Multiple sequence alignment - TraesCS5A01G443200

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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 TraesCS5A01G443200 chr5A 100.000 6836 0 0 1 6836 623486134 623492969 0.000000e+00 12624
1 TraesCS5A01G443200 chr5A 95.000 3020 122 11 1 3008 623470125 623473127 0.000000e+00 4713
2 TraesCS5A01G443200 chr5A 95.749 2423 85 6 3342 5751 623473264 623475681 0.000000e+00 3888
3 TraesCS5A01G443200 chr5A 81.442 749 105 24 3173 3902 691994582 691993849 3.550000e-162 582
4 TraesCS5A01G443200 chr5A 94.245 139 6 1 3169 3305 623473126 623473264 1.930000e-50 211
5 TraesCS5A01G443200 chr5A 96.875 96 3 0 3169 3264 623323977 623324072 1.970000e-35 161
6 TraesCS5A01G443200 chr5B 94.875 3649 140 18 3169 6783 619851065 619854700 0.000000e+00 5659
7 TraesCS5A01G443200 chr5B 93.903 2985 157 17 8 2989 619217173 619220135 0.000000e+00 4481
8 TraesCS5A01G443200 chr5B 94.085 1640 82 6 1 1639 619224843 619226468 0.000000e+00 2477
9 TraesCS5A01G443200 chr5B 93.963 1640 84 6 1 1639 619166307 619167932 0.000000e+00 2466
10 TraesCS5A01G443200 chr5B 91.210 1752 122 9 4021 5751 619592328 619594068 0.000000e+00 2353
11 TraesCS5A01G443200 chr5B 90.166 1749 145 16 1264 3008 619062691 619064416 0.000000e+00 2252
12 TraesCS5A01G443200 chr5B 90.663 1660 151 4 1351 3008 619849409 619851066 0.000000e+00 2204
13 TraesCS5A01G443200 chr5B 89.519 1746 163 12 1264 3008 619037693 619039419 0.000000e+00 2193
14 TraesCS5A01G443200 chr5B 89.474 1748 164 13 1264 3008 619064566 619066296 0.000000e+00 2191
15 TraesCS5A01G443200 chr5B 93.933 1434 59 10 1 1428 619463427 619464838 0.000000e+00 2141
16 TraesCS5A01G443200 chr5B 89.897 1653 151 13 1360 3008 619060901 619062541 0.000000e+00 2113
17 TraesCS5A01G443200 chr5B 91.989 1498 110 8 3388 4879 619610168 619611661 0.000000e+00 2093
18 TraesCS5A01G443200 chr5B 93.475 1272 67 8 8 1278 619163481 619164737 0.000000e+00 1875
19 TraesCS5A01G443200 chr5B 92.588 850 46 8 4876 5712 619762685 619763530 0.000000e+00 1205
20 TraesCS5A01G443200 chr5B 91.038 636 40 2 3388 4023 619550092 619550710 0.000000e+00 843
21 TraesCS5A01G443200 chr5B 96.697 333 11 0 3263 3595 619220813 619221145 7.750000e-154 555
22 TraesCS5A01G443200 chr5B 93.443 183 10 2 3003 3184 123428085 123427904 3.140000e-68 270
23 TraesCS5A01G443200 chr5D 94.566 3644 139 30 3169 6783 499222474 499226087 0.000000e+00 5578
24 TraesCS5A01G443200 chr5D 94.020 3010 156 14 1 3008 499051341 499054328 0.000000e+00 4540
25 TraesCS5A01G443200 chr5D 94.974 2845 122 10 1 2843 499057017 499059842 0.000000e+00 4442
26 TraesCS5A01G443200 chr5D 95.406 2329 89 7 682 3008 499092244 499094556 0.000000e+00 3692
27 TraesCS5A01G443200 chr5D 92.205 1270 74 14 1 1261 499218289 499219542 0.000000e+00 1773
28 TraesCS5A01G443200 chr5D 93.364 1070 36 10 4696 5751 499108814 499109862 0.000000e+00 1550
29 TraesCS5A01G443200 chr5D 90.222 900 70 9 366 1261 499030408 499031293 0.000000e+00 1158
30 TraesCS5A01G443200 chr5D 90.504 674 59 3 4033 4701 499095099 499095772 0.000000e+00 885
31 TraesCS5A01G443200 chr5D 96.096 333 13 0 3263 3595 499054973 499055305 1.680000e-150 544
32 TraesCS5A01G443200 chr5D 97.872 235 5 0 3169 3403 499094555 499094789 2.300000e-109 407
33 TraesCS5A01G443200 chr5D 97.938 97 1 1 3169 3264 499054327 499054423 4.240000e-37 167
34 TraesCS5A01G443200 chr7B 82.473 2208 275 64 3186 5309 711456669 711454490 0.000000e+00 1831
35 TraesCS5A01G443200 chr7B 78.274 336 42 19 5452 5775 711454310 711453994 3.260000e-43 187
36 TraesCS5A01G443200 chr7D 82.026 2231 282 71 3174 5306 617090830 617088621 0.000000e+00 1788
37 TraesCS5A01G443200 chr7D 90.977 133 12 0 5643 5775 617088096 617087964 5.450000e-41 180
38 TraesCS5A01G443200 chr7A 81.672 2237 293 65 3174 5320 709968643 709966434 0.000000e+00 1751
39 TraesCS5A01G443200 chr7A 96.988 166 5 0 3006 3171 604387342 604387507 5.220000e-71 279
40 TraesCS5A01G443200 chr7A 80.498 241 28 10 5551 5775 709966042 709965805 4.240000e-37 167
41 TraesCS5A01G443200 chr4B 90.590 627 45 3 4924 5538 286459589 286460213 0.000000e+00 819
42 TraesCS5A01G443200 chrUn 97.576 165 4 0 3006 3170 115400893 115400729 4.040000e-72 283
43 TraesCS5A01G443200 chr4D 97.576 165 4 0 3007 3171 357312003 357312167 4.040000e-72 283
44 TraesCS5A01G443200 chr1D 97.006 167 5 0 3004 3170 360358221 360358387 1.450000e-71 281
45 TraesCS5A01G443200 chr2D 94.086 186 7 4 2993 3175 426427787 426427971 5.220000e-71 279
46 TraesCS5A01G443200 chr2D 93.989 183 10 1 3002 3184 428669393 428669574 6.750000e-70 276
47 TraesCS5A01G443200 chr2D 94.350 177 10 0 3003 3179 13523259 13523083 8.740000e-69 272
48 TraesCS5A01G443200 chr3A 95.429 175 7 1 3001 3174 585329508 585329334 1.880000e-70 278


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 TraesCS5A01G443200 chr5A 623486134 623492969 6835 False 12624.000000 12624 100.000000 1 6836 1 chr5A.!!$F2 6835
1 TraesCS5A01G443200 chr5A 623470125 623475681 5556 False 2937.333333 4713 94.998000 1 5751 3 chr5A.!!$F3 5750
2 TraesCS5A01G443200 chr5A 691993849 691994582 733 True 582.000000 582 81.442000 3173 3902 1 chr5A.!!$R1 729
3 TraesCS5A01G443200 chr5B 619849409 619854700 5291 False 3931.500000 5659 92.769000 1351 6783 2 chr5B.!!$F10 5432
4 TraesCS5A01G443200 chr5B 619217173 619226468 9295 False 2504.333333 4481 94.895000 1 3595 3 chr5B.!!$F9 3594
5 TraesCS5A01G443200 chr5B 619592328 619594068 1740 False 2353.000000 2353 91.210000 4021 5751 1 chr5B.!!$F4 1730
6 TraesCS5A01G443200 chr5B 619037693 619039419 1726 False 2193.000000 2193 89.519000 1264 3008 1 chr5B.!!$F1 1744
7 TraesCS5A01G443200 chr5B 619060901 619066296 5395 False 2185.333333 2252 89.845667 1264 3008 3 chr5B.!!$F7 1744
8 TraesCS5A01G443200 chr5B 619163481 619167932 4451 False 2170.500000 2466 93.719000 1 1639 2 chr5B.!!$F8 1638
9 TraesCS5A01G443200 chr5B 619463427 619464838 1411 False 2141.000000 2141 93.933000 1 1428 1 chr5B.!!$F2 1427
10 TraesCS5A01G443200 chr5B 619610168 619611661 1493 False 2093.000000 2093 91.989000 3388 4879 1 chr5B.!!$F5 1491
11 TraesCS5A01G443200 chr5B 619762685 619763530 845 False 1205.000000 1205 92.588000 4876 5712 1 chr5B.!!$F6 836
12 TraesCS5A01G443200 chr5B 619550092 619550710 618 False 843.000000 843 91.038000 3388 4023 1 chr5B.!!$F3 635
13 TraesCS5A01G443200 chr5D 499218289 499226087 7798 False 3675.500000 5578 93.385500 1 6783 2 chr5D.!!$F5 6782
14 TraesCS5A01G443200 chr5D 499051341 499059842 8501 False 2423.250000 4540 95.757000 1 3595 4 chr5D.!!$F3 3594
15 TraesCS5A01G443200 chr5D 499092244 499095772 3528 False 1661.333333 3692 94.594000 682 4701 3 chr5D.!!$F4 4019
16 TraesCS5A01G443200 chr5D 499108814 499109862 1048 False 1550.000000 1550 93.364000 4696 5751 1 chr5D.!!$F2 1055
17 TraesCS5A01G443200 chr5D 499030408 499031293 885 False 1158.000000 1158 90.222000 366 1261 1 chr5D.!!$F1 895
18 TraesCS5A01G443200 chr7B 711453994 711456669 2675 True 1009.000000 1831 80.373500 3186 5775 2 chr7B.!!$R1 2589
19 TraesCS5A01G443200 chr7D 617087964 617090830 2866 True 984.000000 1788 86.501500 3174 5775 2 chr7D.!!$R1 2601
20 TraesCS5A01G443200 chr7A 709965805 709968643 2838 True 959.000000 1751 81.085000 3174 5775 2 chr7A.!!$R1 2601
21 TraesCS5A01G443200 chr4B 286459589 286460213 624 False 819.000000 819 90.590000 4924 5538 1 chr4B.!!$F1 614

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
277 285 0.534203 TCTTGCTTTCGGTGGTGGTC 60.534 55.000 0.00 0.00 0.00 4.02 F
379 387 2.093306 TTGCGTTCACCATGTCTAGG 57.907 50.000 0.00 0.00 0.00 3.02 F
955 3800 2.221169 TGCATTCAGTTCTTTCAGCGT 58.779 42.857 0.00 0.00 0.00 5.07 F
1811 6631 3.075884 CCAATTGCAAAAATGACCCCAG 58.924 45.455 1.71 0.00 0.00 4.45 F
2437 7265 2.092429 CCAGTTGGAAGCTATTAGGGCA 60.092 50.000 0.00 0.00 37.39 5.36 F
3127 9868 2.823747 TGCTCCGTATGTAGTCACTTGT 59.176 45.455 0.00 0.00 0.00 3.16 F
4175 11817 3.073798 TGTGCATCTTTTCTCAGGGGTTA 59.926 43.478 0.00 0.00 0.00 2.85 F
5520 18274 2.589014 CAAGAGCAATTGCCTCGTTTC 58.411 47.619 26.45 15.92 43.38 2.78 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1981 6802 0.035458 CCTCGCCAACTTCAACCTCT 59.965 55.000 0.00 0.00 0.00 3.69 R
2150 6971 2.282462 GACTGCCCCACCAACAGG 60.282 66.667 0.00 0.00 35.70 4.00 R
2437 7265 0.255318 CCTCTGCATTGGCCTTCTCT 59.745 55.000 3.32 0.00 40.13 3.10 R
3337 10633 2.099431 GCTTGAGAGCTCCAGTGCG 61.099 63.158 10.93 0.00 45.65 5.34 R
4432 12226 2.770164 ACCTAGGAACATGCAGACAC 57.230 50.000 17.98 0.00 0.00 3.67 R
4912 17188 0.403655 TTGGGATGTGCTTGCACCTA 59.596 50.000 21.01 5.82 0.00 3.08 R
5574 18332 1.002033 GCAGATCCGATTCATGGCAAC 60.002 52.381 0.00 0.00 0.00 4.17 R
6801 19591 0.319383 CTCCCGAGATGAGGCATTCG 60.319 60.000 0.00 0.00 0.00 3.34 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
139 144 3.924144 TGCATAGTTTGAATTTGGGTGC 58.076 40.909 0.00 0.00 0.00 5.01
140 145 2.923020 GCATAGTTTGAATTTGGGTGCG 59.077 45.455 0.00 0.00 0.00 5.34
263 271 1.242076 ATGTTGTGCAGGAGTCTTGC 58.758 50.000 19.67 19.67 0.00 4.01
277 285 0.534203 TCTTGCTTTCGGTGGTGGTC 60.534 55.000 0.00 0.00 0.00 4.02
379 387 2.093306 TTGCGTTCACCATGTCTAGG 57.907 50.000 0.00 0.00 0.00 3.02
551 559 6.769134 TTATGTCGAACTCTCCACATTCTA 57.231 37.500 0.00 0.00 31.83 2.10
590 598 7.880160 ATATGTGCTTACCTTGCTATTTTGA 57.120 32.000 0.00 0.00 0.00 2.69
667 675 7.408756 TTGCACTTCTCCATATTAGCAAATT 57.591 32.000 0.00 0.00 37.74 1.82
668 676 8.518430 TTGCACTTCTCCATATTAGCAAATTA 57.482 30.769 0.00 0.00 37.74 1.40
914 3759 6.965607 TGTATGGGATTCATCTGATGCATAT 58.034 36.000 12.78 6.18 37.30 1.78
915 3760 8.093118 TGTATGGGATTCATCTGATGCATATA 57.907 34.615 12.78 9.37 37.30 0.86
916 3761 8.720537 TGTATGGGATTCATCTGATGCATATAT 58.279 33.333 12.78 5.90 37.30 0.86
955 3800 2.221169 TGCATTCAGTTCTTTCAGCGT 58.779 42.857 0.00 0.00 0.00 5.07
1519 6336 6.334202 TGCCATTTTAAAAGAACAAACTCGT 58.666 32.000 6.79 0.00 0.00 4.18
1697 6517 3.583276 ATTCGACGGTGCGCCTTCA 62.583 57.895 21.30 4.55 33.06 3.02
1768 6588 7.521871 AGCAATGAAGAAGAAATCTCAAGTT 57.478 32.000 0.00 0.00 37.42 2.66
1811 6631 3.075884 CCAATTGCAAAAATGACCCCAG 58.924 45.455 1.71 0.00 0.00 4.45
1981 6802 4.831674 TGAAGAAGATGATGCTGAAGGA 57.168 40.909 0.00 0.00 0.00 3.36
2150 6971 9.738832 GTGTTAGAGTTGGAGATCTAAGTATTC 57.261 37.037 0.00 0.00 38.38 1.75
2205 7026 4.517285 TCAGGAGAAGCCATTATGTGTTC 58.483 43.478 0.00 0.00 40.02 3.18
2437 7265 2.092429 CCAGTTGGAAGCTATTAGGGCA 60.092 50.000 0.00 0.00 37.39 5.36
2924 9630 3.756434 GCACTCTGCCTTATGTTTACCAA 59.244 43.478 0.00 0.00 37.42 3.67
2980 9688 3.440522 GCCTGTGATTCCACCTAACTTTC 59.559 47.826 0.00 0.00 42.53 2.62
3011 9752 9.498176 TTTTACACTTGGACTTTAATCTACTCC 57.502 33.333 0.00 0.00 0.00 3.85
3012 9753 6.051179 ACACTTGGACTTTAATCTACTCCC 57.949 41.667 0.00 0.00 0.00 4.30
3013 9754 5.785940 ACACTTGGACTTTAATCTACTCCCT 59.214 40.000 0.00 0.00 0.00 4.20
3014 9755 6.070710 ACACTTGGACTTTAATCTACTCCCTC 60.071 42.308 0.00 0.00 0.00 4.30
3015 9756 5.425862 ACTTGGACTTTAATCTACTCCCTCC 59.574 44.000 0.00 0.00 0.00 4.30
3016 9757 3.958798 TGGACTTTAATCTACTCCCTCCG 59.041 47.826 0.00 0.00 0.00 4.63
3017 9758 3.959449 GGACTTTAATCTACTCCCTCCGT 59.041 47.826 0.00 0.00 0.00 4.69
3018 9759 4.405036 GGACTTTAATCTACTCCCTCCGTT 59.595 45.833 0.00 0.00 0.00 4.44
3019 9760 5.451659 GGACTTTAATCTACTCCCTCCGTTC 60.452 48.000 0.00 0.00 0.00 3.95
3020 9761 4.405036 ACTTTAATCTACTCCCTCCGTTCC 59.595 45.833 0.00 0.00 0.00 3.62
3021 9762 2.850695 AATCTACTCCCTCCGTTCCT 57.149 50.000 0.00 0.00 0.00 3.36
3022 9763 3.967467 AATCTACTCCCTCCGTTCCTA 57.033 47.619 0.00 0.00 0.00 2.94
3023 9764 3.967467 ATCTACTCCCTCCGTTCCTAA 57.033 47.619 0.00 0.00 0.00 2.69
3024 9765 3.744940 TCTACTCCCTCCGTTCCTAAA 57.255 47.619 0.00 0.00 0.00 1.85
3025 9766 4.261411 TCTACTCCCTCCGTTCCTAAAT 57.739 45.455 0.00 0.00 0.00 1.40
3026 9767 5.393068 TCTACTCCCTCCGTTCCTAAATA 57.607 43.478 0.00 0.00 0.00 1.40
3027 9768 5.961897 TCTACTCCCTCCGTTCCTAAATAT 58.038 41.667 0.00 0.00 0.00 1.28
3028 9769 6.379579 TCTACTCCCTCCGTTCCTAAATATT 58.620 40.000 0.00 0.00 0.00 1.28
3029 9770 5.970501 ACTCCCTCCGTTCCTAAATATTT 57.029 39.130 5.89 5.89 0.00 1.40
3030 9771 5.681639 ACTCCCTCCGTTCCTAAATATTTG 58.318 41.667 11.05 1.40 0.00 2.32
3031 9772 5.191124 ACTCCCTCCGTTCCTAAATATTTGT 59.809 40.000 11.05 0.00 0.00 2.83
3032 9773 5.677567 TCCCTCCGTTCCTAAATATTTGTC 58.322 41.667 11.05 0.00 0.00 3.18
3033 9774 5.427481 TCCCTCCGTTCCTAAATATTTGTCT 59.573 40.000 11.05 0.00 0.00 3.41
3034 9775 6.069847 TCCCTCCGTTCCTAAATATTTGTCTT 60.070 38.462 11.05 0.00 0.00 3.01
3035 9776 6.602009 CCCTCCGTTCCTAAATATTTGTCTTT 59.398 38.462 11.05 0.00 0.00 2.52
3036 9777 7.122204 CCCTCCGTTCCTAAATATTTGTCTTTT 59.878 37.037 11.05 0.00 0.00 2.27
3037 9778 8.520351 CCTCCGTTCCTAAATATTTGTCTTTTT 58.480 33.333 11.05 0.00 0.00 1.94
3064 9805 8.836413 AGATATTTCAAATGGTTACCACATACG 58.164 33.333 6.10 0.00 35.80 3.06
3065 9806 5.630661 TTTCAAATGGTTACCACATACGG 57.369 39.130 6.10 0.00 35.80 4.02
3066 9807 4.554960 TCAAATGGTTACCACATACGGA 57.445 40.909 6.10 0.00 35.80 4.69
3067 9808 5.105567 TCAAATGGTTACCACATACGGAT 57.894 39.130 6.10 0.00 35.80 4.18
3068 9809 4.878971 TCAAATGGTTACCACATACGGATG 59.121 41.667 6.10 5.94 35.80 3.51
3070 9811 5.617528 AATGGTTACCACATACGGATGTA 57.382 39.130 14.23 0.00 44.82 2.29
3071 9812 5.818678 ATGGTTACCACATACGGATGTAT 57.181 39.130 14.23 7.46 44.82 2.29
3110 9851 6.734104 AGTGTAGATTCACTCATTTTGCTC 57.266 37.500 0.00 0.00 44.07 4.26
3111 9852 5.645497 AGTGTAGATTCACTCATTTTGCTCC 59.355 40.000 0.00 0.00 44.07 4.70
3112 9853 4.631377 TGTAGATTCACTCATTTTGCTCCG 59.369 41.667 0.00 0.00 0.00 4.63
3113 9854 3.679389 AGATTCACTCATTTTGCTCCGT 58.321 40.909 0.00 0.00 0.00 4.69
3114 9855 4.832248 AGATTCACTCATTTTGCTCCGTA 58.168 39.130 0.00 0.00 0.00 4.02
3115 9856 5.431765 AGATTCACTCATTTTGCTCCGTAT 58.568 37.500 0.00 0.00 0.00 3.06
3116 9857 4.944962 TTCACTCATTTTGCTCCGTATG 57.055 40.909 0.00 0.00 0.00 2.39
3117 9858 3.937814 TCACTCATTTTGCTCCGTATGT 58.062 40.909 0.00 0.00 0.00 2.29
3118 9859 5.079689 TCACTCATTTTGCTCCGTATGTA 57.920 39.130 0.00 0.00 0.00 2.29
3119 9860 5.109210 TCACTCATTTTGCTCCGTATGTAG 58.891 41.667 0.00 0.00 0.00 2.74
3120 9861 4.870426 CACTCATTTTGCTCCGTATGTAGT 59.130 41.667 0.00 0.00 0.00 2.73
3121 9862 5.005779 CACTCATTTTGCTCCGTATGTAGTC 59.994 44.000 0.00 0.00 0.00 2.59
3122 9863 5.079689 TCATTTTGCTCCGTATGTAGTCA 57.920 39.130 0.00 0.00 0.00 3.41
3123 9864 4.868171 TCATTTTGCTCCGTATGTAGTCAC 59.132 41.667 0.00 0.00 0.00 3.67
3124 9865 4.530710 TTTTGCTCCGTATGTAGTCACT 57.469 40.909 0.00 0.00 0.00 3.41
3125 9866 4.530710 TTTGCTCCGTATGTAGTCACTT 57.469 40.909 0.00 0.00 0.00 3.16
3126 9867 3.503827 TGCTCCGTATGTAGTCACTTG 57.496 47.619 0.00 0.00 0.00 3.16
3127 9868 2.823747 TGCTCCGTATGTAGTCACTTGT 59.176 45.455 0.00 0.00 0.00 3.16
3128 9869 3.257375 TGCTCCGTATGTAGTCACTTGTT 59.743 43.478 0.00 0.00 0.00 2.83
3129 9870 3.612860 GCTCCGTATGTAGTCACTTGTTG 59.387 47.826 0.00 0.00 0.00 3.33
3130 9871 4.617530 GCTCCGTATGTAGTCACTTGTTGA 60.618 45.833 0.00 0.00 0.00 3.18
3131 9872 5.456548 TCCGTATGTAGTCACTTGTTGAA 57.543 39.130 0.00 0.00 35.39 2.69
3132 9873 5.845103 TCCGTATGTAGTCACTTGTTGAAA 58.155 37.500 0.00 0.00 35.39 2.69
3133 9874 5.693104 TCCGTATGTAGTCACTTGTTGAAAC 59.307 40.000 0.00 0.00 35.39 2.78
3134 9875 5.107220 CCGTATGTAGTCACTTGTTGAAACC 60.107 44.000 0.00 0.00 35.39 3.27
3135 9876 5.694910 CGTATGTAGTCACTTGTTGAAACCT 59.305 40.000 0.00 0.00 35.39 3.50
3136 9877 6.128902 CGTATGTAGTCACTTGTTGAAACCTC 60.129 42.308 0.00 0.00 35.39 3.85
3137 9878 5.353394 TGTAGTCACTTGTTGAAACCTCT 57.647 39.130 0.00 0.00 35.39 3.69
3138 9879 6.474140 TGTAGTCACTTGTTGAAACCTCTA 57.526 37.500 0.00 0.00 35.39 2.43
3139 9880 6.513180 TGTAGTCACTTGTTGAAACCTCTAG 58.487 40.000 0.00 0.00 35.39 2.43
3140 9881 5.871396 AGTCACTTGTTGAAACCTCTAGA 57.129 39.130 0.00 0.00 35.39 2.43
3141 9882 6.235231 AGTCACTTGTTGAAACCTCTAGAA 57.765 37.500 0.00 0.00 35.39 2.10
3142 9883 6.650120 AGTCACTTGTTGAAACCTCTAGAAA 58.350 36.000 0.00 0.00 35.39 2.52
3143 9884 6.763610 AGTCACTTGTTGAAACCTCTAGAAAG 59.236 38.462 0.00 0.00 35.39 2.62
3144 9885 6.761714 GTCACTTGTTGAAACCTCTAGAAAGA 59.238 38.462 0.00 0.00 35.39 2.52
3145 9886 6.761714 TCACTTGTTGAAACCTCTAGAAAGAC 59.238 38.462 0.00 0.00 0.00 3.01
3146 9887 6.538742 CACTTGTTGAAACCTCTAGAAAGACA 59.461 38.462 0.00 0.00 0.00 3.41
3147 9888 7.065803 CACTTGTTGAAACCTCTAGAAAGACAA 59.934 37.037 0.00 0.00 0.00 3.18
3148 9889 7.610305 ACTTGTTGAAACCTCTAGAAAGACAAA 59.390 33.333 0.00 0.00 0.00 2.83
3149 9890 8.519799 TTGTTGAAACCTCTAGAAAGACAAAT 57.480 30.769 0.00 0.00 0.00 2.32
3150 9891 9.621629 TTGTTGAAACCTCTAGAAAGACAAATA 57.378 29.630 0.00 0.00 0.00 1.40
3151 9892 9.793259 TGTTGAAACCTCTAGAAAGACAAATAT 57.207 29.630 0.00 0.00 0.00 1.28
3164 9905 9.454859 AGAAAGACAAATATTTAGGAACTGAGG 57.545 33.333 0.00 0.00 41.52 3.86
3165 9906 8.581253 AAAGACAAATATTTAGGAACTGAGGG 57.419 34.615 0.00 0.00 41.52 4.30
3166 9907 7.510675 AGACAAATATTTAGGAACTGAGGGA 57.489 36.000 0.00 0.00 41.52 4.20
3167 9908 7.569240 AGACAAATATTTAGGAACTGAGGGAG 58.431 38.462 0.00 0.00 41.52 4.30
4175 11817 3.073798 TGTGCATCTTTTCTCAGGGGTTA 59.926 43.478 0.00 0.00 0.00 2.85
4432 12226 7.812648 TCCTTAACTTCCATATGTTTTCAACG 58.187 34.615 1.24 0.00 0.00 4.10
4901 17177 6.458751 CCACATATCCAAAAAGATGAACGAGG 60.459 42.308 0.00 0.00 0.00 4.63
4912 17188 5.350504 AGATGAACGAGGTGAATCTCATT 57.649 39.130 0.00 0.00 33.59 2.57
4948 17224 3.574074 AAAGCGCCCTGGCTGTGAT 62.574 57.895 2.29 0.00 43.93 3.06
5372 17909 6.152831 TGCTACTGCATAGTGGGTAGTATATG 59.847 42.308 9.50 0.00 45.31 1.78
5520 18274 2.589014 CAAGAGCAATTGCCTCGTTTC 58.411 47.619 26.45 15.92 43.38 2.78
5574 18332 3.441163 CAAATCAGAATCCAATGCACGG 58.559 45.455 0.00 0.00 0.00 4.94
5598 18364 0.873054 CATGAATCGGATCTGCTGCC 59.127 55.000 0.00 0.00 0.00 4.85
5604 18370 0.179065 TCGGATCTGCTGCCATCTTG 60.179 55.000 0.00 0.00 0.00 3.02
5672 18454 1.134098 CCCTGATGGCTACCATTTCGT 60.134 52.381 0.00 0.00 45.26 3.85
5864 18649 4.750598 GGGAACAGTTGACTCTGAAGTTAC 59.249 45.833 0.00 0.00 38.63 2.50
5953 18738 1.839994 TGGAGGGAACATGCTCTTAGG 59.160 52.381 0.00 0.00 0.00 2.69
6146 18931 4.981806 TGTTTCCCAAAGTTGTGAAGAG 57.018 40.909 0.00 0.00 0.00 2.85
6158 18943 9.443283 CAAAGTTGTGAAGAGAAGAAAATACAG 57.557 33.333 0.00 0.00 0.00 2.74
6392 19181 3.624777 AGCAATATGAACCCAACTCTGG 58.375 45.455 0.00 0.00 43.10 3.86
6394 19183 3.629398 GCAATATGAACCCAACTCTGGAG 59.371 47.826 0.00 0.00 46.92 3.86
6483 19273 9.280174 CCCTGTTACTCTGTTAGTTAATTCAAA 57.720 33.333 0.00 0.00 39.80 2.69
6537 19327 8.370182 ACTGAATTTCACAAGCTTTATTTCCAT 58.630 29.630 0.00 0.00 0.00 3.41
6538 19328 8.761575 TGAATTTCACAAGCTTTATTTCCATC 57.238 30.769 0.00 0.00 0.00 3.51
6551 19341 7.982354 GCTTTATTTCCATCACTAGTCAGTAGT 59.018 37.037 0.00 0.00 43.31 2.73
6598 19388 6.928492 GCAACATCTTACAAAATTTCCCTTGA 59.072 34.615 0.00 0.00 0.00 3.02
6717 19507 5.700402 AGCAAACAAGATCCTATACACCT 57.300 39.130 0.00 0.00 0.00 4.00
6729 19519 8.325787 AGATCCTATACACCTCATACAGACTAG 58.674 40.741 0.00 0.00 0.00 2.57
6738 19528 5.044772 ACCTCATACAGACTAGGAAGACTGA 60.045 44.000 10.95 0.00 44.99 3.41
6742 19532 8.367660 TCATACAGACTAGGAAGACTGAAATT 57.632 34.615 10.95 0.00 44.99 1.82
6743 19533 8.816894 TCATACAGACTAGGAAGACTGAAATTT 58.183 33.333 10.95 0.00 44.99 1.82
6745 19535 6.468543 ACAGACTAGGAAGACTGAAATTTCC 58.531 40.000 15.48 0.00 44.99 3.13
6747 19537 5.246429 AGACTAGGAAGACTGAAATTTCCGT 59.754 40.000 14.24 14.24 44.00 4.69
6760 19550 6.119536 TGAAATTTCCGTAGCATTACATCCT 58.880 36.000 15.48 0.00 0.00 3.24
6762 19552 3.364889 TTCCGTAGCATTACATCCTCG 57.635 47.619 0.00 0.00 0.00 4.63
6784 19574 8.498175 CTCGAAGAACAGAGGATCGGAAGAAA 62.498 46.154 0.00 0.00 39.74 2.52
6792 19582 4.371975 TCGGAAGAAACGCCCTTG 57.628 55.556 0.00 0.00 37.03 3.61
6794 19584 1.302192 CGGAAGAAACGCCCTTGGA 60.302 57.895 0.00 0.00 0.00 3.53
6795 19585 0.676782 CGGAAGAAACGCCCTTGGAT 60.677 55.000 0.00 0.00 0.00 3.41
6796 19586 1.095600 GGAAGAAACGCCCTTGGATC 58.904 55.000 0.00 0.00 0.00 3.36
6798 19588 0.323629 AAGAAACGCCCTTGGATCGA 59.676 50.000 0.00 0.00 0.00 3.59
6799 19589 0.323629 AGAAACGCCCTTGGATCGAA 59.676 50.000 0.00 0.00 0.00 3.71
6800 19590 1.065418 AGAAACGCCCTTGGATCGAAT 60.065 47.619 0.00 0.00 0.00 3.34
6801 19591 1.330829 GAAACGCCCTTGGATCGAATC 59.669 52.381 0.00 0.00 0.00 2.52
6803 19593 1.067416 CGCCCTTGGATCGAATCGA 59.933 57.895 8.12 8.12 41.13 3.59
6806 19596 1.532868 GCCCTTGGATCGAATCGAATG 59.467 52.381 10.12 0.00 39.99 2.67
6807 19597 1.532868 CCCTTGGATCGAATCGAATGC 59.467 52.381 10.12 4.65 39.99 3.56
6808 19598 1.532868 CCTTGGATCGAATCGAATGCC 59.467 52.381 10.12 12.08 39.99 4.40
6810 19600 2.154854 TGGATCGAATCGAATGCCTC 57.845 50.000 10.12 1.70 39.99 4.70
6811 19601 1.412343 TGGATCGAATCGAATGCCTCA 59.588 47.619 10.12 0.00 39.99 3.86
6812 19602 2.037641 TGGATCGAATCGAATGCCTCAT 59.962 45.455 10.12 0.00 39.99 2.90
6813 19603 2.670414 GGATCGAATCGAATGCCTCATC 59.330 50.000 10.12 0.00 39.99 2.92
6814 19604 3.583806 GATCGAATCGAATGCCTCATCT 58.416 45.455 10.12 0.00 39.99 2.90
6815 19605 3.018598 TCGAATCGAATGCCTCATCTC 57.981 47.619 1.57 0.00 31.06 2.75
6817 19607 2.064762 GAATCGAATGCCTCATCTCGG 58.935 52.381 0.00 0.00 31.09 4.63
6818 19608 0.319728 ATCGAATGCCTCATCTCGGG 59.680 55.000 0.00 0.00 31.09 5.14
6819 19609 0.755327 TCGAATGCCTCATCTCGGGA 60.755 55.000 0.00 0.00 31.09 5.14
6820 19610 0.319383 CGAATGCCTCATCTCGGGAG 60.319 60.000 0.00 0.00 0.00 4.30
6822 19612 2.374830 AATGCCTCATCTCGGGAGCG 62.375 60.000 0.00 0.00 0.00 5.03
6823 19613 3.532155 GCCTCATCTCGGGAGCGT 61.532 66.667 0.00 0.00 0.00 5.07
6824 19614 2.415010 CCTCATCTCGGGAGCGTG 59.585 66.667 0.00 0.00 0.00 5.34
6825 19615 2.279120 CTCATCTCGGGAGCGTGC 60.279 66.667 0.00 0.00 0.00 5.34
6827 19617 2.584418 CATCTCGGGAGCGTGCTG 60.584 66.667 0.00 0.00 0.00 4.41
6828 19618 3.071206 ATCTCGGGAGCGTGCTGT 61.071 61.111 0.00 0.00 0.00 4.40
6829 19619 1.753078 ATCTCGGGAGCGTGCTGTA 60.753 57.895 0.00 0.00 0.00 2.74
6831 19621 4.129737 TCGGGAGCGTGCTGTAGC 62.130 66.667 0.00 0.00 42.50 3.58
6834 19624 4.436998 GGAGCGTGCTGTAGCCGT 62.437 66.667 0.00 4.22 41.18 5.68
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
139 144 4.905866 CCATAAATCAAATAGAAGCACGCG 59.094 41.667 3.53 3.53 0.00 6.01
140 145 5.682862 CACCATAAATCAAATAGAAGCACGC 59.317 40.000 0.00 0.00 0.00 5.34
263 271 0.944311 CGAGTGACCACCACCGAAAG 60.944 60.000 0.00 0.00 46.87 2.62
277 285 1.364626 GCAAGGCCAGATCACGAGTG 61.365 60.000 5.01 0.00 0.00 3.51
379 387 5.048083 TCAAACAAGGACATATTTGGCAGAC 60.048 40.000 0.00 0.00 33.72 3.51
551 559 3.181465 GCACATATACCAGCAGTACCAGT 60.181 47.826 0.00 0.00 32.46 4.00
641 649 7.408756 TTTGCTAATATGGAGAAGTGCAATT 57.591 32.000 0.00 0.00 38.64 2.32
955 3800 9.388506 ACACATTTTTCAACAAATATTGGACAA 57.611 25.926 0.00 0.00 34.12 3.18
1017 3867 3.077359 CCTCTTTGTTCCTGAAAGCGAT 58.923 45.455 0.00 0.00 31.57 4.58
1519 6336 6.266168 TCAGTGAAAGAAAGTTTTGAAGCA 57.734 33.333 0.00 0.00 0.00 3.91
1697 6517 2.373169 TCTTCTTGACAAGGCCTGTGAT 59.627 45.455 5.69 0.00 38.84 3.06
1768 6588 2.834549 GTTCAGATTCCCTCCTCTCACA 59.165 50.000 0.00 0.00 0.00 3.58
1794 6614 4.155709 TGATACTGGGGTCATTTTTGCAA 58.844 39.130 0.00 0.00 0.00 4.08
1811 6631 6.076092 GCACGCATAAGATTTCGTTTTGATAC 60.076 38.462 0.00 0.00 32.38 2.24
1981 6802 0.035458 CCTCGCCAACTTCAACCTCT 59.965 55.000 0.00 0.00 0.00 3.69
2150 6971 2.282462 GACTGCCCCACCAACAGG 60.282 66.667 0.00 0.00 35.70 4.00
2205 7026 9.189723 CATGTGTCTCATACATATACTCAACAG 57.810 37.037 0.00 0.00 37.79 3.16
2437 7265 0.255318 CCTCTGCATTGGCCTTCTCT 59.745 55.000 3.32 0.00 40.13 3.10
2932 9639 6.016024 ACAATATGGTGGTAATGATGCACATC 60.016 38.462 3.61 3.61 38.38 3.06
2949 9657 3.067180 GTGGAATCACAGGCACAATATGG 59.933 47.826 0.00 0.00 43.13 2.74
3006 9747 6.384886 ACAAATATTTAGGAACGGAGGGAGTA 59.615 38.462 0.00 0.00 0.00 2.59
3007 9748 5.191124 ACAAATATTTAGGAACGGAGGGAGT 59.809 40.000 0.00 0.00 0.00 3.85
3008 9749 5.681639 ACAAATATTTAGGAACGGAGGGAG 58.318 41.667 0.00 0.00 0.00 4.30
3009 9750 5.427481 AGACAAATATTTAGGAACGGAGGGA 59.573 40.000 0.00 0.00 0.00 4.20
3010 9751 5.681639 AGACAAATATTTAGGAACGGAGGG 58.318 41.667 0.00 0.00 0.00 4.30
3011 9752 7.625828 AAAGACAAATATTTAGGAACGGAGG 57.374 36.000 0.00 0.00 0.00 4.30
3038 9779 8.836413 CGTATGTGGTAACCATTTGAAATATCT 58.164 33.333 0.00 0.00 35.28 1.98
3039 9780 8.073768 CCGTATGTGGTAACCATTTGAAATATC 58.926 37.037 0.00 0.00 35.28 1.63
3040 9781 7.776030 TCCGTATGTGGTAACCATTTGAAATAT 59.224 33.333 0.00 0.00 35.28 1.28
3041 9782 7.110810 TCCGTATGTGGTAACCATTTGAAATA 58.889 34.615 0.00 0.00 35.28 1.40
3042 9783 5.946972 TCCGTATGTGGTAACCATTTGAAAT 59.053 36.000 0.00 0.00 35.28 2.17
3043 9784 5.314529 TCCGTATGTGGTAACCATTTGAAA 58.685 37.500 0.00 0.00 35.28 2.69
3044 9785 4.907809 TCCGTATGTGGTAACCATTTGAA 58.092 39.130 0.00 0.00 35.28 2.69
3045 9786 4.554960 TCCGTATGTGGTAACCATTTGA 57.445 40.909 0.00 0.00 35.28 2.69
3046 9787 4.638421 ACATCCGTATGTGGTAACCATTTG 59.362 41.667 0.00 0.00 44.79 2.32
3047 9788 4.850680 ACATCCGTATGTGGTAACCATTT 58.149 39.130 0.00 0.00 44.79 2.32
3048 9789 4.497291 ACATCCGTATGTGGTAACCATT 57.503 40.909 0.00 0.00 44.79 3.16
3049 9790 5.547465 CATACATCCGTATGTGGTAACCAT 58.453 41.667 3.56 0.00 46.70 3.55
3050 9791 4.951254 CATACATCCGTATGTGGTAACCA 58.049 43.478 3.56 0.00 46.70 3.67
3088 9829 5.446473 CGGAGCAAAATGAGTGAATCTACAC 60.446 44.000 0.00 0.00 40.60 2.90
3089 9830 4.631377 CGGAGCAAAATGAGTGAATCTACA 59.369 41.667 0.00 0.00 0.00 2.74
3090 9831 4.631813 ACGGAGCAAAATGAGTGAATCTAC 59.368 41.667 0.00 0.00 0.00 2.59
3091 9832 4.832248 ACGGAGCAAAATGAGTGAATCTA 58.168 39.130 0.00 0.00 0.00 1.98
3092 9833 3.679389 ACGGAGCAAAATGAGTGAATCT 58.321 40.909 0.00 0.00 0.00 2.40
3093 9834 5.065218 ACATACGGAGCAAAATGAGTGAATC 59.935 40.000 0.00 0.00 0.00 2.52
3094 9835 4.943705 ACATACGGAGCAAAATGAGTGAAT 59.056 37.500 0.00 0.00 0.00 2.57
3095 9836 4.323417 ACATACGGAGCAAAATGAGTGAA 58.677 39.130 0.00 0.00 0.00 3.18
3096 9837 3.937814 ACATACGGAGCAAAATGAGTGA 58.062 40.909 0.00 0.00 0.00 3.41
3097 9838 4.870426 ACTACATACGGAGCAAAATGAGTG 59.130 41.667 0.00 0.00 0.00 3.51
3098 9839 5.086104 ACTACATACGGAGCAAAATGAGT 57.914 39.130 0.00 0.00 0.00 3.41
3099 9840 5.005779 GTGACTACATACGGAGCAAAATGAG 59.994 44.000 0.00 0.00 0.00 2.90
3100 9841 4.868171 GTGACTACATACGGAGCAAAATGA 59.132 41.667 0.00 0.00 0.00 2.57
3101 9842 4.870426 AGTGACTACATACGGAGCAAAATG 59.130 41.667 0.00 0.00 0.00 2.32
3102 9843 5.086104 AGTGACTACATACGGAGCAAAAT 57.914 39.130 0.00 0.00 0.00 1.82
3103 9844 4.530710 AGTGACTACATACGGAGCAAAA 57.469 40.909 0.00 0.00 0.00 2.44
3104 9845 4.242475 CAAGTGACTACATACGGAGCAAA 58.758 43.478 0.00 0.00 0.00 3.68
3105 9846 3.257375 ACAAGTGACTACATACGGAGCAA 59.743 43.478 0.00 0.00 0.00 3.91
3106 9847 2.823747 ACAAGTGACTACATACGGAGCA 59.176 45.455 0.00 0.00 0.00 4.26
3107 9848 3.505464 ACAAGTGACTACATACGGAGC 57.495 47.619 0.00 0.00 0.00 4.70
3108 9849 5.055642 TCAACAAGTGACTACATACGGAG 57.944 43.478 0.00 0.00 0.00 4.63
3109 9850 5.456548 TTCAACAAGTGACTACATACGGA 57.543 39.130 0.00 0.00 35.39 4.69
3110 9851 5.107220 GGTTTCAACAAGTGACTACATACGG 60.107 44.000 0.00 0.00 35.39 4.02
3111 9852 5.694910 AGGTTTCAACAAGTGACTACATACG 59.305 40.000 0.00 0.00 35.39 3.06
3112 9853 6.929606 AGAGGTTTCAACAAGTGACTACATAC 59.070 38.462 0.00 0.00 35.39 2.39
3113 9854 7.062749 AGAGGTTTCAACAAGTGACTACATA 57.937 36.000 0.00 0.00 35.39 2.29
3114 9855 5.930135 AGAGGTTTCAACAAGTGACTACAT 58.070 37.500 0.00 0.00 35.39 2.29
3115 9856 5.353394 AGAGGTTTCAACAAGTGACTACA 57.647 39.130 0.00 0.00 35.39 2.74
3116 9857 6.746120 TCTAGAGGTTTCAACAAGTGACTAC 58.254 40.000 0.00 0.00 35.39 2.73
3117 9858 6.971726 TCTAGAGGTTTCAACAAGTGACTA 57.028 37.500 0.00 0.00 35.39 2.59
3118 9859 5.871396 TCTAGAGGTTTCAACAAGTGACT 57.129 39.130 0.00 0.00 35.39 3.41
3119 9860 6.761714 TCTTTCTAGAGGTTTCAACAAGTGAC 59.238 38.462 0.00 0.00 35.39 3.67
3120 9861 6.761714 GTCTTTCTAGAGGTTTCAACAAGTGA 59.238 38.462 0.00 0.00 0.00 3.41
3121 9862 6.538742 TGTCTTTCTAGAGGTTTCAACAAGTG 59.461 38.462 0.00 0.00 0.00 3.16
3122 9863 6.650120 TGTCTTTCTAGAGGTTTCAACAAGT 58.350 36.000 0.00 0.00 0.00 3.16
3123 9864 7.553881 TTGTCTTTCTAGAGGTTTCAACAAG 57.446 36.000 0.00 0.00 0.00 3.16
3124 9865 7.931578 TTTGTCTTTCTAGAGGTTTCAACAA 57.068 32.000 0.00 0.00 0.00 2.83
3125 9866 9.793259 ATATTTGTCTTTCTAGAGGTTTCAACA 57.207 29.630 0.00 0.00 0.00 3.33
3138 9879 9.454859 CCTCAGTTCCTAAATATTTGTCTTTCT 57.545 33.333 11.05 0.48 0.00 2.52
3139 9880 8.678199 CCCTCAGTTCCTAAATATTTGTCTTTC 58.322 37.037 11.05 0.00 0.00 2.62
3140 9881 8.390921 TCCCTCAGTTCCTAAATATTTGTCTTT 58.609 33.333 11.05 0.00 0.00 2.52
3141 9882 7.928873 TCCCTCAGTTCCTAAATATTTGTCTT 58.071 34.615 11.05 0.00 0.00 3.01
3142 9883 7.182930 ACTCCCTCAGTTCCTAAATATTTGTCT 59.817 37.037 11.05 0.00 26.56 3.41
3143 9884 7.339482 ACTCCCTCAGTTCCTAAATATTTGTC 58.661 38.462 11.05 0.00 26.56 3.18
3144 9885 7.272144 ACTCCCTCAGTTCCTAAATATTTGT 57.728 36.000 11.05 0.00 26.56 2.83
3145 9886 8.487028 ACTACTCCCTCAGTTCCTAAATATTTG 58.513 37.037 11.05 1.40 36.43 2.32
3146 9887 8.625467 ACTACTCCCTCAGTTCCTAAATATTT 57.375 34.615 5.89 5.89 36.43 1.40
3147 9888 8.625467 AACTACTCCCTCAGTTCCTAAATATT 57.375 34.615 0.00 0.00 36.43 1.28
3148 9889 8.625467 AAACTACTCCCTCAGTTCCTAAATAT 57.375 34.615 0.00 0.00 36.43 1.28
3149 9890 8.445361 AAAACTACTCCCTCAGTTCCTAAATA 57.555 34.615 0.00 0.00 36.43 1.40
3150 9891 6.954352 AAACTACTCCCTCAGTTCCTAAAT 57.046 37.500 0.00 0.00 36.43 1.40
3151 9892 6.557633 AGAAAACTACTCCCTCAGTTCCTAAA 59.442 38.462 0.00 0.00 36.43 1.85
3152 9893 6.082707 AGAAAACTACTCCCTCAGTTCCTAA 58.917 40.000 0.00 0.00 36.43 2.69
3153 9894 5.652324 AGAAAACTACTCCCTCAGTTCCTA 58.348 41.667 0.00 0.00 36.43 2.94
3154 9895 4.494591 AGAAAACTACTCCCTCAGTTCCT 58.505 43.478 0.00 0.00 36.43 3.36
3155 9896 4.893829 AGAAAACTACTCCCTCAGTTCC 57.106 45.455 0.00 0.00 36.43 3.62
3156 9897 6.056236 ACAAAGAAAACTACTCCCTCAGTTC 58.944 40.000 0.00 0.00 36.43 3.01
3157 9898 6.002653 ACAAAGAAAACTACTCCCTCAGTT 57.997 37.500 0.00 0.00 36.43 3.16
3158 9899 5.632034 ACAAAGAAAACTACTCCCTCAGT 57.368 39.130 0.00 0.00 39.41 3.41
3159 9900 5.823045 ACAACAAAGAAAACTACTCCCTCAG 59.177 40.000 0.00 0.00 0.00 3.35
3160 9901 5.751586 ACAACAAAGAAAACTACTCCCTCA 58.248 37.500 0.00 0.00 0.00 3.86
3161 9902 6.694877 AACAACAAAGAAAACTACTCCCTC 57.305 37.500 0.00 0.00 0.00 4.30
3162 9903 6.661805 TCAAACAACAAAGAAAACTACTCCCT 59.338 34.615 0.00 0.00 0.00 4.20
3163 9904 6.859017 TCAAACAACAAAGAAAACTACTCCC 58.141 36.000 0.00 0.00 0.00 4.30
3164 9905 7.648112 GGATCAAACAACAAAGAAAACTACTCC 59.352 37.037 0.00 0.00 0.00 3.85
3165 9906 8.188139 TGGATCAAACAACAAAGAAAACTACTC 58.812 33.333 0.00 0.00 0.00 2.59
3166 9907 8.062065 TGGATCAAACAACAAAGAAAACTACT 57.938 30.769 0.00 0.00 0.00 2.57
3167 9908 7.435192 CCTGGATCAAACAACAAAGAAAACTAC 59.565 37.037 0.00 0.00 0.00 2.73
3337 10633 2.099431 GCTTGAGAGCTCCAGTGCG 61.099 63.158 10.93 0.00 45.65 5.34
3424 10759 6.489700 TCATAGACAAGGCAAACTCAATCAAA 59.510 34.615 0.00 0.00 0.00 2.69
4175 11817 4.205587 GCTTGAATCTGTTCATCCAGGAT 58.794 43.478 0.00 0.00 43.49 3.24
4432 12226 2.770164 ACCTAGGAACATGCAGACAC 57.230 50.000 17.98 0.00 0.00 3.67
4901 17177 3.691118 TGCTTGCACCTAATGAGATTCAC 59.309 43.478 0.00 0.00 0.00 3.18
4912 17188 0.403655 TTGGGATGTGCTTGCACCTA 59.596 50.000 21.01 5.82 0.00 3.08
5123 17424 1.140852 TGGCTGTGTTGAGCAAGTACT 59.859 47.619 0.00 0.00 41.08 2.73
5520 18274 1.221021 GGAGGTTAAGCCAGACGGG 59.779 63.158 0.00 0.00 40.61 5.28
5574 18332 1.002033 GCAGATCCGATTCATGGCAAC 60.002 52.381 0.00 0.00 0.00 4.17
5598 18364 6.396450 TCAGATCAGAGTCTTCAACAAGATG 58.604 40.000 0.00 0.00 40.88 2.90
5604 18370 4.161189 TGGGATCAGATCAGAGTCTTCAAC 59.839 45.833 12.66 0.00 0.00 3.18
5672 18454 1.228398 TTGCTCCGGATGTTGCCAA 60.228 52.632 3.57 0.00 0.00 4.52
5864 18649 2.768253 TTCATGTGACCAGCCTGTAG 57.232 50.000 0.00 0.00 0.00 2.74
5953 18738 4.439253 ACTAAAGATTATGCCCCCACTC 57.561 45.455 0.00 0.00 0.00 3.51
6095 18880 7.781324 AGATTTTGATGGTGGTAATTCTTGT 57.219 32.000 0.00 0.00 0.00 3.16
6176 18961 7.956328 AGAGTTGGTATCATGTGACTAGTAA 57.044 36.000 0.00 0.00 0.00 2.24
6392 19181 4.766891 AGAGATCAGCTGATAGGTAAGCTC 59.233 45.833 28.78 25.00 46.82 4.09
6394 19183 5.467035 AAGAGATCAGCTGATAGGTAAGC 57.533 43.478 28.78 14.46 39.82 3.09
6537 19327 5.970501 TCATCCCTACTACTGACTAGTGA 57.029 43.478 0.00 0.00 36.29 3.41
6538 19328 7.589958 AAATCATCCCTACTACTGACTAGTG 57.410 40.000 0.00 0.00 36.29 2.74
6551 19341 4.141482 GCTCCAAGGTGTAAATCATCCCTA 60.141 45.833 0.00 0.00 0.00 3.53
6607 19397 7.494952 TCTTAAGCTGATTGTGATGATCTGAAG 59.505 37.037 0.00 0.00 0.00 3.02
6717 19507 7.962995 ATTTCAGTCTTCCTAGTCTGTATGA 57.037 36.000 0.00 0.00 38.30 2.15
6729 19519 4.000988 TGCTACGGAAATTTCAGTCTTCC 58.999 43.478 24.32 13.04 36.92 3.46
6760 19550 2.124277 TCCGATCCTCTGTTCTTCGA 57.876 50.000 0.00 0.00 31.74 3.71
6762 19552 4.457834 TTCTTCCGATCCTCTGTTCTTC 57.542 45.455 0.00 0.00 0.00 2.87
6776 19566 0.676782 ATCCAAGGGCGTTTCTTCCG 60.677 55.000 0.00 0.00 0.00 4.30
6784 19574 1.227263 CGATTCGATCCAAGGGCGT 60.227 57.895 0.00 0.00 0.00 5.68
6785 19575 0.529773 TTCGATTCGATCCAAGGGCG 60.530 55.000 9.96 0.00 35.23 6.13
6786 19576 1.532868 CATTCGATTCGATCCAAGGGC 59.467 52.381 9.96 0.00 35.23 5.19
6787 19577 1.532868 GCATTCGATTCGATCCAAGGG 59.467 52.381 9.96 0.00 35.23 3.95
6788 19578 1.532868 GGCATTCGATTCGATCCAAGG 59.467 52.381 9.96 0.00 35.23 3.61
6789 19579 2.478134 GAGGCATTCGATTCGATCCAAG 59.522 50.000 9.96 0.15 35.23 3.61
6792 19582 2.154854 TGAGGCATTCGATTCGATCC 57.845 50.000 9.96 11.23 35.23 3.36
6794 19584 3.583806 GAGATGAGGCATTCGATTCGAT 58.416 45.455 9.96 0.00 35.23 3.59
6795 19585 2.605580 CGAGATGAGGCATTCGATTCGA 60.606 50.000 4.29 4.29 35.19 3.71
6796 19586 1.718178 CGAGATGAGGCATTCGATTCG 59.282 52.381 0.00 0.00 35.19 3.34
6798 19588 1.270518 CCCGAGATGAGGCATTCGATT 60.271 52.381 0.00 0.00 35.19 3.34
6799 19589 0.319728 CCCGAGATGAGGCATTCGAT 59.680 55.000 0.00 0.00 35.19 3.59
6800 19590 0.755327 TCCCGAGATGAGGCATTCGA 60.755 55.000 0.00 0.00 35.19 3.71
6801 19591 0.319383 CTCCCGAGATGAGGCATTCG 60.319 60.000 0.00 0.00 0.00 3.34
6803 19593 1.449353 GCTCCCGAGATGAGGCATT 59.551 57.895 0.00 0.00 0.00 3.56
6806 19596 3.532155 ACGCTCCCGAGATGAGGC 61.532 66.667 0.00 0.00 38.29 4.70
6807 19597 2.415010 CACGCTCCCGAGATGAGG 59.585 66.667 0.00 0.00 38.29 3.86
6808 19598 2.279120 GCACGCTCCCGAGATGAG 60.279 66.667 0.00 0.00 38.29 2.90
6810 19600 2.004808 TACAGCACGCTCCCGAGATG 62.005 60.000 0.00 0.00 44.85 2.90
6811 19601 1.729470 CTACAGCACGCTCCCGAGAT 61.729 60.000 0.00 0.00 38.29 2.75
6812 19602 2.360726 TACAGCACGCTCCCGAGA 60.361 61.111 0.00 0.00 38.29 4.04
6813 19603 2.103143 CTACAGCACGCTCCCGAG 59.897 66.667 0.00 0.00 38.29 4.63
6814 19604 4.129737 GCTACAGCACGCTCCCGA 62.130 66.667 0.00 0.00 41.59 5.14
6817 19607 3.060020 TACGGCTACAGCACGCTCC 62.060 63.158 3.24 0.00 44.36 4.70
6818 19608 2.488355 TACGGCTACAGCACGCTC 59.512 61.111 3.24 0.00 44.36 5.03


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

AutoCloner maintained by Alex Coulton.