Multiple sequence alignment - TraesCS5A01G000800

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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 TraesCS5A01G000800 chr5A 100.000 2333 0 0 613 2945 653515 655847 0.000000e+00 4309.0
1 TraesCS5A01G000800 chr5A 98.563 348 4 1 2599 2945 680178 680525 5.390000e-172 614.0
2 TraesCS5A01G000800 chr5A 100.000 282 0 0 1 282 652903 653184 3.360000e-144 521.0
3 TraesCS5A01G000800 chr5A 78.917 517 73 15 1162 1673 536222274 536222759 4.740000e-83 318.0
4 TraesCS5A01G000800 chr5A 90.476 189 16 2 2757 2945 44340474 44340288 6.300000e-62 248.0
5 TraesCS5A01G000800 chr5A 77.259 321 18 23 896 1161 536221870 536222190 1.420000e-28 137.0
6 TraesCS5A01G000800 chr5A 96.970 33 1 0 1663 1695 451888837 451888805 4.100000e-04 56.5
7 TraesCS5A01G000800 chr5B 88.550 1476 88 36 1350 2756 87726 86263 0.000000e+00 1714.0
8 TraesCS5A01G000800 chr5B 93.648 551 30 3 613 1161 88825 88278 0.000000e+00 819.0
9 TraesCS5A01G000800 chr5B 82.556 579 69 16 2207 2756 56912 56337 5.710000e-132 481.0
10 TraesCS5A01G000800 chr5B 85.447 481 42 22 1724 2180 57388 56912 2.660000e-130 475.0
11 TraesCS5A01G000800 chr5B 94.700 283 14 1 1 282 89158 88876 3.480000e-119 438.0
12 TraesCS5A01G000800 chr5B 93.651 189 11 1 2757 2945 470359028 470358841 6.210000e-72 281.0
13 TraesCS5A01G000800 chr5B 90.476 189 16 2 2757 2945 671362951 671363137 6.300000e-62 248.0
14 TraesCS5A01G000800 chr5B 91.925 161 13 0 1162 1322 88193 88033 2.950000e-55 226.0
15 TraesCS5A01G000800 chr5D 88.889 387 34 6 1721 2101 1534092 1534475 4.440000e-128 468.0
16 TraesCS5A01G000800 chr5D 83.960 505 54 16 1162 1666 1533529 1534006 2.670000e-125 459.0
17 TraesCS5A01G000800 chr5D 92.086 278 21 1 3 279 374655644 374655921 9.900000e-105 390.0
18 TraesCS5A01G000800 chr5D 91.519 283 23 1 1 282 30943929 30944211 3.560000e-104 388.0
19 TraesCS5A01G000800 chr5D 82.544 338 33 14 837 1161 1533135 1533459 1.040000e-69 274.0
20 TraesCS5A01G000800 chr5D 89.848 197 18 2 2750 2945 424179683 424179488 4.870000e-63 252.0
21 TraesCS5A01G000800 chr5D 85.903 227 32 0 1427 1653 1540121 1540347 2.930000e-60 243.0
22 TraesCS5A01G000800 chr5D 88.177 203 20 4 2747 2945 327598281 327598483 3.790000e-59 239.0
23 TraesCS5A01G000800 chr5D 88.136 177 13 4 832 1000 1516048 1516224 1.380000e-48 204.0
24 TraesCS5A01G000800 chr5D 87.571 177 14 4 832 1000 1509332 1509508 6.440000e-47 198.0
25 TraesCS5A01G000800 chr5D 86.170 188 16 6 832 1011 1522410 1522595 8.330000e-46 195.0
26 TraesCS5A01G000800 chr5D 86.441 177 16 4 832 1000 1498618 1498794 1.390000e-43 187.0
27 TraesCS5A01G000800 chr5D 80.695 259 33 9 2100 2350 1534622 1534871 5.010000e-43 185.0
28 TraesCS5A01G000800 chr5D 79.343 213 42 2 2545 2756 509559823 509560034 6.580000e-32 148.0
29 TraesCS5A01G000800 chr5D 100.000 33 0 0 1663 1695 84319360 84319392 8.810000e-06 62.1
30 TraesCS5A01G000800 chr2A 93.262 282 18 1 1 281 770979240 770978959 5.870000e-112 414.0
31 TraesCS5A01G000800 chr2A 96.970 33 1 0 1663 1695 738832316 738832284 4.100000e-04 56.5
32 TraesCS5A01G000800 chr4D 92.933 283 19 1 1 282 502491073 502490791 7.600000e-111 411.0
33 TraesCS5A01G000800 chr4D 96.970 33 1 0 1663 1695 1640029 1639997 4.100000e-04 56.5
34 TraesCS5A01G000800 chr3D 92.199 282 21 1 2 282 506000459 506000178 5.910000e-107 398.0
35 TraesCS5A01G000800 chr3D 91.873 283 21 2 1 282 588018631 588018912 7.650000e-106 394.0
36 TraesCS5A01G000800 chr3D 82.857 70 11 1 2243 2312 328524815 328524883 8.810000e-06 62.1
37 TraesCS5A01G000800 chr2D 91.873 283 22 1 1 282 645447453 645447171 7.650000e-106 394.0
38 TraesCS5A01G000800 chr1D 91.873 283 22 1 1 282 408412811 408413093 7.650000e-106 394.0
39 TraesCS5A01G000800 chr1D 96.970 33 1 0 1663 1695 481696699 481696731 4.100000e-04 56.5
40 TraesCS5A01G000800 chr6B 91.053 190 15 2 2756 2945 676868894 676868707 3.770000e-64 255.0
41 TraesCS5A01G000800 chr3B 91.099 191 13 4 2756 2945 799799395 799799208 3.770000e-64 255.0
42 TraesCS5A01G000800 chr7B 90.957 188 11 5 2757 2943 104522115 104521933 6.300000e-62 248.0
43 TraesCS5A01G000800 chr7B 97.059 34 1 0 1662 1695 54501897 54501930 1.140000e-04 58.4
44 TraesCS5A01G000800 chr7B 92.500 40 3 0 1656 1695 75606434 75606395 1.140000e-04 58.4
45 TraesCS5A01G000800 chr4A 81.481 135 16 7 2243 2369 432459806 432459939 5.190000e-18 102.0
46 TraesCS5A01G000800 chr4A 80.882 136 17 7 2243 2371 363154013 363153880 6.720000e-17 99.0
47 TraesCS5A01G000800 chr3A 78.676 136 20 7 2243 2370 666234686 666234820 6.760000e-12 82.4
48 TraesCS5A01G000800 chr1A 77.698 139 20 8 2243 2371 400933067 400932930 1.130000e-09 75.0
49 TraesCS5A01G000800 chr1B 77.419 124 19 7 2243 2359 434532091 434532212 6.810000e-07 65.8
50 TraesCS5A01G000800 chr1B 92.683 41 1 2 1656 1695 196147126 196147165 1.140000e-04 58.4
51 TraesCS5A01G000800 chr6A 87.273 55 7 0 647 701 555766315 555766261 2.450000e-06 63.9


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 TraesCS5A01G000800 chr5A 652903 655847 2944 False 2415.00 4309 100.00000 1 2945 2 chr5A.!!$F2 2944
1 TraesCS5A01G000800 chr5A 536221870 536222759 889 False 227.50 318 78.08800 896 1673 2 chr5A.!!$F3 777
2 TraesCS5A01G000800 chr5B 86263 89158 2895 True 799.25 1714 92.20575 1 2756 4 chr5B.!!$R3 2755
3 TraesCS5A01G000800 chr5B 56337 57388 1051 True 478.00 481 84.00150 1724 2756 2 chr5B.!!$R2 1032
4 TraesCS5A01G000800 chr5D 1533135 1534871 1736 False 346.50 468 84.02200 837 2350 4 chr5D.!!$F11 1513

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
952 969 0.704076 CTTTCATTCCCCTCCCCACA 59.296 55.0 0.0 0.0 0.0 4.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2895 3669 0.040646 TGTTAGAAGGGAGAGCGGGA 59.959 55.0 0.0 0.0 0.0 5.14 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
180 182 2.270205 CAATGGAGGCACCGCTCT 59.730 61.111 0.00 0.00 42.61 4.09
746 749 0.890542 TCCAACCTCTGCATGCACAC 60.891 55.000 18.46 0.00 0.00 3.82
759 762 2.031012 CACACGAGGCAGCCAAGA 59.969 61.111 15.80 0.00 0.00 3.02
795 799 4.530388 CGATTTGCCATGCTACTAACATG 58.470 43.478 0.00 0.00 43.67 3.21
828 832 3.758021 GAGGATGTCCCCATCACAACCT 61.758 54.545 1.57 1.57 46.69 3.50
829 833 2.514458 GATGTCCCCATCACAACCTT 57.486 50.000 0.00 0.00 45.68 3.50
830 834 3.644966 GATGTCCCCATCACAACCTTA 57.355 47.619 0.00 0.00 45.68 2.69
835 839 5.505780 TGTCCCCATCACAACCTTATTAAG 58.494 41.667 0.00 0.00 0.00 1.85
885 889 2.696775 TCCACTTACTTTGGGACAGGA 58.303 47.619 0.00 0.00 42.39 3.86
952 969 0.704076 CTTTCATTCCCCTCCCCACA 59.296 55.000 0.00 0.00 0.00 4.17
961 982 0.967380 CCCTCCCCACAACTTGCATC 60.967 60.000 0.00 0.00 0.00 3.91
966 987 2.568090 CACAACTTGCATCCCCGC 59.432 61.111 0.00 0.00 0.00 6.13
996 1033 7.872138 ACATGGTTCCTTCCTCATAATAAGAA 58.128 34.615 0.00 0.00 0.00 2.52
1033 1078 2.383527 CGCAAGAAGCCGACCAGAC 61.384 63.158 0.00 0.00 41.38 3.51
1092 1153 3.381045 CATGCATCTCCATGTGAATTGC 58.619 45.455 0.00 2.26 38.19 3.56
1179 1351 5.828299 TTTTCTACCACCAAACTGACAAG 57.172 39.130 0.00 0.00 0.00 3.16
1196 1368 4.035091 TGACAAGAACGAAATGAACACAGG 59.965 41.667 0.00 0.00 0.00 4.00
1221 1393 9.472361 GGAAAGTTAAAAAGGTTCCTAATTGAC 57.528 33.333 0.00 0.00 35.80 3.18
1232 1404 5.514310 GGTTCCTAATTGACTTGGTGGTAGT 60.514 44.000 0.00 0.00 0.00 2.73
1240 1412 3.131577 TGACTTGGTGGTAGTATTAGGCG 59.868 47.826 0.00 0.00 0.00 5.52
1261 1433 2.988688 GCGGCCTTGATTTTCGCCA 61.989 57.895 0.00 0.00 41.71 5.69
1262 1434 1.583986 CGGCCTTGATTTTCGCCAA 59.416 52.632 0.00 0.00 41.71 4.52
1485 1980 3.057337 GGTGAGTGCGTGTACCCT 58.943 61.111 0.00 0.00 0.00 4.34
1500 1995 3.197766 TGTACCCTATGAGCCTGTCTTTG 59.802 47.826 0.00 0.00 0.00 2.77
1559 2054 2.182825 CGTCTCGTATTTCACCTTCCG 58.817 52.381 0.00 0.00 0.00 4.30
1575 2070 3.190849 CGACACGGATGCTGCTGG 61.191 66.667 0.00 0.00 0.00 4.85
1601 2096 1.805945 GCGACGGCGTCTCTGATTT 60.806 57.895 33.90 0.00 40.36 2.17
1679 2198 7.779798 AGCCCTTCATAAATAAATACAAGAGCA 59.220 33.333 0.00 0.00 0.00 4.26
1718 2259 1.943730 AATGGTGTGGGTGTGGGTGT 61.944 55.000 0.00 0.00 0.00 4.16
1744 2285 1.506262 GGCGTGTGCAGGTTATTGG 59.494 57.895 0.00 0.00 45.35 3.16
1781 2322 3.749404 GACTATATCTCGTCGATGTGGC 58.251 50.000 4.21 0.00 33.48 5.01
1825 2367 1.347378 GTAAACCCCCGGAGTGTTACA 59.653 52.381 0.73 0.00 0.00 2.41
1870 2412 4.191544 TCACCTTATGGAGAAAGCATTCG 58.808 43.478 0.81 0.00 37.43 3.34
1910 2452 0.748005 GCCTTTGCAATCGGCTCCTA 60.748 55.000 25.01 0.00 45.15 2.94
1936 2481 1.954035 ACTTTCCCCTCCTCCTGTAC 58.046 55.000 0.00 0.00 0.00 2.90
1950 2507 3.702045 CTCCTGTACAAACCTAGCTAGCT 59.298 47.826 23.12 23.12 0.00 3.32
1951 2508 4.863548 TCCTGTACAAACCTAGCTAGCTA 58.136 43.478 22.85 22.85 0.00 3.32
2133 2873 8.718102 TGAGGGATATTTTTCTTAACTTCGAG 57.282 34.615 0.00 0.00 0.00 4.04
2148 2888 5.725325 ACTTCGAGTCTAGTTAGGCTTTT 57.275 39.130 0.00 0.00 38.61 2.27
2149 2889 5.471257 ACTTCGAGTCTAGTTAGGCTTTTG 58.529 41.667 0.00 0.00 38.61 2.44
2254 2997 8.144478 GTGAGCTGGTCATCTAATCATAACTAA 58.856 37.037 13.18 0.00 37.56 2.24
2276 3019 9.646427 ACTAAGTATTTGTTCAAGCAAAAACAA 57.354 25.926 6.48 6.48 42.07 2.83
2283 3026 7.532682 TTGTTCAAGCAAAAACAAATACCTC 57.467 32.000 7.74 0.00 41.15 3.85
2366 3119 1.593006 CTTGTCGATATTCCCGTGTGC 59.407 52.381 0.00 0.00 0.00 4.57
2400 3153 3.402681 CTCCGCCTCCACCATGGT 61.403 66.667 13.00 13.00 39.03 3.55
2433 3207 3.357079 CGGCTTTGCGTGCTCCTT 61.357 61.111 0.00 0.00 0.00 3.36
2445 3219 2.119655 GCTCCTTCTCCGGCTACGA 61.120 63.158 0.00 0.00 44.60 3.43
2533 3307 2.336478 CCGACGCTCTGGAGTCAGT 61.336 63.158 0.00 0.00 41.30 3.41
2636 3410 2.366435 GGGAAGGGATGGGGACGA 60.366 66.667 0.00 0.00 0.00 4.20
2655 3429 1.050988 ACATAGAGATGGGCTGCCGT 61.051 55.000 13.40 3.43 37.39 5.68
2656 3430 0.320247 CATAGAGATGGGCTGCCGTC 60.320 60.000 13.40 13.19 0.00 4.79
2661 3435 4.457496 ATGGGCTGCCGTCGTCTG 62.457 66.667 13.40 0.00 0.00 3.51
2756 3530 4.070552 GAGGCGCTCGTTGGACCT 62.071 66.667 7.64 0.00 0.00 3.85
2757 3531 4.379243 AGGCGCTCGTTGGACCTG 62.379 66.667 7.64 0.00 0.00 4.00
2758 3532 4.681978 GGCGCTCGTTGGACCTGT 62.682 66.667 7.64 0.00 0.00 4.00
2759 3533 2.665185 GCGCTCGTTGGACCTGTT 60.665 61.111 0.00 0.00 0.00 3.16
2760 3534 2.954753 GCGCTCGTTGGACCTGTTG 61.955 63.158 0.00 0.00 0.00 3.33
2761 3535 1.300620 CGCTCGTTGGACCTGTTGA 60.301 57.895 0.00 0.00 0.00 3.18
2762 3536 1.284982 CGCTCGTTGGACCTGTTGAG 61.285 60.000 0.00 0.00 0.00 3.02
2763 3537 0.249911 GCTCGTTGGACCTGTTGAGT 60.250 55.000 0.00 0.00 0.00 3.41
2764 3538 1.000506 GCTCGTTGGACCTGTTGAGTA 59.999 52.381 0.00 0.00 0.00 2.59
2765 3539 2.547218 GCTCGTTGGACCTGTTGAGTAA 60.547 50.000 0.00 0.00 0.00 2.24
2766 3540 3.057734 CTCGTTGGACCTGTTGAGTAAC 58.942 50.000 0.00 0.00 37.32 2.50
2767 3541 1.790623 CGTTGGACCTGTTGAGTAACG 59.209 52.381 0.00 0.00 39.71 3.18
2768 3542 2.800629 CGTTGGACCTGTTGAGTAACGT 60.801 50.000 0.00 0.00 39.71 3.99
2769 3543 2.519377 TGGACCTGTTGAGTAACGTG 57.481 50.000 0.00 0.00 39.71 4.49
2770 3544 2.033372 TGGACCTGTTGAGTAACGTGA 58.967 47.619 0.00 0.00 39.71 4.35
2771 3545 2.631062 TGGACCTGTTGAGTAACGTGAT 59.369 45.455 0.00 0.00 39.71 3.06
2772 3546 3.070446 TGGACCTGTTGAGTAACGTGATT 59.930 43.478 0.00 0.00 39.71 2.57
2773 3547 3.432252 GGACCTGTTGAGTAACGTGATTG 59.568 47.826 0.00 0.00 39.71 2.67
2774 3548 4.056050 GACCTGTTGAGTAACGTGATTGT 58.944 43.478 0.00 0.00 39.71 2.71
2775 3549 5.204409 ACCTGTTGAGTAACGTGATTGTA 57.796 39.130 0.00 0.00 39.71 2.41
2776 3550 5.790593 ACCTGTTGAGTAACGTGATTGTAT 58.209 37.500 0.00 0.00 39.71 2.29
2777 3551 6.228258 ACCTGTTGAGTAACGTGATTGTATT 58.772 36.000 0.00 0.00 39.71 1.89
2778 3552 7.380536 ACCTGTTGAGTAACGTGATTGTATTA 58.619 34.615 0.00 0.00 39.71 0.98
2779 3553 7.874016 ACCTGTTGAGTAACGTGATTGTATTAA 59.126 33.333 0.00 0.00 39.71 1.40
2780 3554 8.380644 CCTGTTGAGTAACGTGATTGTATTAAG 58.619 37.037 0.00 0.00 39.71 1.85
2781 3555 9.135843 CTGTTGAGTAACGTGATTGTATTAAGA 57.864 33.333 0.00 0.00 39.71 2.10
2782 3556 9.478768 TGTTGAGTAACGTGATTGTATTAAGAA 57.521 29.630 0.00 0.00 39.71 2.52
2785 3559 9.478768 TGAGTAACGTGATTGTATTAAGAAACA 57.521 29.630 0.00 0.00 0.00 2.83
2790 3564 9.661563 AACGTGATTGTATTAAGAAACATAGGA 57.338 29.630 0.00 0.00 0.00 2.94
2791 3565 9.832445 ACGTGATTGTATTAAGAAACATAGGAT 57.168 29.630 0.00 0.00 0.00 3.24
2811 3585 7.068686 AGGATAAACTAGGAAGTATTCTGGC 57.931 40.000 0.00 0.00 46.56 4.85
2812 3586 6.847036 AGGATAAACTAGGAAGTATTCTGGCT 59.153 38.462 0.00 0.00 46.56 4.75
2813 3587 7.348537 AGGATAAACTAGGAAGTATTCTGGCTT 59.651 37.037 0.00 0.00 46.56 4.35
2814 3588 7.442666 GGATAAACTAGGAAGTATTCTGGCTTG 59.557 40.741 0.00 0.00 46.56 4.01
2815 3589 5.763876 AACTAGGAAGTATTCTGGCTTGT 57.236 39.130 0.00 0.00 46.56 3.16
2816 3590 5.346181 ACTAGGAAGTATTCTGGCTTGTC 57.654 43.478 0.00 0.00 46.56 3.18
2817 3591 5.026790 ACTAGGAAGTATTCTGGCTTGTCT 58.973 41.667 0.00 0.00 46.56 3.41
2818 3592 4.917906 AGGAAGTATTCTGGCTTGTCTT 57.082 40.909 0.00 0.00 46.56 3.01
2819 3593 6.668283 ACTAGGAAGTATTCTGGCTTGTCTTA 59.332 38.462 0.00 0.00 46.56 2.10
2820 3594 6.567602 AGGAAGTATTCTGGCTTGTCTTAT 57.432 37.500 0.00 0.00 46.56 1.73
2821 3595 7.676683 AGGAAGTATTCTGGCTTGTCTTATA 57.323 36.000 0.00 0.00 46.56 0.98
2822 3596 7.501844 AGGAAGTATTCTGGCTTGTCTTATAC 58.498 38.462 0.00 0.00 46.56 1.47
2823 3597 7.345914 AGGAAGTATTCTGGCTTGTCTTATACT 59.654 37.037 0.00 0.00 46.56 2.12
2824 3598 7.988028 GGAAGTATTCTGGCTTGTCTTATACTT 59.012 37.037 0.00 0.00 46.56 2.24
2825 3599 8.950208 AAGTATTCTGGCTTGTCTTATACTTC 57.050 34.615 0.00 0.00 34.13 3.01
2826 3600 8.079211 AGTATTCTGGCTTGTCTTATACTTCA 57.921 34.615 0.00 0.00 0.00 3.02
2827 3601 8.540388 AGTATTCTGGCTTGTCTTATACTTCAA 58.460 33.333 0.00 0.00 0.00 2.69
2828 3602 9.162764 GTATTCTGGCTTGTCTTATACTTCAAA 57.837 33.333 0.00 0.00 0.00 2.69
2829 3603 8.814038 ATTCTGGCTTGTCTTATACTTCAAAT 57.186 30.769 0.00 0.00 0.00 2.32
2830 3604 9.905713 ATTCTGGCTTGTCTTATACTTCAAATA 57.094 29.630 0.00 0.00 0.00 1.40
2831 3605 8.948631 TCTGGCTTGTCTTATACTTCAAATAG 57.051 34.615 0.00 0.00 0.00 1.73
2832 3606 7.987458 TCTGGCTTGTCTTATACTTCAAATAGG 59.013 37.037 0.00 0.00 0.00 2.57
2833 3607 7.630082 TGGCTTGTCTTATACTTCAAATAGGT 58.370 34.615 0.00 0.00 0.00 3.08
2834 3608 7.769044 TGGCTTGTCTTATACTTCAAATAGGTC 59.231 37.037 0.00 0.00 0.00 3.85
2835 3609 7.769044 GGCTTGTCTTATACTTCAAATAGGTCA 59.231 37.037 0.00 0.00 0.00 4.02
2836 3610 9.331282 GCTTGTCTTATACTTCAAATAGGTCAT 57.669 33.333 0.00 0.00 0.00 3.06
2844 3618 6.875972 ACTTCAAATAGGTCATGTACTCCT 57.124 37.500 0.00 0.00 35.60 3.69
2845 3619 7.973048 ACTTCAAATAGGTCATGTACTCCTA 57.027 36.000 0.00 2.28 38.06 2.94
2846 3620 8.554490 ACTTCAAATAGGTCATGTACTCCTAT 57.446 34.615 12.19 12.19 43.69 2.57
2847 3621 9.656323 ACTTCAAATAGGTCATGTACTCCTATA 57.344 33.333 15.73 4.96 41.80 1.31
2855 3629 8.713708 AGGTCATGTACTCCTATATATATGCC 57.286 38.462 5.44 0.00 0.00 4.40
2856 3630 7.730784 AGGTCATGTACTCCTATATATATGCCC 59.269 40.741 5.44 0.00 0.00 5.36
2857 3631 7.509318 GGTCATGTACTCCTATATATATGCCCA 59.491 40.741 5.44 0.00 0.00 5.36
2858 3632 8.361139 GTCATGTACTCCTATATATATGCCCAC 58.639 40.741 5.44 0.00 0.00 4.61
2859 3633 6.954487 TGTACTCCTATATATATGCCCACG 57.046 41.667 5.44 0.00 0.00 4.94
2860 3634 6.665695 TGTACTCCTATATATATGCCCACGA 58.334 40.000 5.44 0.00 0.00 4.35
2861 3635 6.771267 TGTACTCCTATATATATGCCCACGAG 59.229 42.308 5.44 4.01 0.00 4.18
2862 3636 5.141182 ACTCCTATATATATGCCCACGAGG 58.859 45.833 5.44 2.71 39.47 4.63
2871 3645 2.032528 CCCACGAGGCTCAAGCAA 59.967 61.111 15.95 0.00 44.36 3.91
2872 3646 1.377725 CCCACGAGGCTCAAGCAAT 60.378 57.895 15.95 0.00 44.36 3.56
2873 3647 0.107703 CCCACGAGGCTCAAGCAATA 60.108 55.000 15.95 0.00 44.36 1.90
2874 3648 1.009829 CCACGAGGCTCAAGCAATAC 58.990 55.000 15.95 0.00 44.36 1.89
2875 3649 1.675714 CCACGAGGCTCAAGCAATACA 60.676 52.381 15.95 0.00 44.36 2.29
2876 3650 2.076100 CACGAGGCTCAAGCAATACAA 58.924 47.619 15.95 0.00 44.36 2.41
2877 3651 2.076863 ACGAGGCTCAAGCAATACAAC 58.923 47.619 15.95 0.00 44.36 3.32
2878 3652 1.061131 CGAGGCTCAAGCAATACAACG 59.939 52.381 15.95 0.00 44.36 4.10
2879 3653 2.346803 GAGGCTCAAGCAATACAACGA 58.653 47.619 10.25 0.00 44.36 3.85
2880 3654 2.742053 GAGGCTCAAGCAATACAACGAA 59.258 45.455 10.25 0.00 44.36 3.85
2881 3655 2.484264 AGGCTCAAGCAATACAACGAAC 59.516 45.455 4.13 0.00 44.36 3.95
2882 3656 2.484264 GGCTCAAGCAATACAACGAACT 59.516 45.455 4.13 0.00 44.36 3.01
2883 3657 3.682858 GGCTCAAGCAATACAACGAACTA 59.317 43.478 4.13 0.00 44.36 2.24
2884 3658 4.332819 GGCTCAAGCAATACAACGAACTAT 59.667 41.667 4.13 0.00 44.36 2.12
2885 3659 5.163754 GGCTCAAGCAATACAACGAACTATT 60.164 40.000 4.13 0.00 44.36 1.73
2886 3660 6.314784 GCTCAAGCAATACAACGAACTATTT 58.685 36.000 0.00 0.00 41.59 1.40
2887 3661 6.801862 GCTCAAGCAATACAACGAACTATTTT 59.198 34.615 0.00 0.00 41.59 1.82
2888 3662 7.007456 GCTCAAGCAATACAACGAACTATTTTC 59.993 37.037 0.00 0.00 41.59 2.29
2889 3663 7.866729 TCAAGCAATACAACGAACTATTTTCA 58.133 30.769 0.00 0.00 0.00 2.69
2890 3664 7.801315 TCAAGCAATACAACGAACTATTTTCAC 59.199 33.333 0.00 0.00 0.00 3.18
2891 3665 7.435068 AGCAATACAACGAACTATTTTCACT 57.565 32.000 0.00 0.00 0.00 3.41
2892 3666 8.542497 AGCAATACAACGAACTATTTTCACTA 57.458 30.769 0.00 0.00 0.00 2.74
2893 3667 8.995220 AGCAATACAACGAACTATTTTCACTAA 58.005 29.630 0.00 0.00 0.00 2.24
2894 3668 9.601971 GCAATACAACGAACTATTTTCACTAAA 57.398 29.630 0.00 0.00 0.00 1.85
2898 3672 7.813645 ACAACGAACTATTTTCACTAAATCCC 58.186 34.615 0.00 0.00 37.60 3.85
2899 3673 6.657836 ACGAACTATTTTCACTAAATCCCG 57.342 37.500 0.00 0.00 37.60 5.14
2900 3674 5.064325 ACGAACTATTTTCACTAAATCCCGC 59.936 40.000 0.00 0.00 37.60 6.13
2901 3675 5.293569 CGAACTATTTTCACTAAATCCCGCT 59.706 40.000 0.00 0.00 37.60 5.52
2902 3676 6.509677 CGAACTATTTTCACTAAATCCCGCTC 60.510 42.308 0.00 0.00 37.60 5.03
2903 3677 5.990668 ACTATTTTCACTAAATCCCGCTCT 58.009 37.500 0.00 0.00 37.60 4.09
2904 3678 6.049790 ACTATTTTCACTAAATCCCGCTCTC 58.950 40.000 0.00 0.00 37.60 3.20
2905 3679 2.981859 TTCACTAAATCCCGCTCTCC 57.018 50.000 0.00 0.00 0.00 3.71
2906 3680 1.120530 TCACTAAATCCCGCTCTCCC 58.879 55.000 0.00 0.00 0.00 4.30
2907 3681 1.123928 CACTAAATCCCGCTCTCCCT 58.876 55.000 0.00 0.00 0.00 4.20
2908 3682 1.486726 CACTAAATCCCGCTCTCCCTT 59.513 52.381 0.00 0.00 0.00 3.95
2909 3683 1.763545 ACTAAATCCCGCTCTCCCTTC 59.236 52.381 0.00 0.00 0.00 3.46
2910 3684 2.043227 CTAAATCCCGCTCTCCCTTCT 58.957 52.381 0.00 0.00 0.00 2.85
2911 3685 2.176247 AAATCCCGCTCTCCCTTCTA 57.824 50.000 0.00 0.00 0.00 2.10
2912 3686 2.176247 AATCCCGCTCTCCCTTCTAA 57.824 50.000 0.00 0.00 0.00 2.10
2913 3687 1.415200 ATCCCGCTCTCCCTTCTAAC 58.585 55.000 0.00 0.00 0.00 2.34
2914 3688 0.040646 TCCCGCTCTCCCTTCTAACA 59.959 55.000 0.00 0.00 0.00 2.41
2915 3689 1.123928 CCCGCTCTCCCTTCTAACAT 58.876 55.000 0.00 0.00 0.00 2.71
2916 3690 1.202580 CCCGCTCTCCCTTCTAACATG 60.203 57.143 0.00 0.00 0.00 3.21
2917 3691 1.202580 CCGCTCTCCCTTCTAACATGG 60.203 57.143 0.00 0.00 0.00 3.66
2918 3692 1.482593 CGCTCTCCCTTCTAACATGGT 59.517 52.381 0.00 0.00 0.00 3.55
2919 3693 2.693591 CGCTCTCCCTTCTAACATGGTA 59.306 50.000 0.00 0.00 0.00 3.25
2920 3694 3.322254 CGCTCTCCCTTCTAACATGGTAT 59.678 47.826 0.00 0.00 0.00 2.73
2921 3695 4.559704 CGCTCTCCCTTCTAACATGGTATC 60.560 50.000 0.00 0.00 0.00 2.24
2922 3696 4.345257 GCTCTCCCTTCTAACATGGTATCA 59.655 45.833 0.00 0.00 0.00 2.15
2923 3697 5.510520 GCTCTCCCTTCTAACATGGTATCAG 60.511 48.000 0.00 0.00 0.00 2.90
2924 3698 5.529289 TCTCCCTTCTAACATGGTATCAGT 58.471 41.667 0.00 0.00 0.00 3.41
2925 3699 5.964477 TCTCCCTTCTAACATGGTATCAGTT 59.036 40.000 0.00 0.00 0.00 3.16
2926 3700 6.443849 TCTCCCTTCTAACATGGTATCAGTTT 59.556 38.462 0.00 0.00 0.00 2.66
2927 3701 6.650120 TCCCTTCTAACATGGTATCAGTTTC 58.350 40.000 0.00 0.00 0.00 2.78
2928 3702 5.823045 CCCTTCTAACATGGTATCAGTTTCC 59.177 44.000 0.00 0.00 0.00 3.13
2929 3703 5.523916 CCTTCTAACATGGTATCAGTTTCCG 59.476 44.000 0.00 0.00 0.00 4.30
2930 3704 5.018539 TCTAACATGGTATCAGTTTCCGG 57.981 43.478 0.00 0.00 0.00 5.14
2931 3705 3.992943 AACATGGTATCAGTTTCCGGA 57.007 42.857 0.00 0.00 0.00 5.14
2932 3706 4.503714 AACATGGTATCAGTTTCCGGAT 57.496 40.909 4.15 0.00 0.00 4.18
2933 3707 4.503714 ACATGGTATCAGTTTCCGGATT 57.496 40.909 4.15 0.00 0.00 3.01
2934 3708 4.451900 ACATGGTATCAGTTTCCGGATTC 58.548 43.478 4.15 0.91 0.00 2.52
2935 3709 4.164221 ACATGGTATCAGTTTCCGGATTCT 59.836 41.667 4.15 3.73 0.00 2.40
2936 3710 5.365605 ACATGGTATCAGTTTCCGGATTCTA 59.634 40.000 4.15 0.00 0.00 2.10
2937 3711 5.943349 TGGTATCAGTTTCCGGATTCTAA 57.057 39.130 4.15 0.00 0.00 2.10
2938 3712 6.302535 TGGTATCAGTTTCCGGATTCTAAA 57.697 37.500 4.15 0.00 0.00 1.85
2939 3713 6.110707 TGGTATCAGTTTCCGGATTCTAAAC 58.889 40.000 4.15 6.39 34.13 2.01
2940 3714 5.526479 GGTATCAGTTTCCGGATTCTAAACC 59.474 44.000 4.15 10.70 34.39 3.27
2941 3715 3.946606 TCAGTTTCCGGATTCTAAACCC 58.053 45.455 4.15 0.00 34.39 4.11
2942 3716 3.585732 TCAGTTTCCGGATTCTAAACCCT 59.414 43.478 4.15 0.00 34.39 4.34
2943 3717 4.778958 TCAGTTTCCGGATTCTAAACCCTA 59.221 41.667 4.15 0.00 34.39 3.53
2944 3718 5.105064 TCAGTTTCCGGATTCTAAACCCTAG 60.105 44.000 4.15 0.00 34.39 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
108 110 0.249657 GGATCTCATGTCCCGACTGC 60.250 60.000 0.00 0.00 0.00 4.40
110 112 1.115467 GTGGATCTCATGTCCCGACT 58.885 55.000 0.00 0.00 34.76 4.18
112 114 1.391933 CGGTGGATCTCATGTCCCGA 61.392 60.000 0.00 0.00 34.43 5.14
173 175 0.468400 GACCCCAGATCTAGAGCGGT 60.468 60.000 14.73 10.85 0.00 5.68
622 624 2.286197 GTCCCCCAACCCTAGCCT 60.286 66.667 0.00 0.00 0.00 4.58
679 682 7.333423 AGTGAGAGTAACATAGCGCATTTAAAA 59.667 33.333 11.47 0.00 0.00 1.52
682 685 5.902681 AGTGAGAGTAACATAGCGCATTTA 58.097 37.500 11.47 0.00 0.00 1.40
685 688 5.241728 TCATAGTGAGAGTAACATAGCGCAT 59.758 40.000 11.47 0.00 0.00 4.73
701 704 4.225042 ACAATGTTAGGCCAGTCATAGTGA 59.775 41.667 5.01 0.00 0.00 3.41
746 749 1.227497 GATCCTCTTGGCTGCCTCG 60.227 63.158 21.03 10.69 0.00 4.63
759 762 2.648059 CAAATCGGCAAGAAGGATCCT 58.352 47.619 9.02 9.02 0.00 3.24
830 834 8.980481 TTCTTGGAGAGTCAAACTTTCTTAAT 57.020 30.769 0.00 0.00 30.79 1.40
835 839 6.510317 CGACTTTCTTGGAGAGTCAAACTTTC 60.510 42.308 15.18 0.00 41.82 2.62
885 889 5.236695 GGAGCTAGTTTCTCGTTTGTTTCTT 59.763 40.000 0.00 0.00 0.00 2.52
952 969 2.040544 CGAAGCGGGGATGCAAGTT 61.041 57.895 0.00 0.00 37.31 2.66
961 982 2.046314 AACCATGTCGAAGCGGGG 60.046 61.111 0.00 0.00 0.00 5.73
966 987 2.028112 TGAGGAAGGAACCATGTCGAAG 60.028 50.000 0.00 0.00 0.00 3.79
1018 1059 1.201429 ATGGGTCTGGTCGGCTTCTT 61.201 55.000 0.00 0.00 0.00 2.52
1033 1078 3.128589 CGGGACTGAAATTTGTGTATGGG 59.871 47.826 0.00 0.00 0.00 4.00
1092 1153 6.203530 AGACATTATGGAAATACATGCACTCG 59.796 38.462 0.00 0.00 32.39 4.18
1179 1351 5.169836 ACTTTCCTGTGTTCATTTCGTTC 57.830 39.130 0.00 0.00 0.00 3.95
1221 1393 3.814005 ACGCCTAATACTACCACCAAG 57.186 47.619 0.00 0.00 0.00 3.61
1240 1412 0.248094 GCGAAAATCAAGGCCGCTAC 60.248 55.000 0.00 0.00 42.24 3.58
1338 1809 8.968242 GCAAATTAACAAACAACCAAAAACAAA 58.032 25.926 0.00 0.00 0.00 2.83
1339 1810 8.134895 TGCAAATTAACAAACAACCAAAAACAA 58.865 25.926 0.00 0.00 0.00 2.83
1340 1811 7.648142 TGCAAATTAACAAACAACCAAAAACA 58.352 26.923 0.00 0.00 0.00 2.83
1341 1812 8.582096 CATGCAAATTAACAAACAACCAAAAAC 58.418 29.630 0.00 0.00 0.00 2.43
1342 1813 8.299570 ACATGCAAATTAACAAACAACCAAAAA 58.700 25.926 0.00 0.00 0.00 1.94
1343 1814 7.752239 CACATGCAAATTAACAAACAACCAAAA 59.248 29.630 0.00 0.00 0.00 2.44
1348 1819 9.760660 TTAAACACATGCAAATTAACAAACAAC 57.239 25.926 0.00 0.00 0.00 3.32
1385 1856 8.792633 ACAACAACCAAGTAAGTATAGTACGTA 58.207 33.333 0.00 0.00 0.00 3.57
1386 1857 7.661040 ACAACAACCAAGTAAGTATAGTACGT 58.339 34.615 0.00 0.00 0.00 3.57
1387 1858 9.624697 TTACAACAACCAAGTAAGTATAGTACG 57.375 33.333 0.00 0.00 0.00 3.67
1485 1980 1.985159 ACCACCAAAGACAGGCTCATA 59.015 47.619 0.00 0.00 0.00 2.15
1500 1995 4.589675 TCGGCCAAACCCACCACC 62.590 66.667 2.24 0.00 33.26 4.61
1559 2054 2.821366 CCCAGCAGCATCCGTGTC 60.821 66.667 0.00 0.00 0.00 3.67
1728 2269 1.134487 CGCCAATAACCTGCACACG 59.866 57.895 0.00 0.00 0.00 4.49
1731 2272 0.596082 ACAACGCCAATAACCTGCAC 59.404 50.000 0.00 0.00 0.00 4.57
1825 2367 3.025262 GGTGATCCGTCTTAAGAGAGGT 58.975 50.000 20.36 6.92 36.33 3.85
1870 2412 2.027385 GATGGCAAAGATGAAGGGTCC 58.973 52.381 0.00 0.00 0.00 4.46
1910 2452 2.108425 GGAGGAGGGGAAAGTTTCTTGT 59.892 50.000 15.05 0.22 0.00 3.16
1936 2481 2.873133 ACGCTAGCTAGCTAGGTTTG 57.127 50.000 39.60 23.47 46.85 2.93
1950 2507 1.027357 GTTGGGGAGATCGTACGCTA 58.973 55.000 11.24 0.00 0.00 4.26
1951 2508 0.968901 TGTTGGGGAGATCGTACGCT 60.969 55.000 11.24 0.00 0.00 5.07
2122 2862 6.439675 AGCCTAACTAGACTCGAAGTTAAG 57.560 41.667 8.39 4.55 37.65 1.85
2131 2871 8.884726 CCTAATTTCAAAAGCCTAACTAGACTC 58.115 37.037 0.00 0.00 0.00 3.36
2133 2873 7.827729 TCCCTAATTTCAAAAGCCTAACTAGAC 59.172 37.037 0.00 0.00 0.00 2.59
2148 2888 4.693283 CACATAGACGCTCCCTAATTTCA 58.307 43.478 0.00 0.00 0.00 2.69
2149 2889 3.495001 GCACATAGACGCTCCCTAATTTC 59.505 47.826 0.00 0.00 0.00 2.17
2223 2966 0.461516 AGATGACCAGCTCACGCATG 60.462 55.000 0.00 0.00 39.10 4.06
2276 3019 1.834263 GTGGACCAGAGCTGAGGTATT 59.166 52.381 6.66 0.00 38.50 1.89
2277 3020 1.490574 GTGGACCAGAGCTGAGGTAT 58.509 55.000 6.66 0.00 38.50 2.73
2400 3153 0.753262 GCCGGAGAAGGAGAATGCTA 59.247 55.000 5.05 0.00 33.13 3.49
2433 3207 1.030457 GGATTCTTCGTAGCCGGAGA 58.970 55.000 5.05 0.00 46.94 3.71
2445 3219 2.592308 GCCTGCCTCCGGATTCTT 59.408 61.111 3.57 0.00 0.00 2.52
2466 3240 1.153647 CGCGATGTGAGGGTTGCTA 60.154 57.895 0.00 0.00 0.00 3.49
2533 3307 4.082026 CAGAGGATCACCATGTATGCGATA 60.082 45.833 0.00 0.00 37.82 2.92
2613 3387 1.004758 CCCATCCCTTCCCTCTCCA 59.995 63.158 0.00 0.00 0.00 3.86
2636 3410 1.050988 ACGGCAGCCCATCTCTATGT 61.051 55.000 5.63 0.00 0.00 2.29
2756 3530 9.478768 TTCTTAATACAATCACGTTACTCAACA 57.521 29.630 0.00 0.00 34.05 3.33
2759 3533 9.478768 TGTTTCTTAATACAATCACGTTACTCA 57.521 29.630 0.00 0.00 0.00 3.41
2764 3538 9.661563 TCCTATGTTTCTTAATACAATCACGTT 57.338 29.630 0.00 0.00 0.00 3.99
2765 3539 9.832445 ATCCTATGTTTCTTAATACAATCACGT 57.168 29.630 0.00 0.00 0.00 4.49
2785 3559 8.817876 GCCAGAATACTTCCTAGTTTATCCTAT 58.182 37.037 0.00 0.00 35.78 2.57
2786 3560 8.011290 AGCCAGAATACTTCCTAGTTTATCCTA 58.989 37.037 0.00 0.00 35.78 2.94
2787 3561 6.847036 AGCCAGAATACTTCCTAGTTTATCCT 59.153 38.462 0.00 0.00 35.78 3.24
2788 3562 7.068686 AGCCAGAATACTTCCTAGTTTATCC 57.931 40.000 0.00 0.00 35.78 2.59
2789 3563 7.988028 ACAAGCCAGAATACTTCCTAGTTTATC 59.012 37.037 0.00 0.00 35.78 1.75
2790 3564 7.862675 ACAAGCCAGAATACTTCCTAGTTTAT 58.137 34.615 0.00 0.00 35.78 1.40
2791 3565 7.180408 AGACAAGCCAGAATACTTCCTAGTTTA 59.820 37.037 0.00 0.00 35.78 2.01
2792 3566 6.013293 AGACAAGCCAGAATACTTCCTAGTTT 60.013 38.462 0.00 0.00 35.78 2.66
2793 3567 5.485708 AGACAAGCCAGAATACTTCCTAGTT 59.514 40.000 0.00 0.00 35.78 2.24
2794 3568 5.026790 AGACAAGCCAGAATACTTCCTAGT 58.973 41.667 0.00 0.00 38.44 2.57
2795 3569 5.606348 AGACAAGCCAGAATACTTCCTAG 57.394 43.478 0.00 0.00 0.00 3.02
2796 3570 7.676683 ATAAGACAAGCCAGAATACTTCCTA 57.323 36.000 0.00 0.00 0.00 2.94
2797 3571 4.917906 AAGACAAGCCAGAATACTTCCT 57.082 40.909 0.00 0.00 0.00 3.36
2798 3572 7.501844 AGTATAAGACAAGCCAGAATACTTCC 58.498 38.462 0.00 0.00 0.00 3.46
2799 3573 8.950208 AAGTATAAGACAAGCCAGAATACTTC 57.050 34.615 0.00 0.00 35.02 3.01
2800 3574 8.540388 TGAAGTATAAGACAAGCCAGAATACTT 58.460 33.333 4.90 4.90 39.88 2.24
2801 3575 8.079211 TGAAGTATAAGACAAGCCAGAATACT 57.921 34.615 0.00 0.00 31.73 2.12
2802 3576 8.718102 TTGAAGTATAAGACAAGCCAGAATAC 57.282 34.615 0.00 0.00 0.00 1.89
2803 3577 9.905713 ATTTGAAGTATAAGACAAGCCAGAATA 57.094 29.630 0.00 0.00 0.00 1.75
2804 3578 8.814038 ATTTGAAGTATAAGACAAGCCAGAAT 57.186 30.769 0.00 0.00 0.00 2.40
2805 3579 9.383519 CTATTTGAAGTATAAGACAAGCCAGAA 57.616 33.333 0.00 0.00 0.00 3.02
2806 3580 7.987458 CCTATTTGAAGTATAAGACAAGCCAGA 59.013 37.037 0.00 0.00 0.00 3.86
2807 3581 7.770897 ACCTATTTGAAGTATAAGACAAGCCAG 59.229 37.037 0.00 0.00 0.00 4.85
2808 3582 7.630082 ACCTATTTGAAGTATAAGACAAGCCA 58.370 34.615 0.00 0.00 0.00 4.75
2809 3583 7.769044 TGACCTATTTGAAGTATAAGACAAGCC 59.231 37.037 0.00 0.00 0.00 4.35
2810 3584 8.718102 TGACCTATTTGAAGTATAAGACAAGC 57.282 34.615 0.00 0.00 0.00 4.01
2818 3592 9.656323 AGGAGTACATGACCTATTTGAAGTATA 57.344 33.333 0.00 0.00 31.78 1.47
2819 3593 8.554490 AGGAGTACATGACCTATTTGAAGTAT 57.446 34.615 0.00 0.00 31.78 2.12
2820 3594 7.973048 AGGAGTACATGACCTATTTGAAGTA 57.027 36.000 0.00 0.00 31.78 2.24
2821 3595 6.875972 AGGAGTACATGACCTATTTGAAGT 57.124 37.500 0.00 0.00 31.78 3.01
2829 3603 9.809395 GGCATATATATAGGAGTACATGACCTA 57.191 37.037 8.56 7.38 39.99 3.08
2830 3604 7.730784 GGGCATATATATAGGAGTACATGACCT 59.269 40.741 8.56 5.29 37.36 3.85
2831 3605 7.509318 TGGGCATATATATAGGAGTACATGACC 59.491 40.741 8.56 7.11 40.18 4.02
2832 3606 8.361139 GTGGGCATATATATAGGAGTACATGAC 58.639 40.741 8.56 0.00 0.00 3.06
2833 3607 7.230712 CGTGGGCATATATATAGGAGTACATGA 59.769 40.741 8.56 0.00 0.00 3.07
2834 3608 7.230712 TCGTGGGCATATATATAGGAGTACATG 59.769 40.741 8.56 6.35 0.00 3.21
2835 3609 7.295340 TCGTGGGCATATATATAGGAGTACAT 58.705 38.462 8.56 0.00 0.00 2.29
2836 3610 6.665695 TCGTGGGCATATATATAGGAGTACA 58.334 40.000 8.56 0.00 0.00 2.90
2837 3611 6.207025 CCTCGTGGGCATATATATAGGAGTAC 59.793 46.154 8.56 2.84 0.00 2.73
2838 3612 6.304624 CCTCGTGGGCATATATATAGGAGTA 58.695 44.000 8.56 0.00 0.00 2.59
2839 3613 5.141182 CCTCGTGGGCATATATATAGGAGT 58.859 45.833 8.56 0.00 0.00 3.85
2840 3614 5.713792 CCTCGTGGGCATATATATAGGAG 57.286 47.826 8.56 1.89 0.00 3.69
2854 3628 0.107703 TATTGCTTGAGCCTCGTGGG 60.108 55.000 5.54 0.00 41.18 4.61
2855 3629 1.009829 GTATTGCTTGAGCCTCGTGG 58.990 55.000 0.00 0.00 41.18 4.94
2856 3630 1.725641 TGTATTGCTTGAGCCTCGTG 58.274 50.000 0.00 0.00 41.18 4.35
2857 3631 2.076863 GTTGTATTGCTTGAGCCTCGT 58.923 47.619 0.00 0.00 41.18 4.18
2858 3632 1.061131 CGTTGTATTGCTTGAGCCTCG 59.939 52.381 0.00 0.00 41.18 4.63
2859 3633 2.346803 TCGTTGTATTGCTTGAGCCTC 58.653 47.619 0.00 0.00 41.18 4.70
2860 3634 2.472695 TCGTTGTATTGCTTGAGCCT 57.527 45.000 0.00 0.00 41.18 4.58
2861 3635 2.484264 AGTTCGTTGTATTGCTTGAGCC 59.516 45.455 0.00 0.00 41.18 4.70
2862 3636 3.813529 AGTTCGTTGTATTGCTTGAGC 57.186 42.857 0.00 0.00 42.50 4.26
2863 3637 8.015087 TGAAAATAGTTCGTTGTATTGCTTGAG 58.985 33.333 0.00 0.00 0.00 3.02
2864 3638 7.801315 GTGAAAATAGTTCGTTGTATTGCTTGA 59.199 33.333 0.00 0.00 0.00 3.02
2865 3639 7.803189 AGTGAAAATAGTTCGTTGTATTGCTTG 59.197 33.333 0.00 0.00 0.00 4.01
2866 3640 7.871853 AGTGAAAATAGTTCGTTGTATTGCTT 58.128 30.769 0.00 0.00 0.00 3.91
2867 3641 7.435068 AGTGAAAATAGTTCGTTGTATTGCT 57.565 32.000 0.00 0.00 0.00 3.91
2868 3642 9.601971 TTTAGTGAAAATAGTTCGTTGTATTGC 57.398 29.630 0.00 0.00 0.00 3.56
2872 3646 8.938906 GGGATTTAGTGAAAATAGTTCGTTGTA 58.061 33.333 0.00 0.00 37.93 2.41
2873 3647 7.360607 CGGGATTTAGTGAAAATAGTTCGTTGT 60.361 37.037 0.00 0.00 37.93 3.32
2874 3648 6.959311 CGGGATTTAGTGAAAATAGTTCGTTG 59.041 38.462 0.00 0.00 37.93 4.10
2875 3649 6.402875 GCGGGATTTAGTGAAAATAGTTCGTT 60.403 38.462 0.00 0.00 37.93 3.85
2876 3650 5.064325 GCGGGATTTAGTGAAAATAGTTCGT 59.936 40.000 0.00 0.00 37.93 3.85
2877 3651 5.293569 AGCGGGATTTAGTGAAAATAGTTCG 59.706 40.000 0.00 0.00 37.93 3.95
2878 3652 6.539103 AGAGCGGGATTTAGTGAAAATAGTTC 59.461 38.462 0.00 0.00 37.93 3.01
2879 3653 6.415573 AGAGCGGGATTTAGTGAAAATAGTT 58.584 36.000 0.00 0.00 37.93 2.24
2880 3654 5.990668 AGAGCGGGATTTAGTGAAAATAGT 58.009 37.500 0.00 0.00 37.93 2.12
2881 3655 5.467063 GGAGAGCGGGATTTAGTGAAAATAG 59.533 44.000 0.00 0.00 37.93 1.73
2882 3656 5.365619 GGAGAGCGGGATTTAGTGAAAATA 58.634 41.667 0.00 0.00 37.93 1.40
2883 3657 4.200092 GGAGAGCGGGATTTAGTGAAAAT 58.800 43.478 0.00 0.00 40.59 1.82
2884 3658 3.606687 GGAGAGCGGGATTTAGTGAAAA 58.393 45.455 0.00 0.00 0.00 2.29
2885 3659 2.093128 GGGAGAGCGGGATTTAGTGAAA 60.093 50.000 0.00 0.00 0.00 2.69
2886 3660 1.485066 GGGAGAGCGGGATTTAGTGAA 59.515 52.381 0.00 0.00 0.00 3.18
2887 3661 1.120530 GGGAGAGCGGGATTTAGTGA 58.879 55.000 0.00 0.00 0.00 3.41
2888 3662 1.123928 AGGGAGAGCGGGATTTAGTG 58.876 55.000 0.00 0.00 0.00 2.74
2889 3663 1.763545 GAAGGGAGAGCGGGATTTAGT 59.236 52.381 0.00 0.00 0.00 2.24
2890 3664 2.043227 AGAAGGGAGAGCGGGATTTAG 58.957 52.381 0.00 0.00 0.00 1.85
2891 3665 2.176247 AGAAGGGAGAGCGGGATTTA 57.824 50.000 0.00 0.00 0.00 1.40
2892 3666 2.170817 GTTAGAAGGGAGAGCGGGATTT 59.829 50.000 0.00 0.00 0.00 2.17
2893 3667 1.763545 GTTAGAAGGGAGAGCGGGATT 59.236 52.381 0.00 0.00 0.00 3.01
2894 3668 1.343075 TGTTAGAAGGGAGAGCGGGAT 60.343 52.381 0.00 0.00 0.00 3.85
2895 3669 0.040646 TGTTAGAAGGGAGAGCGGGA 59.959 55.000 0.00 0.00 0.00 5.14
2896 3670 1.123928 ATGTTAGAAGGGAGAGCGGG 58.876 55.000 0.00 0.00 0.00 6.13
2897 3671 1.202580 CCATGTTAGAAGGGAGAGCGG 60.203 57.143 0.00 0.00 0.00 5.52
2898 3672 1.482593 ACCATGTTAGAAGGGAGAGCG 59.517 52.381 0.00 0.00 0.00 5.03
2899 3673 4.345257 TGATACCATGTTAGAAGGGAGAGC 59.655 45.833 0.00 0.00 0.00 4.09
2900 3674 5.600484 ACTGATACCATGTTAGAAGGGAGAG 59.400 44.000 0.00 0.00 0.00 3.20
2901 3675 5.529289 ACTGATACCATGTTAGAAGGGAGA 58.471 41.667 0.00 0.00 0.00 3.71
2902 3676 5.878406 ACTGATACCATGTTAGAAGGGAG 57.122 43.478 0.00 0.00 0.00 4.30
2903 3677 6.352737 GGAAACTGATACCATGTTAGAAGGGA 60.353 42.308 0.00 0.00 0.00 4.20
2904 3678 5.823045 GGAAACTGATACCATGTTAGAAGGG 59.177 44.000 0.00 0.00 0.00 3.95
2905 3679 5.523916 CGGAAACTGATACCATGTTAGAAGG 59.476 44.000 0.00 0.00 0.00 3.46
2906 3680 5.523916 CCGGAAACTGATACCATGTTAGAAG 59.476 44.000 0.00 0.00 0.00 2.85
2907 3681 5.188163 TCCGGAAACTGATACCATGTTAGAA 59.812 40.000 0.00 0.00 0.00 2.10
2908 3682 4.712829 TCCGGAAACTGATACCATGTTAGA 59.287 41.667 0.00 0.00 0.00 2.10
2909 3683 5.018539 TCCGGAAACTGATACCATGTTAG 57.981 43.478 0.00 0.00 0.00 2.34
2910 3684 5.623956 ATCCGGAAACTGATACCATGTTA 57.376 39.130 9.01 0.00 31.96 2.41
2911 3685 3.992943 TCCGGAAACTGATACCATGTT 57.007 42.857 0.00 0.00 0.00 2.71
2912 3686 4.164221 AGAATCCGGAAACTGATACCATGT 59.836 41.667 9.01 0.00 32.63 3.21
2913 3687 4.708177 AGAATCCGGAAACTGATACCATG 58.292 43.478 9.01 0.00 32.63 3.66
2914 3688 6.494666 TTAGAATCCGGAAACTGATACCAT 57.505 37.500 9.01 0.00 32.63 3.55
2915 3689 5.943349 TTAGAATCCGGAAACTGATACCA 57.057 39.130 9.01 0.00 32.63 3.25
2916 3690 5.526479 GGTTTAGAATCCGGAAACTGATACC 59.474 44.000 9.01 14.68 32.63 2.73
2917 3691 5.526479 GGGTTTAGAATCCGGAAACTGATAC 59.474 44.000 9.01 10.14 32.63 2.24
2918 3692 5.427481 AGGGTTTAGAATCCGGAAACTGATA 59.573 40.000 9.01 0.00 32.63 2.15
2919 3693 4.227527 AGGGTTTAGAATCCGGAAACTGAT 59.772 41.667 9.01 0.00 35.62 2.90
2920 3694 3.585732 AGGGTTTAGAATCCGGAAACTGA 59.414 43.478 9.01 4.84 34.26 3.41
2921 3695 3.951663 AGGGTTTAGAATCCGGAAACTG 58.048 45.455 9.01 0.00 34.26 3.16
2922 3696 5.354842 CTAGGGTTTAGAATCCGGAAACT 57.645 43.478 9.01 13.63 34.26 2.66


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

AutoCloner maintained by Alex Coulton.