Multiple sequence alignment - TraesCS5A01G503300

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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 TraesCS5A01G503300 chr5A 100.000 3429 0 0 1 3429 668227727 668224299 0.000000e+00 6333.0
1 TraesCS5A01G503300 chr5A 91.123 1442 88 19 2006 3429 668271143 668269724 0.000000e+00 1917.0
2 TraesCS5A01G503300 chr5A 90.299 1103 65 19 2008 3092 668579708 668578630 0.000000e+00 1406.0
3 TraesCS5A01G503300 chr5A 87.564 1174 98 24 850 1995 668580842 668579689 0.000000e+00 1315.0
4 TraesCS5A01G503300 chr5A 86.359 1063 87 26 854 1887 668767379 668768412 0.000000e+00 1107.0
5 TraesCS5A01G503300 chr5A 85.291 1047 87 26 972 1995 668272124 668271122 0.000000e+00 1018.0
6 TraesCS5A01G503300 chr5A 84.392 378 33 10 17 384 668582396 668582035 7.040000e-92 348.0
7 TraesCS5A01G503300 chr5A 84.791 263 12 12 625 861 668581138 668580878 4.420000e-59 239.0
8 TraesCS5A01G503300 chr5A 85.646 209 8 11 626 813 668273974 668273767 2.090000e-47 200.0
9 TraesCS5A01G503300 chr5A 89.313 131 13 1 3099 3229 668770432 668770561 2.740000e-36 163.0
10 TraesCS5A01G503300 chr5A 94.624 93 5 0 173 265 668760766 668760858 9.920000e-31 145.0
11 TraesCS5A01G503300 chr5A 92.982 57 2 2 642 698 668766734 668766788 7.890000e-12 82.4
12 TraesCS5A01G503300 chr4D 88.616 1142 85 21 850 1972 487345838 487344723 0.000000e+00 1347.0
13 TraesCS5A01G503300 chr4D 88.939 1103 71 20 2022 3100 487344184 487343109 0.000000e+00 1314.0
14 TraesCS5A01G503300 chr4D 86.700 1188 98 32 850 1995 487121010 487119841 0.000000e+00 1264.0
15 TraesCS5A01G503300 chr4D 87.047 1158 99 29 850 1972 487291262 487290121 0.000000e+00 1260.0
16 TraesCS5A01G503300 chr4D 88.550 1083 65 30 2008 3054 487119860 487118801 0.000000e+00 1258.0
17 TraesCS5A01G503300 chr4D 85.578 1151 104 28 856 1995 487230243 487229144 0.000000e+00 1149.0
18 TraesCS5A01G503300 chr4D 89.097 642 49 5 2466 3100 487295398 487294771 0.000000e+00 778.0
19 TraesCS5A01G503300 chr4D 93.097 536 27 4 2569 3100 487228701 487228172 0.000000e+00 776.0
20 TraesCS5A01G503300 chr4D 91.260 492 30 6 2606 3095 487288861 487288381 0.000000e+00 658.0
21 TraesCS5A01G503300 chr4D 85.645 620 52 19 2022 2618 487289583 487288978 4.860000e-173 617.0
22 TraesCS5A01G503300 chr4D 91.435 432 26 6 2008 2430 487295827 487295398 1.770000e-162 582.0
23 TraesCS5A01G503300 chr4D 89.461 427 31 12 2008 2429 487229163 487228746 8.430000e-146 527.0
24 TraesCS5A01G503300 chr4D 84.615 273 20 9 128 391 487231837 487231578 5.680000e-63 252.0
25 TraesCS5A01G503300 chr4D 86.383 235 18 6 51 273 487348088 487347856 9.510000e-61 244.0
26 TraesCS5A01G503300 chr4D 85.141 249 15 12 633 861 487230524 487230278 5.720000e-58 235.0
27 TraesCS5A01G503300 chr4D 86.634 202 23 1 3228 3429 487342751 487342554 1.600000e-53 220.0
28 TraesCS5A01G503300 chr4D 82.883 222 14 16 622 838 487346093 487345891 9.780000e-41 178.0
29 TraesCS5A01G503300 chr4D 89.130 138 9 4 1 132 487233331 487233194 2.120000e-37 167.0
30 TraesCS5A01G503300 chr4D 90.164 122 11 1 3108 3229 487288327 487288207 1.270000e-34 158.0
31 TraesCS5A01G503300 chr4D 84.663 163 16 8 704 861 487121206 487121048 1.650000e-33 154.0
32 TraesCS5A01G503300 chr4D 84.146 164 15 6 704 861 487296649 487296491 7.670000e-32 148.0
33 TraesCS5A01G503300 chr4D 84.932 146 19 2 1 145 487299954 487299811 9.920000e-31 145.0
34 TraesCS5A01G503300 chr4D 90.351 114 6 4 3116 3229 487342906 487342798 9.920000e-31 145.0
35 TraesCS5A01G503300 chr4B 85.543 1252 89 46 729 1941 622335233 622334035 0.000000e+00 1225.0
36 TraesCS5A01G503300 chr4B 87.056 1097 77 26 2022 3092 622436081 622435024 0.000000e+00 1179.0
37 TraesCS5A01G503300 chr4B 85.154 1172 99 41 850 1972 622437765 622436620 0.000000e+00 1131.0
38 TraesCS5A01G503300 chr4B 88.971 952 48 26 2025 2948 622333997 622333075 0.000000e+00 1123.0
39 TraesCS5A01G503300 chr4B 84.316 1103 99 37 899 1962 622478640 622477573 0.000000e+00 1011.0
40 TraesCS5A01G503300 chr4B 86.087 920 72 28 2022 2917 622477027 622476140 0.000000e+00 939.0
41 TraesCS5A01G503300 chr4B 89.086 394 32 4 2569 2957 622614854 622614467 2.390000e-131 479.0
42 TraesCS5A01G503300 chr4B 82.500 400 29 15 1 391 622440653 622440286 2.570000e-81 313.0
43 TraesCS5A01G503300 chr4B 89.744 195 13 4 623 813 622480118 622479927 3.420000e-60 243.0
44 TraesCS5A01G503300 chr4B 87.603 121 6 7 275 391 622425890 622425775 7.720000e-27 132.0
45 TraesCS5A01G503300 chr4B 89.474 57 5 1 633 689 622439876 622439821 1.710000e-08 71.3
46 TraesCS5A01G503300 chrUn 87.056 1097 77 22 2022 3092 60348274 60347217 0.000000e+00 1179.0
47 TraesCS5A01G503300 chrUn 85.239 1172 97 41 850 1972 60287761 60288905 0.000000e+00 1136.0
48 TraesCS5A01G503300 chrUn 84.898 1172 102 41 850 1972 60349958 60348813 0.000000e+00 1114.0
49 TraesCS5A01G503300 chrUn 86.842 988 68 21 2136 3100 363200045 363200993 0.000000e+00 1048.0
50 TraesCS5A01G503300 chrUn 86.939 980 66 25 2136 3092 60289967 60290907 0.000000e+00 1044.0
51 TraesCS5A01G503300 chrUn 82.697 393 29 13 1 386 60284994 60285354 2.570000e-81 313.0
52 TraesCS5A01G503300 chrUn 82.500 400 29 15 1 391 60322658 60322291 2.570000e-81 313.0
53 TraesCS5A01G503300 chrUn 82.500 400 29 15 1 391 60353239 60352872 2.570000e-81 313.0
54 TraesCS5A01G503300 chrUn 90.152 132 11 2 3099 3229 60277846 60277976 1.640000e-38 171.0
55 TraesCS5A01G503300 chrUn 90.152 132 11 2 3099 3229 60329390 60329260 1.640000e-38 171.0
56 TraesCS5A01G503300 chrUn 90.152 132 11 2 3099 3229 60360658 60360528 1.640000e-38 171.0
57 TraesCS5A01G503300 chrUn 88.636 132 13 2 3099 3229 363201032 363201162 3.540000e-35 159.0
58 TraesCS5A01G503300 chrUn 88.636 132 13 2 3099 3229 453468893 453468763 3.540000e-35 159.0
59 TraesCS5A01G503300 chrUn 92.727 110 6 2 704 813 60287567 60287674 1.270000e-34 158.0
60 TraesCS5A01G503300 chrUn 92.727 110 6 2 704 813 60319964 60319857 1.270000e-34 158.0
61 TraesCS5A01G503300 chrUn 89.474 57 5 1 633 689 60285771 60285826 1.710000e-08 71.3
62 TraesCS5A01G503300 chrUn 95.455 44 2 0 633 676 60321881 60321838 1.710000e-08 71.3
63 TraesCS5A01G503300 chr3B 96.875 32 0 1 645 676 42370214 42370184 6.000000e-03 52.8


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 TraesCS5A01G503300 chr5A 668224299 668227727 3428 True 6333.000000 6333 100.000000 1 3429 1 chr5A.!!$R1 3428
1 TraesCS5A01G503300 chr5A 668269724 668273974 4250 True 1045.000000 1917 87.353333 626 3429 3 chr5A.!!$R2 2803
2 TraesCS5A01G503300 chr5A 668578630 668582396 3766 True 827.000000 1406 86.761500 17 3092 4 chr5A.!!$R3 3075
3 TraesCS5A01G503300 chr5A 668766734 668770561 3827 False 450.800000 1107 89.551333 642 3229 3 chr5A.!!$F2 2587
4 TraesCS5A01G503300 chr4D 487118801 487121206 2405 True 892.000000 1264 86.637667 704 3054 3 chr4D.!!$R1 2350
5 TraesCS5A01G503300 chr4D 487342554 487348088 5534 True 574.666667 1347 87.301000 51 3429 6 chr4D.!!$R4 3378
6 TraesCS5A01G503300 chr4D 487288207 487299954 11747 True 543.250000 1260 87.965750 1 3229 8 chr4D.!!$R3 3228
7 TraesCS5A01G503300 chr4D 487228172 487233331 5159 True 517.666667 1149 87.837000 1 3100 6 chr4D.!!$R2 3099
8 TraesCS5A01G503300 chr4B 622333075 622335233 2158 True 1174.000000 1225 87.257000 729 2948 2 chr4B.!!$R3 2219
9 TraesCS5A01G503300 chr4B 622476140 622480118 3978 True 731.000000 1011 86.715667 623 2917 3 chr4B.!!$R5 2294
10 TraesCS5A01G503300 chr4B 622435024 622440653 5629 True 673.575000 1179 86.046000 1 3092 4 chr4B.!!$R4 3091
11 TraesCS5A01G503300 chrUn 60347217 60353239 6022 True 868.666667 1179 84.818000 1 3092 3 chrUn.!!$R5 3091
12 TraesCS5A01G503300 chrUn 363200045 363201162 1117 False 603.500000 1048 87.739000 2136 3229 2 chrUn.!!$F3 1093
13 TraesCS5A01G503300 chrUn 60284994 60290907 5913 False 544.460000 1136 87.415200 1 3092 5 chrUn.!!$F2 3091

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
387 2076 0.497265 GCGTGATTAACCGATCGACG 59.503 55.0 18.66 17.1 42.18 5.12 F
398 2087 0.663568 CGATCGACGGCTGGATTACC 60.664 60.0 10.26 0.0 38.46 2.85 F
506 2315 0.798776 CAGCTCCGTCGCTTTCATTT 59.201 50.0 0.00 0.0 38.41 2.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2113 19058 1.297967 CTCACCGTCGAGATCAGCG 60.298 63.158 0.00 0.0 34.79 5.18 R
2309 19663 2.880268 CCACACATACCATGCATCGATT 59.120 45.455 0.00 0.0 0.00 3.34 R
2459 19818 0.599204 GCAAGCAGCTTGTTGTGCAT 60.599 50.000 31.26 0.0 42.77 3.96 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
19 20 2.619013 CAAAGCATCTCCGTTTGGAC 57.381 50.000 0.00 0.00 40.17 4.02
25 26 2.228822 GCATCTCCGTTTGGACATTTGT 59.771 45.455 0.00 0.00 40.17 2.83
67 73 1.135431 TGCGCACTTGCATAAATGGTC 60.135 47.619 5.66 0.00 40.62 4.02
81 87 4.329545 GGTCTGCGCAAGGGACCA 62.330 66.667 31.47 1.18 46.14 4.02
128 140 1.476891 AGTGCACGGAGACACGAATAT 59.523 47.619 12.01 0.00 41.44 1.28
129 141 2.686405 AGTGCACGGAGACACGAATATA 59.314 45.455 12.01 0.00 41.44 0.86
131 143 4.049186 GTGCACGGAGACACGAATATAAT 58.951 43.478 0.00 0.00 37.61 1.28
132 144 5.009310 AGTGCACGGAGACACGAATATAATA 59.991 40.000 12.01 0.00 41.44 0.98
133 145 5.688621 GTGCACGGAGACACGAATATAATAA 59.311 40.000 0.00 0.00 37.61 1.40
158 1534 2.969238 GTGCAGGGCCGATCGATG 60.969 66.667 18.66 10.64 0.00 3.84
175 1551 2.892425 GGGTCGATCGGCAAGCAG 60.892 66.667 22.85 0.00 0.00 4.24
208 1588 2.238449 CGTGCGCGTTGTTTTTGC 59.762 55.556 12.43 0.00 0.00 3.68
271 1956 7.502561 TCATCAAGATGATCGAGGACTAGTTAA 59.497 37.037 8.61 0.00 42.42 2.01
272 1957 7.265647 TCAAGATGATCGAGGACTAGTTAAG 57.734 40.000 0.00 0.00 0.00 1.85
273 1958 6.829298 TCAAGATGATCGAGGACTAGTTAAGT 59.171 38.462 0.00 0.00 42.80 2.24
274 1959 7.991460 TCAAGATGATCGAGGACTAGTTAAGTA 59.009 37.037 0.00 0.00 39.07 2.24
275 1960 7.972832 AGATGATCGAGGACTAGTTAAGTAG 57.027 40.000 14.62 14.62 39.07 2.57
276 1961 7.511268 AGATGATCGAGGACTAGTTAAGTAGT 58.489 38.462 20.57 20.57 39.07 2.73
277 1962 8.649591 AGATGATCGAGGACTAGTTAAGTAGTA 58.350 37.037 20.50 7.49 39.07 1.82
278 1963 8.836268 ATGATCGAGGACTAGTTAAGTAGTAG 57.164 38.462 20.50 13.14 39.07 2.57
279 1964 7.790027 TGATCGAGGACTAGTTAAGTAGTAGT 58.210 38.462 20.50 12.03 44.05 2.73
316 2001 1.889530 CTCCCAGACAACGAGACCCC 61.890 65.000 0.00 0.00 0.00 4.95
320 2005 2.048503 GACAACGAGACCCCCACG 60.049 66.667 0.00 0.00 0.00 4.94
321 2006 2.841044 ACAACGAGACCCCCACGT 60.841 61.111 0.00 0.00 41.97 4.49
322 2007 1.526575 GACAACGAGACCCCCACGTA 61.527 60.000 0.00 0.00 39.31 3.57
323 2008 1.080298 CAACGAGACCCCCACGTAC 60.080 63.158 0.00 0.00 39.31 3.67
353 2040 2.611518 GACCTTTCAGGACTCATCACG 58.388 52.381 0.00 0.00 37.67 4.35
386 2075 0.850856 GGCGTGATTAACCGATCGAC 59.149 55.000 18.66 3.55 0.00 4.20
387 2076 0.497265 GCGTGATTAACCGATCGACG 59.503 55.000 18.66 17.10 42.18 5.12
397 2086 2.797515 CGATCGACGGCTGGATTAC 58.202 57.895 10.26 0.00 38.46 1.89
398 2087 0.663568 CGATCGACGGCTGGATTACC 60.664 60.000 10.26 0.00 38.46 2.85
400 2089 1.046472 ATCGACGGCTGGATTACCCA 61.046 55.000 0.00 0.00 44.25 4.51
441 2233 2.278013 GATCGACGCGTCCTCACC 60.278 66.667 31.84 13.79 0.00 4.02
442 2234 3.047718 GATCGACGCGTCCTCACCA 62.048 63.158 31.84 10.48 0.00 4.17
447 2239 2.664851 CGCGTCCTCACCAGCAAA 60.665 61.111 0.00 0.00 0.00 3.68
448 2240 2.250939 CGCGTCCTCACCAGCAAAA 61.251 57.895 0.00 0.00 0.00 2.44
449 2241 1.576421 GCGTCCTCACCAGCAAAAG 59.424 57.895 0.00 0.00 0.00 2.27
450 2242 1.576421 CGTCCTCACCAGCAAAAGC 59.424 57.895 0.00 0.00 0.00 3.51
451 2243 1.165907 CGTCCTCACCAGCAAAAGCA 61.166 55.000 0.00 0.00 0.00 3.91
452 2244 1.032014 GTCCTCACCAGCAAAAGCAA 58.968 50.000 0.00 0.00 0.00 3.91
453 2245 1.615392 GTCCTCACCAGCAAAAGCAAT 59.385 47.619 0.00 0.00 0.00 3.56
454 2246 2.036346 GTCCTCACCAGCAAAAGCAATT 59.964 45.455 0.00 0.00 0.00 2.32
455 2247 2.036217 TCCTCACCAGCAAAAGCAATTG 59.964 45.455 0.00 0.00 0.00 2.32
471 2263 1.798283 ATTGCCGCACGTACAAACTA 58.202 45.000 0.00 0.00 0.00 2.24
472 2264 0.860533 TTGCCGCACGTACAAACTAC 59.139 50.000 0.00 0.00 0.00 2.73
475 2280 1.065358 CCGCACGTACAAACTACAGG 58.935 55.000 0.00 0.00 0.00 4.00
487 2296 1.028868 ACTACAGGTCCCGTCGTAGC 61.029 60.000 9.25 0.00 35.76 3.58
493 2302 3.138798 TCCCGTCGTAGCAGCTCC 61.139 66.667 0.00 0.00 0.00 4.70
497 2306 2.277373 GTCGTAGCAGCTCCGTCG 60.277 66.667 7.33 5.25 0.00 5.12
499 2308 4.180946 CGTAGCAGCTCCGTCGCT 62.181 66.667 0.00 0.80 41.90 4.93
500 2309 2.182030 GTAGCAGCTCCGTCGCTT 59.818 61.111 0.00 0.00 38.41 4.68
502 2311 1.153823 TAGCAGCTCCGTCGCTTTC 60.154 57.895 0.00 0.00 38.41 2.62
503 2312 1.873270 TAGCAGCTCCGTCGCTTTCA 61.873 55.000 0.00 0.00 38.41 2.69
504 2313 2.103042 GCAGCTCCGTCGCTTTCAT 61.103 57.895 0.00 0.00 38.41 2.57
506 2315 0.798776 CAGCTCCGTCGCTTTCATTT 59.201 50.000 0.00 0.00 38.41 2.32
513 2360 3.309682 TCCGTCGCTTTCATTTCATCATC 59.690 43.478 0.00 0.00 0.00 2.92
519 3156 7.412853 GTCGCTTTCATTTCATCATCATTACT 58.587 34.615 0.00 0.00 0.00 2.24
521 3158 8.768019 TCGCTTTCATTTCATCATCATTACTAG 58.232 33.333 0.00 0.00 0.00 2.57
557 4206 6.992063 AGTTTCAACAAGATCGCTGATTAT 57.008 33.333 5.02 0.00 0.00 1.28
558 4207 7.383102 AGTTTCAACAAGATCGCTGATTATT 57.617 32.000 5.02 0.00 0.00 1.40
559 4208 8.492673 AGTTTCAACAAGATCGCTGATTATTA 57.507 30.769 5.02 0.00 0.00 0.98
561 4210 8.391106 GTTTCAACAAGATCGCTGATTATTACT 58.609 33.333 5.02 0.00 0.00 2.24
562 4211 7.700322 TCAACAAGATCGCTGATTATTACTC 57.300 36.000 5.02 0.00 0.00 2.59
563 4212 6.701841 TCAACAAGATCGCTGATTATTACTCC 59.298 38.462 5.02 0.00 0.00 3.85
564 4213 5.542779 ACAAGATCGCTGATTATTACTCCC 58.457 41.667 5.02 0.00 0.00 4.30
565 4214 5.070446 ACAAGATCGCTGATTATTACTCCCA 59.930 40.000 5.02 0.00 0.00 4.37
566 4215 5.808366 AGATCGCTGATTATTACTCCCAA 57.192 39.130 0.00 0.00 0.00 4.12
571 4220 4.401925 GCTGATTATTACTCCCAATGCCT 58.598 43.478 0.00 0.00 0.00 4.75
599 4248 1.532316 CCGATCCGGCCCCTAAGTA 60.532 63.158 0.00 0.00 41.17 2.24
611 5139 3.864243 CCCCTAAGTACACACGCATAAA 58.136 45.455 0.00 0.00 0.00 1.40
615 5143 5.179742 CCCTAAGTACACACGCATAAACAAA 59.820 40.000 0.00 0.00 0.00 2.83
616 5144 6.293516 CCCTAAGTACACACGCATAAACAAAA 60.294 38.462 0.00 0.00 0.00 2.44
618 5146 4.520078 AGTACACACGCATAAACAAAACG 58.480 39.130 0.00 0.00 0.00 3.60
619 5147 3.677190 ACACACGCATAAACAAAACGA 57.323 38.095 0.00 0.00 0.00 3.85
620 5148 4.017380 ACACACGCATAAACAAAACGAA 57.983 36.364 0.00 0.00 0.00 3.85
631 6487 1.134936 ACAAAACGAACACCCAAAGCC 60.135 47.619 0.00 0.00 0.00 4.35
677 8367 4.050037 AGATTCCATTCCATTCTCAGGGA 58.950 43.478 0.00 0.00 0.00 4.20
678 8368 3.652057 TTCCATTCCATTCTCAGGGAC 57.348 47.619 0.00 0.00 31.59 4.46
698 8390 1.153765 GCTTCGCCATTTTCTGCCC 60.154 57.895 0.00 0.00 0.00 5.36
700 8392 2.270297 CTTCGCCATTTTCTGCCCGG 62.270 60.000 0.00 0.00 0.00 5.73
702 8394 2.573340 GCCATTTTCTGCCCGGTG 59.427 61.111 0.00 0.00 0.00 4.94
835 14157 1.557099 CCAGCCCTACACTACACTGA 58.443 55.000 0.00 0.00 0.00 3.41
838 14160 2.497675 CAGCCCTACACTACACTGACAT 59.502 50.000 0.00 0.00 0.00 3.06
844 14166 5.512404 CCCTACACTACACTGACATTTGGAA 60.512 44.000 0.00 0.00 0.00 3.53
886 14283 4.998400 TGGGCGCGTTGCTTGCTA 62.998 61.111 8.43 0.00 45.43 3.49
889 14286 3.423154 GCGCGTTGCTTGCTAGGT 61.423 61.111 8.43 0.00 41.73 3.08
890 14287 2.778679 CGCGTTGCTTGCTAGGTC 59.221 61.111 0.00 0.00 0.00 3.85
933 15482 1.684386 CGCAAGCTCTCTGGGGAGAT 61.684 60.000 1.13 0.00 46.14 2.75
979 16962 6.174760 CCAGAGCTGGTATACCTACTACTAG 58.825 48.000 22.41 10.65 45.53 2.57
1285 17287 0.872388 CGAAGTGTGCAACCCTTACC 59.128 55.000 0.00 0.00 34.36 2.85
1649 17677 2.108157 TGGCAAGTCGCAACTCGT 59.892 55.556 0.00 0.00 45.17 4.18
1653 17696 2.264813 GGCAAGTCGCAACTCGTATTA 58.735 47.619 0.00 0.00 45.17 0.98
1658 17701 5.516996 CAAGTCGCAACTCGTATTATCCTA 58.483 41.667 0.00 0.00 39.67 2.94
1736 17843 8.515695 AGCATCAATTGACATCTTTAGATCAA 57.484 30.769 11.07 0.00 31.21 2.57
1737 17844 9.132923 AGCATCAATTGACATCTTTAGATCAAT 57.867 29.630 11.07 3.77 33.24 2.57
1738 17845 9.745880 GCATCAATTGACATCTTTAGATCAATT 57.254 29.630 11.07 12.35 38.45 2.32
1922 18153 4.024717 AGCGAGGAGATGCTGACA 57.975 55.556 0.00 0.00 40.62 3.58
1937 18168 3.896888 TGCTGACAAGGAATTCCACAAAT 59.103 39.130 26.22 6.84 38.89 2.32
1941 18172 6.516527 GCTGACAAGGAATTCCACAAATGTAA 60.517 38.462 26.22 13.71 38.89 2.41
1953 18184 8.684386 TTCCACAAATGTAAACACTTATCTCA 57.316 30.769 0.00 0.00 0.00 3.27
1995 18935 9.927081 AATTACAGGATCCAGACATAAAATCTT 57.073 29.630 15.82 0.00 0.00 2.40
1996 18936 9.927081 ATTACAGGATCCAGACATAAAATCTTT 57.073 29.630 15.82 0.00 0.00 2.52
1997 18937 9.753674 TTACAGGATCCAGACATAAAATCTTTT 57.246 29.630 15.82 0.00 0.00 2.27
1998 18938 8.655935 ACAGGATCCAGACATAAAATCTTTTT 57.344 30.769 15.82 0.00 0.00 1.94
2021 18961 7.753309 TTTTTCGAAAAGGATCCAGACATAA 57.247 32.000 21.53 1.03 0.00 1.90
2022 18962 7.753309 TTTTCGAAAAGGATCCAGACATAAA 57.247 32.000 19.08 4.95 0.00 1.40
2023 18963 7.753309 TTTCGAAAAGGATCCAGACATAAAA 57.247 32.000 15.82 3.47 0.00 1.52
2024 18964 7.938140 TTCGAAAAGGATCCAGACATAAAAT 57.062 32.000 15.82 0.00 0.00 1.82
2025 18965 7.553881 TCGAAAAGGATCCAGACATAAAATC 57.446 36.000 15.82 0.00 0.00 2.17
2026 18966 7.338710 TCGAAAAGGATCCAGACATAAAATCT 58.661 34.615 15.82 0.00 0.00 2.40
2192 19498 2.031163 AGCTGCTTCGGCGACTTT 59.969 55.556 10.16 0.00 45.37 2.66
2225 19531 4.437930 GCATCATGCTCACAAGTAAGGAAC 60.438 45.833 1.02 0.00 40.96 3.62
2262 19575 4.927978 TTTTGGAGGAGCGAAATTTTCA 57.072 36.364 9.66 0.00 0.00 2.69
2275 19588 9.254421 GAGCGAAATTTTCAATTAATTTCTTGC 57.746 29.630 16.97 14.53 44.23 4.01
2282 19595 7.593875 TTTCAATTAATTTCTTGCCCGAATG 57.406 32.000 0.00 0.00 0.00 2.67
2283 19596 6.279513 TCAATTAATTTCTTGCCCGAATGT 57.720 33.333 0.00 0.00 0.00 2.71
2284 19597 7.397892 TCAATTAATTTCTTGCCCGAATGTA 57.602 32.000 0.00 0.00 0.00 2.29
2285 19598 7.254852 TCAATTAATTTCTTGCCCGAATGTAC 58.745 34.615 0.00 0.00 0.00 2.90
2291 19615 5.461032 TTCTTGCCCGAATGTACATTTTT 57.539 34.783 21.63 0.77 0.00 1.94
2293 19617 4.764823 TCTTGCCCGAATGTACATTTTTCT 59.235 37.500 21.63 0.00 0.00 2.52
2296 19620 4.155826 TGCCCGAATGTACATTTTTCTCTG 59.844 41.667 21.63 5.84 0.00 3.35
2331 19687 0.308684 CGATGCATGGTATGTGTGGC 59.691 55.000 2.46 0.00 0.00 5.01
2432 19788 3.529734 TGGAGGAAGGTGTCTCTAGATCT 59.470 47.826 0.00 0.00 0.00 2.75
2458 19817 1.621107 CACGCCAATTCATCAAGCAC 58.379 50.000 0.00 0.00 0.00 4.40
2459 19818 1.068402 CACGCCAATTCATCAAGCACA 60.068 47.619 0.00 0.00 0.00 4.57
2464 19826 2.927477 CCAATTCATCAAGCACATGCAC 59.073 45.455 6.64 0.00 45.16 4.57
2478 19840 0.599204 ATGCACAACAAGCTGCTTGC 60.599 50.000 35.22 25.04 44.43 4.01
2492 19854 4.083696 AGCTGCTTGCAATTGTAATTTTGC 60.084 37.500 9.51 9.85 46.53 3.68
2515 19883 2.093658 ACTGTCCGTGAGTTCTGTGTTT 60.094 45.455 0.00 0.00 0.00 2.83
2516 19884 2.276201 TGTCCGTGAGTTCTGTGTTTG 58.724 47.619 0.00 0.00 0.00 2.93
2517 19885 1.003866 GTCCGTGAGTTCTGTGTTTGC 60.004 52.381 0.00 0.00 0.00 3.68
2518 19886 1.013596 CCGTGAGTTCTGTGTTTGCA 58.986 50.000 0.00 0.00 0.00 4.08
2520 19888 2.440501 CGTGAGTTCTGTGTTTGCAAC 58.559 47.619 0.00 0.00 0.00 4.17
2626 20139 5.106555 TGCTATCTAAAGTTCAGCTGTTTGC 60.107 40.000 14.67 7.03 43.29 3.68
2674 20203 1.066215 TCCGTGAGTGTAATGCATGCT 60.066 47.619 20.33 1.26 0.00 3.79
2680 20213 5.234116 CGTGAGTGTAATGCATGCTTGTATA 59.766 40.000 20.33 3.89 0.00 1.47
2745 20295 8.684386 TGAAAAGATACCAATCTGTTGTTGTA 57.316 30.769 0.00 0.00 39.39 2.41
2746 20296 8.783093 TGAAAAGATACCAATCTGTTGTTGTAG 58.217 33.333 0.00 0.00 39.39 2.74
2747 20297 7.687941 AAAGATACCAATCTGTTGTTGTAGG 57.312 36.000 0.00 0.00 41.81 3.18
2748 20298 6.620877 AGATACCAATCTGTTGTTGTAGGA 57.379 37.500 0.00 0.00 41.08 2.94
2749 20299 6.644347 AGATACCAATCTGTTGTTGTAGGAG 58.356 40.000 0.00 0.00 41.08 3.69
2750 20300 4.706842 ACCAATCTGTTGTTGTAGGAGT 57.293 40.909 0.00 0.00 33.36 3.85
2787 20337 5.576774 ACTGTTACAGCTTTTTGTTTCTTGC 59.423 36.000 12.80 0.00 34.37 4.01
2859 20411 3.119245 GGCTATACGAACAGTGGTCAAGA 60.119 47.826 9.27 0.00 0.00 3.02
3172 20962 5.273208 AGATGCTCCCTAGTAACTTCTTGA 58.727 41.667 0.00 0.00 0.00 3.02
3202 20992 3.245300 ACTTCCCACTACAGCTCTGAGTA 60.245 47.826 6.53 0.00 0.00 2.59
3216 21006 4.081972 GCTCTGAGTACATTCTTCAGACCA 60.082 45.833 6.53 0.00 34.29 4.02
3225 21015 3.753294 TTCTTCAGACCAAGAGGACAC 57.247 47.619 0.00 0.00 38.69 3.67
3243 21080 2.094026 ACACAATGCATGCTACTCGAGA 60.094 45.455 21.68 1.61 0.00 4.04
3256 21093 0.237498 CTCGAGAACCCGTTTTTGCC 59.763 55.000 6.58 0.00 0.00 4.52
3260 21097 0.744281 AGAACCCGTTTTTGCCTGTG 59.256 50.000 0.00 0.00 0.00 3.66
3263 21100 0.673437 ACCCGTTTTTGCCTGTGATG 59.327 50.000 0.00 0.00 0.00 3.07
3354 21191 2.401583 TGAAGATGTATTGGCGCAGT 57.598 45.000 10.83 0.00 0.00 4.40
3378 21215 0.530744 GGTCTGTCGTGCATCCTACA 59.469 55.000 0.00 0.00 0.00 2.74
3411 21248 4.703897 TGAAAGAAGTATTAGCCCCATCG 58.296 43.478 0.00 0.00 0.00 3.84
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
19 20 1.279527 CGGCTGCACTGCAACAAATG 61.280 55.000 4.99 0.00 38.41 2.32
67 73 3.365265 GGTTGGTCCCTTGCGCAG 61.365 66.667 11.31 4.92 0.00 5.18
96 102 1.012086 CGTGCACTTGATGATCCCTG 58.988 55.000 16.19 0.00 0.00 4.45
98 104 0.107703 TCCGTGCACTTGATGATCCC 60.108 55.000 16.19 0.00 0.00 3.85
158 1534 2.892425 CTGCTTGCCGATCGACCC 60.892 66.667 18.66 5.04 0.00 4.46
175 1551 4.164252 CGCACTACGGACCAGAAC 57.836 61.111 0.00 0.00 38.44 3.01
274 1959 8.659527 GGAGATTTAGGGAGTACTACTACTACT 58.340 40.741 4.77 5.69 34.48 2.57
275 1960 7.882791 GGGAGATTTAGGGAGTACTACTACTAC 59.117 44.444 4.77 1.86 32.96 2.73
276 1961 7.573994 TGGGAGATTTAGGGAGTACTACTACTA 59.426 40.741 4.77 0.00 32.96 1.82
277 1962 6.392245 TGGGAGATTTAGGGAGTACTACTACT 59.608 42.308 4.77 0.00 35.77 2.57
278 1963 6.608922 TGGGAGATTTAGGGAGTACTACTAC 58.391 44.000 4.77 0.00 0.00 2.73
279 1964 6.622766 TCTGGGAGATTTAGGGAGTACTACTA 59.377 42.308 4.77 3.92 0.00 1.82
390 2079 1.444836 CGTTTTCGCTGGGTAATCCA 58.555 50.000 0.00 0.00 44.35 3.41
426 2218 3.733960 CTGGTGAGGACGCGTCGA 61.734 66.667 30.99 15.90 0.00 4.20
428 2220 3.858868 TTGCTGGTGAGGACGCGTC 62.859 63.158 30.67 30.67 0.00 5.19
429 2221 2.933878 TTTTGCTGGTGAGGACGCGT 62.934 55.000 13.85 13.85 0.00 6.01
430 2222 2.175184 CTTTTGCTGGTGAGGACGCG 62.175 60.000 3.53 3.53 0.00 6.01
431 2223 1.576421 CTTTTGCTGGTGAGGACGC 59.424 57.895 0.00 0.00 0.00 5.19
434 2226 5.663477 GCAATTGCTTTTGCTGGTGAGGA 62.663 47.826 23.21 0.00 46.66 3.71
435 2227 3.438475 GCAATTGCTTTTGCTGGTGAGG 61.438 50.000 23.21 0.00 46.66 3.86
436 2228 1.796459 GCAATTGCTTTTGCTGGTGAG 59.204 47.619 23.21 0.00 46.66 3.51
437 2229 1.868469 GCAATTGCTTTTGCTGGTGA 58.132 45.000 23.21 0.00 46.66 4.02
444 2236 1.214373 ACGTGCGGCAATTGCTTTTG 61.214 50.000 28.42 16.93 41.70 2.44
447 2239 1.209127 GTACGTGCGGCAATTGCTT 59.791 52.632 28.42 9.76 41.70 3.91
448 2240 1.511318 TTGTACGTGCGGCAATTGCT 61.511 50.000 28.42 11.34 41.70 3.91
449 2241 0.661780 TTTGTACGTGCGGCAATTGC 60.662 50.000 22.47 22.47 41.14 3.56
450 2242 1.049251 GTTTGTACGTGCGGCAATTG 58.951 50.000 3.23 0.00 0.00 2.32
451 2243 0.948678 AGTTTGTACGTGCGGCAATT 59.051 45.000 3.23 0.00 0.00 2.32
452 2244 1.461897 GTAGTTTGTACGTGCGGCAAT 59.538 47.619 3.23 0.00 0.00 3.56
453 2245 0.860533 GTAGTTTGTACGTGCGGCAA 59.139 50.000 3.23 0.00 0.00 4.52
454 2246 0.249363 TGTAGTTTGTACGTGCGGCA 60.249 50.000 0.00 0.00 0.00 5.69
455 2247 0.437295 CTGTAGTTTGTACGTGCGGC 59.563 55.000 0.00 0.00 0.00 6.53
456 2248 1.065358 CCTGTAGTTTGTACGTGCGG 58.935 55.000 0.00 0.00 0.00 5.69
457 2249 1.717645 GACCTGTAGTTTGTACGTGCG 59.282 52.381 0.00 0.00 0.00 5.34
471 2263 2.282674 TGCTACGACGGGACCTGT 60.283 61.111 5.37 5.37 0.00 4.00
472 2264 2.490217 CTGCTACGACGGGACCTG 59.510 66.667 0.00 0.00 0.00 4.00
475 2280 2.102553 GAGCTGCTACGACGGGAC 59.897 66.667 0.15 0.00 0.00 4.46
493 2302 4.263139 TGATGATGAAATGAAAGCGACG 57.737 40.909 0.00 0.00 0.00 5.12
519 3156 9.834628 CTTGTTGAAACTTGTTCTTGTTTACTA 57.165 29.630 0.00 0.00 36.64 1.82
521 3158 8.736751 TCTTGTTGAAACTTGTTCTTGTTTAC 57.263 30.769 0.00 0.00 36.64 2.01
557 4206 2.124411 GGGAGTAGGCATTGGGAGTAA 58.876 52.381 0.00 0.00 0.00 2.24
558 4207 1.694693 GGGGAGTAGGCATTGGGAGTA 60.695 57.143 0.00 0.00 0.00 2.59
559 4208 0.988678 GGGGAGTAGGCATTGGGAGT 60.989 60.000 0.00 0.00 0.00 3.85
561 4210 1.696314 GGGGGAGTAGGCATTGGGA 60.696 63.158 0.00 0.00 0.00 4.37
562 4211 1.697754 AGGGGGAGTAGGCATTGGG 60.698 63.158 0.00 0.00 0.00 4.12
563 4212 1.709994 GGAGGGGGAGTAGGCATTGG 61.710 65.000 0.00 0.00 0.00 3.16
564 4213 1.839894 GGAGGGGGAGTAGGCATTG 59.160 63.158 0.00 0.00 0.00 2.82
565 4214 1.766461 CGGAGGGGGAGTAGGCATT 60.766 63.158 0.00 0.00 0.00 3.56
566 4215 2.037304 ATCGGAGGGGGAGTAGGCAT 62.037 60.000 0.00 0.00 0.00 4.40
571 4220 2.519441 CGGATCGGAGGGGGAGTA 59.481 66.667 0.00 0.00 0.00 2.59
596 4245 4.270566 TCGTTTTGTTTATGCGTGTGTACT 59.729 37.500 0.00 0.00 0.00 2.73
597 4246 4.516359 TCGTTTTGTTTATGCGTGTGTAC 58.484 39.130 0.00 0.00 0.00 2.90
599 4248 3.677190 TCGTTTTGTTTATGCGTGTGT 57.323 38.095 0.00 0.00 0.00 3.72
611 5139 1.134936 GGCTTTGGGTGTTCGTTTTGT 60.135 47.619 0.00 0.00 0.00 2.83
615 5143 1.830847 GGGGCTTTGGGTGTTCGTT 60.831 57.895 0.00 0.00 0.00 3.85
616 5144 2.203437 GGGGCTTTGGGTGTTCGT 60.203 61.111 0.00 0.00 0.00 3.85
618 5146 1.051556 TTTGGGGGCTTTGGGTGTTC 61.052 55.000 0.00 0.00 0.00 3.18
619 5147 1.003573 TTTGGGGGCTTTGGGTGTT 59.996 52.632 0.00 0.00 0.00 3.32
620 5148 1.459348 CTTTGGGGGCTTTGGGTGT 60.459 57.895 0.00 0.00 0.00 4.16
631 6487 4.158949 CCCCGTTATTTTAACTCTTTGGGG 59.841 45.833 10.20 10.20 45.98 4.96
700 8392 3.649986 GTGTGGTCACGGCTGCAC 61.650 66.667 0.50 0.00 34.79 4.57
702 8394 3.649986 GTGTGTGGTCACGGCTGC 61.650 66.667 0.00 0.00 46.49 5.25
713 8439 3.470709 AGTCACTGATCTTTGGTGTGTG 58.529 45.455 0.00 0.00 33.30 3.82
714 8440 3.845781 AGTCACTGATCTTTGGTGTGT 57.154 42.857 0.00 0.00 33.30 3.72
835 14157 4.133078 GCAGCTAGCTAGATTCCAAATGT 58.867 43.478 25.15 0.00 41.15 2.71
858 14180 1.289066 CGCGCCCAATAGCTAGCTA 59.711 57.895 26.09 26.09 0.00 3.32
872 14263 3.368455 GACCTAGCAAGCAACGCGC 62.368 63.158 5.73 0.00 42.91 6.86
886 14283 0.832135 TCACGCTTCTCCCAAGACCT 60.832 55.000 0.00 0.00 0.00 3.85
889 14286 0.541998 TCCTCACGCTTCTCCCAAGA 60.542 55.000 0.00 0.00 0.00 3.02
890 14287 0.108424 CTCCTCACGCTTCTCCCAAG 60.108 60.000 0.00 0.00 0.00 3.61
922 15470 4.019771 GCTTCCCTTAATATCTCCCCAGAG 60.020 50.000 0.00 0.00 41.93 3.35
923 15471 3.910627 GCTTCCCTTAATATCTCCCCAGA 59.089 47.826 0.00 0.00 0.00 3.86
933 15482 6.609876 TGGAATATGCTTGCTTCCCTTAATA 58.390 36.000 8.85 0.00 38.11 0.98
979 16962 2.007547 GCCGCCCAAGTTCTAGACTTC 61.008 57.143 0.00 0.00 45.40 3.01
1119 17115 0.378962 CGTAGAAGAGGAGGTCGCTG 59.621 60.000 0.00 0.00 0.00 5.18
1215 17217 4.135153 CGGTGAGGAGGTGCGGAG 62.135 72.222 0.00 0.00 0.00 4.63
1216 17218 4.988716 ACGGTGAGGAGGTGCGGA 62.989 66.667 0.00 0.00 0.00 5.54
1227 17229 3.263503 CTCCTCGTGCGAACGGTGA 62.264 63.158 17.57 11.87 0.00 4.02
1307 17312 4.796495 GGACGACCCCATGCCCAC 62.796 72.222 0.00 0.00 0.00 4.61
1429 17446 2.659244 GAACACGAACGGCACCGA 60.659 61.111 17.40 0.00 42.83 4.69
1479 17499 2.998949 GGGAAGACGCCCCTGATT 59.001 61.111 0.00 0.00 42.62 2.57
1736 17843 7.597386 TCTACAGATTGATCGATCGATTGAAT 58.403 34.615 29.89 26.95 34.60 2.57
1737 17844 6.970484 TCTACAGATTGATCGATCGATTGAA 58.030 36.000 29.89 24.05 34.60 2.69
1738 17845 6.560253 TCTACAGATTGATCGATCGATTGA 57.440 37.500 29.89 21.23 34.60 2.57
1739 17846 6.253083 CCATCTACAGATTGATCGATCGATTG 59.747 42.308 29.89 24.33 31.46 2.67
1744 17851 7.284261 TCCTATCCATCTACAGATTGATCGATC 59.716 40.741 18.72 18.72 37.82 3.69
1918 18149 6.968263 TTACATTTGTGGAATTCCTTGTCA 57.032 33.333 24.73 14.99 36.82 3.58
1922 18153 7.360113 AGTGTTTACATTTGTGGAATTCCTT 57.640 32.000 24.73 2.73 36.82 3.36
1937 18168 4.253685 GCCTGCTGAGATAAGTGTTTACA 58.746 43.478 0.00 0.00 0.00 2.41
1941 18172 2.938756 GCTGCCTGCTGAGATAAGTGTT 60.939 50.000 0.00 0.00 38.95 3.32
1997 18937 7.753309 TTATGTCTGGATCCTTTTCGAAAAA 57.247 32.000 22.67 10.76 0.00 1.94
1998 18938 7.753309 TTTATGTCTGGATCCTTTTCGAAAA 57.247 32.000 21.35 21.35 0.00 2.29
1999 18939 7.753309 TTTTATGTCTGGATCCTTTTCGAAA 57.247 32.000 14.23 6.47 0.00 3.46
2000 18940 7.829211 AGATTTTATGTCTGGATCCTTTTCGAA 59.171 33.333 14.23 0.00 0.00 3.71
2001 18941 7.280876 CAGATTTTATGTCTGGATCCTTTTCGA 59.719 37.037 14.23 0.00 39.48 3.71
2002 18942 7.280876 TCAGATTTTATGTCTGGATCCTTTTCG 59.719 37.037 14.23 0.00 42.58 3.46
2003 18943 8.511604 TCAGATTTTATGTCTGGATCCTTTTC 57.488 34.615 14.23 1.80 42.58 2.29
2004 18944 8.743714 GTTCAGATTTTATGTCTGGATCCTTTT 58.256 33.333 14.23 0.00 42.58 2.27
2005 18945 8.112183 AGTTCAGATTTTATGTCTGGATCCTTT 58.888 33.333 14.23 0.00 42.58 3.11
2006 18946 7.637511 AGTTCAGATTTTATGTCTGGATCCTT 58.362 34.615 14.23 0.00 42.58 3.36
2007 18947 7.205515 AGTTCAGATTTTATGTCTGGATCCT 57.794 36.000 14.23 0.00 42.58 3.24
2008 18948 8.964476 TTAGTTCAGATTTTATGTCTGGATCC 57.036 34.615 4.20 4.20 42.58 3.36
2011 18951 9.739276 ACAATTAGTTCAGATTTTATGTCTGGA 57.261 29.630 3.58 0.00 42.58 3.86
2024 18964 9.337396 ACAAACTGTGATAACAATTAGTTCAGA 57.663 29.630 0.00 0.00 41.64 3.27
2025 18965 9.599322 GACAAACTGTGATAACAATTAGTTCAG 57.401 33.333 0.00 0.00 41.64 3.02
2026 18966 9.114952 TGACAAACTGTGATAACAATTAGTTCA 57.885 29.630 0.00 0.00 41.64 3.18
2113 19058 1.297967 CTCACCGTCGAGATCAGCG 60.298 63.158 0.00 0.00 34.79 5.18
2262 19575 7.164230 TGTACATTCGGGCAAGAAATTAATT 57.836 32.000 0.00 0.00 33.43 1.40
2275 19588 5.880054 ACAGAGAAAAATGTACATTCGGG 57.120 39.130 21.02 8.99 0.00 5.14
2309 19663 2.880268 CCACACATACCATGCATCGATT 59.120 45.455 0.00 0.00 0.00 3.34
2323 19679 3.258372 CCTCCTATATACACGCCACACAT 59.742 47.826 0.00 0.00 0.00 3.21
2331 19687 4.017808 CCTCCCTTCCTCCTATATACACG 58.982 52.174 0.00 0.00 0.00 4.49
2432 19788 2.135139 GATGAATTGGCGTGCTCGATA 58.865 47.619 13.13 0.00 39.71 2.92
2458 19817 1.136690 CAAGCAGCTTGTTGTGCATG 58.863 50.000 24.89 0.00 42.47 4.06
2459 19818 0.599204 GCAAGCAGCTTGTTGTGCAT 60.599 50.000 31.26 0.00 42.77 3.96
2464 19826 2.206750 ACAATTGCAAGCAGCTTGTTG 58.793 42.857 31.26 27.72 42.77 3.33
2478 19840 5.461737 ACGGACAGTTGCAAAATTACAATTG 59.538 36.000 0.00 3.24 38.87 2.32
2492 19854 1.860950 CACAGAACTCACGGACAGTTG 59.139 52.381 1.10 0.00 34.10 3.16
2495 19863 2.225068 AACACAGAACTCACGGACAG 57.775 50.000 0.00 0.00 0.00 3.51
2496 19864 2.276201 CAAACACAGAACTCACGGACA 58.724 47.619 0.00 0.00 0.00 4.02
2603 19987 5.327891 GCAAACAGCTGAACTTTAGATAGC 58.672 41.667 23.35 6.28 41.15 2.97
2626 20139 4.570772 CACCCAACTATTACAATCTGGTCG 59.429 45.833 0.00 0.00 0.00 4.79
2674 20203 9.942850 CACCACTCCATACATTGATATATACAA 57.057 33.333 0.00 0.00 0.00 2.41
2680 20213 7.884877 CCAATACACCACTCCATACATTGATAT 59.115 37.037 0.00 0.00 0.00 1.63
2745 20295 1.710809 AGTGCCCAACCAAATACTCCT 59.289 47.619 0.00 0.00 0.00 3.69
2746 20296 1.818674 CAGTGCCCAACCAAATACTCC 59.181 52.381 0.00 0.00 0.00 3.85
2747 20297 2.514803 ACAGTGCCCAACCAAATACTC 58.485 47.619 0.00 0.00 0.00 2.59
2748 20298 2.675658 ACAGTGCCCAACCAAATACT 57.324 45.000 0.00 0.00 0.00 2.12
2749 20299 3.570550 TGTAACAGTGCCCAACCAAATAC 59.429 43.478 0.00 0.00 0.00 1.89
2750 20300 3.823873 CTGTAACAGTGCCCAACCAAATA 59.176 43.478 0.00 0.00 0.00 1.40
2787 20337 4.688879 TGTCAGGAAACAGCTAAACATACG 59.311 41.667 0.00 0.00 0.00 3.06
2859 20411 3.295973 GTGCCCATATGTGTACCCAATT 58.704 45.455 1.24 0.00 0.00 2.32
2917 20473 0.884704 ATCAACGGACCACTGTGTGC 60.885 55.000 7.08 0.00 35.61 4.57
3147 20937 6.321690 TCAAGAAGTTACTAGGGAGCATCTAC 59.678 42.308 0.00 0.00 33.73 2.59
3172 20962 6.784969 AGAGCTGTAGTGGGAAGTATCAATAT 59.215 38.462 0.00 0.00 0.00 1.28
3202 20992 3.648067 TGTCCTCTTGGTCTGAAGAATGT 59.352 43.478 0.00 0.00 31.52 2.71
3216 21006 2.211250 AGCATGCATTGTGTCCTCTT 57.789 45.000 21.98 0.00 0.00 2.85
3225 21015 2.286294 GGTTCTCGAGTAGCATGCATTG 59.714 50.000 21.98 9.36 0.00 2.82
3243 21080 1.068434 CATCACAGGCAAAAACGGGTT 59.932 47.619 0.00 0.00 0.00 4.11
3256 21093 7.495606 TGTTATAATTGTGCTAGGTCATCACAG 59.504 37.037 0.00 0.00 41.12 3.66
3260 21097 8.673711 TGTTTGTTATAATTGTGCTAGGTCATC 58.326 33.333 0.00 0.00 0.00 2.92
3354 21191 1.675714 GGATGCACGACAGACCATTCA 60.676 52.381 0.00 0.00 0.00 2.57
3378 21215 9.250624 GCTAATACTTCTTTCATCAACGTCTAT 57.749 33.333 0.00 0.00 0.00 1.98


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

AutoCloner maintained by Alex Coulton.