Multiple sequence alignment - TraesCS2B01G524700

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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 TraesCS2B01G524700 chr2B 100.000 3335 0 0 1 3335 719167128 719170462 0.000000e+00 6159.0
1 TraesCS2B01G524700 chr2B 84.339 1475 160 26 1015 2476 719200464 719199048 0.000000e+00 1378.0
2 TraesCS2B01G524700 chr2B 86.916 428 30 11 1 405 306927874 306928298 1.090000e-124 457.0
3 TraesCS2B01G524700 chr2B 100.000 28 0 0 1239 1266 719200343 719200316 6.000000e-03 52.8
4 TraesCS2B01G524700 chr2D 89.982 2266 165 27 872 3120 593137329 593139549 0.000000e+00 2870.0
5 TraesCS2B01G524700 chr2D 86.133 1024 113 12 1006 2016 593165308 593164301 0.000000e+00 1077.0
6 TraesCS2B01G524700 chr2D 96.774 93 1 2 753 844 593137250 593137341 1.600000e-33 154.0
7 TraesCS2B01G524700 chr2A 84.488 1444 166 22 1006 2431 727687826 727686423 0.000000e+00 1373.0
8 TraesCS2B01G524700 chr2A 78.309 627 81 27 2503 3119 727665238 727664657 1.470000e-93 353.0
9 TraesCS2B01G524700 chr7A 93.035 761 40 6 1 760 4200341 4201089 0.000000e+00 1099.0
10 TraesCS2B01G524700 chr1A 89.730 779 57 11 1 758 96552222 96552998 0.000000e+00 974.0
11 TraesCS2B01G524700 chr5A 84.825 771 64 26 1 764 505497937 505497213 0.000000e+00 726.0
12 TraesCS2B01G524700 chr1B 84.766 768 62 29 1 758 377092168 377092890 0.000000e+00 719.0
13 TraesCS2B01G524700 chr1B 93.939 330 18 2 1 328 9727290 9727619 6.430000e-137 497.0
14 TraesCS2B01G524700 chr1B 93.134 335 22 1 1 334 192696159 192695825 1.080000e-134 490.0
15 TraesCS2B01G524700 chr1B 85.841 339 34 11 429 758 192695775 192695442 6.850000e-92 348.0
16 TraesCS2B01G524700 chr1B 88.803 259 22 5 500 758 9727878 9728129 8.980000e-81 311.0
17 TraesCS2B01G524700 chr4B 94.860 428 20 2 1 427 651970727 651971153 0.000000e+00 667.0
18 TraesCS2B01G524700 chr4B 94.225 329 18 1 1 328 82864028 82864356 4.970000e-138 501.0
19 TraesCS2B01G524700 chr4B 89.015 264 24 3 500 760 82864539 82864800 4.150000e-84 322.0
20 TraesCS2B01G524700 chr4A 91.387 476 30 4 1 466 457304730 457305204 2.810000e-180 641.0
21 TraesCS2B01G524700 chr4A 90.262 267 26 0 495 761 457305422 457305688 1.900000e-92 350.0
22 TraesCS2B01G524700 chr4D 92.000 350 21 4 2 347 277920391 277920045 5.000000e-133 484.0
23 TraesCS2B01G524700 chr5B 90.698 215 15 3 547 758 601342260 601342048 7.040000e-72 281.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2B01G524700 chr2B 719167128 719170462 3334 False 6159.0 6159 100.0000 1 3335 1 chr2B.!!$F2 3334
1 TraesCS2B01G524700 chr2B 719199048 719200464 1416 True 715.4 1378 92.1695 1015 2476 2 chr2B.!!$R1 1461
2 TraesCS2B01G524700 chr2D 593137250 593139549 2299 False 1512.0 2870 93.3780 753 3120 2 chr2D.!!$F1 2367
3 TraesCS2B01G524700 chr2D 593164301 593165308 1007 True 1077.0 1077 86.1330 1006 2016 1 chr2D.!!$R1 1010
4 TraesCS2B01G524700 chr2A 727686423 727687826 1403 True 1373.0 1373 84.4880 1006 2431 1 chr2A.!!$R2 1425
5 TraesCS2B01G524700 chr2A 727664657 727665238 581 True 353.0 353 78.3090 2503 3119 1 chr2A.!!$R1 616
6 TraesCS2B01G524700 chr7A 4200341 4201089 748 False 1099.0 1099 93.0350 1 760 1 chr7A.!!$F1 759
7 TraesCS2B01G524700 chr1A 96552222 96552998 776 False 974.0 974 89.7300 1 758 1 chr1A.!!$F1 757
8 TraesCS2B01G524700 chr5A 505497213 505497937 724 True 726.0 726 84.8250 1 764 1 chr5A.!!$R1 763
9 TraesCS2B01G524700 chr1B 377092168 377092890 722 False 719.0 719 84.7660 1 758 1 chr1B.!!$F1 757
10 TraesCS2B01G524700 chr1B 192695442 192696159 717 True 419.0 490 89.4875 1 758 2 chr1B.!!$R1 757
11 TraesCS2B01G524700 chr1B 9727290 9728129 839 False 404.0 497 91.3710 1 758 2 chr1B.!!$F2 757
12 TraesCS2B01G524700 chr4B 82864028 82864800 772 False 411.5 501 91.6200 1 760 2 chr4B.!!$F2 759
13 TraesCS2B01G524700 chr4A 457304730 457305688 958 False 495.5 641 90.8245 1 761 2 chr4A.!!$F1 760

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
906 1233 0.104197 AGAGGATCCTTCCCATCCCC 60.104 60.0 17.42 0.00 43.76 4.81 F
1189 1516 0.241481 GAAGAGGCTCGTCGACAACT 59.759 55.0 17.16 7.17 0.00 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1884 2223 1.076332 GATCGGTGCTGGTGTACAAC 58.924 55.0 3.2 3.2 0.0 3.32 R
3000 3352 0.106167 CGACCCTGTATCCTCTCCCA 60.106 60.0 0.0 0.0 0.0 4.37 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
26 27 0.770557 GGGTGGGGGCATGGTATAGA 60.771 60.000 0.00 0.00 0.00 1.98
64 66 1.405526 GCATGGTAGTGTGATCGGTGT 60.406 52.381 0.00 0.00 0.00 4.16
86 88 8.875168 GGTGTTACTAGGGTAGAGACTATACTA 58.125 40.741 7.17 0.00 0.00 1.82
320 323 1.274825 CCCTAACCTCCCCCTAAACCT 60.275 57.143 0.00 0.00 0.00 3.50
360 393 4.838486 GGTGTCGAGCCGAGCGAG 62.838 72.222 0.00 0.00 38.59 5.03
416 450 4.715523 GCCCCGCTGCCTGTTGTA 62.716 66.667 0.00 0.00 0.00 2.41
423 457 1.507141 GCTGCCTGTTGTAACGCTGT 61.507 55.000 0.00 0.00 0.00 4.40
461 542 2.008723 CCCCCACTGTCCCCATGAT 61.009 63.158 0.00 0.00 0.00 2.45
498 795 2.427245 CGCCCGACAGGATTCCTCT 61.427 63.158 0.98 0.00 41.02 3.69
656 973 2.273179 CCAGTGCATGCCTTGTGCT 61.273 57.895 16.68 0.80 42.92 4.40
713 1039 3.259020 ACGTGCCGTGTTGTCGTG 61.259 61.111 0.00 0.00 39.18 4.35
714 1040 4.643385 CGTGCCGTGTTGTCGTGC 62.643 66.667 0.00 0.00 0.00 5.34
715 1041 3.269347 GTGCCGTGTTGTCGTGCT 61.269 61.111 0.00 0.00 0.00 4.40
716 1042 3.268603 TGCCGTGTTGTCGTGCTG 61.269 61.111 0.00 0.00 0.00 4.41
817 1144 1.608717 AACTGCACGGCCCAACAAAA 61.609 50.000 0.00 0.00 0.00 2.44
844 1171 2.665603 GCCCGAGAAACAGAGGCT 59.334 61.111 0.00 0.00 40.57 4.58
845 1172 1.003233 GCCCGAGAAACAGAGGCTT 60.003 57.895 0.00 0.00 40.57 4.35
846 1173 1.021920 GCCCGAGAAACAGAGGCTTC 61.022 60.000 0.00 0.00 40.57 3.86
848 1175 1.433534 CCGAGAAACAGAGGCTTCAC 58.566 55.000 0.00 0.00 0.00 3.18
849 1176 1.433534 CGAGAAACAGAGGCTTCACC 58.566 55.000 0.00 0.00 39.61 4.02
886 1213 4.926140 AAAAAGGAGAAACAGAGGCAAG 57.074 40.909 0.00 0.00 0.00 4.01
887 1214 3.864789 AAAGGAGAAACAGAGGCAAGA 57.135 42.857 0.00 0.00 0.00 3.02
888 1215 3.415457 AAGGAGAAACAGAGGCAAGAG 57.585 47.619 0.00 0.00 0.00 2.85
889 1216 2.614259 AGGAGAAACAGAGGCAAGAGA 58.386 47.619 0.00 0.00 0.00 3.10
890 1217 2.566724 AGGAGAAACAGAGGCAAGAGAG 59.433 50.000 0.00 0.00 0.00 3.20
906 1233 0.104197 AGAGGATCCTTCCCATCCCC 60.104 60.000 17.42 0.00 43.76 4.81
909 1236 0.933700 GGATCCTTCCCATCCCCAAA 59.066 55.000 3.84 0.00 35.84 3.28
923 1250 2.850568 TCCCCAAAGGAACCCTAATCTC 59.149 50.000 0.00 0.00 43.78 2.75
1105 1432 2.043752 TATCCCTCGCCGTCCACA 60.044 61.111 0.00 0.00 0.00 4.17
1175 1502 0.739112 GAGGCCGAGCAAGTGAAGAG 60.739 60.000 0.00 0.00 0.00 2.85
1189 1516 0.241481 GAAGAGGCTCGTCGACAACT 59.759 55.000 17.16 7.17 0.00 3.16
1198 1525 1.658673 GTCGACAACTCCGTCCAGT 59.341 57.895 11.55 0.00 31.91 4.00
1587 1926 2.309528 CGGATGGATTTCGTCTGGAA 57.690 50.000 0.00 0.00 34.81 3.53
1755 2094 0.819666 GCGAGGGGGTTTCCATCATC 60.820 60.000 0.00 0.00 46.06 2.92
1767 2106 5.826737 GGTTTCCATCATCTCTCATGTGAAT 59.173 40.000 0.00 0.00 0.00 2.57
1770 2109 4.411212 TCCATCATCTCTCATGTGAATGGT 59.589 41.667 18.80 10.76 0.00 3.55
1860 2199 2.688446 CACTGAGCGGGAGTTCTATGTA 59.312 50.000 0.00 0.00 41.05 2.29
1863 2202 2.891580 TGAGCGGGAGTTCTATGTATCC 59.108 50.000 0.00 0.00 41.05 2.59
1884 2223 3.265791 CTCCAAGTTCAAGGAGGAATCG 58.734 50.000 0.00 0.00 46.11 3.34
1891 2230 4.039973 AGTTCAAGGAGGAATCGTTGTACA 59.960 41.667 16.95 0.00 37.85 2.90
1897 2236 1.346395 AGGAATCGTTGTACACCAGCA 59.654 47.619 0.00 0.00 0.00 4.41
1949 2288 5.105023 TCCCTGTTGAGAATCTGATCAAGAG 60.105 44.000 8.77 8.77 43.07 2.85
1971 2310 6.782988 AGAGGCTTTACCAGATGTATAAGCTA 59.217 38.462 0.00 0.00 43.14 3.32
1990 2329 5.995446 AGCTAGAGGAACAAGATAAAAGGG 58.005 41.667 0.00 0.00 0.00 3.95
2234 2573 7.231317 TGAAGAATTTGAGGACACTTGCTATTT 59.769 33.333 0.00 0.00 0.00 1.40
2236 2575 5.551760 ATTTGAGGACACTTGCTATTTCG 57.448 39.130 0.00 0.00 0.00 3.46
2279 2618 1.978580 AGAACCTGAACCTGATTCGGT 59.021 47.619 0.00 0.00 41.55 4.69
2314 2654 1.211457 AGAGCTATGCCAAAGTGAGGG 59.789 52.381 0.00 0.00 0.00 4.30
2338 2678 3.445008 TGTGCAAGGAATCTCTAGAGGT 58.555 45.455 19.67 10.20 0.00 3.85
2402 2748 4.077822 CCCTCTGTCTTCATTTTTGCTCT 58.922 43.478 0.00 0.00 0.00 4.09
2408 2754 6.017605 TCTGTCTTCATTTTTGCTCTCTTGTC 60.018 38.462 0.00 0.00 0.00 3.18
2410 2756 5.050091 GTCTTCATTTTTGCTCTCTTGTCGA 60.050 40.000 0.00 0.00 0.00 4.20
2416 2762 3.510388 TTGCTCTCTTGTCGATAGGTG 57.490 47.619 0.00 0.00 0.00 4.00
2433 2779 7.921214 TCGATAGGTGATTTGTCTGAAGTTATC 59.079 37.037 0.00 0.00 0.00 1.75
2448 2794 9.958180 TCTGAAGTTATCTGGATTACAATGAAA 57.042 29.630 3.22 0.00 0.00 2.69
2461 2807 7.996644 GGATTACAATGAAATCCTGGTAACCTA 59.003 37.037 7.45 0.00 45.99 3.08
2476 2822 7.012421 CCTGGTAACCTAAAAATGCAGACTATC 59.988 40.741 0.00 0.00 0.00 2.08
2490 2836 3.686726 CAGACTATCAGCACTTGGTTTCC 59.313 47.826 0.00 0.00 0.00 3.13
2492 2838 4.042187 AGACTATCAGCACTTGGTTTCCTT 59.958 41.667 0.00 0.00 0.00 3.36
2493 2839 4.327680 ACTATCAGCACTTGGTTTCCTTC 58.672 43.478 0.00 0.00 0.00 3.46
2494 2840 3.515602 ATCAGCACTTGGTTTCCTTCT 57.484 42.857 0.00 0.00 0.00 2.85
2495 2841 2.575532 TCAGCACTTGGTTTCCTTCTG 58.424 47.619 0.00 0.00 0.00 3.02
2496 2842 2.092429 TCAGCACTTGGTTTCCTTCTGT 60.092 45.455 0.00 0.00 0.00 3.41
2497 2843 3.135712 TCAGCACTTGGTTTCCTTCTGTA 59.864 43.478 0.00 0.00 0.00 2.74
2499 2845 5.012664 TCAGCACTTGGTTTCCTTCTGTATA 59.987 40.000 0.00 0.00 0.00 1.47
2501 2847 7.047891 CAGCACTTGGTTTCCTTCTGTATATA 58.952 38.462 0.00 0.00 0.00 0.86
2532 2878 6.461509 CCTGCCTTGTTCTTCACAAACTAAAT 60.462 38.462 0.00 0.00 45.11 1.40
2566 2912 4.638304 TCATATGGTGATCTGCAGATGTG 58.362 43.478 33.33 17.24 34.37 3.21
2583 2929 6.176183 CAGATGTGGGATTCTGGATTATACC 58.824 44.000 0.00 0.00 36.53 2.73
2605 2951 7.839680 ACCAAAATCTTAGGTCTGAAATGTT 57.160 32.000 0.00 0.00 0.00 2.71
2607 2953 7.505585 ACCAAAATCTTAGGTCTGAAATGTTCA 59.494 33.333 0.00 0.00 38.17 3.18
2617 2969 6.772716 AGGTCTGAAATGTTCAAGTGTTGTAT 59.227 34.615 0.00 0.00 39.58 2.29
2662 3014 5.116180 TGGCTGTAACATGTGACTTATAGC 58.884 41.667 14.60 13.63 36.73 2.97
2663 3015 5.104941 TGGCTGTAACATGTGACTTATAGCT 60.105 40.000 18.21 0.00 37.30 3.32
2669 3021 7.759886 TGTAACATGTGACTTATAGCTTCACTC 59.240 37.037 14.60 0.00 40.34 3.51
2670 3022 5.665459 ACATGTGACTTATAGCTTCACTCC 58.335 41.667 14.78 0.00 40.34 3.85
2675 3027 8.079211 TGTGACTTATAGCTTCACTCCTTATT 57.921 34.615 14.78 0.00 40.34 1.40
2685 3037 6.950619 AGCTTCACTCCTTATTGGAAGAAAAT 59.049 34.615 0.00 0.00 45.63 1.82
2718 3070 6.997476 TCATGGCATCTGCAGTTACATTATTA 59.003 34.615 14.67 0.00 44.36 0.98
2745 3097 8.781067 TGAATTTTCTACTGTGAATTTCAACG 57.219 30.769 0.00 0.00 31.56 4.10
2748 3100 5.917541 TTCTACTGTGAATTTCAACGTCC 57.082 39.130 0.00 0.00 0.00 4.79
2752 3104 2.878406 CTGTGAATTTCAACGTCCAGGT 59.122 45.455 0.00 0.00 0.00 4.00
2768 3120 3.199946 TCCAGGTTTCACTATGTGATCCC 59.800 47.826 14.11 11.04 42.40 3.85
2774 3126 2.837498 TCACTATGTGATCCCATTGCG 58.163 47.619 0.00 0.00 37.67 4.85
2785 3137 1.959985 TCCCATTGCGTTTGATGTTGT 59.040 42.857 0.00 0.00 0.00 3.32
2797 3149 0.593128 GATGTTGTTTGCAGCGGTCT 59.407 50.000 0.00 0.00 0.00 3.85
2851 3203 3.010250 GGTAAGGGAACAGAGGAACCATT 59.990 47.826 0.00 0.00 0.00 3.16
2855 3207 1.272147 GGAACAGAGGAACCATTGCCT 60.272 52.381 0.00 0.00 37.18 4.75
2859 3211 2.768834 GAGGAACCATTGCCTCGTC 58.231 57.895 0.00 0.00 41.10 4.20
2941 3293 8.798153 GTTGTTGGATTTAATGCTTAATTCTCG 58.202 33.333 0.00 0.00 0.00 4.04
2944 3296 9.651718 GTTGGATTTAATGCTTAATTCTCGTAG 57.348 33.333 0.00 0.00 0.00 3.51
2973 3325 7.508296 GGATAACCTGTATCTAACTCCTAACCA 59.492 40.741 0.00 0.00 0.00 3.67
2985 3337 3.283020 CTAACCAAGGAAAGCCCCC 57.717 57.895 0.00 0.00 34.66 5.40
2987 3339 0.407918 TAACCAAGGAAAGCCCCCAG 59.592 55.000 0.00 0.00 34.66 4.45
2988 3340 2.037847 CCAAGGAAAGCCCCCAGG 59.962 66.667 0.00 0.00 34.66 4.45
2989 3341 2.547595 CCAAGGAAAGCCCCCAGGA 61.548 63.158 0.00 0.00 34.66 3.86
2990 3342 1.464722 CAAGGAAAGCCCCCAGGAA 59.535 57.895 0.00 0.00 34.66 3.36
2991 3343 0.178935 CAAGGAAAGCCCCCAGGAAA 60.179 55.000 0.00 0.00 34.66 3.13
2992 3344 0.565674 AAGGAAAGCCCCCAGGAAAA 59.434 50.000 0.00 0.00 34.66 2.29
2993 3345 0.565674 AGGAAAGCCCCCAGGAAAAA 59.434 50.000 0.00 0.00 34.66 1.94
3022 3374 1.133730 GGAGAGGATACAGGGTCGACT 60.134 57.143 16.46 0.00 41.41 4.18
3055 3407 7.939784 GAGCTCCCTCCTTAATTAAGAAAAA 57.060 36.000 23.95 7.77 35.33 1.94
3103 3457 7.990886 ACTTCGATGGTTAATTAATAAGAGCCA 59.009 33.333 0.31 3.50 0.00 4.75
3110 3467 9.041354 TGGTTAATTAATAAGAGCCATTTTGGT 57.959 29.630 0.31 0.00 40.46 3.67
3141 3498 8.850007 AAAGTGAAGAGGAAATAAGTAGAACC 57.150 34.615 0.00 0.00 0.00 3.62
3142 3499 7.554959 AGTGAAGAGGAAATAAGTAGAACCA 57.445 36.000 0.00 0.00 0.00 3.67
3143 3500 7.974504 AGTGAAGAGGAAATAAGTAGAACCAA 58.025 34.615 0.00 0.00 0.00 3.67
3144 3501 8.606830 AGTGAAGAGGAAATAAGTAGAACCAAT 58.393 33.333 0.00 0.00 0.00 3.16
3145 3502 9.886132 GTGAAGAGGAAATAAGTAGAACCAATA 57.114 33.333 0.00 0.00 0.00 1.90
3155 3512 9.869757 AATAAGTAGAACCAATATTTTGCAACC 57.130 29.630 0.00 0.00 0.00 3.77
3156 3513 7.539034 AAGTAGAACCAATATTTTGCAACCT 57.461 32.000 0.00 0.00 0.00 3.50
3157 3514 7.539034 AGTAGAACCAATATTTTGCAACCTT 57.461 32.000 0.00 0.00 0.00 3.50
3158 3515 7.378181 AGTAGAACCAATATTTTGCAACCTTG 58.622 34.615 0.00 0.61 0.00 3.61
3159 3516 5.550290 AGAACCAATATTTTGCAACCTTGG 58.450 37.500 19.36 19.36 39.20 3.61
3160 3517 4.284829 ACCAATATTTTGCAACCTTGGG 57.715 40.909 22.48 13.74 37.93 4.12
3161 3518 3.650461 ACCAATATTTTGCAACCTTGGGT 59.350 39.130 22.48 14.23 37.93 4.51
3163 3520 5.069318 CCAATATTTTGCAACCTTGGGTTT 58.931 37.500 15.66 0.00 44.33 3.27
3164 3521 5.181056 CCAATATTTTGCAACCTTGGGTTTC 59.819 40.000 15.66 0.00 44.33 2.78
3165 3522 3.922171 ATTTTGCAACCTTGGGTTTCA 57.078 38.095 0.00 0.00 44.33 2.69
3166 3523 3.703001 TTTTGCAACCTTGGGTTTCAA 57.297 38.095 0.00 9.66 44.33 2.69
3167 3524 3.922171 TTTGCAACCTTGGGTTTCAAT 57.078 38.095 13.31 0.00 45.03 2.57
3168 3525 3.922171 TTGCAACCTTGGGTTTCAATT 57.078 38.095 9.66 0.00 44.33 2.32
3169 3526 3.467374 TGCAACCTTGGGTTTCAATTC 57.533 42.857 0.00 0.00 44.33 2.17
3170 3527 2.223923 TGCAACCTTGGGTTTCAATTCG 60.224 45.455 0.00 0.00 44.33 3.34
3171 3528 2.223947 GCAACCTTGGGTTTCAATTCGT 60.224 45.455 0.00 0.00 44.33 3.85
3172 3529 3.739830 GCAACCTTGGGTTTCAATTCGTT 60.740 43.478 0.00 0.00 44.33 3.85
3173 3530 4.438148 CAACCTTGGGTTTCAATTCGTTT 58.562 39.130 0.00 0.00 44.33 3.60
3174 3531 4.746535 ACCTTGGGTTTCAATTCGTTTT 57.253 36.364 0.00 0.00 34.45 2.43
3175 3532 5.092554 ACCTTGGGTTTCAATTCGTTTTT 57.907 34.783 0.00 0.00 34.45 1.94
3176 3533 6.223351 ACCTTGGGTTTCAATTCGTTTTTA 57.777 33.333 0.00 0.00 34.45 1.52
3177 3534 6.044046 ACCTTGGGTTTCAATTCGTTTTTAC 58.956 36.000 0.00 0.00 34.45 2.01
3178 3535 5.464057 CCTTGGGTTTCAATTCGTTTTTACC 59.536 40.000 0.00 0.00 34.45 2.85
3179 3536 5.855740 TGGGTTTCAATTCGTTTTTACCT 57.144 34.783 0.00 0.00 0.00 3.08
3180 3537 6.223351 TGGGTTTCAATTCGTTTTTACCTT 57.777 33.333 0.00 0.00 0.00 3.50
3181 3538 6.274579 TGGGTTTCAATTCGTTTTTACCTTC 58.725 36.000 0.00 0.00 0.00 3.46
3182 3539 5.693104 GGGTTTCAATTCGTTTTTACCTTCC 59.307 40.000 0.00 0.00 0.00 3.46
3183 3540 6.274579 GGTTTCAATTCGTTTTTACCTTCCA 58.725 36.000 0.00 0.00 0.00 3.53
3184 3541 6.926826 GGTTTCAATTCGTTTTTACCTTCCAT 59.073 34.615 0.00 0.00 0.00 3.41
3185 3542 7.095816 GGTTTCAATTCGTTTTTACCTTCCATG 60.096 37.037 0.00 0.00 0.00 3.66
3186 3543 6.642707 TCAATTCGTTTTTACCTTCCATGT 57.357 33.333 0.00 0.00 0.00 3.21
3187 3544 7.045126 TCAATTCGTTTTTACCTTCCATGTT 57.955 32.000 0.00 0.00 0.00 2.71
3188 3545 7.493367 TCAATTCGTTTTTACCTTCCATGTTT 58.507 30.769 0.00 0.00 0.00 2.83
3189 3546 7.982354 TCAATTCGTTTTTACCTTCCATGTTTT 59.018 29.630 0.00 0.00 0.00 2.43
3190 3547 8.608317 CAATTCGTTTTTACCTTCCATGTTTTT 58.392 29.630 0.00 0.00 0.00 1.94
3191 3548 7.758613 TTCGTTTTTACCTTCCATGTTTTTC 57.241 32.000 0.00 0.00 0.00 2.29
3192 3549 7.102847 TCGTTTTTACCTTCCATGTTTTTCT 57.897 32.000 0.00 0.00 0.00 2.52
3193 3550 6.975772 TCGTTTTTACCTTCCATGTTTTTCTG 59.024 34.615 0.00 0.00 0.00 3.02
3194 3551 6.754675 CGTTTTTACCTTCCATGTTTTTCTGT 59.245 34.615 0.00 0.00 0.00 3.41
3195 3552 7.916450 CGTTTTTACCTTCCATGTTTTTCTGTA 59.084 33.333 0.00 0.00 0.00 2.74
3196 3553 9.589111 GTTTTTACCTTCCATGTTTTTCTGTAA 57.411 29.630 0.00 0.00 0.00 2.41
3197 3554 9.589111 TTTTTACCTTCCATGTTTTTCTGTAAC 57.411 29.630 0.00 0.00 0.00 2.50
3198 3555 7.883391 TTACCTTCCATGTTTTTCTGTAACA 57.117 32.000 0.00 0.00 39.58 2.41
3199 3556 6.144078 ACCTTCCATGTTTTTCTGTAACAC 57.856 37.500 0.00 0.00 38.23 3.32
3200 3557 5.654650 ACCTTCCATGTTTTTCTGTAACACA 59.345 36.000 0.00 0.00 38.23 3.72
3201 3558 5.977129 CCTTCCATGTTTTTCTGTAACACAC 59.023 40.000 0.00 0.00 38.23 3.82
3202 3559 5.508200 TCCATGTTTTTCTGTAACACACC 57.492 39.130 0.00 0.00 38.23 4.16
3203 3560 5.197451 TCCATGTTTTTCTGTAACACACCT 58.803 37.500 0.00 0.00 38.23 4.00
3204 3561 5.654650 TCCATGTTTTTCTGTAACACACCTT 59.345 36.000 0.00 0.00 38.23 3.50
3205 3562 6.153680 TCCATGTTTTTCTGTAACACACCTTT 59.846 34.615 0.00 0.00 38.23 3.11
3206 3563 6.816140 CCATGTTTTTCTGTAACACACCTTTT 59.184 34.615 0.00 0.00 38.23 2.27
3207 3564 7.201513 CCATGTTTTTCTGTAACACACCTTTTG 60.202 37.037 0.00 0.00 38.23 2.44
3208 3565 6.159988 TGTTTTTCTGTAACACACCTTTTGG 58.840 36.000 0.00 0.00 36.77 3.28
3209 3566 6.239345 TGTTTTTCTGTAACACACCTTTTGGT 60.239 34.615 0.00 0.00 40.95 3.67
3210 3567 7.687103 TGTTTTTCTGTAACACACCTTTTGGTT 60.687 33.333 0.00 0.00 39.53 3.67
3227 3584 9.396022 CCTTTTGGTTATTACTGATACTCATGT 57.604 33.333 0.00 0.00 34.07 3.21
3232 3589 9.642343 TGGTTATTACTGATACTCATGTCTACT 57.358 33.333 0.00 0.00 0.00 2.57
3237 3594 9.809096 ATTACTGATACTCATGTCTACTTTGTG 57.191 33.333 0.00 0.00 0.00 3.33
3238 3595 7.233389 ACTGATACTCATGTCTACTTTGTGT 57.767 36.000 0.00 0.00 0.00 3.72
3239 3596 7.671302 ACTGATACTCATGTCTACTTTGTGTT 58.329 34.615 0.00 0.00 0.00 3.32
3240 3597 8.150945 ACTGATACTCATGTCTACTTTGTGTTT 58.849 33.333 0.00 0.00 0.00 2.83
3241 3598 8.902540 TGATACTCATGTCTACTTTGTGTTTT 57.097 30.769 0.00 0.00 0.00 2.43
3242 3599 9.990360 TGATACTCATGTCTACTTTGTGTTTTA 57.010 29.630 0.00 0.00 0.00 1.52
3244 3601 9.998106 ATACTCATGTCTACTTTGTGTTTTAGT 57.002 29.630 0.00 0.00 0.00 2.24
3245 3602 8.142994 ACTCATGTCTACTTTGTGTTTTAGTG 57.857 34.615 0.00 0.00 0.00 2.74
3246 3603 7.985184 ACTCATGTCTACTTTGTGTTTTAGTGA 59.015 33.333 0.00 0.00 0.00 3.41
3247 3604 8.902540 TCATGTCTACTTTGTGTTTTAGTGAT 57.097 30.769 0.00 0.00 0.00 3.06
3248 3605 8.773645 TCATGTCTACTTTGTGTTTTAGTGATG 58.226 33.333 0.00 0.00 0.00 3.07
3249 3606 8.773645 CATGTCTACTTTGTGTTTTAGTGATGA 58.226 33.333 0.00 0.00 0.00 2.92
3250 3607 8.725405 TGTCTACTTTGTGTTTTAGTGATGAA 57.275 30.769 0.00 0.00 0.00 2.57
3251 3608 8.609176 TGTCTACTTTGTGTTTTAGTGATGAAC 58.391 33.333 0.00 0.00 0.00 3.18
3252 3609 8.068380 GTCTACTTTGTGTTTTAGTGATGAACC 58.932 37.037 0.00 0.00 0.00 3.62
3253 3610 6.767524 ACTTTGTGTTTTAGTGATGAACCA 57.232 33.333 0.00 0.00 0.00 3.67
3254 3611 7.346751 ACTTTGTGTTTTAGTGATGAACCAT 57.653 32.000 0.00 0.00 0.00 3.55
3255 3612 7.781056 ACTTTGTGTTTTAGTGATGAACCATT 58.219 30.769 0.00 0.00 0.00 3.16
3256 3613 8.257306 ACTTTGTGTTTTAGTGATGAACCATTT 58.743 29.630 0.00 0.00 0.00 2.32
3257 3614 9.097257 CTTTGTGTTTTAGTGATGAACCATTTT 57.903 29.630 0.00 0.00 0.00 1.82
3258 3615 8.641499 TTGTGTTTTAGTGATGAACCATTTTC 57.359 30.769 0.00 0.00 0.00 2.29
3259 3616 7.776107 TGTGTTTTAGTGATGAACCATTTTCA 58.224 30.769 0.00 0.00 0.00 2.69
3260 3617 8.420222 TGTGTTTTAGTGATGAACCATTTTCAT 58.580 29.630 0.00 0.00 41.43 2.57
3261 3618 8.702438 GTGTTTTAGTGATGAACCATTTTCATG 58.298 33.333 4.25 0.00 39.08 3.07
3262 3619 8.420222 TGTTTTAGTGATGAACCATTTTCATGT 58.580 29.630 4.25 0.00 39.08 3.21
3263 3620 9.260002 GTTTTAGTGATGAACCATTTTCATGTT 57.740 29.630 4.25 0.00 39.08 2.71
3264 3621 9.829507 TTTTAGTGATGAACCATTTTCATGTTT 57.170 25.926 4.25 0.00 39.08 2.83
3265 3622 8.815141 TTAGTGATGAACCATTTTCATGTTTG 57.185 30.769 4.25 0.00 39.08 2.93
3266 3623 6.819284 AGTGATGAACCATTTTCATGTTTGT 58.181 32.000 4.25 0.00 39.08 2.83
3267 3624 6.702723 AGTGATGAACCATTTTCATGTTTGTG 59.297 34.615 4.25 0.00 39.08 3.33
3268 3625 6.479660 GTGATGAACCATTTTCATGTTTGTGT 59.520 34.615 4.25 0.00 39.08 3.72
3269 3626 7.651304 GTGATGAACCATTTTCATGTTTGTGTA 59.349 33.333 4.25 0.00 39.08 2.90
3270 3627 8.200120 TGATGAACCATTTTCATGTTTGTGTAA 58.800 29.630 4.25 0.00 39.08 2.41
3271 3628 8.954950 ATGAACCATTTTCATGTTTGTGTAAA 57.045 26.923 0.00 0.00 37.71 2.01
3272 3629 8.190888 TGAACCATTTTCATGTTTGTGTAAAC 57.809 30.769 0.00 0.00 45.04 2.01
3285 3642 7.589574 GTTTGTGTAAACATTGTTCCAAGTT 57.410 32.000 1.83 0.00 44.38 2.66
3286 3643 8.024146 GTTTGTGTAAACATTGTTCCAAGTTT 57.976 30.769 1.83 0.00 44.38 2.66
3287 3644 7.820044 TTGTGTAAACATTGTTCCAAGTTTC 57.180 32.000 1.83 0.00 35.90 2.78
3288 3645 6.334202 TGTGTAAACATTGTTCCAAGTTTCC 58.666 36.000 1.83 0.00 35.90 3.13
3289 3646 6.071334 TGTGTAAACATTGTTCCAAGTTTCCA 60.071 34.615 1.83 0.00 35.90 3.53
3290 3647 6.814146 GTGTAAACATTGTTCCAAGTTTCCAA 59.186 34.615 1.83 0.00 35.90 3.53
3291 3648 6.814146 TGTAAACATTGTTCCAAGTTTCCAAC 59.186 34.615 1.83 0.00 35.90 3.77
3292 3649 4.400529 ACATTGTTCCAAGTTTCCAACC 57.599 40.909 0.00 0.00 0.00 3.77
3293 3650 3.133901 ACATTGTTCCAAGTTTCCAACCC 59.866 43.478 0.00 0.00 0.00 4.11
3294 3651 1.783071 TGTTCCAAGTTTCCAACCCC 58.217 50.000 0.00 0.00 0.00 4.95
3295 3652 1.007238 TGTTCCAAGTTTCCAACCCCA 59.993 47.619 0.00 0.00 0.00 4.96
3296 3653 2.325484 GTTCCAAGTTTCCAACCCCAT 58.675 47.619 0.00 0.00 0.00 4.00
3297 3654 3.117093 TGTTCCAAGTTTCCAACCCCATA 60.117 43.478 0.00 0.00 0.00 2.74
3298 3655 4.093743 GTTCCAAGTTTCCAACCCCATAT 58.906 43.478 0.00 0.00 0.00 1.78
3299 3656 5.222358 TGTTCCAAGTTTCCAACCCCATATA 60.222 40.000 0.00 0.00 0.00 0.86
3300 3657 5.742562 TCCAAGTTTCCAACCCCATATAT 57.257 39.130 0.00 0.00 0.00 0.86
3301 3658 5.701224 TCCAAGTTTCCAACCCCATATATC 58.299 41.667 0.00 0.00 0.00 1.63
3302 3659 5.194740 TCCAAGTTTCCAACCCCATATATCA 59.805 40.000 0.00 0.00 0.00 2.15
3303 3660 6.077322 CCAAGTTTCCAACCCCATATATCAT 58.923 40.000 0.00 0.00 0.00 2.45
3304 3661 6.554605 CCAAGTTTCCAACCCCATATATCATT 59.445 38.462 0.00 0.00 0.00 2.57
3305 3662 7.436118 CAAGTTTCCAACCCCATATATCATTG 58.564 38.462 0.00 0.00 0.00 2.82
3306 3663 5.539955 AGTTTCCAACCCCATATATCATTGC 59.460 40.000 0.00 0.00 0.00 3.56
3307 3664 4.738381 TCCAACCCCATATATCATTGCA 57.262 40.909 0.00 0.00 0.00 4.08
3308 3665 4.406456 TCCAACCCCATATATCATTGCAC 58.594 43.478 0.00 0.00 0.00 4.57
3309 3666 4.141065 TCCAACCCCATATATCATTGCACA 60.141 41.667 0.00 0.00 0.00 4.57
3310 3667 4.588106 CCAACCCCATATATCATTGCACAA 59.412 41.667 0.00 0.00 0.00 3.33
3311 3668 5.070180 CCAACCCCATATATCATTGCACAAA 59.930 40.000 0.00 0.00 0.00 2.83
3312 3669 6.239657 CCAACCCCATATATCATTGCACAAAT 60.240 38.462 0.00 0.00 0.00 2.32
3313 3670 6.999705 ACCCCATATATCATTGCACAAATT 57.000 33.333 0.00 0.00 0.00 1.82
3314 3671 8.366401 CAACCCCATATATCATTGCACAAATTA 58.634 33.333 0.00 0.00 0.00 1.40
3315 3672 7.895759 ACCCCATATATCATTGCACAAATTAC 58.104 34.615 0.00 0.00 0.00 1.89
3316 3673 7.508636 ACCCCATATATCATTGCACAAATTACA 59.491 33.333 0.00 0.00 0.00 2.41
3317 3674 8.533657 CCCCATATATCATTGCACAAATTACAT 58.466 33.333 0.00 0.00 0.00 2.29
3318 3675 9.932207 CCCATATATCATTGCACAAATTACATT 57.068 29.630 0.00 0.00 0.00 2.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 1.006227 TATACCATGCCCCCACCCA 59.994 57.895 0.00 0.00 0.00 4.51
26 27 2.034066 CCCACCCGAGCAACATGT 59.966 61.111 0.00 0.00 0.00 3.21
86 88 3.494398 CGATTTCGGTCTTGGGGATATGT 60.494 47.826 0.00 0.00 35.37 2.29
150 152 2.947652 CCAGCCCACATATTTCTCACAG 59.052 50.000 0.00 0.00 0.00 3.66
211 214 8.801882 ATTTGATCGTTAGAGGGTCAAATTTA 57.198 30.769 13.22 0.00 43.25 1.40
270 273 5.945144 AGAGCGGTTTAGAATAGGGTTTA 57.055 39.130 0.00 0.00 0.00 2.01
280 283 2.027837 GGTGGGTTTAGAGCGGTTTAGA 60.028 50.000 0.00 0.00 0.00 2.10
320 323 2.721167 CGAGGCGACCATTGGGAGA 61.721 63.158 7.78 0.00 38.05 3.71
410 444 1.071814 GGGGGACAGCGTTACAACA 59.928 57.895 0.00 0.00 0.00 3.33
412 446 1.122632 TCAGGGGGACAGCGTTACAA 61.123 55.000 0.00 0.00 0.00 2.41
480 567 2.107141 GAGGAATCCTGTCGGGCG 59.893 66.667 6.50 0.00 31.76 6.13
549 866 4.196108 TGGCACGACACGACACGT 62.196 61.111 0.00 0.00 42.36 4.49
656 973 1.017177 GGCTAATCGTGTCGTGCCAA 61.017 55.000 0.00 0.00 40.04 4.52
817 1144 1.423794 TTTCTCGGGCTCCCCTTGTT 61.424 55.000 0.00 0.00 42.67 2.83
865 1192 4.536765 TCTTGCCTCTGTTTCTCCTTTTT 58.463 39.130 0.00 0.00 0.00 1.94
866 1193 4.140536 CTCTTGCCTCTGTTTCTCCTTTT 58.859 43.478 0.00 0.00 0.00 2.27
867 1194 3.392616 TCTCTTGCCTCTGTTTCTCCTTT 59.607 43.478 0.00 0.00 0.00 3.11
868 1195 2.975489 TCTCTTGCCTCTGTTTCTCCTT 59.025 45.455 0.00 0.00 0.00 3.36
869 1196 2.566724 CTCTCTTGCCTCTGTTTCTCCT 59.433 50.000 0.00 0.00 0.00 3.69
870 1197 2.354604 CCTCTCTTGCCTCTGTTTCTCC 60.355 54.545 0.00 0.00 0.00 3.71
871 1198 2.564947 TCCTCTCTTGCCTCTGTTTCTC 59.435 50.000 0.00 0.00 0.00 2.87
872 1199 2.614259 TCCTCTCTTGCCTCTGTTTCT 58.386 47.619 0.00 0.00 0.00 2.52
873 1200 3.530535 GATCCTCTCTTGCCTCTGTTTC 58.469 50.000 0.00 0.00 0.00 2.78
874 1201 2.238395 GGATCCTCTCTTGCCTCTGTTT 59.762 50.000 3.84 0.00 0.00 2.83
875 1202 1.836802 GGATCCTCTCTTGCCTCTGTT 59.163 52.381 3.84 0.00 0.00 3.16
876 1203 1.008206 AGGATCCTCTCTTGCCTCTGT 59.992 52.381 9.02 0.00 0.00 3.41
877 1204 1.792115 AGGATCCTCTCTTGCCTCTG 58.208 55.000 9.02 0.00 0.00 3.35
878 1205 2.397597 GAAGGATCCTCTCTTGCCTCT 58.602 52.381 16.52 0.00 0.00 3.69
879 1206 1.416030 GGAAGGATCCTCTCTTGCCTC 59.584 57.143 16.52 5.97 42.93 4.70
880 1207 1.506025 GGAAGGATCCTCTCTTGCCT 58.494 55.000 16.52 0.00 42.93 4.75
881 1208 0.472044 GGGAAGGATCCTCTCTTGCC 59.528 60.000 16.52 10.55 45.77 4.52
882 1209 1.207791 TGGGAAGGATCCTCTCTTGC 58.792 55.000 16.52 4.21 45.77 4.01
883 1210 2.371510 GGATGGGAAGGATCCTCTCTTG 59.628 54.545 16.52 0.00 45.77 3.02
884 1211 2.698653 GGGATGGGAAGGATCCTCTCTT 60.699 54.545 16.52 6.94 45.77 2.85
885 1212 1.132560 GGGATGGGAAGGATCCTCTCT 60.133 57.143 16.52 0.00 45.77 3.10
886 1213 1.357137 GGGATGGGAAGGATCCTCTC 58.643 60.000 16.52 14.20 45.77 3.20
887 1214 0.104197 GGGGATGGGAAGGATCCTCT 60.104 60.000 16.52 5.38 45.77 3.69
888 1215 0.401979 TGGGGATGGGAAGGATCCTC 60.402 60.000 16.52 8.66 45.77 3.71
889 1216 0.047802 TTGGGGATGGGAAGGATCCT 59.952 55.000 9.02 9.02 45.77 3.24
890 1217 0.933700 TTTGGGGATGGGAAGGATCC 59.066 55.000 2.48 2.48 45.77 3.36
906 1233 5.163405 TGAGATCGAGATTAGGGTTCCTTTG 60.163 44.000 0.00 0.00 34.61 2.77
909 1236 4.186077 TGAGATCGAGATTAGGGTTCCT 57.814 45.455 0.00 0.00 37.71 3.36
923 1250 1.331161 CGCCGACGAAATTTGAGATCG 60.331 52.381 0.00 0.00 43.93 3.69
1175 1502 2.504244 CGGAGTTGTCGACGAGCC 60.504 66.667 11.62 12.22 0.00 4.70
1198 1525 4.069232 CTCGGCCTCAAGTCCGCA 62.069 66.667 0.00 0.00 44.91 5.69
1524 1860 4.388499 AAGGCGCAGGTGTACCCG 62.388 66.667 10.83 0.00 38.74 5.28
1564 1900 0.102481 AGACGAAATCCATCCGGTCG 59.898 55.000 0.00 3.75 35.13 4.79
1578 1917 2.583441 CCCTGCCTGTTCCAGACGA 61.583 63.158 0.00 0.00 32.44 4.20
1744 2083 6.238676 CCATTCACATGAGAGATGATGGAAAC 60.239 42.308 13.41 0.00 31.07 2.78
1755 2094 3.688185 CACCAAGACCATTCACATGAGAG 59.312 47.826 0.00 0.00 31.07 3.20
1842 2181 2.891580 GGATACATAGAACTCCCGCTCA 59.108 50.000 0.00 0.00 0.00 4.26
1863 2202 3.265791 CGATTCCTCCTTGAACTTGGAG 58.734 50.000 0.00 0.00 46.91 3.86
1884 2223 1.076332 GATCGGTGCTGGTGTACAAC 58.924 55.000 3.20 3.20 0.00 3.32
1891 2230 2.290260 TGAAATCAAGATCGGTGCTGGT 60.290 45.455 0.00 0.00 0.00 4.00
1897 2236 7.382488 CGTAATGTCTATGAAATCAAGATCGGT 59.618 37.037 0.00 0.00 0.00 4.69
1949 2288 6.994221 TCTAGCTTATACATCTGGTAAAGCC 58.006 40.000 0.00 0.00 41.64 4.35
1971 2310 6.241645 CACTTCCCTTTTATCTTGTTCCTCT 58.758 40.000 0.00 0.00 0.00 3.69
1990 2329 6.372659 TGATTATCTTGTTTCTCCTGCACTTC 59.627 38.462 0.00 0.00 0.00 3.01
2279 2618 1.902508 AGCTCTCTTCCGATGGTTTCA 59.097 47.619 0.00 0.00 0.00 2.69
2314 2654 4.502950 CCTCTAGAGATTCCTTGCACATCC 60.503 50.000 21.76 0.00 0.00 3.51
2338 2678 8.498054 ACTTACGTCTGTACTATAAGCTTACA 57.502 34.615 8.70 3.43 30.58 2.41
2375 2721 5.938125 GCAAAAATGAAGACAGAGGGTAGTA 59.062 40.000 0.00 0.00 0.00 1.82
2402 2748 5.185056 TCAGACAAATCACCTATCGACAAGA 59.815 40.000 0.00 0.00 0.00 3.02
2408 2754 7.923344 AGATAACTTCAGACAAATCACCTATCG 59.077 37.037 0.00 0.00 0.00 2.92
2410 2756 7.989741 CCAGATAACTTCAGACAAATCACCTAT 59.010 37.037 0.00 0.00 0.00 2.57
2416 2762 9.383519 TGTAATCCAGATAACTTCAGACAAATC 57.616 33.333 0.00 0.00 0.00 2.17
2448 2794 5.652452 GTCTGCATTTTTAGGTTACCAGGAT 59.348 40.000 3.51 0.00 0.00 3.24
2457 2803 5.500234 TGCTGATAGTCTGCATTTTTAGGT 58.500 37.500 7.32 0.00 44.54 3.08
2476 2822 2.301346 ACAGAAGGAAACCAAGTGCTG 58.699 47.619 0.00 0.00 0.00 4.41
2490 2836 6.491714 AGGCAGGCCATATATATACAGAAG 57.508 41.667 13.63 0.00 38.92 2.85
2492 2838 5.726308 ACAAGGCAGGCCATATATATACAGA 59.274 40.000 13.63 0.00 38.92 3.41
2493 2839 5.994250 ACAAGGCAGGCCATATATATACAG 58.006 41.667 13.63 0.00 38.92 2.74
2494 2840 6.215431 AGAACAAGGCAGGCCATATATATACA 59.785 38.462 13.63 0.00 38.92 2.29
2495 2841 6.653989 AGAACAAGGCAGGCCATATATATAC 58.346 40.000 13.63 0.00 38.92 1.47
2496 2842 6.891306 AGAACAAGGCAGGCCATATATATA 57.109 37.500 13.63 0.00 38.92 0.86
2497 2843 5.786121 AGAACAAGGCAGGCCATATATAT 57.214 39.130 13.63 0.00 38.92 0.86
2499 2845 4.141181 TGAAGAACAAGGCAGGCCATATAT 60.141 41.667 13.63 0.00 38.92 0.86
2501 2847 2.025037 TGAAGAACAAGGCAGGCCATAT 60.025 45.455 13.63 0.00 38.92 1.78
2583 2929 9.403110 CTTGAACATTTCAGACCTAAGATTTTG 57.597 33.333 0.00 0.00 41.38 2.44
2636 2988 7.604164 GCTATAAGTCACATGTTACAGCCATAT 59.396 37.037 12.50 5.65 0.00 1.78
2638 2990 5.760253 GCTATAAGTCACATGTTACAGCCAT 59.240 40.000 12.50 2.91 0.00 4.40
2640 2992 5.360591 AGCTATAAGTCACATGTTACAGCC 58.639 41.667 12.50 0.00 0.00 4.85
2694 3046 5.700722 ATAATGTAACTGCAGATGCCATG 57.299 39.130 23.35 0.00 41.18 3.66
2697 3049 7.874940 TCAATAATAATGTAACTGCAGATGCC 58.125 34.615 23.35 4.58 41.18 4.40
2730 3082 2.878406 CCTGGACGTTGAAATTCACAGT 59.122 45.455 0.00 0.00 0.00 3.55
2734 3086 3.948473 TGAAACCTGGACGTTGAAATTCA 59.052 39.130 0.00 0.00 0.00 2.57
2739 3091 2.702592 AGTGAAACCTGGACGTTGAA 57.297 45.000 0.00 0.00 37.80 2.69
2740 3092 3.070446 ACATAGTGAAACCTGGACGTTGA 59.930 43.478 0.00 0.00 37.80 3.18
2742 3094 3.070446 TCACATAGTGAAACCTGGACGTT 59.930 43.478 0.00 0.00 39.78 3.99
2745 3097 4.192317 GGATCACATAGTGAAACCTGGAC 58.808 47.826 0.00 0.00 45.96 4.02
2748 3100 4.220693 TGGGATCACATAGTGAAACCTG 57.779 45.455 18.10 0.00 45.96 4.00
2752 3104 3.627123 CGCAATGGGATCACATAGTGAAA 59.373 43.478 11.76 0.00 45.96 2.69
2768 3120 3.001026 TGCAAACAACATCAAACGCAATG 59.999 39.130 0.00 0.00 0.00 2.82
2774 3126 1.522258 CCGCTGCAAACAACATCAAAC 59.478 47.619 0.00 0.00 0.00 2.93
2797 3149 2.513753 CACCACCACCAAGATTAAGCA 58.486 47.619 0.00 0.00 0.00 3.91
2826 3178 2.638363 GTTCCTCTGTTCCCTTACCTGT 59.362 50.000 0.00 0.00 0.00 4.00
2851 3203 2.580815 CCTCATGCTGACGAGGCA 59.419 61.111 0.00 0.00 42.30 4.75
2855 3207 1.134699 GGTCATTCCTCATGCTGACGA 60.135 52.381 0.00 0.00 39.08 4.20
2856 3208 1.293924 GGTCATTCCTCATGCTGACG 58.706 55.000 0.00 0.00 39.08 4.35
2857 3209 2.408271 TGGTCATTCCTCATGCTGAC 57.592 50.000 0.00 0.00 37.79 3.51
2858 3210 2.506644 TCATGGTCATTCCTCATGCTGA 59.493 45.455 0.00 0.00 38.41 4.26
2859 3211 2.927028 TCATGGTCATTCCTCATGCTG 58.073 47.619 0.00 0.00 38.41 4.41
2884 3236 9.353999 CTACAATAACAAAAGAAATAGGGTTGC 57.646 33.333 0.00 0.00 0.00 4.17
2905 3257 7.973388 GCATTAAATCCAACAACATAGCTACAA 59.027 33.333 0.00 0.00 0.00 2.41
2941 3293 8.795513 GGAGTTAGATACAGGTTATCCTTCTAC 58.204 40.741 0.90 0.00 43.07 2.59
2944 3296 7.842887 AGGAGTTAGATACAGGTTATCCTTC 57.157 40.000 0.00 0.00 43.07 3.46
2951 3303 7.184067 CTTGGTTAGGAGTTAGATACAGGTT 57.816 40.000 0.00 0.00 0.00 3.50
2952 3304 6.793505 CTTGGTTAGGAGTTAGATACAGGT 57.206 41.667 0.00 0.00 0.00 4.00
2973 3325 0.565674 TTTTCCTGGGGGCTTTCCTT 59.434 50.000 0.00 0.00 35.33 3.36
2990 3342 6.353082 CCTGTATCCTCTCCCATACTGTTTTT 60.353 42.308 0.00 0.00 0.00 1.94
2991 3343 5.131142 CCTGTATCCTCTCCCATACTGTTTT 59.869 44.000 0.00 0.00 0.00 2.43
2992 3344 4.656112 CCTGTATCCTCTCCCATACTGTTT 59.344 45.833 0.00 0.00 0.00 2.83
2993 3345 4.227197 CCTGTATCCTCTCCCATACTGTT 58.773 47.826 0.00 0.00 0.00 3.16
2994 3346 3.438668 CCCTGTATCCTCTCCCATACTGT 60.439 52.174 0.00 0.00 0.00 3.55
2995 3347 3.169099 CCCTGTATCCTCTCCCATACTG 58.831 54.545 0.00 0.00 0.00 2.74
2996 3348 2.798368 ACCCTGTATCCTCTCCCATACT 59.202 50.000 0.00 0.00 0.00 2.12
2997 3349 3.166679 GACCCTGTATCCTCTCCCATAC 58.833 54.545 0.00 0.00 0.00 2.39
2998 3350 2.225041 CGACCCTGTATCCTCTCCCATA 60.225 54.545 0.00 0.00 0.00 2.74
2999 3351 1.481428 CGACCCTGTATCCTCTCCCAT 60.481 57.143 0.00 0.00 0.00 4.00
3000 3352 0.106167 CGACCCTGTATCCTCTCCCA 60.106 60.000 0.00 0.00 0.00 4.37
3119 3476 8.794335 ATTGGTTCTACTTATTTCCTCTTCAC 57.206 34.615 0.00 0.00 0.00 3.18
3129 3486 9.869757 GGTTGCAAAATATTGGTTCTACTTATT 57.130 29.630 0.00 0.00 37.02 1.40
3130 3487 9.255029 AGGTTGCAAAATATTGGTTCTACTTAT 57.745 29.630 0.00 0.00 37.02 1.73
3131 3488 8.644374 AGGTTGCAAAATATTGGTTCTACTTA 57.356 30.769 0.00 0.00 37.02 2.24
3132 3489 7.539034 AGGTTGCAAAATATTGGTTCTACTT 57.461 32.000 0.00 0.00 37.02 2.24
3133 3490 7.378181 CAAGGTTGCAAAATATTGGTTCTACT 58.622 34.615 0.00 0.00 37.02 2.57
3134 3491 6.589907 CCAAGGTTGCAAAATATTGGTTCTAC 59.410 38.462 18.27 0.00 37.02 2.59
3135 3492 6.295575 CCCAAGGTTGCAAAATATTGGTTCTA 60.296 38.462 21.92 0.00 34.75 2.10
3136 3493 5.512921 CCCAAGGTTGCAAAATATTGGTTCT 60.513 40.000 21.92 1.24 34.75 3.01
3137 3494 4.694982 CCCAAGGTTGCAAAATATTGGTTC 59.305 41.667 21.92 1.48 34.75 3.62
3138 3495 4.103943 ACCCAAGGTTGCAAAATATTGGTT 59.896 37.500 21.92 12.19 34.75 3.67
3139 3496 3.650461 ACCCAAGGTTGCAAAATATTGGT 59.350 39.130 21.92 13.85 34.75 3.67
3140 3497 4.284829 ACCCAAGGTTGCAAAATATTGG 57.715 40.909 19.05 19.05 35.72 3.16
3141 3498 6.239908 GAAACCCAAGGTTGCAAAATATTG 57.760 37.500 0.00 4.03 46.20 1.90
3150 3507 2.223947 ACGAATTGAAACCCAAGGTTGC 60.224 45.455 0.00 0.00 46.20 4.17
3151 3508 3.726291 ACGAATTGAAACCCAAGGTTG 57.274 42.857 0.00 0.00 46.20 3.77
3153 3510 4.746535 AAAACGAATTGAAACCCAAGGT 57.253 36.364 0.00 0.00 38.31 3.50
3154 3511 5.464057 GGTAAAAACGAATTGAAACCCAAGG 59.536 40.000 0.00 0.00 38.31 3.61
3155 3512 6.277605 AGGTAAAAACGAATTGAAACCCAAG 58.722 36.000 0.00 0.00 38.31 3.61
3156 3513 6.223351 AGGTAAAAACGAATTGAAACCCAA 57.777 33.333 0.00 0.00 39.41 4.12
3157 3514 5.855740 AGGTAAAAACGAATTGAAACCCA 57.144 34.783 0.00 0.00 0.00 4.51
3158 3515 5.693104 GGAAGGTAAAAACGAATTGAAACCC 59.307 40.000 0.00 0.00 0.00 4.11
3159 3516 6.274579 TGGAAGGTAAAAACGAATTGAAACC 58.725 36.000 0.00 0.00 0.00 3.27
3160 3517 7.436970 ACATGGAAGGTAAAAACGAATTGAAAC 59.563 33.333 0.00 0.00 0.00 2.78
3161 3518 7.493367 ACATGGAAGGTAAAAACGAATTGAAA 58.507 30.769 0.00 0.00 0.00 2.69
3162 3519 7.045126 ACATGGAAGGTAAAAACGAATTGAA 57.955 32.000 0.00 0.00 0.00 2.69
3163 3520 6.642707 ACATGGAAGGTAAAAACGAATTGA 57.357 33.333 0.00 0.00 0.00 2.57
3164 3521 7.707774 AAACATGGAAGGTAAAAACGAATTG 57.292 32.000 0.00 0.00 0.00 2.32
3165 3522 8.725405 AAAAACATGGAAGGTAAAAACGAATT 57.275 26.923 0.00 0.00 0.00 2.17
3166 3523 8.201464 AGAAAAACATGGAAGGTAAAAACGAAT 58.799 29.630 0.00 0.00 0.00 3.34
3167 3524 7.489757 CAGAAAAACATGGAAGGTAAAAACGAA 59.510 33.333 0.00 0.00 0.00 3.85
3168 3525 6.975772 CAGAAAAACATGGAAGGTAAAAACGA 59.024 34.615 0.00 0.00 0.00 3.85
3169 3526 6.754675 ACAGAAAAACATGGAAGGTAAAAACG 59.245 34.615 0.00 0.00 0.00 3.60
3170 3527 9.589111 TTACAGAAAAACATGGAAGGTAAAAAC 57.411 29.630 0.00 0.00 0.00 2.43
3171 3528 9.589111 GTTACAGAAAAACATGGAAGGTAAAAA 57.411 29.630 0.00 0.00 0.00 1.94
3172 3529 8.750298 TGTTACAGAAAAACATGGAAGGTAAAA 58.250 29.630 0.00 0.00 32.07 1.52
3173 3530 8.192110 GTGTTACAGAAAAACATGGAAGGTAAA 58.808 33.333 0.00 0.00 38.95 2.01
3174 3531 7.339721 TGTGTTACAGAAAAACATGGAAGGTAA 59.660 33.333 0.00 0.00 38.95 2.85
3175 3532 6.829298 TGTGTTACAGAAAAACATGGAAGGTA 59.171 34.615 0.00 0.00 38.95 3.08
3176 3533 5.654650 TGTGTTACAGAAAAACATGGAAGGT 59.345 36.000 0.00 0.00 38.95 3.50
3177 3534 5.977129 GTGTGTTACAGAAAAACATGGAAGG 59.023 40.000 0.00 0.00 38.95 3.46
3178 3535 5.977129 GGTGTGTTACAGAAAAACATGGAAG 59.023 40.000 0.00 0.00 38.95 3.46
3179 3536 5.654650 AGGTGTGTTACAGAAAAACATGGAA 59.345 36.000 0.00 0.00 38.95 3.53
3180 3537 5.197451 AGGTGTGTTACAGAAAAACATGGA 58.803 37.500 0.00 0.00 38.95 3.41
3181 3538 5.514274 AGGTGTGTTACAGAAAAACATGG 57.486 39.130 0.00 0.00 38.95 3.66
3182 3539 7.201513 CCAAAAGGTGTGTTACAGAAAAACATG 60.202 37.037 0.00 0.00 38.95 3.21
3183 3540 6.816140 CCAAAAGGTGTGTTACAGAAAAACAT 59.184 34.615 0.00 0.00 38.95 2.71
3184 3541 6.159988 CCAAAAGGTGTGTTACAGAAAAACA 58.840 36.000 0.00 0.00 34.56 2.83
3185 3542 6.160684 ACCAAAAGGTGTGTTACAGAAAAAC 58.839 36.000 0.00 0.00 0.00 2.43
3186 3543 6.347859 ACCAAAAGGTGTGTTACAGAAAAA 57.652 33.333 0.00 0.00 0.00 1.94
3187 3544 5.986501 ACCAAAAGGTGTGTTACAGAAAA 57.013 34.783 0.00 0.00 0.00 2.29
3188 3545 5.986501 AACCAAAAGGTGTGTTACAGAAA 57.013 34.783 0.00 0.00 0.00 2.52
3189 3546 7.648039 AATAACCAAAAGGTGTGTTACAGAA 57.352 32.000 0.00 0.00 30.53 3.02
3190 3547 7.994334 AGTAATAACCAAAAGGTGTGTTACAGA 59.006 33.333 14.15 0.00 30.53 3.41
3191 3548 8.073768 CAGTAATAACCAAAAGGTGTGTTACAG 58.926 37.037 14.15 7.13 30.53 2.74
3192 3549 7.774157 TCAGTAATAACCAAAAGGTGTGTTACA 59.226 33.333 14.15 0.00 30.53 2.41
3193 3550 8.156994 TCAGTAATAACCAAAAGGTGTGTTAC 57.843 34.615 0.00 0.00 30.53 2.50
3194 3551 8.927675 ATCAGTAATAACCAAAAGGTGTGTTA 57.072 30.769 0.00 0.00 31.59 2.41
3195 3552 7.833285 ATCAGTAATAACCAAAAGGTGTGTT 57.167 32.000 0.00 0.00 0.00 3.32
3196 3553 8.161425 AGTATCAGTAATAACCAAAAGGTGTGT 58.839 33.333 0.00 0.00 0.00 3.72
3197 3554 8.561738 AGTATCAGTAATAACCAAAAGGTGTG 57.438 34.615 0.00 0.00 0.00 3.82
3198 3555 8.380099 TGAGTATCAGTAATAACCAAAAGGTGT 58.620 33.333 0.00 0.00 42.56 4.16
3199 3556 8.786826 TGAGTATCAGTAATAACCAAAAGGTG 57.213 34.615 0.00 0.00 42.56 4.00
3218 3575 9.998106 ACTAAAACACAAAGTAGACATGAGTAT 57.002 29.630 0.00 0.00 0.00 2.12
3219 3576 9.256477 CACTAAAACACAAAGTAGACATGAGTA 57.744 33.333 0.00 0.00 0.00 2.59
3220 3577 7.985184 TCACTAAAACACAAAGTAGACATGAGT 59.015 33.333 0.00 0.00 0.00 3.41
3221 3578 8.365399 TCACTAAAACACAAAGTAGACATGAG 57.635 34.615 0.00 0.00 0.00 2.90
3222 3579 8.773645 CATCACTAAAACACAAAGTAGACATGA 58.226 33.333 0.00 0.00 0.00 3.07
3223 3580 8.773645 TCATCACTAAAACACAAAGTAGACATG 58.226 33.333 0.00 0.00 0.00 3.21
3224 3581 8.902540 TCATCACTAAAACACAAAGTAGACAT 57.097 30.769 0.00 0.00 0.00 3.06
3225 3582 8.609176 GTTCATCACTAAAACACAAAGTAGACA 58.391 33.333 0.00 0.00 0.00 3.41
3226 3583 8.068380 GGTTCATCACTAAAACACAAAGTAGAC 58.932 37.037 0.00 0.00 0.00 2.59
3227 3584 7.771361 TGGTTCATCACTAAAACACAAAGTAGA 59.229 33.333 0.00 0.00 0.00 2.59
3228 3585 7.925993 TGGTTCATCACTAAAACACAAAGTAG 58.074 34.615 0.00 0.00 0.00 2.57
3229 3586 7.867305 TGGTTCATCACTAAAACACAAAGTA 57.133 32.000 0.00 0.00 0.00 2.24
3230 3587 6.767524 TGGTTCATCACTAAAACACAAAGT 57.232 33.333 0.00 0.00 0.00 2.66
3231 3588 8.647143 AAATGGTTCATCACTAAAACACAAAG 57.353 30.769 0.00 0.00 0.00 2.77
3232 3589 9.092876 GAAAATGGTTCATCACTAAAACACAAA 57.907 29.630 0.00 0.00 0.00 2.83
3233 3590 8.253810 TGAAAATGGTTCATCACTAAAACACAA 58.746 29.630 0.00 0.00 0.00 3.33
3234 3591 7.776107 TGAAAATGGTTCATCACTAAAACACA 58.224 30.769 0.00 0.00 0.00 3.72
3235 3592 8.702438 CATGAAAATGGTTCATCACTAAAACAC 58.298 33.333 0.00 0.00 37.06 3.32
3236 3593 8.420222 ACATGAAAATGGTTCATCACTAAAACA 58.580 29.630 0.00 0.00 37.06 2.83
3237 3594 8.816640 ACATGAAAATGGTTCATCACTAAAAC 57.183 30.769 0.00 0.00 37.06 2.43
3238 3595 9.829507 AAACATGAAAATGGTTCATCACTAAAA 57.170 25.926 0.00 0.00 37.06 1.52
3239 3596 9.258826 CAAACATGAAAATGGTTCATCACTAAA 57.741 29.630 0.00 0.00 37.06 1.85
3240 3597 8.420222 ACAAACATGAAAATGGTTCATCACTAA 58.580 29.630 0.00 0.00 37.06 2.24
3241 3598 7.866898 CACAAACATGAAAATGGTTCATCACTA 59.133 33.333 0.00 0.00 37.06 2.74
3242 3599 6.702723 CACAAACATGAAAATGGTTCATCACT 59.297 34.615 0.00 0.00 37.06 3.41
3243 3600 6.479660 ACACAAACATGAAAATGGTTCATCAC 59.520 34.615 0.00 0.00 37.06 3.06
3244 3601 6.580788 ACACAAACATGAAAATGGTTCATCA 58.419 32.000 0.00 0.00 37.06 3.07
3245 3602 8.586570 TTACACAAACATGAAAATGGTTCATC 57.413 30.769 0.00 0.00 37.06 2.92
3246 3603 8.825745 GTTTACACAAACATGAAAATGGTTCAT 58.174 29.630 0.00 0.00 43.02 2.57
3247 3604 8.190888 GTTTACACAAACATGAAAATGGTTCA 57.809 30.769 0.00 0.00 43.02 3.18
3265 3622 7.201487 GTTGGAAACTTGGAACAATGTTTACAC 60.201 37.037 15.20 10.38 45.32 2.90
3266 3623 6.814146 GTTGGAAACTTGGAACAATGTTTACA 59.186 34.615 0.00 13.17 45.32 2.41
3267 3624 7.229228 GTTGGAAACTTGGAACAATGTTTAC 57.771 36.000 0.00 0.00 45.32 2.01
3284 3641 5.304101 GTGCAATGATATATGGGGTTGGAAA 59.696 40.000 0.00 0.00 0.00 3.13
3285 3642 4.832266 GTGCAATGATATATGGGGTTGGAA 59.168 41.667 0.00 0.00 0.00 3.53
3286 3643 4.141065 TGTGCAATGATATATGGGGTTGGA 60.141 41.667 0.00 0.00 0.00 3.53
3287 3644 4.151121 TGTGCAATGATATATGGGGTTGG 58.849 43.478 0.00 0.00 0.00 3.77
3288 3645 5.787953 TTGTGCAATGATATATGGGGTTG 57.212 39.130 0.00 0.00 0.00 3.77
3289 3646 6.999705 ATTTGTGCAATGATATATGGGGTT 57.000 33.333 0.00 0.00 0.00 4.11
3290 3647 6.999705 AATTTGTGCAATGATATATGGGGT 57.000 33.333 0.00 0.00 0.00 4.95
3291 3648 7.894708 TGTAATTTGTGCAATGATATATGGGG 58.105 34.615 0.00 0.00 0.00 4.96
3292 3649 9.932207 AATGTAATTTGTGCAATGATATATGGG 57.068 29.630 0.00 0.00 26.74 4.00


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

AutoCloner maintained by Alex Coulton.