Multiple sequence alignment - TraesCS2A01G434600

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 TraesCS2A01G434600 chr2A 100.000 9480 0 0 1 9480 686855045 686864524 0.000000e+00 17507.0
1 TraesCS2A01G434600 chr2A 98.529 68 0 1 8919 8986 686863897 686863963 1.670000e-22 119.0
2 TraesCS2A01G434600 chr2A 98.529 68 0 1 8853 8919 686863963 686864030 1.670000e-22 119.0
3 TraesCS2A01G434600 chr2A 95.349 43 2 0 34 76 762097564 762097522 1.710000e-07 69.4
4 TraesCS2A01G434600 chr2D 97.663 7959 135 23 764 8696 544648540 544656473 0.000000e+00 13620.0
5 TraesCS2A01G434600 chr2D 90.135 446 22 8 279 713 544648088 544648522 2.310000e-155 560.0
6 TraesCS2A01G434600 chr2D 84.749 577 66 13 8919 9480 544656696 544657265 8.320000e-155 558.0
7 TraesCS2A01G434600 chr2D 91.304 115 6 2 8692 8804 544656499 544656611 4.580000e-33 154.0
8 TraesCS2A01G434600 chr2D 85.401 137 9 3 16 152 544645445 544645570 2.150000e-26 132.0
9 TraesCS2A01G434600 chr2D 88.288 111 5 1 151 253 544645675 544645785 9.990000e-25 126.0
10 TraesCS2A01G434600 chr2B 87.459 3357 306 63 3803 7110 650282365 650285655 0.000000e+00 3760.0
11 TraesCS2A01G434600 chr2B 92.812 1586 68 22 7116 8693 650285736 650287283 0.000000e+00 2255.0
12 TraesCS2A01G434600 chr2B 89.021 1685 143 21 2161 3811 650280539 650282215 0.000000e+00 2049.0
13 TraesCS2A01G434600 chr2B 87.336 837 51 16 259 1069 650278853 650279660 0.000000e+00 907.0
14 TraesCS2A01G434600 chr2B 92.995 571 29 5 8919 9480 650287475 650288043 0.000000e+00 822.0
15 TraesCS2A01G434600 chr2B 95.238 231 8 2 8692 8919 650287312 650287542 7.000000e-96 363.0
16 TraesCS2A01G434600 chr2B 88.945 199 22 0 1736 1934 650280288 650280486 7.350000e-61 246.0
17 TraesCS2A01G434600 chr2B 81.154 260 25 10 1 250 650278564 650278809 4.520000e-43 187.0
18 TraesCS2A01G434600 chr7D 83.854 576 85 4 3552 4120 62965476 62966050 8.370000e-150 542.0
19 TraesCS2A01G434600 chr7D 83.681 576 86 4 3552 4120 63010785 63011359 3.900000e-148 536.0
20 TraesCS2A01G434600 chr1A 83.137 593 89 5 3552 4137 255752796 255753384 1.810000e-146 531.0
21 TraesCS2A01G434600 chr4A 82.968 593 90 5 3552 4137 621920796 621921384 8.430000e-145 525.0
22 TraesCS2A01G434600 chr4A 85.268 224 28 3 2949 3171 524286524 524286743 9.580000e-55 226.0
23 TraesCS2A01G434600 chrUn 80.789 380 49 14 3359 3727 283637004 283637370 9.380000e-70 276.0
24 TraesCS2A01G434600 chrUn 80.789 380 49 14 3359 3727 284315953 284316319 9.380000e-70 276.0
25 TraesCS2A01G434600 chrUn 80.789 380 49 14 3359 3727 303576616 303576250 9.380000e-70 276.0
26 TraesCS2A01G434600 chrUn 80.789 380 49 14 3359 3727 305307279 305306913 9.380000e-70 276.0
27 TraesCS2A01G434600 chrUn 87.195 164 17 3 3119 3280 303576773 303576612 5.850000e-42 183.0
28 TraesCS2A01G434600 chrUn 87.195 164 17 3 3119 3280 305307436 305307275 5.850000e-42 183.0
29 TraesCS2A01G434600 chrUn 87.195 164 17 3 3119 3280 321020053 321020214 5.850000e-42 183.0
30 TraesCS2A01G434600 chrUn 87.195 164 17 3 3119 3280 337868240 337868079 5.850000e-42 183.0
31 TraesCS2A01G434600 chrUn 86.928 153 16 3 3130 3280 333504341 333504191 1.640000e-37 169.0
32 TraesCS2A01G434600 chr5D 86.937 222 25 3 2951 3171 26265239 26265457 7.350000e-61 246.0
33 TraesCS2A01G434600 chr5B 86.486 222 26 3 2951 3171 18343905 18344123 3.420000e-59 241.0
34 TraesCS2A01G434600 chr3B 87.719 171 17 3 3113 3280 259415734 259415903 7.510000e-46 196.0
35 TraesCS2A01G434600 chr3B 87.013 77 10 0 2185 2261 815384457 815384533 4.720000e-13 87.9
36 TraesCS2A01G434600 chr3D 87.013 77 10 0 2185 2261 606372097 606372021 4.720000e-13 87.9
37 TraesCS2A01G434600 chr3A 87.013 77 10 0 2185 2261 737670741 737670817 4.720000e-13 87.9
38 TraesCS2A01G434600 chr6B 100.000 28 0 0 41 68 696131424 696131397 1.700000e-02 52.8


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2A01G434600 chr2A 686855045 686864524 9479 False 5915.000 17507 99.019333 1 9480 3 chr2A.!!$F1 9479
1 TraesCS2A01G434600 chr2D 544645445 544657265 11820 False 2525.000 13620 89.590000 16 9480 6 chr2D.!!$F1 9464
2 TraesCS2A01G434600 chr2B 650278564 650288043 9479 False 1323.625 3760 89.370000 1 9480 8 chr2B.!!$F1 9479
3 TraesCS2A01G434600 chr7D 62965476 62966050 574 False 542.000 542 83.854000 3552 4120 1 chr7D.!!$F1 568
4 TraesCS2A01G434600 chr7D 63010785 63011359 574 False 536.000 536 83.681000 3552 4120 1 chr7D.!!$F2 568
5 TraesCS2A01G434600 chr1A 255752796 255753384 588 False 531.000 531 83.137000 3552 4137 1 chr1A.!!$F1 585
6 TraesCS2A01G434600 chr4A 621920796 621921384 588 False 525.000 525 82.968000 3552 4137 1 chr4A.!!$F2 585
7 TraesCS2A01G434600 chrUn 303576250 303576773 523 True 229.500 276 83.992000 3119 3727 2 chrUn.!!$R3 608
8 TraesCS2A01G434600 chrUn 305306913 305307436 523 True 229.500 276 83.992000 3119 3727 2 chrUn.!!$R4 608

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
812 3222 0.032615 TGGGGGATTATGGGCACAAC 60.033 55.000 0.00 0.00 0.00 3.32 F
990 3410 0.108329 GATTCGAGGGTTCTTCGGCA 60.108 55.000 0.00 0.00 0.00 5.69 F
1337 3832 0.623324 CAAGTCATACCCCCTCCCCA 60.623 60.000 0.00 0.00 0.00 4.96 F
2127 4645 0.747255 TATGGCTCGAGTTCAGCTCC 59.253 55.000 15.13 5.15 41.10 4.70 F
2160 4678 0.391927 TACGGCACCAAAAGATCCCG 60.392 55.000 1.84 1.84 41.31 5.14 F
2162 4680 2.710902 GGCACCAAAAGATCCCGCC 61.711 63.158 0.00 0.00 0.00 6.13 F
2341 4909 2.967459 TTGCGACAACTAACATGCTG 57.033 45.000 0.00 0.00 0.00 4.41 F
4434 7195 1.002792 CATGCCATTGATCTGCACTCG 60.003 52.381 0.00 0.00 37.92 4.18 F
4957 7719 0.988063 GCTTTCAGGAGGAGAGGGTT 59.012 55.000 0.00 0.00 0.00 4.11 F
4958 7720 1.339535 GCTTTCAGGAGGAGAGGGTTG 60.340 57.143 0.00 0.00 0.00 3.77 F
5895 8698 2.648059 CCTCCTTGCTATCTTGGTTGG 58.352 52.381 0.00 0.00 0.00 3.77 F
7119 9930 4.857871 TGTGATATACTCTTGCGTTTGC 57.142 40.909 0.00 0.00 43.20 3.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2148 4666 0.106519 ATGAGGGCGGGATCTTTTGG 60.107 55.000 0.00 0.00 0.00 3.28 R
2152 4670 0.181350 GAACATGAGGGCGGGATCTT 59.819 55.000 0.00 0.00 0.00 2.40 R
2154 4672 0.181350 AAGAACATGAGGGCGGGATC 59.819 55.000 0.00 0.00 0.00 3.36 R
3481 6068 1.344065 ACAACCGGGTCACTGTCATA 58.656 50.000 6.32 0.00 0.00 2.15 R
3784 6386 5.382664 TCTCCAAGGTGGTACTTTTTCTT 57.617 39.130 0.00 0.00 39.03 2.52 R
4434 7195 1.534163 GGGTGAGCACGAAAGGTAAAC 59.466 52.381 0.00 0.00 0.00 2.01 R
4444 7205 0.817634 TTTGTTGGAGGGTGAGCACG 60.818 55.000 0.00 0.00 0.00 5.34 R
5310 8077 1.541233 CCTTGAATCCGGAATAGCGCT 60.541 52.381 17.26 17.26 0.00 5.92 R
7114 9925 1.742831 TCAGCACCAATATCCGCAAAC 59.257 47.619 0.00 0.00 0.00 2.93 R
7119 9930 2.352651 CACACTTCAGCACCAATATCCG 59.647 50.000 0.00 0.00 0.00 4.18 R
7641 10535 2.373169 AGAGATGTTTTGCAGAGGGTCA 59.627 45.455 0.00 0.00 0.00 4.02 R
8911 11882 0.034198 TTGTCCATCGTTTCGGAGCA 59.966 50.000 0.00 0.00 29.98 4.26 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
52 55 4.148825 CTGCCGGACGGGGAAGAG 62.149 72.222 5.05 0.00 34.24 2.85
57 60 2.764547 GGACGGGGAAGAGGAGGG 60.765 72.222 0.00 0.00 0.00 4.30
60 63 4.089757 CGGGGAAGAGGAGGGGGA 62.090 72.222 0.00 0.00 0.00 4.81
61 64 2.367107 GGGGAAGAGGAGGGGGAC 60.367 72.222 0.00 0.00 0.00 4.46
154 263 9.730705 AATGAATCACTTCAATCTCTTCTAACA 57.269 29.630 0.00 0.00 44.29 2.41
155 264 9.902684 ATGAATCACTTCAATCTCTTCTAACAT 57.097 29.630 0.00 0.00 44.29 2.71
223 340 4.663334 TCTTGGTACTAGAGCTGTCTTCA 58.337 43.478 0.00 0.00 33.84 3.02
267 384 5.458891 CATTACCCTATGTACTGTACTCGC 58.541 45.833 17.98 0.00 0.00 5.03
268 385 3.294038 ACCCTATGTACTGTACTCGCT 57.706 47.619 17.98 4.36 0.00 4.93
269 386 4.428294 ACCCTATGTACTGTACTCGCTA 57.572 45.455 17.98 0.00 0.00 4.26
272 389 5.472820 ACCCTATGTACTGTACTCGCTATTC 59.527 44.000 17.98 0.00 0.00 1.75
275 392 3.273434 TGTACTGTACTCGCTATTCCGT 58.727 45.455 17.98 0.00 0.00 4.69
277 394 3.417690 ACTGTACTCGCTATTCCGTTC 57.582 47.619 0.00 0.00 0.00 3.95
298 2692 8.700644 CCGTTCTTCTATAAATGAAAGGATACG 58.299 37.037 1.82 0.00 39.32 3.06
308 2702 5.705609 ATGAAAGGATACGCAAACTTTGT 57.294 34.783 3.48 0.00 46.39 2.83
347 2741 8.492415 AAATATATTTTAAAAGGGAGGGAGCC 57.508 34.615 4.81 0.00 0.00 4.70
354 2748 1.158007 AAGGGAGGGAGCCTTTTTGA 58.842 50.000 0.00 0.00 31.76 2.69
378 2772 1.414181 AGGACAAGTGGAGTGACACAG 59.586 52.381 8.59 0.00 43.72 3.66
379 2773 1.412710 GGACAAGTGGAGTGACACAGA 59.587 52.381 8.59 0.00 43.72 3.41
380 2774 2.037772 GGACAAGTGGAGTGACACAGAT 59.962 50.000 8.59 0.00 43.72 2.90
381 2775 3.258372 GGACAAGTGGAGTGACACAGATA 59.742 47.826 8.59 0.00 43.72 1.98
382 2776 4.489810 GACAAGTGGAGTGACACAGATAG 58.510 47.826 8.59 0.00 43.72 2.08
383 2777 3.259374 ACAAGTGGAGTGACACAGATAGG 59.741 47.826 8.59 0.00 43.72 2.57
384 2778 1.827969 AGTGGAGTGACACAGATAGGC 59.172 52.381 8.59 0.00 43.72 3.93
461 2855 0.602905 AGACGAGCAAAAGGGGTTCG 60.603 55.000 0.00 0.00 43.34 3.95
462 2856 0.601841 GACGAGCAAAAGGGGTTCGA 60.602 55.000 5.70 0.00 40.75 3.71
463 2857 0.602905 ACGAGCAAAAGGGGTTCGAG 60.603 55.000 5.70 0.00 40.75 4.04
520 2929 2.986050 TCCACAGTTTACCTCTTCCCT 58.014 47.619 0.00 0.00 0.00 4.20
719 3129 3.513225 CCGAATCAATGCGGGCTT 58.487 55.556 1.10 0.00 43.67 4.35
723 3133 1.133025 CGAATCAATGCGGGCTTTCTT 59.867 47.619 0.00 0.00 0.00 2.52
724 3134 2.533266 GAATCAATGCGGGCTTTCTTG 58.467 47.619 0.00 0.00 0.00 3.02
728 3138 3.918253 ATGCGGGCTTTCTTGCGGA 62.918 57.895 0.00 0.00 0.00 5.54
730 3140 2.700773 GCGGGCTTTCTTGCGGATT 61.701 57.895 0.00 0.00 0.00 3.01
731 3141 1.883021 CGGGCTTTCTTGCGGATTT 59.117 52.632 0.00 0.00 0.00 2.17
732 3142 0.179163 CGGGCTTTCTTGCGGATTTC 60.179 55.000 0.00 0.00 0.00 2.17
733 3143 0.179163 GGGCTTTCTTGCGGATTTCG 60.179 55.000 0.00 0.00 42.76 3.46
734 3144 0.179163 GGCTTTCTTGCGGATTTCGG 60.179 55.000 0.00 0.00 39.69 4.30
735 3145 0.179163 GCTTTCTTGCGGATTTCGGG 60.179 55.000 0.00 0.00 39.69 5.14
736 3146 1.448985 CTTTCTTGCGGATTTCGGGA 58.551 50.000 0.00 0.00 39.69 5.14
737 3147 1.130561 CTTTCTTGCGGATTTCGGGAC 59.869 52.381 0.00 0.00 39.69 4.46
738 3148 0.675522 TTCTTGCGGATTTCGGGACC 60.676 55.000 0.00 0.00 39.69 4.46
798 3208 3.131478 GTCGTGGCGATTTGGGGG 61.131 66.667 0.00 0.00 38.42 5.40
810 3220 0.712979 TTTGGGGGATTATGGGCACA 59.287 50.000 0.00 0.00 0.00 4.57
812 3222 0.032615 TGGGGGATTATGGGCACAAC 60.033 55.000 0.00 0.00 0.00 3.32
813 3223 0.759060 GGGGGATTATGGGCACAACC 60.759 60.000 0.00 0.00 37.93 3.77
894 3314 1.138671 CGGATTTTGGCGGCGAATT 59.861 52.632 12.98 9.31 0.00 2.17
902 3322 0.736053 TGGCGGCGAATTATTGGTTC 59.264 50.000 12.98 0.00 0.00 3.62
940 3360 6.530019 AATGGGTGATCATTTTCCTGTTAC 57.470 37.500 0.00 0.00 34.01 2.50
941 3361 4.340617 TGGGTGATCATTTTCCTGTTACC 58.659 43.478 0.00 0.00 0.00 2.85
942 3362 4.044065 TGGGTGATCATTTTCCTGTTACCT 59.956 41.667 0.00 0.00 0.00 3.08
943 3363 4.640647 GGGTGATCATTTTCCTGTTACCTC 59.359 45.833 0.00 0.00 0.00 3.85
944 3364 5.501156 GGTGATCATTTTCCTGTTACCTCT 58.499 41.667 0.00 0.00 0.00 3.69
945 3365 5.946377 GGTGATCATTTTCCTGTTACCTCTT 59.054 40.000 0.00 0.00 0.00 2.85
946 3366 6.434340 GGTGATCATTTTCCTGTTACCTCTTT 59.566 38.462 0.00 0.00 0.00 2.52
951 3371 2.185004 TCCTGTTACCTCTTTGCAGC 57.815 50.000 0.00 0.00 0.00 5.25
990 3410 0.108329 GATTCGAGGGTTCTTCGGCA 60.108 55.000 0.00 0.00 0.00 5.69
1120 3540 7.012358 GCACTTTAATCATCGCTATTTCTAGC 58.988 38.462 0.00 0.00 45.79 3.42
1121 3541 7.095439 GCACTTTAATCATCGCTATTTCTAGCT 60.095 37.037 0.00 0.00 46.84 3.32
1122 3542 8.768955 CACTTTAATCATCGCTATTTCTAGCTT 58.231 33.333 0.00 0.00 46.84 3.74
1337 3832 0.623324 CAAGTCATACCCCCTCCCCA 60.623 60.000 0.00 0.00 0.00 4.96
1405 3921 7.237173 GCTAACACAGTTCAGTTATTAGCAAG 58.763 38.462 7.93 0.00 41.58 4.01
1499 4015 3.682377 TGTATAATGGTCACAGTGTTGCG 59.318 43.478 0.00 0.00 0.00 4.85
1505 4021 1.003866 GGTCACAGTGTTGCGTTCTTC 60.004 52.381 0.00 0.00 0.00 2.87
1629 4145 7.041916 GGATGATGAGTCTAAAGCAAAGATCAG 60.042 40.741 0.00 0.00 0.00 2.90
2014 4532 9.175060 CTTTCTCGTCACTATATCAGTACAATG 57.825 37.037 0.00 0.00 34.98 2.82
2035 4553 6.890663 ATGTTTAATCATTTTGGTGCATCG 57.109 33.333 0.00 0.00 0.00 3.84
2036 4554 4.624882 TGTTTAATCATTTTGGTGCATCGC 59.375 37.500 0.00 0.00 0.00 4.58
2102 4620 8.786826 ACACTTATTTTATCTTGATGTTCGGA 57.213 30.769 0.00 0.00 0.00 4.55
2118 4636 1.067060 TCGGATTGTGTATGGCTCGAG 59.933 52.381 8.45 8.45 0.00 4.04
2127 4645 0.747255 TATGGCTCGAGTTCAGCTCC 59.253 55.000 15.13 5.15 41.10 4.70
2128 4646 0.975040 ATGGCTCGAGTTCAGCTCCT 60.975 55.000 15.13 0.00 41.10 3.69
2129 4647 1.188219 TGGCTCGAGTTCAGCTCCTT 61.188 55.000 15.13 0.00 41.10 3.36
2130 4648 0.818296 GGCTCGAGTTCAGCTCCTTA 59.182 55.000 15.13 0.00 41.10 2.69
2131 4649 1.410882 GGCTCGAGTTCAGCTCCTTAT 59.589 52.381 15.13 0.00 41.10 1.73
2132 4650 2.468831 GCTCGAGTTCAGCTCCTTATG 58.531 52.381 15.13 0.00 41.10 1.90
2133 4651 2.159170 GCTCGAGTTCAGCTCCTTATGT 60.159 50.000 15.13 0.00 41.10 2.29
2134 4652 3.677424 GCTCGAGTTCAGCTCCTTATGTT 60.677 47.826 15.13 0.00 41.10 2.71
2135 4653 4.440250 GCTCGAGTTCAGCTCCTTATGTTA 60.440 45.833 15.13 0.00 41.10 2.41
2136 4654 5.737635 GCTCGAGTTCAGCTCCTTATGTTAT 60.738 44.000 15.13 0.00 41.10 1.89
2137 4655 6.222038 TCGAGTTCAGCTCCTTATGTTATT 57.778 37.500 0.00 0.00 41.10 1.40
2138 4656 6.042777 TCGAGTTCAGCTCCTTATGTTATTG 58.957 40.000 0.00 0.00 41.10 1.90
2139 4657 5.277058 CGAGTTCAGCTCCTTATGTTATTGC 60.277 44.000 0.00 0.00 41.10 3.56
2140 4658 5.749462 AGTTCAGCTCCTTATGTTATTGCT 58.251 37.500 0.00 0.00 0.00 3.91
2141 4659 6.183347 AGTTCAGCTCCTTATGTTATTGCTT 58.817 36.000 0.00 0.00 0.00 3.91
2142 4660 7.338710 AGTTCAGCTCCTTATGTTATTGCTTA 58.661 34.615 0.00 0.00 0.00 3.09
2143 4661 7.281100 AGTTCAGCTCCTTATGTTATTGCTTAC 59.719 37.037 0.00 0.00 0.00 2.34
2144 4662 5.753438 TCAGCTCCTTATGTTATTGCTTACG 59.247 40.000 0.00 0.00 0.00 3.18
2145 4663 5.050091 CAGCTCCTTATGTTATTGCTTACGG 60.050 44.000 0.00 0.00 0.00 4.02
2146 4664 4.319549 GCTCCTTATGTTATTGCTTACGGC 60.320 45.833 0.00 0.00 42.22 5.68
2157 4675 2.544480 GCTTACGGCACCAAAAGATC 57.456 50.000 2.93 0.00 41.35 2.75
2158 4676 1.132453 GCTTACGGCACCAAAAGATCC 59.868 52.381 2.93 0.00 41.35 3.36
2159 4677 1.743394 CTTACGGCACCAAAAGATCCC 59.257 52.381 0.00 0.00 0.00 3.85
2160 4678 0.391927 TACGGCACCAAAAGATCCCG 60.392 55.000 1.84 1.84 41.31 5.14
2161 4679 2.885113 GGCACCAAAAGATCCCGC 59.115 61.111 0.00 0.00 0.00 6.13
2162 4680 2.710902 GGCACCAAAAGATCCCGCC 61.711 63.158 0.00 0.00 0.00 6.13
2163 4681 2.710902 GCACCAAAAGATCCCGCCC 61.711 63.158 0.00 0.00 0.00 6.13
2341 4909 2.967459 TTGCGACAACTAACATGCTG 57.033 45.000 0.00 0.00 0.00 4.41
4076 6837 3.626028 CAAAGTTGCAGGTTACTGTCC 57.374 47.619 0.00 0.00 46.62 4.02
4114 6875 4.590918 TGGTATTACGGATTGCCAAAAGA 58.409 39.130 0.00 0.00 0.00 2.52
4434 7195 1.002792 CATGCCATTGATCTGCACTCG 60.003 52.381 0.00 0.00 37.92 4.18
4444 7205 3.994392 TGATCTGCACTCGTTTACCTTTC 59.006 43.478 0.00 0.00 0.00 2.62
4488 7249 6.768029 TTTTCTTTGCATAACAGCATTCAC 57.232 33.333 0.00 0.00 45.19 3.18
4708 7469 6.154021 TGGGAATAAGAGTGTTGAGGTACTAC 59.846 42.308 0.00 0.00 41.55 2.73
4778 7539 5.067674 CACATGGGTGGTAATCAGTAATTGG 59.932 44.000 0.00 0.00 41.45 3.16
4912 7674 6.975772 GTGTATTTGCCTATTTTAAATGCGGA 59.024 34.615 10.58 0.00 31.71 5.54
4957 7719 0.988063 GCTTTCAGGAGGAGAGGGTT 59.012 55.000 0.00 0.00 0.00 4.11
4958 7720 1.339535 GCTTTCAGGAGGAGAGGGTTG 60.340 57.143 0.00 0.00 0.00 3.77
5170 7936 3.118261 AGGTTTGCTTCTGACAGACTGAA 60.118 43.478 10.08 0.00 35.67 3.02
5310 8077 6.424032 TGATAGTTACTCTGAAGCTGGACTA 58.576 40.000 0.00 0.00 0.00 2.59
5385 8152 9.539825 CAAGTAGATGCAGTAAGTTCATAATCT 57.460 33.333 0.00 0.00 0.00 2.40
5483 8254 9.580916 CATCCTTAAATTCGTCATATTGTTACG 57.419 33.333 0.00 0.00 37.96 3.18
5593 8364 6.815089 TGCAATTAAGGTGTGAACAATCTTT 58.185 32.000 5.87 0.00 0.00 2.52
5633 8404 8.856153 TTGTATTTATGCAACTTTCCTCTGTA 57.144 30.769 0.00 0.00 0.00 2.74
5782 8579 3.617263 CCACAAGAGTAAATGGCGTCTAC 59.383 47.826 0.00 0.00 0.00 2.59
5895 8698 2.648059 CCTCCTTGCTATCTTGGTTGG 58.352 52.381 0.00 0.00 0.00 3.77
5945 8748 5.869753 TGCTCTGAAATAGCTTTGACTTC 57.130 39.130 0.00 0.00 40.73 3.01
5988 8791 7.875554 TGTTTATCTTTTAATTTGTGCTTCCCC 59.124 33.333 0.00 0.00 0.00 4.81
6168 8971 6.158598 CCCAAAGGTATTCACAAAGTCATTG 58.841 40.000 0.00 0.00 44.95 2.82
6223 9029 5.050091 CCAACATGTACTGACACTTCTGTTC 60.050 44.000 0.00 0.00 38.76 3.18
6372 9183 7.736447 ATTCTACTTGAACAGGTCAAAGAAG 57.264 36.000 16.82 8.81 45.67 2.85
6567 9378 9.995003 CATTTCCTATTTGCTCTCTTACTATCT 57.005 33.333 0.00 0.00 0.00 1.98
7114 9925 6.194463 CCATGTTTTGTGATATACTCTTGCG 58.806 40.000 0.00 0.00 0.00 4.85
7119 9930 4.857871 TGTGATATACTCTTGCGTTTGC 57.142 40.909 0.00 0.00 43.20 3.68
7438 10326 7.065443 GCCTGGTGACGAGTTTATTATTTTACT 59.935 37.037 0.00 0.00 0.00 2.24
7439 10327 8.943002 CCTGGTGACGAGTTTATTATTTTACTT 58.057 33.333 0.00 0.00 0.00 2.24
7570 10463 5.685520 TTGGTCATGTATAGTGGCACTAA 57.314 39.130 29.35 15.09 33.89 2.24
8030 10924 4.374843 TTGTGATGCCAATTGTGATAGC 57.625 40.909 4.43 0.57 0.00 2.97
8205 11099 2.522923 ATCCGAGGATCCTGCGCT 60.523 61.111 22.02 9.54 0.00 5.92
8262 11156 1.132689 ACTGTTCCTCTTCCACTCCCT 60.133 52.381 0.00 0.00 0.00 4.20
8315 11212 2.483877 TGCTGCTTCTGTAAACCGAATG 59.516 45.455 0.00 0.00 0.00 2.67
8331 11228 4.519350 ACCGAATGCAGATCTACTTATCGA 59.481 41.667 14.78 0.00 0.00 3.59
8474 11371 0.320421 TTGCGGGGTTCTTCTCTTCG 60.320 55.000 0.00 0.00 0.00 3.79
8508 11405 3.758554 TCAATTGTTTTCCTAGGCTCTGC 59.241 43.478 2.96 0.00 0.00 4.26
8509 11406 3.728385 ATTGTTTTCCTAGGCTCTGCT 57.272 42.857 2.96 0.00 0.00 4.24
8510 11407 3.508845 TTGTTTTCCTAGGCTCTGCTT 57.491 42.857 2.96 0.00 0.00 3.91
8665 11565 1.153168 GCCGGGCAGCAGAGATAAA 60.153 57.895 15.62 0.00 0.00 1.40
8668 11568 1.293924 CGGGCAGCAGAGATAAACAG 58.706 55.000 0.00 0.00 0.00 3.16
8670 11570 1.673168 GGCAGCAGAGATAAACAGGG 58.327 55.000 0.00 0.00 0.00 4.45
8674 11574 3.869912 GCAGCAGAGATAAACAGGGTTGA 60.870 47.826 0.00 0.00 0.00 3.18
8790 11722 1.134521 CCTTATTGCGTGGGTAGCTGA 60.135 52.381 0.00 0.00 35.28 4.26
8887 11858 4.743644 AGACGCACACTTTGTAGAAGTAAC 59.256 41.667 0.00 0.00 0.00 2.50
8888 11859 4.690122 ACGCACACTTTGTAGAAGTAACT 58.310 39.130 0.00 0.00 0.00 2.24
8889 11860 5.835257 ACGCACACTTTGTAGAAGTAACTA 58.165 37.500 0.00 0.00 0.00 2.24
8890 11861 6.453092 ACGCACACTTTGTAGAAGTAACTAT 58.547 36.000 0.00 0.00 0.00 2.12
8891 11862 6.365247 ACGCACACTTTGTAGAAGTAACTATG 59.635 38.462 0.00 0.00 0.00 2.23
8892 11863 6.365247 CGCACACTTTGTAGAAGTAACTATGT 59.635 38.462 0.00 0.00 0.00 2.29
8893 11864 7.539710 CGCACACTTTGTAGAAGTAACTATGTA 59.460 37.037 0.00 0.00 0.00 2.29
8894 11865 9.367444 GCACACTTTGTAGAAGTAACTATGTAT 57.633 33.333 0.00 0.00 0.00 2.29
8904 11875 8.894768 AGAAGTAACTATGTATCATCAAAGCC 57.105 34.615 0.00 0.00 0.00 4.35
8905 11876 8.486210 AGAAGTAACTATGTATCATCAAAGCCA 58.514 33.333 0.00 0.00 0.00 4.75
8906 11877 9.109393 GAAGTAACTATGTATCATCAAAGCCAA 57.891 33.333 0.00 0.00 0.00 4.52
8907 11878 9.632638 AAGTAACTATGTATCATCAAAGCCAAT 57.367 29.630 0.00 0.00 0.00 3.16
8908 11879 9.277783 AGTAACTATGTATCATCAAAGCCAATC 57.722 33.333 0.00 0.00 0.00 2.67
8909 11880 9.277783 GTAACTATGTATCATCAAAGCCAATCT 57.722 33.333 0.00 0.00 0.00 2.40
8910 11881 7.741027 ACTATGTATCATCAAAGCCAATCTG 57.259 36.000 0.00 0.00 0.00 2.90
8911 11882 7.285566 ACTATGTATCATCAAAGCCAATCTGT 58.714 34.615 0.00 0.00 0.00 3.41
8912 11883 5.823209 TGTATCATCAAAGCCAATCTGTG 57.177 39.130 0.00 0.00 0.00 3.66
8913 11884 3.795623 ATCATCAAAGCCAATCTGTGC 57.204 42.857 0.00 0.00 29.78 4.57
8914 11885 2.799017 TCATCAAAGCCAATCTGTGCT 58.201 42.857 0.00 0.00 40.17 4.40
8915 11886 2.751259 TCATCAAAGCCAATCTGTGCTC 59.249 45.455 0.00 0.00 36.66 4.26
8916 11887 1.538047 TCAAAGCCAATCTGTGCTCC 58.462 50.000 0.00 0.00 36.66 4.70
8917 11888 0.169672 CAAAGCCAATCTGTGCTCCG 59.830 55.000 0.00 0.00 36.66 4.63
8918 11889 0.036732 AAAGCCAATCTGTGCTCCGA 59.963 50.000 0.00 0.00 36.66 4.55
8919 11890 0.036732 AAGCCAATCTGTGCTCCGAA 59.963 50.000 0.00 0.00 36.66 4.30
8920 11891 0.036732 AGCCAATCTGTGCTCCGAAA 59.963 50.000 0.00 0.00 30.33 3.46
8921 11892 0.169009 GCCAATCTGTGCTCCGAAAC 59.831 55.000 0.00 0.00 0.00 2.78
8922 11893 0.443869 CCAATCTGTGCTCCGAAACG 59.556 55.000 0.00 0.00 0.00 3.60
8923 11894 1.428448 CAATCTGTGCTCCGAAACGA 58.572 50.000 0.00 0.00 0.00 3.85
8924 11895 2.002586 CAATCTGTGCTCCGAAACGAT 58.997 47.619 0.00 0.00 0.00 3.73
8925 11896 1.645034 ATCTGTGCTCCGAAACGATG 58.355 50.000 0.00 0.00 0.00 3.84
8926 11897 0.389817 TCTGTGCTCCGAAACGATGG 60.390 55.000 0.00 0.00 0.00 3.51
8927 11898 0.389817 CTGTGCTCCGAAACGATGGA 60.390 55.000 0.00 0.00 0.00 3.41
8928 11899 0.669318 TGTGCTCCGAAACGATGGAC 60.669 55.000 0.00 0.00 0.00 4.02
8929 11900 0.669318 GTGCTCCGAAACGATGGACA 60.669 55.000 0.00 0.00 0.00 4.02
8930 11901 0.034198 TGCTCCGAAACGATGGACAA 59.966 50.000 0.00 0.00 0.00 3.18
8931 11902 0.721718 GCTCCGAAACGATGGACAAG 59.278 55.000 0.00 0.00 0.00 3.16
8932 11903 1.671850 GCTCCGAAACGATGGACAAGA 60.672 52.381 0.00 0.00 0.00 3.02
8933 11904 1.993370 CTCCGAAACGATGGACAAGAC 59.007 52.381 0.00 0.00 0.00 3.01
8934 11905 0.713883 CCGAAACGATGGACAAGACG 59.286 55.000 0.00 0.00 0.00 4.18
8935 11906 0.093026 CGAAACGATGGACAAGACGC 59.907 55.000 0.00 0.00 0.00 5.19
8936 11907 1.144969 GAAACGATGGACAAGACGCA 58.855 50.000 0.00 0.00 0.00 5.24
8937 11908 0.865769 AAACGATGGACAAGACGCAC 59.134 50.000 0.00 0.00 0.00 5.34
8938 11909 0.249699 AACGATGGACAAGACGCACA 60.250 50.000 0.00 0.00 0.00 4.57
8939 11910 0.944311 ACGATGGACAAGACGCACAC 60.944 55.000 0.00 0.00 0.00 3.82
8940 11911 0.667487 CGATGGACAAGACGCACACT 60.667 55.000 0.00 0.00 0.00 3.55
8941 11912 1.512926 GATGGACAAGACGCACACTT 58.487 50.000 0.00 0.00 0.00 3.16
8942 11913 1.873591 GATGGACAAGACGCACACTTT 59.126 47.619 0.00 0.00 0.00 2.66
8943 11914 1.013596 TGGACAAGACGCACACTTTG 58.986 50.000 0.00 0.00 0.00 2.77
8944 11915 1.014352 GGACAAGACGCACACTTTGT 58.986 50.000 0.00 0.00 0.00 2.83
8945 11916 2.206750 GGACAAGACGCACACTTTGTA 58.793 47.619 0.00 0.00 0.00 2.41
8946 11917 2.221055 GGACAAGACGCACACTTTGTAG 59.779 50.000 0.00 0.00 0.00 2.74
8947 11918 3.120792 GACAAGACGCACACTTTGTAGA 58.879 45.455 0.00 0.00 0.00 2.59
8948 11919 3.527533 ACAAGACGCACACTTTGTAGAA 58.472 40.909 0.00 0.00 0.00 2.10
8949 11920 3.555956 ACAAGACGCACACTTTGTAGAAG 59.444 43.478 0.00 0.00 0.00 2.85
8950 11921 3.454371 AGACGCACACTTTGTAGAAGT 57.546 42.857 0.00 0.00 0.00 3.01
8951 11922 4.579454 AGACGCACACTTTGTAGAAGTA 57.421 40.909 0.00 0.00 0.00 2.24
8952 11923 4.940463 AGACGCACACTTTGTAGAAGTAA 58.060 39.130 0.00 0.00 0.00 2.24
9006 11982 4.088496 CGATTTCCGCTTTCATTGTTGTTC 59.912 41.667 0.00 0.00 0.00 3.18
9009 11985 2.955660 TCCGCTTTCATTGTTGTTCCTT 59.044 40.909 0.00 0.00 0.00 3.36
9046 12022 7.011189 GCTCATGCACAACATTTCAATTTAAC 58.989 34.615 0.00 0.00 36.64 2.01
9153 12136 4.823989 CCCCTCTTATTGATGCTTAACTGG 59.176 45.833 0.00 0.00 0.00 4.00
9162 12145 5.835113 TGATGCTTAACTGGAATTTAGCC 57.165 39.130 0.00 0.00 0.00 3.93
9169 12152 4.563140 AACTGGAATTTAGCCGAGGTTA 57.437 40.909 0.00 0.00 0.00 2.85
9290 12277 9.914131 AATAAGTTTCAAAGTCTAAAATGAGGC 57.086 29.630 0.00 0.00 0.00 4.70
9331 12318 7.603963 AAAACTCAAACCACAATTTTACCAC 57.396 32.000 0.00 0.00 0.00 4.16
9349 12336 4.335416 ACCACAGTGAAACCCATATGAAG 58.665 43.478 3.65 0.00 37.80 3.02
9392 12379 7.639113 ATCCTGAAACTTAGTGAAACACAAA 57.361 32.000 4.75 0.00 41.43 2.83
9404 12391 6.099341 AGTGAAACACAAATTGAAACTCCAC 58.901 36.000 0.00 1.15 41.43 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 16 4.126441 CCGGGATCCGTCCATCTCTTTT 62.126 54.545 5.45 0.00 46.80 2.27
15 18 1.115930 CCGGGATCCGTCCATCTCTT 61.116 60.000 5.45 0.00 46.80 2.85
44 47 2.367107 GTCCCCCTCCTCTTCCCC 60.367 72.222 0.00 0.00 0.00 4.81
75 78 2.240162 CTAGGGGTCGCCACAGGTTC 62.240 65.000 8.89 0.00 0.00 3.62
78 81 3.470888 CCTAGGGGTCGCCACAGG 61.471 72.222 8.89 10.09 0.00 4.00
253 370 3.881688 ACGGAATAGCGAGTACAGTACAT 59.118 43.478 13.37 0.00 0.00 2.29
254 371 3.273434 ACGGAATAGCGAGTACAGTACA 58.727 45.455 13.37 0.00 0.00 2.90
255 372 3.959573 ACGGAATAGCGAGTACAGTAC 57.040 47.619 2.05 2.05 0.00 2.73
256 373 4.194640 AGAACGGAATAGCGAGTACAGTA 58.805 43.478 0.00 0.00 0.00 2.74
257 374 3.015327 AGAACGGAATAGCGAGTACAGT 58.985 45.455 0.00 0.00 0.00 3.55
260 377 4.290104 AGAAGAACGGAATAGCGAGTAC 57.710 45.455 0.00 0.00 0.00 2.73
263 380 7.808381 TCATTTATAGAAGAACGGAATAGCGAG 59.192 37.037 0.00 0.00 0.00 5.03
269 386 9.853177 ATCCTTTCATTTATAGAAGAACGGAAT 57.147 29.630 9.53 0.00 40.38 3.01
272 389 8.700644 CGTATCCTTTCATTTATAGAAGAACGG 58.299 37.037 0.00 0.00 32.48 4.44
275 392 9.607988 TTGCGTATCCTTTCATTTATAGAAGAA 57.392 29.630 0.00 0.00 0.00 2.52
277 394 9.651718 GTTTGCGTATCCTTTCATTTATAGAAG 57.348 33.333 0.00 0.00 0.00 2.85
292 2686 9.646336 CTATAAATACACAAAGTTTGCGTATCC 57.354 33.333 22.97 0.00 37.78 2.59
325 2719 6.858792 AGGCTCCCTCCCTTTTAAAATATA 57.141 37.500 0.09 0.00 0.00 0.86
337 2731 2.009681 TTTCAAAAAGGCTCCCTCCC 57.990 50.000 0.00 0.00 30.89 4.30
347 2741 6.311200 CACTCCACTTGTCCTTTTTCAAAAAG 59.689 38.462 14.77 14.77 0.00 2.27
354 2748 3.694566 GTGTCACTCCACTTGTCCTTTTT 59.305 43.478 0.00 0.00 32.50 1.94
365 2759 1.827969 AGCCTATCTGTGTCACTCCAC 59.172 52.381 4.27 0.00 35.86 4.02
461 2855 2.664436 CCGTTCGTTCGTTGGCCTC 61.664 63.158 3.32 0.00 0.00 4.70
462 2856 2.663852 CCGTTCGTTCGTTGGCCT 60.664 61.111 3.32 0.00 0.00 5.19
463 2857 2.662527 TCCGTTCGTTCGTTGGCC 60.663 61.111 0.00 0.00 0.00 5.36
520 2929 2.203167 CGAGATCGGGTCCGGAGA 60.203 66.667 3.06 0.00 40.25 3.71
648 3058 0.451383 CAGAGAGTCGCTCACCTGAG 59.549 60.000 6.36 0.00 46.45 3.35
715 3125 0.179163 CCGAAATCCGCAAGAAAGCC 60.179 55.000 0.00 0.00 43.02 4.35
719 3129 0.675522 GGTCCCGAAATCCGCAAGAA 60.676 55.000 0.00 0.00 43.02 2.52
723 3133 3.383681 TCGGTCCCGAAATCCGCA 61.384 61.111 5.84 0.00 46.01 5.69
732 3142 3.131478 GGCCATGTTTCGGTCCCG 61.131 66.667 0.00 0.00 41.35 5.14
733 3143 2.754254 GGGCCATGTTTCGGTCCC 60.754 66.667 4.39 0.00 43.00 4.46
734 3144 2.886730 ATCGGGCCATGTTTCGGTCC 62.887 60.000 4.39 0.00 45.52 4.46
735 3145 1.029947 AATCGGGCCATGTTTCGGTC 61.030 55.000 4.39 0.00 0.00 4.79
736 3146 1.001393 AATCGGGCCATGTTTCGGT 60.001 52.632 4.39 0.00 0.00 4.69
737 3147 1.433064 CAATCGGGCCATGTTTCGG 59.567 57.895 4.39 0.00 0.00 4.30
738 3148 1.226660 GCAATCGGGCCATGTTTCG 60.227 57.895 4.39 0.00 0.00 3.46
739 3149 0.458370 GTGCAATCGGGCCATGTTTC 60.458 55.000 4.39 0.00 0.00 2.78
740 3150 1.591183 GTGCAATCGGGCCATGTTT 59.409 52.632 4.39 0.00 0.00 2.83
762 3172 0.247145 CGATCGGCGAAAAGAAACCG 60.247 55.000 15.93 3.96 46.97 4.44
831 3251 0.413037 AGCAATCCACCCAATCCCAA 59.587 50.000 0.00 0.00 0.00 4.12
933 3353 0.798776 CGCTGCAAAGAGGTAACAGG 59.201 55.000 0.00 0.00 41.41 4.00
939 3359 2.528797 CGTTACGCTGCAAAGAGGT 58.471 52.632 0.00 0.00 0.00 3.85
969 3389 1.927895 CCGAAGAACCCTCGAATCAG 58.072 55.000 0.00 0.00 0.00 2.90
1309 3804 2.166254 GGGGTATGACTTGTGGCAATTG 59.834 50.000 0.00 0.00 0.00 2.32
1405 3921 6.520272 ACATGATAGGTCTTCTAGTTCATGC 58.480 40.000 0.00 0.00 43.02 4.06
1629 4145 8.925161 TTTATCAGCATTTACTATTGTTTGCC 57.075 30.769 6.14 0.00 0.00 4.52
1899 4417 2.234661 TGCACCAACAATGTTCCAAACA 59.765 40.909 0.00 0.00 46.94 2.83
2014 4532 4.624882 TGCGATGCACCAAAATGATTAAAC 59.375 37.500 0.00 0.00 31.71 2.01
2102 4620 3.525537 CTGAACTCGAGCCATACACAAT 58.474 45.455 13.61 0.00 0.00 2.71
2107 4625 1.846541 GAGCTGAACTCGAGCCATAC 58.153 55.000 13.61 6.43 37.12 2.39
2118 4636 6.442513 AAGCAATAACATAAGGAGCTGAAC 57.557 37.500 0.00 0.00 0.00 3.18
2138 4656 1.132453 GGATCTTTTGGTGCCGTAAGC 59.868 52.381 0.00 0.00 44.14 3.09
2139 4657 1.743394 GGGATCTTTTGGTGCCGTAAG 59.257 52.381 0.00 0.00 0.00 2.34
2140 4658 1.828979 GGGATCTTTTGGTGCCGTAA 58.171 50.000 0.00 0.00 0.00 3.18
2141 4659 0.391927 CGGGATCTTTTGGTGCCGTA 60.392 55.000 1.12 0.00 43.26 4.02
2142 4660 1.674322 CGGGATCTTTTGGTGCCGT 60.674 57.895 1.12 0.00 43.26 5.68
2143 4661 3.187058 CGGGATCTTTTGGTGCCG 58.813 61.111 0.00 0.00 42.73 5.69
2144 4662 2.710902 GGCGGGATCTTTTGGTGCC 61.711 63.158 0.00 0.00 0.00 5.01
2145 4663 2.710902 GGGCGGGATCTTTTGGTGC 61.711 63.158 0.00 0.00 0.00 5.01
2146 4664 1.000896 AGGGCGGGATCTTTTGGTG 60.001 57.895 0.00 0.00 0.00 4.17
2147 4665 1.303282 GAGGGCGGGATCTTTTGGT 59.697 57.895 0.00 0.00 0.00 3.67
2148 4666 0.106519 ATGAGGGCGGGATCTTTTGG 60.107 55.000 0.00 0.00 0.00 3.28
2149 4667 1.027357 CATGAGGGCGGGATCTTTTG 58.973 55.000 0.00 0.00 0.00 2.44
2150 4668 0.625849 ACATGAGGGCGGGATCTTTT 59.374 50.000 0.00 0.00 0.00 2.27
2151 4669 0.625849 AACATGAGGGCGGGATCTTT 59.374 50.000 0.00 0.00 0.00 2.52
2152 4670 0.181350 GAACATGAGGGCGGGATCTT 59.819 55.000 0.00 0.00 0.00 2.40
2153 4671 0.692419 AGAACATGAGGGCGGGATCT 60.692 55.000 0.00 0.00 0.00 2.75
2154 4672 0.181350 AAGAACATGAGGGCGGGATC 59.819 55.000 0.00 0.00 0.00 3.36
2155 4673 0.625849 AAAGAACATGAGGGCGGGAT 59.374 50.000 0.00 0.00 0.00 3.85
2156 4674 0.404040 AAAAGAACATGAGGGCGGGA 59.596 50.000 0.00 0.00 0.00 5.14
2157 4675 0.527565 CAAAAGAACATGAGGGCGGG 59.472 55.000 0.00 0.00 0.00 6.13
2158 4676 1.200020 GACAAAAGAACATGAGGGCGG 59.800 52.381 0.00 0.00 0.00 6.13
2159 4677 2.154462 AGACAAAAGAACATGAGGGCG 58.846 47.619 0.00 0.00 0.00 6.13
2160 4678 2.489722 GGAGACAAAAGAACATGAGGGC 59.510 50.000 0.00 0.00 0.00 5.19
2161 4679 3.084786 GGGAGACAAAAGAACATGAGGG 58.915 50.000 0.00 0.00 0.00 4.30
2162 4680 4.026356 AGGGAGACAAAAGAACATGAGG 57.974 45.455 0.00 0.00 0.00 3.86
2163 4681 5.551233 TGTAGGGAGACAAAAGAACATGAG 58.449 41.667 0.00 0.00 0.00 2.90
2633 5206 7.147312 CCAGCACAATCAAGAAATGAACTAAA 58.853 34.615 0.00 0.00 42.54 1.85
3178 5754 7.931407 TGAGAAGTCACAAAAATAGCTACTCAA 59.069 33.333 0.00 0.00 0.00 3.02
3481 6068 1.344065 ACAACCGGGTCACTGTCATA 58.656 50.000 6.32 0.00 0.00 2.15
3593 6188 8.206867 AGCTAGCAAGTGAGAACATTCATATTA 58.793 33.333 18.83 0.00 0.00 0.98
3784 6386 5.382664 TCTCCAAGGTGGTACTTTTTCTT 57.617 39.130 0.00 0.00 39.03 2.52
4434 7195 1.534163 GGGTGAGCACGAAAGGTAAAC 59.466 52.381 0.00 0.00 0.00 2.01
4444 7205 0.817634 TTTGTTGGAGGGTGAGCACG 60.818 55.000 0.00 0.00 0.00 5.34
4488 7249 5.937975 AACATGGACCAAGATAAAATGGG 57.062 39.130 3.17 0.00 41.17 4.00
4708 7469 3.142951 TCGACTTGGTTTTGTGTATGGG 58.857 45.455 0.00 0.00 0.00 4.00
4778 7539 7.377766 TGGCTAACAAATTCAGAACAGATAC 57.622 36.000 0.00 0.00 0.00 2.24
4957 7719 1.814394 CTAGCCAGTGAAATTGCTGCA 59.186 47.619 0.00 0.00 35.34 4.41
4958 7720 1.468736 GCTAGCCAGTGAAATTGCTGC 60.469 52.381 2.29 0.00 35.34 5.25
5310 8077 1.541233 CCTTGAATCCGGAATAGCGCT 60.541 52.381 17.26 17.26 0.00 5.92
5483 8254 5.470098 ACACACTGTTTCCATCATGTAGAAC 59.530 40.000 0.00 0.00 0.00 3.01
5633 8404 6.183360 GCTCAGATACTGAATTTGCAACTGAT 60.183 38.462 0.00 0.00 40.18 2.90
5764 8561 5.599999 ATGAGTAGACGCCATTTACTCTT 57.400 39.130 12.11 5.78 42.28 2.85
5988 8791 6.037610 GGCAGATCTGACTGTATAACCAAAAG 59.962 42.308 27.04 0.00 39.73 2.27
6168 8971 5.446143 CTCCACTGAGTAGGACATCATAC 57.554 47.826 0.55 0.00 33.70 2.39
6223 9029 2.735126 GCAATATTGTTGGCACCGGAAG 60.735 50.000 9.46 0.15 0.00 3.46
6372 9183 9.853555 CAGATCATCCTGAGTAAAGTGATATAC 57.146 37.037 0.00 0.00 36.29 1.47
7114 9925 1.742831 TCAGCACCAATATCCGCAAAC 59.257 47.619 0.00 0.00 0.00 2.93
7119 9930 2.352651 CACACTTCAGCACCAATATCCG 59.647 50.000 0.00 0.00 0.00 4.18
7440 10328 9.158233 CCAGTTCGTACTCCTTATTTCAAAATA 57.842 33.333 0.00 0.00 30.26 1.40
7441 10329 7.120726 CCCAGTTCGTACTCCTTATTTCAAAAT 59.879 37.037 0.00 0.00 30.26 1.82
7442 10330 6.428771 CCCAGTTCGTACTCCTTATTTCAAAA 59.571 38.462 0.00 0.00 30.26 2.44
7473 10366 4.645588 ACAGCTATTCCACTACAGGACTAC 59.354 45.833 0.00 0.00 37.42 2.73
7560 10453 7.620880 TGTAGTTGAAAGATATTAGTGCCACT 58.379 34.615 1.54 1.54 0.00 4.00
7641 10535 2.373169 AGAGATGTTTTGCAGAGGGTCA 59.627 45.455 0.00 0.00 0.00 4.02
8030 10924 5.525378 GGAGATATGTAAGGCAACAGAAGTG 59.475 44.000 0.00 0.00 41.41 3.16
8262 11156 0.625316 TAGCAGTACACGAGGGGGTA 59.375 55.000 0.00 0.00 0.00 3.69
8315 11212 2.586900 GCCGTCGATAAGTAGATCTGC 58.413 52.381 5.18 3.54 0.00 4.26
8474 11371 2.301577 ACAATTGACTCGAGCTAGGC 57.698 50.000 13.61 0.00 0.00 3.93
8665 11565 4.278419 GCTACAACTCATTTTCAACCCTGT 59.722 41.667 0.00 0.00 0.00 4.00
8668 11568 3.826729 AGGCTACAACTCATTTTCAACCC 59.173 43.478 0.00 0.00 0.00 4.11
8670 11570 4.278419 ACCAGGCTACAACTCATTTTCAAC 59.722 41.667 0.00 0.00 0.00 3.18
8674 11574 2.558359 GCACCAGGCTACAACTCATTTT 59.442 45.455 0.00 0.00 40.25 1.82
8722 11652 2.811317 GGCGACTGAGCAGGTTCG 60.811 66.667 2.20 4.52 39.27 3.95
8771 11703 1.933853 GTCAGCTACCCACGCAATAAG 59.066 52.381 0.00 0.00 0.00 1.73
8887 11858 7.582352 CACAGATTGGCTTTGATGATACATAG 58.418 38.462 0.00 0.00 0.00 2.23
8888 11859 6.016860 GCACAGATTGGCTTTGATGATACATA 60.017 38.462 0.00 0.00 0.00 2.29
8889 11860 5.221185 GCACAGATTGGCTTTGATGATACAT 60.221 40.000 0.00 0.00 0.00 2.29
8890 11861 4.096833 GCACAGATTGGCTTTGATGATACA 59.903 41.667 0.00 0.00 0.00 2.29
8891 11862 4.337555 AGCACAGATTGGCTTTGATGATAC 59.662 41.667 0.00 0.00 36.92 2.24
8892 11863 4.529897 AGCACAGATTGGCTTTGATGATA 58.470 39.130 0.00 0.00 36.92 2.15
8893 11864 3.362706 AGCACAGATTGGCTTTGATGAT 58.637 40.909 0.00 0.00 36.92 2.45
8894 11865 2.751259 GAGCACAGATTGGCTTTGATGA 59.249 45.455 0.00 0.00 41.22 2.92
8895 11866 2.159282 GGAGCACAGATTGGCTTTGATG 60.159 50.000 0.00 0.00 41.22 3.07
8896 11867 2.097825 GGAGCACAGATTGGCTTTGAT 58.902 47.619 0.00 0.00 41.22 2.57
8897 11868 1.538047 GGAGCACAGATTGGCTTTGA 58.462 50.000 0.00 0.00 41.22 2.69
8898 11869 0.169672 CGGAGCACAGATTGGCTTTG 59.830 55.000 0.00 0.00 41.22 2.77
8899 11870 0.036732 TCGGAGCACAGATTGGCTTT 59.963 50.000 0.00 0.00 41.22 3.51
8900 11871 0.036732 TTCGGAGCACAGATTGGCTT 59.963 50.000 0.00 0.00 41.22 4.35
8901 11872 0.036732 TTTCGGAGCACAGATTGGCT 59.963 50.000 0.00 0.00 44.48 4.75
8902 11873 0.169009 GTTTCGGAGCACAGATTGGC 59.831 55.000 0.00 0.00 0.00 4.52
8903 11874 0.443869 CGTTTCGGAGCACAGATTGG 59.556 55.000 0.00 0.00 0.00 3.16
8904 11875 1.428448 TCGTTTCGGAGCACAGATTG 58.572 50.000 0.00 0.00 0.00 2.67
8905 11876 2.002586 CATCGTTTCGGAGCACAGATT 58.997 47.619 0.00 0.00 0.00 2.40
8906 11877 1.645034 CATCGTTTCGGAGCACAGAT 58.355 50.000 0.00 0.00 0.00 2.90
8907 11878 0.389817 CCATCGTTTCGGAGCACAGA 60.390 55.000 0.00 0.00 0.00 3.41
8908 11879 0.389817 TCCATCGTTTCGGAGCACAG 60.390 55.000 0.00 0.00 0.00 3.66
8909 11880 0.669318 GTCCATCGTTTCGGAGCACA 60.669 55.000 0.00 0.00 29.98 4.57
8910 11881 0.669318 TGTCCATCGTTTCGGAGCAC 60.669 55.000 0.00 0.00 29.98 4.40
8911 11882 0.034198 TTGTCCATCGTTTCGGAGCA 59.966 50.000 0.00 0.00 29.98 4.26
8912 11883 0.721718 CTTGTCCATCGTTTCGGAGC 59.278 55.000 0.00 0.00 29.98 4.70
8913 11884 1.993370 GTCTTGTCCATCGTTTCGGAG 59.007 52.381 0.00 0.00 29.98 4.63
8914 11885 1.667756 CGTCTTGTCCATCGTTTCGGA 60.668 52.381 0.00 0.00 0.00 4.55
8915 11886 0.713883 CGTCTTGTCCATCGTTTCGG 59.286 55.000 0.00 0.00 0.00 4.30
8916 11887 0.093026 GCGTCTTGTCCATCGTTTCG 59.907 55.000 0.00 0.00 0.00 3.46
8917 11888 1.136336 GTGCGTCTTGTCCATCGTTTC 60.136 52.381 0.00 0.00 0.00 2.78
8918 11889 0.865769 GTGCGTCTTGTCCATCGTTT 59.134 50.000 0.00 0.00 0.00 3.60
8919 11890 0.249699 TGTGCGTCTTGTCCATCGTT 60.250 50.000 0.00 0.00 0.00 3.85
8920 11891 0.944311 GTGTGCGTCTTGTCCATCGT 60.944 55.000 0.00 0.00 0.00 3.73
8921 11892 0.667487 AGTGTGCGTCTTGTCCATCG 60.667 55.000 0.00 0.00 0.00 3.84
8922 11893 1.512926 AAGTGTGCGTCTTGTCCATC 58.487 50.000 0.00 0.00 0.00 3.51
8923 11894 1.603802 CAAAGTGTGCGTCTTGTCCAT 59.396 47.619 0.00 0.00 0.00 3.41
8924 11895 1.013596 CAAAGTGTGCGTCTTGTCCA 58.986 50.000 0.00 0.00 0.00 4.02
8925 11896 1.014352 ACAAAGTGTGCGTCTTGTCC 58.986 50.000 0.00 0.00 0.00 4.02
8926 11897 3.120792 TCTACAAAGTGTGCGTCTTGTC 58.879 45.455 0.00 0.00 0.00 3.18
8927 11898 3.173668 TCTACAAAGTGTGCGTCTTGT 57.826 42.857 0.00 0.00 0.00 3.16
8928 11899 3.555956 ACTTCTACAAAGTGTGCGTCTTG 59.444 43.478 0.00 0.00 0.00 3.02
8929 11900 3.793559 ACTTCTACAAAGTGTGCGTCTT 58.206 40.909 0.00 0.00 0.00 3.01
8930 11901 3.454371 ACTTCTACAAAGTGTGCGTCT 57.546 42.857 0.00 0.00 0.00 4.18
8931 11902 4.743644 AGTTACTTCTACAAAGTGTGCGTC 59.256 41.667 0.81 0.00 0.00 5.19
8932 11903 4.690122 AGTTACTTCTACAAAGTGTGCGT 58.310 39.130 0.81 0.00 0.00 5.24
8933 11904 6.365247 ACATAGTTACTTCTACAAAGTGTGCG 59.635 38.462 0.00 0.00 0.00 5.34
8934 11905 7.653767 ACATAGTTACTTCTACAAAGTGTGC 57.346 36.000 0.00 0.00 0.00 4.57
8945 11916 9.331282 GGCTTTGATGAATACATAGTTACTTCT 57.669 33.333 0.00 0.00 36.82 2.85
8946 11917 9.109393 TGGCTTTGATGAATACATAGTTACTTC 57.891 33.333 0.00 0.00 36.82 3.01
8947 11918 9.461312 TTGGCTTTGATGAATACATAGTTACTT 57.539 29.630 0.00 0.00 36.82 2.24
8948 11919 9.632638 ATTGGCTTTGATGAATACATAGTTACT 57.367 29.630 0.00 0.00 36.82 2.24
8949 11920 9.884465 GATTGGCTTTGATGAATACATAGTTAC 57.116 33.333 0.00 0.00 36.82 2.50
8950 11921 9.851686 AGATTGGCTTTGATGAATACATAGTTA 57.148 29.630 0.00 0.00 36.82 2.24
8951 11922 8.627403 CAGATTGGCTTTGATGAATACATAGTT 58.373 33.333 0.00 0.00 36.82 2.24
8952 11923 7.776969 ACAGATTGGCTTTGATGAATACATAGT 59.223 33.333 0.00 0.00 36.82 2.12
9006 11982 3.492011 GCATGAGCAACTTGAAACAAAGG 59.508 43.478 0.00 0.00 41.58 3.11
9091 12071 8.494016 AACCGAATCCTAAATTAAGACTCAAG 57.506 34.615 0.00 0.00 0.00 3.02
9185 12169 5.504665 GCACAATGAATAGTTGAATCCCTCG 60.505 44.000 0.00 0.00 0.00 4.63
9191 12175 7.395489 AGGAGAAAGCACAATGAATAGTTGAAT 59.605 33.333 0.00 0.00 0.00 2.57
9283 12270 3.070018 CGAGTTTCTGTCAAGCCTCATT 58.930 45.455 0.00 0.00 0.00 2.57
9290 12277 5.522460 TGAGTTTTACCGAGTTTCTGTCAAG 59.478 40.000 0.00 0.00 0.00 3.02
9331 12318 2.355756 CGGCTTCATATGGGTTTCACTG 59.644 50.000 2.13 0.00 0.00 3.66
9349 12336 3.549625 GGATTGCTTGATGATTTCTCGGC 60.550 47.826 0.00 0.00 0.00 5.54
9392 12379 5.299279 ACACATTTCTTCGTGGAGTTTCAAT 59.701 36.000 0.00 0.00 37.45 2.57
9404 12391 7.979115 TTTTCTAAAACCACACATTTCTTCG 57.021 32.000 0.00 0.00 0.00 3.79


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

AutoCloner maintained by Alex Coulton.