Multiple sequence alignment - TraesCS1A01G365900

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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 TraesCS1A01G365900 chr1A 100.000 3389 0 0 1 3389 544747200 544750588 0.000000e+00 6259.0
1 TraesCS1A01G365900 chr1A 85.353 1106 112 32 1099 2182 545009498 545008421 0.000000e+00 1099.0
2 TraesCS1A01G365900 chr1A 93.462 673 39 2 1481 2148 544928182 544928854 0.000000e+00 994.0
3 TraesCS1A01G365900 chr1A 80.769 1170 119 56 278 1371 544999317 545000456 0.000000e+00 817.0
4 TraesCS1A01G365900 chr1A 83.818 791 94 18 2451 3220 544934095 544934872 0.000000e+00 721.0
5 TraesCS1A01G365900 chr1A 82.185 595 51 11 132 679 544765411 544764825 8.570000e-126 460.0
6 TraesCS1A01G365900 chr1A 85.816 282 21 8 1 279 544998813 544999078 7.160000e-72 281.0
7 TraesCS1A01G365900 chr1A 77.112 367 36 21 176 509 544924104 544924455 5.820000e-38 169.0
8 TraesCS1A01G365900 chr1B 89.992 1329 77 11 966 2246 615581591 615582911 0.000000e+00 1666.0
9 TraesCS1A01G365900 chr1B 89.715 982 80 13 1070 2045 615625598 615626564 0.000000e+00 1234.0
10 TraesCS1A01G365900 chr1B 92.169 498 39 0 1481 1978 615732517 615733014 0.000000e+00 704.0
11 TraesCS1A01G365900 chr1B 83.237 692 44 19 133 759 615624537 615625221 1.360000e-158 569.0
12 TraesCS1A01G365900 chr1B 94.983 299 12 3 1075 1371 615732138 615732435 1.840000e-127 466.0
13 TraesCS1A01G365900 chr1B 81.980 505 70 11 2900 3386 615627461 615627962 3.150000e-110 409.0
14 TraesCS1A01G365900 chr1B 82.243 428 28 21 103 488 615580630 615581051 3.260000e-85 326.0
15 TraesCS1A01G365900 chr1B 87.452 263 26 4 2563 2818 615627111 615627373 2.560000e-76 296.0
16 TraesCS1A01G365900 chr1B 80.282 426 47 15 2899 3319 615583587 615583980 1.540000e-73 287.0
17 TraesCS1A01G365900 chr1B 79.467 375 35 15 179 537 615731173 615731521 9.460000e-56 228.0
18 TraesCS1A01G365900 chr1B 90.789 152 9 3 835 986 615731879 615732025 7.420000e-47 198.0
19 TraesCS1A01G365900 chr1B 90.909 77 7 0 603 679 615731662 615731738 1.660000e-18 104.0
20 TraesCS1A01G365900 chr1B 93.939 66 4 0 2426 2491 615582904 615582969 2.150000e-17 100.0
21 TraesCS1A01G365900 chr1B 85.859 99 1 5 4 100 615624098 615624185 3.600000e-15 93.5
22 TraesCS1A01G365900 chr1B 83.000 100 7 4 1 100 615580508 615580597 7.790000e-12 82.4
23 TraesCS1A01G365900 chr1D 90.978 1186 68 23 1070 2238 449674618 449675781 0.000000e+00 1561.0
24 TraesCS1A01G365900 chr1D 88.657 1199 80 17 1075 2246 449752614 449753783 0.000000e+00 1410.0
25 TraesCS1A01G365900 chr1D 87.924 1209 74 28 1075 2243 449660371 449661547 0.000000e+00 1358.0
26 TraesCS1A01G365900 chr1D 85.701 1091 108 31 1099 2180 449923589 449922538 0.000000e+00 1107.0
27 TraesCS1A01G365900 chr1D 87.823 928 78 21 1075 1978 449846823 449847739 0.000000e+00 1055.0
28 TraesCS1A01G365900 chr1D 85.667 900 91 22 2510 3386 449754142 449755026 0.000000e+00 913.0
29 TraesCS1A01G365900 chr1D 81.998 1011 118 25 2432 3385 449675787 449676790 0.000000e+00 800.0
30 TraesCS1A01G365900 chr1D 84.404 545 36 20 1 507 449656604 449657137 1.090000e-134 490.0
31 TraesCS1A01G365900 chr1D 83.779 524 27 25 1 473 449673562 449674078 8.630000e-121 444.0
32 TraesCS1A01G365900 chr1D 78.427 496 56 22 179 654 449749829 449750293 3.330000e-70 276.0
33 TraesCS1A01G365900 chr1D 84.541 207 8 12 504 687 449659545 449659750 2.080000e-42 183.0
34 TraesCS1A01G365900 chr1D 85.714 91 4 1 568 658 449674076 449674157 1.680000e-13 87.9


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 TraesCS1A01G365900 chr1A 544747200 544750588 3388 False 6259.000000 6259 100.000000 1 3389 1 chr1A.!!$F1 3388
1 TraesCS1A01G365900 chr1A 545008421 545009498 1077 True 1099.000000 1099 85.353000 1099 2182 1 chr1A.!!$R2 1083
2 TraesCS1A01G365900 chr1A 544934095 544934872 777 False 721.000000 721 83.818000 2451 3220 1 chr1A.!!$F2 769
3 TraesCS1A01G365900 chr1A 544924104 544928854 4750 False 581.500000 994 85.287000 176 2148 2 chr1A.!!$F3 1972
4 TraesCS1A01G365900 chr1A 544998813 545000456 1643 False 549.000000 817 83.292500 1 1371 2 chr1A.!!$F4 1370
5 TraesCS1A01G365900 chr1A 544764825 544765411 586 True 460.000000 460 82.185000 132 679 1 chr1A.!!$R1 547
6 TraesCS1A01G365900 chr1B 615624098 615627962 3864 False 520.300000 1234 85.648600 4 3386 5 chr1B.!!$F2 3382
7 TraesCS1A01G365900 chr1B 615580508 615583980 3472 False 492.280000 1666 85.891200 1 3319 5 chr1B.!!$F1 3318
8 TraesCS1A01G365900 chr1B 615731173 615733014 1841 False 340.000000 704 89.663400 179 1978 5 chr1B.!!$F3 1799
9 TraesCS1A01G365900 chr1D 449922538 449923589 1051 True 1107.000000 1107 85.701000 1099 2180 1 chr1D.!!$R1 1081
10 TraesCS1A01G365900 chr1D 449846823 449847739 916 False 1055.000000 1055 87.823000 1075 1978 1 chr1D.!!$F1 903
11 TraesCS1A01G365900 chr1D 449749829 449755026 5197 False 866.333333 1410 84.250333 179 3386 3 chr1D.!!$F4 3207
12 TraesCS1A01G365900 chr1D 449673562 449676790 3228 False 723.225000 1561 85.617250 1 3385 4 chr1D.!!$F3 3384
13 TraesCS1A01G365900 chr1D 449656604 449661547 4943 False 677.000000 1358 85.623000 1 2243 3 chr1D.!!$F2 2242

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
32 35 0.100503 GGGCAGCGCGTTGATTAATT 59.899 50.0 27.74 0.0 0.0 1.40 F
494 1175 0.303493 CGGCCGGTGATTATTTGTCG 59.697 55.0 20.10 0.0 0.0 4.35 F
997 7742 0.395312 CCCGACCATACATACCCACC 59.605 60.0 0.00 0.0 0.0 4.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1062 9204 1.376424 GCAGCTGAGCTAGGCAACA 60.376 57.895 20.43 0.00 36.4 3.33 R
2248 10792 0.247736 CCACTCAGACCTAGCCACAC 59.752 60.000 0.00 0.00 0.0 3.82 R
2853 11920 0.461961 TTTTTGGCCGAACTGTTGGG 59.538 50.000 16.24 16.24 0.0 4.12 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
30 33 2.745785 CGGGCAGCGCGTTGATTAA 61.746 57.895 27.74 0.00 35.14 1.40
31 34 1.727467 GGGCAGCGCGTTGATTAAT 59.273 52.632 27.74 0.00 0.00 1.40
32 35 0.100503 GGGCAGCGCGTTGATTAATT 59.899 50.000 27.74 0.00 0.00 1.40
77 81 4.893601 TGCCGCCACGAACACGAA 62.894 61.111 0.00 0.00 0.00 3.85
168 506 0.586319 CAAGTGATGACACCGCGTTT 59.414 50.000 4.92 0.00 46.99 3.60
311 953 4.386867 TCGCTTCGATTTGATTAGGTCT 57.613 40.909 0.00 0.00 0.00 3.85
393 1052 2.203750 TTGTTTGGCCCCCATGCT 59.796 55.556 0.00 0.00 31.53 3.79
428 1093 1.595929 GGAACGTGAAGGTCGGCAA 60.596 57.895 0.00 0.00 37.47 4.52
436 1101 2.125766 GAAGGTCGGCAAGGGAAGGT 62.126 60.000 0.00 0.00 0.00 3.50
492 1173 2.341846 ATCGGCCGGTGATTATTTGT 57.658 45.000 27.83 0.00 0.00 2.83
494 1175 0.303493 CGGCCGGTGATTATTTGTCG 59.697 55.000 20.10 0.00 0.00 4.35
495 1176 1.658994 GGCCGGTGATTATTTGTCGA 58.341 50.000 1.90 0.00 0.00 4.20
496 1177 2.218603 GGCCGGTGATTATTTGTCGAT 58.781 47.619 1.90 0.00 0.00 3.59
551 3934 5.302568 CAGTAATCTCTCCTTCTCAGCTGAT 59.697 44.000 18.63 0.00 0.00 2.90
562 3945 4.326504 TCTCAGCTGATAAATCATGCGA 57.673 40.909 18.63 3.75 36.63 5.10
563 3946 4.304939 TCTCAGCTGATAAATCATGCGAG 58.695 43.478 18.63 0.25 36.63 5.03
654 5154 1.064240 ACCGTTGGGGGCTTAATTAGG 60.064 52.381 0.00 0.00 41.60 2.69
679 5829 3.250744 GTCGCACTTAATCAGCAGTGTA 58.749 45.455 2.08 0.00 42.19 2.90
684 5860 1.933853 CTTAATCAGCAGTGTACCGGC 59.066 52.381 0.00 0.00 0.00 6.13
687 5863 1.884075 ATCAGCAGTGTACCGGCGAA 61.884 55.000 9.30 0.00 0.00 4.70
696 5874 1.614903 TGTACCGGCGAAGAAAGAAGA 59.385 47.619 9.30 0.00 0.00 2.87
725 5926 3.869065 TCTTGTGAAGGAAAGTCACGTT 58.131 40.909 0.00 0.00 46.89 3.99
737 5946 1.096416 GTCACGTTCCCAACAAACCA 58.904 50.000 0.00 0.00 0.00 3.67
763 7446 2.938956 AAGAGAGAAACACACCCTGG 57.061 50.000 0.00 0.00 0.00 4.45
887 7586 2.116736 TTGCTTCTGCGTTGCTTCGG 62.117 55.000 3.70 0.00 43.34 4.30
894 7593 2.047655 CGTTGCTTCGGGCCTACA 60.048 61.111 0.84 0.00 40.92 2.74
922 7639 0.907230 GCCTCACCTCACTCCCTCTT 60.907 60.000 0.00 0.00 0.00 2.85
945 7662 1.927608 CTCTCGCCGAGTGAGCTTGA 61.928 60.000 14.64 0.00 39.69 3.02
965 7682 3.345808 TTCTTGCCACGCACGCTC 61.346 61.111 0.00 0.00 38.71 5.03
966 7683 3.807631 TTCTTGCCACGCACGCTCT 62.808 57.895 0.00 0.00 38.71 4.09
979 7724 2.159085 GCACGCTCTCCCCATATATACC 60.159 54.545 0.00 0.00 0.00 2.73
980 7725 2.431057 CACGCTCTCCCCATATATACCC 59.569 54.545 0.00 0.00 0.00 3.69
981 7726 1.681793 CGCTCTCCCCATATATACCCG 59.318 57.143 0.00 0.00 0.00 5.28
982 7727 2.685819 CGCTCTCCCCATATATACCCGA 60.686 54.545 0.00 0.00 0.00 5.14
983 7728 2.694109 GCTCTCCCCATATATACCCGAC 59.306 54.545 0.00 0.00 0.00 4.79
984 7729 3.297736 CTCTCCCCATATATACCCGACC 58.702 54.545 0.00 0.00 0.00 4.79
985 7730 2.655920 TCTCCCCATATATACCCGACCA 59.344 50.000 0.00 0.00 0.00 4.02
986 7731 3.273886 TCTCCCCATATATACCCGACCAT 59.726 47.826 0.00 0.00 0.00 3.55
987 7732 4.483146 TCTCCCCATATATACCCGACCATA 59.517 45.833 0.00 0.00 0.00 2.74
988 7733 4.549668 TCCCCATATATACCCGACCATAC 58.450 47.826 0.00 0.00 0.00 2.39
989 7734 4.016386 TCCCCATATATACCCGACCATACA 60.016 45.833 0.00 0.00 0.00 2.29
990 7735 4.905456 CCCCATATATACCCGACCATACAT 59.095 45.833 0.00 0.00 0.00 2.29
991 7736 6.079336 CCCCATATATACCCGACCATACATA 58.921 44.000 0.00 0.00 0.00 2.29
992 7737 6.014840 CCCCATATATACCCGACCATACATAC 60.015 46.154 0.00 0.00 0.00 2.39
993 7738 6.014840 CCCATATATACCCGACCATACATACC 60.015 46.154 0.00 0.00 0.00 2.73
994 7739 6.014840 CCATATATACCCGACCATACATACCC 60.015 46.154 0.00 0.00 0.00 3.69
995 7740 2.771562 TACCCGACCATACATACCCA 57.228 50.000 0.00 0.00 0.00 4.51
996 7741 1.125633 ACCCGACCATACATACCCAC 58.874 55.000 0.00 0.00 0.00 4.61
997 7742 0.395312 CCCGACCATACATACCCACC 59.605 60.000 0.00 0.00 0.00 4.61
998 7743 1.124780 CCGACCATACATACCCACCA 58.875 55.000 0.00 0.00 0.00 4.17
1039 9157 2.027625 GAGGAAGCAACCGTCGGTG 61.028 63.158 19.67 13.16 35.34 4.94
1062 9204 0.750850 CATTACCTCCGTCCATCCGT 59.249 55.000 0.00 0.00 0.00 4.69
1561 9804 7.162082 ACGAAATCAAGAACTTCTGGAATAGT 58.838 34.615 0.00 0.00 28.71 2.12
1818 10078 2.018542 GCATTGTACGGCCAGTTCTA 57.981 50.000 2.24 0.00 0.00 2.10
1833 10093 0.611714 TTCTACGGTGGAAAGGAGGC 59.388 55.000 4.31 0.00 0.00 4.70
1896 10159 3.827898 GCTGGACGTCCCGGAGAG 61.828 72.222 31.19 21.55 44.44 3.20
2092 10385 2.812658 CAGAGCCTCCTCCCAAATTTT 58.187 47.619 0.00 0.00 38.96 1.82
2123 10416 7.226720 TCAACTTGGAACAGTACTTCTGATTTC 59.773 37.037 0.00 0.00 46.27 2.17
2193 10737 7.439157 TTTTTAAGAGACATGGATGACACTG 57.561 36.000 0.00 0.00 0.00 3.66
2202 10746 5.245531 ACATGGATGACACTGTAAAATCGT 58.754 37.500 0.00 0.00 0.00 3.73
2205 10749 7.389330 ACATGGATGACACTGTAAAATCGTAAA 59.611 33.333 0.00 0.00 0.00 2.01
2223 10767 7.395190 TCGTAAATTAGTGCTACTTCAGGTA 57.605 36.000 0.00 0.00 0.00 3.08
2226 10770 8.540492 CGTAAATTAGTGCTACTTCAGGTAATG 58.460 37.037 0.00 0.00 0.00 1.90
2233 10777 6.551601 AGTGCTACTTCAGGTAATGTATAGCT 59.448 38.462 0.00 0.00 36.50 3.32
2246 10790 9.683069 GGTAATGTATAGCTTCATTTCCAATTG 57.317 33.333 19.35 0.00 39.54 2.32
2251 10795 7.611467 TGTATAGCTTCATTTCCAATTGAGTGT 59.389 33.333 7.12 0.00 0.00 3.55
2252 10796 5.130292 AGCTTCATTTCCAATTGAGTGTG 57.870 39.130 7.12 0.99 0.00 3.82
2253 10797 4.021719 AGCTTCATTTCCAATTGAGTGTGG 60.022 41.667 7.12 0.00 36.13 4.17
2254 10798 3.940209 TCATTTCCAATTGAGTGTGGC 57.060 42.857 7.12 0.00 34.68 5.01
2255 10799 3.499338 TCATTTCCAATTGAGTGTGGCT 58.501 40.909 7.12 0.00 34.68 4.75
2256 10800 4.661222 TCATTTCCAATTGAGTGTGGCTA 58.339 39.130 7.12 0.00 34.68 3.93
2257 10801 4.701651 TCATTTCCAATTGAGTGTGGCTAG 59.298 41.667 7.12 0.00 34.68 3.42
2258 10802 2.787473 TCCAATTGAGTGTGGCTAGG 57.213 50.000 7.12 0.00 34.68 3.02
2259 10803 1.985159 TCCAATTGAGTGTGGCTAGGT 59.015 47.619 7.12 0.00 34.68 3.08
2260 10804 2.027192 TCCAATTGAGTGTGGCTAGGTC 60.027 50.000 7.12 0.00 34.68 3.85
2261 10805 2.026822 CCAATTGAGTGTGGCTAGGTCT 60.027 50.000 7.12 0.00 0.00 3.85
2262 10806 3.005554 CAATTGAGTGTGGCTAGGTCTG 58.994 50.000 0.00 0.00 0.00 3.51
2263 10807 2.009681 TTGAGTGTGGCTAGGTCTGA 57.990 50.000 0.00 0.00 0.00 3.27
2264 10808 1.550327 TGAGTGTGGCTAGGTCTGAG 58.450 55.000 0.00 0.00 0.00 3.35
2265 10809 1.203063 TGAGTGTGGCTAGGTCTGAGT 60.203 52.381 0.00 0.00 0.00 3.41
2266 10810 1.203523 GAGTGTGGCTAGGTCTGAGTG 59.796 57.143 0.00 0.00 0.00 3.51
2267 10811 0.247736 GTGTGGCTAGGTCTGAGTGG 59.752 60.000 0.00 0.00 0.00 4.00
2268 10812 0.114364 TGTGGCTAGGTCTGAGTGGA 59.886 55.000 0.00 0.00 0.00 4.02
2269 10813 0.533032 GTGGCTAGGTCTGAGTGGAC 59.467 60.000 0.00 0.00 35.66 4.02
2274 10818 4.417641 GGTCTGAGTGGACCGAGA 57.582 61.111 0.00 0.00 44.94 4.04
2275 10819 1.884444 GGTCTGAGTGGACCGAGAC 59.116 63.158 0.00 0.00 44.94 3.36
2276 10820 0.609681 GGTCTGAGTGGACCGAGACT 60.610 60.000 10.78 0.00 44.94 3.24
2277 10821 1.249407 GTCTGAGTGGACCGAGACTT 58.751 55.000 0.00 0.00 33.46 3.01
2278 10822 2.434428 GTCTGAGTGGACCGAGACTTA 58.566 52.381 0.00 0.00 33.46 2.24
2279 10823 2.818432 GTCTGAGTGGACCGAGACTTAA 59.182 50.000 0.00 0.00 33.46 1.85
2280 10824 2.818432 TCTGAGTGGACCGAGACTTAAC 59.182 50.000 0.00 0.00 0.00 2.01
2281 10825 2.820787 CTGAGTGGACCGAGACTTAACT 59.179 50.000 0.00 0.00 0.00 2.24
2282 10826 4.008330 CTGAGTGGACCGAGACTTAACTA 58.992 47.826 0.00 0.00 0.00 2.24
2283 10827 4.401022 TGAGTGGACCGAGACTTAACTAA 58.599 43.478 0.00 0.00 0.00 2.24
2284 10828 4.458295 TGAGTGGACCGAGACTTAACTAAG 59.542 45.833 0.00 0.00 39.18 2.18
2286 10830 4.831710 AGTGGACCGAGACTTAACTAAGTT 59.168 41.667 3.71 0.00 45.84 2.66
2287 10831 5.303845 AGTGGACCGAGACTTAACTAAGTTT 59.696 40.000 3.71 0.00 45.84 2.66
2288 10832 5.632764 GTGGACCGAGACTTAACTAAGTTTC 59.367 44.000 9.17 9.17 45.84 2.78
2289 10833 5.302568 TGGACCGAGACTTAACTAAGTTTCA 59.697 40.000 16.18 0.03 45.84 2.69
2290 10834 5.632764 GGACCGAGACTTAACTAAGTTTCAC 59.367 44.000 16.18 9.16 45.84 3.18
2291 10835 6.402456 ACCGAGACTTAACTAAGTTTCACT 57.598 37.500 16.18 5.13 45.84 3.41
2292 10836 6.445475 ACCGAGACTTAACTAAGTTTCACTC 58.555 40.000 16.18 11.13 45.84 3.51
2293 10837 6.040166 ACCGAGACTTAACTAAGTTTCACTCA 59.960 38.462 16.18 0.00 45.84 3.41
2294 10838 6.921857 CCGAGACTTAACTAAGTTTCACTCAA 59.078 38.462 16.18 0.00 45.84 3.02
2295 10839 7.115095 CCGAGACTTAACTAAGTTTCACTCAAG 59.885 40.741 16.18 0.70 45.84 3.02
2296 10840 7.358517 CGAGACTTAACTAAGTTTCACTCAAGC 60.359 40.741 16.18 0.00 45.84 4.01
2297 10841 6.421202 AGACTTAACTAAGTTTCACTCAAGCG 59.579 38.462 3.71 0.00 45.84 4.68
2298 10842 6.278363 ACTTAACTAAGTTTCACTCAAGCGA 58.722 36.000 0.00 0.00 43.57 4.93
2299 10843 6.759827 ACTTAACTAAGTTTCACTCAAGCGAA 59.240 34.615 0.00 0.00 43.57 4.70
2300 10844 7.279313 ACTTAACTAAGTTTCACTCAAGCGAAA 59.721 33.333 0.00 0.00 43.57 3.46
2304 10848 3.675467 GTTTCACTCAAGCGAAACTGT 57.325 42.857 13.69 0.00 44.83 3.55
2305 10849 4.789095 GTTTCACTCAAGCGAAACTGTA 57.211 40.909 13.69 0.00 44.83 2.74
2306 10850 5.344207 GTTTCACTCAAGCGAAACTGTAT 57.656 39.130 13.69 0.00 44.83 2.29
2307 10851 6.462073 GTTTCACTCAAGCGAAACTGTATA 57.538 37.500 13.69 0.00 44.83 1.47
2308 10852 7.061752 GTTTCACTCAAGCGAAACTGTATAT 57.938 36.000 13.69 0.00 44.83 0.86
2309 10853 8.181487 GTTTCACTCAAGCGAAACTGTATATA 57.819 34.615 13.69 0.00 44.83 0.86
2310 10854 8.653338 GTTTCACTCAAGCGAAACTGTATATAA 58.347 33.333 13.69 0.00 44.83 0.98
2311 10855 7.987268 TCACTCAAGCGAAACTGTATATAAG 57.013 36.000 0.00 0.00 0.00 1.73
2312 10856 7.768240 TCACTCAAGCGAAACTGTATATAAGA 58.232 34.615 0.00 0.00 0.00 2.10
2313 10857 8.248253 TCACTCAAGCGAAACTGTATATAAGAA 58.752 33.333 0.00 0.00 0.00 2.52
2314 10858 8.535592 CACTCAAGCGAAACTGTATATAAGAAG 58.464 37.037 0.00 0.00 0.00 2.85
2315 10859 7.707035 ACTCAAGCGAAACTGTATATAAGAAGG 59.293 37.037 0.00 0.00 0.00 3.46
2316 10860 7.778083 TCAAGCGAAACTGTATATAAGAAGGA 58.222 34.615 0.00 0.00 0.00 3.36
2317 10861 8.255206 TCAAGCGAAACTGTATATAAGAAGGAA 58.745 33.333 0.00 0.00 0.00 3.36
2318 10862 8.879759 CAAGCGAAACTGTATATAAGAAGGAAA 58.120 33.333 0.00 0.00 0.00 3.13
2319 10863 9.444600 AAGCGAAACTGTATATAAGAAGGAAAA 57.555 29.630 0.00 0.00 0.00 2.29
2320 10864 8.880750 AGCGAAACTGTATATAAGAAGGAAAAC 58.119 33.333 0.00 0.00 0.00 2.43
2321 10865 8.662141 GCGAAACTGTATATAAGAAGGAAAACA 58.338 33.333 0.00 0.00 0.00 2.83
2398 10942 8.648698 AATATAGCATAGACTGAGACATGAGT 57.351 34.615 0.00 0.00 0.00 3.41
2399 10943 9.746457 AATATAGCATAGACTGAGACATGAGTA 57.254 33.333 0.00 0.00 0.00 2.59
2400 10944 9.746457 ATATAGCATAGACTGAGACATGAGTAA 57.254 33.333 0.00 0.00 0.00 2.24
2401 10945 6.389830 AGCATAGACTGAGACATGAGTAAG 57.610 41.667 0.00 0.00 0.00 2.34
2402 10946 5.890985 AGCATAGACTGAGACATGAGTAAGT 59.109 40.000 0.00 0.00 0.00 2.24
2403 10947 6.039270 AGCATAGACTGAGACATGAGTAAGTC 59.961 42.308 0.00 7.43 35.01 3.01
2404 10948 6.183360 GCATAGACTGAGACATGAGTAAGTCA 60.183 42.308 18.53 9.85 40.38 3.41
2405 10949 7.629437 GCATAGACTGAGACATGAGTAAGTCAA 60.629 40.741 18.53 0.00 39.19 3.18
2406 10950 6.849085 AGACTGAGACATGAGTAAGTCAAT 57.151 37.500 18.53 4.04 39.19 2.57
2407 10951 6.629128 AGACTGAGACATGAGTAAGTCAATG 58.371 40.000 18.53 0.00 39.19 2.82
2408 10952 6.435591 AGACTGAGACATGAGTAAGTCAATGA 59.564 38.462 18.53 0.00 39.19 2.57
2409 10953 6.629128 ACTGAGACATGAGTAAGTCAATGAG 58.371 40.000 0.00 0.00 39.19 2.90
2410 10954 6.435591 ACTGAGACATGAGTAAGTCAATGAGA 59.564 38.462 0.00 0.00 39.19 3.27
2411 10955 7.039434 ACTGAGACATGAGTAAGTCAATGAGAA 60.039 37.037 0.00 0.00 39.19 2.87
2412 10956 7.845037 TGAGACATGAGTAAGTCAATGAGAAT 58.155 34.615 0.00 0.00 39.19 2.40
2413 10957 8.316946 TGAGACATGAGTAAGTCAATGAGAATT 58.683 33.333 0.00 0.00 39.19 2.17
2414 10958 9.809096 GAGACATGAGTAAGTCAATGAGAATTA 57.191 33.333 0.00 0.00 39.19 1.40
2415 10959 9.814899 AGACATGAGTAAGTCAATGAGAATTAG 57.185 33.333 0.00 0.00 37.46 1.73
2416 10960 8.430801 ACATGAGTAAGTCAATGAGAATTAGC 57.569 34.615 0.00 0.00 37.46 3.09
2417 10961 8.043113 ACATGAGTAAGTCAATGAGAATTAGCA 58.957 33.333 0.00 0.00 37.46 3.49
2418 10962 8.886719 CATGAGTAAGTCAATGAGAATTAGCAA 58.113 33.333 0.00 0.00 37.46 3.91
2419 10963 8.846943 TGAGTAAGTCAATGAGAATTAGCAAA 57.153 30.769 0.00 0.00 37.46 3.68
2420 10964 9.283768 TGAGTAAGTCAATGAGAATTAGCAAAA 57.716 29.630 0.00 0.00 37.46 2.44
2421 10965 9.548208 GAGTAAGTCAATGAGAATTAGCAAAAC 57.452 33.333 0.00 0.00 37.46 2.43
2422 10966 9.289782 AGTAAGTCAATGAGAATTAGCAAAACT 57.710 29.630 0.00 0.00 37.46 2.66
2423 10967 9.334693 GTAAGTCAATGAGAATTAGCAAAACTG 57.665 33.333 0.00 0.00 37.46 3.16
2424 10968 6.385033 AGTCAATGAGAATTAGCAAAACTGC 58.615 36.000 0.00 0.00 0.00 4.40
2426 10970 6.865205 GTCAATGAGAATTAGCAAAACTGCTT 59.135 34.615 4.74 0.00 43.52 3.91
2427 10971 7.061557 GTCAATGAGAATTAGCAAAACTGCTTC 59.938 37.037 4.74 0.00 43.52 3.86
2428 10972 5.376854 TGAGAATTAGCAAAACTGCTTCC 57.623 39.130 4.74 0.00 43.52 3.46
2429 10973 4.826733 TGAGAATTAGCAAAACTGCTTCCA 59.173 37.500 4.74 0.00 43.52 3.53
2430 10974 5.048504 TGAGAATTAGCAAAACTGCTTCCAG 60.049 40.000 4.74 0.00 43.52 3.86
2466 11010 5.587844 AGTTAGCTTACTTCATCTTGCATGG 59.412 40.000 0.00 0.00 0.00 3.66
2471 11015 5.163581 GCTTACTTCATCTTGCATGGTGAAT 60.164 40.000 23.89 17.16 30.97 2.57
2504 11356 9.974750 GCTACTTTCAGTTAGATGTGTTTTATC 57.025 33.333 0.00 0.00 0.00 1.75
2511 11363 8.289618 TCAGTTAGATGTGTTTTATCAGCAAAC 58.710 33.333 0.00 0.00 35.11 2.93
2519 11371 6.142817 GTGTTTTATCAGCAAACTACACAGG 58.857 40.000 0.00 0.00 35.50 4.00
2533 11385 3.906720 ACACAGGTGTACACACTTCTT 57.093 42.857 26.51 4.06 45.73 2.52
2538 11390 0.865769 GTGTACACACTTCTTGGGCG 59.134 55.000 21.14 0.00 43.25 6.13
2579 11431 3.171911 CAAACCGCGCGAATTGGC 61.172 61.111 34.63 1.78 0.00 4.52
2588 11440 3.404564 CGCGCGAATTGGCTTAATATAC 58.595 45.455 28.94 0.00 0.00 1.47
2621 11474 6.638063 CGATTACTTTTATGCATGAACATGGG 59.362 38.462 10.16 0.00 39.16 4.00
2624 11477 6.112927 ACTTTTATGCATGAACATGGGTTT 57.887 33.333 10.16 0.00 37.36 3.27
2626 11479 6.427547 ACTTTTATGCATGAACATGGGTTTTG 59.572 34.615 10.16 0.00 37.36 2.44
2692 11551 5.083533 TGTCTTTCATGGTTTTGTGCTTT 57.916 34.783 0.00 0.00 0.00 3.51
2733 11593 2.671396 GCAATTCCTGAAAGCATGCTTG 59.329 45.455 32.54 19.93 36.26 4.01
2752 11612 4.477249 CTTGGGAGGATAGGCATGATTTT 58.523 43.478 0.00 0.00 0.00 1.82
2756 11617 4.522022 GGGAGGATAGGCATGATTTTCTTG 59.478 45.833 0.00 0.00 0.00 3.02
2826 11730 3.670625 TGGAGTTATCCCGACAAAAGTG 58.329 45.455 0.00 0.00 46.04 3.16
2830 11734 3.071892 AGTTATCCCGACAAAAGTGACCA 59.928 43.478 0.00 0.00 0.00 4.02
2863 11930 6.575162 AATACATCTTTGACCCAACAGTTC 57.425 37.500 0.00 0.00 0.00 3.01
2908 12025 4.419522 GGTGACGCACTATCAAATTGTT 57.580 40.909 9.31 0.00 34.40 2.83
2915 12032 9.589111 TGACGCACTATCAAATTGTTAATACTA 57.411 29.630 0.00 0.00 0.00 1.82
3102 12230 7.429633 ACATCTCTAGGATTTCATAGACAACG 58.570 38.462 0.00 0.00 34.73 4.10
3233 12368 8.866956 CAGATTTCCGTATTAACTAAGAAACGT 58.133 33.333 0.00 0.00 0.00 3.99
3235 12370 8.761575 ATTTCCGTATTAACTAAGAAACGTCA 57.238 30.769 0.00 0.00 0.00 4.35
3268 12415 8.564509 AATTGCCAGCATACATTAAACAAATT 57.435 26.923 0.00 0.00 0.00 1.82
3311 12460 6.647212 TCTATAGTTTGAGTTGCAATGACG 57.353 37.500 0.59 0.00 36.15 4.35
3319 12468 4.536065 TGAGTTGCAATGACGACAAAATC 58.464 39.130 0.59 0.00 0.00 2.17
3321 12470 5.125100 AGTTGCAATGACGACAAAATCAT 57.875 34.783 0.59 0.00 37.14 2.45
3343 12492 1.150827 GCCATGGCAGCAAGTTTTTC 58.849 50.000 32.08 0.00 41.49 2.29
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
30 33 1.617357 GCGTCTCGGGGGAGTAATAAT 59.383 52.381 0.00 0.00 0.00 1.28
31 34 1.035139 GCGTCTCGGGGGAGTAATAA 58.965 55.000 0.00 0.00 0.00 1.40
32 35 0.825010 GGCGTCTCGGGGGAGTAATA 60.825 60.000 0.00 0.00 0.00 0.98
72 76 3.358775 TCGTTTTCATGTTTGCTTCGTG 58.641 40.909 0.00 0.00 0.00 4.35
73 77 3.684103 TCGTTTTCATGTTTGCTTCGT 57.316 38.095 0.00 0.00 0.00 3.85
74 78 3.603770 GGATCGTTTTCATGTTTGCTTCG 59.396 43.478 0.00 0.00 0.00 3.79
75 79 4.545610 TGGATCGTTTTCATGTTTGCTTC 58.454 39.130 0.00 0.00 0.00 3.86
76 80 4.582701 TGGATCGTTTTCATGTTTGCTT 57.417 36.364 0.00 0.00 0.00 3.91
77 81 4.380867 GGATGGATCGTTTTCATGTTTGCT 60.381 41.667 0.00 0.00 0.00 3.91
168 506 2.774234 CCAGAAGCAGGGAGGAGAAATA 59.226 50.000 0.00 0.00 0.00 1.40
241 595 0.387878 CTGTCTGTCTGTCTGTCCGC 60.388 60.000 0.00 0.00 0.00 5.54
393 1052 0.673437 TCCATCTGATATGCGTGCGA 59.327 50.000 0.00 0.00 0.00 5.10
398 1057 2.742774 TCACGTTCCATCTGATATGCG 58.257 47.619 0.00 0.00 0.00 4.73
399 1058 3.496130 CCTTCACGTTCCATCTGATATGC 59.504 47.826 0.00 0.00 0.00 3.14
400 1059 4.697514 ACCTTCACGTTCCATCTGATATG 58.302 43.478 0.00 0.00 0.00 1.78
401 1060 4.499865 CGACCTTCACGTTCCATCTGATAT 60.500 45.833 0.00 0.00 0.00 1.63
446 1115 2.890847 AAGGATCGCGTCGCTGGAAG 62.891 60.000 16.36 0.00 0.00 3.46
451 1120 2.103143 CTCAAGGATCGCGTCGCT 59.897 61.111 16.36 0.00 0.00 4.93
551 3934 6.761242 AGTGCACTAATAACTCGCATGATTTA 59.239 34.615 20.16 0.00 34.66 1.40
562 3945 2.346803 CACGGCAGTGCACTAATAACT 58.653 47.619 21.20 0.00 41.94 2.24
563 3946 2.806288 CACGGCAGTGCACTAATAAC 57.194 50.000 21.20 6.74 41.94 1.89
654 5154 2.337583 TGCTGATTAAGTGCGACACTC 58.662 47.619 11.92 2.59 44.62 3.51
679 5829 0.670854 GCTCTTCTTTCTTCGCCGGT 60.671 55.000 1.90 0.00 0.00 5.28
684 5860 3.258228 GAAGGGAGCTCTTCTTTCTTCG 58.742 50.000 14.64 0.00 39.84 3.79
725 5926 4.991776 TCTTATCATGTGGTTTGTTGGGA 58.008 39.130 0.00 0.00 0.00 4.37
737 5946 5.249393 AGGGTGTGTTTCTCTCTTATCATGT 59.751 40.000 0.00 0.00 0.00 3.21
775 7458 3.005539 GGGAGCAGAGACAGGCCA 61.006 66.667 5.01 0.00 0.00 5.36
817 7514 4.584862 CGCGCGCCGGGATAAAAC 62.585 66.667 27.72 0.00 42.31 2.43
848 7545 4.380233 GCAATGGATTGGAGTTCAAGACAG 60.380 45.833 1.67 0.00 38.95 3.51
887 7586 1.963338 GGCAGCGATCATGTAGGCC 60.963 63.158 0.00 0.00 0.00 5.19
894 7593 1.332889 TGAGGTGAGGCAGCGATCAT 61.333 55.000 2.51 0.00 36.92 2.45
945 7662 2.972505 CGTGCGTGGCAAGAACCT 60.973 61.111 5.94 0.00 41.47 3.50
965 7682 3.110293 TGGTCGGGTATATATGGGGAG 57.890 52.381 0.00 0.00 0.00 4.30
966 7683 3.788116 ATGGTCGGGTATATATGGGGA 57.212 47.619 0.00 0.00 0.00 4.81
979 7724 1.124780 TGGTGGGTATGTATGGTCGG 58.875 55.000 0.00 0.00 0.00 4.79
980 7725 1.202604 GGTGGTGGGTATGTATGGTCG 60.203 57.143 0.00 0.00 0.00 4.79
981 7726 1.841277 TGGTGGTGGGTATGTATGGTC 59.159 52.381 0.00 0.00 0.00 4.02
982 7727 1.562475 GTGGTGGTGGGTATGTATGGT 59.438 52.381 0.00 0.00 0.00 3.55
983 7728 1.133915 GGTGGTGGTGGGTATGTATGG 60.134 57.143 0.00 0.00 0.00 2.74
984 7729 1.562008 TGGTGGTGGTGGGTATGTATG 59.438 52.381 0.00 0.00 0.00 2.39
985 7730 1.843851 CTGGTGGTGGTGGGTATGTAT 59.156 52.381 0.00 0.00 0.00 2.29
986 7731 1.281419 CTGGTGGTGGTGGGTATGTA 58.719 55.000 0.00 0.00 0.00 2.29
987 7732 1.497309 CCTGGTGGTGGTGGGTATGT 61.497 60.000 0.00 0.00 0.00 2.29
988 7733 1.302949 CCTGGTGGTGGTGGGTATG 59.697 63.158 0.00 0.00 0.00 2.39
989 7734 2.612493 GCCTGGTGGTGGTGGGTAT 61.612 63.158 0.00 0.00 35.27 2.73
990 7735 3.253838 GCCTGGTGGTGGTGGGTA 61.254 66.667 0.00 0.00 35.27 3.69
992 7737 4.666253 CTGCCTGGTGGTGGTGGG 62.666 72.222 0.00 0.00 35.27 4.61
996 7741 4.371417 ATGGCTGCCTGGTGGTGG 62.371 66.667 21.03 0.00 35.27 4.61
997 7742 2.753043 GATGGCTGCCTGGTGGTG 60.753 66.667 21.03 0.00 35.27 4.17
998 7743 4.415150 CGATGGCTGCCTGGTGGT 62.415 66.667 21.03 0.00 35.27 4.16
1039 9157 2.417719 GATGGACGGAGGTAATGATGC 58.582 52.381 0.00 0.00 0.00 3.91
1062 9204 1.376424 GCAGCTGAGCTAGGCAACA 60.376 57.895 20.43 0.00 36.40 3.33
1561 9804 2.079158 CGGAGCTTCTTCTTGATGCAA 58.921 47.619 0.00 0.00 45.09 4.08
1603 9846 1.974343 GGCCATGGGTTTGTGCGTA 60.974 57.895 15.13 0.00 0.00 4.42
1818 10078 4.016706 CGGCCTCCTTTCCACCGT 62.017 66.667 0.00 0.00 39.05 4.83
1978 10244 2.507102 CCATCGAGCACGCTTCGT 60.507 61.111 0.00 0.00 42.36 3.85
1979 10245 3.918220 GCCATCGAGCACGCTTCG 61.918 66.667 0.00 0.00 39.58 3.79
2092 10385 5.353394 AGTACTGTTCCAAGTTGAACTCA 57.647 39.130 3.87 0.00 43.96 3.41
2182 10726 7.915293 ATTTACGATTTTACAGTGTCATCCA 57.085 32.000 0.00 0.00 0.00 3.41
2187 10731 8.440833 AGCACTAATTTACGATTTTACAGTGTC 58.559 33.333 0.00 0.00 34.71 3.67
2223 10767 9.193806 ACTCAATTGGAAATGAAGCTATACATT 57.806 29.630 5.42 7.56 38.18 2.71
2226 10770 7.912250 CACACTCAATTGGAAATGAAGCTATAC 59.088 37.037 5.42 0.00 0.00 1.47
2233 10777 3.896888 AGCCACACTCAATTGGAAATGAA 59.103 39.130 5.42 0.00 34.46 2.57
2246 10790 1.203523 CACTCAGACCTAGCCACACTC 59.796 57.143 0.00 0.00 0.00 3.51
2247 10791 1.261480 CACTCAGACCTAGCCACACT 58.739 55.000 0.00 0.00 0.00 3.55
2248 10792 0.247736 CCACTCAGACCTAGCCACAC 59.752 60.000 0.00 0.00 0.00 3.82
2251 10795 2.977578 GTCCACTCAGACCTAGCCA 58.022 57.895 0.00 0.00 0.00 4.75
2258 10802 1.249407 AAGTCTCGGTCCACTCAGAC 58.751 55.000 0.00 0.00 36.32 3.51
2259 10803 2.818432 GTTAAGTCTCGGTCCACTCAGA 59.182 50.000 0.00 0.00 0.00 3.27
2260 10804 2.820787 AGTTAAGTCTCGGTCCACTCAG 59.179 50.000 0.00 0.00 0.00 3.35
2261 10805 2.872732 AGTTAAGTCTCGGTCCACTCA 58.127 47.619 0.00 0.00 0.00 3.41
2262 10806 4.458642 ACTTAGTTAAGTCTCGGTCCACTC 59.541 45.833 0.00 0.00 42.52 3.51
2263 10807 4.405548 ACTTAGTTAAGTCTCGGTCCACT 58.594 43.478 0.00 0.00 42.52 4.00
2264 10808 4.780275 ACTTAGTTAAGTCTCGGTCCAC 57.220 45.455 0.00 0.00 42.52 4.02
2265 10809 5.302568 TGAAACTTAGTTAAGTCTCGGTCCA 59.697 40.000 0.00 0.00 45.17 4.02
2266 10810 5.632764 GTGAAACTTAGTTAAGTCTCGGTCC 59.367 44.000 0.00 0.00 45.17 4.46
2267 10811 6.687653 GTGAAACTTAGTTAAGTCTCGGTC 57.312 41.667 0.00 0.00 45.17 4.79
2286 10830 8.248253 TCTTATATACAGTTTCGCTTGAGTGAA 58.752 33.333 3.02 3.02 42.14 3.18
2287 10831 7.768240 TCTTATATACAGTTTCGCTTGAGTGA 58.232 34.615 0.00 0.00 0.00 3.41
2288 10832 7.987268 TCTTATATACAGTTTCGCTTGAGTG 57.013 36.000 0.00 0.00 0.00 3.51
2289 10833 7.707035 CCTTCTTATATACAGTTTCGCTTGAGT 59.293 37.037 0.00 0.00 0.00 3.41
2290 10834 7.921214 TCCTTCTTATATACAGTTTCGCTTGAG 59.079 37.037 0.00 0.00 0.00 3.02
2291 10835 7.778083 TCCTTCTTATATACAGTTTCGCTTGA 58.222 34.615 0.00 0.00 0.00 3.02
2292 10836 8.420374 TTCCTTCTTATATACAGTTTCGCTTG 57.580 34.615 0.00 0.00 0.00 4.01
2293 10837 9.444600 TTTTCCTTCTTATATACAGTTTCGCTT 57.555 29.630 0.00 0.00 0.00 4.68
2294 10838 8.880750 GTTTTCCTTCTTATATACAGTTTCGCT 58.119 33.333 0.00 0.00 0.00 4.93
2295 10839 8.662141 TGTTTTCCTTCTTATATACAGTTTCGC 58.338 33.333 0.00 0.00 0.00 4.70
2347 10891 7.731882 ATTTGATCTTGCATAGAGATCTGTG 57.268 36.000 21.68 2.49 46.19 3.66
2348 10892 9.842775 TTTATTTGATCTTGCATAGAGATCTGT 57.157 29.630 21.68 0.00 46.19 3.41
2372 10916 9.087871 ACTCATGTCTCAGTCTATGCTATATTT 57.912 33.333 0.00 0.00 0.00 1.40
2373 10917 8.648698 ACTCATGTCTCAGTCTATGCTATATT 57.351 34.615 0.00 0.00 0.00 1.28
2374 10918 9.746457 TTACTCATGTCTCAGTCTATGCTATAT 57.254 33.333 0.00 0.00 0.00 0.86
2375 10919 9.225436 CTTACTCATGTCTCAGTCTATGCTATA 57.775 37.037 0.00 0.00 0.00 1.31
2376 10920 7.723616 ACTTACTCATGTCTCAGTCTATGCTAT 59.276 37.037 0.00 0.00 0.00 2.97
2377 10921 7.057264 ACTTACTCATGTCTCAGTCTATGCTA 58.943 38.462 0.00 0.00 0.00 3.49
2378 10922 5.890985 ACTTACTCATGTCTCAGTCTATGCT 59.109 40.000 0.00 0.00 0.00 3.79
2379 10923 6.142818 ACTTACTCATGTCTCAGTCTATGC 57.857 41.667 0.00 0.00 0.00 3.14
2380 10924 7.326968 TGACTTACTCATGTCTCAGTCTATG 57.673 40.000 14.58 0.00 32.99 2.23
2381 10925 7.946381 TTGACTTACTCATGTCTCAGTCTAT 57.054 36.000 14.58 0.00 32.99 1.98
2382 10926 7.611855 TCATTGACTTACTCATGTCTCAGTCTA 59.388 37.037 14.58 10.02 32.99 2.59
2383 10927 6.435591 TCATTGACTTACTCATGTCTCAGTCT 59.564 38.462 14.58 0.00 32.99 3.24
2384 10928 6.625362 TCATTGACTTACTCATGTCTCAGTC 58.375 40.000 9.52 9.52 34.57 3.51
2385 10929 6.435591 TCTCATTGACTTACTCATGTCTCAGT 59.564 38.462 0.00 0.00 34.57 3.41
2386 10930 6.861144 TCTCATTGACTTACTCATGTCTCAG 58.139 40.000 0.00 0.00 34.57 3.35
2387 10931 6.840780 TCTCATTGACTTACTCATGTCTCA 57.159 37.500 0.00 0.00 34.57 3.27
2388 10932 8.715191 AATTCTCATTGACTTACTCATGTCTC 57.285 34.615 0.00 0.00 34.57 3.36
2389 10933 9.814899 CTAATTCTCATTGACTTACTCATGTCT 57.185 33.333 0.00 0.00 34.57 3.41
2390 10934 8.547069 GCTAATTCTCATTGACTTACTCATGTC 58.453 37.037 0.00 0.00 0.00 3.06
2391 10935 8.043113 TGCTAATTCTCATTGACTTACTCATGT 58.957 33.333 0.00 0.00 0.00 3.21
2392 10936 8.429493 TGCTAATTCTCATTGACTTACTCATG 57.571 34.615 0.00 0.00 0.00 3.07
2393 10937 9.453572 TTTGCTAATTCTCATTGACTTACTCAT 57.546 29.630 0.00 0.00 0.00 2.90
2394 10938 8.846943 TTTGCTAATTCTCATTGACTTACTCA 57.153 30.769 0.00 0.00 0.00 3.41
2395 10939 9.548208 GTTTTGCTAATTCTCATTGACTTACTC 57.452 33.333 0.00 0.00 0.00 2.59
2396 10940 9.289782 AGTTTTGCTAATTCTCATTGACTTACT 57.710 29.630 0.00 0.00 0.00 2.24
2397 10941 9.334693 CAGTTTTGCTAATTCTCATTGACTTAC 57.665 33.333 0.00 0.00 0.00 2.34
2398 10942 8.023128 GCAGTTTTGCTAATTCTCATTGACTTA 58.977 33.333 0.00 0.00 46.95 2.24
2399 10943 6.865205 GCAGTTTTGCTAATTCTCATTGACTT 59.135 34.615 0.00 0.00 46.95 3.01
2400 10944 6.385033 GCAGTTTTGCTAATTCTCATTGACT 58.615 36.000 0.00 0.00 46.95 3.41
2401 10945 6.623223 GCAGTTTTGCTAATTCTCATTGAC 57.377 37.500 0.00 0.00 46.95 3.18
2419 10963 2.623416 GCCTACAAAACTGGAAGCAGTT 59.377 45.455 0.00 0.00 46.26 3.16
2420 10964 2.230660 GCCTACAAAACTGGAAGCAGT 58.769 47.619 0.00 0.00 37.60 4.40
2421 10965 1.197721 CGCCTACAAAACTGGAAGCAG 59.802 52.381 0.00 0.00 37.60 4.24
2422 10966 1.202710 TCGCCTACAAAACTGGAAGCA 60.203 47.619 0.00 0.00 37.60 3.91
2423 10967 1.464997 CTCGCCTACAAAACTGGAAGC 59.535 52.381 0.00 0.00 37.60 3.86
2424 10968 2.767505 ACTCGCCTACAAAACTGGAAG 58.232 47.619 0.00 0.00 42.29 3.46
2425 10969 2.922740 ACTCGCCTACAAAACTGGAA 57.077 45.000 0.00 0.00 0.00 3.53
2426 10970 2.922740 AACTCGCCTACAAAACTGGA 57.077 45.000 0.00 0.00 0.00 3.86
2427 10971 2.415512 GCTAACTCGCCTACAAAACTGG 59.584 50.000 0.00 0.00 0.00 4.00
2428 10972 3.326747 AGCTAACTCGCCTACAAAACTG 58.673 45.455 0.00 0.00 0.00 3.16
2429 10973 3.679824 AGCTAACTCGCCTACAAAACT 57.320 42.857 0.00 0.00 0.00 2.66
2430 10974 4.928020 AGTAAGCTAACTCGCCTACAAAAC 59.072 41.667 0.00 0.00 30.95 2.43
2431 10975 5.143376 AGTAAGCTAACTCGCCTACAAAA 57.857 39.130 0.00 0.00 30.95 2.44
2432 10976 4.796038 AGTAAGCTAACTCGCCTACAAA 57.204 40.909 0.00 0.00 30.95 2.83
2435 10979 4.367386 TGAAGTAAGCTAACTCGCCTAC 57.633 45.455 0.00 0.00 0.00 3.18
2492 11036 7.359595 TGTGTAGTTTGCTGATAAAACACATC 58.640 34.615 0.00 0.00 36.83 3.06
2493 11037 7.270757 TGTGTAGTTTGCTGATAAAACACAT 57.729 32.000 0.00 0.00 36.83 3.21
2497 11067 6.142817 CACCTGTGTAGTTTGCTGATAAAAC 58.857 40.000 0.00 0.00 37.71 2.43
2504 11356 3.247648 GTGTACACCTGTGTAGTTTGCTG 59.752 47.826 15.42 0.00 45.61 4.41
2519 11371 0.865769 CGCCCAAGAAGTGTGTACAC 59.134 55.000 19.36 19.36 46.77 2.90
2549 11401 1.662026 GCGGTTTGGTTTGTTCGCTAG 60.662 52.381 0.00 0.00 40.00 3.42
2554 11406 2.290082 CGCGCGGTTTGGTTTGTTC 61.290 57.895 24.84 0.00 0.00 3.18
2588 11440 5.116180 TGCATAAAAGTAATCGAGGGTCAG 58.884 41.667 0.00 0.00 0.00 3.51
2607 11460 3.324268 TGACAAAACCCATGTTCATGCAT 59.676 39.130 7.21 0.00 32.15 3.96
2684 11543 1.761449 TGAGAGGCACAAAAGCACAA 58.239 45.000 0.00 0.00 35.83 3.33
2692 11551 1.902508 CTAGGGACTTGAGAGGCACAA 59.097 52.381 0.00 0.00 36.47 3.33
2733 11593 4.379302 AGAAAATCATGCCTATCCTCCC 57.621 45.455 0.00 0.00 0.00 4.30
2752 11612 8.673711 CAAGAAATATTTCACGGATAACCAAGA 58.326 33.333 26.02 0.00 39.61 3.02
2756 11617 9.634163 AAAACAAGAAATATTTCACGGATAACC 57.366 29.630 26.02 0.29 39.61 2.85
2830 11734 9.802039 TGGGTCAAAGATGTATTTACTTTTAGT 57.198 29.630 0.00 0.00 32.59 2.24
2849 11916 1.527380 GGCCGAACTGTTGGGTCAA 60.527 57.895 19.46 0.00 32.88 3.18
2853 11920 0.461961 TTTTTGGCCGAACTGTTGGG 59.538 50.000 16.24 16.24 0.00 4.12
2875 11942 1.969064 CGTCACCGGAAAATGGGCA 60.969 57.895 9.46 0.00 0.00 5.36
3076 12204 8.568794 CGTTGTCTATGAAATCCTAGAGATGTA 58.431 37.037 0.00 0.00 34.56 2.29
3096 12224 4.782252 TGTGTTTTAGCTGTACGTTGTC 57.218 40.909 0.00 0.00 0.00 3.18
3098 12226 5.802064 TCTTTGTGTTTTAGCTGTACGTTG 58.198 37.500 0.00 0.00 0.00 4.10
3136 12269 6.428083 TCACATGGTAACTAGGAGTTTTGA 57.572 37.500 0.00 0.00 39.51 2.69
3184 12319 8.916062 TCTGCCATGTATGAATTTATTTGATGT 58.084 29.630 0.00 0.00 0.00 3.06
3196 12331 3.884895 ACGGAAATCTGCCATGTATGAA 58.115 40.909 0.00 0.00 0.00 2.57
3240 12375 7.976135 TGTTTAATGTATGCTGGCAATTTTT 57.024 28.000 0.00 0.00 0.00 1.94
3282 12429 7.561021 TTGCAACTCAAACTATAGAACAACA 57.439 32.000 6.78 0.00 0.00 3.33
3285 12432 7.360017 CGTCATTGCAACTCAAACTATAGAACA 60.360 37.037 6.78 0.00 38.34 3.18


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

AutoCloner maintained by Alex Coulton.