Multiple sequence alignment - TraesCS5D01G217200

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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 TraesCS5D01G217200 chr5D 100.000 4522 0 0 1 4522 326385682 326381161 0.000000e+00 8351.0
1 TraesCS5D01G217200 chr5D 95.266 1035 39 7 1009 2042 326402738 326403763 0.000000e+00 1631.0
2 TraesCS5D01G217200 chr5D 88.927 1156 86 22 2344 3475 326403847 326404984 0.000000e+00 1387.0
3 TraesCS5D01G217200 chr5D 89.740 653 35 6 1 653 6389292 6388672 0.000000e+00 806.0
4 TraesCS5D01G217200 chr5D 80.988 668 101 12 3867 4521 37645449 37646103 1.450000e-139 507.0
5 TraesCS5D01G217200 chr5D 89.683 252 22 3 2086 2333 534789316 534789065 7.300000e-83 318.0
6 TraesCS5D01G217200 chr5B 95.354 1399 49 8 655 2044 378853741 378852350 0.000000e+00 2209.0
7 TraesCS5D01G217200 chr5B 95.777 1042 35 8 1009 2045 378903268 378904305 0.000000e+00 1672.0
8 TraesCS5D01G217200 chr5B 86.840 1269 124 33 2367 3607 378852294 378851041 0.000000e+00 1378.0
9 TraesCS5D01G217200 chr5B 92.043 842 61 5 2635 3475 378904695 378905531 0.000000e+00 1179.0
10 TraesCS5D01G217200 chr5B 85.310 919 122 10 1133 2043 375224945 375224032 0.000000e+00 937.0
11 TraesCS5D01G217200 chr5B 89.931 288 16 2 2364 2639 378904365 378904651 4.300000e-95 359.0
12 TraesCS5D01G217200 chr5A 94.826 1179 34 8 885 2045 430041354 430042523 0.000000e+00 1814.0
13 TraesCS5D01G217200 chr5A 91.321 1279 78 20 2344 3607 430042558 430043818 0.000000e+00 1716.0
14 TraesCS5D01G217200 chr5A 94.943 1048 31 9 1009 2044 429998281 429997244 0.000000e+00 1622.0
15 TraesCS5D01G217200 chr5A 93.445 839 52 3 2638 3475 429996830 429995994 0.000000e+00 1242.0
16 TraesCS5D01G217200 chr5A 85.044 916 122 12 1137 2043 419830868 419829959 0.000000e+00 918.0
17 TraesCS5D01G217200 chr5A 86.481 540 65 4 1 540 615916413 615915882 1.810000e-163 586.0
18 TraesCS5D01G217200 chr5A 81.804 654 104 12 3881 4521 26479381 26480032 6.660000e-148 534.0
19 TraesCS5D01G217200 chr5A 92.282 298 17 5 2344 2639 429997170 429996877 7.000000e-113 418.0
20 TraesCS5D01G217200 chr5A 84.871 271 21 11 3610 3869 430045777 430046038 5.810000e-64 255.0
21 TraesCS5D01G217200 chr5A 91.803 61 5 0 3386 3446 429995995 429995935 8.060000e-13 86.1
22 TraesCS5D01G217200 chr5A 93.333 45 3 0 2044 2088 429997216 429997172 2.920000e-07 67.6
23 TraesCS5D01G217200 chr2D 83.919 939 136 10 1109 2044 538597492 538598418 0.000000e+00 883.0
24 TraesCS5D01G217200 chr2D 96.124 258 9 1 1 257 83155372 83155629 1.950000e-113 420.0
25 TraesCS5D01G217200 chr2D 91.129 248 18 4 2088 2331 14087314 14087561 2.610000e-87 333.0
26 TraesCS5D01G217200 chr2D 90.763 249 19 4 2089 2333 644999131 644999379 3.370000e-86 329.0
27 TraesCS5D01G217200 chr2B 83.067 939 144 12 1109 2044 641193378 641194304 0.000000e+00 839.0
28 TraesCS5D01G217200 chr2B 90.323 248 20 4 2090 2333 75899349 75899596 5.640000e-84 322.0
29 TraesCS5D01G217200 chr2B 93.182 44 3 0 3086 3129 745765348 745765305 1.050000e-06 65.8
30 TraesCS5D01G217200 chr2A 83.067 939 144 12 1109 2044 680548122 680549048 0.000000e+00 839.0
31 TraesCS5D01G217200 chr2A 83.660 153 24 1 3869 4021 228859764 228859613 4.720000e-30 143.0
32 TraesCS5D01G217200 chr3B 88.502 661 65 5 1 660 381975343 381975993 0.000000e+00 789.0
33 TraesCS5D01G217200 chr1B 83.294 838 122 12 1203 2040 52293653 52294472 0.000000e+00 756.0
34 TraesCS5D01G217200 chr1B 86.350 652 77 7 1 651 20100038 20099398 0.000000e+00 701.0
35 TraesCS5D01G217200 chr1B 90.726 248 20 2 2089 2333 603277605 603277358 1.210000e-85 327.0
36 TraesCS5D01G217200 chr6B 87.673 649 70 5 6 654 125420189 125419551 0.000000e+00 747.0
37 TraesCS5D01G217200 chr6B 87.023 655 72 8 1 653 691344397 691345040 0.000000e+00 726.0
38 TraesCS5D01G217200 chr6B 90.079 252 20 5 2087 2333 571454134 571453883 5.640000e-84 322.0
39 TraesCS5D01G217200 chr6B 89.105 257 24 3 2090 2342 679452029 679451773 2.630000e-82 316.0
40 TraesCS5D01G217200 chr4A 86.343 659 77 8 1 658 647443241 647443887 0.000000e+00 706.0
41 TraesCS5D01G217200 chr4A 81.250 624 99 11 3911 4521 742465857 742465239 5.260000e-134 488.0
42 TraesCS5D01G217200 chr4A 80.990 626 98 17 3908 4518 109862344 109862963 1.140000e-130 477.0
43 TraesCS5D01G217200 chr7B 85.736 666 73 9 1 655 307716199 307715545 0.000000e+00 684.0
44 TraesCS5D01G217200 chr7B 81.392 618 94 15 3917 4521 6777494 6776885 6.800000e-133 484.0
45 TraesCS5D01G217200 chr1D 82.630 616 83 16 3914 4518 92093848 92094450 1.440000e-144 523.0
46 TraesCS5D01G217200 chr1D 75.217 460 75 25 3868 4308 22904964 22905403 9.990000e-42 182.0
47 TraesCS5D01G217200 chr4D 81.745 619 93 13 3911 4519 305383404 305382796 2.430000e-137 499.0
48 TraesCS5D01G217200 chr7D 80.699 658 111 11 3869 4512 28687936 28687281 8.740000e-137 497.0
49 TraesCS5D01G217200 chr7D 81.120 625 105 7 3908 4522 48847894 48847273 5.260000e-134 488.0
50 TraesCS5D01G217200 chr7A 86.635 419 48 7 242 660 521449621 521449211 1.480000e-124 457.0
51 TraesCS5D01G217200 chr7A 96.109 257 9 1 1 257 521449889 521449634 7.000000e-113 418.0
52 TraesCS5D01G217200 chr3D 90.763 249 18 4 2089 2333 306029222 306028975 1.210000e-85 327.0
53 TraesCS5D01G217200 chr6D 88.889 261 23 6 2079 2333 25853027 25852767 2.630000e-82 316.0


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 TraesCS5D01G217200 chr5D 326381161 326385682 4521 True 8351.000000 8351 100.000000 1 4522 1 chr5D.!!$R2 4521
1 TraesCS5D01G217200 chr5D 326402738 326404984 2246 False 1509.000000 1631 92.096500 1009 3475 2 chr5D.!!$F2 2466
2 TraesCS5D01G217200 chr5D 6388672 6389292 620 True 806.000000 806 89.740000 1 653 1 chr5D.!!$R1 652
3 TraesCS5D01G217200 chr5D 37645449 37646103 654 False 507.000000 507 80.988000 3867 4521 1 chr5D.!!$F1 654
4 TraesCS5D01G217200 chr5B 378851041 378853741 2700 True 1793.500000 2209 91.097000 655 3607 2 chr5B.!!$R2 2952
5 TraesCS5D01G217200 chr5B 378903268 378905531 2263 False 1070.000000 1672 92.583667 1009 3475 3 chr5B.!!$F1 2466
6 TraesCS5D01G217200 chr5B 375224032 375224945 913 True 937.000000 937 85.310000 1133 2043 1 chr5B.!!$R1 910
7 TraesCS5D01G217200 chr5A 430041354 430046038 4684 False 1261.666667 1814 90.339333 885 3869 3 chr5A.!!$F2 2984
8 TraesCS5D01G217200 chr5A 419829959 419830868 909 True 918.000000 918 85.044000 1137 2043 1 chr5A.!!$R1 906
9 TraesCS5D01G217200 chr5A 429995935 429998281 2346 True 687.140000 1622 93.161200 1009 3475 5 chr5A.!!$R3 2466
10 TraesCS5D01G217200 chr5A 615915882 615916413 531 True 586.000000 586 86.481000 1 540 1 chr5A.!!$R2 539
11 TraesCS5D01G217200 chr5A 26479381 26480032 651 False 534.000000 534 81.804000 3881 4521 1 chr5A.!!$F1 640
12 TraesCS5D01G217200 chr2D 538597492 538598418 926 False 883.000000 883 83.919000 1109 2044 1 chr2D.!!$F3 935
13 TraesCS5D01G217200 chr2B 641193378 641194304 926 False 839.000000 839 83.067000 1109 2044 1 chr2B.!!$F2 935
14 TraesCS5D01G217200 chr2A 680548122 680549048 926 False 839.000000 839 83.067000 1109 2044 1 chr2A.!!$F1 935
15 TraesCS5D01G217200 chr3B 381975343 381975993 650 False 789.000000 789 88.502000 1 660 1 chr3B.!!$F1 659
16 TraesCS5D01G217200 chr1B 52293653 52294472 819 False 756.000000 756 83.294000 1203 2040 1 chr1B.!!$F1 837
17 TraesCS5D01G217200 chr1B 20099398 20100038 640 True 701.000000 701 86.350000 1 651 1 chr1B.!!$R1 650
18 TraesCS5D01G217200 chr6B 125419551 125420189 638 True 747.000000 747 87.673000 6 654 1 chr6B.!!$R1 648
19 TraesCS5D01G217200 chr6B 691344397 691345040 643 False 726.000000 726 87.023000 1 653 1 chr6B.!!$F1 652
20 TraesCS5D01G217200 chr4A 647443241 647443887 646 False 706.000000 706 86.343000 1 658 1 chr4A.!!$F2 657
21 TraesCS5D01G217200 chr4A 742465239 742465857 618 True 488.000000 488 81.250000 3911 4521 1 chr4A.!!$R1 610
22 TraesCS5D01G217200 chr4A 109862344 109862963 619 False 477.000000 477 80.990000 3908 4518 1 chr4A.!!$F1 610
23 TraesCS5D01G217200 chr7B 307715545 307716199 654 True 684.000000 684 85.736000 1 655 1 chr7B.!!$R2 654
24 TraesCS5D01G217200 chr7B 6776885 6777494 609 True 484.000000 484 81.392000 3917 4521 1 chr7B.!!$R1 604
25 TraesCS5D01G217200 chr1D 92093848 92094450 602 False 523.000000 523 82.630000 3914 4518 1 chr1D.!!$F2 604
26 TraesCS5D01G217200 chr4D 305382796 305383404 608 True 499.000000 499 81.745000 3911 4519 1 chr4D.!!$R1 608
27 TraesCS5D01G217200 chr7D 28687281 28687936 655 True 497.000000 497 80.699000 3869 4512 1 chr7D.!!$R1 643
28 TraesCS5D01G217200 chr7D 48847273 48847894 621 True 488.000000 488 81.120000 3908 4522 1 chr7D.!!$R2 614
29 TraesCS5D01G217200 chr7A 521449211 521449889 678 True 437.500000 457 91.372000 1 660 2 chr7A.!!$R1 659

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
814 855 0.035739 ACGCCGTTTGATTACACCCT 59.964 50.0 0.0 0.0 0.0 4.34 F
2080 2183 0.038166 CCCCTGCTTGCTCCTACAAA 59.962 55.0 0.0 0.0 0.0 2.83 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2377 2482 0.682532 TTCAGTGCAGGCAACCAACA 60.683 50.0 0.0 0.0 37.17 3.33 R
3699 5843 0.323629 TCATCGTGGTGGGGAACTTC 59.676 55.0 0.0 0.0 0.00 3.01 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
189 191 8.833231 TTACAGACCTTTTACATTTCTCTCTG 57.167 34.615 0.00 0.00 0.00 3.35
248 250 2.223572 CGCATTTAAGCACCAGAATCCC 60.224 50.000 0.00 0.00 0.00 3.85
258 288 4.524328 AGCACCAGAATCCCTTTTGTTTAG 59.476 41.667 0.00 0.00 0.00 1.85
285 325 9.426837 CATTCATTAATATGTAATGGCCAAAGG 57.573 33.333 10.96 0.00 36.03 3.11
289 329 0.817013 ATGTAATGGCCAAAGGTGCG 59.183 50.000 10.96 0.00 0.00 5.34
297 337 0.663153 GCCAAAGGTGCGATCATACC 59.337 55.000 7.18 7.18 37.23 2.73
358 398 1.745653 CAGGTCATGTGCTCGTCTCTA 59.254 52.381 0.00 0.00 0.00 2.43
360 400 2.164624 AGGTCATGTGCTCGTCTCTAAC 59.835 50.000 0.00 0.00 0.00 2.34
428 468 3.433306 TGGGACCACTTGTCATAAAGG 57.567 47.619 0.00 0.00 46.38 3.11
431 471 2.488153 GGACCACTTGTCATAAAGGCAC 59.512 50.000 0.00 0.00 46.38 5.01
521 561 1.613925 ACATCAGCACACTACACGTCT 59.386 47.619 0.00 0.00 0.00 4.18
522 562 2.817844 ACATCAGCACACTACACGTCTA 59.182 45.455 0.00 0.00 0.00 2.59
523 563 3.254903 ACATCAGCACACTACACGTCTAA 59.745 43.478 0.00 0.00 0.00 2.10
583 623 4.753107 CCAAGTTTTAGAACTAGTTCGGCA 59.247 41.667 25.92 14.75 45.18 5.69
627 667 5.886960 AAAGTGAACATCCATAGCAAGTC 57.113 39.130 0.00 0.00 0.00 3.01
635 675 2.540383 TCCATAGCAAGTCCAGACACT 58.460 47.619 0.00 0.00 0.00 3.55
682 722 6.644248 TTACTCCTTTAAGTTTTCTTGGGC 57.356 37.500 0.00 0.00 40.70 5.36
684 724 5.208890 ACTCCTTTAAGTTTTCTTGGGCTT 58.791 37.500 0.00 0.00 40.70 4.35
685 725 5.661312 ACTCCTTTAAGTTTTCTTGGGCTTT 59.339 36.000 0.00 0.00 40.70 3.51
689 729 1.793414 AGTTTTCTTGGGCTTTGGCT 58.207 45.000 0.00 0.00 38.73 4.75
695 735 0.743097 CTTGGGCTTTGGCTAGATGC 59.257 55.000 0.00 0.00 41.94 3.91
716 756 3.806157 GCCGGTTAGAGAGAAAAACCAGT 60.806 47.826 1.90 0.00 42.31 4.00
744 785 6.374417 TTTTCTTGGGTAGAGTTGCTCTAT 57.626 37.500 8.83 0.00 43.69 1.98
754 795 4.127907 AGAGTTGCTCTATCACATGCATG 58.872 43.478 25.09 25.09 39.28 4.06
759 800 5.996669 TGCTCTATCACATGCATGTTTAG 57.003 39.130 29.48 27.68 39.39 1.85
812 853 0.167251 CCACGCCGTTTGATTACACC 59.833 55.000 0.00 0.00 0.00 4.16
814 855 0.035739 ACGCCGTTTGATTACACCCT 59.964 50.000 0.00 0.00 0.00 4.34
815 856 1.161843 CGCCGTTTGATTACACCCTT 58.838 50.000 0.00 0.00 0.00 3.95
816 857 1.538075 CGCCGTTTGATTACACCCTTT 59.462 47.619 0.00 0.00 0.00 3.11
817 858 2.743126 CGCCGTTTGATTACACCCTTTA 59.257 45.455 0.00 0.00 0.00 1.85
827 868 7.490657 TGATTACACCCTTTAGTGACATACT 57.509 36.000 0.00 0.00 40.34 2.12
872 914 0.723414 CAGGTAACGCTGAGCATGTG 59.277 55.000 4.88 0.00 46.39 3.21
1025 1073 3.234630 TAGGCAGCACCACCACGAC 62.235 63.158 0.00 0.00 43.14 4.34
2080 2183 0.038166 CCCCTGCTTGCTCCTACAAA 59.962 55.000 0.00 0.00 0.00 2.83
2088 2191 5.669477 TGCTTGCTCCTACAAAAACAATTT 58.331 33.333 0.00 0.00 0.00 1.82
2089 2192 6.810911 TGCTTGCTCCTACAAAAACAATTTA 58.189 32.000 0.00 0.00 0.00 1.40
2090 2193 6.922957 TGCTTGCTCCTACAAAAACAATTTAG 59.077 34.615 0.00 0.00 0.00 1.85
2091 2194 6.923508 GCTTGCTCCTACAAAAACAATTTAGT 59.076 34.615 0.00 0.00 0.00 2.24
2092 2195 8.079809 GCTTGCTCCTACAAAAACAATTTAGTA 58.920 33.333 0.00 0.00 0.00 1.82
2093 2196 9.394477 CTTGCTCCTACAAAAACAATTTAGTAC 57.606 33.333 0.00 0.00 0.00 2.73
2094 2197 8.685838 TGCTCCTACAAAAACAATTTAGTACT 57.314 30.769 0.00 0.00 0.00 2.73
2095 2198 8.780249 TGCTCCTACAAAAACAATTTAGTACTC 58.220 33.333 0.00 0.00 0.00 2.59
2096 2199 8.235226 GCTCCTACAAAAACAATTTAGTACTCC 58.765 37.037 0.00 0.00 0.00 3.85
2097 2200 8.625786 TCCTACAAAAACAATTTAGTACTCCC 57.374 34.615 0.00 0.00 0.00 4.30
2098 2201 8.442374 TCCTACAAAAACAATTTAGTACTCCCT 58.558 33.333 0.00 0.00 0.00 4.20
2099 2202 8.727910 CCTACAAAAACAATTTAGTACTCCCTC 58.272 37.037 0.00 0.00 0.00 4.30
2100 2203 7.520451 ACAAAAACAATTTAGTACTCCCTCC 57.480 36.000 0.00 0.00 0.00 4.30
2101 2204 7.064229 ACAAAAACAATTTAGTACTCCCTCCA 58.936 34.615 0.00 0.00 0.00 3.86
2102 2205 7.728532 ACAAAAACAATTTAGTACTCCCTCCAT 59.271 33.333 0.00 0.00 0.00 3.41
2103 2206 8.585018 CAAAAACAATTTAGTACTCCCTCCATT 58.415 33.333 0.00 0.00 0.00 3.16
2104 2207 8.721133 AAAACAATTTAGTACTCCCTCCATTT 57.279 30.769 0.00 0.00 0.00 2.32
2105 2208 8.721133 AAACAATTTAGTACTCCCTCCATTTT 57.279 30.769 0.00 0.00 0.00 1.82
2106 2209 8.721133 AACAATTTAGTACTCCCTCCATTTTT 57.279 30.769 0.00 0.00 0.00 1.94
2135 2238 9.624373 AGTCTGCATATAAGATTTGATCAAAGT 57.376 29.630 24.17 14.86 33.32 2.66
2136 2239 9.875675 GTCTGCATATAAGATTTGATCAAAGTC 57.124 33.333 24.17 19.70 33.32 3.01
2137 2240 9.617523 TCTGCATATAAGATTTGATCAAAGTCA 57.382 29.630 24.17 11.02 33.32 3.41
2140 2243 9.455847 GCATATAAGATTTGATCAAAGTCAACC 57.544 33.333 24.17 10.10 37.80 3.77
2156 2259 8.926715 AAAGTCAACCTTTGTAAAGTTTGATC 57.073 30.769 16.72 11.87 45.13 2.92
2157 2260 7.639113 AGTCAACCTTTGTAAAGTTTGATCA 57.361 32.000 16.72 0.00 45.13 2.92
2158 2261 8.062065 AGTCAACCTTTGTAAAGTTTGATCAA 57.938 30.769 16.72 3.38 45.13 2.57
2159 2262 7.973944 AGTCAACCTTTGTAAAGTTTGATCAAC 59.026 33.333 16.72 3.85 45.13 3.18
2160 2263 7.973944 GTCAACCTTTGTAAAGTTTGATCAACT 59.026 33.333 16.72 6.20 45.13 3.16
2322 2425 9.423061 ACTTGACTTTGACCAAATTTTATATGC 57.577 29.630 0.00 0.00 0.00 3.14
2323 2426 9.421806 CTTGACTTTGACCAAATTTTATATGCA 57.578 29.630 0.00 0.00 0.00 3.96
2324 2427 9.770097 TTGACTTTGACCAAATTTTATATGCAA 57.230 25.926 0.00 0.00 0.00 4.08
2325 2428 9.770097 TGACTTTGACCAAATTTTATATGCAAA 57.230 25.926 0.00 0.00 0.00 3.68
2327 2430 9.777297 ACTTTGACCAAATTTTATATGCAAACT 57.223 25.926 0.00 0.00 0.00 2.66
2361 2464 5.020132 AGAGTATGTGCTTTGAGACTAGGT 58.980 41.667 0.00 0.00 0.00 3.08
2374 2479 5.284079 TGAGACTAGGTTTCGTACACAAAC 58.716 41.667 8.35 8.35 33.65 2.93
2377 2482 4.432712 ACTAGGTTTCGTACACAAACGTT 58.567 39.130 14.43 0.00 43.31 3.99
2413 2519 6.252441 TGCACTGAAAACAAAAACAAGTATCG 59.748 34.615 0.00 0.00 0.00 2.92
2481 2600 1.062880 CGGTCTAAGCGAGTCAGACTC 59.937 57.143 19.43 19.43 42.41 3.36
2489 2608 8.991026 GTCTAAGCGAGTCAGACTCTAATAATA 58.009 37.037 25.11 10.60 42.92 0.98
2571 2704 2.014128 AGACAAGTTCCACCAAACACG 58.986 47.619 0.00 0.00 0.00 4.49
2593 2726 7.660208 ACACGGTAGAGAAATGAACTTTACATT 59.340 33.333 0.00 0.00 39.25 2.71
2652 2833 4.771577 TGCCATTCATTACTTGGTCACAAT 59.228 37.500 0.00 0.00 35.73 2.71
2669 2850 4.627035 TCACAATACTCGCAACTGATTCTG 59.373 41.667 0.00 0.00 0.00 3.02
2697 2883 6.726258 TGTGTGCAGTATAAGACTCATTTG 57.274 37.500 0.00 0.00 35.64 2.32
2706 2892 7.064966 CAGTATAAGACTCATTTGCACATCACA 59.935 37.037 0.00 0.00 35.64 3.58
2709 2895 6.822667 AAGACTCATTTGCACATCACAATA 57.177 33.333 0.00 0.00 0.00 1.90
2733 2919 6.633668 AATTTCGAGTTCTCACACTAATCG 57.366 37.500 0.79 0.00 0.00 3.34
3027 3213 4.291369 CGTCCATCAATGGCTACGACATT 61.291 47.826 14.73 0.00 45.57 2.71
3374 3560 0.681564 CTCCCAGCTCACCTCTACGT 60.682 60.000 0.00 0.00 0.00 3.57
3375 3561 0.251653 TCCCAGCTCACCTCTACGTT 60.252 55.000 0.00 0.00 0.00 3.99
3607 3794 5.654603 TGTCTTTATCAAAGTCTCGCCTA 57.345 39.130 0.00 0.00 39.52 3.93
3608 3795 5.651530 TGTCTTTATCAAAGTCTCGCCTAG 58.348 41.667 0.00 0.00 39.52 3.02
3610 3797 5.744819 GTCTTTATCAAAGTCTCGCCTAGTC 59.255 44.000 0.00 0.00 39.52 2.59
3611 3798 4.650754 TTATCAAAGTCTCGCCTAGTCC 57.349 45.455 0.00 0.00 0.00 3.85
3612 3799 1.183549 TCAAAGTCTCGCCTAGTCCC 58.816 55.000 0.00 0.00 0.00 4.46
3613 3800 0.179134 CAAAGTCTCGCCTAGTCCCG 60.179 60.000 0.00 0.00 0.00 5.14
3614 3801 1.946475 AAAGTCTCGCCTAGTCCCGC 61.946 60.000 0.00 0.00 0.00 6.13
3660 5804 4.380550 CGATCTAATGGCGCTCCTTGTATA 60.381 45.833 7.64 0.00 0.00 1.47
3671 5815 0.389948 CCTTGTATATCGCCTCCGGC 60.390 60.000 0.00 0.00 46.75 6.13
3694 5838 0.743345 AGCGTTAAACCCTGGCGATC 60.743 55.000 0.00 0.00 0.00 3.69
3695 5839 1.022451 GCGTTAAACCCTGGCGATCA 61.022 55.000 0.00 0.00 0.00 2.92
3696 5840 1.006832 CGTTAAACCCTGGCGATCAG 58.993 55.000 0.00 0.00 43.00 2.90
3697 5841 1.404986 CGTTAAACCCTGGCGATCAGA 60.405 52.381 7.63 0.00 46.18 3.27
3698 5842 2.706890 GTTAAACCCTGGCGATCAGAA 58.293 47.619 7.63 0.00 46.18 3.02
3699 5843 2.678336 GTTAAACCCTGGCGATCAGAAG 59.322 50.000 7.63 2.41 46.18 2.85
3731 5875 2.159282 CCACGATGAACTAGTAGGCGTT 60.159 50.000 0.00 0.00 0.00 4.84
3732 5876 3.508762 CACGATGAACTAGTAGGCGTTT 58.491 45.455 0.00 0.00 0.00 3.60
3733 5877 3.546670 CACGATGAACTAGTAGGCGTTTC 59.453 47.826 0.00 0.00 0.00 2.78
3734 5878 3.192001 ACGATGAACTAGTAGGCGTTTCA 59.808 43.478 0.00 2.99 0.00 2.69
3735 5879 4.171005 CGATGAACTAGTAGGCGTTTCAA 58.829 43.478 0.00 0.00 0.00 2.69
3753 5904 2.754552 TCAACTTTCAAACAGCAGCACT 59.245 40.909 0.00 0.00 0.00 4.40
3755 5906 4.397730 TCAACTTTCAAACAGCAGCACTTA 59.602 37.500 0.00 0.00 0.00 2.24
3756 5907 4.292977 ACTTTCAAACAGCAGCACTTAC 57.707 40.909 0.00 0.00 0.00 2.34
3757 5908 3.947834 ACTTTCAAACAGCAGCACTTACT 59.052 39.130 0.00 0.00 0.00 2.24
3758 5909 3.969117 TTCAAACAGCAGCACTTACTG 57.031 42.857 0.00 0.00 40.80 2.74
3760 5911 0.954452 AAACAGCAGCACTTACTGGC 59.046 50.000 0.00 0.00 38.16 4.85
3763 5914 0.679002 CAGCAGCACTTACTGGCCAT 60.679 55.000 5.51 0.00 38.16 4.40
3764 5915 0.679002 AGCAGCACTTACTGGCCATG 60.679 55.000 5.51 1.36 38.16 3.66
3847 6000 1.067212 GTGGTCGAGTCTGTGAGTGTT 59.933 52.381 0.00 0.00 0.00 3.32
3871 6024 2.265589 TAATAAGGGGCGCTTTAGGC 57.734 50.000 22.38 0.00 37.64 3.93
3946 6124 2.863401 TCAACATCGACCTGTATCGG 57.137 50.000 0.00 0.00 42.50 4.18
3947 6125 2.097036 TCAACATCGACCTGTATCGGT 58.903 47.619 0.00 0.00 42.50 4.69
3953 6131 2.485677 GACCTGTATCGGTCCGTGA 58.514 57.895 11.88 0.00 46.19 4.35
3954 6132 0.813184 GACCTGTATCGGTCCGTGAA 59.187 55.000 11.88 0.00 46.19 3.18
3955 6133 0.815734 ACCTGTATCGGTCCGTGAAG 59.184 55.000 11.88 5.23 29.14 3.02
3956 6134 0.527817 CCTGTATCGGTCCGTGAAGC 60.528 60.000 11.88 0.00 0.00 3.86
3957 6135 0.866061 CTGTATCGGTCCGTGAAGCG 60.866 60.000 11.88 0.00 41.30 4.68
3999 6179 2.139917 CAAATCGGAGACAAACGTGGA 58.860 47.619 0.00 0.00 42.51 4.02
4050 6232 2.030562 CGTTTCTGACCGCCCTGT 59.969 61.111 0.00 0.00 0.00 4.00
4055 6237 3.636231 CTGACCGCCCTGTCCCAA 61.636 66.667 0.00 0.00 34.25 4.12
4056 6238 3.172106 TGACCGCCCTGTCCCAAA 61.172 61.111 0.00 0.00 34.25 3.28
4144 6336 0.098728 CGCCGCTTAACATTGAAGGG 59.901 55.000 0.00 0.00 36.79 3.95
4353 6551 2.048127 GGCCGAGAAACGCACTCT 60.048 61.111 0.00 0.00 41.07 3.24
4356 6554 1.738099 CCGAGAAACGCACTCTGGG 60.738 63.158 0.00 0.46 41.07 4.45
4406 6604 1.067071 CCTCCCCGAAATCCGCTATAC 60.067 57.143 0.00 0.00 36.84 1.47
4414 6612 3.311322 CGAAATCCGCTATACAAAGGCAA 59.689 43.478 0.00 0.00 0.00 4.52
4439 6637 1.602237 CCGGCTAACTCCACACCAT 59.398 57.895 0.00 0.00 0.00 3.55
4449 6648 1.003580 CTCCACACCATAACACCAGCT 59.996 52.381 0.00 0.00 0.00 4.24
4486 6685 1.077858 TTGCACTGCATCCGCCATA 60.078 52.632 4.10 0.00 38.76 2.74
4488 6687 0.466007 TGCACTGCATCCGCCATAAT 60.466 50.000 0.00 0.00 37.32 1.28
4508 6708 1.973812 GCCAGGGGAAAGCACTGTC 60.974 63.158 0.00 0.00 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 9.912634 AATCCATGATTGTACACTTTAAAAGTG 57.087 29.630 0.00 0.00 45.67 3.16
258 288 8.830201 TTTGGCCATTACATATTAATGAATGC 57.170 30.769 6.09 10.78 37.15 3.56
275 315 0.396139 ATGATCGCACCTTTGGCCAT 60.396 50.000 6.09 0.00 0.00 4.40
285 325 0.645355 CACACACGGTATGATCGCAC 59.355 55.000 0.00 0.00 0.00 5.34
289 329 1.006832 GCACCACACACGGTATGATC 58.993 55.000 0.00 0.00 37.07 2.92
297 337 2.513666 ACCACTGCACCACACACG 60.514 61.111 0.00 0.00 0.00 4.49
344 384 0.456221 CCGGTTAGAGACGAGCACAT 59.544 55.000 0.00 0.00 0.00 3.21
346 386 1.139095 CCCGGTTAGAGACGAGCAC 59.861 63.158 0.00 0.00 0.00 4.40
358 398 6.347859 TGAAATTAAAAATAGTGCCCGGTT 57.652 33.333 0.00 0.00 0.00 4.44
360 400 7.841915 AATTGAAATTAAAAATAGTGCCCGG 57.158 32.000 0.00 0.00 0.00 5.73
404 444 5.532406 CCTTTATGACAAGTGGTCCCATATG 59.468 44.000 0.00 0.00 46.38 1.78
405 445 5.694995 CCTTTATGACAAGTGGTCCCATAT 58.305 41.667 0.00 0.00 46.38 1.78
406 446 4.627741 GCCTTTATGACAAGTGGTCCCATA 60.628 45.833 0.00 0.00 46.38 2.74
407 447 3.877735 GCCTTTATGACAAGTGGTCCCAT 60.878 47.826 0.00 0.00 46.38 4.00
521 561 6.650427 ACGGTGCTAATCTCATCTGTATTA 57.350 37.500 0.00 0.00 0.00 0.98
522 562 5.537300 ACGGTGCTAATCTCATCTGTATT 57.463 39.130 0.00 0.00 0.00 1.89
523 563 6.842437 ATACGGTGCTAATCTCATCTGTAT 57.158 37.500 0.00 0.00 0.00 2.29
574 614 8.455682 CCTAAAGTTGAAAAATATGCCGAACTA 58.544 33.333 0.00 0.00 0.00 2.24
620 660 2.598565 TCAGTAGTGTCTGGACTTGCT 58.401 47.619 0.00 1.53 36.25 3.91
627 667 7.068839 AGAGGTAAATACATCAGTAGTGTCTGG 59.931 40.741 7.84 0.00 39.29 3.86
669 709 2.118679 AGCCAAAGCCCAAGAAAACTT 58.881 42.857 0.00 0.00 41.25 2.66
676 716 0.743097 GCATCTAGCCAAAGCCCAAG 59.257 55.000 0.00 0.00 41.25 3.61
689 729 5.416947 GTTTTTCTCTCTAACCGGCATCTA 58.583 41.667 0.00 0.00 0.00 1.98
695 735 6.183360 AAAAACTGGTTTTTCTCTCTAACCGG 60.183 38.462 15.65 0.00 46.30 5.28
720 760 5.048846 AGAGCAACTCTACCCAAGAAAAA 57.951 39.130 0.00 0.00 39.28 1.94
725 765 4.160439 TGTGATAGAGCAACTCTACCCAAG 59.840 45.833 6.48 0.00 44.47 3.61
726 766 4.093743 TGTGATAGAGCAACTCTACCCAA 58.906 43.478 6.48 0.00 44.47 4.12
728 768 4.626042 CATGTGATAGAGCAACTCTACCC 58.374 47.826 6.48 3.39 44.47 3.69
740 781 4.274214 GCTGCTAAACATGCATGTGATAGA 59.726 41.667 34.80 24.77 41.61 1.98
744 785 2.439409 AGCTGCTAAACATGCATGTGA 58.561 42.857 31.98 21.31 41.61 3.58
754 795 6.590292 TGACTAGTGTGATTTAGCTGCTAAAC 59.410 38.462 30.77 24.01 38.51 2.01
759 800 7.655328 AGATAATGACTAGTGTGATTTAGCTGC 59.345 37.037 0.00 0.00 32.52 5.25
814 855 9.146984 CGGAAGAAATGTAAGTATGTCACTAAA 57.853 33.333 0.00 0.00 36.04 1.85
815 856 8.525316 TCGGAAGAAATGTAAGTATGTCACTAA 58.475 33.333 0.00 0.00 34.36 2.24
816 857 8.058667 TCGGAAGAAATGTAAGTATGTCACTA 57.941 34.615 0.00 0.00 34.36 2.74
817 858 6.931838 TCGGAAGAAATGTAAGTATGTCACT 58.068 36.000 0.00 0.00 36.49 3.41
872 914 2.776312 TTCGTGTGAGACACTCAGAC 57.224 50.000 15.72 15.72 46.46 3.51
895 937 4.509616 TGGAAAACTTGACTGACGAAGAA 58.490 39.130 0.00 0.00 0.00 2.52
970 1012 3.016474 GAACTGGAAGAGCGCGTGC 62.016 63.158 14.39 14.39 38.55 5.34
1025 1073 1.239968 GCTTGAGCTGGGTGTTGAGG 61.240 60.000 0.00 0.00 38.21 3.86
1103 1154 1.943340 GAAGCTCCATTGGGATCGAAC 59.057 52.381 2.09 0.00 43.91 3.95
1925 1988 2.756283 CGAAGCTCTCCCCCTCGT 60.756 66.667 0.00 0.00 0.00 4.18
2080 2183 8.721133 AAAATGGAGGGAGTACTAAATTGTTT 57.279 30.769 0.00 0.00 0.00 2.83
2109 2212 9.624373 ACTTTGATCAAATCTTATATGCAGACT 57.376 29.630 20.76 0.00 0.00 3.24
2110 2213 9.875675 GACTTTGATCAAATCTTATATGCAGAC 57.124 33.333 20.76 2.27 0.00 3.51
2111 2214 9.617523 TGACTTTGATCAAATCTTATATGCAGA 57.382 29.630 20.76 0.00 0.00 4.26
2114 2217 9.455847 GGTTGACTTTGATCAAATCTTATATGC 57.544 33.333 20.76 6.12 40.22 3.14
2296 2399 9.423061 GCATATAAAATTTGGTCAAAGTCAAGT 57.577 29.630 0.00 0.00 33.32 3.16
2297 2400 9.421806 TGCATATAAAATTTGGTCAAAGTCAAG 57.578 29.630 0.00 0.00 33.32 3.02
2298 2401 9.770097 TTGCATATAAAATTTGGTCAAAGTCAA 57.230 25.926 0.00 0.00 33.32 3.18
2299 2402 9.770097 TTTGCATATAAAATTTGGTCAAAGTCA 57.230 25.926 0.00 0.00 33.32 3.41
2301 2404 9.777297 AGTTTGCATATAAAATTTGGTCAAAGT 57.223 25.926 0.00 0.00 33.32 2.66
2320 2423 9.013229 ACATACTCTCATCATTTTTAGTTTGCA 57.987 29.630 0.00 0.00 0.00 4.08
2321 2424 9.282247 CACATACTCTCATCATTTTTAGTTTGC 57.718 33.333 0.00 0.00 0.00 3.68
2322 2425 9.282247 GCACATACTCTCATCATTTTTAGTTTG 57.718 33.333 0.00 0.00 0.00 2.93
2323 2426 9.236006 AGCACATACTCTCATCATTTTTAGTTT 57.764 29.630 0.00 0.00 0.00 2.66
2324 2427 8.798859 AGCACATACTCTCATCATTTTTAGTT 57.201 30.769 0.00 0.00 0.00 2.24
2325 2428 8.798859 AAGCACATACTCTCATCATTTTTAGT 57.201 30.769 0.00 0.00 0.00 2.24
2326 2429 9.499585 CAAAGCACATACTCTCATCATTTTTAG 57.500 33.333 0.00 0.00 0.00 1.85
2327 2430 9.230122 TCAAAGCACATACTCTCATCATTTTTA 57.770 29.630 0.00 0.00 0.00 1.52
2328 2431 8.114331 TCAAAGCACATACTCTCATCATTTTT 57.886 30.769 0.00 0.00 0.00 1.94
2329 2432 7.609146 TCTCAAAGCACATACTCTCATCATTTT 59.391 33.333 0.00 0.00 0.00 1.82
2330 2433 7.065563 GTCTCAAAGCACATACTCTCATCATTT 59.934 37.037 0.00 0.00 0.00 2.32
2331 2434 6.538021 GTCTCAAAGCACATACTCTCATCATT 59.462 38.462 0.00 0.00 0.00 2.57
2332 2435 6.047870 GTCTCAAAGCACATACTCTCATCAT 58.952 40.000 0.00 0.00 0.00 2.45
2333 2436 5.186603 AGTCTCAAAGCACATACTCTCATCA 59.813 40.000 0.00 0.00 0.00 3.07
2334 2437 5.659463 AGTCTCAAAGCACATACTCTCATC 58.341 41.667 0.00 0.00 0.00 2.92
2335 2438 5.674052 AGTCTCAAAGCACATACTCTCAT 57.326 39.130 0.00 0.00 0.00 2.90
2336 2439 5.126222 CCTAGTCTCAAAGCACATACTCTCA 59.874 44.000 0.00 0.00 0.00 3.27
2337 2440 5.126384 ACCTAGTCTCAAAGCACATACTCTC 59.874 44.000 0.00 0.00 0.00 3.20
2338 2441 5.020132 ACCTAGTCTCAAAGCACATACTCT 58.980 41.667 0.00 0.00 0.00 3.24
2339 2442 5.331876 ACCTAGTCTCAAAGCACATACTC 57.668 43.478 0.00 0.00 0.00 2.59
2340 2443 5.746990 AACCTAGTCTCAAAGCACATACT 57.253 39.130 0.00 0.00 0.00 2.12
2341 2444 5.062308 CGAAACCTAGTCTCAAAGCACATAC 59.938 44.000 0.00 0.00 0.00 2.39
2342 2445 5.168569 CGAAACCTAGTCTCAAAGCACATA 58.831 41.667 0.00 0.00 0.00 2.29
2361 2464 3.188048 ACCAACAACGTTTGTGTACGAAA 59.812 39.130 0.00 0.00 44.59 3.46
2374 2479 1.588667 GTGCAGGCAACCAACAACG 60.589 57.895 0.00 0.00 37.17 4.10
2377 2482 0.682532 TTCAGTGCAGGCAACCAACA 60.683 50.000 0.00 0.00 37.17 3.33
2413 2519 2.806244 TGGCTTTTCTGCTTAGAACGAC 59.194 45.455 0.00 0.00 0.00 4.34
2489 2608 4.570926 TCCCCAGAGTTCAGATAATGGAT 58.429 43.478 0.00 0.00 0.00 3.41
2571 2704 8.561738 TGGAATGTAAAGTTCATTTCTCTACC 57.438 34.615 0.00 0.00 35.94 3.18
2652 2833 5.161358 CAGTTACAGAATCAGTTGCGAGTA 58.839 41.667 0.00 0.00 0.00 2.59
2697 2883 7.023575 AGAACTCGAAATTTATTGTGATGTGC 58.976 34.615 0.00 0.00 0.00 4.57
2709 2895 6.090898 CCGATTAGTGTGAGAACTCGAAATTT 59.909 38.462 0.00 0.00 0.00 1.82
2733 2919 0.858583 GCACGTTTCAAAATGGTGCC 59.141 50.000 17.03 6.13 41.36 5.01
3111 3297 4.821589 CTGCCGAGGAACCGCTCC 62.822 72.222 0.00 0.00 45.81 4.70
3374 3560 8.407832 CACATGTATCAAATATTCAAGCCTCAA 58.592 33.333 0.00 0.00 0.00 3.02
3375 3561 7.557358 ACACATGTATCAAATATTCAAGCCTCA 59.443 33.333 0.00 0.00 0.00 3.86
3475 3661 3.560896 TCACTTTAGTTACACCGCAAACC 59.439 43.478 0.00 0.00 0.00 3.27
3570 3757 9.573166 TTGATAAAGACATCTTCAAAGAGGAAA 57.427 29.630 11.05 0.00 39.04 3.13
3571 3758 9.573166 TTTGATAAAGACATCTTCAAAGAGGAA 57.427 29.630 11.05 0.00 39.04 3.36
3572 3759 9.224267 CTTTGATAAAGACATCTTCAAAGAGGA 57.776 33.333 20.35 0.00 42.12 3.71
3613 3800 3.414700 CACCAACTGGAGTCGCGC 61.415 66.667 0.00 0.00 38.94 6.86
3614 3801 2.738521 CCACCAACTGGAGTCGCG 60.739 66.667 0.00 0.00 43.95 5.87
3616 3803 1.301716 CACCCACCAACTGGAGTCG 60.302 63.158 1.86 0.00 43.95 4.18
3617 3804 1.073199 CCACCCACCAACTGGAGTC 59.927 63.158 1.86 0.00 43.95 3.36
3618 3805 2.460853 CCCACCCACCAACTGGAGT 61.461 63.158 1.86 0.00 43.95 3.85
3619 3806 2.436109 CCCACCCACCAACTGGAG 59.564 66.667 1.86 0.00 43.95 3.86
3620 3807 3.897122 GCCCACCCACCAACTGGA 61.897 66.667 1.86 0.00 43.95 3.86
3633 5775 2.280797 GCGCCATTAGATCGCCCA 60.281 61.111 0.00 0.00 42.71 5.36
3671 5815 1.918868 GCCAGGGTTTAACGCTTCCG 61.919 60.000 12.01 4.45 39.54 4.30
3675 5819 0.743345 GATCGCCAGGGTTTAACGCT 60.743 55.000 8.90 8.90 42.51 5.07
3687 5831 1.066143 GGGAACTTCTTCTGATCGCCA 60.066 52.381 0.00 0.00 0.00 5.69
3694 5838 1.878102 CGTGGTGGGGAACTTCTTCTG 60.878 57.143 0.00 0.00 0.00 3.02
3695 5839 0.396811 CGTGGTGGGGAACTTCTTCT 59.603 55.000 0.00 0.00 0.00 2.85
3696 5840 0.395312 TCGTGGTGGGGAACTTCTTC 59.605 55.000 0.00 0.00 0.00 2.87
3697 5841 1.064825 ATCGTGGTGGGGAACTTCTT 58.935 50.000 0.00 0.00 0.00 2.52
3698 5842 0.324943 CATCGTGGTGGGGAACTTCT 59.675 55.000 0.00 0.00 0.00 2.85
3699 5843 0.323629 TCATCGTGGTGGGGAACTTC 59.676 55.000 0.00 0.00 0.00 3.01
3731 5875 3.193267 AGTGCTGCTGTTTGAAAGTTGAA 59.807 39.130 0.00 0.00 0.00 2.69
3732 5876 2.754552 AGTGCTGCTGTTTGAAAGTTGA 59.245 40.909 0.00 0.00 0.00 3.18
3733 5877 3.155093 AGTGCTGCTGTTTGAAAGTTG 57.845 42.857 0.00 0.00 0.00 3.16
3734 5878 3.874392 AAGTGCTGCTGTTTGAAAGTT 57.126 38.095 0.00 0.00 0.00 2.66
3735 5879 3.947834 AGTAAGTGCTGCTGTTTGAAAGT 59.052 39.130 0.00 0.00 0.00 2.66
3753 5904 2.524306 CTTTGTTCCCATGGCCAGTAA 58.476 47.619 13.05 0.00 0.00 2.24
3755 5906 1.187567 GCTTTGTTCCCATGGCCAGT 61.188 55.000 13.05 0.00 0.00 4.00
3756 5907 1.186917 TGCTTTGTTCCCATGGCCAG 61.187 55.000 13.05 3.10 0.00 4.85
3757 5908 1.152376 TGCTTTGTTCCCATGGCCA 60.152 52.632 8.56 8.56 0.00 5.36
3758 5909 1.293179 GTGCTTTGTTCCCATGGCC 59.707 57.895 6.09 0.00 0.00 5.36
3760 5911 0.673437 AACGTGCTTTGTTCCCATGG 59.327 50.000 4.14 4.14 0.00 3.66
3805 5958 1.303236 CCCTCACGAATGTGGCCAA 60.303 57.895 7.24 0.00 46.42 4.52
3809 5962 2.819595 CGGCCCTCACGAATGTGG 60.820 66.667 0.00 0.00 46.42 4.17
3853 6006 0.467474 GGCCTAAAGCGCCCCTTATT 60.467 55.000 2.29 0.00 45.17 1.40
3861 6014 2.033424 CCTTAAAGATGGCCTAAAGCGC 59.967 50.000 3.32 0.00 45.17 5.92
3871 6024 3.721087 ACAGGTCCACCTTAAAGATGG 57.279 47.619 0.00 0.00 46.09 3.51
3877 6030 4.226620 GGGAGATTTACAGGTCCACCTTAA 59.773 45.833 0.00 0.00 46.09 1.85
3895 6049 4.367023 CCGAACGGTTGCGGGAGA 62.367 66.667 18.05 0.00 43.67 3.71
3927 6081 2.097036 ACCGATACAGGTCGATGTTGA 58.903 47.619 0.00 0.00 41.46 3.18
3956 6134 3.192922 GAAATCGCACCCGGACCG 61.193 66.667 6.99 6.99 34.56 4.79
3957 6135 1.814169 GAGAAATCGCACCCGGACC 60.814 63.158 0.73 0.00 34.56 4.46
3999 6179 0.539051 CCAGACTCCCGCAAATCTCT 59.461 55.000 0.00 0.00 0.00 3.10
4027 6208 1.572941 GCGGTCAGAAACGGGTTTC 59.427 57.895 14.78 14.78 46.85 2.78
4055 6237 2.558147 GGGGAGGGGAGGGCTTTTT 61.558 63.158 0.00 0.00 0.00 1.94
4056 6238 2.947217 GGGGAGGGGAGGGCTTTT 60.947 66.667 0.00 0.00 0.00 2.27
4132 6324 1.284785 CCTGAGCCCCCTTCAATGTTA 59.715 52.381 0.00 0.00 0.00 2.41
4161 6353 2.948720 GCGGAGGCAGTGAGAGGTT 61.949 63.158 0.00 0.00 39.62 3.50
4239 6432 2.029380 TCACGTGTCTCCGACATTGAAT 60.029 45.455 16.51 0.00 44.63 2.57
4264 6457 0.520404 CGGTAGATATCCGTCCCGTG 59.480 60.000 0.00 0.00 42.62 4.94
4406 6604 2.727544 CGGGTGTGGTTGCCTTTG 59.272 61.111 0.00 0.00 0.00 2.77
4414 6612 2.590114 GGAGTTAGCCGGGTGTGGT 61.590 63.158 18.40 0.00 0.00 4.16
4439 6637 1.555075 GATGTGGAGGAGCTGGTGTTA 59.445 52.381 0.00 0.00 0.00 2.41
4449 6648 1.231751 AGGGAGGAGGATGTGGAGGA 61.232 60.000 0.00 0.00 0.00 3.71
4486 6685 1.678970 GTGCTTTCCCCTGGCGATT 60.679 57.895 0.00 0.00 0.00 3.34
4488 6687 3.249189 AGTGCTTTCCCCTGGCGA 61.249 61.111 0.00 0.00 0.00 5.54


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

AutoCloner maintained by Alex Coulton.