Multiple sequence alignment - TraesCS7B01G202400

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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 TraesCS7B01G202400 chr7B 100.000 7157 0 0 1 7157 371454559 371461715 0.000000e+00 13217
1 TraesCS7B01G202400 chr7D 96.197 5574 169 20 847 6405 376349001 376354546 0.000000e+00 9079
2 TraesCS7B01G202400 chr7D 84.230 818 73 25 1 789 376348210 376349000 0.000000e+00 745
3 TraesCS7B01G202400 chr7D 93.496 369 23 1 4605 4973 166366185 166366552 1.360000e-151 547
4 TraesCS7B01G202400 chr7D 79.268 164 24 6 1 162 56941646 56941491 9.820000e-19 106
5 TraesCS7B01G202400 chr7A 94.596 3701 124 19 479 4166 423555529 423559166 0.000000e+00 5657
6 TraesCS7B01G202400 chr7A 97.056 1053 28 1 4164 5216 423559467 423560516 0.000000e+00 1770
7 TraesCS7B01G202400 chr7A 93.294 1193 38 23 5214 6404 423562007 423563159 0.000000e+00 1722
8 TraesCS7B01G202400 chr7A 91.687 409 29 1 4565 4968 40747250 40747658 4.850000e-156 562
9 TraesCS7B01G202400 chr7A 91.063 414 31 2 4565 4973 463422140 463421728 8.110000e-154 555
10 TraesCS7B01G202400 chr7A 86.133 512 34 14 1 487 423553432 423553931 1.060000e-142 518
11 TraesCS7B01G202400 chr7A 79.268 164 24 6 1 162 60725964 60725809 9.820000e-19 106
12 TraesCS7B01G202400 chr4A 91.757 643 41 5 4491 5132 733459384 733458753 0.000000e+00 883
13 TraesCS7B01G202400 chr4A 87.374 198 24 1 4075 4271 67171895 67171698 7.220000e-55 226
14 TraesCS7B01G202400 chr4A 84.685 111 16 1 53 162 673443361 673443251 7.590000e-20 110
15 TraesCS7B01G202400 chr1B 90.706 581 44 1 4552 5132 54982257 54981687 0.000000e+00 765
16 TraesCS7B01G202400 chr1B 90.821 414 32 2 4565 4973 34774708 34775120 3.770000e-152 549
17 TraesCS7B01G202400 chr6D 93.382 408 26 1 4566 4973 393648871 393649277 2.860000e-168 603
18 TraesCS7B01G202400 chr6D 82.013 467 73 7 6407 6864 449174772 449175236 3.130000e-103 387
19 TraesCS7B01G202400 chr6D 81.454 399 62 8 6476 6864 50954258 50954654 4.170000e-82 316
20 TraesCS7B01G202400 chr6D 84.615 286 39 5 6872 7154 50954627 50954910 5.470000e-71 279
21 TraesCS7B01G202400 chr6D 83.871 279 45 0 6876 7154 449175214 449175492 4.260000e-67 267
22 TraesCS7B01G202400 chr6D 83.010 206 32 3 4068 4271 469049914 469050118 4.410000e-42 183
23 TraesCS7B01G202400 chrUn 90.338 414 34 2 4565 4973 8430148 8430560 8.170000e-149 538
24 TraesCS7B01G202400 chr1D 84.979 466 61 6 6407 6864 59076373 59076837 1.410000e-126 464
25 TraesCS7B01G202400 chr1D 85.765 281 37 3 6876 7154 59076815 59077094 1.950000e-75 294
26 TraesCS7B01G202400 chr2D 83.333 468 67 8 6407 6864 75694155 75694621 8.580000e-114 422
27 TraesCS7B01G202400 chr2D 85.563 284 40 1 6872 7154 75694594 75694877 5.430000e-76 296
28 TraesCS7B01G202400 chr1A 81.197 351 51 9 6407 6749 13193867 13194210 1.180000e-67 268
29 TraesCS7B01G202400 chr1A 83.986 281 41 4 6876 7154 13194288 13194566 4.260000e-67 267
30 TraesCS7B01G202400 chr1A 86.829 205 26 1 6407 6611 49974760 49974557 2.010000e-55 228
31 TraesCS7B01G202400 chr5A 77.186 469 94 7 6407 6866 689930651 689930187 1.980000e-65 261
32 TraesCS7B01G202400 chr3D 86.207 203 27 1 4068 4269 446194169 446193967 1.210000e-52 219
33 TraesCS7B01G202400 chr3D 80.247 162 23 9 6414 6571 316818102 316818258 5.870000e-21 113
34 TraesCS7B01G202400 chr5D 85.366 205 29 1 4068 4271 476701985 476702189 2.020000e-50 211
35 TraesCS7B01G202400 chr5D 81.366 161 22 8 6414 6571 544446657 544446502 2.710000e-24 124
36 TraesCS7B01G202400 chr2A 85.128 195 28 1 4085 4278 763436132 763435938 1.570000e-46 198
37 TraesCS7B01G202400 chr2A 84.848 198 27 3 4076 4271 656700391 656700587 5.660000e-46 196
38 TraesCS7B01G202400 chr4B 81.122 196 32 4 4068 4258 15762824 15763019 1.240000e-32 152


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 TraesCS7B01G202400 chr7B 371454559 371461715 7156 False 13217.00 13217 100.00000 1 7157 1 chr7B.!!$F1 7156
1 TraesCS7B01G202400 chr7D 376348210 376354546 6336 False 4912.00 9079 90.21350 1 6405 2 chr7D.!!$F2 6404
2 TraesCS7B01G202400 chr7A 423553432 423563159 9727 False 2416.75 5657 92.76975 1 6404 4 chr7A.!!$F2 6403
3 TraesCS7B01G202400 chr4A 733458753 733459384 631 True 883.00 883 91.75700 4491 5132 1 chr4A.!!$R3 641
4 TraesCS7B01G202400 chr1B 54981687 54982257 570 True 765.00 765 90.70600 4552 5132 1 chr1B.!!$R1 580
5 TraesCS7B01G202400 chr6D 449174772 449175492 720 False 327.00 387 82.94200 6407 7154 2 chr6D.!!$F4 747
6 TraesCS7B01G202400 chr6D 50954258 50954910 652 False 297.50 316 83.03450 6476 7154 2 chr6D.!!$F3 678
7 TraesCS7B01G202400 chr1D 59076373 59077094 721 False 379.00 464 85.37200 6407 7154 2 chr1D.!!$F1 747
8 TraesCS7B01G202400 chr2D 75694155 75694877 722 False 359.00 422 84.44800 6407 7154 2 chr2D.!!$F1 747
9 TraesCS7B01G202400 chr1A 13193867 13194566 699 False 267.50 268 82.59150 6407 7154 2 chr1A.!!$F1 747

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
933 2569 0.391130 CGACTCATCCGAGGGCAAAA 60.391 55.0 0.00 0.00 44.17 2.44 F
1035 2674 0.041238 ACTCCACTTCCTCCGATCCA 59.959 55.0 0.00 0.00 0.00 3.41 F
1154 2793 0.458669 GTCCGACGAGCTCCCATTTA 59.541 55.0 8.47 0.00 0.00 1.40 F
2857 4502 0.393944 CACCAGTGAGCTCCATGCAT 60.394 55.0 12.15 0.00 45.94 3.96 F
3055 4700 1.131303 TGGGTCGTGGTTCCATCCTT 61.131 55.0 0.00 0.00 0.00 3.36 F
4175 6129 1.133181 TTGAGGACCTGGATGCCACA 61.133 55.0 0.00 0.86 0.00 4.17 F
5868 9326 0.321671 TTCAGCCAAGAGGAGGTTCG 59.678 55.0 0.00 0.00 36.89 3.95 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2799 4441 0.378962 TTTGGAAGGAACGCAACGTG 59.621 50.000 0.00 0.0 39.99 4.49 R
2800 4442 0.379316 GTTTGGAAGGAACGCAACGT 59.621 50.000 0.00 0.0 43.97 3.99 R
3036 4681 1.131303 AAGGATGGAACCACGACCCA 61.131 55.000 0.00 0.0 0.00 4.51 R
4175 6129 1.408266 GGTCCCCGAAGTGCAATATGT 60.408 52.381 0.00 0.0 0.00 2.29 R
4748 6706 1.747355 CTGATGCTAACCAAGGCAAGG 59.253 52.381 0.00 0.0 41.90 3.61 R
5870 9328 0.235665 ACTAACGAGCGAACGAACGA 59.764 50.000 16.11 0.2 37.03 3.85 R
7085 10554 0.107703 CTTTCATCAGGCTGGCGGTA 60.108 55.000 15.73 0.0 0.00 4.02 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
42 44 5.335740 CCTGACCGCGATACTAATCAGTATT 60.336 44.000 8.23 0.00 45.99 1.89
48 50 6.128090 CCGCGATACTAATCAGTATTGTCCTA 60.128 42.308 8.23 0.00 45.99 2.94
49 51 7.303261 CGCGATACTAATCAGTATTGTCCTAA 58.697 38.462 0.00 0.00 45.99 2.69
50 52 7.806487 CGCGATACTAATCAGTATTGTCCTAAA 59.194 37.037 0.00 0.00 45.99 1.85
51 53 9.472361 GCGATACTAATCAGTATTGTCCTAAAA 57.528 33.333 5.32 0.00 45.99 1.52
92 94 7.700505 TCAAAGATTCATTCTTCATGGATTCG 58.299 34.615 0.00 0.00 44.09 3.34
112 114 1.905354 GCCTTGGCAAAGCACTCCT 60.905 57.895 15.68 0.00 31.51 3.69
137 139 6.266558 TGTTACAAGGTTCCATAAACATGCTT 59.733 34.615 0.00 0.00 39.81 3.91
138 140 7.448777 TGTTACAAGGTTCCATAAACATGCTTA 59.551 33.333 0.00 0.00 39.81 3.09
226 228 8.778059 TCTTATTAAGGTGAATAGTGTCCCATT 58.222 33.333 3.66 0.00 0.00 3.16
296 310 3.900601 CTCCTGGAATGAGCTACACCTAT 59.099 47.826 0.00 0.00 0.00 2.57
313 327 7.834881 ACACCTATCGGTTATTCTTCTCATA 57.165 36.000 0.00 0.00 42.13 2.15
354 368 9.653287 CTGTAAAGACACACTTTTATCTATGGA 57.347 33.333 0.00 0.00 45.22 3.41
427 442 9.778741 AGGATTAAAGAAATATGAATACGAGCA 57.221 29.630 0.00 0.00 0.00 4.26
487 2119 4.467438 CCAGGGATATAATTGGGAAATGCC 59.533 45.833 0.00 0.00 0.00 4.40
488 2120 5.085920 CAGGGATATAATTGGGAAATGCCA 58.914 41.667 0.00 0.00 38.95 4.92
489 2121 5.722923 CAGGGATATAATTGGGAAATGCCAT 59.277 40.000 0.00 0.00 38.95 4.40
498 2130 1.069049 GGGAAATGCCATTGCGCTTAT 59.931 47.619 9.73 0.00 41.78 1.73
502 2134 4.321156 GGAAATGCCATTGCGCTTATCATA 60.321 41.667 9.73 0.00 41.78 2.15
537 2169 1.335145 AGCAAGCAGAAGCAATGGTT 58.665 45.000 0.00 0.00 45.49 3.67
572 2204 1.600023 CGGGGAAACACTTGCTAACA 58.400 50.000 0.00 0.00 0.00 2.41
604 2236 3.311322 CGCACTTCCTTTGTGTAGTCAAA 59.689 43.478 0.00 0.00 37.70 2.69
634 2266 7.976135 AATCTAGAGATATTGTTGGACATGC 57.024 36.000 0.00 0.00 33.73 4.06
756 2392 3.760580 AAGAAGACAAGAGGACAGGTG 57.239 47.619 0.00 0.00 0.00 4.00
798 2434 3.259876 TGCACGGGATTAAGTTAGTCACT 59.740 43.478 6.15 0.00 37.30 3.41
799 2435 4.463539 TGCACGGGATTAAGTTAGTCACTA 59.536 41.667 6.15 0.00 32.94 2.74
800 2436 5.041940 GCACGGGATTAAGTTAGTCACTAG 58.958 45.833 6.15 0.00 32.94 2.57
801 2437 5.163581 GCACGGGATTAAGTTAGTCACTAGA 60.164 44.000 6.15 0.00 32.94 2.43
802 2438 6.626623 GCACGGGATTAAGTTAGTCACTAGAA 60.627 42.308 6.15 0.00 32.94 2.10
803 2439 6.973474 CACGGGATTAAGTTAGTCACTAGAAG 59.027 42.308 6.15 0.00 32.94 2.85
804 2440 6.662663 ACGGGATTAAGTTAGTCACTAGAAGT 59.337 38.462 6.15 0.00 32.94 3.01
805 2441 7.148103 ACGGGATTAAGTTAGTCACTAGAAGTC 60.148 40.741 6.15 0.00 32.94 3.01
806 2442 7.067251 CGGGATTAAGTTAGTCACTAGAAGTCT 59.933 40.741 6.15 0.00 32.94 3.24
843 2479 4.250464 TCCGTTGCAATTAGTTAGGACAG 58.750 43.478 0.59 0.00 0.00 3.51
933 2569 0.391130 CGACTCATCCGAGGGCAAAA 60.391 55.000 0.00 0.00 44.17 2.44
944 2580 1.401905 GAGGGCAAAATCGTCACATCC 59.598 52.381 0.00 0.00 0.00 3.51
969 2605 7.981225 CCATAAATTGATGAACTAACCCCAAAG 59.019 37.037 4.15 0.00 0.00 2.77
985 2621 4.394729 CCCAAAGGGCGAGCTAATTTATA 58.605 43.478 0.00 0.00 35.35 0.98
998 2634 5.342525 AGCTAATTTATACGACTTGCGATCG 59.657 40.000 11.69 11.69 44.57 3.69
1035 2674 0.041238 ACTCCACTTCCTCCGATCCA 59.959 55.000 0.00 0.00 0.00 3.41
1119 2758 1.454201 CAGGTACACTCTCTCGCTCA 58.546 55.000 0.00 0.00 0.00 4.26
1154 2793 0.458669 GTCCGACGAGCTCCCATTTA 59.541 55.000 8.47 0.00 0.00 1.40
1173 2812 3.723364 CTCGATTTGGCCGCTTGCG 62.723 63.158 8.14 8.14 42.61 4.85
1258 2897 1.746239 GCCCGCGGTTTTTAGCCTA 60.746 57.895 26.12 0.00 0.00 3.93
1377 3016 2.899976 CCTGTTATGATGTGCGGTGTA 58.100 47.619 0.00 0.00 0.00 2.90
1435 3074 1.080705 GCAGCGGTCGTAACTGAGT 60.081 57.895 0.00 0.00 33.20 3.41
1505 3144 7.359264 CGTGTTCGATGATTTTGAGAAGTAACT 60.359 37.037 0.00 0.00 39.71 2.24
1673 3312 3.010420 GGATACCAAGTTCAAGGTGAGC 58.990 50.000 0.00 0.00 38.87 4.26
1685 3324 5.818136 TCAAGGTGAGCAATTATTACTGC 57.182 39.130 0.00 0.00 38.91 4.40
1896 3535 4.263018 TCACCTGTTCTGTTCATCTGAG 57.737 45.455 0.00 0.00 0.00 3.35
1911 3550 8.102676 TGTTCATCTGAGGAGTTGATTTGATAA 58.897 33.333 0.00 0.00 29.78 1.75
2005 3644 2.988010 AGATGCTCGATTGGCTTACA 57.012 45.000 0.00 0.00 0.00 2.41
2034 3673 1.270358 GGAATCGTCCAGAGGGTATGC 60.270 57.143 0.00 0.00 44.26 3.14
2042 3681 1.576356 CAGAGGGTATGCGCTTCTTC 58.424 55.000 9.73 1.48 38.06 2.87
2066 3705 3.753842 TCTTTTGTTGTTCTCGTGTTGC 58.246 40.909 0.00 0.00 0.00 4.17
2083 3722 4.901881 GTGTTGCGTAACTGAATTGTGTAC 59.098 41.667 17.37 0.00 37.68 2.90
2121 3761 8.698210 ACATTGTGATTTGCATAGATGGTTATT 58.302 29.630 0.00 0.00 0.00 1.40
2414 4055 8.700439 TTTGTTTACTTCTAATGGGCTAAACT 57.300 30.769 0.00 0.00 0.00 2.66
2498 4139 9.698309 ACACAGAATTAGGATATCTATGTTTCG 57.302 33.333 2.05 1.40 0.00 3.46
2798 4440 6.258230 TGTTGATGCCTTATTTGTGAAGAG 57.742 37.500 0.00 0.00 0.00 2.85
2799 4441 4.970662 TGATGCCTTATTTGTGAAGAGC 57.029 40.909 0.00 0.00 0.00 4.09
2800 4442 4.334552 TGATGCCTTATTTGTGAAGAGCA 58.665 39.130 0.00 0.00 35.78 4.26
2857 4502 0.393944 CACCAGTGAGCTCCATGCAT 60.394 55.000 12.15 0.00 45.94 3.96
3036 4681 1.153409 CCAGCAGAGCGAGCAGATT 60.153 57.895 0.00 0.00 0.00 2.40
3055 4700 1.131303 TGGGTCGTGGTTCCATCCTT 61.131 55.000 0.00 0.00 0.00 3.36
3171 4819 7.566760 TTGCTTTGAGTTCTTTTCATCACTA 57.433 32.000 0.00 0.00 0.00 2.74
3201 4849 8.890124 ATTCAATTTGTCAACATTGATGAACA 57.110 26.923 16.80 8.09 38.81 3.18
3263 4911 4.649088 TCATACCTTAGTCGTGATGGTG 57.351 45.455 0.00 0.00 32.74 4.17
3323 4971 8.753497 ATATCTTTTCCTAAAGTTAAGGCTGG 57.247 34.615 0.00 0.00 41.25 4.85
3656 5305 5.073192 TGTCGTCAACTTGTTTACAATCG 57.927 39.130 0.00 0.00 35.02 3.34
3971 5620 6.116806 TGTCGGCAACATAAATACCTATTGT 58.883 36.000 0.00 0.00 31.20 2.71
4015 5664 2.039084 AGGTTGTCAGTCCAATCTGTCC 59.961 50.000 0.00 0.00 34.53 4.02
4027 5676 7.707035 CAGTCCAATCTGTCCTGTAACTTATAC 59.293 40.741 0.00 0.00 0.00 1.47
4138 5788 6.349243 TCTAAAATGGTTCGAGGACTTACA 57.651 37.500 0.00 0.00 0.00 2.41
4157 5808 9.654663 GACTTACATGACACCTCTAAATAGTTT 57.345 33.333 0.00 0.00 0.00 2.66
4175 6129 1.133181 TTGAGGACCTGGATGCCACA 61.133 55.000 0.00 0.86 0.00 4.17
4226 6180 4.627467 CACTTTTCATAGTTCGAGGACCTG 59.373 45.833 0.00 0.00 0.00 4.00
4271 6225 2.371841 AGGACCTACAATGCACTTCACA 59.628 45.455 0.00 0.00 0.00 3.58
4334 6288 4.851639 ATAAGAGGCTCCACAAGACAAT 57.148 40.909 11.71 0.00 34.25 2.71
4516 6470 3.838244 AGAACTGAAGCCTTGTGTGTA 57.162 42.857 0.00 0.00 0.00 2.90
4521 6475 4.718961 ACTGAAGCCTTGTGTGTATCTTT 58.281 39.130 0.00 0.00 0.00 2.52
4748 6706 0.545646 AGAAGGGAGAAGATGCTGGC 59.454 55.000 0.00 0.00 0.00 4.85
4836 6794 2.106511 ACAGGGCTTCTTTACTCTGCAA 59.893 45.455 0.00 0.00 0.00 4.08
4862 6820 4.965814 TGCAATTTTTAATGTTCCTGGCA 58.034 34.783 0.00 0.00 0.00 4.92
5096 7054 1.693640 CCATGAACAGGGCTCCCTT 59.306 57.895 4.34 0.00 45.70 3.95
5135 7093 3.138283 TGACCATTTCCAGTCCTTTCTGT 59.862 43.478 0.00 0.00 34.02 3.41
5136 7094 4.145052 GACCATTTCCAGTCCTTTCTGTT 58.855 43.478 0.00 0.00 34.02 3.16
5137 7095 3.891366 ACCATTTCCAGTCCTTTCTGTTG 59.109 43.478 0.00 0.00 34.02 3.33
5216 7174 9.577110 TTTACTTGATGCAAAATTCTCATCATC 57.423 29.630 14.13 7.95 43.94 2.92
5217 7175 7.165460 ACTTGATGCAAAATTCTCATCATCA 57.835 32.000 14.13 9.78 43.94 3.07
5218 7176 7.608153 ACTTGATGCAAAATTCTCATCATCAA 58.392 30.769 14.13 12.84 43.94 2.57
5219 7177 8.258007 ACTTGATGCAAAATTCTCATCATCAAT 58.742 29.630 13.58 4.74 44.64 2.57
5260 8715 2.886523 GCTGGTTTGCCATGCTATATCA 59.113 45.455 0.00 0.00 45.05 2.15
5433 8889 2.621998 CTGCCCAATTAGATGCTGAAGG 59.378 50.000 0.00 0.00 0.00 3.46
5668 9125 6.605471 AAATACTTGCCTTTTTCCCCTTAG 57.395 37.500 0.00 0.00 0.00 2.18
5786 9244 3.054802 GTCCTTGGATGAATCTGTGACCT 60.055 47.826 0.00 0.00 0.00 3.85
5867 9325 1.349357 ACTTCAGCCAAGAGGAGGTTC 59.651 52.381 0.03 0.00 36.89 3.62
5868 9326 0.321671 TTCAGCCAAGAGGAGGTTCG 59.678 55.000 0.00 0.00 36.89 3.95
5869 9327 0.832135 TCAGCCAAGAGGAGGTTCGT 60.832 55.000 0.00 0.00 36.89 3.85
5870 9328 0.035458 CAGCCAAGAGGAGGTTCGTT 59.965 55.000 0.00 0.00 36.89 3.85
5871 9329 0.321996 AGCCAAGAGGAGGTTCGTTC 59.678 55.000 0.00 0.00 36.89 3.95
5887 9345 1.044725 GTTCGTTCGTTCGCTCGTTA 58.955 50.000 8.06 0.00 0.00 3.18
5930 9388 7.652105 TCTTATGTGAACAGAACAGAAGTGTAC 59.348 37.037 9.86 0.00 43.82 2.90
6133 9591 3.727726 CCCCCAATGTTTGAACTTCAAC 58.272 45.455 3.56 1.39 35.89 3.18
6157 9615 6.317893 ACTTGAAGCCGTTTCTTCTTTCTTAA 59.682 34.615 0.00 0.00 42.15 1.85
6158 9616 6.877611 TGAAGCCGTTTCTTCTTTCTTAAT 57.122 33.333 9.63 0.00 42.15 1.40
6224 9682 6.391227 ACATGTTTACTTTTGTCCTTGGAG 57.609 37.500 0.00 0.00 0.00 3.86
6229 9687 3.644966 ACTTTTGTCCTTGGAGTGTCA 57.355 42.857 0.00 0.00 0.00 3.58
6327 9785 7.213678 GGGTGGTTCAAACATCATCTTTTTAA 58.786 34.615 0.00 0.00 0.00 1.52
6328 9786 7.877612 GGGTGGTTCAAACATCATCTTTTTAAT 59.122 33.333 0.00 0.00 0.00 1.40
6329 9787 9.271828 GGTGGTTCAAACATCATCTTTTTAATT 57.728 29.630 0.00 0.00 0.00 1.40
6405 9863 2.617308 GTCACGAGCTAGCTATGTACCA 59.383 50.000 19.38 4.34 0.00 3.25
6406 9864 2.617308 TCACGAGCTAGCTATGTACCAC 59.383 50.000 19.38 1.02 0.00 4.16
6407 9865 2.357952 CACGAGCTAGCTATGTACCACA 59.642 50.000 19.38 0.00 0.00 4.17
6408 9866 3.021695 ACGAGCTAGCTATGTACCACAA 58.978 45.455 19.38 0.00 0.00 3.33
6409 9867 3.066900 ACGAGCTAGCTATGTACCACAAG 59.933 47.826 19.38 0.42 0.00 3.16
6410 9868 3.066900 CGAGCTAGCTATGTACCACAAGT 59.933 47.826 19.38 0.00 0.00 3.16
6411 9869 4.440250 CGAGCTAGCTATGTACCACAAGTT 60.440 45.833 19.38 0.00 0.00 2.66
6480 9940 3.412386 GAGCTCCAAATACCACAAGTGT 58.588 45.455 0.87 0.00 0.00 3.55
6491 9951 1.278127 CCACAAGTGTCTACCCCGATT 59.722 52.381 0.00 0.00 0.00 3.34
6536 9996 2.159226 ACCTATCGGCATCGCTATTAGC 60.159 50.000 5.56 5.56 38.02 3.09
6537 9997 2.159240 CCTATCGGCATCGCTATTAGCA 60.159 50.000 15.64 3.76 42.58 3.49
6557 10017 4.836125 CAGCTCTGCCTTCAAAAGTAAA 57.164 40.909 0.00 0.00 0.00 2.01
6595 10055 6.662755 AGTAATGAATGTTGCCTAATCTCCA 58.337 36.000 0.00 0.00 0.00 3.86
6596 10056 7.293073 AGTAATGAATGTTGCCTAATCTCCAT 58.707 34.615 0.00 0.00 0.00 3.41
6600 10060 9.812347 AATGAATGTTGCCTAATCTCCATTATA 57.188 29.630 0.00 0.00 0.00 0.98
6618 10086 5.637006 TTATAATTGCTCCGTTTGCTTGT 57.363 34.783 0.00 0.00 0.00 3.16
6634 10102 7.201291 CGTTTGCTTGTTGTCTTGATATCATTG 60.201 37.037 6.17 3.19 0.00 2.82
6655 10123 1.546476 ACTACTTGCTTGGAGTCCGAG 59.454 52.381 20.91 20.91 38.05 4.63
6676 10145 5.511234 AGGCTATGACAAAATCATTCAGC 57.489 39.130 3.94 3.94 46.54 4.26
6678 10147 5.419788 AGGCTATGACAAAATCATTCAGCAA 59.580 36.000 11.72 0.00 46.54 3.91
6681 10150 7.594015 GGCTATGACAAAATCATTCAGCAATAG 59.406 37.037 11.72 0.00 46.54 1.73
6688 10157 8.746530 ACAAAATCATTCAGCAATAGATCTTGT 58.253 29.630 0.00 0.00 0.00 3.16
6724 10193 0.309922 CCCTGCATGCAATAGCTTCG 59.690 55.000 22.88 7.09 42.74 3.79
6727 10196 2.097954 CCTGCATGCAATAGCTTCGAAA 59.902 45.455 22.88 0.00 42.74 3.46
6739 10208 4.045636 AGCTTCGAAAGTTGCAACATTT 57.954 36.364 30.11 24.24 34.17 2.32
6745 10214 7.516627 GCTTCGAAAGTTGCAACATTTGTTATT 60.517 33.333 30.11 11.13 36.32 1.40
6763 10232 5.301551 TGTTATTCCATGTATCACCAATGCC 59.698 40.000 0.00 0.00 0.00 4.40
6766 10235 1.875514 CCATGTATCACCAATGCCGAG 59.124 52.381 0.00 0.00 0.00 4.63
6781 10250 1.651240 CCGAGCTGCCCATGAAGTTG 61.651 60.000 0.00 0.00 0.00 3.16
6787 10256 0.971959 TGCCCATGAAGTTGCCATCC 60.972 55.000 0.00 0.00 0.00 3.51
6789 10258 0.394216 CCCATGAAGTTGCCATCCGA 60.394 55.000 0.00 0.00 0.00 4.55
6792 10261 0.749454 ATGAAGTTGCCATCCGAGCC 60.749 55.000 0.00 0.00 0.00 4.70
6793 10262 1.078143 GAAGTTGCCATCCGAGCCT 60.078 57.895 0.00 0.00 0.00 4.58
6827 10296 0.802994 CGCAACGCCTCGGTTATGTA 60.803 55.000 0.00 0.00 0.00 2.29
6829 10298 1.937899 GCAACGCCTCGGTTATGTATT 59.062 47.619 0.00 0.00 0.00 1.89
6832 10301 4.673320 GCAACGCCTCGGTTATGTATTTTT 60.673 41.667 0.00 0.00 0.00 1.94
6835 10304 4.093850 ACGCCTCGGTTATGTATTTTTGAC 59.906 41.667 0.00 0.00 0.00 3.18
6840 10309 6.148811 CCTCGGTTATGTATTTTTGACACTGT 59.851 38.462 0.00 0.00 0.00 3.55
6870 10339 3.692593 ACGTGGATTTTAGCATAACCCAC 59.307 43.478 0.00 0.00 39.20 4.61
6872 10341 4.338118 CGTGGATTTTAGCATAACCCACAT 59.662 41.667 0.00 0.00 41.78 3.21
6873 10342 5.163561 CGTGGATTTTAGCATAACCCACATT 60.164 40.000 0.00 0.00 41.78 2.71
6874 10343 6.042143 GTGGATTTTAGCATAACCCACATTG 58.958 40.000 0.00 0.00 41.45 2.82
6875 10344 5.049828 GGATTTTAGCATAACCCACATTGC 58.950 41.667 0.00 0.00 35.34 3.56
6876 10345 3.773860 TTTAGCATAACCCACATTGCG 57.226 42.857 0.00 0.00 40.00 4.85
6877 10346 1.021202 TAGCATAACCCACATTGCGC 58.979 50.000 0.00 0.00 40.00 6.09
6878 10347 1.586042 GCATAACCCACATTGCGCG 60.586 57.895 0.00 0.00 0.00 6.86
6879 10348 1.800032 CATAACCCACATTGCGCGT 59.200 52.632 8.43 0.00 0.00 6.01
6880 10349 0.248054 CATAACCCACATTGCGCGTC 60.248 55.000 8.43 0.00 0.00 5.19
6881 10350 1.373590 ATAACCCACATTGCGCGTCC 61.374 55.000 8.43 0.00 0.00 4.79
6882 10351 2.733319 TAACCCACATTGCGCGTCCA 62.733 55.000 8.43 0.00 0.00 4.02
6883 10352 4.101790 CCCACATTGCGCGTCCAC 62.102 66.667 8.43 0.00 0.00 4.02
6884 10353 4.444024 CCACATTGCGCGTCCACG 62.444 66.667 8.43 0.00 43.27 4.94
6885 10354 3.711842 CACATTGCGCGTCCACGT 61.712 61.111 8.43 0.00 42.22 4.49
6901 10370 4.263435 TCCACGTGGATTTTACCATAACC 58.737 43.478 33.23 0.00 42.17 2.85
6902 10371 3.379057 CCACGTGGATTTTACCATAACCC 59.621 47.826 31.31 0.00 42.17 4.11
6931 10400 1.761174 CCCTTGGGCACAGTACACT 59.239 57.895 0.00 0.00 0.00 3.55
6940 10409 4.578913 CAGTACACTGCACCTCGG 57.421 61.111 0.00 0.00 37.15 4.63
6942 10411 2.809601 GTACACTGCACCTCGGCG 60.810 66.667 0.00 0.00 36.28 6.46
6957 10426 2.266055 GCGCAGGCAGGTACTTCT 59.734 61.111 0.30 0.00 34.60 2.85
7022 10491 2.655090 TGAACTCATGGGTTGCTGAA 57.345 45.000 17.62 0.00 0.00 3.02
7031 10500 0.687354 GGGTTGCTGAAGGACTCTGA 59.313 55.000 0.00 0.00 0.00 3.27
7035 10504 3.431486 GGTTGCTGAAGGACTCTGATAGG 60.431 52.174 0.00 0.00 0.00 2.57
7049 10518 6.100004 ACTCTGATAGGTTTGTTCGTGTATG 58.900 40.000 0.00 0.00 0.00 2.39
7079 10548 0.178953 GAGCCCACCATATTGCCCAT 60.179 55.000 0.00 0.00 0.00 4.00
7081 10550 1.718226 AGCCCACCATATTGCCCATAT 59.282 47.619 0.00 0.00 0.00 1.78
7082 10551 2.112331 AGCCCACCATATTGCCCATATT 59.888 45.455 0.00 0.00 0.00 1.28
7085 10554 3.903090 CCCACCATATTGCCCATATTGTT 59.097 43.478 0.00 0.00 0.00 2.83
7088 10557 5.047377 CCACCATATTGCCCATATTGTTACC 60.047 44.000 0.00 0.00 0.00 2.85
7109 10578 2.372264 GCCAGCCTGATGAAAGATTCA 58.628 47.619 0.00 0.00 45.01 2.57
7154 10623 3.008375 AGAAGATCCACTGCTTTGCACTA 59.992 43.478 0.00 0.00 33.79 2.74
7155 10624 2.983229 AGATCCACTGCTTTGCACTAG 58.017 47.619 0.00 0.00 33.79 2.57
7156 10625 2.012673 GATCCACTGCTTTGCACTAGG 58.987 52.381 0.00 0.00 33.79 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
42 44 4.781775 TCAGGTTTCAGGTTTTAGGACA 57.218 40.909 0.00 0.00 0.00 4.02
48 50 6.607198 TCTTTGAGATTCAGGTTTCAGGTTTT 59.393 34.615 0.00 0.00 0.00 2.43
49 51 6.129179 TCTTTGAGATTCAGGTTTCAGGTTT 58.871 36.000 0.00 0.00 0.00 3.27
50 52 5.694995 TCTTTGAGATTCAGGTTTCAGGTT 58.305 37.500 0.00 0.00 0.00 3.50
51 53 5.310409 TCTTTGAGATTCAGGTTTCAGGT 57.690 39.130 0.00 0.00 0.00 4.00
92 94 1.583477 GAGTGCTTTGCCAAGGCTC 59.417 57.895 12.98 9.18 42.51 4.70
112 114 5.772672 AGCATGTTTATGGAACCTTGTAACA 59.227 36.000 0.00 0.00 37.45 2.41
197 199 8.890718 GGGACACTATTCACCTTAATAAGAAAC 58.109 37.037 0.83 0.00 0.00 2.78
200 202 7.743116 TGGGACACTATTCACCTTAATAAGA 57.257 36.000 0.83 0.00 0.00 2.10
251 253 9.713713 GGAGGGAGATCTAATAAACATCTTTAC 57.286 37.037 0.00 0.00 0.00 2.01
330 344 9.431887 TGTCCATAGATAAAAGTGTGTCTTTAC 57.568 33.333 0.00 0.00 44.50 2.01
335 349 9.988815 ATAGATGTCCATAGATAAAAGTGTGTC 57.011 33.333 0.00 0.00 0.00 3.67
341 355 9.784531 ACCACAATAGATGTCCATAGATAAAAG 57.215 33.333 0.00 0.00 41.46 2.27
350 364 2.511218 AGCCACCACAATAGATGTCCAT 59.489 45.455 0.00 0.00 41.46 3.41
354 368 3.719268 TTCAGCCACCACAATAGATGT 57.281 42.857 0.00 0.00 45.34 3.06
487 2119 6.128472 TGCATCTACTTATGATAAGCGCAATG 60.128 38.462 11.47 11.08 0.00 2.82
488 2120 5.934043 TGCATCTACTTATGATAAGCGCAAT 59.066 36.000 11.47 1.62 0.00 3.56
489 2121 5.177511 GTGCATCTACTTATGATAAGCGCAA 59.822 40.000 11.47 0.00 0.00 4.85
498 2130 6.233905 TGCTTTAGGTGCATCTACTTATGA 57.766 37.500 6.09 0.00 35.31 2.15
502 2134 3.691609 GCTTGCTTTAGGTGCATCTACTT 59.308 43.478 6.09 0.00 40.34 2.24
551 2183 0.891904 TTAGCAAGTGTTTCCCCGGC 60.892 55.000 0.00 0.00 0.00 6.13
557 2189 7.391016 GTGAAAAACATGTTAGCAAGTGTTTC 58.609 34.615 18.33 18.33 44.47 2.78
572 2204 4.111916 CAAAGGAAGTGCGTGAAAAACAT 58.888 39.130 0.00 0.00 0.00 2.71
621 2253 2.596346 TGTTCCAGCATGTCCAACAAT 58.404 42.857 0.00 0.00 28.92 2.71
625 2257 4.686191 AAATTTGTTCCAGCATGTCCAA 57.314 36.364 0.00 0.00 0.00 3.53
663 2295 7.327975 TGTAGAATAAACTTGACCATCGATGT 58.672 34.615 23.27 11.88 0.00 3.06
718 2350 9.658799 TGTCTTCTTTCTTTCTTTCGATATCAT 57.341 29.630 3.12 0.00 0.00 2.45
767 2403 2.127271 AATCCCGTGCATTGTCATGA 57.873 45.000 0.00 0.00 31.07 3.07
802 2438 9.640963 GCAACGGAAATATACATATTCTAGACT 57.359 33.333 0.00 0.00 32.08 3.24
803 2439 9.419297 TGCAACGGAAATATACATATTCTAGAC 57.581 33.333 0.00 0.00 32.08 2.59
804 2440 9.990360 TTGCAACGGAAATATACATATTCTAGA 57.010 29.630 0.00 0.00 32.08 2.43
933 2569 7.500227 AGTTCATCAATTTATGGATGTGACGAT 59.500 33.333 6.92 0.00 41.26 3.73
944 2580 7.981225 CCTTTGGGGTTAGTTCATCAATTTATG 59.019 37.037 0.00 0.00 0.00 1.90
969 2605 3.910648 AGTCGTATAAATTAGCTCGCCC 58.089 45.455 0.00 0.00 0.00 6.13
998 2634 5.686397 GTGGAGTGAGAGCGTATATTTACAC 59.314 44.000 0.00 0.00 0.00 2.90
1119 2758 0.531200 GGACGGAGGATGAAGAACGT 59.469 55.000 0.00 0.00 37.26 3.99
1154 2793 2.690778 GCAAGCGGCCAAATCGAGT 61.691 57.895 2.24 0.00 36.11 4.18
1355 2994 0.253044 ACCGCACATCATAACAGGCT 59.747 50.000 0.00 0.00 0.00 4.58
1377 3016 0.737715 GCGCGGATCAAGACTCAAGT 60.738 55.000 8.83 0.00 0.00 3.16
1435 3074 1.461091 AAGCTGGAGACCACGTCGAA 61.461 55.000 0.00 0.00 37.67 3.71
1673 3312 8.633075 CCAGTTAAACATGGCAGTAATAATTG 57.367 34.615 0.00 0.00 0.00 2.32
1685 3324 3.091545 ACCATCTGCCAGTTAAACATGG 58.908 45.455 6.36 6.36 39.73 3.66
1855 3494 5.393027 GGTGATACTGAAACCGAAATGCAAT 60.393 40.000 0.00 0.00 0.00 3.56
1896 3535 7.818930 TGCCAAATTTCTTATCAAATCAACTCC 59.181 33.333 0.00 0.00 0.00 3.85
1911 3550 0.906282 CCAGGGCCTGCCAAATTTCT 60.906 55.000 28.51 0.00 37.98 2.52
2005 3644 3.112263 TCTGGACGATTCCTTGGGTATT 58.888 45.455 0.00 0.00 43.31 1.89
2034 3673 4.292977 ACAACAAAAGAAGGAAGAAGCG 57.707 40.909 0.00 0.00 0.00 4.68
2042 3681 4.616181 ACACGAGAACAACAAAAGAAGG 57.384 40.909 0.00 0.00 0.00 3.46
2066 3705 5.237779 ACTTTGGGTACACAATTCAGTTACG 59.762 40.000 12.20 0.00 0.00 3.18
2083 3722 2.870175 TCACAATGTGGGTACTTTGGG 58.130 47.619 13.95 6.51 43.19 4.12
2212 3852 8.628280 TGTCATCATTGAGAACACACAAAATAA 58.372 29.630 0.00 0.00 30.85 1.40
2498 4139 4.625607 ATTAATGTCTAGCTAGTGGGGC 57.374 45.455 20.10 7.62 0.00 5.80
2553 4195 4.342092 CCCCTAATGAATGAAAAGCCGATT 59.658 41.667 0.00 0.00 0.00 3.34
2798 4440 2.054140 TTGGAAGGAACGCAACGTGC 62.054 55.000 0.00 0.00 39.99 5.34
2799 4441 0.378962 TTTGGAAGGAACGCAACGTG 59.621 50.000 0.00 0.00 39.99 4.49
2800 4442 0.379316 GTTTGGAAGGAACGCAACGT 59.621 50.000 0.00 0.00 43.97 3.99
2927 4572 2.068821 AGCTGTGCCATCTCCCGAT 61.069 57.895 0.00 0.00 0.00 4.18
3036 4681 1.131303 AAGGATGGAACCACGACCCA 61.131 55.000 0.00 0.00 0.00 4.51
3055 4700 7.396055 AGCTAATAGTAAAGATTTGGCCAAACA 59.604 33.333 32.62 13.22 32.51 2.83
3201 4849 9.282569 GGAAGTGAAGCAGAAGATATTCAATAT 57.717 33.333 2.42 0.00 33.74 1.28
3263 4911 3.435671 ACGGACACTTGCAGTTAAATAGC 59.564 43.478 0.00 0.00 0.00 2.97
3280 4928 7.772332 AAGATATTACAGACATCAAACGGAC 57.228 36.000 0.00 0.00 0.00 4.79
3656 5305 3.380637 TCTTGACGCTTCTATACCCTGAC 59.619 47.826 0.00 0.00 0.00 3.51
3971 5620 1.680735 CCTTGTGCTAACACCAAAGCA 59.319 47.619 0.00 0.00 46.86 3.91
4015 5664 9.435802 GATGAGTACTTCACGTATAAGTTACAG 57.564 37.037 17.59 0.00 38.99 2.74
4027 5676 4.986622 TCATGTGAGATGAGTACTTCACG 58.013 43.478 16.72 7.22 38.99 4.35
4138 5788 7.331791 GTCCTCAAACTATTTAGAGGTGTCAT 58.668 38.462 7.16 0.00 46.09 3.06
4157 5808 1.538629 TGTGGCATCCAGGTCCTCA 60.539 57.895 0.00 0.00 32.34 3.86
4175 6129 1.408266 GGTCCCCGAAGTGCAATATGT 60.408 52.381 0.00 0.00 0.00 2.29
4198 6152 6.369065 GTCCTCGAACTATGAAAAGTGTCATT 59.631 38.462 0.00 0.00 39.07 2.57
4226 6180 5.758296 TCAAACTATTTCAGAGGTGTCACAC 59.242 40.000 0.00 0.00 0.00 3.82
4315 6269 3.181440 TGAATTGTCTTGTGGAGCCTCTT 60.181 43.478 0.00 0.00 0.00 2.85
4316 6270 2.373169 TGAATTGTCTTGTGGAGCCTCT 59.627 45.455 0.00 0.00 0.00 3.69
4334 6288 7.011499 TCAATAACTAGTAAGGCCTGTTGAA 57.989 36.000 5.69 0.00 0.00 2.69
4497 6451 4.319177 AGATACACACAAGGCTTCAGTTC 58.681 43.478 0.00 0.00 0.00 3.01
4516 6470 7.909267 GCTTGTGCAAAACTTAAGAAAAAGAT 58.091 30.769 10.09 0.00 39.41 2.40
4748 6706 1.747355 CTGATGCTAACCAAGGCAAGG 59.253 52.381 0.00 0.00 41.90 3.61
4836 6794 6.372381 GCCAGGAACATTAAAAATTGCAGAAT 59.628 34.615 0.00 0.00 0.00 2.40
4862 6820 1.867363 AGAGTACTGGGGAAAGCGAT 58.133 50.000 0.00 0.00 0.00 4.58
4988 6946 3.613432 GCAGTTTGGCTTTCAAGAGATGG 60.613 47.826 0.00 0.00 36.62 3.51
5135 7093 4.083003 GGACAGAGAACACAACAACAACAA 60.083 41.667 0.00 0.00 0.00 2.83
5136 7094 3.438781 GGACAGAGAACACAACAACAACA 59.561 43.478 0.00 0.00 0.00 3.33
5137 7095 3.689649 AGGACAGAGAACACAACAACAAC 59.310 43.478 0.00 0.00 0.00 3.32
5260 8715 5.872617 TGCAACTGTCATTAACGCTAGTTAT 59.127 36.000 0.00 0.00 41.88 1.89
5433 8889 2.142239 CGACTCGACGCCGTGTTAC 61.142 63.158 0.00 0.00 41.78 2.50
5668 9125 5.104900 ACCAATTCAGGTCCACAGTCTATAC 60.105 44.000 0.00 0.00 37.28 1.47
5718 9175 9.574458 CGATGATGTAGTCGATCCTAAATATTT 57.426 33.333 5.89 5.89 40.11 1.40
5786 9244 7.267128 ACATAACCGTACTTTTCATCGGAATA 58.733 34.615 9.37 3.08 44.86 1.75
5867 9325 1.859047 AACGAGCGAACGAACGAACG 61.859 55.000 16.11 13.61 38.41 3.95
5868 9326 1.044725 TAACGAGCGAACGAACGAAC 58.955 50.000 16.11 2.78 37.03 3.95
5869 9327 1.321016 CTAACGAGCGAACGAACGAA 58.679 50.000 16.11 6.73 37.03 3.85
5870 9328 0.235665 ACTAACGAGCGAACGAACGA 59.764 50.000 16.11 0.20 37.03 3.85
5871 9329 1.047739 AACTAACGAGCGAACGAACG 58.952 50.000 8.50 5.31 37.03 3.95
5887 9345 5.536161 ACATAAGATGTGAACAAGCCAAACT 59.464 36.000 0.00 0.00 43.01 2.66
5912 9370 7.303634 TCAAAAGTACACTTCTGTTCTGTTC 57.696 36.000 0.00 0.00 34.61 3.18
5913 9371 7.336931 ACATCAAAAGTACACTTCTGTTCTGTT 59.663 33.333 0.00 0.00 34.61 3.16
5914 9372 6.823689 ACATCAAAAGTACACTTCTGTTCTGT 59.176 34.615 0.00 0.00 34.61 3.41
5915 9373 7.128331 CACATCAAAAGTACACTTCTGTTCTG 58.872 38.462 0.00 0.00 34.61 3.02
5916 9374 6.260936 CCACATCAAAAGTACACTTCTGTTCT 59.739 38.462 0.00 0.00 34.61 3.01
5930 9388 3.364621 GCGCACAAATACCACATCAAAAG 59.635 43.478 0.30 0.00 0.00 2.27
6133 9591 4.820284 AGAAAGAAGAAACGGCTTCAAG 57.180 40.909 14.53 0.00 45.21 3.02
6157 9615 7.177744 ACACCCTTTGTTGGAACGAAAATATAT 59.822 33.333 0.00 0.00 33.09 0.86
6158 9616 6.490721 ACACCCTTTGTTGGAACGAAAATATA 59.509 34.615 0.00 0.00 33.09 0.86
6229 9687 2.859165 TTCAGATTTCAAGTCCGGCT 57.141 45.000 0.00 0.00 0.00 5.52
6280 9738 3.306166 CGGAGCATAAAAGTAACTGTCGG 59.694 47.826 0.00 0.00 0.00 4.79
6289 9747 0.696501 ACCACCCGGAGCATAAAAGT 59.303 50.000 0.73 0.00 35.59 2.66
6451 9910 3.718434 TGGTATTTGGAGCTCCATGATCT 59.282 43.478 35.42 19.46 46.97 2.75
6460 9919 3.073062 AGACACTTGTGGTATTTGGAGCT 59.927 43.478 5.72 0.00 0.00 4.09
6462 9921 4.935808 GGTAGACACTTGTGGTATTTGGAG 59.064 45.833 5.72 0.00 0.00 3.86
6469 9928 1.203038 TCGGGGTAGACACTTGTGGTA 60.203 52.381 5.72 0.00 0.00 3.25
6480 9940 4.450976 CACATTCATTGAATCGGGGTAGA 58.549 43.478 8.95 0.00 28.87 2.59
6491 9951 3.069872 AGCCAAGTTTGCACATTCATTGA 59.930 39.130 1.33 0.00 0.00 2.57
6536 9996 4.836125 TTTACTTTTGAAGGCAGAGCTG 57.164 40.909 0.00 0.00 0.00 4.24
6537 9997 6.410942 AATTTTACTTTTGAAGGCAGAGCT 57.589 33.333 0.00 0.00 0.00 4.09
6572 10032 6.942532 TGGAGATTAGGCAACATTCATTAC 57.057 37.500 0.00 0.00 41.41 1.89
6580 10040 7.725397 AGCAATTATAATGGAGATTAGGCAACA 59.275 33.333 3.86 0.00 41.41 3.33
6582 10042 7.394359 GGAGCAATTATAATGGAGATTAGGCAA 59.606 37.037 3.86 0.00 0.00 4.52
6584 10044 6.037610 CGGAGCAATTATAATGGAGATTAGGC 59.962 42.308 3.86 0.00 0.00 3.93
6595 10055 6.207691 ACAAGCAAACGGAGCAATTATAAT 57.792 33.333 0.00 0.00 0.00 1.28
6596 10056 5.637006 ACAAGCAAACGGAGCAATTATAA 57.363 34.783 0.00 0.00 0.00 0.98
6600 10060 2.159114 ACAACAAGCAAACGGAGCAATT 60.159 40.909 0.00 0.00 0.00 2.32
6618 10086 8.043113 AGCAAGTAGTCAATGATATCAAGACAA 58.957 33.333 28.70 8.11 37.40 3.18
6634 10102 1.544691 TCGGACTCCAAGCAAGTAGTC 59.455 52.381 0.00 0.00 38.08 2.59
6655 10123 5.252969 TGCTGAATGATTTTGTCATAGCC 57.747 39.130 9.20 0.00 46.80 3.93
6676 10145 4.959596 AGCACTTGCACAAGATCTATTG 57.040 40.909 16.95 4.95 45.16 1.90
6678 10147 5.355596 GTCTAGCACTTGCACAAGATCTAT 58.644 41.667 16.95 1.53 45.16 1.98
6681 10150 2.675348 GGTCTAGCACTTGCACAAGATC 59.325 50.000 16.95 7.74 45.16 2.75
6688 10157 0.324943 GGGAAGGTCTAGCACTTGCA 59.675 55.000 15.67 0.00 45.16 4.08
6724 10193 7.475771 TGGAATAACAAATGTTGCAACTTTC 57.524 32.000 28.61 14.81 38.90 2.62
6727 10196 6.523840 ACATGGAATAACAAATGTTGCAACT 58.476 32.000 28.61 12.75 38.90 3.16
6739 10208 5.301551 GGCATTGGTGATACATGGAATAACA 59.698 40.000 0.00 0.00 0.00 2.41
6745 10214 1.488393 TCGGCATTGGTGATACATGGA 59.512 47.619 0.00 0.00 0.00 3.41
6763 10232 1.798735 CAACTTCATGGGCAGCTCG 59.201 57.895 0.00 0.00 0.00 5.03
6766 10235 1.610554 ATGGCAACTTCATGGGCAGC 61.611 55.000 0.00 0.00 40.58 5.25
6781 10250 4.166888 TGCAGAGGCTCGGATGGC 62.167 66.667 19.08 13.70 41.91 4.40
6812 10281 4.093850 GTCAAAAATACATAACCGAGGCGT 59.906 41.667 0.00 0.00 0.00 5.68
6817 10286 6.128769 CGACAGTGTCAAAAATACATAACCGA 60.129 38.462 22.66 0.00 32.09 4.69
6819 10288 5.793457 GCGACAGTGTCAAAAATACATAACC 59.207 40.000 22.66 0.00 32.09 2.85
6835 10304 3.394874 CACGTGGACGCGACAGTG 61.395 66.667 15.93 14.45 44.43 3.66
6864 10333 3.361977 GGACGCGCAATGTGGGTT 61.362 61.111 17.29 2.17 39.21 4.11
6865 10334 4.634703 TGGACGCGCAATGTGGGT 62.635 61.111 16.28 16.28 41.67 4.51
6870 10339 4.444024 CCACGTGGACGCGCAATG 62.444 66.667 31.31 0.12 44.43 2.82
6880 10349 3.379057 GGGTTATGGTAAAATCCACGTGG 59.621 47.826 29.26 29.26 40.51 4.94
6881 10350 3.064271 CGGGTTATGGTAAAATCCACGTG 59.936 47.826 9.08 9.08 40.51 4.49
6882 10351 3.272581 CGGGTTATGGTAAAATCCACGT 58.727 45.455 0.00 0.00 40.51 4.49
6883 10352 2.032426 GCGGGTTATGGTAAAATCCACG 59.968 50.000 0.00 0.00 40.51 4.94
6884 10353 3.018149 TGCGGGTTATGGTAAAATCCAC 58.982 45.455 0.00 0.00 40.51 4.02
6885 10354 3.283751 CTGCGGGTTATGGTAAAATCCA 58.716 45.455 0.00 0.00 42.01 3.41
6886 10355 2.621526 CCTGCGGGTTATGGTAAAATCC 59.378 50.000 2.29 0.00 0.00 3.01
6887 10356 2.621526 CCCTGCGGGTTATGGTAAAATC 59.378 50.000 11.58 0.00 38.25 2.17
6888 10357 2.661718 CCCTGCGGGTTATGGTAAAAT 58.338 47.619 11.58 0.00 38.25 1.82
6889 10358 2.131776 CCCTGCGGGTTATGGTAAAA 57.868 50.000 11.58 0.00 38.25 1.52
6890 10359 3.886324 CCCTGCGGGTTATGGTAAA 57.114 52.632 11.58 0.00 38.25 2.01
6915 10384 0.534877 TGCAGTGTACTGTGCCCAAG 60.535 55.000 13.08 0.00 45.45 3.61
6922 10391 1.666011 CCGAGGTGCAGTGTACTGT 59.334 57.895 11.32 0.00 45.45 3.55
6924 10393 2.657237 GCCGAGGTGCAGTGTACT 59.343 61.111 11.32 0.00 0.00 2.73
6940 10409 1.811679 GAGAAGTACCTGCCTGCGC 60.812 63.158 0.00 0.00 0.00 6.09
6942 10411 1.153549 CGGAGAAGTACCTGCCTGC 60.154 63.158 0.00 0.00 0.00 4.85
6947 10416 2.131776 AGAGTCCGGAGAAGTACCTG 57.868 55.000 3.06 0.00 0.00 4.00
6948 10417 2.826725 CAAAGAGTCCGGAGAAGTACCT 59.173 50.000 3.06 0.00 0.00 3.08
6949 10418 2.094130 CCAAAGAGTCCGGAGAAGTACC 60.094 54.545 3.06 0.00 0.00 3.34
6952 10421 2.011122 TCCAAAGAGTCCGGAGAAGT 57.989 50.000 3.06 0.00 0.00 3.01
6957 10426 2.326428 ACTTCTTCCAAAGAGTCCGGA 58.674 47.619 0.00 0.00 39.03 5.14
6989 10458 8.274322 ACCCATGAGTTCATACAAAGATTCATA 58.726 33.333 0.00 0.00 34.26 2.15
7022 10491 3.833070 ACGAACAAACCTATCAGAGTCCT 59.167 43.478 0.00 0.00 0.00 3.85
7031 10500 3.054655 AGGCCATACACGAACAAACCTAT 60.055 43.478 5.01 0.00 0.00 2.57
7035 10504 3.252458 AGAAAGGCCATACACGAACAAAC 59.748 43.478 5.01 0.00 0.00 2.93
7079 10548 0.906066 TCAGGCTGGCGGTAACAATA 59.094 50.000 15.73 0.00 0.00 1.90
7081 10550 0.676466 CATCAGGCTGGCGGTAACAA 60.676 55.000 15.73 0.00 0.00 2.83
7082 10551 1.078497 CATCAGGCTGGCGGTAACA 60.078 57.895 15.73 0.00 0.00 2.41
7085 10554 0.107703 CTTTCATCAGGCTGGCGGTA 60.108 55.000 15.73 0.00 0.00 4.02
7088 10557 1.332997 GAATCTTTCATCAGGCTGGCG 59.667 52.381 15.73 6.19 0.00 5.69
7109 10578 5.879763 TCCATGATCGACATTTTATCCCAT 58.120 37.500 0.00 0.00 37.07 4.00


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

AutoCloner maintained by Alex Coulton.