Multiple sequence alignment - TraesCS2D01G466000

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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 TraesCS2D01G466000 chr2D 100.000 9123 0 0 1 9123 571873995 571883117 0.000000e+00 16848.0
1 TraesCS2D01G466000 chr2D 97.297 74 2 0 8399 8472 268894366 268894293 9.620000e-25 126.0
2 TraesCS2D01G466000 chr2A 98.013 5033 92 8 3188 8215 710354805 710359834 0.000000e+00 8733.0
3 TraesCS2D01G466000 chr2A 91.770 2333 132 28 79 2375 710351761 710354069 0.000000e+00 3190.0
4 TraesCS2D01G466000 chr2A 86.691 541 26 17 8602 9123 710363015 710363528 8.000000e-155 558.0
5 TraesCS2D01G466000 chr2A 93.235 340 21 1 2860 3199 710354447 710354784 4.920000e-137 499.0
6 TraesCS2D01G466000 chr2A 91.053 190 12 4 8214 8400 710359871 710360058 1.520000e-62 252.0
7 TraesCS2D01G466000 chr2A 96.923 130 4 0 8475 8604 710360515 710360644 1.540000e-52 219.0
8 TraesCS2D01G466000 chr2A 96.203 79 2 1 1 79 710350086 710350163 2.670000e-25 128.0
9 TraesCS2D01G466000 chr2B 97.595 3618 74 7 2847 6460 683751383 683754991 0.000000e+00 6187.0
10 TraesCS2D01G466000 chr2B 96.172 1724 60 6 6493 8215 683754992 683756710 0.000000e+00 2813.0
11 TraesCS2D01G466000 chr2B 90.587 1158 64 16 1047 2171 683749259 683750404 0.000000e+00 1493.0
12 TraesCS2D01G466000 chr2B 92.797 944 49 12 79 1016 683748328 683749258 0.000000e+00 1349.0
13 TraesCS2D01G466000 chr2B 94.577 461 19 1 2289 2743 683750405 683750865 0.000000e+00 708.0
14 TraesCS2D01G466000 chr2B 76.639 976 195 23 3998 4956 686047169 686048128 8.170000e-140 508.0
15 TraesCS2D01G466000 chr2B 87.086 302 29 5 8826 9123 683758412 683758707 5.280000e-87 333.0
16 TraesCS2D01G466000 chr2B 95.977 174 7 0 8214 8387 683756747 683756920 5.390000e-72 283.0
17 TraesCS2D01G466000 chr2B 89.238 223 21 2 79 301 43209422 43209641 9.020000e-70 276.0
18 TraesCS2D01G466000 chr2B 86.154 195 23 4 8590 8783 788800361 788800552 3.340000e-49 207.0
19 TraesCS2D01G466000 chr2B 83.772 228 26 7 80 301 214003984 214004206 1.200000e-48 206.0
20 TraesCS2D01G466000 chr2B 72.391 757 154 38 5075 5820 97375521 97374809 1.210000e-43 189.0
21 TraesCS2D01G466000 chr2B 84.103 195 22 7 2390 2579 794896663 794896853 7.280000e-41 180.0
22 TraesCS2D01G466000 chr2B 98.765 81 0 1 2739 2819 683750976 683751055 9.550000e-30 143.0
23 TraesCS2D01G466000 chr2B 97.297 37 1 0 1 37 683747957 683747993 7.650000e-06 63.9
24 TraesCS2D01G466000 chr7D 84.110 472 41 8 79 524 545224277 545224740 8.470000e-115 425.0
25 TraesCS2D01G466000 chr7D 74.719 890 204 17 4084 4964 5009554 5010431 2.400000e-100 377.0
26 TraesCS2D01G466000 chr7D 74.356 893 206 19 4084 4966 631060306 631059427 8.710000e-95 359.0
27 TraesCS2D01G466000 chr7D 74.278 727 162 18 4084 4799 638648195 638647483 5.390000e-72 283.0
28 TraesCS2D01G466000 chr7D 78.856 402 80 4 5056 5453 5010445 5010845 5.430000e-67 267.0
29 TraesCS2D01G466000 chr7D 72.129 897 221 24 4085 4968 631231691 631232571 2.540000e-60 244.0
30 TraesCS2D01G466000 chr7D 96.000 75 3 0 8399 8473 301326535 301326609 1.240000e-23 122.0
31 TraesCS2D01G466000 chr7D 94.805 77 4 0 8399 8475 320290977 320290901 4.470000e-23 121.0
32 TraesCS2D01G466000 chr7D 92.063 63 2 1 2550 2612 548613131 548613190 1.630000e-12 86.1
33 TraesCS2D01G466000 chr6D 83.830 470 45 13 79 525 410168770 410169231 1.420000e-112 418.0
34 TraesCS2D01G466000 chr6D 79.825 456 69 15 79 528 456565708 456565270 2.470000e-80 311.0
35 TraesCS2D01G466000 chr6D 79.730 444 48 19 114 525 329843583 329844016 5.390000e-72 283.0
36 TraesCS2D01G466000 chr6D 94.872 78 4 0 8399 8476 319689525 319689602 1.240000e-23 122.0
37 TraesCS2D01G466000 chr6D 85.135 74 3 3 8565 8638 142136760 142136695 1.640000e-07 69.4
38 TraesCS2D01G466000 chr3A 88.427 337 39 0 2407 2743 706060716 706060380 3.070000e-109 407.0
39 TraesCS2D01G466000 chr3A 87.683 341 41 1 2407 2747 706340784 706340445 6.640000e-106 396.0
40 TraesCS2D01G466000 chr3A 97.297 74 2 0 8399 8472 598544695 598544622 9.620000e-25 126.0
41 TraesCS2D01G466000 chr7A 74.803 889 205 16 4084 4964 6235499 6236376 5.170000e-102 383.0
42 TraesCS2D01G466000 chr7A 74.096 996 225 26 3989 4967 726737474 726738453 6.690000e-101 379.0
43 TraesCS2D01G466000 chr7A 74.635 891 203 20 4084 4964 5527023 5527900 1.120000e-98 372.0
44 TraesCS2D01G466000 chr7A 79.901 403 76 4 5055 5453 6236389 6236790 3.220000e-74 291.0
45 TraesCS2D01G466000 chr7A 79.404 403 78 4 5055 5453 5527913 5528314 6.980000e-71 279.0
46 TraesCS2D01G466000 chr7A 77.250 400 82 7 5060 5453 726710855 726710459 9.220000e-55 226.0
47 TraesCS2D01G466000 chrUn 74.523 891 204 19 4084 4964 294521822 294522699 5.200000e-97 366.0
48 TraesCS2D01G466000 chrUn 73.772 896 210 20 4084 4968 248487392 248488273 6.830000e-86 329.0
49 TraesCS2D01G466000 chrUn 72.829 898 215 23 4084 4968 88657835 88656954 6.980000e-71 279.0
50 TraesCS2D01G466000 chrUn 77.612 402 81 7 5058 5453 248488303 248488701 1.530000e-57 235.0
51 TraesCS2D01G466000 chrUn 76.675 403 83 10 5058 5453 88656924 88656526 7.180000e-51 213.0
52 TraesCS2D01G466000 chrUn 85.238 210 19 7 8571 8779 108388047 108388245 1.200000e-48 206.0
53 TraesCS2D01G466000 chrUn 84.817 191 21 8 8593 8779 51379684 51379870 1.560000e-42 185.0
54 TraesCS2D01G466000 chr4A 75.124 804 182 15 4084 4880 738046155 738046947 2.420000e-95 361.0
55 TraesCS2D01G466000 chr4A 85.340 191 21 7 8593 8779 737018160 737018347 3.360000e-44 191.0
56 TraesCS2D01G466000 chr6B 81.042 480 52 17 79 525 617106883 617107356 6.780000e-91 346.0
57 TraesCS2D01G466000 chr6B 73.465 912 192 40 4087 4976 713115456 713116339 1.930000e-76 298.0
58 TraesCS2D01G466000 chr6B 88.816 152 15 2 377 528 694411147 694410998 1.560000e-42 185.0
59 TraesCS2D01G466000 chr5D 84.211 228 30 5 303 529 433507704 433507926 5.550000e-52 217.0
60 TraesCS2D01G466000 chr5D 88.618 123 12 1 909 1029 84342992 84342870 2.050000e-31 148.0
61 TraesCS2D01G466000 chr3B 85.915 213 16 10 8569 8779 445239119 445238919 2.000000e-51 215.0
62 TraesCS2D01G466000 chr3B 81.212 165 27 3 868 1029 823969088 823969251 7.430000e-26 130.0
63 TraesCS2D01G466000 chr3B 97.297 74 2 0 8399 8472 602297774 602297701 9.620000e-25 126.0
64 TraesCS2D01G466000 chr4D 85.388 219 13 10 8569 8779 508348225 508348018 9.280000e-50 209.0
65 TraesCS2D01G466000 chr4D 97.222 72 2 0 8399 8470 482703515 482703444 1.240000e-23 122.0
66 TraesCS2D01G466000 chr3D 85.782 211 15 8 8569 8779 346092031 346091836 9.280000e-50 209.0
67 TraesCS2D01G466000 chr3D 89.076 119 6 3 2521 2632 84635865 84635747 3.430000e-29 141.0
68 TraesCS2D01G466000 chr4B 85.405 185 15 9 8601 8779 665817950 665817772 2.020000e-41 182.0
69 TraesCS2D01G466000 chr5A 84.146 164 21 4 868 1029 78977175 78977015 4.410000e-33 154.0
70 TraesCS2D01G466000 chr1B 90.265 113 5 2 2526 2632 441395307 441395195 9.550000e-30 143.0
71 TraesCS2D01G466000 chr1D 97.222 72 2 0 8399 8470 86918576 86918505 1.240000e-23 122.0
72 TraesCS2D01G466000 chr1D 93.827 81 4 1 8399 8478 194462690 194462610 4.470000e-23 121.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2D01G466000 chr2D 571873995 571883117 9122 False 16848.000000 16848 100.000000 1 9123 1 chr2D.!!$F1 9122
1 TraesCS2D01G466000 chr2A 710350086 710363528 13442 False 1939.857143 8733 93.412571 1 9123 7 chr2A.!!$F1 9122
2 TraesCS2D01G466000 chr2B 683747957 683758707 10750 False 1485.877778 6187 94.539222 1 9123 9 chr2B.!!$F6 9122
3 TraesCS2D01G466000 chr2B 686047169 686048128 959 False 508.000000 508 76.639000 3998 4956 1 chr2B.!!$F3 958
4 TraesCS2D01G466000 chr7D 631059427 631060306 879 True 359.000000 359 74.356000 4084 4966 1 chr7D.!!$R2 882
5 TraesCS2D01G466000 chr7D 5009554 5010845 1291 False 322.000000 377 76.787500 4084 5453 2 chr7D.!!$F5 1369
6 TraesCS2D01G466000 chr7D 638647483 638648195 712 True 283.000000 283 74.278000 4084 4799 1 chr7D.!!$R3 715
7 TraesCS2D01G466000 chr7D 631231691 631232571 880 False 244.000000 244 72.129000 4085 4968 1 chr7D.!!$F4 883
8 TraesCS2D01G466000 chr7A 726737474 726738453 979 False 379.000000 379 74.096000 3989 4967 1 chr7A.!!$F1 978
9 TraesCS2D01G466000 chr7A 6235499 6236790 1291 False 337.000000 383 77.352000 4084 5453 2 chr7A.!!$F3 1369
10 TraesCS2D01G466000 chr7A 5527023 5528314 1291 False 325.500000 372 77.019500 4084 5453 2 chr7A.!!$F2 1369
11 TraesCS2D01G466000 chrUn 294521822 294522699 877 False 366.000000 366 74.523000 4084 4964 1 chrUn.!!$F3 880
12 TraesCS2D01G466000 chrUn 248487392 248488701 1309 False 282.000000 329 75.692000 4084 5453 2 chrUn.!!$F4 1369
13 TraesCS2D01G466000 chrUn 88656526 88657835 1309 True 246.000000 279 74.752000 4084 5453 2 chrUn.!!$R1 1369
14 TraesCS2D01G466000 chr4A 738046155 738046947 792 False 361.000000 361 75.124000 4084 4880 1 chr4A.!!$F2 796
15 TraesCS2D01G466000 chr6B 713115456 713116339 883 False 298.000000 298 73.465000 4087 4976 1 chr6B.!!$F2 889

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
796 2465 0.033503 TGGACGTGGAGATGGAGCTA 60.034 55.000 0.0 0.0 0.00 3.32 F
1894 3608 0.247145 CGTTAAGTGTTCGCATCCGC 60.247 55.000 0.0 0.0 0.00 5.54 F
2843 4679 0.250124 ACGTGTGTGTATGTGGGTGG 60.250 55.000 0.0 0.0 0.00 4.61 F
2845 4681 0.608035 GTGTGTGTATGTGGGTGGGG 60.608 60.000 0.0 0.0 0.00 4.96 F
3855 6031 1.269448 CAAACCACCGCAGCTAACATT 59.731 47.619 0.0 0.0 0.00 2.71 F
6263 8453 2.226962 AGCAGAAATCATGGTTGCCT 57.773 45.000 0.0 0.0 35.44 4.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2653 4375 0.251121 TTACATGGGTGGTGTGCTGG 60.251 55.000 0.0 0.0 0.00 4.85 R
3822 5998 0.257328 TGGTTTGTGCCAACTCCTCA 59.743 50.000 0.0 0.0 35.25 3.86 R
5213 7400 2.628657 GCTACGTGGTATCCTTCCATCT 59.371 50.000 0.0 0.0 37.30 2.90 R
6144 8334 8.696374 TCTTAAACTAGAGTTCATATCCCACAG 58.304 37.037 0.0 0.0 37.25 3.66 R
6707 8897 2.368875 AGATAGCCACTTCCCCGTTATG 59.631 50.000 0.0 0.0 0.00 1.90 R
8423 10682 0.038892 GCTGTTGCCTTGTGACCATG 60.039 55.000 0.0 0.0 0.00 3.66 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
66 104 1.664151 GGTCTGCCTCGGTTTTTATCG 59.336 52.381 0.00 0.00 0.00 2.92
198 1855 8.667076 AAATGTCAATTCTTTTGGAAGGAAAG 57.333 30.769 0.00 0.00 37.36 2.62
199 1856 7.601705 ATGTCAATTCTTTTGGAAGGAAAGA 57.398 32.000 0.00 0.00 40.36 2.52
411 2069 6.183360 CCGAATTAGTAACATGTGGCAGAATT 60.183 38.462 0.00 2.54 0.00 2.17
463 2121 2.167900 AGACTACTCGTATTTGCCACCC 59.832 50.000 0.00 0.00 0.00 4.61
464 2122 1.208776 ACTACTCGTATTTGCCACCCC 59.791 52.381 0.00 0.00 0.00 4.95
646 2314 3.615811 TGCCCACCCCTCCTCTCT 61.616 66.667 0.00 0.00 0.00 3.10
748 2417 1.143305 GTCTATCGTACTCGCCGCTA 58.857 55.000 0.00 0.00 36.96 4.26
794 2463 1.142748 CTGGACGTGGAGATGGAGC 59.857 63.158 0.00 0.00 0.00 4.70
795 2464 1.305297 TGGACGTGGAGATGGAGCT 60.305 57.895 0.00 0.00 0.00 4.09
796 2465 0.033503 TGGACGTGGAGATGGAGCTA 60.034 55.000 0.00 0.00 0.00 3.32
797 2466 1.112113 GGACGTGGAGATGGAGCTAA 58.888 55.000 0.00 0.00 0.00 3.09
798 2467 1.067821 GGACGTGGAGATGGAGCTAAG 59.932 57.143 0.00 0.00 0.00 2.18
799 2468 1.067821 GACGTGGAGATGGAGCTAAGG 59.932 57.143 0.00 0.00 0.00 2.69
800 2469 0.249657 CGTGGAGATGGAGCTAAGGC 60.250 60.000 0.00 0.00 39.06 4.35
833 2502 1.178276 GATCTCACGACCTGTCCTGT 58.822 55.000 0.00 0.00 0.00 4.00
899 2569 4.216902 GGCCCCACAAATAAACCGATATAC 59.783 45.833 0.00 0.00 0.00 1.47
1036 2715 2.084844 CACTTGCGTGCATCCTCTC 58.915 57.895 0.00 0.00 33.82 3.20
1041 2720 2.415010 CGTGCATCCTCTCCCTCG 59.585 66.667 0.00 0.00 0.00 4.63
1065 2744 5.339611 GTCATTTGTTTCGTCCGAATTCAAG 59.660 40.000 6.22 0.00 33.58 3.02
1104 2785 0.723981 GCGCTGAAGTTCATCTCACC 59.276 55.000 5.91 0.00 0.00 4.02
1143 2826 2.919387 GCCGCTGCATTGTATATTGCTG 60.919 50.000 0.00 8.00 39.60 4.41
1147 2830 3.316029 GCTGCATTGTATATTGCTGTCCA 59.684 43.478 12.41 0.00 39.25 4.02
1163 2847 1.112916 TCCACGGCTTGACTGTCTGA 61.113 55.000 9.51 0.00 34.87 3.27
1169 2853 2.353109 CGGCTTGACTGTCTGATCTTCA 60.353 50.000 9.51 0.00 0.00 3.02
1259 2943 4.465512 CGCGATTGTGTGGCTGGC 62.466 66.667 0.00 0.00 0.00 4.85
1345 3029 2.099143 GACGACATCGAGAGGCTCA 58.901 57.895 18.26 0.00 43.02 4.26
1348 3032 1.067250 GACATCGAGAGGCTCAGGC 59.933 63.158 18.26 4.64 37.82 4.85
1464 3148 1.136147 GCTCTACGAAGCCGACGAA 59.864 57.895 0.00 0.00 39.50 3.85
1525 3209 0.529378 CCAAGGAGGTACGCGTAACT 59.471 55.000 35.44 35.44 35.44 2.24
1533 3217 1.064654 GGTACGCGTAACTCCTGTAGG 59.935 57.143 26.54 0.00 0.00 3.18
1670 3357 1.272147 GGAGGAGACCAAAATGCCACT 60.272 52.381 0.00 0.00 0.00 4.00
1732 3419 2.966516 AGTCTTCTCTAAATAGGCCCCG 59.033 50.000 0.00 0.00 0.00 5.73
1887 3601 4.442705 GACAATGTGTCGTTAAGTGTTCG 58.557 43.478 0.00 0.00 37.67 3.95
1894 3608 0.247145 CGTTAAGTGTTCGCATCCGC 60.247 55.000 0.00 0.00 0.00 5.54
1907 3621 3.465122 GCATCCGCGTTTCTTTCTTTA 57.535 42.857 4.92 0.00 0.00 1.85
1908 3622 3.417185 GCATCCGCGTTTCTTTCTTTAG 58.583 45.455 4.92 0.00 0.00 1.85
1914 3628 3.182972 CGCGTTTCTTTCTTTAGTTCGGA 59.817 43.478 0.00 0.00 0.00 4.55
1930 3644 1.140852 TCGGATTTGGATCAGGCGAAT 59.859 47.619 0.00 0.00 33.77 3.34
1962 3676 6.473455 GCTCATCAAATAGGCACATAACAAAC 59.527 38.462 0.00 0.00 0.00 2.93
2057 3771 6.648192 TGGTCAAAATTTCATTGGAAAGTGT 58.352 32.000 0.00 0.00 45.58 3.55
2211 3925 7.821846 GTGTTCTCCTAATCTTCTTCACATTCT 59.178 37.037 0.00 0.00 0.00 2.40
2231 3945 2.033448 TTCCATGCCGGTGACCAC 59.967 61.111 1.90 0.00 35.57 4.16
2245 3959 1.382009 ACCACCCCCAAACACAACC 60.382 57.895 0.00 0.00 0.00 3.77
2246 3960 1.381872 CCACCCCCAAACACAACCA 60.382 57.895 0.00 0.00 0.00 3.67
2247 3961 1.398958 CCACCCCCAAACACAACCAG 61.399 60.000 0.00 0.00 0.00 4.00
2261 3975 4.246458 CACAACCAGTACTAGAAAGAGGC 58.754 47.826 0.00 0.00 0.00 4.70
2282 3996 1.831389 CGTGTGTGCAGGAACGAAGG 61.831 60.000 8.83 0.00 38.27 3.46
2381 4103 0.250553 TGGGGTCAACTTGTTAGCCG 60.251 55.000 0.00 0.00 0.00 5.52
2425 4147 2.430921 CGGACTCACGAGCACACC 60.431 66.667 0.00 0.00 35.47 4.16
2475 4197 4.444720 CACCGAGTTAACTGAACAAGAGAC 59.555 45.833 14.14 0.00 40.86 3.36
2477 4199 4.681942 CCGAGTTAACTGAACAAGAGACAG 59.318 45.833 14.14 0.00 40.86 3.51
2509 4231 5.287226 AGAAAACAGAGTAACCTGTACACG 58.713 41.667 0.00 0.00 45.82 4.49
2526 4248 2.356695 ACACGGTAGTTTTTCAGGCAAC 59.643 45.455 0.00 0.00 0.00 4.17
2640 4362 0.940126 GTTGAGCTGGCATACATCGG 59.060 55.000 0.00 0.00 0.00 4.18
2664 4386 1.152963 ACCAAGTCCAGCACACCAC 60.153 57.895 0.00 0.00 0.00 4.16
2713 4435 5.291614 CCAACAAATGAAACCTGTCACAAAG 59.708 40.000 0.00 0.00 0.00 2.77
2725 4447 3.832276 TGTCACAAAGCAACTTGTTCAC 58.168 40.909 0.00 0.00 37.43 3.18
2743 4465 3.595173 TCACTTGCGCAACACATAGTAT 58.405 40.909 21.02 0.00 0.00 2.12
2744 4466 4.749976 TCACTTGCGCAACACATAGTATA 58.250 39.130 21.02 3.35 0.00 1.47
2745 4467 5.356426 TCACTTGCGCAACACATAGTATAT 58.644 37.500 21.02 0.00 0.00 0.86
2747 4469 5.234116 CACTTGCGCAACACATAGTATATCA 59.766 40.000 21.02 0.00 0.00 2.15
2748 4470 5.234329 ACTTGCGCAACACATAGTATATCAC 59.766 40.000 21.02 0.00 0.00 3.06
2825 4661 2.980233 GGCCCTGTGTCTGTGCAC 60.980 66.667 10.75 10.75 39.65 4.57
2826 4662 3.349006 GCCCTGTGTCTGTGCACG 61.349 66.667 13.13 7.36 41.94 5.34
2841 4677 3.299050 CACGTGTGTGTATGTGGGT 57.701 52.632 7.58 0.00 41.34 4.51
2842 4678 0.865111 CACGTGTGTGTATGTGGGTG 59.135 55.000 7.58 0.00 41.34 4.61
2843 4679 0.250124 ACGTGTGTGTATGTGGGTGG 60.250 55.000 0.00 0.00 0.00 4.61
2844 4680 0.953471 CGTGTGTGTATGTGGGTGGG 60.953 60.000 0.00 0.00 0.00 4.61
2845 4681 0.608035 GTGTGTGTATGTGGGTGGGG 60.608 60.000 0.00 0.00 0.00 4.96
3073 5212 8.546597 AAGCAAAGTTTAAACACTGTCAAAAT 57.453 26.923 20.06 0.00 0.00 1.82
3153 5292 2.491675 GGTTGTAAGAACCCCAGAGG 57.508 55.000 0.00 0.00 43.78 3.69
3237 5409 7.779798 CCTCTGGATCCTAAAAATTTACATCCA 59.220 37.037 14.23 15.06 36.04 3.41
3335 5508 4.961438 ATTTTATCATTGGGGTGGATGC 57.039 40.909 0.00 0.00 0.00 3.91
3704 5879 4.487714 TCGGATAGCACTTGGAGAAAAT 57.512 40.909 0.00 0.00 0.00 1.82
3752 5927 6.694447 ACAATGTCTCTTTTTATTGCAGCAT 58.306 32.000 0.00 0.00 34.69 3.79
3822 5998 5.495926 TCAGCAGAAAAAGGAGAAGAGAT 57.504 39.130 0.00 0.00 0.00 2.75
3855 6031 1.269448 CAAACCACCGCAGCTAACATT 59.731 47.619 0.00 0.00 0.00 2.71
6144 8334 2.489722 GAGAAATGTTCCTGCAGTTCCC 59.510 50.000 13.81 0.00 42.34 3.97
6263 8453 2.226962 AGCAGAAATCATGGTTGCCT 57.773 45.000 0.00 0.00 35.44 4.75
6558 8748 8.869109 TGATGTCTATTCCATTTGAAGGTTTTT 58.131 29.630 0.00 0.00 36.14 1.94
6707 8897 8.538409 AAAATCTCAGAATTTATTGTTGTGGC 57.462 30.769 0.00 0.00 0.00 5.01
6713 8903 7.026562 TCAGAATTTATTGTTGTGGCATAACG 58.973 34.615 20.00 4.28 0.00 3.18
6755 8945 3.250323 CGACATGCGACGGCTCTG 61.250 66.667 0.00 0.00 44.57 3.35
6766 8956 2.271800 GACGGCTCTGATGGTGTTAAG 58.728 52.381 0.00 0.00 0.00 1.85
6961 9151 6.985225 TCAAGGAGATGGAAATTAGGGAATT 58.015 36.000 0.00 0.00 36.82 2.17
7377 9568 4.696877 CACCATTTCTAGAGCATGTGTCAA 59.303 41.667 11.26 0.00 0.00 3.18
7419 9610 3.555586 CCCTCAATTGGAAAAGCTTGTGG 60.556 47.826 0.00 0.00 33.92 4.17
7422 9613 0.318120 ATTGGAAAAGCTTGTGGCCG 59.682 50.000 0.00 0.00 43.05 6.13
7423 9614 0.753479 TTGGAAAAGCTTGTGGCCGA 60.753 50.000 0.00 0.00 43.05 5.54
7425 9616 1.271652 TGGAAAAGCTTGTGGCCGATA 60.272 47.619 0.00 0.00 43.05 2.92
7430 9621 2.469516 GCTTGTGGCCGATAACCCG 61.470 63.158 0.00 0.00 34.27 5.28
7511 9702 2.225348 TTGCGAGAGTGAAGCAACG 58.775 52.632 0.00 0.00 44.66 4.10
7756 9947 3.455910 AGCATGGTTCTGGCTACTCAATA 59.544 43.478 0.00 0.00 35.82 1.90
7858 10049 1.882912 ATCCACGCAACGCATATCAT 58.117 45.000 0.00 0.00 0.00 2.45
7889 10080 9.895138 TTGTTTCAAAGGTATATACTTCTACCC 57.105 33.333 12.54 0.00 38.54 3.69
7961 10152 3.382227 CAGGCATGCCACTCATTTATTGA 59.618 43.478 37.18 0.00 38.92 2.57
8056 10247 2.995466 TTGCTGCATCACAAGCTTAC 57.005 45.000 1.84 0.00 0.00 2.34
8083 10274 0.322906 AGGCCAAGAGCTTAAGTGCC 60.323 55.000 5.01 7.15 43.05 5.01
8085 10276 1.090728 GCCAAGAGCTTAAGTGCCTC 58.909 55.000 4.02 2.57 38.99 4.70
8111 10302 5.003804 TCTTCCTTGCACCAGTTCTATTTC 58.996 41.667 0.00 0.00 0.00 2.17
8144 10336 8.225603 TGGAATATAAGAAATGGAAAGCAGTC 57.774 34.615 0.00 0.00 0.00 3.51
8145 10337 7.012327 TGGAATATAAGAAATGGAAAGCAGTCG 59.988 37.037 0.00 0.00 0.00 4.18
8188 10380 7.106239 GGACTTCCTCTCATATCAACTGAAAA 58.894 38.462 0.00 0.00 0.00 2.29
8255 10485 2.036475 ACTACAGGCGGATCTGCATTAG 59.964 50.000 27.26 22.57 38.26 1.73
8357 10588 3.139077 GCGATAATTCAATCCGGAACCT 58.861 45.455 9.01 0.00 0.00 3.50
8387 10620 2.577700 TGCACCCGTTGAACAGTAAAT 58.422 42.857 0.00 0.00 0.00 1.40
8389 10622 3.003897 TGCACCCGTTGAACAGTAAATTC 59.996 43.478 0.00 0.00 0.00 2.17
8395 10628 7.223777 CACCCGTTGAACAGTAAATTCAAAAAT 59.776 33.333 1.94 0.00 45.19 1.82
8414 10673 8.032451 TCAAAAATAATTTCCAGGATTCGAACC 58.968 33.333 0.00 4.22 0.00 3.62
8416 10675 2.038387 ATTTCCAGGATTCGAACCCG 57.962 50.000 1.93 0.00 37.07 5.28
8419 10678 0.901114 TCCAGGATTCGAACCCGTGA 60.901 55.000 18.07 10.30 37.05 4.35
8420 10679 0.739813 CCAGGATTCGAACCCGTGAC 60.740 60.000 18.07 0.00 37.05 3.67
8421 10680 1.076533 CAGGATTCGAACCCGTGACG 61.077 60.000 1.93 0.00 37.05 4.35
8422 10681 1.080298 GGATTCGAACCCGTGACGT 60.080 57.895 0.00 0.00 37.05 4.34
8423 10682 1.074872 GGATTCGAACCCGTGACGTC 61.075 60.000 9.11 9.11 37.05 4.34
8424 10683 0.387622 GATTCGAACCCGTGACGTCA 60.388 55.000 15.76 15.76 37.05 4.35
8425 10684 0.245539 ATTCGAACCCGTGACGTCAT 59.754 50.000 23.12 4.65 37.05 3.06
8426 10685 0.665068 TTCGAACCCGTGACGTCATG 60.665 55.000 27.37 27.37 37.05 3.07
8435 10694 3.605013 TGACGTCATGGTCACAAGG 57.395 52.632 15.76 0.00 41.76 3.61
8437 10696 0.602638 GACGTCATGGTCACAAGGCA 60.603 55.000 11.55 0.00 36.91 4.75
8438 10697 0.179032 ACGTCATGGTCACAAGGCAA 60.179 50.000 0.00 0.00 0.00 4.52
8439 10698 0.238289 CGTCATGGTCACAAGGCAAC 59.762 55.000 0.00 0.00 0.00 4.17
8440 10699 1.317613 GTCATGGTCACAAGGCAACA 58.682 50.000 0.00 0.00 41.41 3.33
8442 10701 0.038892 CATGGTCACAAGGCAACAGC 60.039 55.000 0.00 0.00 41.41 4.40
8443 10702 0.178981 ATGGTCACAAGGCAACAGCT 60.179 50.000 0.00 0.00 41.41 4.24
8444 10703 0.395586 TGGTCACAAGGCAACAGCTT 60.396 50.000 0.00 0.00 41.41 3.74
8445 10704 0.746659 GGTCACAAGGCAACAGCTTT 59.253 50.000 0.00 0.00 41.41 3.51
8446 10705 1.953686 GGTCACAAGGCAACAGCTTTA 59.046 47.619 0.00 0.00 41.41 1.85
8447 10706 2.287608 GGTCACAAGGCAACAGCTTTAC 60.288 50.000 0.00 0.00 41.41 2.01
8448 10707 1.953686 TCACAAGGCAACAGCTTTACC 59.046 47.619 0.00 0.00 41.41 2.85
8449 10708 0.951558 ACAAGGCAACAGCTTTACCG 59.048 50.000 0.00 0.00 41.41 4.02
8450 10709 0.387239 CAAGGCAACAGCTTTACCGC 60.387 55.000 0.00 0.00 41.41 5.68
8451 10710 0.537371 AAGGCAACAGCTTTACCGCT 60.537 50.000 0.00 0.00 41.90 5.52
8457 10716 4.697756 AGCTTTACCGCTGCGCCA 62.698 61.111 18.00 2.77 39.16 5.69
8458 10717 3.732892 GCTTTACCGCTGCGCCAA 61.733 61.111 18.00 9.47 0.00 4.52
8459 10718 2.480555 CTTTACCGCTGCGCCAAG 59.519 61.111 18.00 13.33 0.00 3.61
8608 14366 4.035091 TGTGAACACTGAACAGTAACATGC 59.965 41.667 7.15 0.00 40.20 4.06
8790 14565 0.250727 TGGGTGCAGCCACTACTTTC 60.251 55.000 33.13 4.75 41.75 2.62
8793 14568 0.250727 GTGCAGCCACTACTTTCCCA 60.251 55.000 0.00 0.00 38.93 4.37
8797 14572 2.288213 GCAGCCACTACTTTCCCAAAAC 60.288 50.000 0.00 0.00 0.00 2.43
8824 14599 2.298446 ACATAGGCCTGATCGAGATGTG 59.702 50.000 17.99 0.00 0.00 3.21
8895 14672 2.224079 ACATTGTCACACAAAGCTAGCG 59.776 45.455 9.55 0.00 41.96 4.26
8898 14675 0.164647 GTCACACAAAGCTAGCGCAG 59.835 55.000 11.47 6.31 39.10 5.18
8959 14736 8.682936 AGGAGGTTGATAAAAACTAGCATATG 57.317 34.615 0.00 0.00 0.00 1.78
8973 14750 4.478843 AGCATATGCAAGCGAAACATAG 57.521 40.909 28.62 0.00 45.16 2.23
8975 14752 4.212847 AGCATATGCAAGCGAAACATAGAG 59.787 41.667 28.62 0.00 45.16 2.43
8976 14753 4.024556 GCATATGCAAGCGAAACATAGAGT 60.025 41.667 22.84 0.00 41.59 3.24
8977 14754 5.177511 GCATATGCAAGCGAAACATAGAGTA 59.822 40.000 22.84 0.00 41.59 2.59
8978 14755 6.128445 GCATATGCAAGCGAAACATAGAGTAT 60.128 38.462 22.84 0.00 41.59 2.12
8980 14757 8.925700 CATATGCAAGCGAAACATAGAGTATAA 58.074 33.333 0.00 0.00 30.31 0.98
9086 14866 0.745845 GATGCAACGGACAGAGGCAT 60.746 55.000 0.00 7.99 42.43 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
198 1855 5.836821 ACTTCAGTTCTCCCAACTTTTTC 57.163 39.130 0.00 0.00 0.00 2.29
199 1856 6.265422 CCATACTTCAGTTCTCCCAACTTTTT 59.735 38.462 0.00 0.00 0.00 1.94
359 2017 3.221771 TCCACACTTGTGCTTAGCAAAT 58.778 40.909 9.05 0.00 44.34 2.32
411 2069 7.453393 GTTGGATATTCTCTCCACCATATTGA 58.547 38.462 0.00 0.00 42.43 2.57
661 2329 1.925972 GAGGGAAGGCAAGGAGGGT 60.926 63.158 0.00 0.00 0.00 4.34
733 2402 1.505477 GAGGTAGCGGCGAGTACGAT 61.505 60.000 12.98 3.54 42.66 3.73
738 2407 2.005960 GATGTGAGGTAGCGGCGAGT 62.006 60.000 12.98 0.00 0.00 4.18
748 2417 0.820871 GAGCTTCTCCGATGTGAGGT 59.179 55.000 0.00 0.00 33.04 3.85
800 2469 1.839994 TGAGATCAAGGTGCCCTTAGG 59.160 52.381 6.20 0.00 42.67 2.69
833 2502 7.038154 AGTCCGAAGAAAAACAATTCATTCA 57.962 32.000 0.00 0.00 0.00 2.57
899 2569 9.442033 TGTCTGTAACGTTATGTAATCTAATCG 57.558 33.333 11.86 0.00 0.00 3.34
966 2637 2.348872 CGCCAAGATTCGCACATATGTC 60.349 50.000 5.07 0.43 0.00 3.06
1024 2698 2.343163 GACGAGGGAGAGGATGCACG 62.343 65.000 0.00 0.00 0.00 5.34
1034 2713 2.412089 GACGAAACAAATGACGAGGGAG 59.588 50.000 0.00 0.00 0.00 4.30
1036 2715 1.463444 GGACGAAACAAATGACGAGGG 59.537 52.381 0.00 0.00 0.00 4.30
1041 2720 4.778904 TGAATTCGGACGAAACAAATGAC 58.221 39.130 11.41 0.00 37.69 3.06
1104 2785 0.796927 GCGACTTCCCCTTTCTTTCG 59.203 55.000 0.00 0.00 0.00 3.46
1143 2826 0.946221 CAGACAGTCAAGCCGTGGAC 60.946 60.000 2.66 0.00 0.00 4.02
1147 2830 1.261480 AGATCAGACAGTCAAGCCGT 58.739 50.000 2.66 0.00 0.00 5.68
1153 2836 2.768527 GGGGATGAAGATCAGACAGTCA 59.231 50.000 2.66 0.00 0.00 3.41
1163 2847 0.776176 GCAGGGATGGGGATGAAGAT 59.224 55.000 0.00 0.00 0.00 2.40
1169 2853 0.259938 GAAAGTGCAGGGATGGGGAT 59.740 55.000 0.00 0.00 0.00 3.85
1348 3032 3.878519 GACCCTCTCGACCTCGCG 61.879 72.222 0.00 0.00 39.60 5.87
1525 3209 2.562738 CGCATATGATGGACCTACAGGA 59.437 50.000 6.97 0.00 38.94 3.86
1533 3217 2.717580 TCGTACCGCATATGATGGAC 57.282 50.000 18.27 8.82 0.00 4.02
1551 3235 3.317430 GGCATGTGATGAAATCCCTCTTC 59.683 47.826 0.00 0.00 44.73 2.87
1670 3357 1.757731 ACAGCTGCTGTTTTGCCCA 60.758 52.632 28.49 0.00 42.59 5.36
1698 3385 7.850935 TTAGAGAAGACTGAAGGGTAGAAAA 57.149 36.000 0.00 0.00 0.00 2.29
1732 3419 6.793505 TTTTCTCTAGGGACAGAGTTATCC 57.206 41.667 0.00 0.00 42.33 2.59
1887 3601 2.331809 AAAGAAAGAAACGCGGATGC 57.668 45.000 12.47 0.00 37.91 3.91
1894 3608 6.577427 CCAAATCCGAACTAAAGAAAGAAACG 59.423 38.462 0.00 0.00 0.00 3.60
1896 3610 7.811117 TCCAAATCCGAACTAAAGAAAGAAA 57.189 32.000 0.00 0.00 0.00 2.52
1907 3621 1.743772 CGCCTGATCCAAATCCGAACT 60.744 52.381 0.00 0.00 0.00 3.01
1908 3622 0.657840 CGCCTGATCCAAATCCGAAC 59.342 55.000 0.00 0.00 0.00 3.95
1914 3628 2.877043 GCAATTCGCCTGATCCAAAT 57.123 45.000 0.00 0.00 32.94 2.32
1930 3644 2.428171 GCCTATTTGATGAGCAAGGCAA 59.572 45.455 7.00 0.00 42.11 4.52
2010 3724 6.404734 CCAGGTAGAACAATAATTTGACCAGC 60.405 42.308 0.00 0.00 36.64 4.85
2057 3771 9.955208 GTTTTGACTTTGATCATATCATATGCA 57.045 29.630 0.00 0.00 39.39 3.96
2171 3885 3.120991 GGAGAACACATTTTCACGACTCG 60.121 47.826 0.00 0.00 0.00 4.18
2211 3925 1.002624 GGTCACCGGCATGGAAGAA 60.003 57.895 0.00 0.00 42.00 2.52
2231 3945 1.133606 AGTACTGGTTGTGTTTGGGGG 60.134 52.381 0.00 0.00 0.00 5.40
2236 3950 6.289064 CCTCTTTCTAGTACTGGTTGTGTTT 58.711 40.000 5.39 0.00 0.00 2.83
2245 3959 1.132643 ACGCGCCTCTTTCTAGTACTG 59.867 52.381 5.73 0.00 0.00 2.74
2246 3960 1.132643 CACGCGCCTCTTTCTAGTACT 59.867 52.381 5.73 0.00 0.00 2.73
2247 3961 1.135460 ACACGCGCCTCTTTCTAGTAC 60.135 52.381 5.73 0.00 0.00 2.73
2261 3975 4.354212 CGTTCCTGCACACACGCG 62.354 66.667 3.53 3.53 33.35 6.01
2282 3996 3.069443 TGACCCCATCAAACTTTTTCTGC 59.931 43.478 0.00 0.00 33.02 4.26
2359 4081 2.492088 GGCTAACAAGTTGACCCCAATC 59.508 50.000 10.54 0.00 34.39 2.67
2417 4139 1.523758 AATTCACTTCGGGTGTGCTC 58.476 50.000 8.73 0.00 45.50 4.26
2419 4141 1.336755 ACAAATTCACTTCGGGTGTGC 59.663 47.619 8.73 0.00 45.50 4.57
2425 4147 4.041723 GGACAAACACAAATTCACTTCGG 58.958 43.478 0.00 0.00 0.00 4.30
2441 4163 0.834612 AACTCGGTGTGGAGGACAAA 59.165 50.000 0.00 0.00 38.39 2.83
2475 4197 3.006752 ACTCTGTTTTCTCTCCTCTGCTG 59.993 47.826 0.00 0.00 0.00 4.41
2477 4199 3.676291 ACTCTGTTTTCTCTCCTCTGC 57.324 47.619 0.00 0.00 0.00 4.26
2509 4231 3.974871 TTCGTTGCCTGAAAAACTACC 57.025 42.857 0.00 0.00 0.00 3.18
2526 4248 5.894807 AGTAGAATGGAAATTTGGCATTCG 58.105 37.500 0.00 0.00 37.35 3.34
2542 4264 6.506500 CATTTGTTGCTGGAGAAGTAGAAT 57.493 37.500 0.00 0.00 0.00 2.40
2568 4290 7.066043 TCGGTTGTGTCCATGTATAAATAAACC 59.934 37.037 0.00 0.00 0.00 3.27
2653 4375 0.251121 TTACATGGGTGGTGTGCTGG 60.251 55.000 0.00 0.00 0.00 4.85
2661 4383 4.816385 GTCATGAGTGTATTACATGGGTGG 59.184 45.833 0.00 0.00 40.86 4.61
2664 4386 5.674525 ACTGTCATGAGTGTATTACATGGG 58.325 41.667 0.00 0.00 40.86 4.00
2725 4447 5.234116 TGTGATATACTATGTGTTGCGCAAG 59.766 40.000 25.78 13.44 43.44 4.01
2743 4465 4.974645 ACCTTGTTCTGGTCTTGTGATA 57.025 40.909 0.00 0.00 31.03 2.15
2744 4466 3.864789 ACCTTGTTCTGGTCTTGTGAT 57.135 42.857 0.00 0.00 31.03 3.06
2745 4467 3.644966 AACCTTGTTCTGGTCTTGTGA 57.355 42.857 0.00 0.00 36.69 3.58
2747 4469 6.838382 AGTATAAACCTTGTTCTGGTCTTGT 58.162 36.000 0.00 0.00 36.69 3.16
2748 4470 8.718734 GTTAGTATAAACCTTGTTCTGGTCTTG 58.281 37.037 0.00 0.00 36.69 3.02
2825 4661 0.953471 CCCACCCACATACACACACG 60.953 60.000 0.00 0.00 0.00 4.49
2826 4662 0.608035 CCCCACCCACATACACACAC 60.608 60.000 0.00 0.00 0.00 3.82
2836 4672 0.750249 CTTGACAAAACCCCACCCAC 59.250 55.000 0.00 0.00 0.00 4.61
2837 4673 1.045911 GCTTGACAAAACCCCACCCA 61.046 55.000 0.00 0.00 0.00 4.51
2838 4674 1.045911 TGCTTGACAAAACCCCACCC 61.046 55.000 0.00 0.00 0.00 4.61
2839 4675 1.047801 ATGCTTGACAAAACCCCACC 58.952 50.000 0.00 0.00 0.00 4.61
2840 4676 1.873486 GCATGCTTGACAAAACCCCAC 60.873 52.381 11.37 0.00 0.00 4.61
2841 4677 0.392336 GCATGCTTGACAAAACCCCA 59.608 50.000 11.37 0.00 0.00 4.96
2842 4678 0.392336 TGCATGCTTGACAAAACCCC 59.608 50.000 20.33 0.00 0.00 4.95
2843 4679 2.070783 CATGCATGCTTGACAAAACCC 58.929 47.619 25.15 0.00 0.00 4.11
3073 5212 1.565156 CGCTTCCGCACTTAACTGCA 61.565 55.000 7.69 0.00 36.94 4.41
3153 5292 1.896660 TTTGGCGGCTGGTCAGTTC 60.897 57.895 11.43 0.00 0.00 3.01
3237 5409 3.791973 TGAAAATGAAAACAGGTGCGT 57.208 38.095 0.00 0.00 0.00 5.24
3335 5508 1.892474 ACATTTTGAACATCGGGTGGG 59.108 47.619 0.00 0.00 0.00 4.61
3704 5879 7.555914 TGTAGATTGGCTATTAGAAATGCAACA 59.444 33.333 0.00 0.00 0.00 3.33
3822 5998 0.257328 TGGTTTGTGCCAACTCCTCA 59.743 50.000 0.00 0.00 35.25 3.86
5213 7400 2.628657 GCTACGTGGTATCCTTCCATCT 59.371 50.000 0.00 0.00 37.30 2.90
6144 8334 8.696374 TCTTAAACTAGAGTTCATATCCCACAG 58.304 37.037 0.00 0.00 37.25 3.66
6263 8453 9.128404 TCGTAGATAATTAGCTTTCTAAGACCA 57.872 33.333 8.81 0.00 38.11 4.02
6558 8748 5.326069 ACTCTTTAAGGAGACTAGCTGACA 58.674 41.667 20.42 0.00 42.68 3.58
6707 8897 2.368875 AGATAGCCACTTCCCCGTTATG 59.631 50.000 0.00 0.00 0.00 1.90
6713 8903 3.217626 CATCAAAGATAGCCACTTCCCC 58.782 50.000 0.00 0.00 0.00 4.81
6755 8945 5.163652 GCAGTCCCATAAACTTAACACCATC 60.164 44.000 0.00 0.00 0.00 3.51
6961 9151 6.490040 GCTATGGCAAAATGTTAGATAAGGGA 59.510 38.462 0.00 0.00 38.54 4.20
7377 9568 2.487986 GGCATAGCTCATAACCTTGCCT 60.488 50.000 3.87 0.00 43.68 4.75
7419 9610 1.812507 GGACACACGGGTTATCGGC 60.813 63.158 0.00 0.00 0.00 5.54
7422 9613 2.234414 TGGTAAGGACACACGGGTTATC 59.766 50.000 0.00 0.00 0.00 1.75
7423 9614 2.027837 GTGGTAAGGACACACGGGTTAT 60.028 50.000 0.00 0.00 38.67 1.89
7425 9616 0.107268 GTGGTAAGGACACACGGGTT 59.893 55.000 0.00 0.00 38.67 4.11
7430 9621 0.321298 ATGGCGTGGTAAGGACACAC 60.321 55.000 0.00 0.00 38.74 3.82
7511 9702 0.654683 CTTGCTCATCTGTTAGCCGC 59.345 55.000 0.00 0.00 37.97 6.53
7756 9947 0.764890 TCTTGTTGCTAGCCACCTGT 59.235 50.000 15.76 0.00 0.00 4.00
7889 10080 4.211584 GCAACTCTGACATAGCATGATCAG 59.788 45.833 0.09 14.74 38.55 2.90
8083 10274 2.856222 ACTGGTGCAAGGAAGAAAGAG 58.144 47.619 0.00 0.00 0.00 2.85
8085 10276 3.217626 AGAACTGGTGCAAGGAAGAAAG 58.782 45.455 0.00 0.00 0.00 2.62
8144 10336 2.017049 CCATTTCTTAACTCCTGCCCG 58.983 52.381 0.00 0.00 0.00 6.13
8145 10337 3.017442 GTCCATTTCTTAACTCCTGCCC 58.983 50.000 0.00 0.00 0.00 5.36
8188 10380 2.158623 TGGAAGAATGCCTGTTGACTGT 60.159 45.455 0.00 0.00 31.46 3.55
8255 10485 8.242053 ACTTGTGAATCAACATCAGAATTGATC 58.758 33.333 11.80 7.80 43.21 2.92
8387 10620 9.418045 GTTCGAATCCTGGAAATTATTTTTGAA 57.582 29.630 0.00 1.61 0.00 2.69
8389 10622 7.277760 GGGTTCGAATCCTGGAAATTATTTTTG 59.722 37.037 20.59 0.00 0.00 2.44
8395 10628 3.054948 ACGGGTTCGAATCCTGGAAATTA 60.055 43.478 24.58 0.00 40.11 1.40
8400 10659 0.901114 TCACGGGTTCGAATCCTGGA 60.901 55.000 24.58 17.99 40.11 3.86
8401 10660 0.739813 GTCACGGGTTCGAATCCTGG 60.740 60.000 24.58 16.04 40.11 4.45
8403 10662 1.214589 CGTCACGGGTTCGAATCCT 59.785 57.895 24.58 9.52 40.11 3.24
8404 10663 1.074872 GACGTCACGGGTTCGAATCC 61.075 60.000 18.00 18.00 40.11 3.01
8406 10665 0.245539 ATGACGTCACGGGTTCGAAT 59.754 50.000 22.71 0.00 40.11 3.34
8407 10666 0.665068 CATGACGTCACGGGTTCGAA 60.665 55.000 22.71 0.00 40.11 3.71
8408 10667 1.081041 CATGACGTCACGGGTTCGA 60.081 57.895 22.71 0.00 40.11 3.71
8409 10668 2.092291 CCATGACGTCACGGGTTCG 61.092 63.158 22.73 4.70 43.02 3.95
8411 10670 1.005394 GACCATGACGTCACGGGTT 60.005 57.895 32.47 17.30 37.11 4.11
8412 10671 2.204461 TGACCATGACGTCACGGGT 61.204 57.895 32.51 32.51 37.85 5.28
8419 10678 0.179032 TTGCCTTGTGACCATGACGT 60.179 50.000 0.00 0.00 0.00 4.34
8420 10679 0.238289 GTTGCCTTGTGACCATGACG 59.762 55.000 0.00 0.00 0.00 4.35
8421 10680 1.267806 CTGTTGCCTTGTGACCATGAC 59.732 52.381 0.00 0.00 0.00 3.06
8422 10681 1.608055 CTGTTGCCTTGTGACCATGA 58.392 50.000 0.00 0.00 0.00 3.07
8423 10682 0.038892 GCTGTTGCCTTGTGACCATG 60.039 55.000 0.00 0.00 0.00 3.66
8424 10683 0.178981 AGCTGTTGCCTTGTGACCAT 60.179 50.000 0.00 0.00 40.80 3.55
8425 10684 0.395586 AAGCTGTTGCCTTGTGACCA 60.396 50.000 0.00 0.00 40.80 4.02
8426 10685 0.746659 AAAGCTGTTGCCTTGTGACC 59.253 50.000 0.00 0.00 40.80 4.02
8427 10686 2.287608 GGTAAAGCTGTTGCCTTGTGAC 60.288 50.000 7.98 0.00 40.80 3.67
8430 10689 0.951558 CGGTAAAGCTGTTGCCTTGT 59.048 50.000 11.70 0.00 40.80 3.16
8431 10690 0.387239 GCGGTAAAGCTGTTGCCTTG 60.387 55.000 11.70 2.30 40.80 3.61
8432 10691 1.956802 GCGGTAAAGCTGTTGCCTT 59.043 52.632 11.70 0.00 40.80 4.35
8454 10713 1.228862 TTTGAAGGGGAGCCTTGGC 60.229 57.895 2.97 2.97 0.00 4.52
8455 10714 0.178964 TGTTTGAAGGGGAGCCTTGG 60.179 55.000 0.00 0.00 0.00 3.61
8456 10715 0.961753 GTGTTTGAAGGGGAGCCTTG 59.038 55.000 0.00 0.00 0.00 3.61
8457 10716 0.178961 GGTGTTTGAAGGGGAGCCTT 60.179 55.000 0.00 0.00 0.00 4.35
8458 10717 1.360393 TGGTGTTTGAAGGGGAGCCT 61.360 55.000 0.00 0.00 0.00 4.58
8459 10718 1.152830 TGGTGTTTGAAGGGGAGCC 59.847 57.895 0.00 0.00 0.00 4.70
8461 10720 2.065899 TTGTGGTGTTTGAAGGGGAG 57.934 50.000 0.00 0.00 0.00 4.30
8462 10721 2.024846 TCTTTGTGGTGTTTGAAGGGGA 60.025 45.455 0.00 0.00 0.00 4.81
8463 10722 2.383855 TCTTTGTGGTGTTTGAAGGGG 58.616 47.619 0.00 0.00 0.00 4.79
8465 10724 5.233988 TGTTTTCTTTGTGGTGTTTGAAGG 58.766 37.500 0.00 0.00 0.00 3.46
8467 10726 7.736447 AATTGTTTTCTTTGTGGTGTTTGAA 57.264 28.000 0.00 0.00 0.00 2.69
8562 11947 8.693504 CACATGTTTTCAGCACAAACTATTTAG 58.306 33.333 0.00 0.00 35.50 1.85
8740 14500 9.887406 GGTGAACAGTAAATTCGAAAAAGAATA 57.113 29.630 0.00 0.00 39.69 1.75
8741 14501 7.589954 CGGTGAACAGTAAATTCGAAAAAGAAT 59.410 33.333 0.00 0.00 42.13 2.40
8790 14565 2.163613 GGCCTATGTCTTTCGTTTTGGG 59.836 50.000 0.00 0.00 0.00 4.12
8793 14568 4.015872 TCAGGCCTATGTCTTTCGTTTT 57.984 40.909 3.98 0.00 0.00 2.43
8797 14572 2.034685 TCGATCAGGCCTATGTCTTTCG 59.965 50.000 3.98 6.85 33.01 3.46
8824 14599 7.804843 ATCTGAAAATGTGATCTCAATCTCC 57.195 36.000 0.90 0.00 32.75 3.71
8886 14663 3.751175 TGACAATTTACTGCGCTAGCTTT 59.249 39.130 13.93 0.00 45.42 3.51
8895 14672 2.989166 GCTTTGGCTGACAATTTACTGC 59.011 45.455 0.00 0.00 39.21 4.40
8959 14736 6.479001 TCCTTTATACTCTATGTTTCGCTTGC 59.521 38.462 0.00 0.00 0.00 4.01
8973 14750 7.736447 ATATGCAGTTTGCTCCTTTATACTC 57.264 36.000 2.48 0.00 45.31 2.59
8980 14757 8.362639 CCAATATTAATATGCAGTTTGCTCCTT 58.637 33.333 8.74 0.00 45.31 3.36
9079 14859 1.370437 CGCCAGCTGATATGCCTCT 59.630 57.895 17.39 0.00 0.00 3.69


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

AutoCloner maintained by Alex Coulton.