Multiple sequence alignment - TraesCS7D01G472300

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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 TraesCS7D01G472300 chr7D 100.000 5279 0 0 1 5279 585555504 585560782 0.000000e+00 9749.0
1 TraesCS7D01G472300 chr7A 93.805 4342 191 36 1 4295 675586072 675590382 0.000000e+00 6457.0
2 TraesCS7D01G472300 chr7A 87.124 466 33 14 4351 4798 675592460 675592916 2.190000e-138 503.0
3 TraesCS7D01G472300 chr7A 81.222 442 51 20 4838 5277 675593127 675593538 1.420000e-85 327.0
4 TraesCS7D01G472300 chr7A 96.471 85 3 0 4285 4369 675590928 675591012 1.980000e-29 141.0
5 TraesCS7D01G472300 chr7B 94.735 2507 117 9 909 3409 654915872 654918369 0.000000e+00 3884.0
6 TraesCS7D01G472300 chr7B 93.880 915 45 6 3383 4295 654921665 654922570 0.000000e+00 1369.0
7 TraesCS7D01G472300 chr7B 89.172 942 57 18 1 907 654914834 654915765 0.000000e+00 1133.0
8 TraesCS7D01G472300 chr7B 86.193 746 47 33 4282 5016 654923162 654923862 0.000000e+00 756.0
9 TraesCS7D01G472300 chr7B 86.531 245 25 5 5032 5275 654923852 654924089 4.050000e-66 263.0
10 TraesCS7D01G472300 chr7B 80.645 186 31 5 5080 5263 337632993 337633175 7.130000e-29 139.0
11 TraesCS7D01G472300 chr7B 95.161 62 3 0 4288 4349 654923109 654923170 1.210000e-16 99.0
12 TraesCS7D01G472300 chr7B 100.000 31 0 0 1027 1057 654915930 654915960 2.050000e-04 58.4
13 TraesCS7D01G472300 chr2A 76.510 1358 267 40 2846 4186 720060899 720059577 0.000000e+00 693.0
14 TraesCS7D01G472300 chr2A 75.587 1405 283 40 2809 4195 720315345 720313983 1.600000e-179 640.0
15 TraesCS7D01G472300 chr2A 77.327 591 120 12 1007 1593 720062674 720062094 2.360000e-88 337.0
16 TraesCS7D01G472300 chr2A 71.809 1277 314 37 1000 2247 750554466 750555725 6.600000e-84 322.0
17 TraesCS7D01G472300 chr2A 88.412 233 25 2 4795 5026 333731519 333731288 4.030000e-71 279.0
18 TraesCS7D01G472300 chr2A 77.419 186 41 1 2793 2977 750556506 750556691 5.590000e-20 110.0
19 TraesCS7D01G472300 chr2A 78.431 102 19 3 2874 2973 52762962 52762862 4.410000e-06 63.9
20 TraesCS7D01G472300 chr2B 75.895 1369 276 43 2846 4195 707415680 707414347 0.000000e+00 651.0
21 TraesCS7D01G472300 chr2B 75.421 1367 280 46 2846 4195 707671807 707670480 3.490000e-171 612.0
22 TraesCS7D01G472300 chr2B 76.543 1134 222 34 3072 4195 707462899 707461800 9.850000e-162 580.0
23 TraesCS7D01G472300 chr2B 72.047 1270 327 21 998 2247 758802372 758801111 2.340000e-93 353.0
24 TraesCS7D01G472300 chr2B 82.212 208 37 0 3094 3301 706731247 706731040 4.200000e-41 180.0
25 TraesCS7D01G472300 chr2B 73.460 422 99 11 3735 4151 707239653 707239240 4.260000e-31 147.0
26 TraesCS7D01G472300 chr2B 78.378 222 39 8 1020 1236 707956666 707956449 9.220000e-28 135.0
27 TraesCS7D01G472300 chr2B 78.495 186 39 1 2793 2977 758800445 758800260 2.580000e-23 121.0
28 TraesCS7D01G472300 chr2D 74.946 1393 275 52 2822 4195 586153273 586154610 5.930000e-159 571.0
29 TraesCS7D01G472300 chr2D 77.901 810 157 16 2846 3641 585894539 585893738 7.950000e-133 484.0
30 TraesCS7D01G472300 chr2D 71.833 1271 328 26 998 2247 619402553 619403814 2.360000e-88 337.0
31 TraesCS7D01G472300 chr2D 76.661 587 122 13 1016 1597 586151542 586152118 1.430000e-80 311.0
32 TraesCS7D01G472300 chr2D 87.983 233 26 2 4795 5026 284575425 284575656 1.870000e-69 274.0
33 TraesCS7D01G472300 chr2D 86.758 219 29 0 4799 5017 493070720 493070938 1.470000e-60 244.0
34 TraesCS7D01G472300 chr2D 95.522 134 6 0 724 857 647118357 647118490 1.150000e-51 215.0
35 TraesCS7D01G472300 chr2D 76.510 298 64 5 1907 2201 585958900 585959194 1.970000e-34 158.0
36 TraesCS7D01G472300 chr2D 77.295 207 43 4 2054 2258 619328460 619328664 9.290000e-23 119.0
37 TraesCS7D01G472300 chr2D 78.333 180 39 0 2793 2972 619404572 619404751 3.340000e-22 117.0
38 TraesCS7D01G472300 chr4A 79.449 472 57 19 4795 5264 685344509 685344942 1.110000e-76 298.0
39 TraesCS7D01G472300 chr4A 78.842 449 61 18 4798 5243 512044454 512044037 6.740000e-69 272.0
40 TraesCS7D01G472300 chr4A 78.270 474 59 18 4795 5266 477054304 477054735 1.130000e-66 265.0
41 TraesCS7D01G472300 chr4A 88.462 52 4 2 536 587 725860915 725860964 1.590000e-05 62.1
42 TraesCS7D01G472300 chr3B 85.417 240 32 2 4795 5034 492572883 492573119 4.080000e-61 246.0
43 TraesCS7D01G472300 chr1B 87.019 208 27 0 4795 5002 638679196 638679403 8.840000e-58 235.0
44 TraesCS7D01G472300 chr6A 75.264 473 77 31 4795 5263 499217022 499217458 6.980000e-44 189.0
45 TraesCS7D01G472300 chr6A 74.942 431 95 11 1033 1455 593442506 593442081 9.030000e-43 185.0
46 TraesCS7D01G472300 chr5A 85.246 183 23 3 5023 5204 129738829 129739008 9.030000e-43 185.0
47 TraesCS7D01G472300 chr5A 78.713 202 41 2 3390 3590 704370818 704371018 3.320000e-27 134.0
48 TraesCS7D01G472300 chr5A 94.444 36 0 1 546 581 377121065 377121098 3.000000e-03 54.7
49 TraesCS7D01G472300 chr6D 75.158 475 72 30 4800 5266 356768663 356769099 1.170000e-41 182.0
50 TraesCS7D01G472300 chr5D 84.153 183 25 3 5025 5206 119616610 119616789 1.950000e-39 174.0
51 TraesCS7D01G472300 chr5B 80.000 205 35 5 5025 5226 132586049 132586250 4.260000e-31 147.0
52 TraesCS7D01G472300 chr4D 79.703 202 39 2 3390 3590 508341877 508342077 1.530000e-30 145.0


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 TraesCS7D01G472300 chr7D 585555504 585560782 5278 False 9749.00 9749 100.000000 1 5279 1 chr7D.!!$F1 5278
1 TraesCS7D01G472300 chr7A 675586072 675593538 7466 False 1857.00 6457 89.655500 1 5277 4 chr7A.!!$F1 5276
2 TraesCS7D01G472300 chr7B 654914834 654918369 3535 False 1691.80 3884 94.635667 1 3409 3 chr7B.!!$F2 3408
3 TraesCS7D01G472300 chr7B 654921665 654924089 2424 False 621.75 1369 90.441250 3383 5275 4 chr7B.!!$F3 1892
4 TraesCS7D01G472300 chr2A 720313983 720315345 1362 True 640.00 640 75.587000 2809 4195 1 chr2A.!!$R3 1386
5 TraesCS7D01G472300 chr2A 720059577 720062674 3097 True 515.00 693 76.918500 1007 4186 2 chr2A.!!$R4 3179
6 TraesCS7D01G472300 chr2A 750554466 750556691 2225 False 216.00 322 74.614000 1000 2977 2 chr2A.!!$F1 1977
7 TraesCS7D01G472300 chr2B 707414347 707415680 1333 True 651.00 651 75.895000 2846 4195 1 chr2B.!!$R3 1349
8 TraesCS7D01G472300 chr2B 707670480 707671807 1327 True 612.00 612 75.421000 2846 4195 1 chr2B.!!$R5 1349
9 TraesCS7D01G472300 chr2B 707461800 707462899 1099 True 580.00 580 76.543000 3072 4195 1 chr2B.!!$R4 1123
10 TraesCS7D01G472300 chr2B 758800260 758802372 2112 True 237.00 353 75.271000 998 2977 2 chr2B.!!$R7 1979
11 TraesCS7D01G472300 chr2D 585893738 585894539 801 True 484.00 484 77.901000 2846 3641 1 chr2D.!!$R1 795
12 TraesCS7D01G472300 chr2D 586151542 586154610 3068 False 441.00 571 75.803500 1016 4195 2 chr2D.!!$F6 3179
13 TraesCS7D01G472300 chr2D 619402553 619404751 2198 False 227.00 337 75.083000 998 2972 2 chr2D.!!$F7 1974

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
841 907 0.251209 ACAGCGACTGACAGAGGGTA 60.251 55.0 10.08 0.00 35.18 3.69 F
1269 1448 0.392595 CTGCAGAGCTTGGCATCAGA 60.393 55.0 8.42 0.00 39.65 3.27 F
2194 2379 0.179018 AGGGGAGCTTGTTGACACAC 60.179 55.0 0.00 0.00 30.32 3.82 F
2195 2380 0.465460 GGGGAGCTTGTTGACACACA 60.465 55.0 0.00 0.00 30.32 3.72 F
2377 2625 0.846693 AACTCTTTGGCAGGGAGTGT 59.153 50.0 19.78 9.71 39.80 3.55 F
4059 4619 0.107459 GCCCCCTAGAAGAAGCTGTG 60.107 60.0 0.00 0.00 0.00 3.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2195 2380 1.267806 CGCCATTGTTGCTGAACTTCT 59.732 47.619 0.0 0.0 32.79 2.85 R
3022 3560 0.317854 GTGAGCGTTTTTCACTGGGC 60.318 55.000 0.0 0.0 41.29 5.36 R
4041 4601 0.107459 GCACAGCTTCTTCTAGGGGG 60.107 60.000 0.0 0.0 0.00 5.40 R
4044 4604 0.247736 ACCGCACAGCTTCTTCTAGG 59.752 55.000 0.0 0.0 0.00 3.02 R
4167 4727 0.524414 AATACGCGGGTTTCTTTGGC 59.476 50.000 11.5 0.0 0.00 4.52 R
5020 7879 0.179097 GGAGAGGATCACAGTTCGGC 60.179 60.000 0.0 0.0 37.82 5.54 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
118 121 3.242837 GCTGCTTTCATCATTCACGCATA 60.243 43.478 0.00 0.00 0.00 3.14
196 202 3.023119 TGTGGTTGACATTGAAAGCTGT 58.977 40.909 0.00 0.00 0.00 4.40
350 370 8.254508 TGCTAAAATAAGCCAAAAATACGGATT 58.745 29.630 0.00 0.00 42.05 3.01
366 386 2.675348 CGGATTGACTGAGAAAGAAGCC 59.325 50.000 0.00 0.00 0.00 4.35
489 533 0.663153 CCCAAAGTATAAGCGGCAGC 59.337 55.000 0.00 0.00 45.58 5.25
581 647 5.982890 AATCAGTGACACTTATTTTGGGG 57.017 39.130 5.04 0.00 0.00 4.96
600 666 4.409574 TGGGGCGGAGAGTACAAAATTATA 59.590 41.667 0.00 0.00 0.00 0.98
643 709 3.054361 ACAACTGTCACCTCCAAGAAACT 60.054 43.478 0.00 0.00 0.00 2.66
718 784 0.605589 AGACAGCGAGGACTTGAAGG 59.394 55.000 0.00 0.00 0.00 3.46
805 871 7.713764 TCATGTCATAACTCCGTTGATAATG 57.286 36.000 0.00 0.00 0.00 1.90
841 907 0.251209 ACAGCGACTGACAGAGGGTA 60.251 55.000 10.08 0.00 35.18 3.69
864 930 2.627221 CCCAACCACACATTCATTCACA 59.373 45.455 0.00 0.00 0.00 3.58
893 961 1.065854 CCCAACTGTTGCCAAAAACCA 60.066 47.619 14.94 0.00 0.00 3.67
925 1098 8.779303 AGTCAGTCTTATCGATTATCTGTACTG 58.221 37.037 1.71 8.50 33.60 2.74
926 1099 8.561212 GTCAGTCTTATCGATTATCTGTACTGT 58.439 37.037 1.71 0.00 33.92 3.55
927 1100 8.560374 TCAGTCTTATCGATTATCTGTACTGTG 58.440 37.037 1.71 0.00 33.92 3.66
937 1110 7.649705 CGATTATCTGTACTGTGTGCTATTTCT 59.350 37.037 0.00 0.00 0.00 2.52
939 1112 6.974932 ATCTGTACTGTGTGCTATTTCTTG 57.025 37.500 0.00 0.00 0.00 3.02
954 1127 5.913137 ATTTCTTGGACTTCACACACAAA 57.087 34.783 0.00 0.00 0.00 2.83
961 1134 3.270877 GACTTCACACACAAACAGACCT 58.729 45.455 0.00 0.00 0.00 3.85
975 1148 6.722129 ACAAACAGACCTAGAAGACACTATCT 59.278 38.462 0.00 0.00 40.46 1.98
1083 1256 2.165030 GCTCACATATGCAAAGCCACTT 59.835 45.455 1.58 0.00 0.00 3.16
1101 1274 2.125753 GCCTCAGGCGACACTCTG 60.126 66.667 0.00 0.00 39.62 3.35
1262 1441 1.888215 TCTGTTTCTGCAGAGCTTGG 58.112 50.000 17.43 7.83 40.23 3.61
1269 1448 0.392595 CTGCAGAGCTTGGCATCAGA 60.393 55.000 8.42 0.00 39.65 3.27
1488 1670 4.042398 TCGTGCTGAGTTATAAAGATCGC 58.958 43.478 0.00 0.00 0.00 4.58
1579 1761 0.961753 CCCCAGTTCAAACCTTCAGC 59.038 55.000 0.00 0.00 0.00 4.26
1602 1784 6.305693 CTAGTAATTTGGCATGGAACTAGC 57.694 41.667 11.96 0.00 31.53 3.42
1699 1881 0.865769 GTACCAAACAGCCACTGACG 59.134 55.000 0.78 0.00 35.18 4.35
1701 1883 0.393808 ACCAAACAGCCACTGACGTT 60.394 50.000 0.78 0.00 35.18 3.99
1708 1890 1.668151 GCCACTGACGTTGGAGACC 60.668 63.158 8.97 0.00 0.00 3.85
1762 1944 3.663025 TCACCATATGTGCGTATGATGG 58.337 45.455 11.73 8.91 45.03 3.51
1801 1983 5.998454 AATGAAGATATTGAGTTGGAGCG 57.002 39.130 0.00 0.00 0.00 5.03
2154 2339 2.575735 TGATGGCACTTATGAAGACCCA 59.424 45.455 0.00 0.00 36.91 4.51
2194 2379 0.179018 AGGGGAGCTTGTTGACACAC 60.179 55.000 0.00 0.00 30.32 3.82
2195 2380 0.465460 GGGGAGCTTGTTGACACACA 60.465 55.000 0.00 0.00 30.32 3.72
2343 2591 6.662414 TTTATGTCAATCAAGTAGCCTTCG 57.338 37.500 0.00 0.00 0.00 3.79
2377 2625 0.846693 AACTCTTTGGCAGGGAGTGT 59.153 50.000 19.78 9.71 39.80 3.55
2650 3147 3.958018 TGTAACCCCGATTATTGCAAGT 58.042 40.909 4.94 0.00 0.00 3.16
2704 3201 5.567430 ACGGTATGCATATACAGAGGTAGA 58.433 41.667 10.16 0.00 40.77 2.59
2705 3202 6.008331 ACGGTATGCATATACAGAGGTAGAA 58.992 40.000 10.16 0.00 40.77 2.10
2706 3203 6.072064 ACGGTATGCATATACAGAGGTAGAAC 60.072 42.308 10.16 0.00 40.77 3.01
2707 3204 6.072119 CGGTATGCATATACAGAGGTAGAACA 60.072 42.308 10.16 0.00 40.77 3.18
2708 3205 7.091443 GGTATGCATATACAGAGGTAGAACAC 58.909 42.308 10.16 0.00 40.77 3.32
2740 3238 6.566079 TGAGTCCCTGATTACAGAATTCAT 57.434 37.500 8.44 0.00 46.03 2.57
2842 3371 7.432869 ACAGATGTTAAGATATGTCAGCTCTC 58.567 38.462 7.03 0.00 0.00 3.20
2870 3399 2.276732 ATTGGAGGCGAATATGTGGG 57.723 50.000 0.00 0.00 0.00 4.61
2995 3525 6.894828 ACATAAAGTTTTACATCCACGACAC 58.105 36.000 0.00 0.00 0.00 3.67
3128 3667 3.754965 TGCTGTCAAAAGGCTTAGTGAT 58.245 40.909 14.49 0.00 0.00 3.06
3240 3779 4.920640 TCCATTTACGGAGATGAGAGAC 57.079 45.455 0.00 0.00 0.00 3.36
3335 3874 8.500753 ACACATCACTAAAAGTTCTTACAACA 57.499 30.769 0.00 0.00 0.00 3.33
3487 4038 7.067981 GGCTTCTTTATCTTCACCAAGATTCAT 59.932 37.037 2.66 0.00 45.68 2.57
3537 4088 6.533367 TCAAAGCAAGTAACATTTTGTTGGAC 59.467 34.615 3.22 0.00 41.30 4.02
3654 4205 9.263446 ACATAGTAAGTAACCAAATGTCCTAGA 57.737 33.333 0.00 0.00 0.00 2.43
3670 4223 5.840149 TGTCCTAGACAACCCTTAACTTACA 59.160 40.000 0.00 0.00 39.78 2.41
4041 4601 4.935352 ATCTTCAGTCATAGAGAGGTGC 57.065 45.455 0.00 0.00 0.00 5.01
4044 4604 0.755686 CAGTCATAGAGAGGTGCCCC 59.244 60.000 0.00 0.00 0.00 5.80
4059 4619 0.107459 GCCCCCTAGAAGAAGCTGTG 60.107 60.000 0.00 0.00 0.00 3.66
4167 4727 1.845809 GAAGTGCACTGGTTCCAGCG 61.846 60.000 22.49 10.27 37.57 5.18
4216 4776 5.223449 AGGTAATTGTGAAGTCGGAGAAA 57.777 39.130 0.00 0.00 39.69 2.52
4217 4777 5.805728 AGGTAATTGTGAAGTCGGAGAAAT 58.194 37.500 0.00 0.00 39.69 2.17
4230 4790 7.118496 AGTCGGAGAAATGATAGAACAGATT 57.882 36.000 0.00 0.00 39.69 2.40
4232 4792 6.201806 GTCGGAGAAATGATAGAACAGATTGG 59.798 42.308 0.00 0.00 39.69 3.16
4286 5464 5.479306 TCTAGATGGCCGTTAGATTATTGC 58.521 41.667 0.00 0.00 0.00 3.56
4299 5477 8.875803 CGTTAGATTATTGCCTGTTTTACTACA 58.124 33.333 0.00 0.00 0.00 2.74
4303 5481 9.113838 AGATTATTGCCTGTTTTACTACAGATG 57.886 33.333 5.39 0.00 46.72 2.90
4361 5539 8.663167 ACATATATTGTCTGGAATCTGGATTGA 58.337 33.333 0.17 0.00 30.89 2.57
4362 5540 9.163899 CATATATTGTCTGGAATCTGGATTGAG 57.836 37.037 0.17 0.00 0.00 3.02
4363 5541 5.705397 ATTGTCTGGAATCTGGATTGAGA 57.295 39.130 0.17 0.20 0.00 3.27
4364 5542 4.478206 TGTCTGGAATCTGGATTGAGAC 57.522 45.455 16.96 16.96 37.38 3.36
4365 5543 4.099633 TGTCTGGAATCTGGATTGAGACT 58.900 43.478 20.71 0.00 37.56 3.24
4366 5544 4.161189 TGTCTGGAATCTGGATTGAGACTC 59.839 45.833 20.71 0.00 37.56 3.36
4367 5545 4.161189 GTCTGGAATCTGGATTGAGACTCA 59.839 45.833 0.00 0.00 35.75 3.41
4368 5546 4.967442 TCTGGAATCTGGATTGAGACTCAT 59.033 41.667 5.87 0.00 0.00 2.90
4369 5547 5.032327 TGGAATCTGGATTGAGACTCATG 57.968 43.478 5.87 0.00 0.00 3.07
4370 5548 4.141551 TGGAATCTGGATTGAGACTCATGG 60.142 45.833 5.87 0.00 0.00 3.66
4371 5549 4.102210 GGAATCTGGATTGAGACTCATGGA 59.898 45.833 5.87 1.52 0.00 3.41
4372 5550 4.686191 ATCTGGATTGAGACTCATGGAC 57.314 45.455 5.87 0.00 0.00 4.02
4373 5551 2.428530 TCTGGATTGAGACTCATGGACG 59.571 50.000 5.87 0.00 0.00 4.79
4374 5552 2.428530 CTGGATTGAGACTCATGGACGA 59.571 50.000 5.87 0.00 0.00 4.20
4390 7048 2.354821 GGACGAAGACAGCAACAACTTT 59.645 45.455 0.00 0.00 0.00 2.66
4410 7068 4.143333 CCGTAGCACTGACCGGGG 62.143 72.222 6.32 0.00 36.84 5.73
4411 7069 4.814294 CGTAGCACTGACCGGGGC 62.814 72.222 6.32 0.00 0.00 5.80
4421 7079 2.204029 ACCGGGGCCTCCAAGTTA 60.204 61.111 6.32 0.00 34.36 2.24
4423 7081 1.993391 CCGGGGCCTCCAAGTTAGA 60.993 63.158 0.84 0.00 34.36 2.10
4424 7082 1.522569 CGGGGCCTCCAAGTTAGAG 59.477 63.158 0.84 0.00 34.36 2.43
4439 7097 5.669164 AGTTAGAGGCAGAAACTTCCTAG 57.331 43.478 0.00 0.00 29.25 3.02
4463 7121 8.128322 AGTGAGATATCCATGGTTCAGTATAC 57.872 38.462 12.58 0.00 0.00 1.47
4464 7122 7.030165 GTGAGATATCCATGGTTCAGTATACG 58.970 42.308 12.58 0.00 0.00 3.06
4465 7123 6.152831 TGAGATATCCATGGTTCAGTATACGG 59.847 42.308 12.58 0.00 0.00 4.02
4466 7124 6.017192 AGATATCCATGGTTCAGTATACGGT 58.983 40.000 12.58 0.00 0.00 4.83
4467 7125 4.602340 ATCCATGGTTCAGTATACGGTC 57.398 45.455 12.58 0.00 0.00 4.79
4468 7126 3.367321 TCCATGGTTCAGTATACGGTCA 58.633 45.455 12.58 1.89 0.00 4.02
4469 7127 3.770388 TCCATGGTTCAGTATACGGTCAA 59.230 43.478 12.58 0.00 0.00 3.18
4470 7128 4.407621 TCCATGGTTCAGTATACGGTCAAT 59.592 41.667 12.58 0.00 0.00 2.57
4471 7129 4.511454 CCATGGTTCAGTATACGGTCAATG 59.489 45.833 2.57 7.00 0.00 2.82
4472 7130 5.356426 CATGGTTCAGTATACGGTCAATGA 58.644 41.667 2.86 0.00 0.00 2.57
4476 7134 5.749109 GGTTCAGTATACGGTCAATGAGAAG 59.251 44.000 2.86 0.00 0.00 2.85
4479 7137 7.024340 TCAGTATACGGTCAATGAGAAGTAC 57.976 40.000 2.86 0.00 0.00 2.73
4489 7147 7.115520 CGGTCAATGAGAAGTACTATAAGCATG 59.884 40.741 0.00 0.00 0.00 4.06
4570 7232 7.166691 TGTCAGAGTACTATTTTACCTCCAC 57.833 40.000 0.00 0.00 0.00 4.02
4574 7236 7.341256 TCAGAGTACTATTTTACCTCCACGAAT 59.659 37.037 0.00 0.00 0.00 3.34
4589 7251 6.463049 CCTCCACGAATTATACAAGTCTGGAT 60.463 42.308 3.86 0.00 36.45 3.41
4651 7321 2.859273 CTAACCCTGCTGCACCCTCG 62.859 65.000 0.00 0.00 0.00 4.63
4731 7401 2.959465 AAGAGGCTGCCTTGTTAGTT 57.041 45.000 24.26 7.04 31.76 2.24
4739 7409 3.330267 CTGCCTTGTTAGTTGAGTCTCC 58.670 50.000 0.00 0.00 0.00 3.71
4740 7410 2.038557 TGCCTTGTTAGTTGAGTCTCCC 59.961 50.000 0.00 0.00 0.00 4.30
4741 7411 2.038557 GCCTTGTTAGTTGAGTCTCCCA 59.961 50.000 0.00 0.00 0.00 4.37
4742 7412 3.307762 GCCTTGTTAGTTGAGTCTCCCAT 60.308 47.826 0.00 0.00 0.00 4.00
4743 7413 4.256920 CCTTGTTAGTTGAGTCTCCCATG 58.743 47.826 0.00 0.00 0.00 3.66
4744 7414 3.334583 TGTTAGTTGAGTCTCCCATGC 57.665 47.619 0.00 0.00 0.00 4.06
4745 7415 2.027192 TGTTAGTTGAGTCTCCCATGCC 60.027 50.000 0.00 0.00 0.00 4.40
4746 7416 0.824109 TAGTTGAGTCTCCCATGCCG 59.176 55.000 0.00 0.00 0.00 5.69
4747 7417 1.194781 AGTTGAGTCTCCCATGCCGT 61.195 55.000 0.00 0.00 0.00 5.68
4748 7418 0.741221 GTTGAGTCTCCCATGCCGTC 60.741 60.000 0.00 0.00 0.00 4.79
4749 7419 2.105128 GAGTCTCCCATGCCGTCG 59.895 66.667 0.00 0.00 0.00 5.12
4750 7420 4.148825 AGTCTCCCATGCCGTCGC 62.149 66.667 0.00 0.00 0.00 5.19
4751 7421 4.148825 GTCTCCCATGCCGTCGCT 62.149 66.667 0.00 0.00 35.36 4.93
4752 7422 3.390521 TCTCCCATGCCGTCGCTT 61.391 61.111 0.00 0.00 35.36 4.68
4764 7434 2.031919 TCGCTTGACGCCAATGGT 59.968 55.556 0.00 0.00 43.23 3.55
4806 7493 1.414550 GCTGTCCCCTTATCTCTCCAC 59.585 57.143 0.00 0.00 0.00 4.02
4807 7494 2.752030 CTGTCCCCTTATCTCTCCACA 58.248 52.381 0.00 0.00 0.00 4.17
4808 7495 3.312890 CTGTCCCCTTATCTCTCCACAT 58.687 50.000 0.00 0.00 0.00 3.21
4809 7496 3.041211 TGTCCCCTTATCTCTCCACATG 58.959 50.000 0.00 0.00 0.00 3.21
4810 7497 2.050144 TCCCCTTATCTCTCCACATGC 58.950 52.381 0.00 0.00 0.00 4.06
4811 7498 1.770658 CCCCTTATCTCTCCACATGCA 59.229 52.381 0.00 0.00 0.00 3.96
4812 7499 2.374504 CCCCTTATCTCTCCACATGCAT 59.625 50.000 0.00 0.00 0.00 3.96
4814 7501 4.070716 CCCTTATCTCTCCACATGCATTC 58.929 47.826 0.00 0.00 0.00 2.67
4815 7502 4.070716 CCTTATCTCTCCACATGCATTCC 58.929 47.826 0.00 0.00 0.00 3.01
4816 7503 4.202440 CCTTATCTCTCCACATGCATTCCT 60.202 45.833 0.00 0.00 0.00 3.36
4817 7504 2.996249 TCTCTCCACATGCATTCCTC 57.004 50.000 0.00 0.00 0.00 3.71
4818 7505 2.475155 TCTCTCCACATGCATTCCTCT 58.525 47.619 0.00 0.00 0.00 3.69
4819 7506 2.169978 TCTCTCCACATGCATTCCTCTG 59.830 50.000 0.00 0.00 0.00 3.35
4820 7507 1.211212 TCTCCACATGCATTCCTCTGG 59.789 52.381 0.00 0.00 0.00 3.86
4821 7508 1.211212 CTCCACATGCATTCCTCTGGA 59.789 52.381 0.00 1.70 0.00 3.86
4846 7704 5.623824 GCTTGAACCAATCATCATGCTTCTT 60.624 40.000 6.44 0.00 41.15 2.52
4899 7757 0.803380 GTGCATCTGAAATTGGCGGC 60.803 55.000 0.00 0.00 0.00 6.53
4933 7791 5.844516 TCTCCGGATAGATTTGATTAGGGTT 59.155 40.000 3.57 0.00 0.00 4.11
4963 7821 3.136992 TCTCTCATAATCTTGGCATGGCA 59.863 43.478 19.43 19.43 0.00 4.92
4977 7835 0.390860 ATGGCACTCCGCTCTATCAC 59.609 55.000 0.00 0.00 41.91 3.06
4984 7843 2.959275 CCGCTCTATCACGGTTGAC 58.041 57.895 0.00 0.00 44.46 3.18
5002 7861 2.046796 TTGCATGCGGCCGAACTA 60.047 55.556 33.48 12.18 43.89 2.24
5003 7862 1.439353 CTTGCATGCGGCCGAACTAT 61.439 55.000 33.48 14.14 43.89 2.12
5017 7876 2.486203 CGAACTATGATCCTCTCCTCGG 59.514 54.545 0.00 0.00 0.00 4.63
5019 7878 3.149005 ACTATGATCCTCTCCTCGGTC 57.851 52.381 0.00 0.00 0.00 4.79
5020 7879 2.080693 CTATGATCCTCTCCTCGGTCG 58.919 57.143 0.00 0.00 0.00 4.79
5021 7880 1.175983 ATGATCCTCTCCTCGGTCGC 61.176 60.000 0.00 0.00 0.00 5.19
5022 7881 2.519780 ATCCTCTCCTCGGTCGCC 60.520 66.667 0.00 0.00 0.00 5.54
5042 7901 1.064803 CGAACTGTGATCCTCTCCTCG 59.935 57.143 0.00 0.00 0.00 4.63
5071 7930 5.429615 CGAACATCATCGTTGAAGATCATG 58.570 41.667 5.77 0.00 35.60 3.07
5075 7934 3.200483 TCATCGTTGAAGATCATGCCAG 58.800 45.455 0.00 0.00 0.00 4.85
5086 7945 0.322366 TCATGCCAGCGACCATTTCA 60.322 50.000 0.00 0.00 0.00 2.69
5089 7948 1.035923 TGCCAGCGACCATTTCAAAA 58.964 45.000 0.00 0.00 0.00 2.44
5090 7949 1.617850 TGCCAGCGACCATTTCAAAAT 59.382 42.857 0.00 0.00 0.00 1.82
5091 7950 2.262211 GCCAGCGACCATTTCAAAATC 58.738 47.619 0.00 0.00 0.00 2.17
5092 7951 2.352617 GCCAGCGACCATTTCAAAATCA 60.353 45.455 0.00 0.00 0.00 2.57
5096 7955 4.560035 CAGCGACCATTTCAAAATCATCAC 59.440 41.667 0.00 0.00 0.00 3.06
5098 7957 4.617995 GCGACCATTTCAAAATCATCACCA 60.618 41.667 0.00 0.00 0.00 4.17
5101 7960 6.405065 CGACCATTTCAAAATCATCACCATCT 60.405 38.462 0.00 0.00 0.00 2.90
5123 7982 4.455070 TCTTCTTCCTCCTCCGATGATA 57.545 45.455 0.00 0.00 0.00 2.15
5126 7985 5.841237 TCTTCTTCCTCCTCCGATGATAAAT 59.159 40.000 0.00 0.00 0.00 1.40
5170 8029 5.646793 TCTCAGCCTCTTCATCTTCAATTTG 59.353 40.000 0.00 0.00 0.00 2.32
5174 8033 7.177921 TCAGCCTCTTCATCTTCAATTTGAATT 59.822 33.333 12.04 1.26 35.59 2.17
5206 8065 8.477984 TGAATTCAACTGACAAAAGGAAAAAG 57.522 30.769 5.45 0.00 0.00 2.27
5208 8067 8.707938 AATTCAACTGACAAAAGGAAAAAGAG 57.292 30.769 0.00 0.00 0.00 2.85
5209 8068 7.461182 TTCAACTGACAAAAGGAAAAAGAGA 57.539 32.000 0.00 0.00 0.00 3.10
5210 8069 6.852664 TCAACTGACAAAAGGAAAAAGAGAC 58.147 36.000 0.00 0.00 0.00 3.36
5248 8107 0.763035 ACTCACCTAGGCAAACCGTT 59.237 50.000 9.30 0.00 42.76 4.44
5277 8137 0.798776 CAAGGCGGCAGAAGTGTAAG 59.201 55.000 13.08 0.00 0.00 2.34
5278 8138 0.321653 AAGGCGGCAGAAGTGTAAGG 60.322 55.000 13.08 0.00 0.00 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
272 287 1.961793 TTACGTTGCTGTTTCAGGCT 58.038 45.000 0.00 0.00 31.21 4.58
350 370 5.305644 AGAACTTAGGCTTCTTTCTCAGTCA 59.694 40.000 0.00 0.00 0.00 3.41
366 386 5.728471 TGATCCTGCTTCTTGAGAACTTAG 58.272 41.667 0.00 0.00 0.00 2.18
489 533 0.249868 TGGTCTGACCACTTTGCGAG 60.250 55.000 25.12 0.00 44.79 5.03
581 647 6.846325 AAGCTATAATTTTGTACTCTCCGC 57.154 37.500 0.00 0.00 0.00 5.54
600 666 9.726438 AGTTGTACATTATTGAAGAACTAAGCT 57.274 29.630 0.00 0.00 0.00 3.74
643 709 7.453439 TCCAATCCAGACTATATTTCGACCATA 59.547 37.037 0.00 0.00 0.00 2.74
718 784 0.824759 AGTCTCCGGTCAATGCTACC 59.175 55.000 0.00 0.00 0.00 3.18
805 871 1.201825 GTGAAGTCGACGTGCTTGC 59.798 57.895 9.23 0.00 0.00 4.01
841 907 2.247358 GAATGAATGTGTGGTTGGGGT 58.753 47.619 0.00 0.00 0.00 4.95
893 961 7.613801 AGATAATCGATAAGACTGACTAGGCAT 59.386 37.037 0.00 0.00 32.87 4.40
925 1098 4.515191 TGTGAAGTCCAAGAAATAGCACAC 59.485 41.667 0.00 0.00 0.00 3.82
926 1099 4.515191 GTGTGAAGTCCAAGAAATAGCACA 59.485 41.667 0.00 0.00 0.00 4.57
927 1100 4.515191 TGTGTGAAGTCCAAGAAATAGCAC 59.485 41.667 0.00 0.00 0.00 4.40
937 1110 3.438781 GTCTGTTTGTGTGTGAAGTCCAA 59.561 43.478 0.00 0.00 0.00 3.53
939 1112 2.354821 GGTCTGTTTGTGTGTGAAGTCC 59.645 50.000 0.00 0.00 0.00 3.85
954 1127 6.948886 TCAAAGATAGTGTCTTCTAGGTCTGT 59.051 38.462 2.26 0.00 46.39 3.41
961 1134 9.862371 GAATGAACTCAAAGATAGTGTCTTCTA 57.138 33.333 2.26 0.00 46.39 2.10
975 1148 4.518590 TCGGATTTGCAGAATGAACTCAAA 59.481 37.500 0.00 0.00 39.69 2.69
1269 1448 3.152341 CAAGATCAGGCCAGAAGTGTTT 58.848 45.455 5.01 0.00 0.00 2.83
1358 1540 0.179127 CGTGTCGAGGATCACTGCAT 60.179 55.000 0.00 0.00 33.17 3.96
1488 1670 2.184167 AACAAGACGCCCAACCACG 61.184 57.895 0.00 0.00 0.00 4.94
1579 1761 6.058183 AGCTAGTTCCATGCCAAATTACTAG 58.942 40.000 0.00 0.00 37.64 2.57
1602 1784 1.647545 CCATGGTGCGGCAGTACAAG 61.648 60.000 1.18 0.10 34.50 3.16
1699 1881 4.989168 CACAAAGTAGTACTGGTCTCCAAC 59.011 45.833 5.39 0.00 30.80 3.77
1701 1883 4.220724 ACACAAAGTAGTACTGGTCTCCA 58.779 43.478 5.39 0.00 0.00 3.86
1708 1890 6.736123 AGACTGTGTACACAAAGTAGTACTG 58.264 40.000 27.66 14.97 44.08 2.74
1762 1944 7.259290 TCTTCATTTTTCCAGTGTAGTCAAC 57.741 36.000 0.00 0.00 0.00 3.18
2020 2205 2.438434 GTTGGCCGGGACCATCAG 60.438 66.667 2.18 0.00 40.13 2.90
2121 2306 2.426522 GTGCCATCACTGCTCAAGTTA 58.573 47.619 0.00 0.00 36.83 2.24
2154 2339 2.906389 TGTCCAGACTAAGCACCTTGAT 59.094 45.455 0.00 0.00 0.00 2.57
2194 2379 2.669364 GCCATTGTTGCTGAACTTCTG 58.331 47.619 0.00 0.00 32.79 3.02
2195 2380 1.267806 CGCCATTGTTGCTGAACTTCT 59.732 47.619 0.00 0.00 32.79 2.85
2259 2498 3.744660 AGAAAATAATGCTAGGGCTCGG 58.255 45.455 0.00 0.00 39.59 4.63
2343 2591 4.510038 AAGAGTTGGTGTCAAATGATGC 57.490 40.909 0.00 0.00 34.28 3.91
2650 3147 4.502087 GCTATGCATGTCAGTATCACCAGA 60.502 45.833 10.16 0.00 0.00 3.86
2704 3201 3.381272 CAGGGACTCATGTTTGTTGTGTT 59.619 43.478 0.00 0.00 34.60 3.32
2705 3202 2.951642 CAGGGACTCATGTTTGTTGTGT 59.048 45.455 0.00 0.00 34.60 3.72
2706 3203 3.213506 TCAGGGACTCATGTTTGTTGTG 58.786 45.455 0.00 0.00 34.60 3.33
2707 3204 3.576078 TCAGGGACTCATGTTTGTTGT 57.424 42.857 0.00 0.00 34.60 3.32
2708 3205 5.473162 TGTAATCAGGGACTCATGTTTGTTG 59.527 40.000 0.00 0.00 34.60 3.33
2842 3371 3.591196 TTCGCCTCCAATTTCATTTGG 57.409 42.857 0.00 0.00 46.28 3.28
3022 3560 0.317854 GTGAGCGTTTTTCACTGGGC 60.318 55.000 0.00 0.00 41.29 5.36
3240 3779 9.915629 GTTGGGTAAGTATTCATAGATCAGTAG 57.084 37.037 0.00 0.00 0.00 2.57
3460 4011 5.505181 TCTTGGTGAAGATAAAGAAGCCT 57.495 39.130 0.00 0.00 32.98 4.58
3537 4088 9.656040 TCTGATATTTTGGGATTCATTTTTGTG 57.344 29.630 0.00 0.00 0.00 3.33
3615 4166 6.336842 ACTTACTATGTACCAACAACTCGT 57.663 37.500 0.00 0.00 39.58 4.18
4041 4601 0.107459 GCACAGCTTCTTCTAGGGGG 60.107 60.000 0.00 0.00 0.00 5.40
4044 4604 0.247736 ACCGCACAGCTTCTTCTAGG 59.752 55.000 0.00 0.00 0.00 3.02
4059 4619 0.657840 GTCCTACATGAATGCACCGC 59.342 55.000 0.00 0.00 0.00 5.68
4167 4727 0.524414 AATACGCGGGTTTCTTTGGC 59.476 50.000 11.50 0.00 0.00 4.52
4230 4790 5.360714 GCTTATCCCATTCACAGAATTTCCA 59.639 40.000 0.00 0.00 0.00 3.53
4232 4792 6.455360 TGCTTATCCCATTCACAGAATTTC 57.545 37.500 0.00 0.00 0.00 2.17
4286 5464 7.171630 AGTACTCCATCTGTAGTAAAACAGG 57.828 40.000 4.32 0.00 45.69 4.00
4299 5477 5.761205 ACAGACATCAGTAGTACTCCATCT 58.239 41.667 0.00 0.00 0.00 2.90
4303 5481 7.034397 GGTAAAACAGACATCAGTAGTACTCC 58.966 42.308 0.00 0.00 0.00 3.85
4361 5539 1.203523 GCTGTCTTCGTCCATGAGTCT 59.796 52.381 0.00 0.00 0.00 3.24
4362 5540 1.067565 TGCTGTCTTCGTCCATGAGTC 60.068 52.381 0.00 0.00 0.00 3.36
4363 5541 0.969149 TGCTGTCTTCGTCCATGAGT 59.031 50.000 0.00 0.00 0.00 3.41
4364 5542 1.728971 GTTGCTGTCTTCGTCCATGAG 59.271 52.381 0.00 0.00 0.00 2.90
4365 5543 1.069978 TGTTGCTGTCTTCGTCCATGA 59.930 47.619 0.00 0.00 0.00 3.07
4366 5544 1.511850 TGTTGCTGTCTTCGTCCATG 58.488 50.000 0.00 0.00 0.00 3.66
4367 5545 1.873591 GTTGTTGCTGTCTTCGTCCAT 59.126 47.619 0.00 0.00 0.00 3.41
4368 5546 1.134521 AGTTGTTGCTGTCTTCGTCCA 60.135 47.619 0.00 0.00 0.00 4.02
4369 5547 1.583054 AGTTGTTGCTGTCTTCGTCC 58.417 50.000 0.00 0.00 0.00 4.79
4370 5548 3.063452 TCAAAGTTGTTGCTGTCTTCGTC 59.937 43.478 0.00 0.00 0.00 4.20
4371 5549 3.006940 TCAAAGTTGTTGCTGTCTTCGT 58.993 40.909 0.00 0.00 0.00 3.85
4372 5550 3.354397 GTCAAAGTTGTTGCTGTCTTCG 58.646 45.455 0.00 0.00 0.00 3.79
4373 5551 3.695816 GGTCAAAGTTGTTGCTGTCTTC 58.304 45.455 0.00 0.00 0.00 2.87
4374 5552 2.097466 CGGTCAAAGTTGTTGCTGTCTT 59.903 45.455 0.00 0.00 0.00 3.01
4390 7048 2.632544 CCGGTCAGTGCTACGGTCA 61.633 63.158 10.57 0.00 41.34 4.02
4421 7079 3.511477 TCACTAGGAAGTTTCTGCCTCT 58.489 45.455 0.00 0.00 39.16 3.69
4423 7081 3.511477 TCTCACTAGGAAGTTTCTGCCT 58.489 45.455 1.65 1.65 43.18 4.75
4424 7082 3.963428 TCTCACTAGGAAGTTTCTGCC 57.037 47.619 0.00 0.00 31.97 4.85
4439 7097 7.030165 CGTATACTGAACCATGGATATCTCAC 58.970 42.308 21.47 6.19 0.00 3.51
4463 7121 6.504398 TGCTTATAGTACTTCTCATTGACCG 58.496 40.000 0.00 0.00 0.00 4.79
4464 7122 8.144478 TCATGCTTATAGTACTTCTCATTGACC 58.856 37.037 0.00 0.00 0.00 4.02
4465 7123 9.190858 CTCATGCTTATAGTACTTCTCATTGAC 57.809 37.037 0.00 0.00 0.00 3.18
4466 7124 7.869937 GCTCATGCTTATAGTACTTCTCATTGA 59.130 37.037 0.00 0.00 36.03 2.57
4467 7125 7.148836 CGCTCATGCTTATAGTACTTCTCATTG 60.149 40.741 0.00 0.00 36.97 2.82
4468 7126 6.865726 CGCTCATGCTTATAGTACTTCTCATT 59.134 38.462 0.00 0.00 36.97 2.57
4469 7127 6.385843 CGCTCATGCTTATAGTACTTCTCAT 58.614 40.000 0.00 0.00 36.97 2.90
4470 7128 5.763088 CGCTCATGCTTATAGTACTTCTCA 58.237 41.667 0.00 0.00 36.97 3.27
4471 7129 4.619336 GCGCTCATGCTTATAGTACTTCTC 59.381 45.833 0.00 0.00 36.97 2.87
4472 7130 4.038042 TGCGCTCATGCTTATAGTACTTCT 59.962 41.667 9.73 0.00 36.97 2.85
4476 7134 4.299155 TCTTGCGCTCATGCTTATAGTAC 58.701 43.478 9.73 0.00 36.97 2.73
4479 7137 5.145059 CAATTCTTGCGCTCATGCTTATAG 58.855 41.667 9.73 0.00 36.97 1.31
4489 7147 1.796617 GCATGACCAATTCTTGCGCTC 60.797 52.381 9.73 0.00 43.34 5.03
4549 7209 6.446781 TCGTGGAGGTAAAATAGTACTCTG 57.553 41.667 0.00 0.00 0.00 3.35
4550 7210 7.657023 ATTCGTGGAGGTAAAATAGTACTCT 57.343 36.000 0.00 0.00 0.00 3.24
4551 7211 9.978044 ATAATTCGTGGAGGTAAAATAGTACTC 57.022 33.333 0.00 0.00 0.00 2.59
4558 7220 9.106070 GACTTGTATAATTCGTGGAGGTAAAAT 57.894 33.333 0.00 0.00 0.00 1.82
4564 7226 5.050490 CCAGACTTGTATAATTCGTGGAGG 58.950 45.833 0.00 0.00 0.00 4.30
4570 7232 8.066668 GTCTCAATCCAGACTTGTATAATTCG 57.933 38.462 0.00 0.00 39.91 3.34
4589 7251 2.890945 TGTCTTCATCCACGAGTCTCAA 59.109 45.455 0.00 0.00 0.00 3.02
4731 7401 2.710902 CGACGGCATGGGAGACTCA 61.711 63.158 4.53 0.00 0.00 3.41
4750 7420 0.036010 AGGAGACCATTGGCGTCAAG 60.036 55.000 9.01 0.00 36.19 3.02
4751 7421 0.036388 GAGGAGACCATTGGCGTCAA 60.036 55.000 4.23 4.23 37.28 3.18
4752 7422 0.904865 AGAGGAGACCATTGGCGTCA 60.905 55.000 1.54 0.00 32.41 4.35
4759 7429 1.403687 GGCGCCTAGAGGAGACCATT 61.404 60.000 22.15 0.00 37.00 3.16
4790 7477 2.050144 GCATGTGGAGAGATAAGGGGA 58.950 52.381 0.00 0.00 0.00 4.81
4806 7493 1.676529 CAAGCTCCAGAGGAATGCATG 59.323 52.381 0.00 0.00 0.00 4.06
4807 7494 1.562942 TCAAGCTCCAGAGGAATGCAT 59.437 47.619 0.00 0.00 0.00 3.96
4808 7495 0.986527 TCAAGCTCCAGAGGAATGCA 59.013 50.000 0.00 0.00 0.00 3.96
4809 7496 1.742268 GTTCAAGCTCCAGAGGAATGC 59.258 52.381 0.00 0.00 0.00 3.56
4810 7497 2.290514 TGGTTCAAGCTCCAGAGGAATG 60.291 50.000 0.00 0.00 0.00 2.67
4811 7498 1.988107 TGGTTCAAGCTCCAGAGGAAT 59.012 47.619 0.00 0.00 0.00 3.01
4812 7499 1.434188 TGGTTCAAGCTCCAGAGGAA 58.566 50.000 0.00 0.00 0.00 3.36
4814 7501 2.290514 TGATTGGTTCAAGCTCCAGAGG 60.291 50.000 0.00 0.00 35.05 3.69
4815 7502 3.063510 TGATTGGTTCAAGCTCCAGAG 57.936 47.619 0.00 0.00 35.05 3.35
4816 7503 3.009363 TGATGATTGGTTCAAGCTCCAGA 59.991 43.478 0.00 0.00 38.03 3.86
4817 7504 3.349927 TGATGATTGGTTCAAGCTCCAG 58.650 45.455 0.00 0.00 38.03 3.86
4818 7505 3.438216 TGATGATTGGTTCAAGCTCCA 57.562 42.857 0.00 0.00 38.03 3.86
4819 7506 3.490419 GCATGATGATTGGTTCAAGCTCC 60.490 47.826 0.00 0.00 38.03 4.70
4820 7507 3.380637 AGCATGATGATTGGTTCAAGCTC 59.619 43.478 0.00 0.00 41.57 4.09
4821 7508 3.362706 AGCATGATGATTGGTTCAAGCT 58.637 40.909 0.00 0.00 40.83 3.74
4846 7704 0.031857 CACCATTGCAAAAGCCGTGA 59.968 50.000 1.71 0.00 0.00 4.35
4899 7757 7.652105 TCAAATCTATCCGGAGAAGTATTTTCG 59.348 37.037 11.34 7.53 0.00 3.46
4933 7791 9.803507 ATGCCAAGATTATGAGAGATTATTTCA 57.196 29.630 0.00 0.00 0.00 2.69
4977 7835 2.176546 CCGCATGCAAGTCAACCG 59.823 61.111 19.57 0.00 0.00 4.44
4984 7843 1.439353 ATAGTTCGGCCGCATGCAAG 61.439 55.000 23.51 9.55 43.89 4.01
5002 7861 1.175983 GCGACCGAGGAGAGGATCAT 61.176 60.000 0.00 0.00 37.82 2.45
5003 7862 1.824329 GCGACCGAGGAGAGGATCA 60.824 63.158 0.00 0.00 37.82 2.92
5017 7876 0.802607 GAGGATCACAGTTCGGCGAC 60.803 60.000 10.16 5.11 33.17 5.19
5019 7878 0.526524 GAGAGGATCACAGTTCGGCG 60.527 60.000 0.00 0.00 37.82 6.46
5020 7879 0.179097 GGAGAGGATCACAGTTCGGC 60.179 60.000 0.00 0.00 37.82 5.54
5021 7880 1.407258 GAGGAGAGGATCACAGTTCGG 59.593 57.143 0.00 0.00 37.82 4.30
5022 7881 1.064803 CGAGGAGAGGATCACAGTTCG 59.935 57.143 0.00 0.00 37.82 3.95
5023 7882 1.407258 CCGAGGAGAGGATCACAGTTC 59.593 57.143 0.00 0.00 37.82 3.01
5024 7883 1.479709 CCGAGGAGAGGATCACAGTT 58.520 55.000 0.00 0.00 37.82 3.16
5025 7884 1.040339 GCCGAGGAGAGGATCACAGT 61.040 60.000 0.00 0.00 37.82 3.55
5026 7885 1.739049 GCCGAGGAGAGGATCACAG 59.261 63.158 0.00 0.00 37.82 3.66
5027 7886 1.758514 GGCCGAGGAGAGGATCACA 60.759 63.158 0.00 0.00 37.82 3.58
5028 7887 2.851071 CGGCCGAGGAGAGGATCAC 61.851 68.421 24.07 0.00 37.82 3.06
5029 7888 2.519541 CGGCCGAGGAGAGGATCA 60.520 66.667 24.07 0.00 37.82 2.92
5030 7889 3.984749 GCGGCCGAGGAGAGGATC 61.985 72.222 33.48 2.06 0.00 3.36
5042 7901 3.640000 CGATGATGTTCGGCGGCC 61.640 66.667 9.54 9.54 35.50 6.13
5049 7908 5.203370 GCATGATCTTCAACGATGATGTTC 58.797 41.667 0.00 9.58 37.35 3.18
5052 7911 3.562557 TGGCATGATCTTCAACGATGATG 59.437 43.478 0.00 0.00 37.84 3.07
5071 7930 2.262211 GATTTTGAAATGGTCGCTGGC 58.738 47.619 0.00 0.00 0.00 4.85
5075 7934 3.859386 GGTGATGATTTTGAAATGGTCGC 59.141 43.478 0.00 0.00 0.00 5.19
5086 7945 7.180663 AGGAAGAAGAAGATGGTGATGATTTT 58.819 34.615 0.00 0.00 0.00 1.82
5089 7948 5.163216 GGAGGAAGAAGAAGATGGTGATGAT 60.163 44.000 0.00 0.00 0.00 2.45
5090 7949 4.163078 GGAGGAAGAAGAAGATGGTGATGA 59.837 45.833 0.00 0.00 0.00 2.92
5091 7950 4.163839 AGGAGGAAGAAGAAGATGGTGATG 59.836 45.833 0.00 0.00 0.00 3.07
5092 7951 4.369872 AGGAGGAAGAAGAAGATGGTGAT 58.630 43.478 0.00 0.00 0.00 3.06
5096 7955 2.102252 CGGAGGAGGAAGAAGAAGATGG 59.898 54.545 0.00 0.00 0.00 3.51
5098 7957 3.390175 TCGGAGGAGGAAGAAGAAGAT 57.610 47.619 0.00 0.00 0.00 2.40
5101 7960 3.101643 TCATCGGAGGAGGAAGAAGAA 57.898 47.619 0.00 0.00 28.47 2.52
5123 7982 5.640147 AGAGATGATCTCCGAGGACTATTT 58.360 41.667 18.29 0.00 44.42 1.40
5227 8086 1.270678 ACGGTTTGCCTAGGTGAGTTC 60.271 52.381 11.31 0.00 0.00 3.01
5248 8107 2.844451 GCCGCCTTGCAAGTGTTCA 61.844 57.895 24.35 0.00 0.00 3.18


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

AutoCloner maintained by Alex Coulton.