0.00 0.00 0.00 3.51
2235 6175 3.941704 ATCCCAGTTTCCCTCTTCATC 57.058 47.619 0.00 0.00 0.00 2.92
2236 6176 5.796502 TTTATCCCAGTTTCCCTCTTCAT 57.203 39.130 0.00 0.00 0.00 2.57
2237 6177 5.312178 TCTTTTATCCCAGTTTCCCTCTTCA 59.688 40.000 0.00 0.00 0.00 3.02
2238 6178 5.816682 TCTTTTATCCCAGTTTCCCTCTTC 58.183 41.667 0.00 0.00 0.00 2.87
2239 6179 5.281245 CCTCTTTTATCCCAGTTTCCCTCTT 60.281 44.000 0.00 0.00 0.00 2.85
2240 6180 4.228438 CCTCTTTTATCCCAGTTTCCCTCT 59.772 45.833 0.00 0.00 0.00 3.69
2241 6181 4.227527 TCCTCTTTTATCCCAGTTTCCCTC 59.772 45.833 0.00 0.00 0.00 4.30
2242 6182 4.183916 TCCTCTTTTATCCCAGTTTCCCT 58.816 43.478 0.00 0.00 0.00 4.20
2243 6183 4.586306 TCCTCTTTTATCCCAGTTTCCC 57.414 45.455 0.00 0.00 0.00 3.97
2244 6184 6.010850 AGTTTCCTCTTTTATCCCAGTTTCC 58.989 40.000 0.00 0.00 0.00 3.13
2245 6185 7.526142 AAGTTTCCTCTTTTATCCCAGTTTC 57.474 36.000 0.00 0.00 0.00 2.78
2246 6186 9.429109 TTTAAGTTTCCTCTTTTATCCCAGTTT 57.571 29.630 0.00 0.00 0.00 2.66
2247 6187 8.857098 GTTTAAGTTTCCTCTTTTATCCCAGTT 58.143 33.333 0.00 0.00 0.00 3.16
2248 6188 8.225416 AGTTTAAGTTTCCTCTTTTATCCCAGT 58.775 33.333 0.00 0.00 0.00 4.00
2249 6189 8.515414 CAGTTTAAGTTTCCTCTTTTATCCCAG 58.485 37.037 0.00 0.00 0.00 4.45
2250 6190 7.450323 CCAGTTTAAGTTTCCTCTTTTATCCCA 59.550 37.037 0.00 0.00 0.00 4.37
2251 6191 7.093902 CCCAGTTTAAGTTTCCTCTTTTATCCC 60.094 40.741 0.00 0.00 0.00 3.85
2252 6192 7.093902 CCCCAGTTTAAGTTTCCTCTTTTATCC 60.094 40.741 0.00 0.00 0.00 2.59
2253 6193 7.450634 ACCCCAGTTTAAGTTTCCTCTTTTATC 59.549 37.037 0.00 0.00 0.00 1.75
2254 6194 7.232737 CACCCCAGTTTAAGTTTCCTCTTTTAT 59.767 37.037 0.00 0.00 0.00 1.40
2255 6195 6.548251 CACCCCAGTTTAAGTTTCCTCTTTTA 59.452 38.462 0.00 0.00 0.00 1.52
2256 6196 5.362717 CACCCCAGTTTAAGTTTCCTCTTTT 59.637 40.000 0.00 0.00 0.00 2.27
2257 6197 4.893524 CACCCCAGTTTAAGTTTCCTCTTT 59.106 41.667 0.00 0.00 0.00 2.52
2258 6198 4.470602 CACCCCAGTTTAAGTTTCCTCTT 58.529 43.478 0.00 0.00 0.00 2.85
2259 6199 3.181433 CCACCCCAGTTTAAGTTTCCTCT 60.181 47.826 0.00 0.00 0.00 3.69
2260 6200 3.154710 CCACCCCAGTTTAAGTTTCCTC 58.845 50.000 0.00 0.00 0.00 3.71
2261 6201 2.158370 CCCACCCCAGTTTAAGTTTCCT 60.158 50.000 0.00 0.00 0.00 3.36
2262 6202 2.244695 CCCACCCCAGTTTAAGTTTCC 58.755 52.381 0.00 0.00 0.00 3.13
2263 6203 2.158430 TCCCCACCCCAGTTTAAGTTTC 60.158 50.000 0.00 0.00 0.00 2.78
2264 6204 1.860906 TCCCCACCCCAGTTTAAGTTT 59.139 47.619 0.00 0.00 0.00 2.66
2265 6205 1.427753 CTCCCCACCCCAGTTTAAGTT 59.572 52.381 0.00 0.00 0.00 2.66
2266 6206 1.073098 CTCCCCACCCCAGTTTAAGT 58.927 55.000 0.00 0.00 0.00 2.24
2267 6207 0.331616 CCTCCCCACCCCAGTTTAAG 59.668 60.000 0.00 0.00 0.00 1.85
2268 6208 0.103823 TCCTCCCCACCCCAGTTTAA 60.104 55.000 0.00 0.00 0.00 1.52
2269 6209 0.122435 ATCCTCCCCACCCCAGTTTA 59.878 55.000 0.00 0.00 0.00 2.01
2270 6210 1.151361 ATCCTCCCCACCCCAGTTT 60.151 57.895 0.00 0.00 0.00 2.66
2271 6211 1.930656 CATCCTCCCCACCCCAGTT 60.931 63.158 0.00 0.00 0.00 3.16
2272 6212 2.286425 CATCCTCCCCACCCCAGT 60.286 66.667 0.00 0.00 0.00 4.00
2273 6213 1.619363 TTCATCCTCCCCACCCCAG 60.619 63.158 0.00 0.00 0.00 4.45
2274 6214 1.619363 CTTCATCCTCCCCACCCCA 60.619 63.158 0.00 0.00 0.00 4.96
2275 6215 1.307866 TCTTCATCCTCCCCACCCC 60.308 63.158 0.00 0.00 0.00 4.95
2276 6216 1.348775 CCTCTTCATCCTCCCCACCC 61.349 65.000 0.00 0.00 0.00 4.61
2277 6217 0.621862 ACCTCTTCATCCTCCCCACC 60.622 60.000 0.00 0.00 0.00 4.61
2278 6218 2.170817 GTTACCTCTTCATCCTCCCCAC 59.829 54.545 0.00 0.00 0.00 4.61
2279 6219 2.225779 TGTTACCTCTTCATCCTCCCCA 60.226 50.000 0.00 0.00 0.00 4.96
2280 6220 2.436173 CTGTTACCTCTTCATCCTCCCC 59.564 54.545 0.00 0.00 0.00 4.81
2281 6221 3.108376 ACTGTTACCTCTTCATCCTCCC 58.892 50.000 0.00 0.00 0.00 4.30
2282 6222 3.118592 CCACTGTTACCTCTTCATCCTCC 60.119 52.174 0.00 0.00 0.00 4.30
2296 6236 4.887071 ACTTGAACTGCAATTCCACTGTTA 59.113 37.500 5.30 0.00 35.59 2.41
2334 6274 7.527796 TGGACATCTTAGCTAGGAGTACTTAT 58.472 38.462 11.56 0.00 0.00 1.73
2433 6514 4.107051 AACCAATGCAGCTCGCGC 62.107 61.111 0.00 0.00 46.97 6.86
2434 6515 1.083806 TAGAACCAATGCAGCTCGCG 61.084 55.000 0.00 0.00 46.97 5.87
2435 6516 1.003116 CATAGAACCAATGCAGCTCGC 60.003 52.381 0.00 1.70 42.89 5.03
2436 6517 1.600957 CCATAGAACCAATGCAGCTCG 59.399 52.381 0.00 0.00 0.00 5.03
2437 6518 1.336125 GCCATAGAACCAATGCAGCTC 59.664 52.381 0.00 0.00 0.00 4.09
2438 6519 1.396653 GCCATAGAACCAATGCAGCT 58.603 50.000 0.00 0.00 0.00 4.24
2439 6520 0.029834 CGCCATAGAACCAATGCAGC 59.970 55.000 0.00 0.00 0.00 5.25
2440 6521 1.600957 CTCGCCATAGAACCAATGCAG 59.399 52.381 0.00 0.00 0.00 4.41
2441 6522 1.209261 TCTCGCCATAGAACCAATGCA 59.791 47.619 0.00 0.00 0.00 3.96
2442 6523 1.599542 GTCTCGCCATAGAACCAATGC 59.400 52.381 0.00 0.00 0.00 3.56
2443 6524 1.860950 CGTCTCGCCATAGAACCAATG 59.139 52.381 0.00 0.00 0.00 2.82
2444 6525 1.480954 ACGTCTCGCCATAGAACCAAT 59.519 47.619 0.00 0.00 0.00 3.16
2445 6526 0.892755 ACGTCTCGCCATAGAACCAA 59.107 50.000 0.00 0.00 0.00 3.67
2446 6527 0.172578 CACGTCTCGCCATAGAACCA 59.827 55.000 0.00 0.00 0.00 3.67
2447 6528 0.172803 ACACGTCTCGCCATAGAACC 59.827 55.000 0.00 0.00 0.00 3.62
2448 6529 1.992170 AACACGTCTCGCCATAGAAC 58.008 50.000 0.00 0.00 0.00 3.01
2449 6530 2.288579 ACAAACACGTCTCGCCATAGAA 60.289 45.455 0.00 0.00 0.00 2.10
2450 6531 1.271379 ACAAACACGTCTCGCCATAGA 59.729 47.619 0.00 0.00 0.00 1.98
2451 6532 1.390123 CACAAACACGTCTCGCCATAG 59.610 52.381 0.00 0.00 0.00 2.23
2452 6533 1.269883 ACACAAACACGTCTCGCCATA 60.270 47.619 0.00 0.00 0.00 2.74
2453 6534 0.531974 ACACAAACACGTCTCGCCAT 60.532 50.000 0.00 0.00 0.00 4.40
2454 6535 0.741574 AACACAAACACGTCTCGCCA 60.742 50.000 0.00 0.00 0.00 5.69
2455 6536 0.315869 CAACACAAACACGTCTCGCC 60.316 55.000 0.00 0.00 0.00 5.54
2456 6537 0.923911 GCAACACAAACACGTCTCGC 60.924 55.000 0.00 0.00 0.00 5.03
2457 6538 0.371989 TGCAACACAAACACGTCTCG 59.628 50.000 0.00 0.00 0.00 4.04
2458 6539 2.755836 ATGCAACACAAACACGTCTC 57.244 45.000 0.00 0.00 0.00 3.36
2459 6540 3.178267 CAAATGCAACACAAACACGTCT 58.822 40.909 0.00 0.00 0.00 4.18
2460 6541 2.920490 ACAAATGCAACACAAACACGTC 59.080 40.909 0.00 0.00 0.00 4.34
2461 6542 2.920490 GACAAATGCAACACAAACACGT 59.080 40.909 0.00 0.00 0.00 4.49
2462 6543 2.035839 CGACAAATGCAACACAAACACG 60.036 45.455 0.00 0.00 0.00 4.49
2463 6544 2.920490 ACGACAAATGCAACACAAACAC 59.080 40.909 0.00 0.00 0.00 3.32
2464 6545 3.223423 ACGACAAATGCAACACAAACA 57.777 38.095 0.00 0.00 0.00 2.83
2465 6546 5.688348 TTTACGACAAATGCAACACAAAC 57.312 34.783 0.00 0.00 0.00 2.93
2466 6547 5.807520 ACATTTACGACAAATGCAACACAAA 59.192 32.000 19.89 0.00 40.35 2.83
2467 6548 5.344066 ACATTTACGACAAATGCAACACAA 58.656 33.333 19.89 0.00 40.35 3.33
2468 6549 4.926244 ACATTTACGACAAATGCAACACA 58.074 34.783 19.89 0.00 40.35 3.72
2469 6550 5.881637 AACATTTACGACAAATGCAACAC 57.118 34.783 19.89 0.00 40.35 3.32
2470 6551 5.276584 GCAAACATTTACGACAAATGCAACA 60.277 36.000 19.89 0.00 40.35 3.33
2471 6552 5.051106 AGCAAACATTTACGACAAATGCAAC 60.051 36.000 19.89 11.46 40.35 4.17
2472 6553 5.046529 AGCAAACATTTACGACAAATGCAA 58.953 33.333 19.89 0.00 40.35 4.08
2473 6554 4.615949 AGCAAACATTTACGACAAATGCA 58.384 34.783 19.89 0.00 40.35 3.96
2474 6555 5.856455 AGTAGCAAACATTTACGACAAATGC 59.144 36.000 19.89 12.00 40.35 3.56
2475 6556 7.480542 GGTAGTAGCAAACATTTACGACAAATG 59.519 37.037 18.95 18.95 41.91 2.32
2476 6557 7.173562 TGGTAGTAGCAAACATTTACGACAAAT 59.826 33.333 0.00 0.00 0.00 2.32
2477 6558 6.482641 TGGTAGTAGCAAACATTTACGACAAA 59.517 34.615 0.00 0.00 0.00 2.83
2478 6559 5.990386 TGGTAGTAGCAAACATTTACGACAA 59.010 36.000 0.00 0.00 0.00 3.18
2479 6560 5.539979 TGGTAGTAGCAAACATTTACGACA 58.460 37.500 0.00 0.00 0.00 4.35
2480 6561 6.507456 CGATGGTAGTAGCAAACATTTACGAC 60.507 42.308 6.07 0.00 0.00 4.34
2481 6562 5.517411 CGATGGTAGTAGCAAACATTTACGA 59.483 40.000 6.07 0.00 0.00 3.43
2482 6563 5.290158 ACGATGGTAGTAGCAAACATTTACG 59.710 40.000 6.07 5.42 0.00 3.18
2483 6564 6.507456 CGACGATGGTAGTAGCAAACATTTAC 60.507 42.308 6.07 0.00 0.00 2.01
2484 6565 5.517411 CGACGATGGTAGTAGCAAACATTTA 59.483 40.000 6.07 0.00 0.00 1.40
2485 6566 4.328983 CGACGATGGTAGTAGCAAACATTT 59.671 41.667 6.07 0.00 0.00 2.32
2486 6567 3.863424 CGACGATGGTAGTAGCAAACATT 59.137 43.478 6.07 0.00 0.00 2.71
2487 6568 3.129813 TCGACGATGGTAGTAGCAAACAT 59.870 43.478 6.07 0.00 0.00 2.71
2488 6569 2.488937 TCGACGATGGTAGTAGCAAACA 59.511 45.455 6.07 0.00 0.00 2.83
2489 6570 3.106672 CTCGACGATGGTAGTAGCAAAC 58.893 50.000 6.07 3.32 0.00 2.93
2490 6571 3.011818 TCTCGACGATGGTAGTAGCAAA 58.988 45.455 6.07 0.00 0.00 3.68
2491 6572 2.635714 TCTCGACGATGGTAGTAGCAA 58.364 47.619 6.07 0.00 0.00 3.91
2492 6573 2.320745 TCTCGACGATGGTAGTAGCA 57.679 50.000 4.19 4.19 0.00 3.49
2493 6574 3.900388 AATCTCGACGATGGTAGTAGC 57.100 47.619 0.00 0.00 31.20 3.58
2494 6575 3.975670 GCAAATCTCGACGATGGTAGTAG 59.024 47.826 0.00 0.00 31.20 2.57
2495 6576 3.630769 AGCAAATCTCGACGATGGTAGTA 59.369 43.478 0.00 0.00 31.20 1.82
2496 6577 2.427453 AGCAAATCTCGACGATGGTAGT 59.573 45.455 0.00 0.00 31.20 2.73
2497 6578 3.085443 AGCAAATCTCGACGATGGTAG 57.915 47.619 0.00 0.00 31.20 3.18
2498 6579 3.379057 TGTAGCAAATCTCGACGATGGTA 59.621 43.478 0.00 0.72 31.20 3.25
2499 6580 2.165641 TGTAGCAAATCTCGACGATGGT 59.834 45.455 0.00 1.79 31.20 3.55
2500 6581 2.809446 TGTAGCAAATCTCGACGATGG 58.191 47.619 0.00 0.00 31.20 3.51
2501 6582 6.696825 ATAATGTAGCAAATCTCGACGATG 57.303 37.500 0.00 0.00 31.20 3.84


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

AutoCloner maintained by Alex Coulton.