Multiple sequence alignment - TraesCS7B01G425800

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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 TraesCS7B01G425800 chr7B 100.000 2324 0 0 1 2324 694799691 694797368 0.000000e+00 4292.0
1 TraesCS7B01G425800 chr7B 82.010 1801 154 94 298 2027 693822079 693820378 0.000000e+00 1375.0
2 TraesCS7B01G425800 chr7B 81.382 1563 162 68 432 1929 696595696 696594198 0.000000e+00 1155.0
3 TraesCS7B01G425800 chr7B 83.155 748 74 34 632 1362 693200660 693199948 9.060000e-179 636.0
4 TraesCS7B01G425800 chr7B 98.966 290 1 2 2028 2316 670106110 670105822 3.420000e-143 518.0
5 TraesCS7B01G425800 chr7B 78.960 846 105 47 638 1444 696383230 696382419 2.060000e-140 508.0
6 TraesCS7B01G425800 chr7B 82.334 634 53 31 1397 2005 693199947 693199348 1.600000e-136 496.0
7 TraesCS7B01G425800 chr7B 91.916 334 10 5 1 327 696613507 696613184 3.520000e-123 451.0
8 TraesCS7B01G425800 chr7B 75.536 466 56 43 786 1210 696283641 696283193 2.370000e-40 176.0
9 TraesCS7B01G425800 chr7B 81.140 228 33 3 1781 2005 698860872 698860652 8.540000e-40 174.0
10 TraesCS7B01G425800 chr7B 79.646 226 32 11 1593 1810 698856982 698856763 1.440000e-32 150.0
11 TraesCS7B01G425800 chr7B 93.478 46 3 0 329 374 696595967 696595922 4.140000e-08 69.4
12 TraesCS7B01G425800 chr7B 97.297 37 1 0 337 373 693198658 693198622 1.930000e-06 63.9
13 TraesCS7B01G425800 chr7D 89.952 1035 66 20 995 2009 607562192 607561176 0.000000e+00 1301.0
14 TraesCS7B01G425800 chr7D 80.858 1468 151 76 593 2004 610235286 610236679 0.000000e+00 1035.0
15 TraesCS7B01G425800 chr7D 81.960 704 58 34 876 1546 608488215 608487548 1.220000e-147 532.0
16 TraesCS7B01G425800 chr7D 80.834 767 61 29 210 945 607564423 607563712 7.360000e-145 523.0
17 TraesCS7B01G425800 chr7D 81.593 565 48 25 893 1444 608455400 608454879 1.280000e-112 416.0
18 TraesCS7B01G425800 chr7D 82.213 506 44 19 1000 1489 608450445 608449970 6.020000e-106 394.0
19 TraesCS7B01G425800 chr7D 87.975 316 27 10 1719 2027 608446141 608445830 1.700000e-96 363.0
20 TraesCS7B01G425800 chr7D 76.578 713 108 40 638 1330 607546957 607546284 1.030000e-88 337.0
21 TraesCS7B01G425800 chr7D 82.849 344 29 13 997 1312 610527453 610527794 4.890000e-72 281.0
22 TraesCS7B01G425800 chr7D 85.075 268 26 9 1263 1529 515030418 515030164 6.370000e-66 261.0
23 TraesCS7B01G425800 chr7D 86.391 169 13 5 1662 1830 608487394 608487236 2.370000e-40 176.0
24 TraesCS7B01G425800 chr7D 90.164 122 10 2 1884 2005 608487216 608487097 8.600000e-35 158.0
25 TraesCS7B01G425800 chr7D 93.269 104 4 1 1 104 607564577 607564477 1.440000e-32 150.0
26 TraesCS7B01G425800 chr7D 87.597 129 6 2 1599 1724 608449920 608449799 8.660000e-30 141.0
27 TraesCS7B01G425800 chr7D 93.443 61 4 0 638 698 608474835 608474775 8.840000e-15 91.6
28 TraesCS7B01G425800 chr7D 100.000 35 0 0 745 779 608488310 608488276 5.360000e-07 65.8
29 TraesCS7B01G425800 chr7D 96.774 31 1 0 44 74 608451892 608451862 4.000000e-03 52.8
30 TraesCS7B01G425800 chr7A 80.747 1366 142 53 739 2027 699766704 699765383 0.000000e+00 953.0
31 TraesCS7B01G425800 chr7A 85.246 183 17 4 3 185 699744672 699744500 1.830000e-41 180.0
32 TraesCS7B01G425800 chr7A 81.304 230 31 4 1781 2005 699743943 699743721 2.370000e-40 176.0
33 TraesCS7B01G425800 chr7A 81.308 107 13 4 1297 1397 699740695 699740590 1.910000e-11 80.5
34 TraesCS7B01G425800 chrUn 83.141 866 92 32 510 1335 77587314 77586463 0.000000e+00 741.0
35 TraesCS7B01G425800 chrUn 96.764 309 7 2 2008 2316 464774498 464774193 1.590000e-141 512.0
36 TraesCS7B01G425800 chrUn 87.048 332 38 4 1000 1330 77545052 77544725 1.010000e-98 370.0
37 TraesCS7B01G425800 chrUn 87.417 151 12 4 1401 1546 83370736 83370588 1.430000e-37 167.0
38 TraesCS7B01G425800 chrUn 78.689 305 21 14 91 387 77589142 77588874 1.850000e-36 163.0
39 TraesCS7B01G425800 chr4A 79.269 1013 125 42 740 1702 661969280 661970257 1.520000e-176 628.0
40 TraesCS7B01G425800 chr3B 99.654 289 1 0 2028 2316 17823028 17823316 1.580000e-146 529.0
41 TraesCS7B01G425800 chr2B 98.649 296 3 1 2022 2316 603669482 603669777 7.360000e-145 523.0
42 TraesCS7B01G425800 chr2B 98.311 296 1 4 2024 2316 173284746 173284452 1.230000e-142 516.0
43 TraesCS7B01G425800 chr1B 99.310 290 1 1 2028 2316 555130814 555131103 7.360000e-145 523.0
44 TraesCS7B01G425800 chr3A 99.308 289 1 1 2028 2316 25474891 25474604 2.650000e-144 521.0
45 TraesCS7B01G425800 chr6B 99.306 288 1 1 2028 2314 41255392 41255105 9.520000e-144 520.0
46 TraesCS7B01G425800 chr4B 98.625 291 2 2 2027 2316 6377400 6377111 4.430000e-142 514.0


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 TraesCS7B01G425800 chr7B 694797368 694799691 2323 True 4292.000000 4292 100.000000 1 2324 1 chr7B.!!$R3 2323
1 TraesCS7B01G425800 chr7B 693820378 693822079 1701 True 1375.000000 1375 82.010000 298 2027 1 chr7B.!!$R2 1729
2 TraesCS7B01G425800 chr7B 696594198 696595967 1769 True 612.200000 1155 87.430000 329 1929 2 chr7B.!!$R8 1600
3 TraesCS7B01G425800 chr7B 696382419 696383230 811 True 508.000000 508 78.960000 638 1444 1 chr7B.!!$R5 806
4 TraesCS7B01G425800 chr7B 693198622 693200660 2038 True 398.633333 636 87.595333 337 2005 3 chr7B.!!$R7 1668
5 TraesCS7B01G425800 chr7D 610235286 610236679 1393 False 1035.000000 1035 80.858000 593 2004 1 chr7D.!!$F1 1411
6 TraesCS7B01G425800 chr7D 607561176 607564577 3401 True 658.000000 1301 88.018333 1 2009 3 chr7D.!!$R4 2008
7 TraesCS7B01G425800 chr7D 607546284 607546957 673 True 337.000000 337 76.578000 638 1330 1 chr7D.!!$R2 692
8 TraesCS7B01G425800 chr7D 608445830 608455400 9570 True 273.360000 416 87.230400 44 2027 5 chr7D.!!$R5 1983
9 TraesCS7B01G425800 chr7D 608487097 608488310 1213 True 232.950000 532 89.628750 745 2005 4 chr7D.!!$R6 1260
10 TraesCS7B01G425800 chr7A 699765383 699766704 1321 True 953.000000 953 80.747000 739 2027 1 chr7A.!!$R1 1288
11 TraesCS7B01G425800 chrUn 77586463 77589142 2679 True 452.000000 741 80.915000 91 1335 2 chrUn.!!$R4 1244
12 TraesCS7B01G425800 chr4A 661969280 661970257 977 False 628.000000 628 79.269000 740 1702 1 chr4A.!!$F1 962

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
194 3660 0.03467 GGAGGCAGGACAGAATGCTT 60.035 55.0 0.0 0.0 42.53 3.91 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2128 13367 0.165295 GGTTCTTAAGCAACCGCGAC 59.835 55.0 8.23 0.0 45.49 5.19 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
28 29 4.281182 ACCCTACTGAAGTTCTGTACTGTG 59.719 45.833 16.18 8.55 37.12 3.66
40 41 3.259123 TCTGTACTGTGTGAGATGTGCAT 59.741 43.478 0.00 0.00 0.00 3.96
42 43 5.047377 TCTGTACTGTGTGAGATGTGCATTA 60.047 40.000 0.00 0.00 0.00 1.90
43 44 5.733676 TGTACTGTGTGAGATGTGCATTAT 58.266 37.500 0.00 0.00 0.00 1.28
44 45 6.172630 TGTACTGTGTGAGATGTGCATTATT 58.827 36.000 0.00 0.00 0.00 1.40
45 46 5.556355 ACTGTGTGAGATGTGCATTATTG 57.444 39.130 0.00 0.00 0.00 1.90
47 48 5.106436 ACTGTGTGAGATGTGCATTATTGTG 60.106 40.000 0.00 0.00 0.00 3.33
101 3567 1.009675 CTGCGTCTTGTGTTGGTGC 60.010 57.895 0.00 0.00 0.00 5.01
164 3630 2.362329 AAACCAACGGCGCTTGCATT 62.362 50.000 6.90 5.62 41.71 3.56
166 3632 3.472298 CAACGGCGCTTGCATTGC 61.472 61.111 6.90 0.46 41.71 3.56
167 3633 3.976000 AACGGCGCTTGCATTGCA 61.976 55.556 7.38 7.38 41.71 4.08
168 3634 4.705519 ACGGCGCTTGCATTGCAC 62.706 61.111 11.66 0.00 38.71 4.57
171 3637 4.403137 GCGCTTGCATTGCACGGA 62.403 61.111 19.27 3.03 38.71 4.69
172 3638 2.202388 CGCTTGCATTGCACGGAG 60.202 61.111 11.66 7.65 38.71 4.63
173 3639 2.679934 CGCTTGCATTGCACGGAGA 61.680 57.895 11.66 0.00 38.71 3.71
174 3640 1.154150 GCTTGCATTGCACGGAGAC 60.154 57.895 11.66 0.00 38.71 3.36
186 3652 2.680352 GGAGACGGAGGCAGGACA 60.680 66.667 0.00 0.00 0.00 4.02
188 3654 1.679305 GAGACGGAGGCAGGACAGA 60.679 63.158 0.00 0.00 0.00 3.41
189 3655 1.228894 AGACGGAGGCAGGACAGAA 60.229 57.895 0.00 0.00 0.00 3.02
192 3658 1.817099 CGGAGGCAGGACAGAATGC 60.817 63.158 0.00 0.00 42.53 3.56
193 3659 1.606531 GGAGGCAGGACAGAATGCT 59.393 57.895 0.00 0.00 42.53 3.79
194 3660 0.034670 GGAGGCAGGACAGAATGCTT 60.035 55.000 0.00 0.00 42.53 3.91
296 4425 3.712091 ACGATACGAGTCCTTTGATCC 57.288 47.619 0.00 0.00 0.00 3.36
297 4426 3.288964 ACGATACGAGTCCTTTGATCCT 58.711 45.455 0.00 0.00 0.00 3.24
298 4427 3.700038 ACGATACGAGTCCTTTGATCCTT 59.300 43.478 0.00 0.00 0.00 3.36
299 4428 4.159879 ACGATACGAGTCCTTTGATCCTTT 59.840 41.667 0.00 0.00 0.00 3.11
300 4429 4.740695 CGATACGAGTCCTTTGATCCTTTC 59.259 45.833 0.00 0.00 0.00 2.62
301 4430 5.661458 GATACGAGTCCTTTGATCCTTTCA 58.339 41.667 0.00 0.00 0.00 2.69
302 4431 3.665190 ACGAGTCCTTTGATCCTTTCAC 58.335 45.455 0.00 0.00 32.84 3.18
310 4439 3.716204 GATCCTTTCACCCCGGCCC 62.716 68.421 0.00 0.00 0.00 5.80
327 4456 3.603365 CGAAGGTTTGGCATCCCC 58.397 61.111 5.76 0.00 0.00 4.81
328 4457 2.052104 CGAAGGTTTGGCATCCCCC 61.052 63.158 5.76 0.00 0.00 5.40
329 4458 1.078347 GAAGGTTTGGCATCCCCCA 59.922 57.895 5.76 0.00 0.00 4.96
330 4459 0.325577 GAAGGTTTGGCATCCCCCAT 60.326 55.000 5.76 0.00 34.21 4.00
331 4460 0.118952 AAGGTTTGGCATCCCCCATT 59.881 50.000 5.76 0.00 34.21 3.16
332 4461 0.325577 AGGTTTGGCATCCCCCATTC 60.326 55.000 5.76 0.00 34.21 2.67
334 4463 0.970427 GTTTGGCATCCCCCATTCGT 60.970 55.000 0.00 0.00 34.21 3.85
335 4464 0.969917 TTTGGCATCCCCCATTCGTG 60.970 55.000 0.00 0.00 34.21 4.35
336 4465 1.857638 TTGGCATCCCCCATTCGTGA 61.858 55.000 0.00 0.00 34.21 4.35
338 4467 0.468029 GGCATCCCCCATTCGTGATT 60.468 55.000 0.00 0.00 0.00 2.57
339 4468 0.954452 GCATCCCCCATTCGTGATTC 59.046 55.000 0.00 0.00 0.00 2.52
340 4469 1.229428 CATCCCCCATTCGTGATTCG 58.771 55.000 0.00 0.00 41.41 3.34
341 4470 0.108585 ATCCCCCATTCGTGATTCGG 59.891 55.000 0.00 0.00 40.32 4.30
342 4471 2.186826 CCCCCATTCGTGATTCGGC 61.187 63.158 0.00 0.00 40.32 5.54
344 4473 2.534019 CCCATTCGTGATTCGGCCG 61.534 63.158 22.12 22.12 40.32 6.13
346 4475 2.895372 ATTCGTGATTCGGCCGGC 60.895 61.111 27.83 21.18 40.32 6.13
352 4481 3.861263 GATTCGGCCGGCGTTCAC 61.861 66.667 27.83 4.71 0.00 3.18
353 4482 4.690719 ATTCGGCCGGCGTTCACA 62.691 61.111 27.83 0.00 0.00 3.58
354 4483 3.969250 ATTCGGCCGGCGTTCACAT 62.969 57.895 27.83 3.21 0.00 3.21
358 4487 2.824041 GCCGGCGTTCACATCCAT 60.824 61.111 12.58 0.00 0.00 3.41
359 4488 2.823829 GCCGGCGTTCACATCCATC 61.824 63.158 12.58 0.00 0.00 3.51
360 4489 2.525248 CCGGCGTTCACATCCATCG 61.525 63.158 6.01 0.00 0.00 3.84
361 4490 1.518352 CGGCGTTCACATCCATCGA 60.518 57.895 0.00 0.00 0.00 3.59
362 4491 0.875908 CGGCGTTCACATCCATCGAT 60.876 55.000 0.00 0.00 0.00 3.59
363 4492 1.299541 GGCGTTCACATCCATCGATT 58.700 50.000 0.00 0.00 0.00 3.34
364 4493 1.261619 GGCGTTCACATCCATCGATTC 59.738 52.381 0.00 0.00 0.00 2.52
365 4494 1.071239 GCGTTCACATCCATCGATTCG 60.071 52.381 0.00 0.00 0.00 3.34
366 4495 1.522676 CGTTCACATCCATCGATTCGG 59.477 52.381 6.18 0.00 0.00 4.30
367 4496 1.261619 GTTCACATCCATCGATTCGGC 59.738 52.381 6.18 0.00 0.00 5.54
382 4527 2.870372 GGCCGTGTGCATGTTCTC 59.130 61.111 0.00 0.00 43.89 2.87
390 4535 4.214437 CGTGTGCATGTTCTCTTCTTTTC 58.786 43.478 0.00 0.00 0.00 2.29
398 4543 6.425504 CATGTTCTCTTCTTTTCTGTGTGAC 58.574 40.000 0.00 0.00 0.00 3.67
400 4545 3.717707 TCTCTTCTTTTCTGTGTGACGG 58.282 45.455 0.00 0.00 0.00 4.79
418 4563 2.180432 GGGAACGTAAAAGTGGAGCT 57.820 50.000 0.00 0.00 0.00 4.09
419 4564 3.323751 GGGAACGTAAAAGTGGAGCTA 57.676 47.619 0.00 0.00 0.00 3.32
420 4565 2.998670 GGGAACGTAAAAGTGGAGCTAC 59.001 50.000 0.00 0.00 0.00 3.58
421 4566 2.665052 GGAACGTAAAAGTGGAGCTACG 59.335 50.000 0.00 0.00 42.12 3.51
422 4567 2.358939 ACGTAAAAGTGGAGCTACGG 57.641 50.000 6.38 0.00 41.03 4.02
425 4570 0.604578 TAAAAGTGGAGCTACGGCGT 59.395 50.000 19.64 19.64 44.37 5.68
427 4572 0.108945 AAAGTGGAGCTACGGCGTAC 60.109 55.000 16.97 12.98 44.37 3.67
499 4646 3.242543 GCATCAGATTAACGCTTGGTGAG 60.243 47.826 0.00 0.00 0.00 3.51
528 4675 0.740868 ACGACAACAGCCGATCATGG 60.741 55.000 0.00 0.00 0.00 3.66
532 4679 3.006940 GACAACAGCCGATCATGGTTAA 58.993 45.455 0.00 0.00 0.00 2.01
536 4684 3.417101 ACAGCCGATCATGGTTAACAAA 58.583 40.909 8.10 0.00 0.00 2.83
566 4714 4.826274 AGCCTGTAATGATGTGTGTACT 57.174 40.909 0.00 0.00 0.00 2.73
607 6360 3.095347 GCGGCCAGCTAAGCTACCT 62.095 63.158 2.24 0.00 44.04 3.08
733 6529 1.891616 GGAACCACCCTCTCGTCTC 59.108 63.158 0.00 0.00 0.00 3.36
734 6530 1.507174 GAACCACCCTCTCGTCTCG 59.493 63.158 0.00 0.00 0.00 4.04
735 6531 1.228490 AACCACCCTCTCGTCTCGT 60.228 57.895 0.00 0.00 0.00 4.18
736 6532 1.242665 AACCACCCTCTCGTCTCGTC 61.243 60.000 0.00 0.00 0.00 4.20
737 6533 1.377463 CCACCCTCTCGTCTCGTCT 60.377 63.158 0.00 0.00 0.00 4.18
790 6589 1.444383 GCGGCTTTGCTAGTTTGCC 60.444 57.895 0.00 7.72 40.14 4.52
792 6591 0.109597 CGGCTTTGCTAGTTTGCCTG 60.110 55.000 13.34 6.30 41.25 4.85
794 6593 0.600057 GCTTTGCTAGTTTGCCTGCT 59.400 50.000 0.00 0.00 0.00 4.24
798 6613 0.538057 TGCTAGTTTGCCTGCTTGCT 60.538 50.000 0.00 0.00 35.21 3.91
839 6665 1.937846 CCGCGACGTGTCCTTATCG 60.938 63.158 8.23 0.00 37.63 2.92
945 6792 3.902150 TCACTCACACACGAAATCTCTC 58.098 45.455 0.00 0.00 0.00 3.20
973 6840 1.229464 AGCCCTCTCAGCTCAACCT 60.229 57.895 0.00 0.00 34.91 3.50
994 8326 0.184933 ACCAGTACCAAGCAAGGCAA 59.815 50.000 0.00 0.00 0.00 4.52
996 8328 1.609208 CAGTACCAAGCAAGGCAAGT 58.391 50.000 0.00 0.00 0.00 3.16
997 8329 1.537202 CAGTACCAAGCAAGGCAAGTC 59.463 52.381 0.00 0.00 0.00 3.01
998 8330 1.421646 AGTACCAAGCAAGGCAAGTCT 59.578 47.619 0.00 0.00 0.00 3.24
1020 8358 3.371063 GACGCGGTGGAGTCCTCA 61.371 66.667 12.47 0.00 37.04 3.86
1044 8382 4.862447 TACTCGCCGCCCTCGCTA 62.862 66.667 0.00 0.00 0.00 4.26
1275 8643 2.430921 CGGAACTTCAGCTCGCGT 60.431 61.111 5.77 0.00 0.00 6.01
1680 9211 0.460311 GTGGAATCATCTCCCGTCGT 59.540 55.000 0.00 0.00 34.22 4.34
1724 9256 1.202592 TGCGCGTATCCAACCATGTAT 60.203 47.619 8.43 0.00 0.00 2.29
1733 12928 7.095774 GCGTATCCAACCATGTATAAACACTAG 60.096 40.741 0.00 0.00 38.78 2.57
1739 12934 7.009815 CCAACCATGTATAAACACTAGTACGTG 59.990 40.741 0.00 0.60 38.78 4.49
1742 12941 6.183360 CCATGTATAAACACTAGTACGTGGGA 60.183 42.308 18.81 0.00 44.65 4.37
1779 12978 4.336993 CAGAGGATTAGCGAGTAGTGAACT 59.663 45.833 0.00 0.00 42.80 3.01
1851 13060 1.229428 CAGGTCGTGCAGTTTGTCAT 58.771 50.000 0.00 0.00 0.00 3.06
1880 13090 1.134371 GGTGGAGCTTTCGCCTAAGAT 60.134 52.381 11.81 0.00 36.60 2.40
1888 13098 6.261158 GGAGCTTTCGCCTAAGATAAATCTTT 59.739 38.462 10.32 0.00 41.34 2.52
1899 13109 9.171877 CCTAAGATAAATCTTTCTCTGCACTTT 57.828 33.333 10.32 0.00 44.28 2.66
1919 13152 7.278646 GCACTTTCCTTTCTTTCAGAAAAACAT 59.721 33.333 0.00 0.00 42.95 2.71
1943 13176 1.538276 GAATCGCGGTTGCATTCAAG 58.462 50.000 10.59 0.00 42.97 3.02
1945 13178 2.270297 ATCGCGGTTGCATTCAAGCC 62.270 55.000 6.13 0.00 45.24 4.35
2005 13244 3.593442 ATTCACCCCAAGTTGACTTCA 57.407 42.857 3.87 0.00 33.11 3.02
2020 13259 0.460284 CTTCAACCTCGTCGATGGGG 60.460 60.000 22.49 22.49 0.00 4.96
2029 13268 4.077184 TCGATGGGGTGCGACCAC 62.077 66.667 7.49 4.43 43.70 4.16
2031 13270 2.436646 GATGGGGTGCGACCACTG 60.437 66.667 8.71 0.00 43.81 3.66
2032 13271 3.976701 GATGGGGTGCGACCACTGG 62.977 68.421 8.71 0.00 43.81 4.00
2046 13285 0.469892 CACTGGTGGAAAAAGGGCCT 60.470 55.000 0.00 0.00 0.00 5.19
2048 13287 1.343985 ACTGGTGGAAAAAGGGCCTTT 60.344 47.619 25.68 25.68 34.94 3.11
2050 13289 0.396435 GGTGGAAAAAGGGCCTTTGG 59.604 55.000 31.06 0.00 33.64 3.28
2051 13290 1.128200 GTGGAAAAAGGGCCTTTGGT 58.872 50.000 31.06 21.81 33.64 3.67
2052 13291 1.070134 GTGGAAAAAGGGCCTTTGGTC 59.930 52.381 31.06 27.31 33.64 4.02
2053 13292 0.317160 GGAAAAAGGGCCTTTGGTCG 59.683 55.000 31.06 0.00 33.64 4.79
2055 13294 2.082629 AAAAAGGGCCTTTGGTCGCG 62.083 55.000 31.06 0.00 33.64 5.87
2059 13298 3.733960 GGCCTTTGGTCGCGGTTC 61.734 66.667 6.13 0.00 0.00 3.62
2060 13299 4.084888 GCCTTTGGTCGCGGTTCG 62.085 66.667 6.13 0.00 40.15 3.95
2072 13311 2.167161 CGGTTCGCAACTGCCATTA 58.833 52.632 0.00 0.00 37.91 1.90
2073 13312 0.096976 CGGTTCGCAACTGCCATTAG 59.903 55.000 0.00 0.00 37.91 1.73
2074 13313 1.165270 GGTTCGCAACTGCCATTAGT 58.835 50.000 0.00 0.00 37.91 2.24
2075 13314 1.130561 GGTTCGCAACTGCCATTAGTC 59.869 52.381 0.00 0.00 37.91 2.59
2076 13315 1.075542 TTCGCAACTGCCATTAGTCG 58.924 50.000 0.00 0.00 37.91 4.18
2077 13316 1.060937 CGCAACTGCCATTAGTCGC 59.939 57.895 0.00 0.00 37.91 5.19
2078 13317 1.060937 GCAACTGCCATTAGTCGCG 59.939 57.895 0.00 0.00 34.31 5.87
2079 13318 1.715585 CAACTGCCATTAGTCGCGG 59.284 57.895 6.13 0.00 37.39 6.46
2080 13319 1.019278 CAACTGCCATTAGTCGCGGT 61.019 55.000 6.13 0.00 46.47 5.68
2081 13320 1.295423 ACTGCCATTAGTCGCGGTT 59.705 52.632 6.13 0.00 41.86 4.44
2082 13321 1.019278 ACTGCCATTAGTCGCGGTTG 61.019 55.000 6.13 0.00 41.86 3.77
2083 13322 2.309764 CTGCCATTAGTCGCGGTTGC 62.310 60.000 6.13 0.28 37.91 4.17
2111 13350 4.124351 CCAGACGGGCGCGACTAA 62.124 66.667 30.98 0.00 0.00 2.24
2112 13351 2.126228 CAGACGGGCGCGACTAAA 60.126 61.111 30.98 0.00 0.00 1.85
2113 13352 2.158959 CAGACGGGCGCGACTAAAG 61.159 63.158 30.98 13.15 0.00 1.85
2114 13353 2.884207 GACGGGCGCGACTAAAGG 60.884 66.667 30.98 0.00 0.00 3.11
2136 13375 2.666812 CCCCCTTTAGTCGCGGTT 59.333 61.111 6.13 0.00 0.00 4.44
2137 13376 1.743995 CCCCCTTTAGTCGCGGTTG 60.744 63.158 6.13 0.00 0.00 3.77
2138 13377 2.396157 CCCCTTTAGTCGCGGTTGC 61.396 63.158 6.13 0.00 37.91 4.17
2139 13378 1.375523 CCCTTTAGTCGCGGTTGCT 60.376 57.895 6.13 2.31 39.65 3.91
2140 13379 0.953960 CCCTTTAGTCGCGGTTGCTT 60.954 55.000 6.13 0.00 39.65 3.91
2141 13380 1.673626 CCCTTTAGTCGCGGTTGCTTA 60.674 52.381 6.13 0.00 39.65 3.09
2142 13381 2.070783 CCTTTAGTCGCGGTTGCTTAA 58.929 47.619 6.13 0.00 39.65 1.85
2143 13382 2.093783 CCTTTAGTCGCGGTTGCTTAAG 59.906 50.000 6.13 9.06 39.65 1.85
2144 13383 2.728690 TTAGTCGCGGTTGCTTAAGA 57.271 45.000 6.13 0.00 39.65 2.10
2145 13384 2.728690 TAGTCGCGGTTGCTTAAGAA 57.271 45.000 6.13 0.00 39.65 2.52
2146 13385 1.145803 AGTCGCGGTTGCTTAAGAAC 58.854 50.000 6.13 7.82 39.65 3.01
2147 13386 0.165295 GTCGCGGTTGCTTAAGAACC 59.835 55.000 19.09 19.09 39.71 3.62
2151 13390 2.535588 GGTTGCTTAAGAACCGCGA 58.464 52.632 8.23 0.00 33.85 5.87
2152 13391 0.165295 GGTTGCTTAAGAACCGCGAC 59.835 55.000 8.23 0.93 37.34 5.19
2153 13392 1.145803 GTTGCTTAAGAACCGCGACT 58.854 50.000 8.23 0.30 35.64 4.18
2154 13393 2.331194 GTTGCTTAAGAACCGCGACTA 58.669 47.619 8.23 0.00 35.64 2.59
2155 13394 2.728690 TGCTTAAGAACCGCGACTAA 57.271 45.000 8.23 0.00 0.00 2.24
2156 13395 3.029320 TGCTTAAGAACCGCGACTAAA 57.971 42.857 8.23 0.00 0.00 1.85
2157 13396 2.991190 TGCTTAAGAACCGCGACTAAAG 59.009 45.455 8.23 4.60 0.00 1.85
2158 13397 2.347755 GCTTAAGAACCGCGACTAAAGG 59.652 50.000 8.23 0.00 0.00 3.11
2159 13398 2.000429 TAAGAACCGCGACTAAAGGC 58.000 50.000 8.23 0.00 0.00 4.35
2160 13399 0.672711 AAGAACCGCGACTAAAGGCC 60.673 55.000 8.23 0.00 0.00 5.19
2161 13400 2.046604 AACCGCGACTAAAGGCCC 60.047 61.111 8.23 0.00 0.00 5.80
2162 13401 3.945304 AACCGCGACTAAAGGCCCG 62.945 63.158 8.23 0.00 0.00 6.13
2163 13402 4.446413 CCGCGACTAAAGGCCCGT 62.446 66.667 8.23 0.00 0.00 5.28
2164 13403 2.884207 CGCGACTAAAGGCCCGTC 60.884 66.667 0.00 0.02 0.00 4.79
2165 13404 2.510918 GCGACTAAAGGCCCGTCC 60.511 66.667 0.00 0.00 0.00 4.79
2166 13405 2.975536 CGACTAAAGGCCCGTCCA 59.024 61.111 0.00 0.00 37.29 4.02
2167 13406 1.447314 CGACTAAAGGCCCGTCCAC 60.447 63.158 0.00 0.00 37.29 4.02
2168 13407 1.447314 GACTAAAGGCCCGTCCACG 60.447 63.158 0.00 0.00 37.29 4.94
2169 13408 2.163601 GACTAAAGGCCCGTCCACGT 62.164 60.000 0.00 0.00 37.29 4.49
2170 13409 1.740296 CTAAAGGCCCGTCCACGTG 60.740 63.158 9.08 9.08 37.29 4.49
2171 13410 3.242897 TAAAGGCCCGTCCACGTGG 62.243 63.158 29.26 29.26 37.29 4.94
2184 13423 4.016706 CGTGGGCGGAGGACCTTT 62.017 66.667 0.00 0.00 44.25 3.11
2185 13424 2.652095 CGTGGGCGGAGGACCTTTA 61.652 63.158 0.00 0.00 44.25 1.85
2186 13425 1.221021 GTGGGCGGAGGACCTTTAG 59.779 63.158 0.00 0.00 44.25 1.85
2187 13426 1.229400 TGGGCGGAGGACCTTTAGT 60.229 57.895 0.00 0.00 44.25 2.24
2188 13427 1.262640 TGGGCGGAGGACCTTTAGTC 61.263 60.000 0.00 0.00 44.25 2.59
2196 13435 3.808583 GACCTTTAGTCGCGGTTCT 57.191 52.632 6.13 5.42 35.30 3.01
2197 13436 2.075979 GACCTTTAGTCGCGGTTCTT 57.924 50.000 6.13 0.00 35.30 2.52
2198 13437 1.725164 GACCTTTAGTCGCGGTTCTTG 59.275 52.381 6.13 0.00 35.30 3.02
2199 13438 1.069668 ACCTTTAGTCGCGGTTCTTGT 59.930 47.619 6.13 0.00 0.00 3.16
2200 13439 1.459592 CCTTTAGTCGCGGTTCTTGTG 59.540 52.381 6.13 0.00 0.00 3.33
2201 13440 1.459592 CTTTAGTCGCGGTTCTTGTGG 59.540 52.381 6.13 0.00 0.00 4.17
2202 13441 0.947180 TTAGTCGCGGTTCTTGTGGC 60.947 55.000 6.13 0.00 0.00 5.01
2203 13442 1.812686 TAGTCGCGGTTCTTGTGGCT 61.813 55.000 6.13 0.00 35.66 4.75
2204 13443 1.373748 GTCGCGGTTCTTGTGGCTA 60.374 57.895 6.13 0.00 0.00 3.93
2205 13444 0.947180 GTCGCGGTTCTTGTGGCTAA 60.947 55.000 6.13 0.00 0.00 3.09
2206 13445 0.947180 TCGCGGTTCTTGTGGCTAAC 60.947 55.000 6.13 0.00 0.00 2.34
2207 13446 1.873863 GCGGTTCTTGTGGCTAACC 59.126 57.895 0.00 0.00 39.44 2.85
2215 13454 4.895854 GTGGCTAACCGCGACTAA 57.104 55.556 8.23 0.00 43.17 2.24
2216 13455 3.126729 GTGGCTAACCGCGACTAAA 57.873 52.632 8.23 0.00 43.17 1.85
2217 13456 0.997196 GTGGCTAACCGCGACTAAAG 59.003 55.000 8.23 0.00 43.17 1.85
2218 13457 0.108520 TGGCTAACCGCGACTAAAGG 60.109 55.000 8.23 0.00 40.44 3.11
2219 13458 1.426816 GGCTAACCGCGACTAAAGGC 61.427 60.000 8.23 6.19 40.44 4.35
2220 13459 1.426816 GCTAACCGCGACTAAAGGCC 61.427 60.000 8.23 0.00 0.00 5.19
2221 13460 1.143969 CTAACCGCGACTAAAGGCCG 61.144 60.000 8.23 0.00 0.00 6.13
2225 13464 3.497031 GCGACTAAAGGCCGCCAC 61.497 66.667 13.15 0.00 42.77 5.01
2226 13465 2.047655 CGACTAAAGGCCGCCACA 60.048 61.111 13.15 0.00 0.00 4.17
2227 13466 2.100631 CGACTAAAGGCCGCCACAG 61.101 63.158 13.15 7.74 0.00 3.66
2228 13467 1.745489 GACTAAAGGCCGCCACAGG 60.745 63.158 13.15 1.58 0.00 4.00
2229 13468 2.351276 CTAAAGGCCGCCACAGGT 59.649 61.111 13.15 0.00 0.00 4.00
2230 13469 1.303317 CTAAAGGCCGCCACAGGTT 60.303 57.895 13.15 0.00 0.00 3.50
2231 13470 0.893727 CTAAAGGCCGCCACAGGTTT 60.894 55.000 13.15 5.51 0.00 3.27
2232 13471 0.468400 TAAAGGCCGCCACAGGTTTT 60.468 50.000 13.15 4.76 0.00 2.43
2233 13472 1.334384 AAAGGCCGCCACAGGTTTTT 61.334 50.000 13.15 0.00 0.00 1.94
2234 13473 2.026945 AAGGCCGCCACAGGTTTTTG 62.027 55.000 13.15 0.00 0.00 2.44
2235 13474 2.494530 GGCCGCCACAGGTTTTTGA 61.495 57.895 3.91 0.00 0.00 2.69
2236 13475 1.439644 GCCGCCACAGGTTTTTGAA 59.560 52.632 0.00 0.00 0.00 2.69
2237 13476 0.179097 GCCGCCACAGGTTTTTGAAA 60.179 50.000 0.00 0.00 0.00 2.69
2238 13477 1.740718 GCCGCCACAGGTTTTTGAAAA 60.741 47.619 0.00 0.00 0.00 2.29
2239 13478 2.622436 CCGCCACAGGTTTTTGAAAAA 58.378 42.857 0.00 0.00 0.00 1.94
2298 13537 8.660295 TTTTAACCTCTAGTCTCTAATCACCA 57.340 34.615 0.00 0.00 0.00 4.17
2300 13539 4.538738 ACCTCTAGTCTCTAATCACCACC 58.461 47.826 0.00 0.00 0.00 4.61
2303 13542 2.950990 AGTCTCTAATCACCACCCCT 57.049 50.000 0.00 0.00 0.00 4.79
2304 13543 2.753247 AGTCTCTAATCACCACCCCTC 58.247 52.381 0.00 0.00 0.00 4.30
2305 13544 2.044492 AGTCTCTAATCACCACCCCTCA 59.956 50.000 0.00 0.00 0.00 3.86
2306 13545 3.041946 GTCTCTAATCACCACCCCTCAT 58.958 50.000 0.00 0.00 0.00 2.90
2307 13546 3.070302 GTCTCTAATCACCACCCCTCATC 59.930 52.174 0.00 0.00 0.00 2.92
2308 13547 3.041211 CTCTAATCACCACCCCTCATCA 58.959 50.000 0.00 0.00 0.00 3.07
2309 13548 2.771943 TCTAATCACCACCCCTCATCAC 59.228 50.000 0.00 0.00 0.00 3.06
2310 13549 1.673767 AATCACCACCCCTCATCACT 58.326 50.000 0.00 0.00 0.00 3.41
2311 13550 1.207791 ATCACCACCCCTCATCACTC 58.792 55.000 0.00 0.00 0.00 3.51
2313 13552 0.911525 CACCACCCCTCATCACTCCT 60.912 60.000 0.00 0.00 0.00 3.69
2314 13553 0.618968 ACCACCCCTCATCACTCCTC 60.619 60.000 0.00 0.00 0.00 3.71
2315 13554 0.618680 CCACCCCTCATCACTCCTCA 60.619 60.000 0.00 0.00 0.00 3.86
2316 13555 1.504912 CACCCCTCATCACTCCTCAT 58.495 55.000 0.00 0.00 0.00 2.90
2317 13556 1.415659 CACCCCTCATCACTCCTCATC 59.584 57.143 0.00 0.00 0.00 2.92
2318 13557 1.008815 ACCCCTCATCACTCCTCATCA 59.991 52.381 0.00 0.00 0.00 3.07
2319 13558 1.415659 CCCCTCATCACTCCTCATCAC 59.584 57.143 0.00 0.00 0.00 3.06
2320 13559 2.396608 CCCTCATCACTCCTCATCACT 58.603 52.381 0.00 0.00 0.00 3.41
2321 13560 2.770802 CCCTCATCACTCCTCATCACTT 59.229 50.000 0.00 0.00 0.00 3.16
2322 13561 3.181467 CCCTCATCACTCCTCATCACTTC 60.181 52.174 0.00 0.00 0.00 3.01
2323 13562 3.705579 CCTCATCACTCCTCATCACTTCT 59.294 47.826 0.00 0.00 0.00 2.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 3.069443 TGCACATCTCACACAGTACAGAA 59.931 43.478 0.00 0.00 0.00 3.02
28 29 3.357021 CGCACAATAATGCACATCTCAC 58.643 45.455 0.00 0.00 46.47 3.51
40 41 0.236187 GTGTTCCACGCGCACAATAA 59.764 50.000 5.73 0.00 33.70 1.40
42 43 2.637025 GTGTTCCACGCGCACAAT 59.363 55.556 5.73 0.00 33.70 2.71
101 3567 4.767255 GGCTGCAGACGGGACCAG 62.767 72.222 20.43 0.00 0.00 4.00
139 3605 2.051703 CGCCGTTGGTTTGGTTCG 60.052 61.111 0.00 0.00 0.00 3.95
166 3632 4.135153 CCTGCCTCCGTCTCCGTG 62.135 72.222 0.00 0.00 0.00 4.94
167 3633 4.361971 TCCTGCCTCCGTCTCCGT 62.362 66.667 0.00 0.00 0.00 4.69
168 3634 3.827898 GTCCTGCCTCCGTCTCCG 61.828 72.222 0.00 0.00 0.00 4.63
169 3635 2.680352 TGTCCTGCCTCCGTCTCC 60.680 66.667 0.00 0.00 0.00 3.71
170 3636 1.251527 TTCTGTCCTGCCTCCGTCTC 61.252 60.000 0.00 0.00 0.00 3.36
171 3637 0.616111 ATTCTGTCCTGCCTCCGTCT 60.616 55.000 0.00 0.00 0.00 4.18
172 3638 0.460987 CATTCTGTCCTGCCTCCGTC 60.461 60.000 0.00 0.00 0.00 4.79
173 3639 1.599047 CATTCTGTCCTGCCTCCGT 59.401 57.895 0.00 0.00 0.00 4.69
174 3640 1.817099 GCATTCTGTCCTGCCTCCG 60.817 63.158 0.00 0.00 32.15 4.63
285 4414 2.447443 GGGGTGAAAGGATCAAAGGAC 58.553 52.381 0.00 0.00 40.50 3.85
286 4415 1.004277 CGGGGTGAAAGGATCAAAGGA 59.996 52.381 0.00 0.00 40.50 3.36
292 4421 2.124278 GGCCGGGGTGAAAGGATC 60.124 66.667 2.18 0.00 0.00 3.36
296 4425 4.338710 TTCGGGCCGGGGTGAAAG 62.339 66.667 27.98 0.00 0.00 2.62
297 4426 4.338710 CTTCGGGCCGGGGTGAAA 62.339 66.667 27.98 10.86 0.00 2.69
310 4439 2.052104 GGGGGATGCCAAACCTTCG 61.052 63.158 5.30 0.00 0.00 3.79
312 4441 0.118952 AATGGGGGATGCCAAACCTT 59.881 50.000 5.30 0.00 0.00 3.50
327 4456 2.534019 CCGGCCGAATCACGAATGG 61.534 63.158 30.73 0.00 45.77 3.16
328 4457 3.014036 CCGGCCGAATCACGAATG 58.986 61.111 30.73 0.44 45.77 2.67
329 4458 2.895372 GCCGGCCGAATCACGAAT 60.895 61.111 30.73 0.00 45.77 3.34
334 4463 4.380781 TGAACGCCGGCCGAATCA 62.381 61.111 30.73 21.03 41.02 2.57
335 4464 3.861263 GTGAACGCCGGCCGAATC 61.861 66.667 30.73 18.62 41.02 2.52
336 4465 3.969250 ATGTGAACGCCGGCCGAAT 62.969 57.895 30.73 8.58 41.02 3.34
341 4470 2.823829 GATGGATGTGAACGCCGGC 61.824 63.158 19.07 19.07 0.00 6.13
342 4471 2.525248 CGATGGATGTGAACGCCGG 61.525 63.158 0.00 0.00 0.00 6.13
344 4473 1.261619 GAATCGATGGATGTGAACGCC 59.738 52.381 0.00 0.00 31.83 5.68
346 4475 1.522676 CCGAATCGATGGATGTGAACG 59.477 52.381 3.36 0.00 31.83 3.95
347 4476 1.261619 GCCGAATCGATGGATGTGAAC 59.738 52.381 3.36 0.00 31.83 3.18
348 4477 1.581934 GCCGAATCGATGGATGTGAA 58.418 50.000 3.36 0.00 31.83 3.18
349 4478 0.249868 GGCCGAATCGATGGATGTGA 60.250 55.000 3.36 0.00 31.83 3.58
352 4481 1.300931 ACGGCCGAATCGATGGATG 60.301 57.895 35.90 0.00 31.83 3.51
353 4482 1.300931 CACGGCCGAATCGATGGAT 60.301 57.895 35.90 0.68 0.00 3.41
354 4483 2.106131 CACGGCCGAATCGATGGA 59.894 61.111 35.90 0.00 0.00 3.41
356 4485 3.005898 CACACGGCCGAATCGATG 58.994 61.111 35.90 21.25 0.00 3.84
357 4486 2.890474 GCACACGGCCGAATCGAT 60.890 61.111 35.90 4.54 36.11 3.59
358 4487 3.657448 ATGCACACGGCCGAATCGA 62.657 57.895 35.90 13.01 43.89 3.59
359 4488 3.195002 ATGCACACGGCCGAATCG 61.195 61.111 35.90 19.05 43.89 3.34
360 4489 1.922135 AACATGCACACGGCCGAATC 61.922 55.000 35.90 17.62 43.89 2.52
361 4490 1.922135 GAACATGCACACGGCCGAAT 61.922 55.000 35.90 16.98 43.89 3.34
362 4491 2.593148 AACATGCACACGGCCGAA 60.593 55.556 35.90 12.00 43.89 4.30
363 4492 3.047280 GAACATGCACACGGCCGA 61.047 61.111 35.90 9.64 43.89 5.54
364 4493 3.027170 GAGAACATGCACACGGCCG 62.027 63.158 26.86 26.86 43.89 6.13
365 4494 1.237285 AAGAGAACATGCACACGGCC 61.237 55.000 0.00 0.00 43.89 6.13
366 4495 0.166814 GAAGAGAACATGCACACGGC 59.833 55.000 0.00 0.00 45.13 5.68
367 4496 1.800805 AGAAGAGAACATGCACACGG 58.199 50.000 0.00 0.00 0.00 4.94
382 4527 2.833794 TCCCGTCACACAGAAAAGAAG 58.166 47.619 0.00 0.00 0.00 2.85
390 4535 1.855513 TTTACGTTCCCGTCACACAG 58.144 50.000 0.00 0.00 46.28 3.66
398 4543 0.794473 GCTCCACTTTTACGTTCCCG 59.206 55.000 0.00 0.00 40.83 5.14
400 4545 2.665052 CGTAGCTCCACTTTTACGTTCC 59.335 50.000 0.00 0.00 35.45 3.62
425 4570 4.899687 GATGCTCGCGCGGACGTA 62.900 66.667 31.69 18.07 42.83 3.57
430 4575 3.699484 CATCTGATGCTCGCGCGG 61.699 66.667 31.69 21.37 39.65 6.46
431 4576 2.408227 GAACATCTGATGCTCGCGCG 62.408 60.000 26.76 26.76 39.65 6.86
473 4618 4.218417 ACCAAGCGTTAATCTGATGCTTTT 59.782 37.500 9.46 0.00 44.60 2.27
476 4621 2.679837 CACCAAGCGTTAATCTGATGCT 59.320 45.455 0.00 0.00 40.93 3.79
477 4622 2.677836 TCACCAAGCGTTAATCTGATGC 59.322 45.455 0.00 0.00 0.00 3.91
478 4623 4.183865 TCTCACCAAGCGTTAATCTGATG 58.816 43.478 0.00 0.00 0.00 3.07
491 4636 4.106197 GTCGTTAGCACTATCTCACCAAG 58.894 47.826 0.00 0.00 0.00 3.61
499 4646 2.603560 GGCTGTTGTCGTTAGCACTATC 59.396 50.000 0.00 0.00 39.15 2.08
536 4684 7.439056 CACACATCATTACAGGCTTTTCTTTTT 59.561 33.333 0.00 0.00 0.00 1.94
566 4714 8.304596 CCGCTAATCTCAGACCTTTATTATGTA 58.695 37.037 0.00 0.00 0.00 2.29
607 6360 1.965643 AGTAGCAACGGTAACCACAGA 59.034 47.619 0.00 0.00 0.00 3.41
735 6531 0.240145 CGTGCGGTTAGTCAGACAGA 59.760 55.000 2.66 0.00 0.00 3.41
736 6532 1.344942 GCGTGCGGTTAGTCAGACAG 61.345 60.000 2.66 0.00 0.00 3.51
737 6533 1.372499 GCGTGCGGTTAGTCAGACA 60.372 57.895 2.66 0.00 0.00 3.41
790 6589 2.105466 GGGCGAGAGAAGCAAGCAG 61.105 63.158 0.00 0.00 36.08 4.24
792 6591 1.365368 GAAGGGCGAGAGAAGCAAGC 61.365 60.000 0.00 0.00 36.08 4.01
794 6593 0.320771 GTGAAGGGCGAGAGAAGCAA 60.321 55.000 0.00 0.00 36.08 3.91
798 6613 2.261671 GCGTGAAGGGCGAGAGAA 59.738 61.111 0.00 0.00 0.00 2.87
820 6639 1.138247 GATAAGGACACGTCGCGGT 59.862 57.895 6.13 0.00 0.00 5.68
826 6648 1.101331 GAGGACCGATAAGGACACGT 58.899 55.000 0.00 0.00 45.00 4.49
828 6654 2.101082 GGAAGAGGACCGATAAGGACAC 59.899 54.545 0.00 0.00 45.00 3.67
839 6665 0.043485 AGGGAGAAGGGAAGAGGACC 59.957 60.000 0.00 0.00 0.00 4.46
945 6792 1.298014 GAGAGGGCTGGAGGTGTTG 59.702 63.158 0.00 0.00 0.00 3.33
973 6840 0.250727 GCCTTGCTTGGTACTGGTGA 60.251 55.000 0.00 0.00 0.00 4.02
994 8326 2.573869 CACCGCGTCCATGAGACT 59.426 61.111 4.92 0.00 43.91 3.24
996 8328 2.678580 TCCACCGCGTCCATGAGA 60.679 61.111 4.92 0.00 0.00 3.27
997 8329 2.202797 CTCCACCGCGTCCATGAG 60.203 66.667 4.92 0.00 0.00 2.90
998 8330 2.994995 ACTCCACCGCGTCCATGA 60.995 61.111 4.92 0.00 0.00 3.07
1724 9256 7.322664 CCTTTTATCCCACGTACTAGTGTTTA 58.677 38.462 5.39 0.00 40.33 2.01
1733 12928 2.011947 GCACCCTTTTATCCCACGTAC 58.988 52.381 0.00 0.00 0.00 3.67
1739 12934 1.106285 CTGCAGCACCCTTTTATCCC 58.894 55.000 0.00 0.00 0.00 3.85
1742 12941 1.635487 TCCTCTGCAGCACCCTTTTAT 59.365 47.619 9.47 0.00 0.00 1.40
1779 12978 5.299531 TGTGGTTGGTTCGATATTTTTGACA 59.700 36.000 0.00 0.00 0.00 3.58
1880 13090 7.721399 AGAAAGGAAAGTGCAGAGAAAGATTTA 59.279 33.333 0.00 0.00 0.00 1.40
1888 13098 4.780815 TGAAAGAAAGGAAAGTGCAGAGA 58.219 39.130 0.00 0.00 0.00 3.10
1945 13178 0.592148 GAGGCCGGTCGTATAGTCTG 59.408 60.000 1.90 0.00 0.00 3.51
2005 13244 2.978824 CACCCCATCGACGAGGTT 59.021 61.111 8.86 0.00 0.00 3.50
2027 13266 0.469892 AGGCCCTTTTTCCACCAGTG 60.470 55.000 0.00 0.00 0.00 3.66
2028 13267 0.264657 AAGGCCCTTTTTCCACCAGT 59.735 50.000 0.00 0.00 0.00 4.00
2029 13268 1.070601 CAAAGGCCCTTTTTCCACCAG 59.929 52.381 5.84 0.00 30.60 4.00
2031 13270 0.396435 CCAAAGGCCCTTTTTCCACC 59.604 55.000 5.84 0.00 30.60 4.61
2032 13271 1.070134 GACCAAAGGCCCTTTTTCCAC 59.930 52.381 5.84 0.00 30.60 4.02
2034 13273 0.317160 CGACCAAAGGCCCTTTTTCC 59.683 55.000 5.84 0.00 30.60 3.13
2035 13274 0.319555 GCGACCAAAGGCCCTTTTTC 60.320 55.000 5.84 5.31 30.60 2.29
2036 13275 1.745890 GCGACCAAAGGCCCTTTTT 59.254 52.632 5.84 0.00 30.60 1.94
2037 13276 2.561037 CGCGACCAAAGGCCCTTTT 61.561 57.895 5.84 0.00 30.60 2.27
2038 13277 2.983592 CGCGACCAAAGGCCCTTT 60.984 61.111 1.93 1.93 33.58 3.11
2042 13281 3.733960 GAACCGCGACCAAAGGCC 61.734 66.667 8.23 0.00 0.00 5.19
2043 13282 4.084888 CGAACCGCGACCAAAGGC 62.085 66.667 8.23 0.00 44.57 4.35
2044 13283 4.084888 GCGAACCGCGACCAAAGG 62.085 66.667 8.23 0.00 44.55 3.11
2055 13294 1.130561 GACTAATGGCAGTTGCGAACC 59.869 52.381 0.00 0.00 43.26 3.62
2056 13295 1.201921 CGACTAATGGCAGTTGCGAAC 60.202 52.381 0.00 0.00 43.26 3.95
2057 13296 1.075542 CGACTAATGGCAGTTGCGAA 58.924 50.000 0.00 0.00 43.26 4.70
2058 13297 1.358725 GCGACTAATGGCAGTTGCGA 61.359 55.000 14.22 0.00 44.02 5.10
2059 13298 1.060937 GCGACTAATGGCAGTTGCG 59.939 57.895 0.00 0.70 44.02 4.85
2062 13301 0.321298 AACCGCGACTAATGGCAGTT 60.321 50.000 8.23 0.00 0.00 3.16
2065 13304 2.395360 GCAACCGCGACTAATGGCA 61.395 57.895 8.23 0.00 0.00 4.92
2094 13333 3.636313 TTTAGTCGCGCCCGTCTGG 62.636 63.158 0.00 0.00 34.76 3.86
2095 13334 2.126228 TTTAGTCGCGCCCGTCTG 60.126 61.111 0.00 0.00 34.76 3.51
2096 13335 2.181021 CTTTAGTCGCGCCCGTCT 59.819 61.111 0.00 0.00 36.79 4.18
2097 13336 2.884207 CCTTTAGTCGCGCCCGTC 60.884 66.667 0.00 0.00 35.54 4.79
2119 13358 1.743995 CAACCGCGACTAAAGGGGG 60.744 63.158 8.23 0.00 44.84 5.40
2120 13359 2.396157 GCAACCGCGACTAAAGGGG 61.396 63.158 8.23 0.00 45.85 4.79
2121 13360 0.953960 AAGCAACCGCGACTAAAGGG 60.954 55.000 8.23 0.00 45.49 3.95
2122 13361 1.717194 TAAGCAACCGCGACTAAAGG 58.283 50.000 8.23 0.00 45.49 3.11
2123 13362 2.991190 TCTTAAGCAACCGCGACTAAAG 59.009 45.455 8.23 1.88 45.49 1.85
2124 13363 3.029320 TCTTAAGCAACCGCGACTAAA 57.971 42.857 8.23 0.00 45.49 1.85
2125 13364 2.728690 TCTTAAGCAACCGCGACTAA 57.271 45.000 8.23 0.00 45.49 2.24
2126 13365 2.331194 GTTCTTAAGCAACCGCGACTA 58.669 47.619 8.23 0.00 45.49 2.59
2127 13366 1.145803 GTTCTTAAGCAACCGCGACT 58.854 50.000 8.23 0.00 45.49 4.18
2128 13367 0.165295 GGTTCTTAAGCAACCGCGAC 59.835 55.000 8.23 0.00 45.49 5.19
2129 13368 2.535588 GGTTCTTAAGCAACCGCGA 58.464 52.632 8.23 0.00 45.49 5.87
2133 13372 0.165295 GTCGCGGTTCTTAAGCAACC 59.835 55.000 19.09 19.09 40.12 3.77
2134 13373 1.145803 AGTCGCGGTTCTTAAGCAAC 58.854 50.000 6.13 3.71 0.00 4.17
2135 13374 2.728690 TAGTCGCGGTTCTTAAGCAA 57.271 45.000 6.13 0.00 0.00 3.91
2136 13375 2.728690 TTAGTCGCGGTTCTTAAGCA 57.271 45.000 6.13 0.00 0.00 3.91
2137 13376 2.347755 CCTTTAGTCGCGGTTCTTAAGC 59.652 50.000 6.13 0.00 0.00 3.09
2138 13377 2.347755 GCCTTTAGTCGCGGTTCTTAAG 59.652 50.000 6.13 11.57 0.00 1.85
2139 13378 2.340337 GCCTTTAGTCGCGGTTCTTAA 58.660 47.619 6.13 2.46 0.00 1.85
2140 13379 1.404583 GGCCTTTAGTCGCGGTTCTTA 60.405 52.381 6.13 0.00 0.00 2.10
2141 13380 0.672711 GGCCTTTAGTCGCGGTTCTT 60.673 55.000 6.13 0.00 0.00 2.52
2142 13381 1.079336 GGCCTTTAGTCGCGGTTCT 60.079 57.895 6.13 5.42 0.00 3.01
2143 13382 2.104859 GGGCCTTTAGTCGCGGTTC 61.105 63.158 6.13 0.00 0.00 3.62
2144 13383 2.046604 GGGCCTTTAGTCGCGGTT 60.047 61.111 6.13 0.00 0.00 4.44
2145 13384 4.446413 CGGGCCTTTAGTCGCGGT 62.446 66.667 6.13 0.00 35.43 5.68
2146 13385 4.446413 ACGGGCCTTTAGTCGCGG 62.446 66.667 6.13 0.00 41.92 6.46
2147 13386 2.884207 GACGGGCCTTTAGTCGCG 60.884 66.667 0.84 0.00 43.02 5.87
2148 13387 2.510918 GGACGGGCCTTTAGTCGC 60.511 66.667 0.84 0.00 35.87 5.19
2149 13388 1.447314 GTGGACGGGCCTTTAGTCG 60.447 63.158 0.84 0.00 37.63 4.18
2150 13389 1.447314 CGTGGACGGGCCTTTAGTC 60.447 63.158 0.84 7.66 37.63 2.59
2151 13390 2.212110 ACGTGGACGGGCCTTTAGT 61.212 57.895 0.84 0.00 44.95 2.24
2152 13391 1.740296 CACGTGGACGGGCCTTTAG 60.740 63.158 7.95 0.00 44.95 1.85
2153 13392 2.344500 CACGTGGACGGGCCTTTA 59.656 61.111 7.95 0.00 44.95 1.85
2154 13393 4.636435 CCACGTGGACGGGCCTTT 62.636 66.667 31.31 0.00 42.34 3.11
2167 13406 2.573609 CTAAAGGTCCTCCGCCCACG 62.574 65.000 0.00 0.00 39.05 4.94
2168 13407 1.221021 CTAAAGGTCCTCCGCCCAC 59.779 63.158 0.00 0.00 39.05 4.61
2169 13408 1.229400 ACTAAAGGTCCTCCGCCCA 60.229 57.895 0.00 0.00 39.05 5.36
2170 13409 1.521141 GACTAAAGGTCCTCCGCCC 59.479 63.158 0.00 0.00 38.93 6.13
2171 13410 1.141234 CGACTAAAGGTCCTCCGCC 59.859 63.158 0.00 0.00 41.64 6.13
2172 13411 1.518792 GCGACTAAAGGTCCTCCGC 60.519 63.158 0.00 0.00 41.64 5.54
2173 13412 1.226603 CGCGACTAAAGGTCCTCCG 60.227 63.158 0.00 0.00 41.64 4.63
2174 13413 1.141234 CCGCGACTAAAGGTCCTCC 59.859 63.158 8.23 0.00 41.64 4.30
2175 13414 0.245813 AACCGCGACTAAAGGTCCTC 59.754 55.000 8.23 0.00 41.64 3.71
2176 13415 0.245813 GAACCGCGACTAAAGGTCCT 59.754 55.000 8.23 0.00 41.64 3.85
2177 13416 0.245813 AGAACCGCGACTAAAGGTCC 59.754 55.000 8.23 0.00 41.64 4.46
2178 13417 1.725164 CAAGAACCGCGACTAAAGGTC 59.275 52.381 8.23 0.00 37.26 3.85
2179 13418 1.069668 ACAAGAACCGCGACTAAAGGT 59.930 47.619 8.23 0.00 40.50 3.50
2180 13419 1.459592 CACAAGAACCGCGACTAAAGG 59.540 52.381 8.23 0.00 0.00 3.11
2181 13420 1.459592 CCACAAGAACCGCGACTAAAG 59.540 52.381 8.23 0.00 0.00 1.85
2182 13421 1.504359 CCACAAGAACCGCGACTAAA 58.496 50.000 8.23 0.00 0.00 1.85
2183 13422 0.947180 GCCACAAGAACCGCGACTAA 60.947 55.000 8.23 0.00 0.00 2.24
2184 13423 1.373748 GCCACAAGAACCGCGACTA 60.374 57.895 8.23 0.00 0.00 2.59
2185 13424 1.812686 TAGCCACAAGAACCGCGACT 61.813 55.000 8.23 0.30 0.00 4.18
2186 13425 0.947180 TTAGCCACAAGAACCGCGAC 60.947 55.000 8.23 0.00 0.00 5.19
2187 13426 0.947180 GTTAGCCACAAGAACCGCGA 60.947 55.000 8.23 0.00 0.00 5.87
2188 13427 1.495951 GTTAGCCACAAGAACCGCG 59.504 57.895 0.00 0.00 0.00 6.46
2189 13428 1.873863 GGTTAGCCACAAGAACCGC 59.126 57.895 0.00 0.00 33.75 5.68
2191 13430 1.873863 GCGGTTAGCCACAAGAACC 59.126 57.895 0.00 0.00 40.81 3.62
2192 13431 0.947180 TCGCGGTTAGCCACAAGAAC 60.947 55.000 6.13 0.00 44.76 3.01
2193 13432 0.947180 GTCGCGGTTAGCCACAAGAA 60.947 55.000 6.13 0.00 44.76 2.52
2194 13433 1.373748 GTCGCGGTTAGCCACAAGA 60.374 57.895 6.13 0.00 44.76 3.02
2195 13434 0.108992 TAGTCGCGGTTAGCCACAAG 60.109 55.000 6.13 0.00 44.76 3.16
2196 13435 0.317799 TTAGTCGCGGTTAGCCACAA 59.682 50.000 6.13 0.00 44.76 3.33
2197 13436 0.317799 TTTAGTCGCGGTTAGCCACA 59.682 50.000 6.13 0.00 44.76 4.17
2198 13437 0.997196 CTTTAGTCGCGGTTAGCCAC 59.003 55.000 6.13 0.00 44.76 5.01
2199 13438 0.108520 CCTTTAGTCGCGGTTAGCCA 60.109 55.000 6.13 0.00 44.76 4.75
2200 13439 1.426816 GCCTTTAGTCGCGGTTAGCC 61.427 60.000 6.13 0.00 44.76 3.93
2201 13440 1.426816 GGCCTTTAGTCGCGGTTAGC 61.427 60.000 6.13 0.17 43.95 3.09
2202 13441 1.143969 CGGCCTTTAGTCGCGGTTAG 61.144 60.000 6.13 0.00 0.00 2.34
2203 13442 1.153784 CGGCCTTTAGTCGCGGTTA 60.154 57.895 6.13 0.00 0.00 2.85
2204 13443 2.433664 CGGCCTTTAGTCGCGGTT 60.434 61.111 6.13 0.00 0.00 4.44
2209 13448 2.047655 TGTGGCGGCCTTTAGTCG 60.048 61.111 21.46 0.00 0.00 4.18
2210 13449 1.745489 CCTGTGGCGGCCTTTAGTC 60.745 63.158 21.46 4.52 0.00 2.59
2211 13450 2.064242 AACCTGTGGCGGCCTTTAGT 62.064 55.000 21.46 9.87 0.00 2.24
2212 13451 0.893727 AAACCTGTGGCGGCCTTTAG 60.894 55.000 21.46 14.55 0.00 1.85
2213 13452 0.468400 AAAACCTGTGGCGGCCTTTA 60.468 50.000 21.46 5.44 0.00 1.85
2214 13453 1.334384 AAAAACCTGTGGCGGCCTTT 61.334 50.000 21.46 8.97 0.00 3.11
2215 13454 1.760480 AAAAACCTGTGGCGGCCTT 60.760 52.632 21.46 2.18 0.00 4.35
2216 13455 2.123468 AAAAACCTGTGGCGGCCT 60.123 55.556 21.46 0.00 0.00 5.19
2217 13456 2.022240 TTCAAAAACCTGTGGCGGCC 62.022 55.000 13.32 13.32 0.00 6.13
2218 13457 0.179097 TTTCAAAAACCTGTGGCGGC 60.179 50.000 0.00 0.00 0.00 6.53
2219 13458 2.301577 TTTTCAAAAACCTGTGGCGG 57.698 45.000 0.00 0.00 0.00 6.13
2272 13511 9.268282 TGGTGATTAGAGACTAGAGGTTAAAAT 57.732 33.333 0.00 0.00 0.00 1.82
2273 13512 8.529476 GTGGTGATTAGAGACTAGAGGTTAAAA 58.471 37.037 0.00 0.00 0.00 1.52
2274 13513 7.123847 GGTGGTGATTAGAGACTAGAGGTTAAA 59.876 40.741 0.00 0.00 0.00 1.52
2275 13514 6.606395 GGTGGTGATTAGAGACTAGAGGTTAA 59.394 42.308 0.00 0.00 0.00 2.01
2276 13515 6.127793 GGTGGTGATTAGAGACTAGAGGTTA 58.872 44.000 0.00 0.00 0.00 2.85
2277 13516 4.957327 GGTGGTGATTAGAGACTAGAGGTT 59.043 45.833 0.00 0.00 0.00 3.50
2278 13517 4.538738 GGTGGTGATTAGAGACTAGAGGT 58.461 47.826 0.00 0.00 0.00 3.85
2279 13518 3.892588 GGGTGGTGATTAGAGACTAGAGG 59.107 52.174 0.00 0.00 0.00 3.69
2281 13520 3.532232 AGGGGTGGTGATTAGAGACTAGA 59.468 47.826 0.00 0.00 0.00 2.43
2282 13521 3.892588 GAGGGGTGGTGATTAGAGACTAG 59.107 52.174 0.00 0.00 0.00 2.57
2283 13522 3.271225 TGAGGGGTGGTGATTAGAGACTA 59.729 47.826 0.00 0.00 0.00 2.59
2285 13524 2.467880 TGAGGGGTGGTGATTAGAGAC 58.532 52.381 0.00 0.00 0.00 3.36
2287 13526 3.041211 TGATGAGGGGTGGTGATTAGAG 58.959 50.000 0.00 0.00 0.00 2.43
2288 13527 2.771943 GTGATGAGGGGTGGTGATTAGA 59.228 50.000 0.00 0.00 0.00 2.10
2289 13528 2.774234 AGTGATGAGGGGTGGTGATTAG 59.226 50.000 0.00 0.00 0.00 1.73
2290 13529 2.771943 GAGTGATGAGGGGTGGTGATTA 59.228 50.000 0.00 0.00 0.00 1.75
2291 13530 1.561542 GAGTGATGAGGGGTGGTGATT 59.438 52.381 0.00 0.00 0.00 2.57
2292 13531 1.207791 GAGTGATGAGGGGTGGTGAT 58.792 55.000 0.00 0.00 0.00 3.06
2295 13534 0.618968 GAGGAGTGATGAGGGGTGGT 60.619 60.000 0.00 0.00 0.00 4.16
2296 13535 0.618680 TGAGGAGTGATGAGGGGTGG 60.619 60.000 0.00 0.00 0.00 4.61
2297 13536 1.415659 GATGAGGAGTGATGAGGGGTG 59.584 57.143 0.00 0.00 0.00 4.61
2298 13537 1.008815 TGATGAGGAGTGATGAGGGGT 59.991 52.381 0.00 0.00 0.00 4.95
2300 13539 2.396608 AGTGATGAGGAGTGATGAGGG 58.603 52.381 0.00 0.00 0.00 4.30


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

AutoCloner maintained by Alex Coulton.