Multiple sequence alignment - TraesCS2B01G161500

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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 TraesCS2B01G161500 chr2B 100.000 4841 0 0 1 4841 134514347 134509507 0.000000e+00 8940
1 TraesCS2B01G161500 chr2B 82.502 2366 358 35 884 3215 134550922 134548579 0.000000e+00 2025
2 TraesCS2B01G161500 chr2B 77.192 2315 434 50 942 3206 134603357 134601087 0.000000e+00 1264
3 TraesCS2B01G161500 chr2B 79.934 1221 217 18 1650 2863 134569512 134568313 0.000000e+00 872
4 TraesCS2B01G161500 chr2B 88.773 481 49 4 3370 3848 134600950 134600473 6.980000e-163 584
5 TraesCS2B01G161500 chr2B 87.891 479 57 1 3368 3846 134554988 134554511 3.270000e-156 562
6 TraesCS2B01G161500 chr2B 89.121 239 18 6 4556 4793 134546990 134546759 1.700000e-74 291
7 TraesCS2B01G161500 chr2B 96.341 164 6 0 4394 4557 794046732 794046569 2.220000e-68 270
8 TraesCS2B01G161500 chr2B 74.926 339 67 12 1198 1523 134479912 134479579 6.530000e-29 139
9 TraesCS2B01G161500 chr2A 96.975 2975 88 2 875 3848 83203129 83200156 0.000000e+00 4994
10 TraesCS2B01G161500 chr2A 82.427 3016 453 50 888 3848 83422738 83419745 0.000000e+00 2562
11 TraesCS2B01G161500 chr2A 82.394 2999 447 52 888 3847 83587720 83584764 0.000000e+00 2538
12 TraesCS2B01G161500 chr2A 80.935 2953 458 64 957 3848 83642460 83639552 0.000000e+00 2237
13 TraesCS2B01G161500 chr2A 82.471 2339 365 29 888 3190 83430345 83428016 0.000000e+00 2006
14 TraesCS2B01G161500 chr2A 88.305 838 78 9 4 838 83203954 83203134 0.000000e+00 987
15 TraesCS2B01G161500 chr2A 86.492 533 70 2 3316 3848 83426665 83426135 6.980000e-163 584
16 TraesCS2B01G161500 chr2A 87.917 480 57 1 3368 3847 83440050 83439572 9.100000e-157 564
17 TraesCS2B01G161500 chr2A 84.201 557 44 14 3883 4402 83200158 83199609 7.230000e-138 501
18 TraesCS2B01G161500 chr2A 83.171 410 31 14 3883 4261 83419747 83419345 1.670000e-89 340
19 TraesCS2B01G161500 chr2A 88.710 62 6 1 4558 4619 83638936 83638876 1.870000e-09 75
20 TraesCS2B01G161500 chr2D 82.736 3012 413 59 888 3847 82875022 82872066 0.000000e+00 2582
21 TraesCS2B01G161500 chr2D 81.703 2995 431 58 902 3847 82656577 82653651 0.000000e+00 2386
22 TraesCS2B01G161500 chr2D 82.914 2306 324 40 888 3153 82837379 82835104 0.000000e+00 2012
23 TraesCS2B01G161500 chr2D 82.114 2365 370 31 884 3215 82648283 82645939 0.000000e+00 1975
24 TraesCS2B01G161500 chr2D 78.653 2970 500 79 953 3848 82894265 82891356 0.000000e+00 1849
25 TraesCS2B01G161500 chr2D 84.577 402 31 9 3886 4264 82645215 82644822 2.130000e-98 370
26 TraesCS2B01G161500 chr2D 79.298 570 57 27 4267 4794 82644779 82644229 4.640000e-90 342
27 TraesCS2B01G161500 chr2D 78.226 496 82 25 281 765 327865168 327865648 1.320000e-75 294
28 TraesCS2B01G161500 chr7A 83.636 495 69 9 281 765 29614887 29615379 5.710000e-124 455
29 TraesCS2B01G161500 chr3A 83.265 490 72 10 282 765 742597675 742598160 4.450000e-120 442
30 TraesCS2B01G161500 chr3B 82.342 521 77 13 281 793 245252782 245252269 5.750000e-119 438
31 TraesCS2B01G161500 chr3B 95.266 169 8 0 4390 4558 796889848 796890016 7.990000e-68 268
32 TraesCS2B01G161500 chr3B 94.253 174 10 0 4394 4567 702834894 702835067 2.870000e-67 267
33 TraesCS2B01G161500 chr5A 80.550 509 81 14 272 767 466068797 466068294 4.570000e-100 375
34 TraesCS2B01G161500 chr5D 79.834 481 85 12 293 765 532694527 532695003 1.670000e-89 340
35 TraesCS2B01G161500 chr5B 78.468 483 89 15 293 765 672808347 672808824 7.870000e-78 302
36 TraesCS2B01G161500 chr5B 95.732 164 7 0 4394 4557 163251454 163251617 1.030000e-66 265
37 TraesCS2B01G161500 chr4D 77.932 503 77 29 280 765 149076432 149075947 2.850000e-72 283
38 TraesCS2B01G161500 chr6B 95.808 167 7 0 4391 4557 567476497 567476663 2.220000e-68 270
39 TraesCS2B01G161500 chr6B 95.122 164 8 0 4394 4557 33088511 33088348 4.810000e-65 259
40 TraesCS2B01G161500 chr1B 95.732 164 7 0 4394 4557 520095763 520095600 1.030000e-66 265
41 TraesCS2B01G161500 chr7B 94.578 166 9 0 4394 4559 34678211 34678046 1.730000e-64 257
42 TraesCS2B01G161500 chr7B 93.605 172 9 2 4393 4564 640233104 640232935 6.220000e-64 255


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 TraesCS2B01G161500 chr2B 134509507 134514347 4840 True 8940.000000 8940 100.000000 1 4841 1 chr2B.!!$R2 4840
1 TraesCS2B01G161500 chr2B 134546759 134554988 8229 True 959.333333 2025 86.504667 884 4793 3 chr2B.!!$R5 3909
2 TraesCS2B01G161500 chr2B 134600473 134603357 2884 True 924.000000 1264 82.982500 942 3848 2 chr2B.!!$R6 2906
3 TraesCS2B01G161500 chr2B 134568313 134569512 1199 True 872.000000 872 79.934000 1650 2863 1 chr2B.!!$R3 1213
4 TraesCS2B01G161500 chr2A 83584764 83587720 2956 True 2538.000000 2538 82.394000 888 3847 1 chr2A.!!$R2 2959
5 TraesCS2B01G161500 chr2A 83199609 83203954 4345 True 2160.666667 4994 89.827000 4 4402 3 chr2A.!!$R3 4398
6 TraesCS2B01G161500 chr2A 83419345 83430345 11000 True 1373.000000 2562 83.640250 888 4261 4 chr2A.!!$R4 3373
7 TraesCS2B01G161500 chr2A 83638876 83642460 3584 True 1156.000000 2237 84.822500 957 4619 2 chr2A.!!$R5 3662
8 TraesCS2B01G161500 chr2D 82872066 82875022 2956 True 2582.000000 2582 82.736000 888 3847 1 chr2D.!!$R3 2959
9 TraesCS2B01G161500 chr2D 82653651 82656577 2926 True 2386.000000 2386 81.703000 902 3847 1 chr2D.!!$R1 2945
10 TraesCS2B01G161500 chr2D 82835104 82837379 2275 True 2012.000000 2012 82.914000 888 3153 1 chr2D.!!$R2 2265
11 TraesCS2B01G161500 chr2D 82891356 82894265 2909 True 1849.000000 1849 78.653000 953 3848 1 chr2D.!!$R4 2895
12 TraesCS2B01G161500 chr2D 82644229 82648283 4054 True 895.666667 1975 81.996333 884 4794 3 chr2D.!!$R5 3910
13 TraesCS2B01G161500 chr3B 245252269 245252782 513 True 438.000000 438 82.342000 281 793 1 chr3B.!!$R1 512
14 TraesCS2B01G161500 chr5A 466068294 466068797 503 True 375.000000 375 80.550000 272 767 1 chr5A.!!$R1 495

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
82 83 0.044855 AGGCCACCTTCCACCTCTAT 59.955 55.000 5.01 0.0 0.00 1.98 F
128 129 0.390492 TGATCATGCTCACGGCCTAG 59.610 55.000 0.00 0.0 40.92 3.02 F
270 271 1.337387 GCAGACCTACTACCGATGGTC 59.663 57.143 0.00 0.0 46.67 4.02 F
1748 5032 0.447801 CTCTACATTGTTGCCGCCAC 59.552 55.000 0.00 0.0 0.00 5.01 F
2363 5651 2.810852 CAAGAGAGGAGCCAACAACTTC 59.189 50.000 0.00 0.0 0.00 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1261 4461 0.544833 AGGATTGCAACCATTGGGCA 60.545 50.000 16.93 5.06 37.90 5.36 R
1672 4956 1.742268 GAGAGATGGCTCAAGGTTTGC 59.258 52.381 0.00 0.00 43.81 3.68 R
2151 5439 0.611896 GTTGCACTGCCCCAGGTATT 60.612 55.000 0.00 0.00 35.51 1.89 R
3690 14829 1.278985 AGTGCTTCCATCATCCGACAA 59.721 47.619 0.00 0.00 0.00 3.18 R
3864 15003 0.040058 TACTCCCCCAGCGACAAGTA 59.960 55.000 0.00 0.00 0.00 2.24 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
36 37 1.502231 CTATCGGTTGCCCATCTTCG 58.498 55.000 0.00 0.00 0.00 3.79
37 38 1.068588 CTATCGGTTGCCCATCTTCGA 59.931 52.381 0.00 0.00 0.00 3.71
56 57 1.546476 GATGAGGACTTCGTGGAGTGT 59.454 52.381 0.00 0.00 0.00 3.55
60 61 1.069090 GACTTCGTGGAGTGTGGCA 59.931 57.895 0.00 0.00 0.00 4.92
64 65 2.994387 TTCGTGGAGTGTGGCAGCAG 62.994 60.000 0.00 0.00 0.00 4.24
66 67 4.648626 TGGAGTGTGGCAGCAGGC 62.649 66.667 0.00 0.00 43.74 4.85
78 79 3.971702 GCAGGCCACCTTCCACCT 61.972 66.667 5.01 0.00 0.00 4.00
82 83 0.044855 AGGCCACCTTCCACCTCTAT 59.955 55.000 5.01 0.00 0.00 1.98
87 88 1.137086 CACCTTCCACCTCTATCACCG 59.863 57.143 0.00 0.00 0.00 4.94
121 122 3.132160 CCTCATCAGTGATCATGCTCAC 58.868 50.000 19.64 19.64 44.78 3.51
128 129 0.390492 TGATCATGCTCACGGCCTAG 59.610 55.000 0.00 0.00 40.92 3.02
141 142 2.009774 CGGCCTAGTGTGATTTGGAAG 58.990 52.381 0.00 0.00 0.00 3.46
142 143 2.615493 CGGCCTAGTGTGATTTGGAAGT 60.615 50.000 0.00 0.00 0.00 3.01
146 147 4.641396 CCTAGTGTGATTTGGAAGTGACA 58.359 43.478 0.00 0.00 0.00 3.58
147 148 4.692625 CCTAGTGTGATTTGGAAGTGACAG 59.307 45.833 0.00 0.00 0.00 3.51
148 149 4.422073 AGTGTGATTTGGAAGTGACAGA 57.578 40.909 0.00 0.00 0.00 3.41
149 150 4.780815 AGTGTGATTTGGAAGTGACAGAA 58.219 39.130 0.00 0.00 0.00 3.02
150 151 5.192927 AGTGTGATTTGGAAGTGACAGAAA 58.807 37.500 0.00 0.00 0.00 2.52
151 152 5.829924 AGTGTGATTTGGAAGTGACAGAAAT 59.170 36.000 0.00 0.00 0.00 2.17
200 201 2.788030 GCTCGCTAGCCTAATCGATAC 58.212 52.381 9.66 0.00 43.40 2.24
222 223 6.119144 ACGATTAAAATTGAGGGACAATCG 57.881 37.500 11.08 11.08 46.90 3.34
246 247 1.736681 GCAGAAACAGGATCAGAGTGC 59.263 52.381 0.00 0.00 0.00 4.40
248 249 2.027377 CAGAAACAGGATCAGAGTGCCT 60.027 50.000 0.00 0.00 0.00 4.75
255 256 1.367659 GATCAGAGTGCCTTGCAGAC 58.632 55.000 0.00 0.00 40.08 3.51
270 271 1.337387 GCAGACCTACTACCGATGGTC 59.663 57.143 0.00 0.00 46.67 4.02
293 300 5.135533 TCCCTAGTGATGGTGTCCTAGATTA 59.864 44.000 0.00 0.00 33.26 1.75
298 305 2.489528 TGGTGTCCTAGATTAGGGGG 57.510 55.000 2.49 0.00 46.24 5.40
371 378 3.091545 ACTAAAGAATGGGCCACACATG 58.908 45.455 9.28 0.00 0.00 3.21
447 454 5.112220 TCAAGGCATATTTGAATGATCGC 57.888 39.130 0.00 0.00 31.98 4.58
449 456 5.242171 TCAAGGCATATTTGAATGATCGCAT 59.758 36.000 0.00 0.00 35.92 4.73
450 457 5.055642 AGGCATATTTGAATGATCGCATG 57.944 39.130 0.00 0.00 34.26 4.06
470 481 5.927115 GCATGTTATCCCTAGTAGTAACTGC 59.073 44.000 9.38 11.09 36.36 4.40
527 538 3.132467 ACAAGGCGAGGGATTTAGTCTAC 59.868 47.826 0.00 0.00 0.00 2.59
536 547 3.451178 GGGATTTAGTCTACAGAGGCACA 59.549 47.826 0.00 0.00 0.00 4.57
544 555 4.127171 GTCTACAGAGGCACACTTTCAAA 58.873 43.478 0.00 0.00 0.00 2.69
570 582 8.554490 ACTAAGAGGTTACAACTCATCCATAT 57.446 34.615 0.00 0.00 37.43 1.78
694 707 7.616542 GGGTAAAAATATGTCCCCTTTACTTCA 59.383 37.037 0.00 0.00 34.42 3.02
794 807 5.411781 CCTTAGGAGTGTACTGTTGTGATC 58.588 45.833 0.00 0.00 0.00 2.92
799 812 2.972713 AGTGTACTGTTGTGATCTGGGT 59.027 45.455 0.00 0.00 0.00 4.51
803 816 4.345547 TGTACTGTTGTGATCTGGGTTGTA 59.654 41.667 0.00 0.00 0.00 2.41
834 847 5.476945 CCTTGGGCTTGTACATAACTCTTTT 59.523 40.000 0.00 0.00 0.00 2.27
838 851 6.430000 TGGGCTTGTACATAACTCTTTTCTTC 59.570 38.462 0.00 0.00 0.00 2.87
841 854 9.384764 GGCTTGTACATAACTCTTTTCTTCTAT 57.615 33.333 0.00 0.00 0.00 1.98
848 861 9.624373 ACATAACTCTTTTCTTCTATCATGCAT 57.376 29.630 0.00 0.00 0.00 3.96
851 864 8.571461 AACTCTTTTCTTCTATCATGCATCAA 57.429 30.769 0.00 0.00 0.00 2.57
852 865 8.211116 ACTCTTTTCTTCTATCATGCATCAAG 57.789 34.615 0.00 0.00 0.00 3.02
853 866 8.045507 ACTCTTTTCTTCTATCATGCATCAAGA 58.954 33.333 0.00 0.00 0.00 3.02
854 867 8.206325 TCTTTTCTTCTATCATGCATCAAGAC 57.794 34.615 0.00 0.00 0.00 3.01
856 869 7.549615 TTTCTTCTATCATGCATCAAGACAG 57.450 36.000 0.00 0.00 0.00 3.51
857 870 5.608449 TCTTCTATCATGCATCAAGACAGG 58.392 41.667 0.00 0.00 0.00 4.00
858 871 4.347360 TCTATCATGCATCAAGACAGGG 57.653 45.455 0.00 0.00 0.00 4.45
859 872 3.969312 TCTATCATGCATCAAGACAGGGA 59.031 43.478 0.00 0.00 0.00 4.20
860 873 3.878237 ATCATGCATCAAGACAGGGAT 57.122 42.857 0.00 0.00 0.00 3.85
861 874 3.657398 TCATGCATCAAGACAGGGATT 57.343 42.857 0.00 0.00 0.00 3.01
862 875 3.972133 TCATGCATCAAGACAGGGATTT 58.028 40.909 0.00 0.00 0.00 2.17
864 877 4.773674 TCATGCATCAAGACAGGGATTTTT 59.226 37.500 0.00 0.00 0.00 1.94
960 4149 4.039004 TGCTTTGTTCATTGTATGTTGCCT 59.961 37.500 0.00 0.00 0.00 4.75
1074 4268 2.303890 TGCTTTCAGATCTCTTGGCTCA 59.696 45.455 0.00 0.00 0.00 4.26
1261 4461 1.873903 GCGGTGCGATCTCATTATGGT 60.874 52.381 0.00 0.00 0.00 3.55
1369 4599 2.069273 CCTACTGCACAGTGTACTTGC 58.931 52.381 13.50 0.00 42.52 4.01
1383 4613 7.094805 ACAGTGTACTTGCTAATATTTGTGGTG 60.095 37.037 0.00 0.00 0.00 4.17
1477 4710 4.675510 CAAAATAGCACTTTGGCATCGAT 58.324 39.130 0.00 0.00 35.83 3.59
1495 4728 4.744570 TCGATTTATTCTGAACTCGTGCT 58.255 39.130 0.00 0.00 0.00 4.40
1517 4750 3.051327 TGTTTGCTGCGTCAATGATTTG 58.949 40.909 0.00 0.00 0.00 2.32
1635 4889 1.571919 CAGTGTGGCGCCTTATAGTC 58.428 55.000 29.70 10.72 0.00 2.59
1748 5032 0.447801 CTCTACATTGTTGCCGCCAC 59.552 55.000 0.00 0.00 0.00 5.01
2046 5330 4.081087 ACCACTTACACAAAGACAGTGACT 60.081 41.667 0.00 0.00 40.16 3.41
2151 5439 5.488341 GCTGATAACCTTAGAGTTGTCCAA 58.512 41.667 7.45 0.00 37.14 3.53
2363 5651 2.810852 CAAGAGAGGAGCCAACAACTTC 59.189 50.000 0.00 0.00 0.00 3.01
2441 5729 3.565307 CATCTGTTCTAGAGGAGGAGCT 58.435 50.000 0.00 0.00 39.53 4.09
2472 5760 3.640967 GCCAGGATCTTCTCTCTGTACAT 59.359 47.826 0.00 0.00 0.00 2.29
2672 5960 6.147985 GCAAGACTTTCAAGTACTAAAGGGAG 59.852 42.308 18.14 9.10 39.88 4.30
3023 13941 8.387813 AGGGTACATGTTTATCAAGGAACTAAA 58.612 33.333 2.30 0.00 38.49 1.85
3153 14071 4.228438 TCCTACATTCTGAGAGAGGTGAGA 59.772 45.833 2.94 0.00 0.00 3.27
3540 14679 3.027412 ACGAGAACTAGAGCATGGTCAT 58.973 45.455 25.71 13.55 0.00 3.06
3541 14680 3.181482 ACGAGAACTAGAGCATGGTCATG 60.181 47.826 25.71 18.82 41.60 3.07
3690 14829 8.375493 TGGTCTATACTACCTGTTTCAAGAAT 57.625 34.615 0.00 0.00 37.91 2.40
3848 14987 3.580458 CTGATGGGCCATTAGTAGCTACT 59.420 47.826 28.50 28.50 40.24 2.57
3849 14988 3.578716 TGATGGGCCATTAGTAGCTACTC 59.421 47.826 29.28 14.61 37.73 2.59
3850 14989 2.326428 TGGGCCATTAGTAGCTACTCC 58.674 52.381 29.28 22.11 37.73 3.85
3851 14990 1.624312 GGGCCATTAGTAGCTACTCCC 59.376 57.143 29.28 26.44 37.73 4.30
3852 14991 2.610873 GGCCATTAGTAGCTACTCCCT 58.389 52.381 29.28 12.64 37.73 4.20
3853 14992 2.563620 GGCCATTAGTAGCTACTCCCTC 59.436 54.545 29.28 15.15 37.73 4.30
3854 14993 3.502356 GCCATTAGTAGCTACTCCCTCT 58.498 50.000 29.28 7.97 37.73 3.69
3855 14994 4.508763 GGCCATTAGTAGCTACTCCCTCTA 60.509 50.000 29.28 8.70 37.73 2.43
3856 14995 5.265989 GCCATTAGTAGCTACTCCCTCTAT 58.734 45.833 29.28 11.53 37.73 1.98
3857 14996 6.424883 GCCATTAGTAGCTACTCCCTCTATA 58.575 44.000 29.28 7.15 37.73 1.31
3858 14997 6.319405 GCCATTAGTAGCTACTCCCTCTATAC 59.681 46.154 29.28 8.24 37.73 1.47
3859 14998 6.829811 CCATTAGTAGCTACTCCCTCTATACC 59.170 46.154 29.28 0.00 37.73 2.73
3860 14999 7.403671 CATTAGTAGCTACTCCCTCTATACCA 58.596 42.308 29.28 5.08 37.73 3.25
3861 15000 5.245584 AGTAGCTACTCCCTCTATACCAC 57.754 47.826 20.95 0.00 0.00 4.16
3862 15001 4.664064 AGTAGCTACTCCCTCTATACCACA 59.336 45.833 20.95 0.00 0.00 4.17
3863 15002 4.537945 AGCTACTCCCTCTATACCACAA 57.462 45.455 0.00 0.00 0.00 3.33
3864 15003 5.081315 AGCTACTCCCTCTATACCACAAT 57.919 43.478 0.00 0.00 0.00 2.71
3865 15004 6.215515 AGCTACTCCCTCTATACCACAATA 57.784 41.667 0.00 0.00 0.00 1.90
3866 15005 6.011481 AGCTACTCCCTCTATACCACAATAC 58.989 44.000 0.00 0.00 0.00 1.89
3867 15006 6.011481 GCTACTCCCTCTATACCACAATACT 58.989 44.000 0.00 0.00 0.00 2.12
3868 15007 6.494146 GCTACTCCCTCTATACCACAATACTT 59.506 42.308 0.00 0.00 0.00 2.24
3869 15008 6.732896 ACTCCCTCTATACCACAATACTTG 57.267 41.667 0.00 0.00 0.00 3.16
3870 15009 6.203072 ACTCCCTCTATACCACAATACTTGT 58.797 40.000 0.00 0.00 46.75 3.16
3871 15010 6.324254 ACTCCCTCTATACCACAATACTTGTC 59.676 42.308 0.00 0.00 43.23 3.18
3872 15011 5.301045 TCCCTCTATACCACAATACTTGTCG 59.699 44.000 0.00 0.00 43.23 4.35
3873 15012 4.982916 CCTCTATACCACAATACTTGTCGC 59.017 45.833 0.00 0.00 43.23 5.19
3874 15013 5.221263 CCTCTATACCACAATACTTGTCGCT 60.221 44.000 0.00 0.00 43.23 4.93
3875 15014 5.588240 TCTATACCACAATACTTGTCGCTG 58.412 41.667 0.00 0.00 43.23 5.18
3876 15015 1.808411 ACCACAATACTTGTCGCTGG 58.192 50.000 0.00 0.00 43.23 4.85
3877 15016 1.086696 CCACAATACTTGTCGCTGGG 58.913 55.000 0.00 0.00 43.23 4.45
3878 15017 1.086696 CACAATACTTGTCGCTGGGG 58.913 55.000 0.00 0.00 43.23 4.96
3879 15018 0.035439 ACAATACTTGTCGCTGGGGG 60.035 55.000 0.00 0.00 40.56 5.40
3880 15019 0.251916 CAATACTTGTCGCTGGGGGA 59.748 55.000 0.00 0.00 0.00 4.81
3881 15020 0.541863 AATACTTGTCGCTGGGGGAG 59.458 55.000 0.00 0.00 0.00 4.30
3995 15153 5.657745 TGGTGAGTTATTCATTGCAATCCAT 59.342 36.000 9.53 7.02 38.29 3.41
4100 15328 8.963725 AGATGATGAATCTGCTTTGTGATTAAA 58.036 29.630 0.00 0.00 44.36 1.52
4101 15329 9.577110 GATGATGAATCTGCTTTGTGATTAAAA 57.423 29.630 0.00 0.00 33.60 1.52
4103 15331 9.932207 TGATGAATCTGCTTTGTGATTAAAATT 57.068 25.926 0.00 0.00 33.60 1.82
4147 15375 1.317613 GTGCATTGTCAGGGTGTGAA 58.682 50.000 0.00 0.00 36.74 3.18
4232 15476 5.897377 AGTAAATGGTGTGGTAATTGAGC 57.103 39.130 0.00 0.00 0.00 4.26
4265 15509 2.183679 ACCACTTCAGTCCAGATCCTC 58.816 52.381 0.00 0.00 0.00 3.71
4370 16096 6.090763 GCATGCTAAAATTTGTGGTTTACTCC 59.909 38.462 11.37 0.00 0.00 3.85
4406 16151 0.460722 GCTTCCTACTCCCTCCGTTC 59.539 60.000 0.00 0.00 0.00 3.95
4423 16168 7.201705 CCCTCCGTTCCTAAATATTTGTCTTTC 60.202 40.741 11.05 0.00 0.00 2.62
4427 16172 8.827677 CCGTTCCTAAATATTTGTCTTTCTAGG 58.172 37.037 11.05 6.95 0.00 3.02
4440 16185 7.496346 TGTCTTTCTAGGGATATCAACAAGT 57.504 36.000 4.83 0.00 0.00 3.16
4441 16186 7.331026 TGTCTTTCTAGGGATATCAACAAGTG 58.669 38.462 4.83 0.00 0.00 3.16
4442 16187 7.180229 TGTCTTTCTAGGGATATCAACAAGTGA 59.820 37.037 4.83 0.00 41.67 3.41
4443 16188 7.492994 GTCTTTCTAGGGATATCAACAAGTGAC 59.507 40.741 4.83 0.76 39.72 3.67
4444 16189 7.400339 TCTTTCTAGGGATATCAACAAGTGACT 59.600 37.037 4.83 0.00 39.72 3.41
4445 16190 8.603898 TTTCTAGGGATATCAACAAGTGACTA 57.396 34.615 4.83 0.00 39.72 2.59
4446 16191 7.584122 TCTAGGGATATCAACAAGTGACTAC 57.416 40.000 4.83 0.00 39.72 2.73
4447 16192 7.123383 TCTAGGGATATCAACAAGTGACTACA 58.877 38.462 4.83 0.00 39.72 2.74
4448 16193 6.814954 AGGGATATCAACAAGTGACTACAT 57.185 37.500 4.83 0.00 39.72 2.29
4449 16194 7.914427 AGGGATATCAACAAGTGACTACATA 57.086 36.000 4.83 0.00 39.72 2.29
4450 16195 7.727181 AGGGATATCAACAAGTGACTACATAC 58.273 38.462 4.83 0.00 39.72 2.39
4451 16196 6.641314 GGGATATCAACAAGTGACTACATACG 59.359 42.308 4.83 0.00 39.72 3.06
4452 16197 7.423199 GGATATCAACAAGTGACTACATACGA 58.577 38.462 4.83 0.00 39.72 3.43
4453 16198 7.919091 GGATATCAACAAGTGACTACATACGAA 59.081 37.037 4.83 0.00 39.72 3.85
4454 16199 8.858003 ATATCAACAAGTGACTACATACGAAG 57.142 34.615 0.00 0.00 39.72 3.79
4455 16200 4.921515 TCAACAAGTGACTACATACGAAGC 59.078 41.667 0.00 0.00 0.00 3.86
4456 16201 4.514781 ACAAGTGACTACATACGAAGCA 57.485 40.909 0.00 0.00 0.00 3.91
4458 16203 5.294356 ACAAGTGACTACATACGAAGCAAA 58.706 37.500 0.00 0.00 0.00 3.68
4461 16206 6.408858 AGTGACTACATACGAAGCAAAATG 57.591 37.500 0.00 0.00 0.00 2.32
4462 16207 6.163476 AGTGACTACATACGAAGCAAAATGA 58.837 36.000 0.00 0.00 0.00 2.57
4463 16208 6.311445 AGTGACTACATACGAAGCAAAATGAG 59.689 38.462 0.00 0.00 0.00 2.90
4465 16210 6.090763 TGACTACATACGAAGCAAAATGAGTG 59.909 38.462 0.00 0.00 0.00 3.51
4466 16211 6.163476 ACTACATACGAAGCAAAATGAGTGA 58.837 36.000 0.00 0.00 0.00 3.41
4469 16214 6.546395 ACATACGAAGCAAAATGAGTGAATC 58.454 36.000 0.00 0.00 0.00 2.52
4470 16215 6.149308 ACATACGAAGCAAAATGAGTGAATCA 59.851 34.615 0.00 0.00 43.70 2.57
4471 16216 5.437289 ACGAAGCAAAATGAGTGAATCAA 57.563 34.783 0.00 0.00 42.53 2.57
4472 16217 5.215160 ACGAAGCAAAATGAGTGAATCAAC 58.785 37.500 0.00 0.00 42.53 3.18
4473 16218 5.214417 CGAAGCAAAATGAGTGAATCAACA 58.786 37.500 0.00 0.00 42.53 3.33
4474 16219 5.116074 CGAAGCAAAATGAGTGAATCAACAC 59.884 40.000 0.00 0.00 42.53 3.32
4475 16220 5.518848 AGCAAAATGAGTGAATCAACACA 57.481 34.783 0.00 0.00 42.53 3.72
4476 16221 5.904941 AGCAAAATGAGTGAATCAACACAA 58.095 33.333 0.00 0.00 42.53 3.33
4477 16222 6.518493 AGCAAAATGAGTGAATCAACACAAT 58.482 32.000 0.00 0.00 42.53 2.71
4478 16223 7.660112 AGCAAAATGAGTGAATCAACACAATA 58.340 30.769 0.00 0.00 42.53 1.90
4480 16225 8.763356 GCAAAATGAGTGAATCAACACAATAAA 58.237 29.630 0.00 0.00 42.53 1.40
4516 16261 5.790593 ACATCCGTATGTAGTCACTTGTTT 58.209 37.500 0.00 0.00 44.66 2.83
4521 16266 8.470040 TCCGTATGTAGTCACTTGTTTAAATC 57.530 34.615 0.00 0.00 0.00 2.17
4603 16348 4.017808 ACACTACAGAGTACCCATCTCAC 58.982 47.826 0.00 0.00 33.32 3.51
4625 16370 2.620115 AGAACCACGAACTGACGAACTA 59.380 45.455 0.00 0.00 37.03 2.24
4627 16372 2.735823 ACCACGAACTGACGAACTAAC 58.264 47.619 0.00 0.00 37.03 2.34
4628 16373 2.099592 ACCACGAACTGACGAACTAACA 59.900 45.455 0.00 0.00 37.03 2.41
4630 16375 3.549423 CCACGAACTGACGAACTAACAGA 60.549 47.826 0.00 0.00 35.85 3.41
4631 16376 3.421231 CACGAACTGACGAACTAACAGAC 59.579 47.826 0.00 0.00 35.85 3.51
4633 16378 3.304525 CGAACTGACGAACTAACAGACCT 60.305 47.826 0.00 0.00 35.85 3.85
4634 16379 4.083643 CGAACTGACGAACTAACAGACCTA 60.084 45.833 0.00 0.00 35.85 3.08
4635 16380 5.391736 CGAACTGACGAACTAACAGACCTAT 60.392 44.000 0.00 0.00 35.85 2.57
4704 16453 3.537874 GGGTCGTCAGATCCCCGG 61.538 72.222 0.00 0.00 41.91 5.73
4705 16454 2.441532 GGTCGTCAGATCCCCGGA 60.442 66.667 0.73 0.00 0.00 5.14
4706 16455 2.491022 GGTCGTCAGATCCCCGGAG 61.491 68.421 0.73 0.00 0.00 4.63
4707 16456 2.833582 TCGTCAGATCCCCGGAGC 60.834 66.667 0.73 0.00 0.00 4.70
4708 16457 2.835431 CGTCAGATCCCCGGAGCT 60.835 66.667 0.73 0.00 42.05 4.09
4709 16458 2.851071 CGTCAGATCCCCGGAGCTC 61.851 68.421 0.73 4.71 39.00 4.09
4769 16519 6.250711 AGACAAAAAGGGGATTATTAACCGT 58.749 36.000 0.00 0.00 0.00 4.83
4794 16544 2.281070 AAGGCGAGTGCACCTGTG 60.281 61.111 14.63 1.77 45.35 3.66
4795 16545 2.715532 GAAGGCGAGTGCACCTGTGA 62.716 60.000 14.63 0.00 45.35 3.58
4796 16546 2.996168 AAGGCGAGTGCACCTGTGAC 62.996 60.000 14.63 2.79 45.35 3.67
4797 16547 3.044305 GCGAGTGCACCTGTGACC 61.044 66.667 14.63 0.00 42.15 4.02
4798 16548 2.737180 CGAGTGCACCTGTGACCT 59.263 61.111 14.63 0.00 0.00 3.85
4799 16549 1.665916 CGAGTGCACCTGTGACCTG 60.666 63.158 14.63 0.00 0.00 4.00
4800 16550 1.447643 GAGTGCACCTGTGACCTGT 59.552 57.895 14.63 0.00 0.00 4.00
4801 16551 0.601311 GAGTGCACCTGTGACCTGTC 60.601 60.000 14.63 0.00 0.00 3.51
4802 16552 1.956170 GTGCACCTGTGACCTGTCG 60.956 63.158 5.22 0.00 0.00 4.35
4803 16553 2.131067 TGCACCTGTGACCTGTCGA 61.131 57.895 0.51 0.00 0.00 4.20
4804 16554 1.069090 GCACCTGTGACCTGTCGAA 59.931 57.895 0.51 0.00 0.00 3.71
4805 16555 0.320771 GCACCTGTGACCTGTCGAAT 60.321 55.000 0.51 0.00 0.00 3.34
4806 16556 1.878102 GCACCTGTGACCTGTCGAATT 60.878 52.381 0.51 0.00 0.00 2.17
4807 16557 2.611971 GCACCTGTGACCTGTCGAATTA 60.612 50.000 0.51 0.00 0.00 1.40
4808 16558 3.861840 CACCTGTGACCTGTCGAATTAT 58.138 45.455 0.00 0.00 0.00 1.28
4809 16559 4.679639 GCACCTGTGACCTGTCGAATTATA 60.680 45.833 0.51 0.00 0.00 0.98
4810 16560 5.416083 CACCTGTGACCTGTCGAATTATAA 58.584 41.667 0.00 0.00 0.00 0.98
4811 16561 5.291128 CACCTGTGACCTGTCGAATTATAAC 59.709 44.000 0.00 0.00 0.00 1.89
4812 16562 4.503007 CCTGTGACCTGTCGAATTATAACG 59.497 45.833 0.00 0.00 0.00 3.18
4813 16563 4.426416 TGTGACCTGTCGAATTATAACGG 58.574 43.478 0.00 0.00 0.00 4.44
4814 16564 3.244579 GTGACCTGTCGAATTATAACGGC 59.755 47.826 0.00 0.00 34.64 5.68
4815 16565 3.131577 TGACCTGTCGAATTATAACGGCT 59.868 43.478 2.38 0.00 35.13 5.52
4816 16566 3.714391 ACCTGTCGAATTATAACGGCTC 58.286 45.455 2.38 0.00 35.13 4.70
4817 16567 3.057734 CCTGTCGAATTATAACGGCTCC 58.942 50.000 2.38 0.00 35.13 4.70
4818 16568 3.491964 CCTGTCGAATTATAACGGCTCCA 60.492 47.826 2.38 0.00 35.13 3.86
4819 16569 4.116961 CTGTCGAATTATAACGGCTCCAA 58.883 43.478 2.38 0.00 35.13 3.53
4820 16570 4.505808 TGTCGAATTATAACGGCTCCAAA 58.494 39.130 2.38 0.00 35.13 3.28
4821 16571 4.569162 TGTCGAATTATAACGGCTCCAAAG 59.431 41.667 2.38 0.00 35.13 2.77
4830 16580 2.032681 GCTCCAAAGCTGGGACGT 59.967 61.111 3.31 0.00 45.55 4.34
4831 16581 2.328099 GCTCCAAAGCTGGGACGTG 61.328 63.158 0.00 0.00 45.55 4.49
4832 16582 1.371183 CTCCAAAGCTGGGACGTGA 59.629 57.895 0.00 0.00 43.71 4.35
4833 16583 0.951040 CTCCAAAGCTGGGACGTGAC 60.951 60.000 0.00 0.00 43.71 3.67
4834 16584 1.966451 CCAAAGCTGGGACGTGACC 60.966 63.158 0.00 0.00 39.30 4.02
4835 16585 1.071471 CAAAGCTGGGACGTGACCT 59.929 57.895 0.00 0.00 0.00 3.85
4836 16586 0.951040 CAAAGCTGGGACGTGACCTC 60.951 60.000 0.00 0.00 0.00 3.85
4837 16587 2.113243 AAAGCTGGGACGTGACCTCC 62.113 60.000 0.00 0.00 0.00 4.30
4838 16588 3.311110 GCTGGGACGTGACCTCCA 61.311 66.667 0.00 0.00 0.00 3.86
4839 16589 2.657237 CTGGGACGTGACCTCCAC 59.343 66.667 0.00 0.00 42.30 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
36 37 1.546476 ACACTCCACGAAGTCCTCATC 59.454 52.381 0.00 0.00 41.61 2.92
37 38 1.273606 CACACTCCACGAAGTCCTCAT 59.726 52.381 0.00 0.00 41.61 2.90
60 61 3.971702 GGTGGAAGGTGGCCTGCT 61.972 66.667 3.32 0.00 32.13 4.24
64 65 0.470341 GATAGAGGTGGAAGGTGGCC 59.530 60.000 0.00 0.00 0.00 5.36
66 67 1.486726 GGTGATAGAGGTGGAAGGTGG 59.513 57.143 0.00 0.00 0.00 4.61
67 68 1.137086 CGGTGATAGAGGTGGAAGGTG 59.863 57.143 0.00 0.00 0.00 4.00
69 70 1.137086 CACGGTGATAGAGGTGGAAGG 59.863 57.143 0.74 0.00 0.00 3.46
70 71 2.099921 CTCACGGTGATAGAGGTGGAAG 59.900 54.545 11.86 0.00 0.00 3.46
78 79 2.291346 TGACTTCCCTCACGGTGATAGA 60.291 50.000 11.86 8.59 0.00 1.98
82 83 1.469335 GGTGACTTCCCTCACGGTGA 61.469 60.000 10.88 10.88 41.43 4.02
93 94 4.462508 TGATCACTGATGAGGTGACTTC 57.537 45.455 0.00 0.00 44.82 3.01
97 98 2.770232 AGCATGATCACTGATGAGGTGA 59.230 45.455 0.00 0.00 45.84 4.02
121 122 2.009774 CTTCCAAATCACACTAGGCCG 58.990 52.381 0.00 0.00 0.00 6.13
128 129 5.499139 TTTCTGTCACTTCCAAATCACAC 57.501 39.130 0.00 0.00 0.00 3.82
141 142 6.846283 CGTCAAAGACAACTAATTTCTGTCAC 59.154 38.462 13.53 5.38 41.58 3.67
142 143 6.511121 GCGTCAAAGACAACTAATTTCTGTCA 60.511 38.462 13.53 0.00 41.58 3.58
146 147 4.084013 CGGCGTCAAAGACAACTAATTTCT 60.084 41.667 0.00 0.00 32.09 2.52
147 148 4.084223 TCGGCGTCAAAGACAACTAATTTC 60.084 41.667 6.85 0.00 32.09 2.17
148 149 3.810941 TCGGCGTCAAAGACAACTAATTT 59.189 39.130 6.85 0.00 32.09 1.82
149 150 3.395639 TCGGCGTCAAAGACAACTAATT 58.604 40.909 6.85 0.00 32.09 1.40
150 151 2.993899 CTCGGCGTCAAAGACAACTAAT 59.006 45.455 6.85 0.00 32.09 1.73
151 152 2.400399 CTCGGCGTCAAAGACAACTAA 58.600 47.619 6.85 0.00 32.09 2.24
195 196 6.838198 TGTCCCTCAATTTTAATCGTATCG 57.162 37.500 0.00 0.00 0.00 2.92
200 201 5.965334 CACGATTGTCCCTCAATTTTAATCG 59.035 40.000 12.98 12.98 45.49 3.34
215 216 1.197721 CTGTTTCTGCCCACGATTGTC 59.802 52.381 0.00 0.00 0.00 3.18
222 223 1.003580 TCTGATCCTGTTTCTGCCCAC 59.996 52.381 0.00 0.00 0.00 4.61
246 247 1.471119 TCGGTAGTAGGTCTGCAAGG 58.529 55.000 0.00 0.00 0.00 3.61
248 249 1.754803 CCATCGGTAGTAGGTCTGCAA 59.245 52.381 0.00 0.00 0.00 4.08
255 256 2.107901 ACTAGGGACCATCGGTAGTAGG 59.892 54.545 0.00 0.00 35.25 3.18
270 271 3.314307 TCTAGGACACCATCACTAGGG 57.686 52.381 0.00 0.00 32.86 3.53
371 378 0.828343 AGTATGTCGAGGGCTAGGGC 60.828 60.000 0.00 0.00 37.82 5.19
376 383 2.145397 TCTTGAGTATGTCGAGGGCT 57.855 50.000 0.00 0.00 37.30 5.19
447 454 6.041637 TGGCAGTTACTACTAGGGATAACATG 59.958 42.308 12.21 0.00 31.96 3.21
449 456 5.521696 TGGCAGTTACTACTAGGGATAACA 58.478 41.667 12.21 0.00 31.96 2.41
450 457 6.667558 ATGGCAGTTACTACTAGGGATAAC 57.332 41.667 0.00 0.00 31.96 1.89
470 481 8.759782 CAAGGGTATCTAGGGTTATAAGTATGG 58.240 40.741 0.00 0.00 0.00 2.74
510 521 3.004944 CCTCTGTAGACTAAATCCCTCGC 59.995 52.174 0.00 0.00 0.00 5.03
517 528 5.746990 AAGTGTGCCTCTGTAGACTAAAT 57.253 39.130 0.00 0.00 30.48 1.40
527 538 5.296780 TCTTAGTTTTGAAAGTGTGCCTCTG 59.703 40.000 0.00 0.00 0.00 3.35
536 547 8.803397 AGTTGTAACCTCTTAGTTTTGAAAGT 57.197 30.769 0.00 0.00 0.00 2.66
544 555 6.681729 TGGATGAGTTGTAACCTCTTAGTT 57.318 37.500 0.00 0.00 0.00 2.24
597 610 6.584471 TGTATTTATTGTGGATGGGGTACT 57.416 37.500 0.00 0.00 0.00 2.73
647 660 3.075005 TTCGGGCCCTCTCGAAGG 61.075 66.667 22.43 0.54 45.77 3.46
794 807 2.162681 CAAGGAAAGGCTACAACCCAG 58.837 52.381 0.00 0.00 0.00 4.45
799 812 3.356814 GCCCAAGGAAAGGCTACAA 57.643 52.632 0.00 0.00 46.14 2.41
834 847 5.454329 CCCTGTCTTGATGCATGATAGAAGA 60.454 44.000 2.46 0.83 31.79 2.87
838 851 4.347360 TCCCTGTCTTGATGCATGATAG 57.653 45.455 2.46 2.95 30.63 2.08
841 854 3.657398 AATCCCTGTCTTGATGCATGA 57.343 42.857 2.46 0.00 0.00 3.07
842 855 4.730949 AAAATCCCTGTCTTGATGCATG 57.269 40.909 2.46 0.00 0.00 4.06
1243 4443 1.532868 GCACCATAATGAGATCGCACC 59.467 52.381 0.00 0.00 0.00 5.01
1261 4461 0.544833 AGGATTGCAACCATTGGGCA 60.545 50.000 16.93 5.06 37.90 5.36
1369 4599 4.526970 AGGAGCACCACCACAAATATTAG 58.473 43.478 2.07 0.00 38.94 1.73
1383 4613 2.898705 CTGATTGTGAGTAGGAGCACC 58.101 52.381 0.00 0.00 34.19 5.01
1477 4710 6.198687 CAAACAAGCACGAGTTCAGAATAAA 58.801 36.000 0.00 0.00 0.00 1.40
1495 4728 3.367992 AATCATTGACGCAGCAAACAA 57.632 38.095 0.00 0.00 0.00 2.83
1517 4750 3.297472 GCAAGGTTAAAGCTTCGAACAC 58.703 45.455 20.04 12.37 32.99 3.32
1635 4889 3.503827 TGCTTGTAGTCCTGTCGTATG 57.496 47.619 0.00 0.00 0.00 2.39
1672 4956 1.742268 GAGAGATGGCTCAAGGTTTGC 59.258 52.381 0.00 0.00 43.81 3.68
1748 5032 6.770746 AGATGAATGAAAACATCTCAAGGG 57.229 37.500 0.00 0.00 46.59 3.95
2151 5439 0.611896 GTTGCACTGCCCCAGGTATT 60.612 55.000 0.00 0.00 35.51 1.89
2363 5651 1.000717 GGGTGTTTTGTTCGTCCATGG 60.001 52.381 4.97 4.97 0.00 3.66
2441 5729 1.416401 GAAGATCCTGGCCGGTCAATA 59.584 52.381 11.40 0.16 0.00 1.90
2472 5760 4.039488 AGCTTTTGAAGAATGAACATGCCA 59.961 37.500 0.00 0.00 0.00 4.92
2672 5960 4.024387 TCTGACGCAAAGTTACACCAAATC 60.024 41.667 0.00 0.00 0.00 2.17
3023 13941 8.758829 TGTACTTGTCACTATGGATCATAAGTT 58.241 33.333 0.00 0.00 0.00 2.66
3153 14071 5.299279 GCACATGTAGCTTATATTTGTGGGT 59.701 40.000 0.00 0.00 34.91 4.51
3540 14679 8.999895 AGCCTCTTTATAAACCTATCCTTAACA 58.000 33.333 0.00 0.00 0.00 2.41
3541 14680 9.848710 AAGCCTCTTTATAAACCTATCCTTAAC 57.151 33.333 0.00 0.00 0.00 2.01
3690 14829 1.278985 AGTGCTTCCATCATCCGACAA 59.721 47.619 0.00 0.00 0.00 3.18
3862 15001 0.541863 CTCCCCCAGCGACAAGTATT 59.458 55.000 0.00 0.00 0.00 1.89
3863 15002 0.617820 ACTCCCCCAGCGACAAGTAT 60.618 55.000 0.00 0.00 0.00 2.12
3864 15003 0.040058 TACTCCCCCAGCGACAAGTA 59.960 55.000 0.00 0.00 0.00 2.24
3865 15004 1.229082 TACTCCCCCAGCGACAAGT 60.229 57.895 0.00 0.00 0.00 3.16
3866 15005 1.218316 GTACTCCCCCAGCGACAAG 59.782 63.158 0.00 0.00 0.00 3.16
3867 15006 2.642254 CGTACTCCCCCAGCGACAA 61.642 63.158 0.00 0.00 0.00 3.18
3868 15007 3.066190 CGTACTCCCCCAGCGACA 61.066 66.667 0.00 0.00 0.00 4.35
3869 15008 2.753043 TCGTACTCCCCCAGCGAC 60.753 66.667 0.00 0.00 0.00 5.19
3870 15009 2.439701 CTCGTACTCCCCCAGCGA 60.440 66.667 0.00 0.00 0.00 4.93
3871 15010 3.528370 CCTCGTACTCCCCCAGCG 61.528 72.222 0.00 0.00 0.00 5.18
3872 15011 3.851128 GCCTCGTACTCCCCCAGC 61.851 72.222 0.00 0.00 0.00 4.85
3873 15012 1.749334 GATGCCTCGTACTCCCCCAG 61.749 65.000 0.00 0.00 0.00 4.45
3874 15013 1.760875 GATGCCTCGTACTCCCCCA 60.761 63.158 0.00 0.00 0.00 4.96
3875 15014 1.749334 CTGATGCCTCGTACTCCCCC 61.749 65.000 0.00 0.00 0.00 5.40
3876 15015 0.755698 TCTGATGCCTCGTACTCCCC 60.756 60.000 0.00 0.00 0.00 4.81
3877 15016 1.067821 CTTCTGATGCCTCGTACTCCC 59.932 57.143 0.00 0.00 0.00 4.30
3878 15017 1.751924 ACTTCTGATGCCTCGTACTCC 59.248 52.381 0.00 0.00 0.00 3.85
3879 15018 2.164624 ACACTTCTGATGCCTCGTACTC 59.835 50.000 0.00 0.00 0.00 2.59
3880 15019 2.164624 GACACTTCTGATGCCTCGTACT 59.835 50.000 0.00 0.00 0.00 2.73
3881 15020 2.094700 TGACACTTCTGATGCCTCGTAC 60.095 50.000 0.00 0.00 0.00 3.67
4105 15333 9.740239 GCACAACTATCATGACATTTCATATTT 57.260 29.630 0.00 0.00 40.79 1.40
4122 15350 3.084039 CACCCTGACAATGCACAACTAT 58.916 45.455 0.00 0.00 0.00 2.12
4147 15375 2.146342 CGATGAGTTGGTGTTGAAGCT 58.854 47.619 0.00 0.00 0.00 3.74
4196 15429 4.518970 ACCATTTACTAGTGCCAAACAGTG 59.481 41.667 5.39 0.00 32.79 3.66
4198 15431 4.518970 ACACCATTTACTAGTGCCAAACAG 59.481 41.667 5.39 0.00 34.83 3.16
4232 15476 0.532862 AAGTGGTTGCCTCGTGAGTG 60.533 55.000 0.00 0.00 0.00 3.51
4265 15509 5.124457 CCATGACTAAAGTGGATGGTTCTTG 59.876 44.000 0.00 0.00 34.94 3.02
4325 16036 3.000727 GCTACTACATGGTGCGTTCTTT 58.999 45.455 0.00 0.00 0.00 2.52
4370 16096 5.604565 AGGAAGCAGAAAATTTCAGGTTTG 58.395 37.500 14.85 2.94 37.08 2.93
4376 16103 5.010282 GGGAGTAGGAAGCAGAAAATTTCA 58.990 41.667 8.55 0.00 0.00 2.69
4381 16115 2.572104 GGAGGGAGTAGGAAGCAGAAAA 59.428 50.000 0.00 0.00 0.00 2.29
4423 16168 7.348080 TGTAGTCACTTGTTGATATCCCTAG 57.652 40.000 0.00 0.39 36.32 3.02
4427 16172 7.423199 TCGTATGTAGTCACTTGTTGATATCC 58.577 38.462 0.00 0.00 36.32 2.59
4431 16176 5.577164 GCTTCGTATGTAGTCACTTGTTGAT 59.423 40.000 0.00 0.00 36.32 2.57
4436 16181 5.839262 TTTGCTTCGTATGTAGTCACTTG 57.161 39.130 0.00 0.00 0.00 3.16
4437 16182 6.649141 TCATTTTGCTTCGTATGTAGTCACTT 59.351 34.615 0.00 0.00 0.00 3.16
4438 16183 6.163476 TCATTTTGCTTCGTATGTAGTCACT 58.837 36.000 0.00 0.00 0.00 3.41
4440 16185 6.090763 CACTCATTTTGCTTCGTATGTAGTCA 59.909 38.462 0.00 0.00 0.00 3.41
4441 16186 6.310467 TCACTCATTTTGCTTCGTATGTAGTC 59.690 38.462 0.00 0.00 0.00 2.59
4442 16187 6.163476 TCACTCATTTTGCTTCGTATGTAGT 58.837 36.000 0.00 0.00 0.00 2.73
4443 16188 6.647212 TCACTCATTTTGCTTCGTATGTAG 57.353 37.500 0.00 0.00 0.00 2.74
4444 16189 7.333174 TGATTCACTCATTTTGCTTCGTATGTA 59.667 33.333 0.00 0.00 0.00 2.29
4445 16190 5.940192 TTCACTCATTTTGCTTCGTATGT 57.060 34.783 0.00 0.00 0.00 2.29
4446 16191 6.545508 TGATTCACTCATTTTGCTTCGTATG 58.454 36.000 0.00 0.00 0.00 2.39
4447 16192 6.741992 TGATTCACTCATTTTGCTTCGTAT 57.258 33.333 0.00 0.00 0.00 3.06
4448 16193 6.017523 TGTTGATTCACTCATTTTGCTTCGTA 60.018 34.615 0.00 0.00 32.72 3.43
4449 16194 5.215160 GTTGATTCACTCATTTTGCTTCGT 58.785 37.500 0.00 0.00 32.72 3.85
4450 16195 5.116074 GTGTTGATTCACTCATTTTGCTTCG 59.884 40.000 0.00 0.00 35.68 3.79
4451 16196 5.978919 TGTGTTGATTCACTCATTTTGCTTC 59.021 36.000 0.00 0.00 38.90 3.86
4452 16197 5.904941 TGTGTTGATTCACTCATTTTGCTT 58.095 33.333 0.00 0.00 38.90 3.91
4453 16198 5.518848 TGTGTTGATTCACTCATTTTGCT 57.481 34.783 0.00 0.00 38.90 3.91
4454 16199 6.774354 ATTGTGTTGATTCACTCATTTTGC 57.226 33.333 0.00 0.00 38.90 3.68
4483 16228 9.901172 TGACTACATACGGATGTATATAGACAT 57.099 33.333 20.64 12.70 45.42 3.06
4484 16229 9.159364 GTGACTACATACGGATGTATATAGACA 57.841 37.037 20.64 13.92 45.42 3.41
4485 16230 9.381033 AGTGACTACATACGGATGTATATAGAC 57.619 37.037 20.64 11.59 45.42 2.59
4486 16231 9.955102 AAGTGACTACATACGGATGTATATAGA 57.045 33.333 20.64 0.00 45.42 1.98
4487 16232 9.989869 CAAGTGACTACATACGGATGTATATAG 57.010 37.037 20.64 13.28 45.42 1.31
4491 16236 6.710597 ACAAGTGACTACATACGGATGTAT 57.289 37.500 20.64 11.04 45.42 2.29
4494 16239 7.821595 TTAAACAAGTGACTACATACGGATG 57.178 36.000 5.94 5.94 39.16 3.51
4495 16240 9.095065 GATTTAAACAAGTGACTACATACGGAT 57.905 33.333 0.00 0.00 0.00 4.18
4521 16266 9.291664 CGTTCCTAAATACTTGTCTTTCTAGAG 57.708 37.037 0.00 0.00 0.00 2.43
4535 16280 5.136105 TCTACTCCCTCCGTTCCTAAATAC 58.864 45.833 0.00 0.00 0.00 1.89
4539 16284 3.203710 TGATCTACTCCCTCCGTTCCTAA 59.796 47.826 0.00 0.00 0.00 2.69
4540 16285 2.781757 TGATCTACTCCCTCCGTTCCTA 59.218 50.000 0.00 0.00 0.00 2.94
4541 16286 1.569548 TGATCTACTCCCTCCGTTCCT 59.430 52.381 0.00 0.00 0.00 3.36
4542 16287 1.957877 CTGATCTACTCCCTCCGTTCC 59.042 57.143 0.00 0.00 0.00 3.62
4543 16288 2.933573 TCTGATCTACTCCCTCCGTTC 58.066 52.381 0.00 0.00 0.00 3.95
4544 16289 3.383698 TTCTGATCTACTCCCTCCGTT 57.616 47.619 0.00 0.00 0.00 4.44
4545 16290 3.383698 TTTCTGATCTACTCCCTCCGT 57.616 47.619 0.00 0.00 0.00 4.69
4546 16291 4.502259 CCAATTTCTGATCTACTCCCTCCG 60.502 50.000 0.00 0.00 0.00 4.63
4603 16348 1.521423 GTTCGTCAGTTCGTGGTTCTG 59.479 52.381 0.00 0.00 0.00 3.02
4647 16396 7.412020 GCGCTAACTATTCTCAAATATGGCTAC 60.412 40.741 0.00 0.00 0.00 3.58
4664 16413 1.550130 AAGTGGCCTGGCGCTAACTA 61.550 55.000 13.40 0.00 34.53 2.24
4727 16476 2.031163 CCGATTGATCTCCGGCCC 59.969 66.667 0.00 0.00 36.62 5.80
4769 16519 3.064987 GCACTCGCCTTCTCGCCTA 62.065 63.158 0.00 0.00 0.00 3.93
4794 16544 3.714391 AGCCGTTATAATTCGACAGGTC 58.286 45.455 0.00 0.00 0.00 3.85
4795 16545 3.492137 GGAGCCGTTATAATTCGACAGGT 60.492 47.826 0.00 0.00 0.00 4.00
4796 16546 3.057734 GGAGCCGTTATAATTCGACAGG 58.942 50.000 0.00 0.00 0.00 4.00
4797 16547 3.713288 TGGAGCCGTTATAATTCGACAG 58.287 45.455 0.00 0.00 0.00 3.51
4798 16548 3.804786 TGGAGCCGTTATAATTCGACA 57.195 42.857 0.00 0.00 0.00 4.35
4799 16549 4.552184 GCTTTGGAGCCGTTATAATTCGAC 60.552 45.833 0.00 0.00 43.29 4.20
4800 16550 3.558418 GCTTTGGAGCCGTTATAATTCGA 59.442 43.478 0.00 0.00 43.29 3.71
4801 16551 3.873529 GCTTTGGAGCCGTTATAATTCG 58.126 45.455 0.00 0.00 43.29 3.34
4814 16564 0.951040 GTCACGTCCCAGCTTTGGAG 60.951 60.000 1.86 0.72 30.98 3.86
4815 16565 1.070786 GTCACGTCCCAGCTTTGGA 59.929 57.895 0.00 0.00 0.00 3.53
4816 16566 1.966451 GGTCACGTCCCAGCTTTGG 60.966 63.158 0.00 0.00 0.00 3.28
4817 16567 0.951040 GAGGTCACGTCCCAGCTTTG 60.951 60.000 3.75 0.00 0.00 2.77
4818 16568 1.371558 GAGGTCACGTCCCAGCTTT 59.628 57.895 3.75 0.00 0.00 3.51
4819 16569 2.584391 GGAGGTCACGTCCCAGCTT 61.584 63.158 5.09 0.00 32.87 3.74
4820 16570 2.997897 GGAGGTCACGTCCCAGCT 60.998 66.667 5.09 0.00 32.87 4.24
4821 16571 3.311110 TGGAGGTCACGTCCCAGC 61.311 66.667 14.07 0.00 37.59 4.85
4822 16572 2.657237 GTGGAGGTCACGTCCCAG 59.343 66.667 14.07 0.00 37.59 4.45


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

AutoCloner maintained by Alex Coulton.