Multiple sequence alignment - TraesCS4B01G110900

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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 TraesCS4B01G110900 chr4B 100.000 2753 0 0 1 2753 124504933 124502181 0.000000e+00 5084.0
1 TraesCS4B01G110900 chr4B 100.000 349 0 0 3116 3464 124501818 124501470 0.000000e+00 645.0
2 TraesCS4B01G110900 chr4D 94.956 1923 64 18 602 2504 87955910 87954001 0.000000e+00 2983.0
3 TraesCS4B01G110900 chr4D 92.605 622 37 7 1 616 87956622 87956004 0.000000e+00 885.0
4 TraesCS4B01G110900 chr4D 93.564 202 12 1 2541 2742 87954000 87953800 2.020000e-77 300.0
5 TraesCS4B01G110900 chr4D 92.523 107 6 1 3250 3354 87952793 87952687 5.990000e-33 152.0
6 TraesCS4B01G110900 chr4A 95.958 866 31 3 1641 2502 500636331 500635466 0.000000e+00 1402.0
7 TraesCS4B01G110900 chr4A 91.863 934 42 12 697 1621 500637303 500636395 0.000000e+00 1273.0
8 TraesCS4B01G110900 chr4A 89.844 256 21 3 2487 2742 500635353 500635103 1.200000e-84 324.0
9 TraesCS4B01G110900 chr4A 89.139 267 19 5 444 701 500638492 500638227 1.200000e-84 324.0
10 TraesCS4B01G110900 chr4A 100.000 28 0 0 3227 3254 195983048 195983075 6.000000e-03 52.8
11 TraesCS4B01G110900 chr4A 100.000 28 0 0 3227 3254 195994153 195994180 6.000000e-03 52.8
12 TraesCS4B01G110900 chr1D 75.418 419 78 16 1996 2409 345376032 345376430 2.750000e-41 180.0
13 TraesCS4B01G110900 chr1B 75.476 420 76 17 1996 2409 465388357 465387959 2.750000e-41 180.0
14 TraesCS4B01G110900 chr1A 75.476 420 76 17 1996 2409 445503549 445503947 2.750000e-41 180.0
15 TraesCS4B01G110900 chr7A 83.133 166 16 10 283 443 498932710 498932868 1.300000e-29 141.0
16 TraesCS4B01G110900 chr7A 94.872 39 2 0 3216 3254 725116107 725116145 1.040000e-05 62.1
17 TraesCS4B01G110900 chr2A 73.427 286 51 18 1274 1551 762590676 762590944 2.220000e-12 84.2
18 TraesCS4B01G110900 chr2D 72.438 283 59 13 1274 1551 381190200 381190468 4.800000e-09 73.1
19 TraesCS4B01G110900 chr5A 94.595 37 2 0 3203 3239 589299378 589299414 1.340000e-04 58.4
20 TraesCS4B01G110900 chr7B 100.000 29 0 0 3227 3255 504190125 504190097 2.000000e-03 54.7
21 TraesCS4B01G110900 chr7B 100.000 28 0 0 3227 3254 123667034 123667007 6.000000e-03 52.8
22 TraesCS4B01G110900 chr7B 100.000 28 0 0 3227 3254 245070271 245070244 6.000000e-03 52.8
23 TraesCS4B01G110900 chr7B 100.000 28 0 0 3227 3254 720828555 720828582 6.000000e-03 52.8


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 TraesCS4B01G110900 chr4B 124501470 124504933 3463 True 2864.50 5084 100.000 1 3464 2 chr4B.!!$R1 3463
1 TraesCS4B01G110900 chr4D 87952687 87956622 3935 True 1080.00 2983 93.412 1 3354 4 chr4D.!!$R1 3353
2 TraesCS4B01G110900 chr4A 500635103 500638492 3389 True 830.75 1402 91.701 444 2742 4 chr4A.!!$R1 2298

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
108 109 0.394762 GGCATGCCAGGAATGACAGA 60.395 55.0 32.08 0.0 32.93 3.41 F
1066 2138 0.179000 GGAAGACCACGAGCCATCAT 59.821 55.0 0.00 0.0 35.97 2.45 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1067 2139 0.178767 TTGCTCCACCTCCGATGATG 59.821 55.0 0.0 0.0 0.0 3.07 R
2525 3773 0.447801 CCTGTAGTTCGTGGCAATGC 59.552 55.0 0.0 0.0 0.0 3.56 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
28 29 3.853671 GGATTTCATGCAACGTGTTCATC 59.146 43.478 0.00 0.00 0.00 2.92
65 66 5.596836 TCCAAGAAAGTGCATGTTCTTTT 57.403 34.783 19.46 3.66 41.12 2.27
108 109 0.394762 GGCATGCCAGGAATGACAGA 60.395 55.000 32.08 0.00 32.93 3.41
109 110 1.022735 GCATGCCAGGAATGACAGAG 58.977 55.000 12.35 0.00 0.00 3.35
123 124 7.050377 GGAATGACAGAGTCTTCCATCATAAA 58.950 38.462 16.46 0.00 38.48 1.40
126 127 6.166279 TGACAGAGTCTTCCATCATAAACAC 58.834 40.000 0.00 0.00 33.15 3.32
132 133 4.330074 GTCTTCCATCATAAACACTGGTCG 59.670 45.833 0.00 0.00 0.00 4.79
133 134 3.973206 TCCATCATAAACACTGGTCGT 57.027 42.857 0.00 0.00 0.00 4.34
135 136 2.603110 CCATCATAAACACTGGTCGTCG 59.397 50.000 0.00 0.00 0.00 5.12
154 155 3.000078 GTCGTCTTACACCACAATATGCG 60.000 47.826 0.00 0.00 0.00 4.73
155 156 3.119424 TCGTCTTACACCACAATATGCGA 60.119 43.478 0.00 0.00 0.00 5.10
200 201 4.863925 GAGCGAGACAGCCGGAGC 62.864 72.222 5.05 0.00 38.01 4.70
261 262 6.127140 GGTTCCTAGCATAAGTTCCTAACTGA 60.127 42.308 0.00 0.00 41.91 3.41
284 285 3.279434 GCCATGTATTTCCTCTCCGTTT 58.721 45.455 0.00 0.00 0.00 3.60
290 291 5.721232 TGTATTTCCTCTCCGTTTCTTCTC 58.279 41.667 0.00 0.00 0.00 2.87
297 298 2.310945 TCTCCGTTTCTTCTCCCCTCTA 59.689 50.000 0.00 0.00 0.00 2.43
312 313 5.506708 TCCCCTCTATTTTTCTACTTTGCC 58.493 41.667 0.00 0.00 0.00 4.52
343 344 4.626081 GCCTCTGCACCACGGTGT 62.626 66.667 17.26 0.00 46.90 4.16
377 378 6.041979 AGCTTCATGTAAATTGACCTTTGGTT 59.958 34.615 0.00 0.00 35.25 3.67
378 379 7.232534 AGCTTCATGTAAATTGACCTTTGGTTA 59.767 33.333 0.00 0.00 35.25 2.85
380 381 9.573133 CTTCATGTAAATTGACCTTTGGTTATC 57.427 33.333 0.00 0.00 35.25 1.75
406 410 7.308109 CGGGCTACGGCTTTTGAAATATATAAA 60.308 37.037 0.00 0.00 39.42 1.40
436 440 8.498054 AGCGAGATCTATCTTTTCATTTCAAA 57.502 30.769 0.00 0.00 37.25 2.69
495 499 3.420839 GGTTTTTGACCTGTGAGTGTG 57.579 47.619 0.00 0.00 45.55 3.82
646 767 2.363306 ACCAGGTGTTGCTTGATCAA 57.637 45.000 8.12 8.12 0.00 2.57
746 1797 1.720805 TCAACATGAACCCGATGTCG 58.279 50.000 0.00 0.00 32.74 4.35
747 1798 1.001520 TCAACATGAACCCGATGTCGT 59.998 47.619 0.00 0.00 32.74 4.34
748 1799 1.128507 CAACATGAACCCGATGTCGTG 59.871 52.381 0.00 0.00 32.74 4.35
761 1812 2.483583 TGTCGTGCAAAATCAACCAC 57.516 45.000 0.00 0.00 0.00 4.16
764 1815 3.628032 TGTCGTGCAAAATCAACCACTAA 59.372 39.130 0.00 0.00 0.00 2.24
765 1816 4.096532 TGTCGTGCAAAATCAACCACTAAA 59.903 37.500 0.00 0.00 0.00 1.85
766 1817 5.219633 GTCGTGCAAAATCAACCACTAAAT 58.780 37.500 0.00 0.00 0.00 1.40
848 1899 1.522668 AAGCTTTGATGCGCAGTGTA 58.477 45.000 18.32 0.05 38.13 2.90
869 1921 4.680171 AAAGTAATTAACGCCAGACTGC 57.320 40.909 0.00 0.00 0.00 4.40
954 2015 7.883311 TGCTGCTCTACATATACATCTACAGTA 59.117 37.037 0.00 0.00 0.00 2.74
955 2016 8.731605 GCTGCTCTACATATACATCTACAGTAA 58.268 37.037 0.00 0.00 0.00 2.24
966 2027 1.006832 CTACAGTAACATGCGCCCAC 58.993 55.000 4.18 0.00 0.00 4.61
984 2045 2.095768 CCACCAGTGCACGACAAATTAG 60.096 50.000 12.01 0.00 0.00 1.73
1053 2119 2.278854 GAGAAGATGCTGCTGGAAGAC 58.721 52.381 0.00 0.00 34.07 3.01
1066 2138 0.179000 GGAAGACCACGAGCCATCAT 59.821 55.000 0.00 0.00 35.97 2.45
1067 2139 1.576356 GAAGACCACGAGCCATCATC 58.424 55.000 0.00 0.00 0.00 2.92
1068 2140 0.904649 AAGACCACGAGCCATCATCA 59.095 50.000 0.00 0.00 0.00 3.07
1069 2141 1.126488 AGACCACGAGCCATCATCAT 58.874 50.000 0.00 0.00 0.00 2.45
1070 2142 1.069823 AGACCACGAGCCATCATCATC 59.930 52.381 0.00 0.00 0.00 2.92
1071 2143 0.832626 ACCACGAGCCATCATCATCA 59.167 50.000 0.00 0.00 0.00 3.07
1308 2380 2.297129 GGAGGTGGAGGAGCAGCTT 61.297 63.158 0.00 0.00 0.00 3.74
1312 2384 2.283894 TGGAGGAGCAGCTTCGGA 60.284 61.111 0.00 0.00 0.00 4.55
1389 2461 0.676184 AGATGATGATCGTGGACGGG 59.324 55.000 0.00 0.00 40.29 5.28
1450 2522 2.717044 CGGAGGTATGCCGTCCACA 61.717 63.158 15.15 0.00 43.66 4.17
1512 2584 0.248743 TGCTGTACATAGCGCCGTAC 60.249 55.000 19.83 19.83 46.61 3.67
1583 2655 4.827087 CAGGATCGCCGCTGCAGT 62.827 66.667 16.64 0.00 39.96 4.40
1849 2968 0.371645 GACAGAGCGCAACATACAGC 59.628 55.000 11.47 0.00 0.00 4.40
2025 3144 0.173708 CCACCGAGTACAAGCTCCTC 59.826 60.000 0.00 0.00 32.11 3.71
2115 3234 4.194720 AGCATCGTCGGCTCCGTC 62.195 66.667 8.28 1.75 36.81 4.79
2443 3562 1.001406 ACGAAGTGCAGGGAAAGAGAG 59.999 52.381 0.00 0.00 42.51 3.20
2445 3564 2.289072 CGAAGTGCAGGGAAAGAGAGAA 60.289 50.000 0.00 0.00 0.00 2.87
2479 3599 0.528466 GTAGCGGGCTAAACGTACCC 60.528 60.000 1.27 5.93 40.51 3.69
2504 3752 3.120304 GCTCCCAACTGTTAGCGTTAAAG 60.120 47.826 0.00 0.00 0.00 1.85
2510 3758 5.389516 CCAACTGTTAGCGTTAAAGTAGCTG 60.390 44.000 0.00 0.00 41.80 4.24
2517 3765 7.816031 TGTTAGCGTTAAAGTAGCTGAAATACT 59.184 33.333 0.00 0.00 41.80 2.12
2525 3773 5.808042 AGTAGCTGAAATACTTGTGCATG 57.192 39.130 0.00 0.00 29.01 4.06
2526 3774 3.498927 AGCTGAAATACTTGTGCATGC 57.501 42.857 11.82 11.82 0.00 4.06
2527 3775 2.821378 AGCTGAAATACTTGTGCATGCA 59.179 40.909 18.46 18.46 0.00 3.96
2528 3776 3.446161 AGCTGAAATACTTGTGCATGCAT 59.554 39.130 25.64 10.48 0.00 3.96
2538 3786 3.771299 GCATGCATTGCCACGAAC 58.229 55.556 14.21 0.00 46.15 3.95
2543 3791 1.155889 TGCATTGCCACGAACTACAG 58.844 50.000 6.12 0.00 0.00 2.74
2576 3824 6.550108 ACGAGACACCAGGTTATTGTATATCT 59.450 38.462 0.00 0.00 0.00 1.98
2680 4787 4.702831 ACAAGGCAAATTTTAACCACAGG 58.297 39.130 4.85 0.00 0.00 4.00
2697 4804 3.310774 CACAGGAGCTAAATGTCAATCGG 59.689 47.826 0.00 0.00 0.00 4.18
2700 4807 2.945668 GGAGCTAAATGTCAATCGGCTT 59.054 45.455 0.00 0.00 0.00 4.35
2713 4820 7.494211 TGTCAATCGGCTTACTTTAGCTATTA 58.506 34.615 0.00 0.00 40.99 0.98
2722 4829 7.715686 GGCTTACTTTAGCTATTATGGTCAGTT 59.284 37.037 0.00 0.00 40.99 3.16
2742 4849 6.015180 TCAGTTGATTTTGAATGAAGGAAGGG 60.015 38.462 0.00 0.00 0.00 3.95
2743 4850 4.806640 TGATTTTGAATGAAGGAAGGGC 57.193 40.909 0.00 0.00 0.00 5.19
2744 4851 3.515104 TGATTTTGAATGAAGGAAGGGCC 59.485 43.478 0.00 0.00 0.00 5.80
3164 5271 3.078836 CCGTCGGGGCTAAAGGGA 61.079 66.667 2.34 0.00 0.00 4.20
3172 5279 2.907407 GCTAAAGGGATGGCCGGC 60.907 66.667 21.18 21.18 33.83 6.13
3198 5305 1.006922 GCAAGACCAACTGGCAAGC 60.007 57.895 0.00 0.00 44.46 4.01
3203 5310 0.681175 GACCAACTGGCAAGCCAAAT 59.319 50.000 15.55 3.43 46.63 2.32
3204 5311 1.070601 GACCAACTGGCAAGCCAAATT 59.929 47.619 15.55 9.58 46.63 1.82
3205 5312 2.298729 GACCAACTGGCAAGCCAAATTA 59.701 45.455 15.55 0.00 46.63 1.40
3206 5313 2.703007 ACCAACTGGCAAGCCAAATTAA 59.297 40.909 15.55 0.00 46.63 1.40
3207 5314 3.135530 ACCAACTGGCAAGCCAAATTAAA 59.864 39.130 15.55 0.00 46.63 1.52
3208 5315 3.747529 CCAACTGGCAAGCCAAATTAAAG 59.252 43.478 15.55 4.05 46.63 1.85
3209 5316 3.044235 ACTGGCAAGCCAAATTAAAGC 57.956 42.857 15.55 0.00 46.63 3.51
3210 5317 2.634453 ACTGGCAAGCCAAATTAAAGCT 59.366 40.909 15.55 0.00 46.63 3.74
3211 5318 3.831911 ACTGGCAAGCCAAATTAAAGCTA 59.168 39.130 15.55 0.00 46.63 3.32
3212 5319 4.283212 ACTGGCAAGCCAAATTAAAGCTAA 59.717 37.500 15.55 0.00 46.63 3.09
3213 5320 5.046376 ACTGGCAAGCCAAATTAAAGCTAAT 60.046 36.000 15.55 0.00 46.63 1.73
3214 5321 6.154363 ACTGGCAAGCCAAATTAAAGCTAATA 59.846 34.615 15.55 0.00 46.63 0.98
3215 5322 6.337356 TGGCAAGCCAAATTAAAGCTAATAC 58.663 36.000 12.11 0.00 44.12 1.89
3216 5323 6.071108 TGGCAAGCCAAATTAAAGCTAATACA 60.071 34.615 12.11 0.00 44.12 2.29
3217 5324 6.816140 GGCAAGCCAAATTAAAGCTAATACAA 59.184 34.615 6.14 0.00 35.30 2.41
3218 5325 7.333174 GGCAAGCCAAATTAAAGCTAATACAAA 59.667 33.333 6.14 0.00 35.30 2.83
3219 5326 8.382875 GCAAGCCAAATTAAAGCTAATACAAAG 58.617 33.333 0.00 0.00 35.30 2.77
3220 5327 9.423061 CAAGCCAAATTAAAGCTAATACAAAGT 57.577 29.630 0.00 0.00 35.30 2.66
3221 5328 9.996554 AAGCCAAATTAAAGCTAATACAAAGTT 57.003 25.926 0.00 0.00 35.30 2.66
3222 5329 9.423061 AGCCAAATTAAAGCTAATACAAAGTTG 57.577 29.630 0.00 0.00 34.38 3.16
3223 5330 8.655970 GCCAAATTAAAGCTAATACAAAGTTGG 58.344 33.333 13.13 13.13 34.15 3.77
3224 5331 9.150348 CCAAATTAAAGCTAATACAAAGTTGGG 57.850 33.333 11.07 0.00 30.69 4.12
3225 5332 9.705290 CAAATTAAAGCTAATACAAAGTTGGGT 57.295 29.630 0.00 0.00 0.00 4.51
3226 5333 9.923143 AAATTAAAGCTAATACAAAGTTGGGTC 57.077 29.630 0.00 0.00 0.00 4.46
3227 5334 8.644374 ATTAAAGCTAATACAAAGTTGGGTCA 57.356 30.769 0.00 0.00 0.00 4.02
3228 5335 5.959618 AAGCTAATACAAAGTTGGGTCAC 57.040 39.130 0.00 0.00 0.00 3.67
3229 5336 5.242795 AGCTAATACAAAGTTGGGTCACT 57.757 39.130 0.00 0.00 0.00 3.41
3230 5337 5.631119 AGCTAATACAAAGTTGGGTCACTT 58.369 37.500 0.00 0.00 38.74 3.16
3231 5338 6.775708 AGCTAATACAAAGTTGGGTCACTTA 58.224 36.000 0.00 0.00 35.87 2.24
3232 5339 7.402862 AGCTAATACAAAGTTGGGTCACTTAT 58.597 34.615 0.00 0.00 35.87 1.73
3233 5340 7.888546 AGCTAATACAAAGTTGGGTCACTTATT 59.111 33.333 0.00 0.00 35.87 1.40
3234 5341 8.520351 GCTAATACAAAGTTGGGTCACTTATTT 58.480 33.333 0.00 0.00 35.87 1.40
3237 5344 6.783708 ACAAAGTTGGGTCACTTATTTTGA 57.216 33.333 0.00 0.00 35.87 2.69
3238 5345 7.176589 ACAAAGTTGGGTCACTTATTTTGAA 57.823 32.000 0.00 0.00 35.87 2.69
3239 5346 7.791029 ACAAAGTTGGGTCACTTATTTTGAAT 58.209 30.769 0.00 0.00 35.87 2.57
3240 5347 7.926018 ACAAAGTTGGGTCACTTATTTTGAATC 59.074 33.333 0.00 0.00 35.87 2.52
3241 5348 6.254281 AGTTGGGTCACTTATTTTGAATCG 57.746 37.500 0.00 0.00 0.00 3.34
3242 5349 5.183140 AGTTGGGTCACTTATTTTGAATCGG 59.817 40.000 0.00 0.00 0.00 4.18
3243 5350 4.912586 TGGGTCACTTATTTTGAATCGGA 58.087 39.130 0.00 0.00 0.00 4.55
3244 5351 4.941263 TGGGTCACTTATTTTGAATCGGAG 59.059 41.667 0.00 0.00 0.00 4.63
3245 5352 4.335594 GGGTCACTTATTTTGAATCGGAGG 59.664 45.833 0.00 0.00 0.00 4.30
3246 5353 4.335594 GGTCACTTATTTTGAATCGGAGGG 59.664 45.833 0.00 0.00 0.00 4.30
3247 5354 5.183228 GTCACTTATTTTGAATCGGAGGGA 58.817 41.667 0.00 0.00 0.00 4.20
3248 5355 5.294552 GTCACTTATTTTGAATCGGAGGGAG 59.705 44.000 0.00 0.00 0.00 4.30
3263 5370 4.428209 GGAGGGAGTAGTAAACTTAACGC 58.572 47.826 0.00 0.00 39.07 4.84
3264 5371 4.101235 GAGGGAGTAGTAAACTTAACGCG 58.899 47.826 3.53 3.53 39.07 6.01
3295 5402 4.142609 TCACCTGCTCCATAAGATCAAC 57.857 45.455 0.00 0.00 0.00 3.18
3296 5403 2.868583 CACCTGCTCCATAAGATCAACG 59.131 50.000 0.00 0.00 0.00 4.10
3305 5412 4.019681 TCCATAAGATCAACGTCCCTTTGT 60.020 41.667 0.00 0.00 0.00 2.83
3360 5467 2.836479 GCATGAATTTGCAAATGGCC 57.164 45.000 24.74 16.55 43.89 5.36
3361 5468 1.402613 GCATGAATTTGCAAATGGCCC 59.597 47.619 24.74 14.34 43.89 5.80
3362 5469 2.712709 CATGAATTTGCAAATGGCCCA 58.287 42.857 24.74 18.74 43.89 5.36
3363 5470 2.181954 TGAATTTGCAAATGGCCCAC 57.818 45.000 24.74 12.35 43.89 4.61
3364 5471 1.419012 TGAATTTGCAAATGGCCCACA 59.581 42.857 24.74 14.40 43.89 4.17
3365 5472 2.040012 TGAATTTGCAAATGGCCCACAT 59.960 40.909 24.74 6.93 43.89 3.21
3366 5473 2.116827 ATTTGCAAATGGCCCACATG 57.883 45.000 23.54 0.00 43.89 3.21
3367 5474 1.054231 TTTGCAAATGGCCCACATGA 58.946 45.000 8.05 0.00 43.89 3.07
3368 5475 0.609151 TTGCAAATGGCCCACATGAG 59.391 50.000 0.00 0.00 43.89 2.90
3369 5476 0.542467 TGCAAATGGCCCACATGAGT 60.542 50.000 0.00 0.00 43.89 3.41
3370 5477 0.108520 GCAAATGGCCCACATGAGTG 60.109 55.000 0.00 0.00 45.47 3.51
3371 5478 0.108520 CAAATGGCCCACATGAGTGC 60.109 55.000 0.00 0.00 44.53 4.40
3372 5479 1.259840 AAATGGCCCACATGAGTGCC 61.260 55.000 9.62 9.62 44.53 5.01
3373 5480 3.667217 ATGGCCCACATGAGTGCCC 62.667 63.158 13.59 1.40 44.53 5.36
3375 5482 4.365111 GCCCACATGAGTGCCCCA 62.365 66.667 0.00 0.00 44.53 4.96
3376 5483 2.440147 CCCACATGAGTGCCCCAA 59.560 61.111 0.00 0.00 44.53 4.12
3377 5484 1.978617 CCCACATGAGTGCCCCAAC 60.979 63.158 0.00 0.00 44.53 3.77
3378 5485 1.228521 CCACATGAGTGCCCCAACA 60.229 57.895 0.00 0.00 44.53 3.33
3379 5486 1.526575 CCACATGAGTGCCCCAACAC 61.527 60.000 0.00 0.00 44.53 3.32
3380 5487 0.822944 CACATGAGTGCCCCAACACA 60.823 55.000 0.00 0.00 43.23 3.72
3381 5488 0.112995 ACATGAGTGCCCCAACACAT 59.887 50.000 0.00 0.00 43.23 3.21
3382 5489 1.259609 CATGAGTGCCCCAACACATT 58.740 50.000 0.00 0.00 43.23 2.71
3383 5490 1.067425 CATGAGTGCCCCAACACATTG 60.067 52.381 0.00 0.00 43.23 2.82
3384 5491 1.290009 GAGTGCCCCAACACATTGC 59.710 57.895 0.00 0.00 43.23 3.56
3385 5492 2.158561 GAGTGCCCCAACACATTGCC 62.159 60.000 0.00 0.00 43.23 4.52
3386 5493 2.123121 TGCCCCAACACATTGCCA 60.123 55.556 0.00 0.00 34.17 4.92
3387 5494 2.343387 GCCCCAACACATTGCCAC 59.657 61.111 0.00 0.00 34.17 5.01
3388 5495 2.506061 GCCCCAACACATTGCCACA 61.506 57.895 0.00 0.00 34.17 4.17
3389 5496 1.829523 GCCCCAACACATTGCCACAT 61.830 55.000 0.00 0.00 34.17 3.21
3390 5497 0.247185 CCCCAACACATTGCCACATC 59.753 55.000 0.00 0.00 34.17 3.06
3391 5498 0.967662 CCCAACACATTGCCACATCA 59.032 50.000 0.00 0.00 34.17 3.07
3392 5499 1.551430 CCCAACACATTGCCACATCAT 59.449 47.619 0.00 0.00 34.17 2.45
3393 5500 2.759535 CCCAACACATTGCCACATCATA 59.240 45.455 0.00 0.00 34.17 2.15
3394 5501 3.429272 CCCAACACATTGCCACATCATAC 60.429 47.826 0.00 0.00 34.17 2.39
3395 5502 3.428163 CAACACATTGCCACATCATACG 58.572 45.455 0.00 0.00 0.00 3.06
3396 5503 1.401552 ACACATTGCCACATCATACGC 59.598 47.619 0.00 0.00 0.00 4.42
3397 5504 1.672363 CACATTGCCACATCATACGCT 59.328 47.619 0.00 0.00 0.00 5.07
3398 5505 2.097954 CACATTGCCACATCATACGCTT 59.902 45.455 0.00 0.00 0.00 4.68
3399 5506 2.097954 ACATTGCCACATCATACGCTTG 59.902 45.455 0.00 0.00 0.00 4.01
3400 5507 2.106477 TTGCCACATCATACGCTTGA 57.894 45.000 0.00 0.00 0.00 3.02
3401 5508 1.368641 TGCCACATCATACGCTTGAC 58.631 50.000 0.00 0.00 0.00 3.18
3402 5509 0.657840 GCCACATCATACGCTTGACC 59.342 55.000 0.00 0.00 0.00 4.02
3403 5510 0.930310 CCACATCATACGCTTGACCG 59.070 55.000 0.00 0.00 0.00 4.79
3404 5511 1.640428 CACATCATACGCTTGACCGT 58.360 50.000 0.00 0.00 44.62 4.83
3405 5512 1.999735 CACATCATACGCTTGACCGTT 59.000 47.619 0.00 0.00 42.20 4.44
3406 5513 2.029244 CACATCATACGCTTGACCGTTC 59.971 50.000 0.00 0.00 42.20 3.95
3407 5514 1.593006 CATCATACGCTTGACCGTTCC 59.407 52.381 0.00 0.00 42.20 3.62
3408 5515 0.892755 TCATACGCTTGACCGTTCCT 59.107 50.000 0.00 0.00 42.20 3.36
3409 5516 0.999406 CATACGCTTGACCGTTCCTG 59.001 55.000 0.00 0.00 42.20 3.86
3410 5517 0.606604 ATACGCTTGACCGTTCCTGT 59.393 50.000 0.00 0.00 42.20 4.00
3411 5518 0.038892 TACGCTTGACCGTTCCTGTC 60.039 55.000 0.00 0.00 42.20 3.51
3412 5519 1.300620 CGCTTGACCGTTCCTGTCA 60.301 57.895 0.00 0.00 40.80 3.58
3416 5523 2.631160 TTGACCGTTCCTGTCAATGT 57.369 45.000 1.94 0.00 45.19 2.71
3417 5524 1.877637 TGACCGTTCCTGTCAATGTG 58.122 50.000 0.00 0.00 39.66 3.21
3418 5525 1.156736 GACCGTTCCTGTCAATGTGG 58.843 55.000 0.00 0.00 32.91 4.17
3419 5526 0.250727 ACCGTTCCTGTCAATGTGGG 60.251 55.000 0.00 0.00 0.00 4.61
3420 5527 0.960364 CCGTTCCTGTCAATGTGGGG 60.960 60.000 0.00 0.00 0.00 4.96
3421 5528 0.960364 CGTTCCTGTCAATGTGGGGG 60.960 60.000 0.00 0.00 0.00 5.40
3450 5557 6.391227 CCGTTGAGGCCATAATTTCTATTT 57.609 37.500 5.01 0.00 0.00 1.40
3451 5558 6.805713 CCGTTGAGGCCATAATTTCTATTTT 58.194 36.000 5.01 0.00 0.00 1.82
3452 5559 6.697019 CCGTTGAGGCCATAATTTCTATTTTG 59.303 38.462 5.01 0.00 0.00 2.44
3453 5560 6.198966 CGTTGAGGCCATAATTTCTATTTTGC 59.801 38.462 5.01 0.00 0.00 3.68
3454 5561 6.160576 TGAGGCCATAATTTCTATTTTGCC 57.839 37.500 5.01 0.00 0.00 4.52
3455 5562 5.660417 TGAGGCCATAATTTCTATTTTGCCA 59.340 36.000 5.01 0.00 29.80 4.92
3456 5563 5.917462 AGGCCATAATTTCTATTTTGCCAC 58.083 37.500 5.01 0.00 29.80 5.01
3457 5564 5.662657 AGGCCATAATTTCTATTTTGCCACT 59.337 36.000 5.01 0.00 29.80 4.00
3458 5565 5.985530 GGCCATAATTTCTATTTTGCCACTC 59.014 40.000 0.00 0.00 0.00 3.51
3459 5566 6.183360 GGCCATAATTTCTATTTTGCCACTCT 60.183 38.462 0.00 0.00 0.00 3.24
3460 5567 6.698766 GCCATAATTTCTATTTTGCCACTCTG 59.301 38.462 0.00 0.00 0.00 3.35
3461 5568 7.416664 GCCATAATTTCTATTTTGCCACTCTGA 60.417 37.037 0.00 0.00 0.00 3.27
3462 5569 8.636213 CCATAATTTCTATTTTGCCACTCTGAT 58.364 33.333 0.00 0.00 0.00 2.90
3463 5570 9.459640 CATAATTTCTATTTTGCCACTCTGATG 57.540 33.333 0.00 0.00 0.00 3.07
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 3.724508 ACACGTTGCATGAAATCCAAA 57.275 38.095 0.00 0.00 0.00 3.28
20 21 4.242475 TGACGACCAACATAGATGAACAC 58.758 43.478 0.00 0.00 0.00 3.32
28 29 4.123497 TCTTGGATGACGACCAACATAG 57.877 45.455 0.00 0.00 41.64 2.23
84 85 0.601558 CATTCCTGGCATGCCATAGC 59.398 55.000 38.47 12.09 46.15 2.97
108 109 5.491982 GACCAGTGTTTATGATGGAAGACT 58.508 41.667 0.00 0.00 36.62 3.24
109 110 4.330074 CGACCAGTGTTTATGATGGAAGAC 59.670 45.833 0.00 0.00 36.62 3.01
123 124 1.002033 GTGTAAGACGACGACCAGTGT 60.002 52.381 0.00 0.00 0.00 3.55
126 127 0.594602 TGGTGTAAGACGACGACCAG 59.405 55.000 0.00 0.00 32.81 4.00
132 133 3.000078 CGCATATTGTGGTGTAAGACGAC 60.000 47.826 0.00 0.00 34.01 4.34
133 134 3.119424 TCGCATATTGTGGTGTAAGACGA 60.119 43.478 0.00 0.00 0.00 4.20
135 136 4.181578 AGTCGCATATTGTGGTGTAAGAC 58.818 43.478 0.00 0.00 0.00 3.01
154 155 7.050377 TCATCCAAAGTGATAGGAATTGAGTC 58.950 38.462 0.00 0.00 34.62 3.36
155 156 6.962182 TCATCCAAAGTGATAGGAATTGAGT 58.038 36.000 0.00 0.00 34.62 3.41
222 223 0.817654 GGAACCAAGCTTATGCACCC 59.182 55.000 0.00 0.00 42.74 4.61
261 262 1.417890 CGGAGAGGAAATACATGGCCT 59.582 52.381 3.32 0.00 0.00 5.19
284 285 8.322091 CAAAGTAGAAAAATAGAGGGGAGAAGA 58.678 37.037 0.00 0.00 0.00 2.87
290 291 4.645136 GGGCAAAGTAGAAAAATAGAGGGG 59.355 45.833 0.00 0.00 0.00 4.79
297 298 3.961480 GCCTGGGCAAAGTAGAAAAAT 57.039 42.857 6.75 0.00 41.49 1.82
322 323 3.129502 CGTGGTGCAGAGGCCATG 61.130 66.667 5.01 4.20 40.13 3.66
363 364 2.758423 GCCCGATAACCAAAGGTCAATT 59.242 45.455 0.00 0.00 33.12 2.32
377 378 0.825410 TCAAAAGCCGTAGCCCGATA 59.175 50.000 0.00 0.00 41.25 2.92
378 379 0.035820 TTCAAAAGCCGTAGCCCGAT 60.036 50.000 0.00 0.00 41.25 4.18
380 381 0.808755 ATTTCAAAAGCCGTAGCCCG 59.191 50.000 0.00 0.00 41.25 6.13
406 410 7.759489 ATGAAAAGATAGATCTCGCTCTACT 57.241 36.000 0.00 0.00 35.76 2.57
495 499 2.675317 GCACACTACTCATGGTCAGTCC 60.675 54.545 0.00 0.00 0.00 3.85
506 510 1.468395 GGAGCTCGAAGCACACTACTC 60.468 57.143 7.83 0.00 45.56 2.59
646 767 2.252714 GTCCCTGTGAGGAGAAAGACT 58.747 52.381 0.00 0.00 37.67 3.24
705 1754 9.685828 GTTGATGCTTGGTTTTAAGTGTTTATA 57.314 29.630 0.00 0.00 0.00 0.98
765 1816 9.902684 AGCACGATAGGTTGTAGTAGTATATAT 57.097 33.333 0.00 0.00 43.77 0.86
766 1817 9.376075 GAGCACGATAGGTTGTAGTAGTATATA 57.624 37.037 0.00 0.00 43.77 0.86
773 1824 4.267536 ACAGAGCACGATAGGTTGTAGTA 58.732 43.478 0.00 0.00 43.77 1.82
848 1899 4.069304 TGCAGTCTGGCGTTAATTACTTT 58.931 39.130 1.14 0.00 36.28 2.66
869 1921 3.035942 GTCAGTTTACTTGCGTGCTTTG 58.964 45.455 0.00 0.00 0.00 2.77
954 2015 2.985282 CACTGGTGGGCGCATGTT 60.985 61.111 10.83 0.00 0.00 2.71
966 2027 3.896648 AACTAATTTGTCGTGCACTGG 57.103 42.857 16.19 0.00 0.00 4.00
975 2036 5.854866 GGCGGTTTCAACTAACTAATTTGTC 59.145 40.000 0.00 0.00 0.00 3.18
984 2045 2.629639 CCATGGCGGTTTCAACTAAC 57.370 50.000 0.00 0.00 0.00 2.34
1010 2076 4.415332 CCTCCACCCACGACGTCG 62.415 72.222 34.58 34.58 46.33 5.12
1053 2119 2.074576 GATGATGATGATGGCTCGTGG 58.925 52.381 0.00 0.00 0.00 4.94
1066 2138 0.687427 TGCTCCACCTCCGATGATGA 60.687 55.000 0.00 0.00 0.00 2.92
1067 2139 0.178767 TTGCTCCACCTCCGATGATG 59.821 55.000 0.00 0.00 0.00 3.07
1068 2140 1.135094 ATTGCTCCACCTCCGATGAT 58.865 50.000 0.00 0.00 0.00 2.45
1069 2141 0.178767 CATTGCTCCACCTCCGATGA 59.821 55.000 0.00 0.00 0.00 2.92
1070 2142 0.816825 CCATTGCTCCACCTCCGATG 60.817 60.000 0.00 0.00 0.00 3.84
1071 2143 1.528824 CCATTGCTCCACCTCCGAT 59.471 57.895 0.00 0.00 0.00 4.18
1168 2240 3.909651 GTGGTGGAAGGGGCCCAA 61.910 66.667 27.72 3.95 35.12 4.12
1202 2274 2.718487 TTTGTGCTGCTCCATGGGCT 62.718 55.000 21.23 0.00 0.00 5.19
1450 2522 1.447838 CATTGGGCGCGTAGTCTGT 60.448 57.895 8.43 0.00 0.00 3.41
1583 2655 3.292460 ACCGATGTTTTTCCACCTTCAA 58.708 40.909 0.00 0.00 0.00 2.69
1630 2702 8.915057 ACTCAGGATCATGTAGGAATAATTTG 57.085 34.615 7.33 0.00 0.00 2.32
1791 2907 2.073037 GACTCCGGCGGTAGATGTCC 62.073 65.000 27.32 4.11 0.00 4.02
2025 3144 1.361668 CCTCGAACGCCATCAGGTTG 61.362 60.000 0.00 0.00 37.19 3.77
2443 3562 6.424207 GCCCGCTACTTATGGCTATAATATTC 59.576 42.308 2.68 0.00 40.77 1.75
2445 3564 5.855045 GCCCGCTACTTATGGCTATAATAT 58.145 41.667 2.68 0.00 40.77 1.28
2479 3599 1.078759 CGCTAACAGTTGGGAGCTCG 61.079 60.000 7.83 0.00 32.60 5.03
2504 3752 4.142622 TGCATGCACAAGTATTTCAGCTAC 60.143 41.667 18.46 0.00 0.00 3.58
2525 3773 0.447801 CCTGTAGTTCGTGGCAATGC 59.552 55.000 0.00 0.00 0.00 3.56
2526 3774 1.464608 CACCTGTAGTTCGTGGCAATG 59.535 52.381 0.00 0.00 0.00 2.82
2527 3775 1.346395 TCACCTGTAGTTCGTGGCAAT 59.654 47.619 0.00 0.00 0.00 3.56
2528 3776 0.753867 TCACCTGTAGTTCGTGGCAA 59.246 50.000 0.00 0.00 0.00 4.52
2538 3786 3.119919 GGTGTCTCGTACTTCACCTGTAG 60.120 52.174 14.09 0.00 44.57 2.74
2576 3824 5.478407 TCAACGCATCTAAGATCTGACAAA 58.522 37.500 0.00 0.00 0.00 2.83
2604 3852 7.177498 TGCTGAATCATTTGATATACACGTC 57.823 36.000 0.00 0.00 33.73 4.34
2680 4787 4.811557 AGTAAGCCGATTGACATTTAGCTC 59.188 41.667 0.00 0.00 0.00 4.09
2697 4804 8.552034 CAACTGACCATAATAGCTAAAGTAAGC 58.448 37.037 0.00 0.00 43.11 3.09
2713 4820 6.494491 TCCTTCATTCAAAATCAACTGACCAT 59.506 34.615 0.00 0.00 0.00 3.55
2722 4829 3.515104 GGCCCTTCCTTCATTCAAAATCA 59.485 43.478 0.00 0.00 0.00 2.57
3147 5254 2.440817 ATCCCTTTAGCCCCGACGG 61.441 63.158 6.99 6.99 0.00 4.79
3150 5257 2.752807 GCCATCCCTTTAGCCCCGA 61.753 63.158 0.00 0.00 0.00 5.14
3151 5258 2.203351 GCCATCCCTTTAGCCCCG 60.203 66.667 0.00 0.00 0.00 5.73
3153 5260 2.203351 CGGCCATCCCTTTAGCCC 60.203 66.667 2.24 0.00 42.66 5.19
3154 5261 2.203351 CCGGCCATCCCTTTAGCC 60.203 66.667 2.24 0.00 42.18 3.93
3156 5263 2.591715 CGCCGGCCATCCCTTTAG 60.592 66.667 23.46 0.00 0.00 1.85
3157 5264 4.183858 CCGCCGGCCATCCCTTTA 62.184 66.667 23.46 0.00 0.00 1.85
3177 5284 4.043200 GCCAGTTGGTCTTGCCGC 62.043 66.667 0.00 0.00 41.21 6.53
3178 5285 2.133742 CTTGCCAGTTGGTCTTGCCG 62.134 60.000 0.00 0.00 41.21 5.69
3188 5295 3.071457 AGCTTTAATTTGGCTTGCCAGTT 59.929 39.130 14.33 14.83 31.81 3.16
3198 5305 9.150348 CCCAACTTTGTATTAGCTTTAATTTGG 57.850 33.333 0.00 0.00 0.00 3.28
3203 5310 7.722285 AGTGACCCAACTTTGTATTAGCTTTAA 59.278 33.333 0.00 0.00 0.00 1.52
3204 5311 7.228590 AGTGACCCAACTTTGTATTAGCTTTA 58.771 34.615 0.00 0.00 0.00 1.85
3205 5312 6.068670 AGTGACCCAACTTTGTATTAGCTTT 58.931 36.000 0.00 0.00 0.00 3.51
3206 5313 5.631119 AGTGACCCAACTTTGTATTAGCTT 58.369 37.500 0.00 0.00 0.00 3.74
3207 5314 5.242795 AGTGACCCAACTTTGTATTAGCT 57.757 39.130 0.00 0.00 0.00 3.32
3208 5315 5.959618 AAGTGACCCAACTTTGTATTAGC 57.040 39.130 0.00 0.00 37.05 3.09
3211 5318 8.919145 TCAAAATAAGTGACCCAACTTTGTATT 58.081 29.630 0.00 0.00 40.77 1.89
3212 5319 8.472007 TCAAAATAAGTGACCCAACTTTGTAT 57.528 30.769 0.00 0.00 40.77 2.29
3213 5320 7.883391 TCAAAATAAGTGACCCAACTTTGTA 57.117 32.000 0.00 0.00 40.77 2.41
3214 5321 6.783708 TCAAAATAAGTGACCCAACTTTGT 57.216 33.333 0.00 0.00 40.77 2.83
3215 5322 7.114811 CGATTCAAAATAAGTGACCCAACTTTG 59.885 37.037 0.00 0.00 40.77 2.77
3216 5323 7.145323 CGATTCAAAATAAGTGACCCAACTTT 58.855 34.615 0.00 0.00 40.77 2.66
3217 5324 6.294508 CCGATTCAAAATAAGTGACCCAACTT 60.295 38.462 0.00 0.00 42.89 2.66
3218 5325 5.183140 CCGATTCAAAATAAGTGACCCAACT 59.817 40.000 0.00 0.00 0.00 3.16
3219 5326 5.182380 TCCGATTCAAAATAAGTGACCCAAC 59.818 40.000 0.00 0.00 0.00 3.77
3220 5327 5.317808 TCCGATTCAAAATAAGTGACCCAA 58.682 37.500 0.00 0.00 0.00 4.12
3221 5328 4.912586 TCCGATTCAAAATAAGTGACCCA 58.087 39.130 0.00 0.00 0.00 4.51
3222 5329 4.335594 CCTCCGATTCAAAATAAGTGACCC 59.664 45.833 0.00 0.00 0.00 4.46
3223 5330 4.335594 CCCTCCGATTCAAAATAAGTGACC 59.664 45.833 0.00 0.00 0.00 4.02
3224 5331 5.183228 TCCCTCCGATTCAAAATAAGTGAC 58.817 41.667 0.00 0.00 0.00 3.67
3225 5332 5.045869 ACTCCCTCCGATTCAAAATAAGTGA 60.046 40.000 0.00 0.00 0.00 3.41
3226 5333 5.186198 ACTCCCTCCGATTCAAAATAAGTG 58.814 41.667 0.00 0.00 0.00 3.16
3227 5334 5.437191 ACTCCCTCCGATTCAAAATAAGT 57.563 39.130 0.00 0.00 0.00 2.24
3228 5335 6.583562 ACTACTCCCTCCGATTCAAAATAAG 58.416 40.000 0.00 0.00 0.00 1.73
3229 5336 6.555463 ACTACTCCCTCCGATTCAAAATAA 57.445 37.500 0.00 0.00 0.00 1.40
3230 5337 7.664552 TTACTACTCCCTCCGATTCAAAATA 57.335 36.000 0.00 0.00 0.00 1.40
3231 5338 6.555463 TTACTACTCCCTCCGATTCAAAAT 57.445 37.500 0.00 0.00 0.00 1.82
3232 5339 6.013984 AGTTTACTACTCCCTCCGATTCAAAA 60.014 38.462 0.00 0.00 28.23 2.44
3233 5340 5.482878 AGTTTACTACTCCCTCCGATTCAAA 59.517 40.000 0.00 0.00 28.23 2.69
3234 5341 5.021458 AGTTTACTACTCCCTCCGATTCAA 58.979 41.667 0.00 0.00 28.23 2.69
3235 5342 4.607239 AGTTTACTACTCCCTCCGATTCA 58.393 43.478 0.00 0.00 28.23 2.57
3236 5343 5.595257 AAGTTTACTACTCCCTCCGATTC 57.405 43.478 0.00 0.00 35.54 2.52
3237 5344 6.405176 CGTTAAGTTTACTACTCCCTCCGATT 60.405 42.308 0.00 0.00 35.54 3.34
3238 5345 5.067023 CGTTAAGTTTACTACTCCCTCCGAT 59.933 44.000 0.00 0.00 35.54 4.18
3239 5346 4.396166 CGTTAAGTTTACTACTCCCTCCGA 59.604 45.833 0.00 0.00 35.54 4.55
3240 5347 4.666237 CGTTAAGTTTACTACTCCCTCCG 58.334 47.826 0.00 0.00 35.54 4.63
3241 5348 4.428209 GCGTTAAGTTTACTACTCCCTCC 58.572 47.826 0.00 0.00 35.54 4.30
3242 5349 4.101235 CGCGTTAAGTTTACTACTCCCTC 58.899 47.826 0.00 0.00 35.54 4.30
3243 5350 3.119352 CCGCGTTAAGTTTACTACTCCCT 60.119 47.826 4.92 0.00 35.54 4.20
3244 5351 3.182182 CCGCGTTAAGTTTACTACTCCC 58.818 50.000 4.92 0.00 35.54 4.30
3245 5352 2.600420 GCCGCGTTAAGTTTACTACTCC 59.400 50.000 4.92 0.00 35.54 3.85
3246 5353 3.505836 AGCCGCGTTAAGTTTACTACTC 58.494 45.455 4.92 0.00 35.54 2.59
3247 5354 3.582714 AGCCGCGTTAAGTTTACTACT 57.417 42.857 4.92 0.00 39.32 2.57
3248 5355 3.674753 TCAAGCCGCGTTAAGTTTACTAC 59.325 43.478 4.92 0.00 0.00 2.73
3263 5370 0.463295 AGCAGGTGATCATCAAGCCG 60.463 55.000 16.85 4.08 0.00 5.52
3264 5371 1.307097 GAGCAGGTGATCATCAAGCC 58.693 55.000 16.85 5.62 0.00 4.35
3295 5402 2.808543 CCTCTCAAGAAACAAAGGGACG 59.191 50.000 0.00 0.00 0.00 4.79
3296 5403 2.554462 GCCTCTCAAGAAACAAAGGGAC 59.446 50.000 0.00 0.00 0.00 4.46
3305 5412 3.328931 AGAAGTGGATGCCTCTCAAGAAA 59.671 43.478 0.00 0.00 0.00 2.52
3345 5452 2.181954 TGTGGGCCATTTGCAAATTC 57.818 45.000 21.95 15.64 43.89 2.17
3346 5453 2.040012 TCATGTGGGCCATTTGCAAATT 59.960 40.909 21.95 5.19 43.89 1.82
3347 5454 1.629353 TCATGTGGGCCATTTGCAAAT 59.371 42.857 18.99 18.99 43.89 2.32
3348 5455 1.002201 CTCATGTGGGCCATTTGCAAA 59.998 47.619 15.44 15.44 43.89 3.68
3349 5456 0.609151 CTCATGTGGGCCATTTGCAA 59.391 50.000 10.70 0.00 43.89 4.08
3351 5458 0.108520 CACTCATGTGGGCCATTTGC 60.109 55.000 10.70 0.00 40.33 3.68
3352 5459 0.108520 GCACTCATGTGGGCCATTTG 60.109 55.000 10.70 11.09 43.97 2.32
3353 5460 1.259840 GGCACTCATGTGGGCCATTT 61.260 55.000 31.25 0.00 45.70 2.32
3354 5461 1.683365 GGCACTCATGTGGGCCATT 60.683 57.895 31.25 0.00 45.70 3.16
3358 5465 3.884704 TTGGGGCACTCATGTGGGC 62.885 63.158 13.61 13.61 43.97 5.36
3359 5466 1.978617 GTTGGGGCACTCATGTGGG 60.979 63.158 0.00 0.00 43.97 4.61
3360 5467 1.228521 TGTTGGGGCACTCATGTGG 60.229 57.895 0.00 0.00 43.97 4.17
3361 5468 0.822944 TGTGTTGGGGCACTCATGTG 60.823 55.000 0.00 0.00 46.37 3.21
3362 5469 0.112995 ATGTGTTGGGGCACTCATGT 59.887 50.000 0.00 0.00 39.89 3.21
3363 5470 1.067425 CAATGTGTTGGGGCACTCATG 60.067 52.381 0.00 0.00 39.89 3.07
3364 5471 1.259609 CAATGTGTTGGGGCACTCAT 58.740 50.000 0.00 0.00 39.89 2.90
3365 5472 1.462731 GCAATGTGTTGGGGCACTCA 61.463 55.000 0.00 0.00 39.89 3.41
3366 5473 1.290009 GCAATGTGTTGGGGCACTC 59.710 57.895 0.00 0.00 39.89 3.51
3367 5474 2.209315 GGCAATGTGTTGGGGCACT 61.209 57.895 0.00 0.00 39.89 4.40
3368 5475 2.343387 GGCAATGTGTTGGGGCAC 59.657 61.111 0.00 0.00 39.65 5.01
3369 5476 2.123121 TGGCAATGTGTTGGGGCA 60.123 55.556 0.00 0.00 35.83 5.36
3370 5477 1.829523 ATGTGGCAATGTGTTGGGGC 61.830 55.000 0.00 0.00 35.83 5.80
3371 5478 0.247185 GATGTGGCAATGTGTTGGGG 59.753 55.000 0.00 0.00 35.83 4.96
3372 5479 0.967662 TGATGTGGCAATGTGTTGGG 59.032 50.000 0.00 0.00 35.83 4.12
3373 5480 3.731565 CGTATGATGTGGCAATGTGTTGG 60.732 47.826 0.00 0.00 35.83 3.77
3374 5481 3.428163 CGTATGATGTGGCAATGTGTTG 58.572 45.455 0.00 0.00 38.39 3.33
3375 5482 2.159393 GCGTATGATGTGGCAATGTGTT 60.159 45.455 0.00 0.00 0.00 3.32
3376 5483 1.401552 GCGTATGATGTGGCAATGTGT 59.598 47.619 0.00 0.00 0.00 3.72
3377 5484 1.672363 AGCGTATGATGTGGCAATGTG 59.328 47.619 0.00 0.00 0.00 3.21
3378 5485 2.042686 AGCGTATGATGTGGCAATGT 57.957 45.000 0.00 0.00 0.00 2.71
3379 5486 2.355444 TCAAGCGTATGATGTGGCAATG 59.645 45.455 0.00 0.00 0.00 2.82
3380 5487 2.355756 GTCAAGCGTATGATGTGGCAAT 59.644 45.455 0.00 0.00 0.00 3.56
3381 5488 1.737236 GTCAAGCGTATGATGTGGCAA 59.263 47.619 0.00 0.00 0.00 4.52
3382 5489 1.368641 GTCAAGCGTATGATGTGGCA 58.631 50.000 0.00 0.00 0.00 4.92
3383 5490 0.657840 GGTCAAGCGTATGATGTGGC 59.342 55.000 0.00 0.00 0.00 5.01
3384 5491 0.930310 CGGTCAAGCGTATGATGTGG 59.070 55.000 0.00 0.00 0.00 4.17
3385 5492 1.640428 ACGGTCAAGCGTATGATGTG 58.360 50.000 5.31 0.00 0.00 3.21
3386 5493 2.268298 GAACGGTCAAGCGTATGATGT 58.732 47.619 7.75 0.00 0.00 3.06
3387 5494 1.593006 GGAACGGTCAAGCGTATGATG 59.407 52.381 7.75 0.00 0.00 3.07
3388 5495 1.480954 AGGAACGGTCAAGCGTATGAT 59.519 47.619 7.75 0.00 0.00 2.45
3389 5496 0.892755 AGGAACGGTCAAGCGTATGA 59.107 50.000 7.75 0.00 0.00 2.15
3390 5497 0.999406 CAGGAACGGTCAAGCGTATG 59.001 55.000 7.75 4.25 0.00 2.39
3391 5498 0.606604 ACAGGAACGGTCAAGCGTAT 59.393 50.000 7.75 0.00 22.90 3.06
3392 5499 2.043625 ACAGGAACGGTCAAGCGTA 58.956 52.632 7.75 0.00 22.90 4.42
3393 5500 2.819550 ACAGGAACGGTCAAGCGT 59.180 55.556 1.31 0.73 22.90 5.07
3400 5507 0.250727 CCCACATTGACAGGAACGGT 60.251 55.000 0.00 0.00 41.13 4.83
3401 5508 0.960364 CCCCACATTGACAGGAACGG 60.960 60.000 0.00 0.00 0.00 4.44
3402 5509 0.960364 CCCCCACATTGACAGGAACG 60.960 60.000 0.00 0.00 0.00 3.95
3403 5510 2.961424 CCCCCACATTGACAGGAAC 58.039 57.895 0.00 0.00 0.00 3.62
3427 5534 6.391227 AAATAGAAATTATGGCCTCAACGG 57.609 37.500 3.32 0.00 0.00 4.44
3428 5535 6.198966 GCAAAATAGAAATTATGGCCTCAACG 59.801 38.462 3.32 0.00 0.00 4.10
3429 5536 6.479990 GGCAAAATAGAAATTATGGCCTCAAC 59.520 38.462 3.32 0.00 34.91 3.18
3430 5537 6.155910 TGGCAAAATAGAAATTATGGCCTCAA 59.844 34.615 3.32 0.00 36.95 3.02
3431 5538 5.660417 TGGCAAAATAGAAATTATGGCCTCA 59.340 36.000 3.32 0.00 36.95 3.86
3432 5539 5.985530 GTGGCAAAATAGAAATTATGGCCTC 59.014 40.000 3.32 0.00 36.95 4.70
3433 5540 5.662657 AGTGGCAAAATAGAAATTATGGCCT 59.337 36.000 3.32 0.00 36.95 5.19
3434 5541 5.917462 AGTGGCAAAATAGAAATTATGGCC 58.083 37.500 0.00 0.00 36.74 5.36
3435 5542 6.698766 CAGAGTGGCAAAATAGAAATTATGGC 59.301 38.462 0.00 0.00 0.00 4.40
3436 5543 7.999679 TCAGAGTGGCAAAATAGAAATTATGG 58.000 34.615 0.00 0.00 0.00 2.74
3437 5544 9.459640 CATCAGAGTGGCAAAATAGAAATTATG 57.540 33.333 0.00 0.00 0.00 1.90


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

AutoCloner maintained by Alex Coulton.