Multiple sequence alignment - TraesCS2D01G370400

Loading Multiple Alignment...

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 TraesCS2D01G370400 chr2D 100.000 6725 0 0 1 6725 474752899 474746175 0.000000e+00 12419.0
1 TraesCS2D01G370400 chr2D 78.049 123 23 4 515 634 73582941 73582820 2.600000e-09 75.0
2 TraesCS2D01G370400 chr2D 100.000 28 0 0 153 180 474752720 474752747 1.200000e-02 52.8
3 TraesCS2D01G370400 chrUn 92.708 6322 289 84 1 6229 22059369 22053127 0.000000e+00 8962.0
4 TraesCS2D01G370400 chrUn 86.515 482 31 13 6247 6725 22053150 22052700 3.620000e-137 499.0
5 TraesCS2D01G370400 chr2A 92.065 2760 111 44 769 3462 617185569 617182852 0.000000e+00 3784.0
6 TraesCS2D01G370400 chr2A 92.025 1467 86 19 3513 4966 617182835 617181387 0.000000e+00 2032.0
7 TraesCS2D01G370400 chr2A 88.737 1607 89 48 5151 6687 617180907 617179323 0.000000e+00 1881.0
8 TraesCS2D01G370400 chr2A 90.040 753 51 16 1 741 617186478 617185738 0.000000e+00 953.0
9 TraesCS2D01G370400 chr1B 85.522 297 43 0 2621 2917 327960664 327960368 1.820000e-80 311.0
10 TraesCS2D01G370400 chr1B 87.452 263 31 2 1377 1638 327961927 327961666 1.100000e-77 302.0
11 TraesCS2D01G370400 chr1B 80.508 236 35 8 485 712 397438316 397438548 3.220000e-38 171.0
12 TraesCS2D01G370400 chr1B 86.184 152 21 0 2997 3148 327960259 327960108 1.500000e-36 165.0
13 TraesCS2D01G370400 chr1B 100.000 33 0 0 1306 1338 327961980 327961948 2.030000e-05 62.1
14 TraesCS2D01G370400 chr1A 85.764 288 41 0 2630 2917 296240712 296240425 8.470000e-79 305.0
15 TraesCS2D01G370400 chr1A 81.223 229 32 10 492 712 368816166 368816391 2.490000e-39 174.0
16 TraesCS2D01G370400 chr1A 77.288 295 63 4 2621 2913 153583978 153584270 3.220000e-38 171.0
17 TraesCS2D01G370400 chr1A 85.526 152 22 0 2997 3148 296240350 296240199 6.980000e-35 159.0
18 TraesCS2D01G370400 chr1D 84.848 297 45 0 2621 2917 208749431 208749727 3.940000e-77 300.0
19 TraesCS2D01G370400 chr1D 86.232 276 34 4 1377 1649 228444033 228443759 5.100000e-76 296.0
20 TraesCS2D01G370400 chr1D 83.729 295 48 0 2621 2915 228442716 228442422 5.140000e-71 279.0
21 TraesCS2D01G370400 chr1D 86.842 152 20 0 2997 3148 228442257 228442106 3.220000e-38 171.0
22 TraesCS2D01G370400 chr1D 86.184 152 21 0 2997 3148 208749803 208749954 1.500000e-36 165.0
23 TraesCS2D01G370400 chr1D 92.079 101 8 0 1538 1638 208748087 208748187 7.030000e-30 143.0
24 TraesCS2D01G370400 chr1D 86.022 93 10 3 600 690 295971127 295971218 5.550000e-16 97.1
25 TraesCS2D01G370400 chr1D 78.621 145 29 2 1377 1520 208742650 208742793 2.000000e-15 95.3
26 TraesCS2D01G370400 chr1D 100.000 33 0 0 1306 1338 228444086 228444054 2.030000e-05 62.1
27 TraesCS2D01G370400 chr5D 77.181 298 60 8 2620 2913 363177744 363178037 4.170000e-37 167.0
28 TraesCS2D01G370400 chr5D 77.181 298 60 8 2620 2913 363339988 363340281 4.170000e-37 167.0
29 TraesCS2D01G370400 chr2B 85.185 162 18 4 1 162 133838630 133838475 1.940000e-35 161.0
30 TraesCS2D01G370400 chr7D 79.755 163 29 4 522 681 370183964 370183803 1.530000e-21 115.0
31 TraesCS2D01G370400 chr7B 79.755 163 29 4 522 681 317234779 317234618 1.530000e-21 115.0
32 TraesCS2D01G370400 chr3B 100.000 37 0 0 1521 1557 24019086 24019050 1.210000e-07 69.4
33 TraesCS2D01G370400 chr3A 81.928 83 12 2 1521 1603 19988550 19988629 4.350000e-07 67.6


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2D01G370400 chr2D 474746175 474752899 6724 True 12419.000000 12419 100.000000 1 6725 1 chr2D.!!$R2 6724
1 TraesCS2D01G370400 chrUn 22052700 22059369 6669 True 4730.500000 8962 89.611500 1 6725 2 chrUn.!!$R1 6724
2 TraesCS2D01G370400 chr2A 617179323 617186478 7155 True 2162.500000 3784 90.716750 1 6687 4 chr2A.!!$R1 6686
3 TraesCS2D01G370400 chr1B 327960108 327961980 1872 True 210.025000 311 89.789500 1306 3148 4 chr1B.!!$R1 1842
4 TraesCS2D01G370400 chr1A 296240199 296240712 513 True 232.000000 305 85.645000 2630 3148 2 chr1A.!!$R1 518
5 TraesCS2D01G370400 chr1D 208748087 208749954 1867 False 202.666667 300 87.703667 1538 3148 3 chr1D.!!$F3 1610
6 TraesCS2D01G370400 chr1D 228442106 228444086 1980 True 202.025000 296 89.200750 1306 3148 4 chr1D.!!$R1 1842

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
185 186 1.219646 TTGTTCTACGGTTTGTCGGC 58.780 50.0 0.00 0.00 0.00 5.54 F
1197 1364 0.264359 CCATGAGAGGAGGAGGAGGT 59.736 60.0 0.00 0.00 0.00 3.85 F
2188 2945 0.034337 CGTTTCTTTCTCCCCGTCCA 59.966 55.0 0.00 0.00 0.00 4.02 F
2489 3452 0.104120 CGGTATGATGAGTTCGGCCA 59.896 55.0 2.24 0.00 0.00 5.36 F
3187 4244 0.323629 TCAATTCCTCCACGGTCCAC 59.676 55.0 0.00 0.00 0.00 4.02 F
3536 4599 0.235665 CAGCGTGTTTACACCTGCAG 59.764 55.0 6.78 6.78 43.66 4.41 F
4365 5437 0.248990 ACGGTGTTGCAGCATTTGTG 60.249 50.0 6.50 0.00 0.00 3.33 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2174 2931 0.179108 GTCGATGGACGGGGAGAAAG 60.179 60.0 0.00 0.00 42.82 2.62 R
2470 3416 0.104120 TGGCCGAACTCATCATACCG 59.896 55.0 0.00 0.00 0.00 4.02 R
3253 4310 0.101939 GCAGGGGTACTACGTACTGC 59.898 60.0 15.17 15.17 38.85 4.40 R
3423 4486 0.332972 ATCCTTTCAGGGTGGCCTTC 59.667 55.0 3.32 0.00 35.59 3.46 R
4855 5928 0.734889 ACATCTTGCGCCATACAAGC 59.265 50.0 4.18 0.00 43.40 4.01 R
4862 5935 0.804364 GATGAACACATCTTGCGCCA 59.196 50.0 4.18 0.00 37.85 5.69 R
6237 7703 0.250234 GCCAGCAGTGACCTGTATCA 59.750 55.0 0.00 0.00 41.02 2.15 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 2.231478 TGAGAGCTAAGACGACCAAAGG 59.769 50.000 0.00 0.00 0.00 3.11
58 59 1.547372 CCTGGATTGAAAGCAACCTGG 59.453 52.381 0.00 0.00 37.63 4.45
64 65 5.047377 TGGATTGAAAGCAACCTGGTAATTC 60.047 40.000 0.00 3.52 36.72 2.17
118 119 5.453567 AAGGCTTTTGTCTTCATGTAACC 57.546 39.130 0.00 0.00 41.00 2.85
185 186 1.219646 TTGTTCTACGGTTTGTCGGC 58.780 50.000 0.00 0.00 0.00 5.54
193 195 3.173247 GGTTTGTCGGCCGAAAAAG 57.827 52.632 37.63 5.12 32.60 2.27
278 284 3.247442 TGCACGGACAATTAACTAGTCG 58.753 45.455 0.00 0.00 33.18 4.18
284 290 5.803967 ACGGACAATTAACTAGTCGACATTC 59.196 40.000 19.50 0.00 33.18 2.67
332 338 9.766277 GATAAGATCTGAACAATTTTGACACTC 57.234 33.333 0.00 0.00 0.00 3.51
334 340 7.756395 AGATCTGAACAATTTTGACACTCAT 57.244 32.000 0.00 0.00 0.00 2.90
335 341 7.591165 AGATCTGAACAATTTTGACACTCATG 58.409 34.615 0.00 0.00 0.00 3.07
341 347 7.448161 TGAACAATTTTGACACTCATGGAGTAT 59.552 33.333 0.00 0.00 41.37 2.12
508 519 2.414161 GGACTTGATAACCAGCAAACGC 60.414 50.000 0.00 0.00 27.73 4.84
529 540 4.560035 CGCCAGATTTTTAAGCATGACAAG 59.440 41.667 0.00 0.00 0.00 3.16
593 604 4.718940 TTTTCCTTTAGCAAGCATAGCC 57.281 40.909 0.00 0.00 0.00 3.93
671 684 6.372937 TGTCATCCTTGCGACAACATAAATTA 59.627 34.615 0.00 0.00 39.14 1.40
712 725 5.957842 TGTCAATGCTTAAAAATCCGACT 57.042 34.783 0.00 0.00 0.00 4.18
713 726 7.441890 TTGTCAATGCTTAAAAATCCGACTA 57.558 32.000 0.00 0.00 0.00 2.59
715 728 6.653320 TGTCAATGCTTAAAAATCCGACTACT 59.347 34.615 0.00 0.00 0.00 2.57
1042 1195 4.816925 CCTTTATAACTCCTGCCTTGCTAC 59.183 45.833 0.00 0.00 0.00 3.58
1110 1277 0.671781 GCCTCACTTCACATCGCACT 60.672 55.000 0.00 0.00 0.00 4.40
1197 1364 0.264359 CCATGAGAGGAGGAGGAGGT 59.736 60.000 0.00 0.00 0.00 3.85
1203 1370 1.547755 AGGAGGAGGAGGTGGAGGA 60.548 63.158 0.00 0.00 0.00 3.71
1204 1371 1.075600 GGAGGAGGAGGTGGAGGAG 60.076 68.421 0.00 0.00 0.00 3.69
1205 1372 1.075600 GAGGAGGAGGTGGAGGAGG 60.076 68.421 0.00 0.00 0.00 4.30
1206 1373 1.547755 AGGAGGAGGTGGAGGAGGA 60.548 63.158 0.00 0.00 0.00 3.71
1207 1374 1.075600 GGAGGAGGTGGAGGAGGAG 60.076 68.421 0.00 0.00 0.00 3.69
1208 1375 1.075600 GAGGAGGTGGAGGAGGAGG 60.076 68.421 0.00 0.00 0.00 4.30
1209 1376 1.547755 AGGAGGTGGAGGAGGAGGA 60.548 63.158 0.00 0.00 0.00 3.71
1785 2301 0.654683 CGAGCATGTGAAAGCTAGCC 59.345 55.000 12.13 0.00 42.04 3.93
1964 2719 4.463879 CAGCTGTCCCAGGCGAGG 62.464 72.222 5.25 0.00 31.21 4.63
1965 2720 4.704103 AGCTGTCCCAGGCGAGGA 62.704 66.667 0.29 0.00 31.21 3.71
1966 2721 4.154347 GCTGTCCCAGGCGAGGAG 62.154 72.222 0.00 0.00 32.84 3.69
1979 2734 0.739561 CGAGGAGCTGTACCCTGTAC 59.260 60.000 0.00 0.00 31.84 2.90
2180 2937 2.807614 CGTACGCAACGTTTCTTTCTC 58.192 47.619 0.52 0.00 46.72 2.87
2182 2939 0.942252 ACGCAACGTTTCTTTCTCCC 59.058 50.000 0.00 0.00 36.35 4.30
2184 2941 0.237498 GCAACGTTTCTTTCTCCCCG 59.763 55.000 0.00 0.00 0.00 5.73
2188 2945 0.034337 CGTTTCTTTCTCCCCGTCCA 59.966 55.000 0.00 0.00 0.00 4.02
2356 3120 2.805671 TCGATGTGCTGGTTTACACTTG 59.194 45.455 0.00 0.00 37.68 3.16
2383 3147 7.756722 CAGTTTGGGCATCTTTTTCTACTTATG 59.243 37.037 0.00 0.00 0.00 1.90
2385 3149 4.335315 TGGGCATCTTTTTCTACTTATGCG 59.665 41.667 0.00 0.00 40.41 4.73
2386 3150 4.261197 GGGCATCTTTTTCTACTTATGCGG 60.261 45.833 0.00 0.00 40.41 5.69
2387 3151 4.335594 GGCATCTTTTTCTACTTATGCGGT 59.664 41.667 0.00 0.00 40.41 5.68
2390 3154 7.386848 GGCATCTTTTTCTACTTATGCGGTATA 59.613 37.037 0.00 0.00 40.41 1.47
2458 3404 2.350772 CCAGCATGAGACGAAAAACACC 60.351 50.000 0.00 0.00 39.69 4.16
2484 3447 1.412710 TCTGGGCGGTATGATGAGTTC 59.587 52.381 0.00 0.00 0.00 3.01
2488 3451 1.222115 GCGGTATGATGAGTTCGGCC 61.222 60.000 0.00 0.00 0.00 6.13
2489 3452 0.104120 CGGTATGATGAGTTCGGCCA 59.896 55.000 2.24 0.00 0.00 5.36
2508 3472 2.738213 AAGCCGACTTCCAGTGCCAG 62.738 60.000 0.00 0.00 0.00 4.85
2521 3485 0.447801 GTGCCAGTACTTTGGATGCG 59.552 55.000 5.35 0.00 40.87 4.73
2540 3504 1.997606 CGACGAAACCACCAGAATACC 59.002 52.381 0.00 0.00 0.00 2.73
2585 3549 3.288964 ACCGATCCTCGTAGAAGAATGT 58.711 45.455 0.00 0.00 38.40 2.71
2595 3559 4.631377 TCGTAGAAGAATGTTTGCTGATGG 59.369 41.667 0.00 0.00 0.00 3.51
2615 3581 1.269174 GTGTTGTGGTGTATGCATGCA 59.731 47.619 25.04 25.04 0.00 3.96
2769 3735 3.234349 ATCGTGGAGATGGGGCTG 58.766 61.111 0.00 0.00 38.36 4.85
2922 3888 1.211969 CCTCGACAGGTACGTGGTG 59.788 63.158 19.03 10.94 38.85 4.17
2927 3893 1.494824 GACAGGTACGTGGTGTTCAC 58.505 55.000 19.03 0.00 42.74 3.18
3187 4244 0.323629 TCAATTCCTCCACGGTCCAC 59.676 55.000 0.00 0.00 0.00 4.02
3220 4277 4.157246 TCACAGTAACTTCCTTCCTGCTA 58.843 43.478 0.00 0.00 0.00 3.49
3222 4279 4.021016 CACAGTAACTTCCTTCCTGCTACT 60.021 45.833 0.00 0.00 0.00 2.57
3253 4310 4.571984 TGGCATCAGTAATCAATCACTTCG 59.428 41.667 0.00 0.00 0.00 3.79
3325 4388 1.062488 ACCTGCACCTGTTTCCTCCT 61.062 55.000 0.00 0.00 0.00 3.69
3326 4389 0.607489 CCTGCACCTGTTTCCTCCTG 60.607 60.000 0.00 0.00 0.00 3.86
3423 4486 0.314302 ACTCCGACTTCGACAAGGTG 59.686 55.000 0.00 0.00 43.02 4.00
3466 4529 0.702316 GAAAGCAAGGGTAAGGGGGA 59.298 55.000 0.00 0.00 0.00 4.81
3468 4531 1.163408 AAGCAAGGGTAAGGGGGAAA 58.837 50.000 0.00 0.00 0.00 3.13
3521 4584 5.204833 GTGTACATATAAATTGTGCCAGCG 58.795 41.667 0.00 0.00 0.00 5.18
3527 4590 4.775058 ATAAATTGTGCCAGCGTGTTTA 57.225 36.364 0.00 0.00 0.00 2.01
3536 4599 0.235665 CAGCGTGTTTACACCTGCAG 59.764 55.000 6.78 6.78 43.66 4.41
3623 4686 1.988107 TCAGAGGCCATCAGGAAACTT 59.012 47.619 5.01 0.00 40.21 2.66
3708 4771 2.544686 CGAATCGTACGTCCTCTCAGAT 59.455 50.000 16.05 0.00 0.00 2.90
3709 4772 3.002451 CGAATCGTACGTCCTCTCAGATT 59.998 47.826 16.05 3.95 0.00 2.40
3714 4777 1.479709 ACGTCCTCTCAGATTCCCTG 58.520 55.000 0.00 0.00 44.27 4.45
3771 4835 1.442526 GCATCCGGACAGGCAATGAG 61.443 60.000 6.12 0.00 40.77 2.90
3873 4937 1.349259 CGTGTACACTTACCAGGCGC 61.349 60.000 23.01 0.00 0.00 6.53
3972 5036 2.680805 CGGCACAATCTACCTGGATGTT 60.681 50.000 0.00 0.00 0.00 2.71
4003 5067 3.914426 ACACATCCATCCTGGTAAGTC 57.086 47.619 0.00 0.00 39.03 3.01
4005 5069 3.198635 ACACATCCATCCTGGTAAGTCTG 59.801 47.826 0.00 0.00 39.03 3.51
4006 5070 3.452264 CACATCCATCCTGGTAAGTCTGA 59.548 47.826 0.00 0.00 39.03 3.27
4009 5073 4.826274 TCCATCCTGGTAAGTCTGAAAG 57.174 45.455 0.00 0.00 39.03 2.62
4010 5074 4.168101 TCCATCCTGGTAAGTCTGAAAGT 58.832 43.478 0.00 0.00 39.03 2.66
4013 5077 6.443849 TCCATCCTGGTAAGTCTGAAAGTATT 59.556 38.462 0.00 0.00 39.03 1.89
4041 5105 5.359009 CAGTGGTTATCTGGATCAAAATGCT 59.641 40.000 0.00 0.00 0.00 3.79
4052 5116 8.533657 TCTGGATCAAAATGCTATGAATTTGTT 58.466 29.630 0.00 0.00 35.01 2.83
4126 5198 6.039159 TGTTCTTTGTGAGCAATGACATTACA 59.961 34.615 0.00 0.00 38.13 2.41
4181 5253 3.074412 AGCATTCGTCTTTGGATTCGTT 58.926 40.909 0.00 0.00 0.00 3.85
4365 5437 0.248990 ACGGTGTTGCAGCATTTGTG 60.249 50.000 6.50 0.00 0.00 3.33
4518 5590 1.069090 TGTCACCGTGGTTGAGAGC 59.931 57.895 0.00 0.00 0.00 4.09
4621 5694 5.118286 GCCCAATTTTCATTTGGTATCCTG 58.882 41.667 2.12 0.00 41.74 3.86
4637 5710 9.670442 TTGGTATCCTGTACTCCTATTAATTCT 57.330 33.333 0.00 0.00 0.00 2.40
4701 5774 6.024552 TCTCAAAATTATGGTCCTTGTTGC 57.975 37.500 0.00 0.00 0.00 4.17
4855 5928 9.872757 TCTTTCTTACAATTTTTAAGCGTGTAG 57.127 29.630 0.00 0.00 0.00 2.74
4951 6024 5.028375 CATCGAAAGGCTTCGGTAAAAATC 58.972 41.667 15.52 0.68 46.62 2.17
4978 6051 8.723942 AGTACTTCTATAAACCATCAAGCTTG 57.276 34.615 20.81 20.81 0.00 4.01
4989 6062 5.717119 ACCATCAAGCTTGACAAATGAATC 58.283 37.500 30.66 0.00 40.49 2.52
4997 6070 6.233434 AGCTTGACAAATGAATCAGTACTGA 58.767 36.000 27.07 27.07 44.59 3.41
5011 6084 2.028476 AGTACTGAACCGCATTGCTACA 60.028 45.455 7.12 1.14 0.00 2.74
5019 6092 5.236263 TGAACCGCATTGCTACAATATACTG 59.764 40.000 7.12 0.00 0.00 2.74
5030 6103 9.938280 TTGCTACAATATACTGAAAACTAGTGT 57.062 29.630 0.00 0.00 0.00 3.55
5058 6131 6.525578 TTACTACACACTGACCAGAATAGG 57.474 41.667 3.76 0.00 0.00 2.57
5085 6172 3.435105 ACTTCATCAGCACGAGATCTC 57.565 47.619 13.05 13.05 0.00 2.75
5090 6177 1.489481 TCAGCACGAGATCTCCCAAT 58.511 50.000 17.13 0.00 0.00 3.16
5105 6192 8.898728 AGATCTCCCAATGATCTTATTATGGTT 58.101 33.333 0.00 0.00 45.74 3.67
5241 6658 2.482142 GCTTGTCTCCGGATACTTCAGG 60.482 54.545 19.53 9.53 38.45 3.86
5247 6664 0.106894 CCGGATACTTCAGGCTTCCC 59.893 60.000 0.00 0.00 30.17 3.97
5362 6779 0.896923 GGCAGCATGGTGATTTCCAA 59.103 50.000 28.34 0.00 41.09 3.53
5466 6884 2.506472 GACCAGCCGAAGATCCCC 59.494 66.667 0.00 0.00 0.00 4.81
6171 7637 4.111916 GGGTCATTCAAGTTGTGTTTGTG 58.888 43.478 2.11 0.00 0.00 3.33
6213 7679 5.895928 TCAAAGCTATACTACTCACTGCTG 58.104 41.667 0.00 0.00 0.00 4.41
6214 7680 4.314740 AAGCTATACTACTCACTGCTGC 57.685 45.455 0.00 0.00 0.00 5.25
6215 7681 2.292016 AGCTATACTACTCACTGCTGCG 59.708 50.000 0.00 0.00 0.00 5.18
6230 7696 3.348119 TGCTGCGGACCAACAATAATAA 58.652 40.909 0.00 0.00 0.00 1.40
6231 7697 3.376859 TGCTGCGGACCAACAATAATAAG 59.623 43.478 0.00 0.00 0.00 1.73
6232 7698 3.625764 GCTGCGGACCAACAATAATAAGA 59.374 43.478 0.00 0.00 0.00 2.10
6233 7699 4.260784 GCTGCGGACCAACAATAATAAGAG 60.261 45.833 0.00 0.00 0.00 2.85
6234 7700 4.196193 TGCGGACCAACAATAATAAGAGG 58.804 43.478 0.00 0.00 0.00 3.69
6235 7701 4.080807 TGCGGACCAACAATAATAAGAGGA 60.081 41.667 0.00 0.00 0.00 3.71
6237 7703 5.671493 CGGACCAACAATAATAAGAGGAGT 58.329 41.667 0.00 0.00 0.00 3.85
6238 7704 5.523916 CGGACCAACAATAATAAGAGGAGTG 59.476 44.000 0.00 0.00 0.00 3.51
6240 7706 7.283329 GGACCAACAATAATAAGAGGAGTGAT 58.717 38.462 0.00 0.00 0.00 3.06
6241 7707 8.429641 GGACCAACAATAATAAGAGGAGTGATA 58.570 37.037 0.00 0.00 0.00 2.15
6242 7708 9.262358 GACCAACAATAATAAGAGGAGTGATAC 57.738 37.037 0.00 0.00 0.00 2.24
6243 7709 8.768397 ACCAACAATAATAAGAGGAGTGATACA 58.232 33.333 0.00 0.00 0.00 2.29
6244 7710 9.265901 CCAACAATAATAAGAGGAGTGATACAG 57.734 37.037 0.00 0.00 0.00 2.74
6335 7805 1.443872 CCTGTGGACGCGTGTACTC 60.444 63.158 20.70 9.80 0.00 2.59
6358 7829 0.039437 ACAGCGTGTACAGGAAGACG 60.039 55.000 19.35 8.26 39.00 4.18
6437 7908 5.322310 CCAGATTCGAAGTCGGTATATACG 58.678 45.833 3.35 3.08 40.29 3.06
6458 7929 1.659098 CCGGTAAGTCGAAGTTGCATC 59.341 52.381 0.00 0.00 0.00 3.91
6459 7930 1.659098 CGGTAAGTCGAAGTTGCATCC 59.341 52.381 0.00 0.00 0.00 3.51
6460 7931 2.695359 GGTAAGTCGAAGTTGCATCCA 58.305 47.619 0.00 0.00 0.00 3.41
6461 7932 2.673368 GGTAAGTCGAAGTTGCATCCAG 59.327 50.000 0.00 0.00 0.00 3.86
6462 7933 1.813513 AAGTCGAAGTTGCATCCAGG 58.186 50.000 0.00 0.00 0.00 4.45
6463 7934 0.976641 AGTCGAAGTTGCATCCAGGA 59.023 50.000 0.00 0.00 0.00 3.86
6464 7935 1.066573 AGTCGAAGTTGCATCCAGGAG 60.067 52.381 0.00 0.00 0.00 3.69
6465 7936 0.391661 TCGAAGTTGCATCCAGGAGC 60.392 55.000 0.00 0.00 0.00 4.70
6466 7937 0.674581 CGAAGTTGCATCCAGGAGCA 60.675 55.000 8.95 8.95 39.32 4.26
6467 7938 0.807496 GAAGTTGCATCCAGGAGCAC 59.193 55.000 11.82 8.40 41.05 4.40
6487 7969 4.058721 ACACAGGGTGAAAAAGAAATGC 57.941 40.909 2.98 0.00 36.96 3.56
6511 7993 9.013229 TGCTTTTCTAACTGTCAATATGTGAAT 57.987 29.630 0.00 0.00 38.23 2.57
6583 8065 1.818642 AGATGAGCTTTGTGGTCTGC 58.181 50.000 0.00 0.00 43.13 4.26
6597 8079 2.750166 TGGTCTGCGTGAAAGAAAACAA 59.250 40.909 0.00 0.00 0.00 2.83
6602 8084 6.183360 GGTCTGCGTGAAAGAAAACAAATTTT 60.183 34.615 0.00 0.00 40.83 1.82
6608 8090 7.527183 GCGTGAAAGAAAACAAATTTTATGCTC 59.473 33.333 0.00 0.00 38.17 4.26
6621 8119 9.161684 CAAATTTTATGCTCAAAAACTTGCTTC 57.838 29.630 0.00 0.00 31.54 3.86
6661 8159 5.764686 GGCCCAAAACATTTCTTTTCTTCAT 59.235 36.000 0.00 0.00 0.00 2.57
6687 8185 2.627863 TCCACGCACATAAAATGCAC 57.372 45.000 0.00 0.00 43.57 4.57
6698 8196 6.155136 CACATAAAATGCACCAACATGTACA 58.845 36.000 0.00 0.00 0.00 2.90
6700 8198 7.331440 CACATAAAATGCACCAACATGTACAAT 59.669 33.333 0.00 0.00 0.00 2.71
6701 8199 7.877097 ACATAAAATGCACCAACATGTACAATT 59.123 29.630 0.00 0.00 0.00 2.32
6702 8200 6.783892 AAAATGCACCAACATGTACAATTC 57.216 33.333 0.00 0.00 0.00 2.17
6703 8201 5.726980 AATGCACCAACATGTACAATTCT 57.273 34.783 0.00 0.00 0.00 2.40
6704 8202 5.726980 ATGCACCAACATGTACAATTCTT 57.273 34.783 0.00 0.00 0.00 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 5.707298 TCAATCCAGGACTTGATCTTGTTTC 59.293 40.000 9.19 0.00 32.48 2.78
58 59 7.565073 GCGCGATCAAACATTAAATGGAATTAC 60.565 37.037 12.10 0.00 33.67 1.89
64 65 3.483196 CAGCGCGATCAAACATTAAATGG 59.517 43.478 12.10 0.00 33.60 3.16
179 180 0.941542 CACTTCTTTTTCGGCCGACA 59.058 50.000 31.19 20.99 0.00 4.35
185 186 6.204108 ACATACACCTTACACTTCTTTTTCGG 59.796 38.462 0.00 0.00 0.00 4.30
188 189 6.204108 CCGACATACACCTTACACTTCTTTTT 59.796 38.462 0.00 0.00 0.00 1.94
193 195 3.518590 CCCGACATACACCTTACACTTC 58.481 50.000 0.00 0.00 0.00 3.01
278 284 6.611381 TCCTCGATGAATTTGTTTGAATGTC 58.389 36.000 0.00 0.00 0.00 3.06
284 290 9.624697 TTATCTTTTCCTCGATGAATTTGTTTG 57.375 29.630 3.88 0.00 0.00 2.93
332 338 2.434336 TCCCTTCGTTCCATACTCCATG 59.566 50.000 0.00 0.00 0.00 3.66
334 340 1.829222 GTCCCTTCGTTCCATACTCCA 59.171 52.381 0.00 0.00 0.00 3.86
335 341 1.138464 GGTCCCTTCGTTCCATACTCC 59.862 57.143 0.00 0.00 0.00 3.85
341 347 1.057851 AGGTTGGTCCCTTCGTTCCA 61.058 55.000 0.00 0.00 36.75 3.53
363 369 8.224025 TGCCCATTAATTTTAGTCTCCATCATA 58.776 33.333 0.00 0.00 0.00 2.15
497 508 1.039856 AAAATCTGGCGTTTGCTGGT 58.960 45.000 0.00 0.00 42.25 4.00
508 519 7.149569 TCTCTTGTCATGCTTAAAAATCTGG 57.850 36.000 0.00 0.00 0.00 3.86
654 667 9.692749 TTTTTATGGTAATTTATGTTGTCGCAA 57.307 25.926 0.00 0.00 0.00 4.85
655 668 9.130312 GTTTTTATGGTAATTTATGTTGTCGCA 57.870 29.630 0.00 0.00 0.00 5.10
671 684 8.547069 CATTGACAAAATGAACGTTTTTATGGT 58.453 29.630 0.46 0.00 0.00 3.55
927 1080 2.029518 CTGCGATGCGAGGCCATA 59.970 61.111 5.01 0.00 0.00 2.74
1197 1364 0.851332 TGTCCTCTCCTCCTCCTCCA 60.851 60.000 0.00 0.00 0.00 3.86
1203 1370 2.752238 CGCGTGTCCTCTCCTCCT 60.752 66.667 0.00 0.00 0.00 3.69
1204 1371 3.827898 CCGCGTGTCCTCTCCTCC 61.828 72.222 4.92 0.00 0.00 4.30
1205 1372 2.750637 TCCGCGTGTCCTCTCCTC 60.751 66.667 4.92 0.00 0.00 3.71
1206 1373 2.752238 CTCCGCGTGTCCTCTCCT 60.752 66.667 4.92 0.00 0.00 3.69
1207 1374 3.827898 CCTCCGCGTGTCCTCTCC 61.828 72.222 4.92 0.00 0.00 3.71
1208 1375 2.750637 TCCTCCGCGTGTCCTCTC 60.751 66.667 4.92 0.00 0.00 3.20
1209 1376 3.063084 GTCCTCCGCGTGTCCTCT 61.063 66.667 4.92 0.00 0.00 3.69
1648 1821 2.095978 AAACGAGTGGGGTGAGACGG 62.096 60.000 0.00 0.00 0.00 4.79
1651 1824 1.345415 GGTAAAACGAGTGGGGTGAGA 59.655 52.381 0.00 0.00 0.00 3.27
1652 1825 1.346722 AGGTAAAACGAGTGGGGTGAG 59.653 52.381 0.00 0.00 0.00 3.51
1653 1826 1.345415 GAGGTAAAACGAGTGGGGTGA 59.655 52.381 0.00 0.00 0.00 4.02
1654 1827 1.804601 GAGGTAAAACGAGTGGGGTG 58.195 55.000 0.00 0.00 0.00 4.61
1655 1828 0.319405 CGAGGTAAAACGAGTGGGGT 59.681 55.000 0.00 0.00 0.00 4.95
1658 1831 1.459592 CAAGCGAGGTAAAACGAGTGG 59.540 52.381 0.00 0.00 0.00 4.00
1785 2301 1.117994 TCTGCTAGCAGAGGTGGATG 58.882 55.000 37.64 15.06 46.80 3.51
1962 2717 2.310945 TGTAGTACAGGGTACAGCTCCT 59.689 50.000 9.01 0.00 0.00 3.69
1964 2719 3.491104 GCATGTAGTACAGGGTACAGCTC 60.491 52.174 16.14 0.00 32.76 4.09
1965 2720 2.431057 GCATGTAGTACAGGGTACAGCT 59.569 50.000 16.14 0.00 32.76 4.24
1966 2721 2.167693 TGCATGTAGTACAGGGTACAGC 59.832 50.000 16.14 8.05 32.76 4.40
1967 2722 4.672587 ATGCATGTAGTACAGGGTACAG 57.327 45.455 16.14 0.00 32.76 2.74
1968 2723 5.011635 CCATATGCATGTAGTACAGGGTACA 59.988 44.000 16.14 6.64 33.75 2.90
1969 2724 5.479306 CCATATGCATGTAGTACAGGGTAC 58.521 45.833 16.14 1.12 29.37 3.34
1970 2725 4.020573 GCCATATGCATGTAGTACAGGGTA 60.021 45.833 16.14 7.41 40.77 3.69
1971 2726 3.244561 GCCATATGCATGTAGTACAGGGT 60.245 47.826 16.14 2.02 40.77 4.34
1972 2727 3.338249 GCCATATGCATGTAGTACAGGG 58.662 50.000 16.14 8.46 40.77 4.45
1973 2728 2.995939 CGCCATATGCATGTAGTACAGG 59.004 50.000 10.16 10.57 41.33 4.00
1974 2729 2.413112 GCGCCATATGCATGTAGTACAG 59.587 50.000 10.16 2.67 41.33 2.74
1975 2730 2.412870 GCGCCATATGCATGTAGTACA 58.587 47.619 10.16 5.24 41.33 2.90
1979 2734 0.321919 AGGGCGCCATATGCATGTAG 60.322 55.000 30.85 0.00 41.33 2.74
2174 2931 0.179108 GTCGATGGACGGGGAGAAAG 60.179 60.000 0.00 0.00 42.82 2.62
2176 2933 2.056223 GGTCGATGGACGGGGAGAA 61.056 63.158 1.47 0.00 44.39 2.87
2178 2935 3.900892 CGGTCGATGGACGGGGAG 61.901 72.222 7.43 0.00 44.39 4.30
2180 2937 3.208884 GATCGGTCGATGGACGGGG 62.209 68.421 10.77 1.59 44.39 5.73
2182 2939 1.283181 GAGATCGGTCGATGGACGG 59.717 63.158 10.77 8.83 44.39 4.79
2184 2941 1.841450 GTTGAGATCGGTCGATGGAC 58.159 55.000 10.77 0.00 42.66 4.02
2356 3120 3.391506 AGAAAAAGATGCCCAAACTGC 57.608 42.857 0.00 0.00 0.00 4.40
2383 3147 4.859798 CACAAGCTAGCTAGAATATACCGC 59.140 45.833 25.15 6.33 0.00 5.68
2385 3149 6.015350 TGACCACAAGCTAGCTAGAATATACC 60.015 42.308 25.15 4.57 0.00 2.73
2386 3150 6.982852 TGACCACAAGCTAGCTAGAATATAC 58.017 40.000 25.15 5.32 0.00 1.47
2387 3151 6.778069 ACTGACCACAAGCTAGCTAGAATATA 59.222 38.462 25.15 2.37 0.00 0.86
2390 3154 3.772025 ACTGACCACAAGCTAGCTAGAAT 59.228 43.478 25.15 9.00 0.00 2.40
2393 3157 4.720649 TTACTGACCACAAGCTAGCTAG 57.279 45.455 19.70 16.84 0.00 3.42
2395 3159 5.677319 TTATTACTGACCACAAGCTAGCT 57.323 39.130 12.68 12.68 0.00 3.32
2396 3160 6.371825 AGTTTTATTACTGACCACAAGCTAGC 59.628 38.462 6.62 6.62 0.00 3.42
2423 3368 1.533625 TGCTGGCAAAACTAATCGCT 58.466 45.000 0.00 0.00 0.00 4.93
2425 3370 3.374988 TCTCATGCTGGCAAAACTAATCG 59.625 43.478 0.00 0.00 0.00 3.34
2470 3416 0.104120 TGGCCGAACTCATCATACCG 59.896 55.000 0.00 0.00 0.00 4.02
2471 3417 2.213499 CTTGGCCGAACTCATCATACC 58.787 52.381 0.00 0.00 0.00 2.73
2472 3418 1.599542 GCTTGGCCGAACTCATCATAC 59.400 52.381 0.00 0.00 0.00 2.39
2473 3419 1.475034 GGCTTGGCCGAACTCATCATA 60.475 52.381 0.00 0.00 39.62 2.15
2476 3422 3.502572 GGCTTGGCCGAACTCATC 58.497 61.111 0.00 0.00 39.62 2.92
2508 3472 2.159747 GGTTTCGTCGCATCCAAAGTAC 60.160 50.000 0.00 0.00 0.00 2.73
2521 3485 2.740447 GTGGTATTCTGGTGGTTTCGTC 59.260 50.000 0.00 0.00 0.00 4.20
2540 3504 2.228582 TGTTGCCATGATCCGAAAAGTG 59.771 45.455 0.00 0.00 0.00 3.16
2567 3531 5.006165 CAGCAAACATTCTTCTACGAGGATC 59.994 44.000 0.00 0.00 0.00 3.36
2585 3549 1.408340 CACCACAACACCATCAGCAAA 59.592 47.619 0.00 0.00 0.00 3.68
2595 3559 1.269174 TGCATGCATACACCACAACAC 59.731 47.619 18.46 0.00 0.00 3.32
2922 3888 1.202651 ACCACACAGGCACTAGTGAAC 60.203 52.381 27.08 17.29 43.43 3.18
2927 3893 1.229428 CACAACCACACAGGCACTAG 58.771 55.000 0.00 0.00 43.14 2.57
3094 4151 0.723981 GCAGGAAGAGCATGTCGAAC 59.276 55.000 0.00 0.00 0.00 3.95
3187 4244 7.490000 AGGAAGTTACTGTGATAAACGGATAG 58.510 38.462 0.00 0.00 38.65 2.08
3220 4277 6.594744 TGATTACTGATGCCATTACATGAGT 58.405 36.000 0.00 2.38 44.97 3.41
3222 4279 7.720515 TGATTGATTACTGATGCCATTACATGA 59.279 33.333 0.00 0.00 0.00 3.07
3253 4310 0.101939 GCAGGGGTACTACGTACTGC 59.898 60.000 15.17 15.17 38.85 4.40
3299 4362 2.740055 CAGGTGCAGGTGAGCGAC 60.740 66.667 0.00 0.00 37.31 5.19
3325 4388 2.280119 AGCGAAGAACTGCGTGCA 60.280 55.556 4.12 0.00 35.87 4.57
3326 4389 1.831389 TTCAGCGAAGAACTGCGTGC 61.831 55.000 4.12 0.00 35.04 5.34
3363 4426 2.266279 TCCGAGGGATTTCTCAAAGGT 58.734 47.619 0.00 0.00 33.59 3.50
3423 4486 0.332972 ATCCTTTCAGGGTGGCCTTC 59.667 55.000 3.32 0.00 35.59 3.46
3466 4529 3.606687 GGGTTATCGATGTGTCCAGTTT 58.393 45.455 8.54 0.00 0.00 2.66
3468 4531 1.136305 CGGGTTATCGATGTGTCCAGT 59.864 52.381 8.54 0.00 0.00 4.00
3536 4599 7.870445 TGCAAAGTTTATGAAAATTAGACCACC 59.130 33.333 0.00 0.00 0.00 4.61
3708 4771 5.704354 ACCATATATGTTGCATTCAGGGAA 58.296 37.500 11.73 0.00 0.00 3.97
3709 4772 5.323382 ACCATATATGTTGCATTCAGGGA 57.677 39.130 11.73 0.00 0.00 4.20
3714 4777 7.308229 GGACAGAGAACCATATATGTTGCATTC 60.308 40.741 11.73 7.20 0.00 2.67
3771 4835 4.735662 ACAACACATGCATTTCATTTGC 57.264 36.364 0.00 0.00 36.56 3.68
3873 4937 2.848376 GCGCGACATGTTGATGAATGAG 60.848 50.000 17.70 0.00 33.36 2.90
3972 5036 2.593925 TGGATGTGTATTTGGTGCCA 57.406 45.000 0.00 0.00 0.00 4.92
4003 5067 8.824781 CAGATAACCACTGATCAATACTTTCAG 58.175 37.037 0.00 0.00 42.05 3.02
4005 5069 7.987458 TCCAGATAACCACTGATCAATACTTTC 59.013 37.037 0.00 0.00 37.54 2.62
4006 5070 7.861629 TCCAGATAACCACTGATCAATACTTT 58.138 34.615 0.00 0.00 37.54 2.66
4009 5073 7.445121 TGATCCAGATAACCACTGATCAATAC 58.555 38.462 0.00 0.00 37.54 1.89
4010 5074 7.616528 TGATCCAGATAACCACTGATCAATA 57.383 36.000 0.00 0.00 37.54 1.90
4013 5077 5.955961 TTGATCCAGATAACCACTGATCA 57.044 39.130 0.00 0.00 37.54 2.92
4048 5112 9.767228 TGCTTAAGTGTCTACTTGTTATAACAA 57.233 29.630 25.48 25.48 46.28 2.83
4126 5198 0.915364 GGCCTGTGAAGAAGAGGGAT 59.085 55.000 0.00 0.00 39.84 3.85
4181 5253 3.459828 TCCTCCAATGGACATGAAGGTA 58.540 45.455 0.00 0.00 0.00 3.08
4266 5338 5.009631 AGCAAATTGTACATAGCAGTTCCA 58.990 37.500 0.00 0.00 0.00 3.53
4365 5437 1.133790 GCAGAGATGGTGTTGGCAATC 59.866 52.381 1.92 0.00 0.00 2.67
4518 5590 2.167693 ACTTGCAATGGCCATCATCAAG 59.832 45.455 31.68 31.68 40.58 3.02
4634 5707 9.778741 ATTTGTTATCTGAAGACACAACTAGAA 57.221 29.630 0.00 0.00 33.05 2.10
4668 5741 5.539955 ACCATAATTTTGAGAAACAGGCAGT 59.460 36.000 0.00 0.00 0.00 4.40
4701 5774 3.069586 TCATCTCCATTTACTGGCTACCG 59.930 47.826 0.00 0.00 45.52 4.02
4855 5928 0.734889 ACATCTTGCGCCATACAAGC 59.265 50.000 4.18 0.00 43.40 4.01
4862 5935 0.804364 GATGAACACATCTTGCGCCA 59.196 50.000 4.18 0.00 37.85 5.69
4978 6051 5.671329 GCGGTTCAGTACTGATTCATTTGTC 60.671 44.000 25.68 7.90 39.64 3.18
4989 6062 1.442769 AGCAATGCGGTTCAGTACTG 58.557 50.000 17.17 17.17 36.13 2.74
4997 6070 5.364778 TCAGTATATTGTAGCAATGCGGTT 58.635 37.500 0.00 0.00 0.00 4.44
5030 6103 5.074804 TCTGGTCAGTGTGTAGTAAAGCTA 58.925 41.667 0.00 0.00 0.00 3.32
5031 6104 3.895656 TCTGGTCAGTGTGTAGTAAAGCT 59.104 43.478 0.00 0.00 0.00 3.74
5032 6105 4.252971 TCTGGTCAGTGTGTAGTAAAGC 57.747 45.455 0.00 0.00 0.00 3.51
5033 6106 7.036220 CCTATTCTGGTCAGTGTGTAGTAAAG 58.964 42.308 0.00 0.00 0.00 1.85
5034 6107 6.722590 TCCTATTCTGGTCAGTGTGTAGTAAA 59.277 38.462 0.00 0.00 0.00 2.01
5035 6108 6.250711 TCCTATTCTGGTCAGTGTGTAGTAA 58.749 40.000 0.00 0.00 0.00 2.24
5036 6109 5.823312 TCCTATTCTGGTCAGTGTGTAGTA 58.177 41.667 0.00 0.00 0.00 1.82
5037 6110 4.673968 TCCTATTCTGGTCAGTGTGTAGT 58.326 43.478 0.00 0.00 0.00 2.73
5038 6111 4.707448 ACTCCTATTCTGGTCAGTGTGTAG 59.293 45.833 0.00 0.00 0.00 2.74
5039 6112 4.673968 ACTCCTATTCTGGTCAGTGTGTA 58.326 43.478 0.00 0.00 0.00 2.90
5040 6113 3.511477 ACTCCTATTCTGGTCAGTGTGT 58.489 45.455 0.00 0.00 0.00 3.72
5041 6114 5.860941 ATACTCCTATTCTGGTCAGTGTG 57.139 43.478 0.00 0.00 0.00 3.82
5042 6115 7.126733 AGTTATACTCCTATTCTGGTCAGTGT 58.873 38.462 0.00 0.00 0.00 3.55
5043 6116 7.589958 AGTTATACTCCTATTCTGGTCAGTG 57.410 40.000 0.00 0.00 0.00 3.66
5058 6131 5.822278 TCTCGTGCTGATGAAGTTATACTC 58.178 41.667 0.00 0.00 0.00 2.59
5085 6172 9.759473 ATCCTAAACCATAATAAGATCATTGGG 57.241 33.333 0.00 0.00 0.00 4.12
5105 6192 4.223144 TGCCTGCAGTATCTGTATCCTAA 58.777 43.478 13.81 0.00 33.43 2.69
5113 6200 3.069300 ACAGTCTATGCCTGCAGTATCTG 59.931 47.826 13.81 11.96 33.09 2.90
5166 6583 5.075493 AGACAATTTCTTCATGTGGAGCTT 58.925 37.500 0.00 0.00 0.00 3.74
5241 6658 1.048601 TCGGGATGTCATAGGGAAGC 58.951 55.000 0.00 0.00 0.00 3.86
5247 6664 4.572389 CAGAAAACCTTCGGGATGTCATAG 59.428 45.833 0.00 0.00 36.61 2.23
5526 6944 1.256812 TGCTGAAGATGACCGACAGA 58.743 50.000 0.00 0.00 0.00 3.41
6033 7470 4.642445 TCAACACTGTCGTCTCAGTAAA 57.358 40.909 9.39 0.00 45.37 2.01
6171 7637 6.530019 TTTGAAAAGGAAGGCCAGATATTC 57.470 37.500 5.01 0.00 36.29 1.75
6213 7679 4.448210 TCCTCTTATTATTGTTGGTCCGC 58.552 43.478 0.00 0.00 0.00 5.54
6214 7680 5.523916 CACTCCTCTTATTATTGTTGGTCCG 59.476 44.000 0.00 0.00 0.00 4.79
6215 7681 6.650120 TCACTCCTCTTATTATTGTTGGTCC 58.350 40.000 0.00 0.00 0.00 4.46
6237 7703 0.250234 GCCAGCAGTGACCTGTATCA 59.750 55.000 0.00 0.00 41.02 2.15
6238 7704 0.462759 GGCCAGCAGTGACCTGTATC 60.463 60.000 0.00 0.00 41.02 2.24
6240 7706 1.414866 TTGGCCAGCAGTGACCTGTA 61.415 55.000 5.11 0.00 41.02 2.74
6241 7707 2.756042 TTGGCCAGCAGTGACCTGT 61.756 57.895 5.11 0.00 41.02 4.00
6242 7708 2.113774 TTGGCCAGCAGTGACCTG 59.886 61.111 5.11 0.00 41.91 4.00
6243 7709 2.113986 GTTGGCCAGCAGTGACCT 59.886 61.111 15.64 0.00 0.00 3.85
6244 7710 1.181098 ATTGTTGGCCAGCAGTGACC 61.181 55.000 22.18 0.00 0.00 4.02
6253 7720 6.379703 ACTGCATTAACTATTATTGTTGGCCA 59.620 34.615 0.00 0.00 0.00 5.36
6255 7722 6.198966 GCACTGCATTAACTATTATTGTTGGC 59.801 38.462 2.51 4.59 0.00 4.52
6376 7847 6.425114 AGCCTAAATCGTTCTGCATATAGTTG 59.575 38.462 0.00 0.00 0.00 3.16
6377 7848 6.425114 CAGCCTAAATCGTTCTGCATATAGTT 59.575 38.462 0.00 0.00 0.00 2.24
6378 7849 5.928839 CAGCCTAAATCGTTCTGCATATAGT 59.071 40.000 0.00 0.00 0.00 2.12
6437 7908 0.947180 TGCAACTTCGACTTACCGGC 60.947 55.000 0.00 0.00 0.00 6.13
6458 7929 2.033141 CACCCTGTGTGCTCCTGG 59.967 66.667 0.00 0.00 38.34 4.45
6459 7930 0.179020 TTTCACCCTGTGTGCTCCTG 60.179 55.000 0.00 0.00 45.03 3.86
6460 7931 0.550914 TTTTCACCCTGTGTGCTCCT 59.449 50.000 0.00 0.00 45.03 3.69
6461 7932 1.338020 CTTTTTCACCCTGTGTGCTCC 59.662 52.381 0.00 0.00 45.03 4.70
6462 7933 2.297701 TCTTTTTCACCCTGTGTGCTC 58.702 47.619 0.00 0.00 45.03 4.26
6463 7934 2.435372 TCTTTTTCACCCTGTGTGCT 57.565 45.000 0.00 0.00 45.03 4.40
6464 7935 3.518634 TTTCTTTTTCACCCTGTGTGC 57.481 42.857 0.00 0.00 45.03 4.57
6465 7936 3.803778 GCATTTCTTTTTCACCCTGTGTG 59.196 43.478 0.00 0.00 46.88 3.82
6466 7937 3.706086 AGCATTTCTTTTTCACCCTGTGT 59.294 39.130 0.00 0.00 34.79 3.72
6467 7938 4.326504 AGCATTTCTTTTTCACCCTGTG 57.673 40.909 0.00 0.00 34.45 3.66
6481 7963 9.846248 ACATATTGACAGTTAGAAAAGCATTTC 57.154 29.630 6.30 6.30 44.34 2.17
6511 7993 5.472148 ACGACACGGACATGTCTAATTTTA 58.528 37.500 24.50 0.00 45.73 1.52
6567 8049 1.146041 ACGCAGACCACAAAGCTCA 59.854 52.632 0.00 0.00 0.00 4.26
6583 8065 8.538856 TGAGCATAAAATTTGTTTTCTTTCACG 58.461 29.630 0.00 0.00 0.00 4.35
6597 8079 8.553696 CAGAAGCAAGTTTTTGAGCATAAAATT 58.446 29.630 0.00 0.00 36.36 1.82
6602 8084 5.772825 ACAGAAGCAAGTTTTTGAGCATA 57.227 34.783 0.00 0.00 36.36 3.14
6608 8090 7.478355 GCTAAAACAAACAGAAGCAAGTTTTTG 59.522 33.333 0.00 0.00 39.20 2.44
6621 8119 1.068541 GGGCCTCGCTAAAACAAACAG 60.069 52.381 0.84 0.00 0.00 3.16
6661 8159 6.646653 TGCATTTTATGTGCGTGGAAAATTTA 59.353 30.769 0.00 0.00 45.37 1.40
6665 8163 3.738282 GTGCATTTTATGTGCGTGGAAAA 59.262 39.130 0.00 0.00 45.37 2.29
6670 8168 2.344504 TGGTGCATTTTATGTGCGTG 57.655 45.000 0.00 0.00 45.37 5.34


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

AutoCloner maintained by Alex Coulton.