Multiple sequence alignment - TraesCS2D01G083900

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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 TraesCS2D01G083900 chr2D 100.000 6374 0 0 1 6374 36278518 36284891 0.000000e+00 11771.0
1 TraesCS2D01G083900 chr2D 82.431 1662 185 55 3572 5166 578601886 578603507 0.000000e+00 1352.0
2 TraesCS2D01G083900 chr2D 81.547 1138 127 39 3169 4273 36271074 36272161 0.000000e+00 861.0
3 TraesCS2D01G083900 chr2D 88.245 604 43 15 2106 2703 36279998 36280579 0.000000e+00 697.0
4 TraesCS2D01G083900 chr2D 88.245 604 43 15 1481 2062 36280623 36281220 0.000000e+00 697.0
5 TraesCS2D01G083900 chr2D 87.102 597 59 11 2857 3437 578601193 578601787 0.000000e+00 660.0
6 TraesCS2D01G083900 chr2D 91.405 477 26 9 1027 1488 578600040 578600516 1.940000e-179 640.0
7 TraesCS2D01G083900 chr2D 90.741 108 7 3 1961 2066 36270558 36270664 2.400000e-29 141.0
8 TraesCS2D01G083900 chr2D 95.312 64 3 0 1328 1391 342054287 342054350 1.130000e-17 102.0
9 TraesCS2D01G083900 chr2D 100.000 29 0 0 680 708 637030804 637030832 3.000000e-03 54.7
10 TraesCS2D01G083900 chr2D 100.000 28 0 0 679 706 566722000 566722027 1.200000e-02 52.8
11 TraesCS2D01G083900 chr2B 93.731 4291 154 41 2106 6315 59760479 59756223 0.000000e+00 6327.0
12 TraesCS2D01G083900 chr2B 91.550 1290 73 19 794 2062 59761162 59759888 0.000000e+00 1746.0
13 TraesCS2D01G083900 chr2B 81.243 1834 216 76 3631 5397 695581030 695582802 0.000000e+00 1363.0
14 TraesCS2D01G083900 chr2B 88.813 1019 68 22 5323 6315 59708579 59707581 0.000000e+00 1208.0
15 TraesCS2D01G083900 chr2B 80.366 1146 124 56 3169 4276 60144325 60143243 0.000000e+00 776.0
16 TraesCS2D01G083900 chr2B 90.147 477 32 10 1027 1488 695579388 695579864 1.970000e-169 606.0
17 TraesCS2D01G083900 chr2B 92.876 379 25 2 3060 3437 695580513 695580890 3.360000e-152 549.0
18 TraesCS2D01G083900 chr2B 81.947 565 61 19 2603 3156 59772610 59772076 2.110000e-119 440.0
19 TraesCS2D01G083900 chr2B 83.913 460 57 12 5091 5538 314669134 314669588 2.120000e-114 424.0
20 TraesCS2D01G083900 chr2B 80.702 570 65 19 2603 3156 60144844 60144304 9.950000e-108 401.0
21 TraesCS2D01G083900 chr2B 82.770 296 38 12 410 694 59761622 59761329 1.060000e-62 252.0
22 TraesCS2D01G083900 chr2B 87.054 224 23 5 130 352 59761870 59761652 1.370000e-61 248.0
23 TraesCS2D01G083900 chr2B 91.935 124 10 0 1 124 59763822 59763699 2.360000e-39 174.0
24 TraesCS2D01G083900 chr2B 91.346 104 7 2 1961 2062 59772611 59772508 2.400000e-29 141.0
25 TraesCS2D01G083900 chr2A 94.056 3903 141 42 2431 6293 39707346 39703495 0.000000e+00 5838.0
26 TraesCS2D01G083900 chr2A 84.751 1646 160 39 2940 4544 716177470 716179065 0.000000e+00 1565.0
27 TraesCS2D01G083900 chr2A 94.412 680 23 7 1146 1812 39708733 39708056 0.000000e+00 1031.0
28 TraesCS2D01G083900 chr2A 80.634 1136 127 42 3169 4276 39717530 39716460 0.000000e+00 793.0
29 TraesCS2D01G083900 chr2A 94.472 398 22 0 1091 1488 716176288 716176685 1.170000e-171 614.0
30 TraesCS2D01G083900 chr2A 95.442 373 8 6 786 1153 39709472 39709104 2.560000e-163 586.0
31 TraesCS2D01G083900 chr2A 95.087 346 14 1 2109 2454 39708395 39708053 5.620000e-150 542.0
32 TraesCS2D01G083900 chr2A 82.801 564 57 18 2603 3156 39718042 39717509 9.680000e-128 468.0
33 TraesCS2D01G083900 chr2A 77.797 581 78 27 4543 5089 716179147 716179710 1.730000e-80 311.0
34 TraesCS2D01G083900 chr2A 94.245 139 8 0 2431 2569 39707474 39707336 5.010000e-51 213.0
35 TraesCS2D01G083900 chr2A 93.182 132 7 2 6020 6150 39950012 39950142 6.520000e-45 193.0
36 TraesCS2D01G083900 chr2A 94.958 119 6 0 2451 2569 39707582 39707464 3.030000e-43 187.0
37 TraesCS2D01G083900 chr2A 88.060 134 13 3 4769 4902 3351488 3351618 8.560000e-34 156.0
38 TraesCS2D01G083900 chr2A 91.346 104 7 2 1961 2062 39718043 39717940 2.400000e-29 141.0
39 TraesCS2D01G083900 chr2A 96.226 53 2 0 6322 6374 39703057 39703005 3.170000e-13 87.9
40 TraesCS2D01G083900 chrUn 80.634 1136 127 42 3169 4276 12899467 12898397 0.000000e+00 793.0
41 TraesCS2D01G083900 chrUn 82.801 564 57 18 2603 3156 12899979 12899446 9.680000e-128 468.0
42 TraesCS2D01G083900 chrUn 81.081 259 22 15 2633 2886 268348325 268348089 1.410000e-41 182.0
43 TraesCS2D01G083900 chrUn 81.081 259 22 15 2633 2886 460924648 460924412 1.410000e-41 182.0
44 TraesCS2D01G083900 chrUn 80.309 259 24 12 2633 2886 34119882 34120118 3.060000e-38 171.0
45 TraesCS2D01G083900 chrUn 91.346 104 7 2 1961 2062 12899980 12899877 2.400000e-29 141.0
46 TraesCS2D01G083900 chr1D 85.849 742 63 24 3760 4486 467860050 467860764 0.000000e+00 750.0
47 TraesCS2D01G083900 chr1D 84.786 631 56 17 2855 3475 467859204 467859804 1.180000e-166 597.0
48 TraesCS2D01G083900 chr1D 83.772 456 52 16 5093 5533 404479676 404479228 4.600000e-111 412.0
49 TraesCS2D01G083900 chr1D 91.667 300 17 4 1197 1488 467857602 467857901 5.950000e-110 409.0
50 TraesCS2D01G083900 chr1D 84.492 187 20 4 4859 5036 467860927 467861113 6.570000e-40 176.0
51 TraesCS2D01G083900 chr1D 93.333 90 5 1 4861 4950 404480093 404480005 1.440000e-26 132.0
52 TraesCS2D01G083900 chr1D 100.000 29 0 0 679 707 461324878 461324906 3.000000e-03 54.7
53 TraesCS2D01G083900 chr1A 81.828 952 89 39 3572 4471 560876820 560877739 0.000000e+00 723.0
54 TraesCS2D01G083900 chr1A 85.079 315 27 5 3164 3475 560876482 560876779 2.890000e-78 303.0
55 TraesCS2D01G083900 chr1A 79.353 402 40 24 4650 5038 560877803 560878174 6.380000e-60 243.0
56 TraesCS2D01G083900 chr5D 83.308 665 79 18 4894 5542 403569882 403570530 9.210000e-163 584.0
57 TraesCS2D01G083900 chr5D 96.774 62 2 0 1328 1389 78436517 78436456 3.140000e-18 104.0
58 TraesCS2D01G083900 chr5D 95.312 64 3 0 1328 1391 8377598 8377535 1.130000e-17 102.0
59 TraesCS2D01G083900 chr5B 84.314 459 54 12 5093 5538 441132580 441133033 3.530000e-117 433.0
60 TraesCS2D01G083900 chr5B 91.346 104 7 2 1961 2062 199321643 199321746 2.400000e-29 141.0
61 TraesCS2D01G083900 chr4D 84.211 456 57 10 5093 5538 374468690 374468240 4.570000e-116 429.0
62 TraesCS2D01G083900 chr4B 82.863 461 61 12 5091 5538 314339975 314339520 1.290000e-106 398.0
63 TraesCS2D01G083900 chr4B 89.011 182 15 5 4769 4950 314340480 314340304 2.990000e-53 220.0
64 TraesCS2D01G083900 chr4B 80.709 254 23 13 2637 2886 260902856 260902625 2.360000e-39 174.0
65 TraesCS2D01G083900 chr4B 80.315 254 24 11 2637 2886 260745797 260745566 1.100000e-37 169.0
66 TraesCS2D01G083900 chr4B 89.655 58 6 0 597 654 122317860 122317803 2.460000e-09 75.0
67 TraesCS2D01G083900 chr1B 78.759 419 49 25 4319 4729 645931330 645931716 1.780000e-60 244.0
68 TraesCS2D01G083900 chr1B 90.385 104 8 2 1961 2062 48864633 48864530 1.110000e-27 135.0
69 TraesCS2D01G083900 chr3B 91.346 104 7 2 1961 2062 278405183 278405286 2.400000e-29 141.0
70 TraesCS2D01G083900 chr7B 80.952 105 15 4 606 705 714745829 714745933 1.910000e-10 78.7
71 TraesCS2D01G083900 chr7B 88.462 52 6 0 598 649 602659372 602659321 5.330000e-06 63.9


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2D01G083900 chr2D 36278518 36284891 6373 False 11771.000000 11771 100.000000 1 6374 1 chr2D.!!$F1 6373
1 TraesCS2D01G083900 chr2D 578600040 578603507 3467 False 884.000000 1352 86.979333 1027 5166 3 chr2D.!!$F7 4139
2 TraesCS2D01G083900 chr2D 36279998 36281220 1222 False 697.000000 697 88.245000 1481 2703 2 chr2D.!!$F6 1222
3 TraesCS2D01G083900 chr2D 36270558 36272161 1603 False 501.000000 861 86.144000 1961 4273 2 chr2D.!!$F5 2312
4 TraesCS2D01G083900 chr2B 59756223 59763822 7599 True 1749.400000 6327 89.408000 1 6315 5 chr2B.!!$R2 6314
5 TraesCS2D01G083900 chr2B 59707581 59708579 998 True 1208.000000 1208 88.813000 5323 6315 1 chr2B.!!$R1 992
6 TraesCS2D01G083900 chr2B 695579388 695582802 3414 False 839.333333 1363 88.088667 1027 5397 3 chr2B.!!$F2 4370
7 TraesCS2D01G083900 chr2B 60143243 60144844 1601 True 588.500000 776 80.534000 2603 4276 2 chr2B.!!$R4 1673
8 TraesCS2D01G083900 chr2B 59772076 59772611 535 True 290.500000 440 86.646500 1961 3156 2 chr2B.!!$R3 1195
9 TraesCS2D01G083900 chr2A 39703005 39709472 6467 True 1212.128571 5838 94.918000 786 6374 7 chr2A.!!$R1 5588
10 TraesCS2D01G083900 chr2A 716176288 716179710 3422 False 830.000000 1565 85.673333 1091 5089 3 chr2A.!!$F3 3998
11 TraesCS2D01G083900 chr2A 39716460 39718043 1583 True 467.333333 793 84.927000 1961 4276 3 chr2A.!!$R2 2315
12 TraesCS2D01G083900 chrUn 12898397 12899980 1583 True 467.333333 793 84.927000 1961 4276 3 chrUn.!!$R3 2315
13 TraesCS2D01G083900 chr1D 467857602 467861113 3511 False 483.000000 750 86.698500 1197 5036 4 chr1D.!!$F2 3839
14 TraesCS2D01G083900 chr1D 404479228 404480093 865 True 272.000000 412 88.552500 4861 5533 2 chr1D.!!$R1 672
15 TraesCS2D01G083900 chr1A 560876482 560878174 1692 False 423.000000 723 82.086667 3164 5038 3 chr1A.!!$F1 1874
16 TraesCS2D01G083900 chr5D 403569882 403570530 648 False 584.000000 584 83.308000 4894 5542 1 chr5D.!!$F1 648
17 TraesCS2D01G083900 chr4B 314339520 314340480 960 True 309.000000 398 85.937000 4769 5538 2 chr4B.!!$R4 769

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
603 2427 0.034670 GGCTTGCCCAATCTCTCAGT 60.035 55.000 0.00 0.00 0.00 3.41 F
863 2785 0.754587 GTGGCCCGGCTACTACTACT 60.755 60.000 18.22 0.00 37.08 2.57 F
1194 3512 0.892063 AGGACGAGCAGAAGAACCTC 59.108 55.000 0.00 0.00 0.00 3.85 F
2965 6898 5.355071 TCCTGAGAATTGTGTGCATAACATC 59.645 40.000 6.07 2.85 41.97 3.06 F
3521 7507 1.825474 TGAAGTGTTCCGGAGAGATCC 59.175 52.381 3.34 0.00 0.00 3.36 F
4970 9249 4.040952 AGTGCCTTCTCACTATGTTGAACT 59.959 41.667 0.00 0.00 44.77 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2844 6421 4.639310 CAGATGCTGAAGTAAGAAAGCCAT 59.361 41.667 0.00 0.0 34.70 4.40 R
3080 7018 8.058235 TGTTTTTGGATATCACATCCTCCAATA 58.942 33.333 4.83 0.0 44.81 1.90 R
3191 7130 0.399091 TGCCTGGAGGACCATAGAGG 60.399 60.000 0.00 0.0 45.87 3.69 R
4970 9249 2.671888 CAGTACTACGAGCGAAGAGACA 59.328 50.000 0.00 0.0 0.00 3.41 R
4986 9272 6.204359 CAATGAATTTCCTATGCTGCAGTAC 58.796 40.000 16.64 0.0 0.00 2.73 R
6317 11148 2.187946 CAGGAGCATGGACCCGAC 59.812 66.667 0.00 0.0 0.00 4.79 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
53 54 2.450243 TGGGTCCCCACTCCTCTC 59.550 66.667 5.13 0.00 41.89 3.20
56 57 2.053277 GGTCCCCACTCCTCTCGAC 61.053 68.421 0.00 0.00 0.00 4.20
59 60 2.701780 CCCCACTCCTCTCGACACG 61.702 68.421 0.00 0.00 0.00 4.49
61 62 1.502640 CCACTCCTCTCGACACGAC 59.497 63.158 0.00 0.00 0.00 4.34
76 77 0.249322 ACGACGAACCACCAGACAAG 60.249 55.000 0.00 0.00 0.00 3.16
95 96 1.564818 AGATAGAGGAGTGGGTCGTGA 59.435 52.381 0.00 0.00 0.00 4.35
124 125 0.605589 GGGGAAGACTTTGGTGACGG 60.606 60.000 0.00 0.00 0.00 4.79
125 126 0.108019 GGGAAGACTTTGGTGACGGT 59.892 55.000 0.00 0.00 0.00 4.83
128 129 3.064931 GGAAGACTTTGGTGACGGTTAG 58.935 50.000 0.00 0.00 0.00 2.34
143 1967 5.012354 TGACGGTTAGACTTAGGAAAATGGT 59.988 40.000 0.00 0.00 0.00 3.55
185 2009 8.806429 AATAATGAGATGATGGTGTAACAACA 57.194 30.769 0.00 0.00 39.98 3.33
189 2013 1.904287 TGATGGTGTAACAACAGGGC 58.096 50.000 0.00 0.00 39.98 5.19
190 2014 1.143889 TGATGGTGTAACAACAGGGCA 59.856 47.619 0.00 0.00 39.98 5.36
191 2015 2.235016 GATGGTGTAACAACAGGGCAA 58.765 47.619 0.00 0.00 39.98 4.52
194 2018 2.235016 GGTGTAACAACAGGGCAATGA 58.765 47.619 0.00 0.00 39.98 2.57
212 2036 2.905075 TGATCATCACATTGGTCCGTC 58.095 47.619 0.00 0.00 0.00 4.79
213 2037 2.213499 GATCATCACATTGGTCCGTCC 58.787 52.381 0.00 0.00 0.00 4.79
223 2047 1.302271 GGTCCGTCCGCCTCTTTTT 60.302 57.895 0.00 0.00 0.00 1.94
228 2052 2.148768 CCGTCCGCCTCTTTTTAAACT 58.851 47.619 0.00 0.00 0.00 2.66
237 2061 9.016438 TCCGCCTCTTTTTAAACTTATAAACAT 57.984 29.630 0.00 0.00 0.00 2.71
288 2112 3.445096 GGGCAAGCAACATTGAGTTCTAT 59.555 43.478 0.00 0.00 38.74 1.98
294 2118 7.310664 CAAGCAACATTGAGTTCTATTCATGT 58.689 34.615 0.00 0.00 38.74 3.21
297 2121 8.834465 AGCAACATTGAGTTCTATTCATGTATC 58.166 33.333 0.00 0.00 38.74 2.24
303 2127 8.964476 TTGAGTTCTATTCATGTATCTTTCCC 57.036 34.615 0.00 0.00 0.00 3.97
305 2129 6.525629 AGTTCTATTCATGTATCTTTCCCCG 58.474 40.000 0.00 0.00 0.00 5.73
306 2130 6.326583 AGTTCTATTCATGTATCTTTCCCCGA 59.673 38.462 0.00 0.00 0.00 5.14
307 2131 6.935240 TCTATTCATGTATCTTTCCCCGAT 57.065 37.500 0.00 0.00 0.00 4.18
308 2132 7.316393 TCTATTCATGTATCTTTCCCCGATT 57.684 36.000 0.00 0.00 0.00 3.34
309 2133 8.430573 TCTATTCATGTATCTTTCCCCGATTA 57.569 34.615 0.00 0.00 0.00 1.75
313 2137 8.842358 TTCATGTATCTTTCCCCGATTATAAC 57.158 34.615 0.00 0.00 0.00 1.89
314 2138 8.202461 TCATGTATCTTTCCCCGATTATAACT 57.798 34.615 0.00 0.00 0.00 2.24
327 2151 6.700520 CCCGATTATAACTACACAAAGGTCTC 59.299 42.308 0.00 0.00 0.00 3.36
337 2161 5.725325 ACACAAAGGTCTCCTCTAACTAC 57.275 43.478 0.00 0.00 30.89 2.73
345 2169 2.035632 CTCCTCTAACTACTGCCTGGG 58.964 57.143 0.00 0.00 0.00 4.45
352 2176 2.042762 TACTGCCTGGGCCCTCAT 59.957 61.111 25.70 10.46 41.09 2.90
353 2177 1.619363 TACTGCCTGGGCCCTCATT 60.619 57.895 25.70 14.37 41.09 2.57
354 2178 1.214305 TACTGCCTGGGCCCTCATTT 61.214 55.000 25.70 10.36 41.09 2.32
355 2179 1.305549 CTGCCTGGGCCCTCATTTT 60.306 57.895 25.70 0.00 41.09 1.82
357 2181 2.418083 GCCTGGGCCCTCATTTTCG 61.418 63.158 25.70 1.98 34.56 3.46
358 2182 1.302949 CCTGGGCCCTCATTTTCGA 59.697 57.895 25.70 0.00 0.00 3.71
359 2183 0.323360 CCTGGGCCCTCATTTTCGAA 60.323 55.000 25.70 0.00 0.00 3.71
360 2184 1.686115 CCTGGGCCCTCATTTTCGAAT 60.686 52.381 25.70 0.00 0.00 3.34
361 2185 2.422803 CCTGGGCCCTCATTTTCGAATA 60.423 50.000 25.70 0.00 0.00 1.75
362 2186 3.490348 CTGGGCCCTCATTTTCGAATAT 58.510 45.455 25.70 0.00 0.00 1.28
363 2187 3.221771 TGGGCCCTCATTTTCGAATATG 58.778 45.455 25.70 19.01 0.00 1.78
364 2188 3.117701 TGGGCCCTCATTTTCGAATATGA 60.118 43.478 25.70 23.93 0.00 2.15
365 2189 3.888930 GGGCCCTCATTTTCGAATATGAA 59.111 43.478 24.96 13.42 30.90 2.57
366 2190 4.524328 GGGCCCTCATTTTCGAATATGAAT 59.476 41.667 24.96 9.32 30.90 2.57
367 2191 5.464168 GGCCCTCATTTTCGAATATGAATG 58.536 41.667 24.96 18.80 30.90 2.67
368 2192 4.919754 GCCCTCATTTTCGAATATGAATGC 59.080 41.667 24.96 24.01 30.90 3.56
370 2194 5.242393 CCCTCATTTTCGAATATGAATGCCT 59.758 40.000 24.96 0.00 30.90 4.75
371 2195 6.239120 CCCTCATTTTCGAATATGAATGCCTT 60.239 38.462 24.96 0.00 30.90 4.35
373 2197 7.380602 CCTCATTTTCGAATATGAATGCCTTTC 59.619 37.037 24.96 0.00 30.90 2.62
384 2208 5.534207 TGAATGCCTTTCATTTTCTGTGT 57.466 34.783 0.00 0.00 44.95 3.72
385 2209 5.291178 TGAATGCCTTTCATTTTCTGTGTG 58.709 37.500 0.00 0.00 44.95 3.82
386 2210 3.731652 TGCCTTTCATTTTCTGTGTGG 57.268 42.857 0.00 0.00 0.00 4.17
387 2211 2.364970 TGCCTTTCATTTTCTGTGTGGG 59.635 45.455 0.00 0.00 0.00 4.61
388 2212 2.365293 GCCTTTCATTTTCTGTGTGGGT 59.635 45.455 0.00 0.00 0.00 4.51
389 2213 3.572255 GCCTTTCATTTTCTGTGTGGGTA 59.428 43.478 0.00 0.00 0.00 3.69
390 2214 4.321230 GCCTTTCATTTTCTGTGTGGGTAG 60.321 45.833 0.00 0.00 0.00 3.18
391 2215 4.218417 CCTTTCATTTTCTGTGTGGGTAGG 59.782 45.833 0.00 0.00 0.00 3.18
392 2216 3.433306 TCATTTTCTGTGTGGGTAGGG 57.567 47.619 0.00 0.00 0.00 3.53
393 2217 2.983192 TCATTTTCTGTGTGGGTAGGGA 59.017 45.455 0.00 0.00 0.00 4.20
394 2218 2.943036 TTTTCTGTGTGGGTAGGGAC 57.057 50.000 0.00 0.00 0.00 4.46
395 2219 1.061546 TTTCTGTGTGGGTAGGGACC 58.938 55.000 0.00 0.00 46.13 4.46
444 2268 5.994054 ACCCCTTTCGTTTTCTTAGTTCTAC 59.006 40.000 0.00 0.00 0.00 2.59
446 2270 6.484308 CCCCTTTCGTTTTCTTAGTTCTACAA 59.516 38.462 0.00 0.00 0.00 2.41
447 2271 7.350467 CCCTTTCGTTTTCTTAGTTCTACAAC 58.650 38.462 0.00 0.00 0.00 3.32
495 2319 1.823610 TCTCTGACAGCATCTGTGAGG 59.176 52.381 12.21 5.10 45.44 3.86
502 2326 0.905357 AGCATCTGTGAGGTGGTACC 59.095 55.000 4.43 4.43 38.99 3.34
511 2335 1.120530 GAGGTGGTACCGGTGATGAT 58.879 55.000 19.93 0.00 44.90 2.45
535 2359 4.618460 GCATCAACCTCGACAAAGAGACTA 60.618 45.833 0.00 0.00 40.57 2.59
541 2365 3.948473 CCTCGACAAAGAGACTATGAGGA 59.052 47.826 0.00 0.00 43.46 3.71
542 2366 4.201970 CCTCGACAAAGAGACTATGAGGAC 60.202 50.000 0.00 0.00 43.46 3.85
544 2368 4.396478 TCGACAAAGAGACTATGAGGACAG 59.604 45.833 0.00 0.00 0.00 3.51
550 2374 5.009436 AGAGACTATGAGGACAGGCATAT 57.991 43.478 0.00 0.00 0.00 1.78
551 2375 6.146140 AGAGACTATGAGGACAGGCATATA 57.854 41.667 0.00 0.00 0.00 0.86
552 2376 6.556639 AGAGACTATGAGGACAGGCATATAA 58.443 40.000 0.00 0.00 0.00 0.98
553 2377 6.435904 AGAGACTATGAGGACAGGCATATAAC 59.564 42.308 0.00 0.00 0.00 1.89
554 2378 5.482175 AGACTATGAGGACAGGCATATAACC 59.518 44.000 0.00 0.00 0.00 2.85
555 2379 3.685139 ATGAGGACAGGCATATAACCG 57.315 47.619 0.00 0.00 0.00 4.44
567 2391 4.510340 GGCATATAACCGAACGAAGAACAT 59.490 41.667 0.00 0.00 0.00 2.71
571 2395 7.581600 GCATATAACCGAACGAAGAACATAAAC 59.418 37.037 0.00 0.00 0.00 2.01
581 2405 9.620660 GAACGAAGAACATAAACATTATGGTTT 57.379 29.630 0.00 0.00 43.08 3.27
582 2406 9.974980 AACGAAGAACATAAACATTATGGTTTT 57.025 25.926 0.00 8.75 41.07 2.43
583 2407 9.405587 ACGAAGAACATAAACATTATGGTTTTG 57.594 29.630 10.95 10.95 41.07 2.44
586 2410 7.102993 AGAACATAAACATTATGGTTTTGGGC 58.897 34.615 15.60 8.37 41.07 5.36
591 2415 2.027285 ACATTATGGTTTTGGGCTTGCC 60.027 45.455 2.49 2.49 0.00 4.52
592 2416 0.980423 TTATGGTTTTGGGCTTGCCC 59.020 50.000 22.91 22.91 0.00 5.36
599 2423 1.776301 TTGGGCTTGCCCAATCTCT 59.224 52.632 34.56 0.00 43.94 3.10
600 2424 0.323725 TTGGGCTTGCCCAATCTCTC 60.324 55.000 34.56 7.55 43.94 3.20
601 2425 1.304282 GGGCTTGCCCAATCTCTCA 59.696 57.895 24.50 0.00 34.21 3.27
602 2426 0.750911 GGGCTTGCCCAATCTCTCAG 60.751 60.000 24.50 0.00 34.21 3.35
603 2427 0.034670 GGCTTGCCCAATCTCTCAGT 60.035 55.000 0.00 0.00 0.00 3.41
604 2428 1.093159 GCTTGCCCAATCTCTCAGTG 58.907 55.000 0.00 0.00 0.00 3.66
605 2429 1.747709 CTTGCCCAATCTCTCAGTGG 58.252 55.000 0.00 0.00 0.00 4.00
606 2430 1.280133 CTTGCCCAATCTCTCAGTGGA 59.720 52.381 0.00 0.00 34.05 4.02
607 2431 1.588239 TGCCCAATCTCTCAGTGGAT 58.412 50.000 0.00 0.00 34.05 3.41
608 2432 1.211212 TGCCCAATCTCTCAGTGGATG 59.789 52.381 0.00 0.00 34.05 3.51
609 2433 1.964552 CCCAATCTCTCAGTGGATGC 58.035 55.000 0.00 0.00 34.05 3.91
616 2448 6.817641 CCAATCTCTCAGTGGATGCTATATTC 59.182 42.308 0.00 0.00 34.05 1.75
617 2449 7.384477 CAATCTCTCAGTGGATGCTATATTCA 58.616 38.462 0.00 0.00 0.00 2.57
622 2454 6.723052 TCTCAGTGGATGCTATATTCATGAGA 59.277 38.462 0.00 0.00 0.00 3.27
626 2458 8.041919 CAGTGGATGCTATATTCATGAGATCTT 58.958 37.037 0.00 0.00 0.00 2.40
677 2512 6.204359 TGTTCTTCTATTCTATACGTTCCGC 58.796 40.000 0.00 0.00 0.00 5.54
694 2529 1.423395 CGCCACTTGACTGAGACTTC 58.577 55.000 0.00 0.00 0.00 3.01
695 2530 1.423395 GCCACTTGACTGAGACTTCG 58.577 55.000 0.00 0.00 0.00 3.79
696 2531 1.269831 GCCACTTGACTGAGACTTCGT 60.270 52.381 0.00 0.00 0.00 3.85
698 2533 3.552273 GCCACTTGACTGAGACTTCGTTA 60.552 47.826 0.00 0.00 0.00 3.18
699 2534 4.617959 CCACTTGACTGAGACTTCGTTAA 58.382 43.478 0.00 0.00 0.00 2.01
700 2535 4.681942 CCACTTGACTGAGACTTCGTTAAG 59.318 45.833 7.57 7.57 38.77 1.85
717 2637 6.970484 TCGTTAAGTCTCGGTTTTAGTACTT 58.030 36.000 0.00 0.00 0.00 2.24
718 2638 6.857964 TCGTTAAGTCTCGGTTTTAGTACTTG 59.142 38.462 0.00 0.00 0.00 3.16
862 2784 1.738432 GTGGCCCGGCTACTACTAC 59.262 63.158 18.22 0.00 37.08 2.73
863 2785 0.754587 GTGGCCCGGCTACTACTACT 60.755 60.000 18.22 0.00 37.08 2.57
916 2838 2.341101 GCGTCTCAGGTTCCTCCGA 61.341 63.158 0.00 0.00 41.99 4.55
1194 3512 0.892063 AGGACGAGCAGAAGAACCTC 59.108 55.000 0.00 0.00 0.00 3.85
2818 6393 7.842743 ACCATACTACTGTAGGAATGGTCTAAA 59.157 37.037 31.18 5.55 45.65 1.85
2965 6898 5.355071 TCCTGAGAATTGTGTGCATAACATC 59.645 40.000 6.07 2.85 41.97 3.06
3027 6965 8.609176 GTGACTTACTGAAGTTGTTTCATACAA 58.391 33.333 0.00 0.00 46.23 2.41
3080 7018 7.512130 TGCTATGTTCTGATTATGTTCAGGAT 58.488 34.615 6.83 1.74 42.78 3.24
3275 7214 3.338249 TGCTGCTTTTATCAGAGTGGTC 58.662 45.455 0.00 0.00 33.54 4.02
3445 7421 9.695155 ATGCCTAGTTTGTTAGGTATTTGTTAT 57.305 29.630 1.45 0.00 41.57 1.89
3521 7507 1.825474 TGAAGTGTTCCGGAGAGATCC 59.175 52.381 3.34 0.00 0.00 3.36
4105 8144 8.669946 TTTCGGACATGCATATAGATGTAAAA 57.330 30.769 0.00 0.00 32.85 1.52
4165 8208 6.653320 TGAGCTGTTTAGTTCCGATTTTACAT 59.347 34.615 0.00 0.00 33.64 2.29
4706 8897 7.251321 TGGTTGCAAGGATAATTTTTGGTAT 57.749 32.000 0.00 0.00 0.00 2.73
4738 8943 5.195185 ACCTAGAGCTCCAACTAGTAACTC 58.805 45.833 10.93 0.00 35.65 3.01
4970 9249 4.040952 AGTGCCTTCTCACTATGTTGAACT 59.959 41.667 0.00 0.00 44.77 3.01
4986 9272 2.159824 TGAACTGTCTCTTCGCTCGTAG 59.840 50.000 0.00 0.00 0.00 3.51
5635 10084 6.092955 ACCCCCTTTTCGTTCTTAAAATTC 57.907 37.500 0.00 0.00 0.00 2.17
5919 10405 1.429930 TGGTGGTGGCTGAAGAACTA 58.570 50.000 0.00 0.00 0.00 2.24
5965 10465 6.861055 TGAAAGGCGTATTTTGACTTCAATTC 59.139 34.615 0.00 0.00 32.16 2.17
5972 10472 2.270352 TTGACTTCAATTCGGCACCT 57.730 45.000 0.00 0.00 0.00 4.00
5974 10474 2.151202 TGACTTCAATTCGGCACCTTC 58.849 47.619 0.00 0.00 0.00 3.46
6011 10513 5.888724 TCCACTGTCACAAACTCCAAATTTA 59.111 36.000 0.00 0.00 0.00 1.40
6175 10692 7.702386 TCGAATTCAACTTCAGAAAATTGTGA 58.298 30.769 6.22 0.00 0.00 3.58
6181 10699 7.209475 TCAACTTCAGAAAATTGTGAAATCCC 58.791 34.615 7.09 0.00 39.53 3.85
6186 10704 6.306199 TCAGAAAATTGTGAAATCCCAGAGA 58.694 36.000 0.00 0.00 0.00 3.10
6202 10720 5.059833 CCCAGAGAAGTTTCACTATATGGC 58.940 45.833 0.00 0.00 29.81 4.40
6210 10728 7.389884 AGAAGTTTCACTATATGGCTGCATATG 59.610 37.037 0.50 0.00 0.00 1.78
6316 11147 2.178912 TTTTAGGGGTCTTCAGCACG 57.821 50.000 0.00 0.00 0.00 5.34
6317 11148 0.323629 TTTAGGGGTCTTCAGCACGG 59.676 55.000 0.00 0.00 0.00 4.94
6318 11149 0.834687 TTAGGGGTCTTCAGCACGGT 60.835 55.000 0.00 0.00 0.00 4.83
6319 11150 1.255667 TAGGGGTCTTCAGCACGGTC 61.256 60.000 0.00 0.00 0.00 4.79
6320 11151 2.432628 GGGTCTTCAGCACGGTCG 60.433 66.667 0.00 0.00 0.00 4.79
6352 11279 1.228510 GGGCTATGGGCTGAGCTTT 59.771 57.895 3.72 0.00 41.46 3.51
6364 11291 1.601759 GAGCTTTCAGCCCAGTGCA 60.602 57.895 0.00 0.00 43.77 4.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
53 54 2.014554 CTGGTGGTTCGTCGTGTCG 61.015 63.158 0.00 0.00 0.00 4.35
56 57 0.528901 TTGTCTGGTGGTTCGTCGTG 60.529 55.000 0.00 0.00 0.00 4.35
59 60 2.457366 ATCTTGTCTGGTGGTTCGTC 57.543 50.000 0.00 0.00 0.00 4.20
61 62 3.429547 CCTCTATCTTGTCTGGTGGTTCG 60.430 52.174 0.00 0.00 0.00 3.95
76 77 1.677052 GTCACGACCCACTCCTCTATC 59.323 57.143 0.00 0.00 0.00 2.08
103 104 1.605753 GTCACCAAAGTCTTCCCCAC 58.394 55.000 0.00 0.00 0.00 4.61
106 107 0.108019 ACCGTCACCAAAGTCTTCCC 59.892 55.000 0.00 0.00 0.00 3.97
107 108 1.963172 AACCGTCACCAAAGTCTTCC 58.037 50.000 0.00 0.00 0.00 3.46
124 125 6.473758 ACCTCACCATTTTCCTAAGTCTAAC 58.526 40.000 0.00 0.00 0.00 2.34
125 126 6.697641 ACCTCACCATTTTCCTAAGTCTAA 57.302 37.500 0.00 0.00 0.00 2.10
128 129 6.295719 TCTACCTCACCATTTTCCTAAGTC 57.704 41.667 0.00 0.00 0.00 3.01
143 1967 6.880484 TCATTATTAAAGCCGTTCTACCTCA 58.120 36.000 0.00 0.00 0.00 3.86
185 2009 2.963101 CCAATGTGATGATCATTGCCCT 59.037 45.455 10.14 0.00 45.96 5.19
189 2013 3.628942 ACGGACCAATGTGATGATCATTG 59.371 43.478 10.14 4.33 46.50 2.82
190 2014 3.879295 GACGGACCAATGTGATGATCATT 59.121 43.478 10.14 0.00 36.16 2.57
191 2015 3.470709 GACGGACCAATGTGATGATCAT 58.529 45.455 8.25 8.25 0.00 2.45
194 2018 1.473257 CGGACGGACCAATGTGATGAT 60.473 52.381 0.00 0.00 38.90 2.45
277 2101 9.566432 GGGAAAGATACATGAATAGAACTCAAT 57.434 33.333 0.00 0.00 0.00 2.57
280 2104 6.647067 CGGGGAAAGATACATGAATAGAACTC 59.353 42.308 0.00 0.00 0.00 3.01
288 2112 8.656806 AGTTATAATCGGGGAAAGATACATGAA 58.343 33.333 0.00 0.00 0.00 2.57
294 2118 8.481492 TGTGTAGTTATAATCGGGGAAAGATA 57.519 34.615 0.00 0.00 0.00 1.98
297 2121 7.012044 CCTTTGTGTAGTTATAATCGGGGAAAG 59.988 40.741 0.00 0.00 0.00 2.62
299 2123 6.070078 ACCTTTGTGTAGTTATAATCGGGGAA 60.070 38.462 0.00 0.00 0.00 3.97
300 2124 5.426185 ACCTTTGTGTAGTTATAATCGGGGA 59.574 40.000 0.00 0.00 0.00 4.81
302 2126 6.579865 AGACCTTTGTGTAGTTATAATCGGG 58.420 40.000 0.00 0.00 0.00 5.14
303 2127 6.700520 GGAGACCTTTGTGTAGTTATAATCGG 59.299 42.308 0.00 0.00 0.00 4.18
305 2129 8.697292 AGAGGAGACCTTTGTGTAGTTATAATC 58.303 37.037 0.00 0.00 31.76 1.75
306 2130 8.611051 AGAGGAGACCTTTGTGTAGTTATAAT 57.389 34.615 0.00 0.00 31.76 1.28
307 2131 9.537852 TTAGAGGAGACCTTTGTGTAGTTATAA 57.462 33.333 0.00 0.00 31.76 0.98
308 2132 8.964772 GTTAGAGGAGACCTTTGTGTAGTTATA 58.035 37.037 0.00 0.00 31.76 0.98
309 2133 7.674772 AGTTAGAGGAGACCTTTGTGTAGTTAT 59.325 37.037 0.00 0.00 31.76 1.89
311 2135 5.839606 AGTTAGAGGAGACCTTTGTGTAGTT 59.160 40.000 0.00 0.00 31.76 2.24
312 2136 5.395611 AGTTAGAGGAGACCTTTGTGTAGT 58.604 41.667 0.00 0.00 31.76 2.73
313 2137 5.986501 AGTTAGAGGAGACCTTTGTGTAG 57.013 43.478 0.00 0.00 31.76 2.74
314 2138 6.433404 CAGTAGTTAGAGGAGACCTTTGTGTA 59.567 42.308 0.00 0.00 31.76 2.90
327 2151 0.466124 GCCCAGGCAGTAGTTAGAGG 59.534 60.000 3.12 0.00 41.49 3.69
337 2161 1.305549 AAAATGAGGGCCCAGGCAG 60.306 57.895 27.56 0.00 44.11 4.85
345 2169 4.919754 GCATTCATATTCGAAAATGAGGGC 59.080 41.667 19.55 8.99 33.83 5.19
363 2187 4.687483 CCACACAGAAAATGAAAGGCATTC 59.313 41.667 0.00 0.00 46.25 2.67
365 2189 3.007182 CCCACACAGAAAATGAAAGGCAT 59.993 43.478 0.00 0.00 39.43 4.40
366 2190 2.364970 CCCACACAGAAAATGAAAGGCA 59.635 45.455 0.00 0.00 0.00 4.75
367 2191 2.365293 ACCCACACAGAAAATGAAAGGC 59.635 45.455 0.00 0.00 0.00 4.35
368 2192 4.218417 CCTACCCACACAGAAAATGAAAGG 59.782 45.833 0.00 0.00 0.00 3.11
370 2194 4.141135 TCCCTACCCACACAGAAAATGAAA 60.141 41.667 0.00 0.00 0.00 2.69
371 2195 3.396276 TCCCTACCCACACAGAAAATGAA 59.604 43.478 0.00 0.00 0.00 2.57
373 2197 3.081804 GTCCCTACCCACACAGAAAATG 58.918 50.000 0.00 0.00 0.00 2.32
374 2198 2.041216 GGTCCCTACCCACACAGAAAAT 59.959 50.000 0.00 0.00 40.21 1.82
375 2199 1.422402 GGTCCCTACCCACACAGAAAA 59.578 52.381 0.00 0.00 40.21 2.29
376 2200 1.061546 GGTCCCTACCCACACAGAAA 58.938 55.000 0.00 0.00 40.21 2.52
377 2201 1.189524 CGGTCCCTACCCACACAGAA 61.190 60.000 0.00 0.00 43.54 3.02
378 2202 1.608336 CGGTCCCTACCCACACAGA 60.608 63.158 0.00 0.00 43.54 3.41
379 2203 2.656069 CCGGTCCCTACCCACACAG 61.656 68.421 0.00 0.00 43.54 3.66
381 2205 1.305213 TACCGGTCCCTACCCACAC 60.305 63.158 12.40 0.00 43.54 3.82
382 2206 1.000739 CTACCGGTCCCTACCCACA 59.999 63.158 12.40 0.00 43.54 4.17
383 2207 1.000866 ACTACCGGTCCCTACCCAC 59.999 63.158 12.40 0.00 43.54 4.61
384 2208 1.307647 GACTACCGGTCCCTACCCA 59.692 63.158 12.40 0.00 43.54 4.51
385 2209 0.324645 TTGACTACCGGTCCCTACCC 60.325 60.000 12.40 0.00 43.54 3.69
386 2210 1.560505 TTTGACTACCGGTCCCTACC 58.439 55.000 12.40 0.00 43.89 3.18
387 2211 3.259123 TCTTTTTGACTACCGGTCCCTAC 59.741 47.826 12.40 0.00 43.89 3.18
388 2212 3.509442 TCTTTTTGACTACCGGTCCCTA 58.491 45.455 12.40 0.00 43.89 3.53
389 2213 2.302157 CTCTTTTTGACTACCGGTCCCT 59.698 50.000 12.40 0.00 43.89 4.20
390 2214 2.038164 ACTCTTTTTGACTACCGGTCCC 59.962 50.000 12.40 1.39 43.89 4.46
391 2215 3.064931 CACTCTTTTTGACTACCGGTCC 58.935 50.000 12.40 1.83 43.89 4.46
392 2216 3.064931 CCACTCTTTTTGACTACCGGTC 58.935 50.000 12.40 0.00 44.70 4.79
393 2217 2.224450 CCCACTCTTTTTGACTACCGGT 60.224 50.000 13.98 13.98 0.00 5.28
394 2218 2.423577 CCCACTCTTTTTGACTACCGG 58.576 52.381 0.00 0.00 0.00 5.28
395 2219 2.038033 TCCCCACTCTTTTTGACTACCG 59.962 50.000 0.00 0.00 0.00 4.02
396 2220 3.409570 GTCCCCACTCTTTTTGACTACC 58.590 50.000 0.00 0.00 0.00 3.18
397 2221 3.409570 GGTCCCCACTCTTTTTGACTAC 58.590 50.000 0.00 0.00 0.00 2.73
398 2222 2.374170 GGGTCCCCACTCTTTTTGACTA 59.626 50.000 0.00 0.00 35.81 2.59
399 2223 1.145119 GGGTCCCCACTCTTTTTGACT 59.855 52.381 0.00 0.00 35.81 3.41
400 2224 1.133606 TGGGTCCCCACTCTTTTTGAC 60.134 52.381 5.13 0.00 41.89 3.18
401 2225 1.227249 TGGGTCCCCACTCTTTTTGA 58.773 50.000 5.13 0.00 41.89 2.69
402 2226 3.839979 TGGGTCCCCACTCTTTTTG 57.160 52.632 5.13 0.00 41.89 2.44
418 2242 3.483421 ACTAAGAAAACGAAAGGGGTGG 58.517 45.455 0.00 0.00 0.00 4.61
479 2303 0.322648 CCACCTCACAGATGCTGTCA 59.677 55.000 0.00 0.00 43.43 3.58
483 2307 0.905357 GGTACCACCTCACAGATGCT 59.095 55.000 7.15 0.00 34.73 3.79
495 2319 0.107897 TGCATCATCACCGGTACCAC 60.108 55.000 6.87 0.00 0.00 4.16
511 2335 2.037121 TCTCTTTGTCGAGGTTGATGCA 59.963 45.455 0.00 0.00 0.00 3.96
522 2346 4.439426 CCTGTCCTCATAGTCTCTTTGTCG 60.439 50.000 0.00 0.00 0.00 4.35
523 2347 4.679372 GCCTGTCCTCATAGTCTCTTTGTC 60.679 50.000 0.00 0.00 0.00 3.18
535 2359 3.239449 TCGGTTATATGCCTGTCCTCAT 58.761 45.455 0.00 0.00 0.00 2.90
541 2365 3.131577 TCTTCGTTCGGTTATATGCCTGT 59.868 43.478 0.00 0.00 0.00 4.00
542 2366 3.713288 TCTTCGTTCGGTTATATGCCTG 58.287 45.455 0.00 0.00 0.00 4.85
544 2368 3.866910 TGTTCTTCGTTCGGTTATATGCC 59.133 43.478 0.00 0.00 0.00 4.40
550 2374 7.424227 AATGTTTATGTTCTTCGTTCGGTTA 57.576 32.000 0.00 0.00 0.00 2.85
551 2375 5.934935 ATGTTTATGTTCTTCGTTCGGTT 57.065 34.783 0.00 0.00 0.00 4.44
552 2376 5.934935 AATGTTTATGTTCTTCGTTCGGT 57.065 34.783 0.00 0.00 0.00 4.69
553 2377 6.905076 CCATAATGTTTATGTTCTTCGTTCGG 59.095 38.462 6.53 0.00 0.00 4.30
554 2378 7.461107 ACCATAATGTTTATGTTCTTCGTTCG 58.539 34.615 6.53 0.00 0.00 3.95
555 2379 9.620660 AAACCATAATGTTTATGTTCTTCGTTC 57.379 29.630 6.53 0.00 36.71 3.95
567 2391 5.241662 GCAAGCCCAAAACCATAATGTTTA 58.758 37.500 0.00 0.00 37.46 2.01
571 2395 2.631267 GGCAAGCCCAAAACCATAATG 58.369 47.619 0.00 0.00 0.00 1.90
586 2410 1.280133 TCCACTGAGAGATTGGGCAAG 59.720 52.381 0.00 0.00 0.00 4.01
591 2415 4.620589 ATAGCATCCACTGAGAGATTGG 57.379 45.455 0.00 0.00 0.00 3.16
592 2416 7.384477 TGAATATAGCATCCACTGAGAGATTG 58.616 38.462 0.00 0.00 0.00 2.67
599 2423 6.923199 TCTCATGAATATAGCATCCACTGA 57.077 37.500 0.00 0.00 0.00 3.41
600 2424 7.557724 AGATCTCATGAATATAGCATCCACTG 58.442 38.462 0.00 0.00 0.00 3.66
601 2425 7.736881 AGATCTCATGAATATAGCATCCACT 57.263 36.000 0.00 0.00 0.00 4.00
602 2426 9.311916 GTAAGATCTCATGAATATAGCATCCAC 57.688 37.037 0.00 0.00 0.00 4.02
603 2427 9.039165 TGTAAGATCTCATGAATATAGCATCCA 57.961 33.333 0.00 0.00 0.00 3.41
675 2510 1.423395 GAAGTCTCAGTCAAGTGGCG 58.577 55.000 0.00 0.00 0.00 5.69
677 2512 2.802787 ACGAAGTCTCAGTCAAGTGG 57.197 50.000 0.00 0.00 29.74 4.00
694 2529 6.857964 TCAAGTACTAAAACCGAGACTTAACG 59.142 38.462 0.00 0.00 0.00 3.18
695 2530 8.754230 ATCAAGTACTAAAACCGAGACTTAAC 57.246 34.615 0.00 0.00 0.00 2.01
698 2533 9.939802 AATTATCAAGTACTAAAACCGAGACTT 57.060 29.630 0.00 0.00 0.00 3.01
728 2648 4.082026 ACACCTACACGGTAACAAGGTATC 60.082 45.833 0.00 0.00 46.94 2.24
729 2649 3.834231 ACACCTACACGGTAACAAGGTAT 59.166 43.478 0.00 0.00 46.94 2.73
730 2650 3.230134 ACACCTACACGGTAACAAGGTA 58.770 45.455 0.00 0.00 46.94 3.08
731 2651 2.041701 ACACCTACACGGTAACAAGGT 58.958 47.619 0.00 0.00 46.94 3.50
732 2652 2.825861 ACACCTACACGGTAACAAGG 57.174 50.000 0.00 0.00 46.94 3.61
733 2653 5.488645 AAAAACACCTACACGGTAACAAG 57.511 39.130 0.00 0.00 46.94 3.16
767 2687 9.549078 AATAGAACTCGACTCTTCTTTTCTTTT 57.451 29.630 0.00 0.00 0.00 2.27
768 2688 9.198837 GAATAGAACTCGACTCTTCTTTTCTTT 57.801 33.333 13.27 0.00 34.34 2.52
770 2690 7.024768 CGAATAGAACTCGACTCTTCTTTTCT 58.975 38.462 15.89 0.00 38.61 2.52
773 2693 6.497785 TCGAATAGAACTCGACTCTTCTTT 57.502 37.500 0.00 0.00 40.25 2.52
782 2702 6.541278 TCCAAGAATAGTCGAATAGAACTCGA 59.459 38.462 0.00 0.00 42.75 4.04
783 2703 6.726230 TCCAAGAATAGTCGAATAGAACTCG 58.274 40.000 0.00 0.00 37.66 4.18
784 2704 7.932335 TCTCCAAGAATAGTCGAATAGAACTC 58.068 38.462 0.00 0.00 0.00 3.01
797 2717 4.920340 CACGGATTCGATCTCCAAGAATAG 59.080 45.833 0.00 0.49 40.11 1.73
862 2784 1.352352 TGGAAGAAGGGAAAGGCAGAG 59.648 52.381 0.00 0.00 0.00 3.35
863 2785 1.444933 TGGAAGAAGGGAAAGGCAGA 58.555 50.000 0.00 0.00 0.00 4.26
916 2838 0.820871 GAGAGGAGCGGAGATGTGTT 59.179 55.000 0.00 0.00 0.00 3.32
2844 6421 4.639310 CAGATGCTGAAGTAAGAAAGCCAT 59.361 41.667 0.00 0.00 34.70 4.40
2965 6898 9.185192 GACTTCATAAATTGAAAAGTTCTGGTG 57.815 33.333 0.00 0.00 43.64 4.17
3080 7018 8.058235 TGTTTTTGGATATCACATCCTCCAATA 58.942 33.333 4.83 0.00 44.81 1.90
3191 7130 0.399091 TGCCTGGAGGACCATAGAGG 60.399 60.000 0.00 0.00 45.87 3.69
3275 7214 1.581934 TCTGCACAAACTCTGAACCG 58.418 50.000 0.00 0.00 0.00 4.44
3445 7421 9.248291 GAAATCTTGAGCATAAACAAGAAAACA 57.752 29.630 12.36 0.00 0.00 2.83
3521 7507 6.109320 TGTTCTTGTAACCTTGTGTTAACG 57.891 37.500 0.26 0.00 41.00 3.18
3737 7744 5.148651 AGTGTAATGACCACTACCAGAAC 57.851 43.478 0.00 0.00 41.24 3.01
3840 7873 3.441505 TCCTTGGGCCCTAAGGTATAA 57.558 47.619 33.93 21.70 44.06 0.98
4141 8180 6.476243 TGTAAAATCGGAACTAAACAGCTC 57.524 37.500 0.00 0.00 0.00 4.09
4706 8897 5.721960 AGTTGGAGCTCTAGGTCAATTTAGA 59.278 40.000 14.64 0.00 43.82 2.10
4970 9249 2.671888 CAGTACTACGAGCGAAGAGACA 59.328 50.000 0.00 0.00 0.00 3.41
4986 9272 6.204359 CAATGAATTTCCTATGCTGCAGTAC 58.796 40.000 16.64 0.00 0.00 2.73
5919 10405 4.043310 TCAGGGAATCTGACTTTGACCATT 59.957 41.667 0.00 0.00 46.71 3.16
5942 10428 5.856455 CGAATTGAAGTCAAAATACGCCTTT 59.144 36.000 0.00 0.00 39.55 3.11
5981 10481 5.063880 GGAGTTTGTGACAGTGGAAATACT 58.936 41.667 0.00 0.00 0.00 2.12
5982 10482 4.819630 TGGAGTTTGTGACAGTGGAAATAC 59.180 41.667 0.00 0.00 0.00 1.89
5991 10493 5.977129 GGTGTAAATTTGGAGTTTGTGACAG 59.023 40.000 0.00 0.00 0.00 3.51
6091 10607 7.439655 GGTTTTGTGGCTTATAAACATTTCACA 59.560 33.333 0.00 0.00 33.33 3.58
6093 10609 7.731054 AGGTTTTGTGGCTTATAAACATTTCA 58.269 30.769 0.00 0.00 33.33 2.69
6101 10617 8.871629 TTGAAGATAGGTTTTGTGGCTTATAA 57.128 30.769 0.00 0.00 0.00 0.98
6186 10704 6.432162 CCATATGCAGCCATATAGTGAAACTT 59.568 38.462 0.00 0.00 42.91 2.66
6221 10739 3.517100 CTGAGAGGACATTTGAGGAAGGA 59.483 47.826 0.00 0.00 0.00 3.36
6315 11146 4.530857 GGAGCATGGACCCGACCG 62.531 72.222 0.00 0.00 0.00 4.79
6316 11147 3.083997 AGGAGCATGGACCCGACC 61.084 66.667 0.00 0.00 0.00 4.79
6317 11148 2.187946 CAGGAGCATGGACCCGAC 59.812 66.667 0.00 0.00 0.00 4.79
6318 11149 3.083349 CCAGGAGCATGGACCCGA 61.083 66.667 0.00 0.00 43.57 5.14
6319 11150 4.181010 CCCAGGAGCATGGACCCG 62.181 72.222 2.22 0.00 43.57 5.28
6320 11151 4.512914 GCCCAGGAGCATGGACCC 62.513 72.222 2.22 0.00 43.57 4.46
6352 11279 2.401699 CTTGGACTGCACTGGGCTGA 62.402 60.000 16.01 0.00 43.53 4.26


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

AutoCloner maintained by Alex Coulton.