Multiple sequence alignment - TraesCS1B01G265100

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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 TraesCS1B01G265100 chr1B 100.000 3863 0 0 1 3863 465963573 465967435 0.000000e+00 7134.0
1 TraesCS1B01G265100 chr1B 87.241 1928 203 26 911 2829 466288922 466287029 0.000000e+00 2158.0
2 TraesCS1B01G265100 chr1B 95.096 836 28 4 3027 3862 92336796 92337618 0.000000e+00 1304.0
3 TraesCS1B01G265100 chr1B 94.624 837 31 5 3027 3863 220751242 220750420 0.000000e+00 1284.0
4 TraesCS1B01G265100 chr1A 93.526 2873 125 24 3 2840 444422840 444419994 0.000000e+00 4218.0
5 TraesCS1B01G265100 chr1A 88.053 2034 195 28 831 2829 443869810 443871830 0.000000e+00 2366.0
6 TraesCS1B01G265100 chr1A 94.982 837 30 1 3027 3863 213936072 213936896 0.000000e+00 1303.0
7 TraesCS1B01G265100 chr1A 94.024 753 32 8 3109 3861 558802862 558803601 0.000000e+00 1129.0
8 TraesCS1B01G265100 chr1A 81.176 85 5 9 388 471 444423939 444423865 1.500000e-04 58.4
9 TraesCS1B01G265100 chr1D 95.689 1879 78 3 963 2840 344676325 344674449 0.000000e+00 3018.0
10 TraesCS1B01G265100 chr1D 87.796 2024 199 27 831 2819 344283870 344285880 0.000000e+00 2326.0
11 TraesCS1B01G265100 chr1D 90.000 530 27 7 1 504 344677091 344676562 0.000000e+00 662.0
12 TraesCS1B01G265100 chr1D 86.992 246 9 8 697 921 344676570 344676327 4.950000e-64 255.0
13 TraesCS1B01G265100 chr1D 100.000 28 0 0 3002 3029 103354639 103354612 7.000000e-03 52.8
14 TraesCS1B01G265100 chr5A 81.955 1729 286 22 1068 2783 538349067 538350782 0.000000e+00 1441.0
15 TraesCS1B01G265100 chr5A 80.906 1744 302 28 1068 2794 138430567 138428838 0.000000e+00 1347.0
16 TraesCS1B01G265100 chr5A 96.774 31 1 0 2999 3029 464501522 464501552 7.000000e-03 52.8
17 TraesCS1B01G265100 chr7D 81.691 1715 297 14 1092 2794 84422149 84420440 0.000000e+00 1411.0
18 TraesCS1B01G265100 chr7D 81.477 1679 303 5 1099 2770 193935048 193936725 0.000000e+00 1371.0
19 TraesCS1B01G265100 chr7D 77.906 1041 216 13 1737 2770 399834015 399835048 1.510000e-178 636.0
20 TraesCS1B01G265100 chr7B 81.696 1710 293 16 1098 2794 34168284 34169986 0.000000e+00 1406.0
21 TraesCS1B01G265100 chr7B 81.283 1715 306 13 1092 2795 157687812 157689522 0.000000e+00 1375.0
22 TraesCS1B01G265100 chr7B 77.618 1041 219 13 1737 2770 409220907 409221940 1.520000e-173 619.0
23 TraesCS1B01G265100 chrUn 81.370 1723 291 22 1092 2793 82637376 82635663 0.000000e+00 1376.0
24 TraesCS1B01G265100 chrUn 100.000 28 0 0 3002 3029 20589403 20589430 7.000000e-03 52.8
25 TraesCS1B01G265100 chr2B 95.579 837 24 4 3027 3863 390803128 390802305 0.000000e+00 1328.0
26 TraesCS1B01G265100 chr2B 95.102 837 29 3 3027 3863 793363364 793364188 0.000000e+00 1308.0
27 TraesCS1B01G265100 chr5B 95.102 837 29 3 3027 3863 59780560 59779736 0.000000e+00 1308.0
28 TraesCS1B01G265100 chr5B 94.504 837 34 3 3027 3863 547492814 547491990 0.000000e+00 1280.0
29 TraesCS1B01G265100 chr5B 94.347 743 30 6 3027 3769 333202814 333203544 0.000000e+00 1129.0
30 TraesCS1B01G265100 chr5B 100.000 28 0 0 3002 3029 208461986 208462013 7.000000e-03 52.8
31 TraesCS1B01G265100 chr6B 94.743 837 32 3 3027 3863 257594771 257595595 0.000000e+00 1291.0
32 TraesCS1B01G265100 chr3B 94.743 837 32 3 3027 3863 772414432 772413608 0.000000e+00 1291.0
33 TraesCS1B01G265100 chr4B 94.385 837 35 3 3027 3863 166833870 166833046 0.000000e+00 1275.0
34 TraesCS1B01G265100 chr4B 80.769 156 11 13 395 537 473863328 473863179 1.900000e-18 104.0
35 TraesCS1B01G265100 chr4B 100.000 28 0 0 3002 3029 544605964 544605937 7.000000e-03 52.8
36 TraesCS1B01G265100 chr4B 100.000 28 0 0 3002 3029 613149224 613149197 7.000000e-03 52.8
37 TraesCS1B01G265100 chr2A 94.385 837 35 6 3027 3863 89174461 89175285 0.000000e+00 1275.0
38 TraesCS1B01G265100 chr2A 94.682 677 24 6 3187 3863 192002578 192003242 0.000000e+00 1040.0
39 TraesCS1B01G265100 chr2D 93.787 837 40 6 3027 3863 308682336 308681512 0.000000e+00 1247.0
40 TraesCS1B01G265100 chr2D 100.000 28 0 0 3002 3029 308678931 308678958 7.000000e-03 52.8
41 TraesCS1B01G265100 chr2D 100.000 28 0 0 3002 3029 308682362 308682389 7.000000e-03 52.8
42 TraesCS1B01G265100 chr5D 79.704 1148 209 22 1685 2819 124391943 124390807 0.000000e+00 808.0
43 TraesCS1B01G265100 chr4A 95.833 48 2 0 388 435 32650895 32650942 1.150000e-10 78.7
44 TraesCS1B01G265100 chr6D 100.000 28 0 0 3002 3029 338920046 338920019 7.000000e-03 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 TraesCS1B01G265100 chr1B 465963573 465967435 3862 False 7134.000000 7134 100.000000 1 3863 1 chr1B.!!$F2 3862
1 TraesCS1B01G265100 chr1B 466287029 466288922 1893 True 2158.000000 2158 87.241000 911 2829 1 chr1B.!!$R2 1918
2 TraesCS1B01G265100 chr1B 92336796 92337618 822 False 1304.000000 1304 95.096000 3027 3862 1 chr1B.!!$F1 835
3 TraesCS1B01G265100 chr1B 220750420 220751242 822 True 1284.000000 1284 94.624000 3027 3863 1 chr1B.!!$R1 836
4 TraesCS1B01G265100 chr1A 443869810 443871830 2020 False 2366.000000 2366 88.053000 831 2829 1 chr1A.!!$F2 1998
5 TraesCS1B01G265100 chr1A 444419994 444423939 3945 True 2138.200000 4218 87.351000 3 2840 2 chr1A.!!$R1 2837
6 TraesCS1B01G265100 chr1A 213936072 213936896 824 False 1303.000000 1303 94.982000 3027 3863 1 chr1A.!!$F1 836
7 TraesCS1B01G265100 chr1A 558802862 558803601 739 False 1129.000000 1129 94.024000 3109 3861 1 chr1A.!!$F3 752
8 TraesCS1B01G265100 chr1D 344283870 344285880 2010 False 2326.000000 2326 87.796000 831 2819 1 chr1D.!!$F1 1988
9 TraesCS1B01G265100 chr1D 344674449 344677091 2642 True 1311.666667 3018 90.893667 1 2840 3 chr1D.!!$R2 2839
10 TraesCS1B01G265100 chr5A 538349067 538350782 1715 False 1441.000000 1441 81.955000 1068 2783 1 chr5A.!!$F2 1715
11 TraesCS1B01G265100 chr5A 138428838 138430567 1729 True 1347.000000 1347 80.906000 1068 2794 1 chr5A.!!$R1 1726
12 TraesCS1B01G265100 chr7D 84420440 84422149 1709 True 1411.000000 1411 81.691000 1092 2794 1 chr7D.!!$R1 1702
13 TraesCS1B01G265100 chr7D 193935048 193936725 1677 False 1371.000000 1371 81.477000 1099 2770 1 chr7D.!!$F1 1671
14 TraesCS1B01G265100 chr7D 399834015 399835048 1033 False 636.000000 636 77.906000 1737 2770 1 chr7D.!!$F2 1033
15 TraesCS1B01G265100 chr7B 34168284 34169986 1702 False 1406.000000 1406 81.696000 1098 2794 1 chr7B.!!$F1 1696
16 TraesCS1B01G265100 chr7B 157687812 157689522 1710 False 1375.000000 1375 81.283000 1092 2795 1 chr7B.!!$F2 1703
17 TraesCS1B01G265100 chr7B 409220907 409221940 1033 False 619.000000 619 77.618000 1737 2770 1 chr7B.!!$F3 1033
18 TraesCS1B01G265100 chrUn 82635663 82637376 1713 True 1376.000000 1376 81.370000 1092 2793 1 chrUn.!!$R1 1701
19 TraesCS1B01G265100 chr2B 390802305 390803128 823 True 1328.000000 1328 95.579000 3027 3863 1 chr2B.!!$R1 836
20 TraesCS1B01G265100 chr2B 793363364 793364188 824 False 1308.000000 1308 95.102000 3027 3863 1 chr2B.!!$F1 836
21 TraesCS1B01G265100 chr5B 59779736 59780560 824 True 1308.000000 1308 95.102000 3027 3863 1 chr5B.!!$R1 836
22 TraesCS1B01G265100 chr5B 547491990 547492814 824 True 1280.000000 1280 94.504000 3027 3863 1 chr5B.!!$R2 836
23 TraesCS1B01G265100 chr5B 333202814 333203544 730 False 1129.000000 1129 94.347000 3027 3769 1 chr5B.!!$F2 742
24 TraesCS1B01G265100 chr6B 257594771 257595595 824 False 1291.000000 1291 94.743000 3027 3863 1 chr6B.!!$F1 836
25 TraesCS1B01G265100 chr3B 772413608 772414432 824 True 1291.000000 1291 94.743000 3027 3863 1 chr3B.!!$R1 836
26 TraesCS1B01G265100 chr4B 166833046 166833870 824 True 1275.000000 1275 94.385000 3027 3863 1 chr4B.!!$R1 836
27 TraesCS1B01G265100 chr2A 89174461 89175285 824 False 1275.000000 1275 94.385000 3027 3863 1 chr2A.!!$F1 836
28 TraesCS1B01G265100 chr2A 192002578 192003242 664 False 1040.000000 1040 94.682000 3187 3863 1 chr2A.!!$F2 676
29 TraesCS1B01G265100 chr2D 308681512 308682336 824 True 1247.000000 1247 93.787000 3027 3863 1 chr2D.!!$R1 836
30 TraesCS1B01G265100 chr5D 124390807 124391943 1136 True 808.000000 808 79.704000 1685 2819 1 chr5D.!!$R1 1134

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
877 2024 0.902516 AGGAGCGGGGATCTCTATGC 60.903 60.000 0.0 0.0 0.0 3.14 F
2095 3296 2.943653 GGCTTCACAAACGACGGG 59.056 61.111 0.0 0.0 0.0 5.28 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2356 3557 0.174845 CGGAGGATGCCTTGACGTAA 59.825 55.0 0.0 0.0 31.76 3.18 R
3000 4202 0.111446 TGGGCGAGGATTTGGAAACA 59.889 50.0 0.0 0.0 39.83 2.83 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
24 1122 1.282930 GAGCACCAAGACGACGGAAC 61.283 60.000 0.00 0.00 0.00 3.62
142 1264 4.068599 TCACCGACAAATATGCTCAAACA 58.931 39.130 0.00 0.00 0.00 2.83
150 1272 7.967854 CGACAAATATGCTCAAACATTTTAGGA 59.032 33.333 0.00 0.00 0.00 2.94
156 1280 6.899393 TGCTCAAACATTTTAGGAGAACAT 57.101 33.333 0.00 0.00 0.00 2.71
248 1372 4.747810 AGCAGCGAAATATTTTTCTTGGG 58.252 39.130 1.43 0.00 39.30 4.12
282 1406 7.022055 TCGAATGTTTTGTCTACACACAAAT 57.978 32.000 0.00 0.00 43.97 2.32
495 1620 5.815581 TGCCCAATATCCCAATATACTCAC 58.184 41.667 0.00 0.00 0.00 3.51
516 1641 9.936759 ACTCACAAAAATCAACTAAAAAGGAAA 57.063 25.926 0.00 0.00 0.00 3.13
585 1710 6.346096 CCAATAGGAAAATCGACTAACTCCA 58.654 40.000 0.00 0.00 36.89 3.86
619 1744 7.011482 GCAGTTCAAAAGTTCAGTCTAAGAAGA 59.989 37.037 0.00 0.00 0.00 2.87
663 1788 8.734386 AGTATGAATCTTGACAAAAGAATGGAC 58.266 33.333 0.00 0.00 0.00 4.02
667 1792 7.606073 TGAATCTTGACAAAAGAATGGACGATA 59.394 33.333 0.00 0.00 0.00 2.92
769 1899 5.398603 TGTTTGTCACTCCACAAAAATGT 57.601 34.783 0.47 0.00 45.57 2.71
877 2024 0.902516 AGGAGCGGGGATCTCTATGC 60.903 60.000 0.00 0.00 0.00 3.14
894 2041 3.238438 CCTGATGGAGAGGCAGGG 58.762 66.667 0.00 0.00 44.24 4.45
922 2073 3.207265 TGTGCACTCAACTGGTTGTAT 57.793 42.857 19.41 1.03 41.16 2.29
1014 2199 7.589958 AGTAGATAGTACAAGCAAGCTGTAT 57.410 36.000 0.00 0.00 0.00 2.29
1015 2200 7.429633 AGTAGATAGTACAAGCAAGCTGTATG 58.570 38.462 0.00 0.00 0.00 2.39
1686 2881 4.221422 GCTAGGCGCCGATCACCA 62.221 66.667 23.20 0.21 0.00 4.17
1714 2909 3.373565 GCCGCCAAGGTTTCCCTG 61.374 66.667 0.00 0.00 41.56 4.45
2095 3296 2.943653 GGCTTCACAAACGACGGG 59.056 61.111 0.00 0.00 0.00 5.28
2611 3813 0.813184 TAAAGAGCAGGTACGACCCG 59.187 55.000 0.00 0.00 39.75 5.28
2685 3887 6.295236 GGAACTCCCAACATCATCAAAAATCA 60.295 38.462 0.00 0.00 34.14 2.57
2715 3917 0.037790 GAAGGACTCTGCGTCTGCTT 60.038 55.000 0.00 0.00 42.44 3.91
2784 3986 4.352893 AGGGAAGGTTTACAAGAAGGCTAA 59.647 41.667 0.00 0.00 0.00 3.09
2797 3999 2.100605 AGGCTAAAGTTTGCTCCTCG 57.899 50.000 0.00 0.00 0.00 4.63
2821 4023 5.190528 GGAGCAGGATTATTAGGGATGATGA 59.809 44.000 0.00 0.00 0.00 2.92
2831 4033 5.808366 TTAGGGATGATGATACCACTCAC 57.192 43.478 0.00 0.00 34.41 3.51
2832 4034 3.657610 AGGGATGATGATACCACTCACA 58.342 45.455 0.00 0.00 34.41 3.58
2833 4035 3.389329 AGGGATGATGATACCACTCACAC 59.611 47.826 0.00 0.00 34.41 3.82
2840 4042 3.181329 TGATACCACTCACACTTCCCAT 58.819 45.455 0.00 0.00 0.00 4.00
2841 4043 3.197766 TGATACCACTCACACTTCCCATC 59.802 47.826 0.00 0.00 0.00 3.51
2842 4044 1.434188 ACCACTCACACTTCCCATCA 58.566 50.000 0.00 0.00 0.00 3.07
2843 4045 1.988107 ACCACTCACACTTCCCATCAT 59.012 47.619 0.00 0.00 0.00 2.45
2844 4046 2.376518 ACCACTCACACTTCCCATCATT 59.623 45.455 0.00 0.00 0.00 2.57
2845 4047 3.012518 CCACTCACACTTCCCATCATTC 58.987 50.000 0.00 0.00 0.00 2.67
2846 4048 2.674852 CACTCACACTTCCCATCATTCG 59.325 50.000 0.00 0.00 0.00 3.34
2847 4049 2.303022 ACTCACACTTCCCATCATTCGT 59.697 45.455 0.00 0.00 0.00 3.85
2848 4050 2.932614 CTCACACTTCCCATCATTCGTC 59.067 50.000 0.00 0.00 0.00 4.20
2849 4051 1.660607 CACACTTCCCATCATTCGTCG 59.339 52.381 0.00 0.00 0.00 5.12
2850 4052 1.290203 CACTTCCCATCATTCGTCGG 58.710 55.000 0.00 0.00 0.00 4.79
2851 4053 0.462047 ACTTCCCATCATTCGTCGGC 60.462 55.000 0.00 0.00 0.00 5.54
2852 4054 1.153249 TTCCCATCATTCGTCGGCC 60.153 57.895 0.00 0.00 0.00 6.13
2853 4055 2.591715 CCCATCATTCGTCGGCCC 60.592 66.667 0.00 0.00 0.00 5.80
2854 4056 2.505982 CCATCATTCGTCGGCCCT 59.494 61.111 0.00 0.00 0.00 5.19
2855 4057 1.889105 CCATCATTCGTCGGCCCTG 60.889 63.158 0.00 0.00 0.00 4.45
2856 4058 1.143838 CATCATTCGTCGGCCCTGA 59.856 57.895 0.00 0.00 0.00 3.86
2857 4059 0.461870 CATCATTCGTCGGCCCTGAA 60.462 55.000 0.00 0.00 0.00 3.02
2858 4060 0.251916 ATCATTCGTCGGCCCTGAAA 59.748 50.000 0.00 0.00 0.00 2.69
2859 4061 0.251916 TCATTCGTCGGCCCTGAAAT 59.748 50.000 0.00 0.00 0.00 2.17
2860 4062 1.483004 TCATTCGTCGGCCCTGAAATA 59.517 47.619 0.00 0.00 0.00 1.40
2861 4063 2.093394 TCATTCGTCGGCCCTGAAATAA 60.093 45.455 0.00 0.00 0.00 1.40
2862 4064 2.476126 TTCGTCGGCCCTGAAATAAA 57.524 45.000 0.00 0.00 0.00 1.40
2863 4065 2.702592 TCGTCGGCCCTGAAATAAAT 57.297 45.000 0.00 0.00 0.00 1.40
2864 4066 2.993937 TCGTCGGCCCTGAAATAAATT 58.006 42.857 0.00 0.00 0.00 1.82
2865 4067 2.680841 TCGTCGGCCCTGAAATAAATTG 59.319 45.455 0.00 0.00 0.00 2.32
2866 4068 2.422127 CGTCGGCCCTGAAATAAATTGT 59.578 45.455 0.00 0.00 0.00 2.71
2867 4069 3.119637 CGTCGGCCCTGAAATAAATTGTT 60.120 43.478 0.00 0.00 0.00 2.83
2868 4070 4.617298 CGTCGGCCCTGAAATAAATTGTTT 60.617 41.667 0.00 0.00 0.00 2.83
2869 4071 5.234752 GTCGGCCCTGAAATAAATTGTTTT 58.765 37.500 0.00 0.00 0.00 2.43
2870 4072 5.347635 GTCGGCCCTGAAATAAATTGTTTTC 59.652 40.000 0.00 6.47 33.44 2.29
2871 4073 5.245075 TCGGCCCTGAAATAAATTGTTTTCT 59.755 36.000 0.00 0.00 33.87 2.52
2872 4074 5.931724 CGGCCCTGAAATAAATTGTTTTCTT 59.068 36.000 0.00 0.00 33.87 2.52
2873 4075 7.039644 TCGGCCCTGAAATAAATTGTTTTCTTA 60.040 33.333 0.00 0.00 33.87 2.10
2874 4076 7.062956 CGGCCCTGAAATAAATTGTTTTCTTAC 59.937 37.037 0.00 0.00 33.87 2.34
2875 4077 7.875554 GGCCCTGAAATAAATTGTTTTCTTACA 59.124 33.333 12.17 0.00 33.87 2.41
2876 4078 8.925700 GCCCTGAAATAAATTGTTTTCTTACAG 58.074 33.333 12.17 0.00 33.87 2.74
2877 4079 8.925700 CCCTGAAATAAATTGTTTTCTTACAGC 58.074 33.333 12.17 0.00 33.87 4.40
2878 4080 9.474920 CCTGAAATAAATTGTTTTCTTACAGCA 57.525 29.630 12.17 0.00 33.87 4.41
2880 4082 9.255304 TGAAATAAATTGTTTTCTTACAGCACC 57.745 29.630 12.17 0.00 33.87 5.01
2881 4083 9.255304 GAAATAAATTGTTTTCTTACAGCACCA 57.745 29.630 6.25 0.00 0.00 4.17
2882 4084 8.816640 AATAAATTGTTTTCTTACAGCACCAG 57.183 30.769 0.00 0.00 0.00 4.00
2883 4085 3.708563 TTGTTTTCTTACAGCACCAGC 57.291 42.857 0.00 0.00 42.56 4.85
2884 4086 2.649190 TGTTTTCTTACAGCACCAGCA 58.351 42.857 0.00 0.00 45.49 4.41
2885 4087 2.357637 TGTTTTCTTACAGCACCAGCAC 59.642 45.455 0.00 0.00 45.49 4.40
2886 4088 1.604604 TTTCTTACAGCACCAGCACC 58.395 50.000 0.00 0.00 45.49 5.01
2887 4089 0.472044 TTCTTACAGCACCAGCACCA 59.528 50.000 0.00 0.00 45.49 4.17
2888 4090 0.692476 TCTTACAGCACCAGCACCAT 59.308 50.000 0.00 0.00 45.49 3.55
2889 4091 0.806868 CTTACAGCACCAGCACCATG 59.193 55.000 0.00 0.00 45.49 3.66
2890 4092 0.399833 TTACAGCACCAGCACCATGA 59.600 50.000 0.00 0.00 45.49 3.07
2891 4093 0.399833 TACAGCACCAGCACCATGAA 59.600 50.000 0.00 0.00 45.49 2.57
2892 4094 0.467844 ACAGCACCAGCACCATGAAA 60.468 50.000 0.00 0.00 45.49 2.69
2893 4095 0.892755 CAGCACCAGCACCATGAAAT 59.107 50.000 0.00 0.00 45.49 2.17
2894 4096 1.274167 CAGCACCAGCACCATGAAATT 59.726 47.619 0.00 0.00 45.49 1.82
2895 4097 1.274167 AGCACCAGCACCATGAAATTG 59.726 47.619 0.00 0.00 45.49 2.32
2896 4098 1.001181 GCACCAGCACCATGAAATTGT 59.999 47.619 0.00 0.00 41.58 2.71
2897 4099 2.679450 CACCAGCACCATGAAATTGTG 58.321 47.619 0.00 0.00 42.43 3.33
2898 4100 2.296752 CACCAGCACCATGAAATTGTGA 59.703 45.455 0.00 0.00 42.14 3.58
2899 4101 3.056393 CACCAGCACCATGAAATTGTGAT 60.056 43.478 0.00 0.00 42.14 3.06
2900 4102 3.579586 ACCAGCACCATGAAATTGTGATT 59.420 39.130 0.00 0.00 42.14 2.57
2901 4103 3.930229 CCAGCACCATGAAATTGTGATTG 59.070 43.478 0.00 0.00 42.14 2.67
2902 4104 4.561938 CCAGCACCATGAAATTGTGATTGT 60.562 41.667 0.00 0.00 42.14 2.71
2903 4105 4.387559 CAGCACCATGAAATTGTGATTGTG 59.612 41.667 0.00 0.00 42.14 3.33
2904 4106 4.281435 AGCACCATGAAATTGTGATTGTGA 59.719 37.500 0.00 0.00 42.14 3.58
2905 4107 5.046878 AGCACCATGAAATTGTGATTGTGAT 60.047 36.000 0.00 0.00 42.14 3.06
2906 4108 5.640357 GCACCATGAAATTGTGATTGTGATT 59.360 36.000 0.00 0.00 42.14 2.57
2907 4109 6.148150 GCACCATGAAATTGTGATTGTGATTT 59.852 34.615 0.00 0.00 42.14 2.17
2908 4110 7.514805 CACCATGAAATTGTGATTGTGATTTG 58.485 34.615 0.00 0.00 42.14 2.32
2909 4111 7.171848 CACCATGAAATTGTGATTGTGATTTGT 59.828 33.333 0.00 0.00 42.14 2.83
2910 4112 7.716123 ACCATGAAATTGTGATTGTGATTTGTT 59.284 29.630 0.00 0.00 0.00 2.83
2911 4113 8.561212 CCATGAAATTGTGATTGTGATTTGTTT 58.439 29.630 0.00 0.00 0.00 2.83
2914 4116 9.814899 TGAAATTGTGATTGTGATTTGTTTACT 57.185 25.926 0.00 0.00 0.00 2.24
2924 4126 9.769093 ATTGTGATTTGTTTACTTAATACGAGC 57.231 29.630 0.00 0.00 0.00 5.03
2925 4127 8.312896 TGTGATTTGTTTACTTAATACGAGCA 57.687 30.769 0.00 0.00 0.00 4.26
2926 4128 8.941977 TGTGATTTGTTTACTTAATACGAGCAT 58.058 29.630 0.00 0.00 0.00 3.79
2944 4146 7.871853 ACGAGCATATGTATTATTTTTCACCC 58.128 34.615 4.29 0.00 0.00 4.61
2945 4147 7.015289 CGAGCATATGTATTATTTTTCACCCG 58.985 38.462 4.29 0.00 0.00 5.28
2946 4148 6.677913 AGCATATGTATTATTTTTCACCCGC 58.322 36.000 4.29 0.00 0.00 6.13
2947 4149 6.264292 AGCATATGTATTATTTTTCACCCGCA 59.736 34.615 4.29 0.00 0.00 5.69
2948 4150 6.920758 GCATATGTATTATTTTTCACCCGCAA 59.079 34.615 4.29 0.00 0.00 4.85
2949 4151 7.436673 GCATATGTATTATTTTTCACCCGCAAA 59.563 33.333 4.29 0.00 0.00 3.68
2950 4152 9.307121 CATATGTATTATTTTTCACCCGCAAAA 57.693 29.630 0.00 0.00 0.00 2.44
2951 4153 9.877178 ATATGTATTATTTTTCACCCGCAAAAA 57.123 25.926 0.00 0.00 37.18 1.94
2952 4154 7.644986 TGTATTATTTTTCACCCGCAAAAAG 57.355 32.000 0.00 0.00 36.43 2.27
2953 4155 6.647067 TGTATTATTTTTCACCCGCAAAAAGG 59.353 34.615 0.00 0.00 36.43 3.11
2954 4156 3.828875 ATTTTTCACCCGCAAAAAGGA 57.171 38.095 0.00 0.00 36.43 3.36
2955 4157 2.880963 TTTTCACCCGCAAAAAGGAG 57.119 45.000 0.00 0.00 0.00 3.69
2956 4158 1.770294 TTTCACCCGCAAAAAGGAGT 58.230 45.000 0.00 0.00 0.00 3.85
2957 4159 2.642154 TTCACCCGCAAAAAGGAGTA 57.358 45.000 0.00 0.00 0.00 2.59
2958 4160 2.871096 TCACCCGCAAAAAGGAGTAT 57.129 45.000 0.00 0.00 0.00 2.12
2959 4161 2.432444 TCACCCGCAAAAAGGAGTATG 58.568 47.619 0.00 0.00 0.00 2.39
2960 4162 2.159382 CACCCGCAAAAAGGAGTATGT 58.841 47.619 0.00 0.00 0.00 2.29
2961 4163 2.095263 CACCCGCAAAAAGGAGTATGTG 60.095 50.000 0.00 0.00 0.00 3.21
2962 4164 2.159382 CCCGCAAAAAGGAGTATGTGT 58.841 47.619 0.00 0.00 0.00 3.72
2963 4165 2.556622 CCCGCAAAAAGGAGTATGTGTT 59.443 45.455 0.00 0.00 0.00 3.32
2964 4166 3.754323 CCCGCAAAAAGGAGTATGTGTTA 59.246 43.478 0.00 0.00 0.00 2.41
2965 4167 4.398044 CCCGCAAAAAGGAGTATGTGTTAT 59.602 41.667 0.00 0.00 0.00 1.89
2966 4168 5.105917 CCCGCAAAAAGGAGTATGTGTTATT 60.106 40.000 0.00 0.00 0.00 1.40
2967 4169 6.386654 CCGCAAAAAGGAGTATGTGTTATTT 58.613 36.000 0.00 0.00 0.00 1.40
2968 4170 6.866248 CCGCAAAAAGGAGTATGTGTTATTTT 59.134 34.615 0.00 0.00 0.00 1.82
2969 4171 7.383843 CCGCAAAAAGGAGTATGTGTTATTTTT 59.616 33.333 0.00 0.00 0.00 1.94
2970 4172 8.213812 CGCAAAAAGGAGTATGTGTTATTTTTG 58.786 33.333 13.18 13.18 43.66 2.44
2971 4173 9.040939 GCAAAAAGGAGTATGTGTTATTTTTGT 57.959 29.630 16.80 0.00 43.16 2.83
2973 4175 9.541143 AAAAAGGAGTATGTGTTATTTTTGTGG 57.459 29.630 0.00 0.00 29.85 4.17
2974 4176 7.833285 AAGGAGTATGTGTTATTTTTGTGGT 57.167 32.000 0.00 0.00 0.00 4.16
2975 4177 7.833285 AGGAGTATGTGTTATTTTTGTGGTT 57.167 32.000 0.00 0.00 0.00 3.67
2976 4178 8.245195 AGGAGTATGTGTTATTTTTGTGGTTT 57.755 30.769 0.00 0.00 0.00 3.27
2977 4179 9.357161 AGGAGTATGTGTTATTTTTGTGGTTTA 57.643 29.630 0.00 0.00 0.00 2.01
2978 4180 9.401873 GGAGTATGTGTTATTTTTGTGGTTTAC 57.598 33.333 0.00 0.00 0.00 2.01
2979 4181 9.953697 GAGTATGTGTTATTTTTGTGGTTTACA 57.046 29.630 0.00 0.00 37.56 2.41
2980 4182 9.959749 AGTATGTGTTATTTTTGTGGTTTACAG 57.040 29.630 0.00 0.00 41.10 2.74
2981 4183 9.738832 GTATGTGTTATTTTTGTGGTTTACAGT 57.261 29.630 0.00 0.00 41.10 3.55
2982 4184 8.865590 ATGTGTTATTTTTGTGGTTTACAGTC 57.134 30.769 0.00 0.00 41.10 3.51
2983 4185 8.057536 TGTGTTATTTTTGTGGTTTACAGTCT 57.942 30.769 0.00 0.00 41.10 3.24
2984 4186 9.175312 TGTGTTATTTTTGTGGTTTACAGTCTA 57.825 29.630 0.00 0.00 41.10 2.59
3015 4217 8.208718 TCAATAGTTATGTTTCCAAATCCTCG 57.791 34.615 0.00 0.00 0.00 4.63
3016 4218 4.965119 AGTTATGTTTCCAAATCCTCGC 57.035 40.909 0.00 0.00 0.00 5.03
3017 4219 3.694566 AGTTATGTTTCCAAATCCTCGCC 59.305 43.478 0.00 0.00 0.00 5.54
3018 4220 1.474330 ATGTTTCCAAATCCTCGCCC 58.526 50.000 0.00 0.00 0.00 6.13
3019 4221 0.111446 TGTTTCCAAATCCTCGCCCA 59.889 50.000 0.00 0.00 0.00 5.36
3020 4222 1.253100 GTTTCCAAATCCTCGCCCAA 58.747 50.000 0.00 0.00 0.00 4.12
3021 4223 1.616374 GTTTCCAAATCCTCGCCCAAA 59.384 47.619 0.00 0.00 0.00 3.28
3022 4224 2.230130 TTCCAAATCCTCGCCCAAAT 57.770 45.000 0.00 0.00 0.00 2.32
3023 4225 3.374042 TTCCAAATCCTCGCCCAAATA 57.626 42.857 0.00 0.00 0.00 1.40
3024 4226 2.930950 TCCAAATCCTCGCCCAAATAG 58.069 47.619 0.00 0.00 0.00 1.73
3025 4227 1.956477 CCAAATCCTCGCCCAAATAGG 59.044 52.381 0.00 0.00 37.03 2.57
3148 4350 4.504097 GCCAGAAGACACAAAACATTTGTC 59.496 41.667 5.54 0.00 40.04 3.18
3155 4357 5.799936 AGACACAAAACATTTGTCGTTTCTG 59.200 36.000 5.54 0.00 43.69 3.02
3201 4403 3.892588 GAGAAGACTAGGGATGGACGATT 59.107 47.826 0.00 0.00 0.00 3.34
3359 4561 0.892063 GGTGGGAAAGGCGCAAATTA 59.108 50.000 10.83 0.00 41.49 1.40
3365 4567 3.380320 GGGAAAGGCGCAAATTAGTACAT 59.620 43.478 10.83 0.00 0.00 2.29
3445 4647 2.489938 TTTGTTAATGCCTCCTCGCT 57.510 45.000 0.00 0.00 0.00 4.93
3466 4668 4.142293 GCTGAAGGCTTCCATTAAAAGAGG 60.142 45.833 23.68 2.09 38.06 3.69
3467 4669 5.255397 TGAAGGCTTCCATTAAAAGAGGA 57.745 39.130 23.68 0.00 0.00 3.71
3468 4670 5.256474 TGAAGGCTTCCATTAAAAGAGGAG 58.744 41.667 23.68 0.00 32.11 3.69
3469 4671 4.242336 AGGCTTCCATTAAAAGAGGAGG 57.758 45.455 0.00 0.00 32.11 4.30
3470 4672 3.852578 AGGCTTCCATTAAAAGAGGAGGA 59.147 43.478 0.00 0.00 30.72 3.71
3471 4673 4.480166 AGGCTTCCATTAAAAGAGGAGGAT 59.520 41.667 0.00 0.00 30.72 3.24
3472 4674 4.582240 GGCTTCCATTAAAAGAGGAGGATG 59.418 45.833 0.00 0.00 30.72 3.51
3473 4675 4.582240 GCTTCCATTAAAAGAGGAGGATGG 59.418 45.833 0.00 0.00 36.29 3.51
3474 4676 5.760131 CTTCCATTAAAAGAGGAGGATGGT 58.240 41.667 0.00 0.00 36.35 3.55
3475 4677 5.373812 TCCATTAAAAGAGGAGGATGGTC 57.626 43.478 0.00 0.00 36.35 4.02
3476 4678 5.039645 TCCATTAAAAGAGGAGGATGGTCT 58.960 41.667 0.00 0.00 36.35 3.85
3477 4679 6.209774 TCCATTAAAAGAGGAGGATGGTCTA 58.790 40.000 0.00 0.00 36.35 2.59
3522 4724 7.489574 ACGGGATTTGTTAAACTTAACGTTA 57.510 32.000 3.29 3.29 44.52 3.18
3597 4799 5.723887 AGAGATGACAAAGGTAGGTTCATCT 59.276 40.000 11.27 11.27 43.47 2.90
3601 4803 6.867519 TGACAAAGGTAGGTTCATCTATGA 57.132 37.500 0.00 0.00 34.44 2.15
3681 4883 0.748005 ATTTGGCCTATCGCTTGCGT 60.748 50.000 14.70 5.29 37.74 5.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 1122 0.900182 GGCTTTCCCCCTCAAAGGTG 60.900 60.000 0.00 0.00 31.93 4.00
51 1149 5.297029 TGCGTCTATAGCAAGCGATAGATAT 59.703 40.000 21.93 2.31 40.73 1.63
98 1196 2.281484 GGAACGTGCTGGCCTGAA 60.281 61.111 14.77 0.00 0.00 3.02
117 1239 3.000041 TGAGCATATTTGTCGGTGACAC 59.000 45.455 0.00 0.00 42.60 3.67
142 1264 8.712285 TCGACGAAAATATGTTCTCCTAAAAT 57.288 30.769 4.13 0.00 0.00 1.82
150 1272 9.529325 TGATATTTCTCGACGAAAATATGTTCT 57.471 29.630 25.50 13.51 44.25 3.01
156 1280 9.914131 ATCAGATGATATTTCTCGACGAAAATA 57.086 29.630 18.62 18.62 44.25 1.40
248 1372 4.246458 ACAAAACATTCGAGGAGCTCTAC 58.754 43.478 14.64 7.13 0.00 2.59
282 1406 6.493449 TCGTGACATCAAATATGCTCAAAA 57.507 33.333 0.00 0.00 0.00 2.44
472 1596 5.311913 TGTGAGTATATTGGGATATTGGGCA 59.688 40.000 0.00 0.00 31.09 5.36
541 1666 3.026694 GGGCTCAAAGCTTGTTATCCAT 58.973 45.455 0.00 0.00 41.99 3.41
542 1667 2.224992 TGGGCTCAAAGCTTGTTATCCA 60.225 45.455 0.00 3.28 41.99 3.41
550 1675 3.456380 TTCCTATTGGGCTCAAAGCTT 57.544 42.857 1.42 0.00 41.99 3.74
556 1681 3.199946 AGTCGATTTTCCTATTGGGCTCA 59.800 43.478 0.00 0.00 34.39 4.26
585 1710 6.024552 TGAACTTTTGAACTGCTTCTGTTT 57.975 33.333 0.00 0.00 0.00 2.83
619 1744 7.275888 TCATACTTTCTTTGTTGCTTCATGT 57.724 32.000 0.00 0.00 0.00 3.21
679 1804 6.312426 TGACTTTTAAATTTGTGCAAGTGTGG 59.688 34.615 0.00 0.00 0.00 4.17
687 1812 5.523552 AGTTGGCTGACTTTTAAATTTGTGC 59.476 36.000 0.00 0.00 0.00 4.57
877 2024 1.277580 AACCCTGCCTCTCCATCAGG 61.278 60.000 0.00 0.00 45.24 3.86
993 2175 5.605534 CCATACAGCTTGCTTGTACTATCT 58.394 41.667 0.00 0.00 34.15 1.98
994 2176 4.212214 GCCATACAGCTTGCTTGTACTATC 59.788 45.833 0.00 0.00 34.15 2.08
996 2178 3.055458 TGCCATACAGCTTGCTTGTACTA 60.055 43.478 0.00 0.00 34.15 1.82
998 2180 2.083774 TGCCATACAGCTTGCTTGTAC 58.916 47.619 0.00 0.00 34.15 2.90
1014 2199 3.608796 TCGAATGAATGAATGACTGCCA 58.391 40.909 0.00 0.00 0.00 4.92
1015 2200 3.873361 TCTCGAATGAATGAATGACTGCC 59.127 43.478 0.00 0.00 0.00 4.85
1055 2244 3.062763 CTCGTGTTTGTGCTTGATCTCT 58.937 45.455 0.00 0.00 0.00 3.10
1060 2249 1.090728 TTGCTCGTGTTTGTGCTTGA 58.909 45.000 0.00 0.00 0.00 3.02
1296 2485 0.597568 CTTCATCTTGCGTTTGGCCA 59.402 50.000 0.00 0.00 42.61 5.36
1433 2622 1.215382 CGCTCTCCACCGTGATGAA 59.785 57.895 0.00 0.00 0.00 2.57
1496 2691 1.813753 GCGAGTGCGGCAAGGATAA 60.814 57.895 3.23 0.00 38.16 1.75
2095 3296 1.611474 GGTACCCCGTGAAGGAGACC 61.611 65.000 0.00 0.00 45.00 3.85
2356 3557 0.174845 CGGAGGATGCCTTGACGTAA 59.825 55.000 0.00 0.00 31.76 3.18
2611 3813 2.802106 CTCGAGAAGAGCCCGTCC 59.198 66.667 6.58 0.00 40.54 4.79
2715 3917 0.858583 CGCACAATGTGAGTCGTTGA 59.141 50.000 18.66 0.00 43.50 3.18
2749 3951 3.567579 CTTCCCTGGCCGGCAGAAA 62.568 63.158 30.85 17.74 0.00 2.52
2797 3999 5.190528 TCATCATCCCTAATAATCCTGCTCC 59.809 44.000 0.00 0.00 0.00 4.70
2801 4003 7.989741 GTGGTATCATCATCCCTAATAATCCTG 59.010 40.741 0.00 0.00 0.00 3.86
2821 4023 3.181329 TGATGGGAAGTGTGAGTGGTAT 58.819 45.455 0.00 0.00 0.00 2.73
2831 4033 1.290203 CCGACGAATGATGGGAAGTG 58.710 55.000 0.00 0.00 0.00 3.16
2832 4034 0.462047 GCCGACGAATGATGGGAAGT 60.462 55.000 0.00 0.00 0.00 3.01
2833 4035 1.160329 GGCCGACGAATGATGGGAAG 61.160 60.000 0.00 0.00 0.00 3.46
2840 4042 0.251916 ATTTCAGGGCCGACGAATGA 59.748 50.000 0.00 0.00 0.00 2.57
2841 4043 1.948104 TATTTCAGGGCCGACGAATG 58.052 50.000 0.00 0.00 0.00 2.67
2842 4044 2.702592 TTATTTCAGGGCCGACGAAT 57.297 45.000 0.00 0.25 0.00 3.34
2843 4045 2.476126 TTTATTTCAGGGCCGACGAA 57.524 45.000 0.00 0.00 0.00 3.85
2844 4046 2.680841 CAATTTATTTCAGGGCCGACGA 59.319 45.455 0.00 0.00 0.00 4.20
2845 4047 2.422127 ACAATTTATTTCAGGGCCGACG 59.578 45.455 0.00 0.00 0.00 5.12
2846 4048 4.450082 AACAATTTATTTCAGGGCCGAC 57.550 40.909 0.00 0.00 0.00 4.79
2847 4049 5.245075 AGAAAACAATTTATTTCAGGGCCGA 59.755 36.000 12.74 0.00 37.87 5.54
2848 4050 5.478407 AGAAAACAATTTATTTCAGGGCCG 58.522 37.500 12.74 0.00 37.87 6.13
2849 4051 7.875554 TGTAAGAAAACAATTTATTTCAGGGCC 59.124 33.333 12.74 0.00 37.87 5.80
2850 4052 8.825667 TGTAAGAAAACAATTTATTTCAGGGC 57.174 30.769 12.74 4.04 37.87 5.19
2851 4053 8.925700 GCTGTAAGAAAACAATTTATTTCAGGG 58.074 33.333 13.39 3.19 41.51 4.45
2852 4054 9.474920 TGCTGTAAGAAAACAATTTATTTCAGG 57.525 29.630 13.39 1.81 41.51 3.86
2854 4056 9.255304 GGTGCTGTAAGAAAACAATTTATTTCA 57.745 29.630 12.74 0.00 37.87 2.69
2855 4057 9.255304 TGGTGCTGTAAGAAAACAATTTATTTC 57.745 29.630 5.07 5.07 34.07 2.17
2856 4058 9.260002 CTGGTGCTGTAAGAAAACAATTTATTT 57.740 29.630 0.00 0.00 34.07 1.40
2857 4059 7.384932 GCTGGTGCTGTAAGAAAACAATTTATT 59.615 33.333 0.00 0.00 34.07 1.40
2858 4060 6.868339 GCTGGTGCTGTAAGAAAACAATTTAT 59.132 34.615 0.00 0.00 34.07 1.40
2859 4061 6.183360 TGCTGGTGCTGTAAGAAAACAATTTA 60.183 34.615 0.00 0.00 40.48 1.40
2860 4062 5.049828 GCTGGTGCTGTAAGAAAACAATTT 58.950 37.500 0.00 0.00 34.07 1.82
2861 4063 4.099266 TGCTGGTGCTGTAAGAAAACAATT 59.901 37.500 0.00 0.00 40.48 2.32
2862 4064 3.636300 TGCTGGTGCTGTAAGAAAACAAT 59.364 39.130 0.00 0.00 40.48 2.71
2863 4065 3.020274 TGCTGGTGCTGTAAGAAAACAA 58.980 40.909 0.00 0.00 40.48 2.83
2864 4066 2.357637 GTGCTGGTGCTGTAAGAAAACA 59.642 45.455 0.00 0.00 40.48 2.83
2865 4067 2.287608 GGTGCTGGTGCTGTAAGAAAAC 60.288 50.000 0.00 0.00 40.48 2.43
2866 4068 1.953686 GGTGCTGGTGCTGTAAGAAAA 59.046 47.619 0.00 0.00 40.48 2.29
2867 4069 1.133945 TGGTGCTGGTGCTGTAAGAAA 60.134 47.619 0.00 0.00 40.48 2.52
2868 4070 0.472044 TGGTGCTGGTGCTGTAAGAA 59.528 50.000 0.00 0.00 40.48 2.52
2869 4071 0.692476 ATGGTGCTGGTGCTGTAAGA 59.308 50.000 0.00 0.00 40.48 2.10
2870 4072 0.806868 CATGGTGCTGGTGCTGTAAG 59.193 55.000 0.00 0.00 40.48 2.34
2871 4073 0.399833 TCATGGTGCTGGTGCTGTAA 59.600 50.000 0.00 0.00 40.48 2.41
2872 4074 0.399833 TTCATGGTGCTGGTGCTGTA 59.600 50.000 0.00 0.00 40.48 2.74
2873 4075 0.467844 TTTCATGGTGCTGGTGCTGT 60.468 50.000 0.00 0.00 40.48 4.40
2874 4076 0.892755 ATTTCATGGTGCTGGTGCTG 59.107 50.000 0.00 0.00 40.48 4.41
2875 4077 1.274167 CAATTTCATGGTGCTGGTGCT 59.726 47.619 0.00 0.00 40.48 4.40
2876 4078 1.001181 ACAATTTCATGGTGCTGGTGC 59.999 47.619 0.00 0.00 40.20 5.01
2877 4079 2.296752 TCACAATTTCATGGTGCTGGTG 59.703 45.455 0.00 0.00 32.69 4.17
2878 4080 2.596346 TCACAATTTCATGGTGCTGGT 58.404 42.857 0.00 0.00 32.69 4.00
2879 4081 3.880047 ATCACAATTTCATGGTGCTGG 57.120 42.857 0.00 0.00 32.69 4.85
2880 4082 4.387559 CACAATCACAATTTCATGGTGCTG 59.612 41.667 0.00 0.00 32.69 4.41
2881 4083 4.281435 TCACAATCACAATTTCATGGTGCT 59.719 37.500 0.00 0.00 32.69 4.40
2882 4084 4.558178 TCACAATCACAATTTCATGGTGC 58.442 39.130 0.00 0.00 32.69 5.01
2883 4085 7.171848 ACAAATCACAATCACAATTTCATGGTG 59.828 33.333 0.00 0.00 0.00 4.17
2884 4086 7.218614 ACAAATCACAATCACAATTTCATGGT 58.781 30.769 0.00 0.00 0.00 3.55
2885 4087 7.661127 ACAAATCACAATCACAATTTCATGG 57.339 32.000 0.00 0.00 0.00 3.66
2888 4090 9.814899 AGTAAACAAATCACAATCACAATTTCA 57.185 25.926 0.00 0.00 0.00 2.69
2898 4100 9.769093 GCTCGTATTAAGTAAACAAATCACAAT 57.231 29.630 0.00 0.00 0.00 2.71
2899 4101 8.775527 TGCTCGTATTAAGTAAACAAATCACAA 58.224 29.630 0.00 0.00 0.00 3.33
2900 4102 8.312896 TGCTCGTATTAAGTAAACAAATCACA 57.687 30.769 0.00 0.00 0.00 3.58
2918 4120 8.995220 GGGTGAAAAATAATACATATGCTCGTA 58.005 33.333 1.58 0.00 0.00 3.43
2919 4121 7.307751 CGGGTGAAAAATAATACATATGCTCGT 60.308 37.037 1.58 0.00 0.00 4.18
2920 4122 7.015289 CGGGTGAAAAATAATACATATGCTCG 58.985 38.462 1.58 0.00 0.00 5.03
2921 4123 6.801862 GCGGGTGAAAAATAATACATATGCTC 59.198 38.462 1.58 0.00 0.00 4.26
2922 4124 6.264292 TGCGGGTGAAAAATAATACATATGCT 59.736 34.615 1.58 0.00 0.00 3.79
2923 4125 6.442952 TGCGGGTGAAAAATAATACATATGC 58.557 36.000 1.58 0.00 0.00 3.14
2924 4126 8.864069 TTTGCGGGTGAAAAATAATACATATG 57.136 30.769 0.00 0.00 0.00 1.78
2925 4127 9.877178 TTTTTGCGGGTGAAAAATAATACATAT 57.123 25.926 0.00 0.00 32.62 1.78
2926 4128 9.360093 CTTTTTGCGGGTGAAAAATAATACATA 57.640 29.630 0.00 0.00 32.62 2.29
2927 4129 7.333174 CCTTTTTGCGGGTGAAAAATAATACAT 59.667 33.333 0.00 0.00 32.62 2.29
2928 4130 6.647067 CCTTTTTGCGGGTGAAAAATAATACA 59.353 34.615 0.00 0.00 32.62 2.29
2929 4131 6.869388 TCCTTTTTGCGGGTGAAAAATAATAC 59.131 34.615 0.00 0.00 32.62 1.89
2930 4132 6.994221 TCCTTTTTGCGGGTGAAAAATAATA 58.006 32.000 0.00 0.00 32.62 0.98
2931 4133 5.859495 TCCTTTTTGCGGGTGAAAAATAAT 58.141 33.333 0.00 0.00 32.62 1.28
2932 4134 5.163395 ACTCCTTTTTGCGGGTGAAAAATAA 60.163 36.000 0.00 0.00 32.62 1.40
2933 4135 4.342665 ACTCCTTTTTGCGGGTGAAAAATA 59.657 37.500 0.00 0.00 32.62 1.40
2934 4136 3.133901 ACTCCTTTTTGCGGGTGAAAAAT 59.866 39.130 0.00 0.00 32.62 1.82
2935 4137 2.498078 ACTCCTTTTTGCGGGTGAAAAA 59.502 40.909 0.00 0.00 30.49 1.94
2936 4138 2.104170 ACTCCTTTTTGCGGGTGAAAA 58.896 42.857 0.00 0.00 0.00 2.29
2937 4139 1.770294 ACTCCTTTTTGCGGGTGAAA 58.230 45.000 0.00 0.00 0.00 2.69
2938 4140 2.642154 TACTCCTTTTTGCGGGTGAA 57.358 45.000 0.00 0.00 0.00 3.18
2939 4141 2.224670 ACATACTCCTTTTTGCGGGTGA 60.225 45.455 0.00 0.00 0.00 4.02
2940 4142 2.095263 CACATACTCCTTTTTGCGGGTG 60.095 50.000 0.00 0.00 0.00 4.61
2941 4143 2.159382 CACATACTCCTTTTTGCGGGT 58.841 47.619 0.00 0.00 0.00 5.28
2942 4144 2.159382 ACACATACTCCTTTTTGCGGG 58.841 47.619 0.00 0.00 0.00 6.13
2943 4145 3.915437 AACACATACTCCTTTTTGCGG 57.085 42.857 0.00 0.00 0.00 5.69
2944 4146 7.867445 AAAATAACACATACTCCTTTTTGCG 57.133 32.000 0.00 0.00 0.00 4.85
2945 4147 9.040939 ACAAAAATAACACATACTCCTTTTTGC 57.959 29.630 14.18 0.00 41.92 3.68
2947 4149 9.541143 CCACAAAAATAACACATACTCCTTTTT 57.459 29.630 0.00 0.00 0.00 1.94
2948 4150 8.700973 ACCACAAAAATAACACATACTCCTTTT 58.299 29.630 0.00 0.00 0.00 2.27
2949 4151 8.245195 ACCACAAAAATAACACATACTCCTTT 57.755 30.769 0.00 0.00 0.00 3.11
2950 4152 7.833285 ACCACAAAAATAACACATACTCCTT 57.167 32.000 0.00 0.00 0.00 3.36
2951 4153 7.833285 AACCACAAAAATAACACATACTCCT 57.167 32.000 0.00 0.00 0.00 3.69
2952 4154 9.401873 GTAAACCACAAAAATAACACATACTCC 57.598 33.333 0.00 0.00 0.00 3.85
2953 4155 9.953697 TGTAAACCACAAAAATAACACATACTC 57.046 29.630 0.00 0.00 32.95 2.59
2954 4156 9.959749 CTGTAAACCACAAAAATAACACATACT 57.040 29.630 0.00 0.00 36.48 2.12
2955 4157 9.738832 ACTGTAAACCACAAAAATAACACATAC 57.261 29.630 0.00 0.00 36.48 2.39
2956 4158 9.953697 GACTGTAAACCACAAAAATAACACATA 57.046 29.630 0.00 0.00 36.48 2.29
2957 4159 8.691797 AGACTGTAAACCACAAAAATAACACAT 58.308 29.630 0.00 0.00 36.48 3.21
2958 4160 8.057536 AGACTGTAAACCACAAAAATAACACA 57.942 30.769 0.00 0.00 36.48 3.72
2989 4191 8.673711 CGAGGATTTGGAAACATAACTATTGAA 58.326 33.333 0.00 0.00 42.32 2.69
2990 4192 7.201696 GCGAGGATTTGGAAACATAACTATTGA 60.202 37.037 0.00 0.00 42.32 2.57
2991 4193 6.912591 GCGAGGATTTGGAAACATAACTATTG 59.087 38.462 0.00 0.00 42.32 1.90
2992 4194 6.039382 GGCGAGGATTTGGAAACATAACTATT 59.961 38.462 0.00 0.00 42.32 1.73
2993 4195 5.531287 GGCGAGGATTTGGAAACATAACTAT 59.469 40.000 0.00 0.00 42.32 2.12
2994 4196 4.879545 GGCGAGGATTTGGAAACATAACTA 59.120 41.667 0.00 0.00 42.32 2.24
2995 4197 3.694566 GGCGAGGATTTGGAAACATAACT 59.305 43.478 0.00 0.00 42.32 2.24
2996 4198 3.181490 GGGCGAGGATTTGGAAACATAAC 60.181 47.826 0.00 0.00 42.32 1.89
2997 4199 3.020984 GGGCGAGGATTTGGAAACATAA 58.979 45.455 0.00 0.00 42.32 1.90
2998 4200 2.025793 TGGGCGAGGATTTGGAAACATA 60.026 45.455 0.00 0.00 42.32 2.29
2999 4201 1.272425 TGGGCGAGGATTTGGAAACAT 60.272 47.619 0.00 0.00 42.32 2.71
3000 4202 0.111446 TGGGCGAGGATTTGGAAACA 59.889 50.000 0.00 0.00 39.83 2.83
3001 4203 1.253100 TTGGGCGAGGATTTGGAAAC 58.747 50.000 0.00 0.00 0.00 2.78
3002 4204 2.002505 TTTGGGCGAGGATTTGGAAA 57.997 45.000 0.00 0.00 0.00 3.13
3003 4205 2.230130 ATTTGGGCGAGGATTTGGAA 57.770 45.000 0.00 0.00 0.00 3.53
3004 4206 2.422803 CCTATTTGGGCGAGGATTTGGA 60.423 50.000 0.00 0.00 31.45 3.53
3005 4207 1.956477 CCTATTTGGGCGAGGATTTGG 59.044 52.381 0.00 0.00 31.45 3.28
3006 4208 2.930950 TCCTATTTGGGCGAGGATTTG 58.069 47.619 0.00 0.00 34.36 2.32
3007 4209 3.884037 ATCCTATTTGGGCGAGGATTT 57.116 42.857 0.00 0.00 45.94 2.17
3010 4212 4.993705 ATAAATCCTATTTGGGCGAGGA 57.006 40.909 0.00 0.00 43.46 3.71
3011 4213 5.772521 CAAATAAATCCTATTTGGGCGAGG 58.227 41.667 8.66 0.00 39.78 4.63
3018 4220 7.703328 AGTGTACGCCAAATAAATCCTATTTG 58.297 34.615 1.98 9.33 41.86 2.32
3019 4221 7.875327 AGTGTACGCCAAATAAATCCTATTT 57.125 32.000 1.98 0.00 0.00 1.40
3020 4222 7.554835 TGAAGTGTACGCCAAATAAATCCTATT 59.445 33.333 1.98 0.00 0.00 1.73
3021 4223 7.012044 GTGAAGTGTACGCCAAATAAATCCTAT 59.988 37.037 1.98 0.00 0.00 2.57
3022 4224 6.314400 GTGAAGTGTACGCCAAATAAATCCTA 59.686 38.462 1.98 0.00 0.00 2.94
3023 4225 5.123344 GTGAAGTGTACGCCAAATAAATCCT 59.877 40.000 1.98 0.00 0.00 3.24
3024 4226 5.329493 GTGAAGTGTACGCCAAATAAATCC 58.671 41.667 1.98 0.00 0.00 3.01
3025 4227 5.019498 CGTGAAGTGTACGCCAAATAAATC 58.981 41.667 1.98 0.00 34.56 2.17
3155 4357 3.873952 AGACTTCTTTTGCTCTGTCACAC 59.126 43.478 0.00 0.00 0.00 3.82
3201 4403 9.084164 GTCTATTTTACAAGCTCTGTCGATAAA 57.916 33.333 5.04 0.00 39.64 1.40
3267 4469 6.154534 CCCATAATACATAGTTCCCGATCTGA 59.845 42.308 0.00 0.00 0.00 3.27
3384 4586 3.122480 TCCCCATGGATATCTGTTGTGT 58.878 45.455 15.22 0.00 35.03 3.72
3445 4647 5.255397 TCCTCTTTTAATGGAAGCCTTCA 57.745 39.130 6.80 0.00 0.00 3.02
3466 4668 3.161866 GACCATCCTCTAGACCATCCTC 58.838 54.545 0.00 0.00 0.00 3.71
3467 4669 2.794760 AGACCATCCTCTAGACCATCCT 59.205 50.000 0.00 0.00 0.00 3.24
3468 4670 3.252554 AGACCATCCTCTAGACCATCC 57.747 52.381 0.00 0.00 0.00 3.51
3469 4671 4.525100 GGTTAGACCATCCTCTAGACCATC 59.475 50.000 0.00 0.00 38.42 3.51
3470 4672 4.484912 GGTTAGACCATCCTCTAGACCAT 58.515 47.826 0.00 0.00 38.42 3.55
3471 4673 3.373877 GGGTTAGACCATCCTCTAGACCA 60.374 52.174 0.00 0.00 41.02 4.02
3472 4674 3.232662 GGGTTAGACCATCCTCTAGACC 58.767 54.545 0.00 0.00 41.02 3.85
3473 4675 3.232662 GGGGTTAGACCATCCTCTAGAC 58.767 54.545 0.00 0.00 41.02 2.59
3474 4676 2.179424 GGGGGTTAGACCATCCTCTAGA 59.821 54.545 0.00 0.00 41.02 2.43
3475 4677 2.610873 GGGGGTTAGACCATCCTCTAG 58.389 57.143 0.00 0.00 41.02 2.43
3476 4678 2.789323 GGGGGTTAGACCATCCTCTA 57.211 55.000 0.00 0.00 41.02 2.43
3477 4679 3.656869 GGGGGTTAGACCATCCTCT 57.343 57.895 0.00 0.00 41.02 3.69
3522 4724 2.293399 GGTCGTGGTCAAAAGAAGCATT 59.707 45.455 0.00 0.00 0.00 3.56
3597 4799 6.601332 GGTCAATCTTACCATTTCCCTCATA 58.399 40.000 0.00 0.00 36.96 2.15
3601 4803 3.371595 CCGGTCAATCTTACCATTTCCCT 60.372 47.826 0.00 0.00 36.78 4.20
3681 4883 2.028294 TGCGATTACAACCCGTCCTTTA 60.028 45.455 0.00 0.00 0.00 1.85


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

AutoCloner maintained by Alex Coulton.