Multiple sequence alignment - TraesCS1A01G267300

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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 TraesCS1A01G267300 chr1A 100.000 2617 0 0 1803 4419 462437213 462434597 0.000000e+00 4833
1 TraesCS1A01G267300 chr1A 100.000 1298 0 0 1 1298 462439015 462437718 0.000000e+00 2398
2 TraesCS1A01G267300 chr1B 93.002 2072 117 13 2196 4253 486545697 486543640 0.000000e+00 2998
3 TraesCS1A01G267300 chr1B 86.194 1311 133 25 1 1298 486547505 486546230 0.000000e+00 1375
4 TraesCS1A01G267300 chr1B 92.487 386 23 3 1812 2193 486546125 486545742 8.360000e-152 547
5 TraesCS1A01G267300 chr1D 92.178 2135 99 24 2196 4304 363281991 363279899 0.000000e+00 2955
6 TraesCS1A01G267300 chr1D 86.384 1322 128 31 1 1298 363283783 363282490 0.000000e+00 1397
7 TraesCS1A01G267300 chr1D 92.875 393 22 4 1807 2193 363282428 363282036 2.310000e-157 566
8 TraesCS1A01G267300 chr1D 90.196 102 9 1 2426 2526 363281864 363281763 9.970000e-27 132
9 TraesCS1A01G267300 chr3B 93.246 918 37 10 2199 3110 80773769 80772871 0.000000e+00 1328
10 TraesCS1A01G267300 chr3B 92.621 393 18 6 1807 2195 80774202 80773817 4.990000e-154 555
11 TraesCS1A01G267300 chr6B 92.702 918 43 9 2199 3110 44468808 44467909 0.000000e+00 1303
12 TraesCS1A01G267300 chr6B 91.603 393 22 6 1807 2195 44469241 44468856 2.340000e-147 532
13 TraesCS1A01G267300 chr7B 93.373 845 34 7 2270 3110 478084504 478083678 0.000000e+00 1230
14 TraesCS1A01G267300 chr7B 94.004 467 19 4 2270 2735 478086479 478086021 0.000000e+00 699
15 TraesCS1A01G267300 chr7B 92.621 393 17 7 1807 2195 478085350 478084966 4.990000e-154 555
16 TraesCS1A01G267300 chr7B 92.366 393 18 7 1807 2195 478092021 478091637 2.320000e-152 549
17 TraesCS1A01G267300 chr7B 94.872 78 2 2 2199 2274 478084918 478084841 2.160000e-23 121
18 TraesCS1A01G267300 chr7B 94.872 78 2 2 2199 2274 478091589 478091512 2.160000e-23 121
19 TraesCS1A01G267300 chrUn 94.004 467 19 4 2270 2735 377558579 377559037 0.000000e+00 699
20 TraesCS1A01G267300 chr3A 83.019 265 38 7 2546 2807 638203830 638203570 2.660000e-57 233
21 TraesCS1A01G267300 chr3D 82.197 264 42 5 2546 2807 496679910 496680170 5.750000e-54 222


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 TraesCS1A01G267300 chr1A 462434597 462439015 4418 True 3615.50 4833 100.00000 1 4419 2 chr1A.!!$R1 4418
1 TraesCS1A01G267300 chr1B 486543640 486547505 3865 True 1640.00 2998 90.56100 1 4253 3 chr1B.!!$R1 4252
2 TraesCS1A01G267300 chr1D 363279899 363283783 3884 True 1262.50 2955 90.40825 1 4304 4 chr1D.!!$R1 4303
3 TraesCS1A01G267300 chr3B 80772871 80774202 1331 True 941.50 1328 92.93350 1807 3110 2 chr3B.!!$R1 1303
4 TraesCS1A01G267300 chr6B 44467909 44469241 1332 True 917.50 1303 92.15250 1807 3110 2 chr6B.!!$R1 1303
5 TraesCS1A01G267300 chr7B 478083678 478086479 2801 True 651.25 1230 93.71750 1807 3110 4 chr7B.!!$R1 1303
6 TraesCS1A01G267300 chr7B 478091512 478092021 509 True 335.00 549 93.61900 1807 2274 2 chr7B.!!$R2 467

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
654 658 0.881796 TCGAGCTTCACTCATGACGT 59.118 50.000 0.00 0.0 46.63 4.34 F
1282 1313 1.062587 GCGCGCTGTAGATGTTTTGAT 59.937 47.619 26.67 0.0 0.00 2.57 F
2108 2144 2.052782 AAATGCGTTATCCAGGGTCC 57.947 50.000 0.00 0.0 0.00 4.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2095 2131 2.771943 TCACATCTGGACCCTGGATAAC 59.228 50.000 0.0 0.0 0.00 1.89 R
2896 3327 1.561542 ACCTCAGCTATTGGGTTGGAG 59.438 52.381 0.0 0.0 29.31 3.86 R
3946 4407 0.519077 GCACCTCAGCAGCAAGTAAC 59.481 55.000 0.0 0.0 0.00 2.50 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
32 33 1.913762 CACAGGTCCCCTCCTTCGT 60.914 63.158 0.00 0.00 35.37 3.85
35 36 1.272807 CAGGTCCCCTCCTTCGTTTA 58.727 55.000 0.00 0.00 35.37 2.01
62 63 4.692041 TGGCATGAGGGGGTGGGA 62.692 66.667 0.00 0.00 0.00 4.37
85 86 1.683943 CCGGATCTCCATTGCAACAT 58.316 50.000 0.00 0.00 35.14 2.71
89 90 3.627123 CGGATCTCCATTGCAACATTGTA 59.373 43.478 0.00 0.00 35.14 2.41
99 100 7.611467 TCCATTGCAACATTGTAGTTAGATCTT 59.389 33.333 0.00 0.00 0.00 2.40
104 105 9.719355 TGCAACATTGTAGTTAGATCTTTTAGA 57.281 29.630 0.00 0.00 0.00 2.10
137 138 2.736144 TCCACAACCGTGACACTATC 57.264 50.000 3.68 0.00 46.80 2.08
179 180 7.909485 ATGCAGATCCAAATAAGATTTTCCT 57.091 32.000 0.00 0.00 0.00 3.36
201 202 1.541310 TTCTTGGCCCACTCGTCGAT 61.541 55.000 0.00 0.00 0.00 3.59
239 240 2.131709 CAGAGGACGGCGGGGATAA 61.132 63.158 13.24 0.00 0.00 1.75
267 268 7.010552 CCAGTCATTGTTCTTACATAGTAGTGC 59.989 40.741 0.00 0.00 33.44 4.40
270 271 8.883731 GTCATTGTTCTTACATAGTAGTGCATT 58.116 33.333 0.00 0.00 33.44 3.56
273 274 7.609760 TGTTCTTACATAGTAGTGCATTTGG 57.390 36.000 0.00 0.00 0.00 3.28
276 277 7.609760 TCTTACATAGTAGTGCATTTGGTTG 57.390 36.000 0.00 0.00 0.00 3.77
277 278 4.701956 ACATAGTAGTGCATTTGGTTGC 57.298 40.909 0.00 0.00 43.07 4.17
292 294 1.064060 GGTTGCATCTCCGTGTTATGC 59.936 52.381 0.00 0.00 44.94 3.14
320 323 4.307432 GTCTCAAAGTTGTCTTCCGATGA 58.693 43.478 0.00 0.00 32.90 2.92
326 329 2.368875 AGTTGTCTTCCGATGAAGTGGT 59.631 45.455 2.56 0.00 46.66 4.16
353 356 1.092345 GCTTCGCATCTTGGTCCTCC 61.092 60.000 0.00 0.00 0.00 4.30
383 386 2.602257 TTGATCGGCGACATTCAGAT 57.398 45.000 13.76 0.00 0.00 2.90
385 388 3.288809 TGATCGGCGACATTCAGATAG 57.711 47.619 13.76 0.00 0.00 2.08
389 392 3.444916 TCGGCGACATTCAGATAGTTTC 58.555 45.455 4.99 0.00 0.00 2.78
390 393 3.119280 TCGGCGACATTCAGATAGTTTCA 60.119 43.478 4.99 0.00 0.00 2.69
392 395 3.001736 GGCGACATTCAGATAGTTTCAGC 59.998 47.826 0.00 0.00 0.00 4.26
400 403 1.189403 GATAGTTTCAGCGTCGTCGG 58.811 55.000 3.90 0.00 37.56 4.79
424 427 4.223032 TGAACTTGTCAGGTTATCTCTCCC 59.777 45.833 0.00 0.00 0.00 4.30
442 445 6.495181 TCTCTCCCTGAATATGTCTGGTTATC 59.505 42.308 8.76 0.00 42.47 1.75
448 451 6.496565 CCTGAATATGTCTGGTTATCTCTCCT 59.503 42.308 0.00 0.00 39.84 3.69
461 464 8.206867 TGGTTATCTCTCCTTGAATATGTTCTG 58.793 37.037 3.72 0.00 35.33 3.02
471 474 4.948847 TGAATATGTTCTGGTCGGATCTG 58.051 43.478 3.72 0.00 35.33 2.90
496 499 1.340114 GGTCATCCAACCCTCTTCACC 60.340 57.143 0.00 0.00 32.82 4.02
526 529 4.506886 TTCCACAACGTCTGTTTGTTTT 57.493 36.364 0.00 0.00 35.47 2.43
532 535 1.404035 ACGTCTGTTTGTTTTCCAGGC 59.596 47.619 0.00 0.00 0.00 4.85
533 536 1.676006 CGTCTGTTTGTTTTCCAGGCT 59.324 47.619 0.00 0.00 0.00 4.58
540 543 1.021202 TGTTTTCCAGGCTGTTGTCG 58.979 50.000 14.43 0.00 0.00 4.35
557 561 2.034879 CGCCGACATGTTCTGGCTT 61.035 57.895 25.61 0.00 40.03 4.35
562 566 2.146342 CGACATGTTCTGGCTTTGACT 58.854 47.619 0.00 0.00 0.00 3.41
564 568 3.141398 GACATGTTCTGGCTTTGACTGA 58.859 45.455 0.00 0.00 0.00 3.41
577 581 0.894184 TGACTGACGACTCCCTGACC 60.894 60.000 0.00 0.00 0.00 4.02
579 583 3.343788 CTGACGACTCCCTGACCGC 62.344 68.421 0.00 0.00 0.00 5.68
605 609 4.280436 TCAACAACGTGTCCTTGGATAT 57.720 40.909 0.00 0.00 0.00 1.63
615 619 5.866092 CGTGTCCTTGGATATGATGATGTAG 59.134 44.000 0.04 0.00 0.00 2.74
628 632 5.559770 TGATGATGTAGCAGAGGTTCAAAA 58.440 37.500 0.00 0.00 0.00 2.44
654 658 0.881796 TCGAGCTTCACTCATGACGT 59.118 50.000 0.00 0.00 46.63 4.34
658 668 1.639298 GCTTCACTCATGACGTGCCC 61.639 60.000 16.08 6.97 33.38 5.36
729 745 8.601476 GGTGTGGTAAGATTTTATCTCGTTAAG 58.399 37.037 0.00 0.00 39.08 1.85
765 781 2.571216 CCACCGATACCTAGGCCCG 61.571 68.421 9.30 9.81 0.00 6.13
948 978 4.525949 GTAGTCGCTTCCCCCGGC 62.526 72.222 0.00 0.00 0.00 6.13
965 995 1.985116 GCTGGACTCCTTCCTCCGT 60.985 63.158 0.00 0.00 46.10 4.69
970 1000 1.935327 GACTCCTTCCTCCGTGTCCG 61.935 65.000 0.00 0.00 0.00 4.79
971 1001 1.977544 CTCCTTCCTCCGTGTCCGT 60.978 63.158 0.00 0.00 0.00 4.69
972 1002 1.935327 CTCCTTCCTCCGTGTCCGTC 61.935 65.000 0.00 0.00 0.00 4.79
973 1003 2.178521 CTTCCTCCGTGTCCGTCG 59.821 66.667 0.00 0.00 0.00 5.12
977 1007 4.052229 CTCCGTGTCCGTCGCCTT 62.052 66.667 0.00 0.00 0.00 4.35
1106 1136 3.124686 TTTTTGTGGCCGTCCTGC 58.875 55.556 0.00 0.00 0.00 4.85
1146 1176 2.447408 GGGGGAATTCGGTGGTAATT 57.553 50.000 0.00 0.00 0.00 1.40
1147 1177 2.304092 GGGGGAATTCGGTGGTAATTC 58.696 52.381 0.00 0.00 40.87 2.17
1148 1178 1.944709 GGGGAATTCGGTGGTAATTCG 59.055 52.381 0.00 0.00 41.97 3.34
1149 1179 2.635714 GGGAATTCGGTGGTAATTCGT 58.364 47.619 0.00 0.00 41.97 3.85
1157 1187 3.495377 TCGGTGGTAATTCGTTCTGTTTG 59.505 43.478 0.00 0.00 0.00 2.93
1165 1195 2.536761 TCGTTCTGTTTGGTCCGAAT 57.463 45.000 0.00 0.00 0.00 3.34
1169 1199 3.367025 CGTTCTGTTTGGTCCGAATAGTC 59.633 47.826 13.74 8.63 0.00 2.59
1215 1245 1.091771 CGATGTGCCCTAAGCTGTGG 61.092 60.000 0.00 0.00 44.23 4.17
1235 1265 1.713932 GTTTTTCGGAATTGCTGTCGC 59.286 47.619 0.00 0.00 0.00 5.19
1239 1269 2.393768 CGGAATTGCTGTCGCTGCT 61.394 57.895 0.00 0.00 36.97 4.24
1282 1313 1.062587 GCGCGCTGTAGATGTTTTGAT 59.937 47.619 26.67 0.00 0.00 2.57
1283 1314 2.476185 GCGCGCTGTAGATGTTTTGATT 60.476 45.455 26.67 0.00 0.00 2.57
1284 1315 3.093574 CGCGCTGTAGATGTTTTGATTG 58.906 45.455 5.56 0.00 0.00 2.67
1285 1316 3.181521 CGCGCTGTAGATGTTTTGATTGA 60.182 43.478 5.56 0.00 0.00 2.57
1866 1897 4.080582 TGCCTTATGTGTTGCTGTACCTAT 60.081 41.667 0.00 0.00 0.00 2.57
1916 1947 7.980742 TCGCTGTACTATGTTTACTTGTATG 57.019 36.000 0.00 0.00 0.00 2.39
2006 2040 4.825422 TGTGTGGTGCTTTCAATTGAAAA 58.175 34.783 28.49 16.02 42.72 2.29
2032 2066 5.698832 TGTAAGCATGCACATAGTGAAAAC 58.301 37.500 21.98 0.00 35.23 2.43
2041 2075 5.418524 TGCACATAGTGAAAACCAGCATAAT 59.581 36.000 0.58 0.00 35.23 1.28
2095 2131 2.279741 TGAGCCTGCTTAGTAAATGCG 58.720 47.619 0.00 0.00 0.00 4.73
2107 2143 3.805207 AGTAAATGCGTTATCCAGGGTC 58.195 45.455 0.00 0.00 0.00 4.46
2108 2144 2.052782 AAATGCGTTATCCAGGGTCC 57.947 50.000 0.00 0.00 0.00 4.46
2465 2893 3.133691 CTGTTGCAGTGCTCTAGTTTCA 58.866 45.455 17.60 3.37 0.00 2.69
2532 2960 5.356882 TGCATGCCTAAATATAACGAAGC 57.643 39.130 16.68 0.00 0.00 3.86
2801 3229 2.053282 TAAATTTGCGGTGCGTTTCC 57.947 45.000 0.00 0.00 0.00 3.13
2896 3327 7.792374 TTATCTGTGAATAGTTGATTCTGGC 57.208 36.000 0.00 0.00 43.90 4.85
2909 3340 2.806945 TTCTGGCTCCAACCCAATAG 57.193 50.000 0.00 0.00 30.66 1.73
3160 3603 2.834638 AAATGGTAGGATTGCAGGCT 57.165 45.000 0.00 0.00 0.00 4.58
3318 3764 4.654262 TGGGGTAGCAAGTAGAGGATTAAG 59.346 45.833 0.00 0.00 0.00 1.85
3362 3808 5.924825 AGTAGACGTGTATTTGGTTCTGTTC 59.075 40.000 0.00 0.00 0.00 3.18
3510 3956 4.150897 TCTGGGTACTTGCCATTACATC 57.849 45.455 0.00 0.00 0.00 3.06
3576 4022 4.268405 GGTTGTTCTGTTGTTTTCTGCATG 59.732 41.667 0.00 0.00 0.00 4.06
3649 4095 5.653255 AGGATATTGCCTCCACTAATGTT 57.347 39.130 0.00 0.00 35.08 2.71
3685 4131 4.141990 CCTAGTCATAGGGATGGGGTTA 57.858 50.000 0.00 0.00 44.42 2.85
3687 4133 2.702748 AGTCATAGGGATGGGGTTACC 58.297 52.381 0.00 0.00 40.81 2.85
3741 4196 9.462174 AGTATGTTATTTGTTGTTTGTCATGTG 57.538 29.630 0.00 0.00 0.00 3.21
3769 4224 6.298361 TGGATCTGTATTATGTTGGGACATG 58.702 40.000 2.47 0.00 45.80 3.21
3946 4407 3.785505 GCAATCGAGCTGTACATTTTCGG 60.786 47.826 17.94 8.20 32.52 4.30
3970 4431 1.036481 TTGCTGCTGAGGTGCAACAA 61.036 50.000 3.64 1.87 43.76 2.83
3990 4451 4.202567 ACAACTGTGATTTCCTGGTATGGT 60.203 41.667 0.00 0.00 0.00 3.55
4007 4468 1.134848 TGGTTTGCTGTTCTTGTTGGC 60.135 47.619 0.00 0.00 0.00 4.52
4017 4478 0.320374 TCTTGTTGGCTGTACGAGGG 59.680 55.000 0.00 0.00 0.00 4.30
4018 4479 1.298859 CTTGTTGGCTGTACGAGGGC 61.299 60.000 0.00 0.00 0.00 5.19
4044 4505 7.770801 AGTTTTGCTACTTGATTTTTCAACC 57.229 32.000 0.00 0.00 0.00 3.77
4098 4559 1.795872 TGCCGAGTTACAAATGTGTCG 59.204 47.619 0.00 2.63 39.30 4.35
4192 4653 1.742761 TAAGAGCTGTGCCATTGAGC 58.257 50.000 0.00 0.00 0.00 4.26
4253 4714 4.974591 GCTTGTGTAGCTTGTTTATGGAG 58.025 43.478 0.00 0.00 46.77 3.86
4254 4715 4.142600 GCTTGTGTAGCTTGTTTATGGAGG 60.143 45.833 0.00 0.00 46.77 4.30
4255 4716 4.901197 TGTGTAGCTTGTTTATGGAGGA 57.099 40.909 0.00 0.00 0.00 3.71
4256 4717 5.235850 TGTGTAGCTTGTTTATGGAGGAA 57.764 39.130 0.00 0.00 0.00 3.36
4257 4718 5.001232 TGTGTAGCTTGTTTATGGAGGAAC 58.999 41.667 0.00 0.00 0.00 3.62
4258 4719 4.395231 GTGTAGCTTGTTTATGGAGGAACC 59.605 45.833 0.00 0.00 39.54 3.62
4259 4720 3.087370 AGCTTGTTTATGGAGGAACCC 57.913 47.619 0.00 0.00 38.00 4.11
4260 4721 2.100197 GCTTGTTTATGGAGGAACCCC 58.900 52.381 0.00 0.00 38.00 4.95
4269 4730 2.069775 TGGAGGAACCCCTGAAATTCA 58.930 47.619 0.00 0.00 44.53 2.57
4273 4734 4.325030 GGAGGAACCCCTGAAATTCATGTA 60.325 45.833 0.00 0.00 44.53 2.29
4304 4765 0.320771 GTCATGAAGGACTGCGGTGT 60.321 55.000 0.80 0.00 34.92 4.16
4305 4766 1.067142 GTCATGAAGGACTGCGGTGTA 60.067 52.381 0.80 0.00 34.92 2.90
4306 4767 1.831106 TCATGAAGGACTGCGGTGTAT 59.169 47.619 0.80 0.00 0.00 2.29
4307 4768 2.236146 TCATGAAGGACTGCGGTGTATT 59.764 45.455 0.80 0.00 0.00 1.89
4308 4769 2.851263 TGAAGGACTGCGGTGTATTT 57.149 45.000 0.80 0.00 0.00 1.40
4309 4770 2.422597 TGAAGGACTGCGGTGTATTTG 58.577 47.619 0.80 0.00 0.00 2.32
4310 4771 1.737793 GAAGGACTGCGGTGTATTTGG 59.262 52.381 0.80 0.00 0.00 3.28
4311 4772 0.035439 AGGACTGCGGTGTATTTGGG 60.035 55.000 0.80 0.00 0.00 4.12
4312 4773 1.029947 GGACTGCGGTGTATTTGGGG 61.030 60.000 0.80 0.00 0.00 4.96
4313 4774 0.322187 GACTGCGGTGTATTTGGGGT 60.322 55.000 0.80 0.00 0.00 4.95
4314 4775 0.608035 ACTGCGGTGTATTTGGGGTG 60.608 55.000 0.00 0.00 0.00 4.61
4315 4776 0.608035 CTGCGGTGTATTTGGGGTGT 60.608 55.000 0.00 0.00 0.00 4.16
4316 4777 0.891449 TGCGGTGTATTTGGGGTGTG 60.891 55.000 0.00 0.00 0.00 3.82
4317 4778 1.591504 GCGGTGTATTTGGGGTGTGG 61.592 60.000 0.00 0.00 0.00 4.17
4318 4779 0.037017 CGGTGTATTTGGGGTGTGGA 59.963 55.000 0.00 0.00 0.00 4.02
4319 4780 1.545875 CGGTGTATTTGGGGTGTGGAA 60.546 52.381 0.00 0.00 0.00 3.53
4320 4781 1.890489 GGTGTATTTGGGGTGTGGAAC 59.110 52.381 0.00 0.00 37.35 3.62
4321 4782 2.490168 GGTGTATTTGGGGTGTGGAACT 60.490 50.000 0.00 0.00 38.04 3.01
4322 4783 2.817844 GTGTATTTGGGGTGTGGAACTC 59.182 50.000 0.00 0.00 38.04 3.01
4323 4784 2.443632 TGTATTTGGGGTGTGGAACTCA 59.556 45.455 0.00 0.00 38.04 3.41
4324 4785 2.765689 ATTTGGGGTGTGGAACTCAA 57.234 45.000 0.00 0.00 38.04 3.02
4325 4786 2.765689 TTTGGGGTGTGGAACTCAAT 57.234 45.000 0.00 0.00 38.04 2.57
4326 4787 1.993956 TTGGGGTGTGGAACTCAATG 58.006 50.000 0.00 0.00 38.04 2.82
4327 4788 0.112218 TGGGGTGTGGAACTCAATGG 59.888 55.000 0.00 0.00 38.04 3.16
4328 4789 0.112412 GGGGTGTGGAACTCAATGGT 59.888 55.000 0.00 0.00 38.04 3.55
4329 4790 1.480498 GGGGTGTGGAACTCAATGGTT 60.480 52.381 0.00 0.00 38.04 3.67
4330 4791 2.224917 GGGGTGTGGAACTCAATGGTTA 60.225 50.000 0.00 0.00 38.04 2.85
4331 4792 3.492337 GGGTGTGGAACTCAATGGTTAA 58.508 45.455 0.00 0.00 38.04 2.01
4332 4793 4.086457 GGGTGTGGAACTCAATGGTTAAT 58.914 43.478 0.00 0.00 38.04 1.40
4333 4794 5.258051 GGGTGTGGAACTCAATGGTTAATA 58.742 41.667 0.00 0.00 38.04 0.98
4334 4795 5.891551 GGGTGTGGAACTCAATGGTTAATAT 59.108 40.000 0.00 0.00 38.04 1.28
4335 4796 6.183360 GGGTGTGGAACTCAATGGTTAATATG 60.183 42.308 0.00 0.00 38.04 1.78
4336 4797 6.183360 GGTGTGGAACTCAATGGTTAATATGG 60.183 42.308 0.00 0.00 38.04 2.74
4337 4798 5.359576 TGTGGAACTCAATGGTTAATATGGC 59.640 40.000 0.00 0.00 38.04 4.40
4338 4799 5.594317 GTGGAACTCAATGGTTAATATGGCT 59.406 40.000 0.00 0.00 0.00 4.75
4339 4800 6.770785 GTGGAACTCAATGGTTAATATGGCTA 59.229 38.462 0.00 0.00 0.00 3.93
4340 4801 7.448469 GTGGAACTCAATGGTTAATATGGCTAT 59.552 37.037 0.00 0.00 0.00 2.97
4341 4802 8.664992 TGGAACTCAATGGTTAATATGGCTATA 58.335 33.333 0.00 0.00 0.00 1.31
4342 4803 8.947115 GGAACTCAATGGTTAATATGGCTATAC 58.053 37.037 0.00 0.00 0.00 1.47
4343 4804 9.502091 GAACTCAATGGTTAATATGGCTATACA 57.498 33.333 0.00 0.00 0.00 2.29
4345 4806 9.453572 ACTCAATGGTTAATATGGCTATACATG 57.546 33.333 0.00 0.00 32.39 3.21
4346 4807 8.279970 TCAATGGTTAATATGGCTATACATGC 57.720 34.615 0.00 0.00 32.39 4.06
4347 4808 8.108999 TCAATGGTTAATATGGCTATACATGCT 58.891 33.333 0.00 0.00 32.39 3.79
4348 4809 7.870509 ATGGTTAATATGGCTATACATGCTG 57.129 36.000 0.00 0.00 32.39 4.41
4349 4810 5.647658 TGGTTAATATGGCTATACATGCTGC 59.352 40.000 0.00 0.00 32.39 5.25
4350 4811 5.066505 GGTTAATATGGCTATACATGCTGCC 59.933 44.000 10.65 10.65 45.10 4.85
4351 4812 4.581309 AATATGGCTATACATGCTGCCT 57.419 40.909 16.19 7.68 45.11 4.75
4352 4813 5.698741 AATATGGCTATACATGCTGCCTA 57.301 39.130 16.19 9.07 45.11 3.93
4353 4814 5.901413 ATATGGCTATACATGCTGCCTAT 57.099 39.130 16.19 11.63 45.11 2.57
4354 4815 3.339253 TGGCTATACATGCTGCCTATG 57.661 47.619 16.19 0.00 45.11 2.23
4355 4816 2.639347 TGGCTATACATGCTGCCTATGT 59.361 45.455 16.19 10.03 45.11 2.29
4356 4817 3.005554 GGCTATACATGCTGCCTATGTG 58.994 50.000 13.92 1.57 41.92 3.21
4357 4818 3.005554 GCTATACATGCTGCCTATGTGG 58.994 50.000 13.92 6.90 39.03 4.17
4370 4831 3.347216 CCTATGTGGCTTAAAGTGCAGT 58.653 45.455 0.00 0.00 0.00 4.40
4371 4832 4.513442 CCTATGTGGCTTAAAGTGCAGTA 58.487 43.478 0.00 0.00 0.00 2.74
4372 4833 5.126067 CCTATGTGGCTTAAAGTGCAGTAT 58.874 41.667 0.00 0.00 0.00 2.12
4373 4834 4.970662 ATGTGGCTTAAAGTGCAGTATG 57.029 40.909 0.00 0.00 40.87 2.39
4374 4835 3.750371 TGTGGCTTAAAGTGCAGTATGT 58.250 40.909 0.00 0.00 39.31 2.29
4375 4836 4.141287 TGTGGCTTAAAGTGCAGTATGTT 58.859 39.130 0.00 0.00 39.31 2.71
4376 4837 4.023279 TGTGGCTTAAAGTGCAGTATGTTG 60.023 41.667 0.00 0.00 39.31 3.33
4377 4838 3.505680 TGGCTTAAAGTGCAGTATGTTGG 59.494 43.478 0.00 0.00 39.31 3.77
4378 4839 3.119495 GGCTTAAAGTGCAGTATGTTGGG 60.119 47.826 0.00 0.00 39.31 4.12
4379 4840 3.673323 GCTTAAAGTGCAGTATGTTGGGC 60.673 47.826 0.00 0.00 39.31 5.36
4380 4841 1.993956 AAAGTGCAGTATGTTGGGCA 58.006 45.000 0.00 0.00 39.31 5.36
4381 4842 2.220653 AAGTGCAGTATGTTGGGCAT 57.779 45.000 0.00 0.00 38.68 4.40
4382 4843 1.755179 AGTGCAGTATGTTGGGCATC 58.245 50.000 0.00 0.00 38.68 3.91
4383 4844 0.378257 GTGCAGTATGTTGGGCATCG 59.622 55.000 0.00 0.00 38.68 3.84
4384 4845 0.035534 TGCAGTATGTTGGGCATCGT 60.036 50.000 0.00 0.00 39.31 3.73
4385 4846 1.208293 TGCAGTATGTTGGGCATCGTA 59.792 47.619 0.00 0.00 39.31 3.43
4386 4847 2.158827 TGCAGTATGTTGGGCATCGTAT 60.159 45.455 0.00 0.00 39.31 3.06
4387 4848 3.070302 TGCAGTATGTTGGGCATCGTATA 59.930 43.478 0.00 0.00 39.31 1.47
4388 4849 3.679980 GCAGTATGTTGGGCATCGTATAG 59.320 47.826 0.00 0.00 39.31 1.31
4389 4850 4.799586 GCAGTATGTTGGGCATCGTATAGT 60.800 45.833 0.00 0.00 39.31 2.12
4390 4851 5.297547 CAGTATGTTGGGCATCGTATAGTT 58.702 41.667 0.00 0.00 38.94 2.24
4391 4852 5.405571 CAGTATGTTGGGCATCGTATAGTTC 59.594 44.000 0.00 0.00 38.94 3.01
4392 4853 3.897141 TGTTGGGCATCGTATAGTTCA 57.103 42.857 0.00 0.00 0.00 3.18
4393 4854 4.415881 TGTTGGGCATCGTATAGTTCAT 57.584 40.909 0.00 0.00 0.00 2.57
4394 4855 4.776349 TGTTGGGCATCGTATAGTTCATT 58.224 39.130 0.00 0.00 0.00 2.57
4395 4856 5.189928 TGTTGGGCATCGTATAGTTCATTT 58.810 37.500 0.00 0.00 0.00 2.32
4396 4857 5.295787 TGTTGGGCATCGTATAGTTCATTTC 59.704 40.000 0.00 0.00 0.00 2.17
4397 4858 5.290493 TGGGCATCGTATAGTTCATTTCT 57.710 39.130 0.00 0.00 0.00 2.52
4398 4859 5.056480 TGGGCATCGTATAGTTCATTTCTG 58.944 41.667 0.00 0.00 0.00 3.02
4399 4860 5.163353 TGGGCATCGTATAGTTCATTTCTGA 60.163 40.000 0.00 0.00 0.00 3.27
4400 4861 5.177696 GGGCATCGTATAGTTCATTTCTGAC 59.822 44.000 0.00 0.00 0.00 3.51
4401 4862 5.753438 GGCATCGTATAGTTCATTTCTGACA 59.247 40.000 0.00 0.00 0.00 3.58
4402 4863 6.257849 GGCATCGTATAGTTCATTTCTGACAA 59.742 38.462 0.00 0.00 0.00 3.18
4403 4864 7.041780 GGCATCGTATAGTTCATTTCTGACAAT 60.042 37.037 0.00 0.00 0.00 2.71
4404 4865 8.338259 GCATCGTATAGTTCATTTCTGACAATT 58.662 33.333 0.00 0.00 0.00 2.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
62 63 1.227383 GCAATGGAGATCCGGGGTT 59.773 57.895 0.00 0.00 39.43 4.11
99 100 8.889717 GTTGTGGATCCGAAATCTAATTCTAAA 58.110 33.333 7.39 0.00 0.00 1.85
137 138 1.264020 CATAATTCCGCCATCACCACG 59.736 52.381 0.00 0.00 0.00 4.94
176 177 0.620556 GAGTGGGCCAAGAATCAGGA 59.379 55.000 8.40 0.00 0.00 3.86
179 180 0.036388 GACGAGTGGGCCAAGAATCA 60.036 55.000 8.40 0.00 0.00 2.57
201 202 4.284860 CCGCCGCCGAGATCATCA 62.285 66.667 0.00 0.00 36.29 3.07
220 221 2.866523 TTATCCCCGCCGTCCTCTGT 62.867 60.000 0.00 0.00 0.00 3.41
221 222 1.472662 ATTATCCCCGCCGTCCTCTG 61.473 60.000 0.00 0.00 0.00 3.35
231 232 3.492102 ACAATGACTGGATTATCCCCG 57.508 47.619 8.98 2.57 35.03 5.73
239 240 8.982723 ACTACTATGTAAGAACAATGACTGGAT 58.017 33.333 0.00 0.00 39.58 3.41
267 268 1.541147 ACACGGAGATGCAACCAAATG 59.459 47.619 0.00 0.00 0.00 2.32
270 271 2.552599 TAACACGGAGATGCAACCAA 57.447 45.000 0.00 0.00 0.00 3.67
273 274 2.458592 GCATAACACGGAGATGCAAC 57.541 50.000 0.00 0.00 44.35 4.17
276 277 1.942657 ACATGCATAACACGGAGATGC 59.057 47.619 0.00 6.83 45.02 3.91
277 278 2.288729 CCACATGCATAACACGGAGATG 59.711 50.000 0.00 0.00 0.00 2.90
278 279 2.092968 ACCACATGCATAACACGGAGAT 60.093 45.455 0.00 0.00 0.00 2.75
282 284 1.665679 GAGACCACATGCATAACACGG 59.334 52.381 0.00 0.00 0.00 4.94
292 294 4.023707 GGAAGACAACTTTGAGACCACATG 60.024 45.833 0.00 0.00 36.39 3.21
294 296 3.541632 GGAAGACAACTTTGAGACCACA 58.458 45.455 0.00 0.00 36.39 4.17
353 356 1.432270 GCCGATCAAAGAAGGAGCCG 61.432 60.000 0.00 0.00 0.00 5.52
383 386 0.386352 CACCGACGACGCTGAAACTA 60.386 55.000 0.64 0.00 38.29 2.24
385 388 1.210545 TTCACCGACGACGCTGAAAC 61.211 55.000 14.02 0.00 39.88 2.78
389 392 1.660575 AAGTTCACCGACGACGCTG 60.661 57.895 0.64 0.00 38.29 5.18
390 393 1.660575 CAAGTTCACCGACGACGCT 60.661 57.895 0.64 0.00 38.29 5.07
392 395 0.593008 TGACAAGTTCACCGACGACG 60.593 55.000 0.00 0.00 39.43 5.12
400 403 5.172205 GGAGAGATAACCTGACAAGTTCAC 58.828 45.833 0.00 0.00 0.00 3.18
401 404 4.223032 GGGAGAGATAACCTGACAAGTTCA 59.777 45.833 0.00 0.00 0.00 3.18
424 427 7.537596 AGGAGAGATAACCAGACATATTCAG 57.462 40.000 0.00 0.00 0.00 3.02
442 445 5.046529 CGACCAGAACATATTCAAGGAGAG 58.953 45.833 2.64 0.00 37.29 3.20
448 451 5.359756 CAGATCCGACCAGAACATATTCAA 58.640 41.667 0.00 0.00 37.29 2.69
461 464 2.687566 ACCACCCCAGATCCGACC 60.688 66.667 0.00 0.00 0.00 4.79
505 508 4.477780 GAAAACAAACAGACGTTGTGGAA 58.522 39.130 0.00 0.00 40.74 3.53
509 512 3.119637 CCTGGAAAACAAACAGACGTTGT 60.120 43.478 0.00 0.00 43.45 3.32
515 518 2.733956 ACAGCCTGGAAAACAAACAGA 58.266 42.857 0.00 0.00 34.21 3.41
516 519 3.189285 CAACAGCCTGGAAAACAAACAG 58.811 45.455 0.00 0.00 0.00 3.16
520 523 1.403679 CGACAACAGCCTGGAAAACAA 59.596 47.619 0.00 0.00 0.00 2.83
532 535 0.163788 GAACATGTCGGCGACAACAG 59.836 55.000 41.49 33.36 45.96 3.16
533 536 0.249699 AGAACATGTCGGCGACAACA 60.250 50.000 41.49 23.46 45.96 3.33
540 543 0.109597 CAAAGCCAGAACATGTCGGC 60.110 55.000 20.70 20.70 42.65 5.54
557 561 0.959553 GTCAGGGAGTCGTCAGTCAA 59.040 55.000 0.00 0.00 0.00 3.18
562 566 3.371063 GCGGTCAGGGAGTCGTCA 61.371 66.667 0.00 0.00 0.00 4.35
564 568 3.374402 CAGCGGTCAGGGAGTCGT 61.374 66.667 0.00 0.00 0.00 4.34
577 581 0.722469 GACACGTTGTTGATGCAGCG 60.722 55.000 0.00 1.15 46.01 5.18
579 583 1.229428 AGGACACGTTGTTGATGCAG 58.771 50.000 0.00 0.00 0.00 4.41
605 609 4.824479 TTGAACCTCTGCTACATCATCA 57.176 40.909 0.00 0.00 0.00 3.07
615 619 0.383949 TGCCGTTTTTGAACCTCTGC 59.616 50.000 0.00 0.00 0.00 4.26
628 632 0.737715 GAGTGAAGCTCGATGCCGTT 60.738 55.000 0.00 0.00 44.23 4.44
673 686 3.902218 TGGAAATCCATGACATCTTCCC 58.098 45.455 0.00 0.00 42.01 3.97
765 781 3.426568 GGCGGCTGAGCAGTGAAC 61.427 66.667 6.82 0.00 39.27 3.18
913 929 2.801162 CACACGACGACTGCGAGG 60.801 66.667 0.00 0.00 41.64 4.63
915 931 2.178892 CTACCACACGACGACTGCGA 62.179 60.000 0.00 0.00 41.64 5.10
975 1005 2.825264 GGATCTGGGGAGGCGAAG 59.175 66.667 0.00 0.00 0.00 3.79
976 1006 3.154473 CGGATCTGGGGAGGCGAA 61.154 66.667 0.00 0.00 0.00 4.70
1106 1136 1.750399 CAATCCCAGGCCGAACCAG 60.750 63.158 0.00 0.00 43.14 4.00
1138 1168 4.319984 GGACCAAACAGAACGAATTACCAC 60.320 45.833 0.00 0.00 0.00 4.16
1139 1169 3.816523 GGACCAAACAGAACGAATTACCA 59.183 43.478 0.00 0.00 0.00 3.25
1140 1170 3.120442 CGGACCAAACAGAACGAATTACC 60.120 47.826 0.00 0.00 0.00 2.85
1141 1171 3.742369 TCGGACCAAACAGAACGAATTAC 59.258 43.478 0.00 0.00 0.00 1.89
1142 1172 3.992643 TCGGACCAAACAGAACGAATTA 58.007 40.909 0.00 0.00 0.00 1.40
1143 1173 2.841215 TCGGACCAAACAGAACGAATT 58.159 42.857 0.00 0.00 0.00 2.17
1144 1174 2.536761 TCGGACCAAACAGAACGAAT 57.463 45.000 0.00 0.00 0.00 3.34
1145 1175 2.312722 TTCGGACCAAACAGAACGAA 57.687 45.000 0.00 0.00 37.91 3.85
1146 1176 2.536761 ATTCGGACCAAACAGAACGA 57.463 45.000 0.00 0.00 0.00 3.85
1147 1177 3.323243 ACTATTCGGACCAAACAGAACG 58.677 45.455 0.00 0.00 0.00 3.95
1148 1178 3.367025 CGACTATTCGGACCAAACAGAAC 59.633 47.826 0.00 0.00 41.89 3.01
1149 1179 3.256383 TCGACTATTCGGACCAAACAGAA 59.744 43.478 2.41 0.00 45.90 3.02
1157 1187 0.674534 AGGCATCGACTATTCGGACC 59.325 55.000 2.41 2.51 45.90 4.46
1165 1195 4.513519 CCGCAAAGGCATCGACTA 57.486 55.556 0.00 0.00 41.24 2.59
1196 1226 1.091771 CCACAGCTTAGGGCACATCG 61.092 60.000 0.00 0.00 44.79 3.84
1210 1240 3.052036 CAGCAATTCCGAAAAACCACAG 58.948 45.455 0.00 0.00 0.00 3.66
1215 1245 1.713932 GCGACAGCAATTCCGAAAAAC 59.286 47.619 0.00 0.00 44.35 2.43
1239 1269 2.416107 CTGGCTGAACCTGCTTGGGA 62.416 60.000 1.69 0.00 41.11 4.37
1866 1897 8.195165 ACAATTCATATTCCGAATCTAGGAGA 57.805 34.615 0.00 0.00 39.22 3.71
1916 1947 6.446318 TGTTCAAGTGAATTAATCTGCCAAC 58.554 36.000 0.00 0.00 36.33 3.77
1931 1962 4.778534 AGGAAATCAGCATGTTCAAGTG 57.221 40.909 0.00 0.00 37.40 3.16
2006 2040 6.513806 TTCACTATGTGCATGCTTACAAAT 57.486 33.333 20.33 4.48 32.98 2.32
2041 2075 4.467082 AGATTTGGTTTTGCAGGCATATGA 59.533 37.500 6.97 0.00 0.00 2.15
2095 2131 2.771943 TCACATCTGGACCCTGGATAAC 59.228 50.000 0.00 0.00 0.00 1.89
2107 2143 6.343703 TCACAACTCTATCATTCACATCTGG 58.656 40.000 0.00 0.00 0.00 3.86
2108 2144 7.263496 TCTCACAACTCTATCATTCACATCTG 58.737 38.462 0.00 0.00 0.00 2.90
2158 2198 3.769739 TGGCTAGCCCTATAATGTGTG 57.230 47.619 30.81 0.00 34.56 3.82
2333 2761 5.611374 AGTACTGCAACAGTGTCAACTATT 58.389 37.500 10.42 0.00 45.01 1.73
2801 3229 9.025041 ACAAATTAGATAACCAGGGAGAAAAAG 57.975 33.333 0.00 0.00 0.00 2.27
2870 3301 9.494271 GCCAGAATCAACTATTCACAGATAATA 57.506 33.333 0.00 0.00 45.58 0.98
2874 3305 5.999044 AGCCAGAATCAACTATTCACAGAT 58.001 37.500 0.00 0.00 45.58 2.90
2896 3327 1.561542 ACCTCAGCTATTGGGTTGGAG 59.438 52.381 0.00 0.00 29.31 3.86
2909 3340 2.716217 AGTAATGGCAAGAACCTCAGC 58.284 47.619 0.00 0.00 0.00 4.26
2982 3413 2.208872 AGGGCATAATCTCAGGGTTGT 58.791 47.619 0.00 0.00 0.00 3.32
3160 3603 9.699410 ATAAGAATGATTTGGAGAAACACCATA 57.301 29.630 0.00 0.00 37.26 2.74
3334 3780 8.742777 ACAGAACCAAATACACGTCTACTATAA 58.257 33.333 0.00 0.00 0.00 0.98
3362 3808 2.791560 CTCGACGGCTAACATCATTCAG 59.208 50.000 0.00 0.00 0.00 3.02
3484 3930 0.618458 TGGCAAGTACCCAGATGACC 59.382 55.000 0.00 0.00 0.00 4.02
3576 4022 2.109181 GCGACAGGCCTCCATACC 59.891 66.667 0.00 0.00 34.80 2.73
3649 4095 4.669700 TGACTAGGGAAAGTACTACAGCA 58.330 43.478 0.00 0.00 0.00 4.41
3685 4131 7.822334 TCACATATTTTGAACTGAGAATACGGT 59.178 33.333 0.00 0.00 0.00 4.83
3687 4133 9.478019 GTTCACATATTTTGAACTGAGAATACG 57.522 33.333 15.45 0.00 46.29 3.06
3741 4196 6.483640 GTCCCAACATAATACAGATCCAACTC 59.516 42.308 0.00 0.00 0.00 3.01
3825 4284 5.104374 AGCAAACAAGTCATCAACAACAAG 58.896 37.500 0.00 0.00 0.00 3.16
3925 4386 3.370978 ACCGAAAATGTACAGCTCGATTG 59.629 43.478 19.79 9.84 0.00 2.67
3927 4388 3.247006 ACCGAAAATGTACAGCTCGAT 57.753 42.857 19.79 5.57 0.00 3.59
3946 4407 0.519077 GCACCTCAGCAGCAAGTAAC 59.481 55.000 0.00 0.00 0.00 2.50
3970 4431 4.657814 AACCATACCAGGAAATCACAGT 57.342 40.909 0.00 0.00 0.00 3.55
3990 4451 1.824230 ACAGCCAACAAGAACAGCAAA 59.176 42.857 0.00 0.00 0.00 3.68
4007 4468 2.969443 CAAAACTTGCCCTCGTACAG 57.031 50.000 0.00 0.00 0.00 2.74
4044 4505 7.860373 CACCAATGAATATTACAAATGGTACCG 59.140 37.037 7.57 0.00 38.51 4.02
4098 4559 3.064931 CTCAGAGTAAAAACGGGTCACC 58.935 50.000 0.00 0.00 0.00 4.02
4247 4708 3.855599 TGAATTTCAGGGGTTCCTCCATA 59.144 43.478 0.00 0.00 42.67 2.74
4253 4714 4.855340 TCTACATGAATTTCAGGGGTTCC 58.145 43.478 14.84 0.00 31.56 3.62
4269 4730 8.642432 TCCTTCATGACTCGATAAATTCTACAT 58.358 33.333 0.00 0.00 0.00 2.29
4273 4734 6.983307 CAGTCCTTCATGACTCGATAAATTCT 59.017 38.462 0.00 0.00 43.63 2.40
4299 4760 0.037017 TCCACACCCCAAATACACCG 59.963 55.000 0.00 0.00 0.00 4.94
4304 4765 3.885976 TTGAGTTCCACACCCCAAATA 57.114 42.857 0.00 0.00 0.00 1.40
4305 4766 2.765689 TTGAGTTCCACACCCCAAAT 57.234 45.000 0.00 0.00 0.00 2.32
4306 4767 2.315176 CATTGAGTTCCACACCCCAAA 58.685 47.619 0.00 0.00 0.00 3.28
4307 4768 1.480312 CCATTGAGTTCCACACCCCAA 60.480 52.381 0.00 0.00 0.00 4.12
4308 4769 0.112218 CCATTGAGTTCCACACCCCA 59.888 55.000 0.00 0.00 0.00 4.96
4309 4770 0.112412 ACCATTGAGTTCCACACCCC 59.888 55.000 0.00 0.00 0.00 4.95
4310 4771 1.995376 AACCATTGAGTTCCACACCC 58.005 50.000 0.00 0.00 0.00 4.61
4311 4772 6.183360 CCATATTAACCATTGAGTTCCACACC 60.183 42.308 0.00 0.00 0.00 4.16
4312 4773 6.680378 GCCATATTAACCATTGAGTTCCACAC 60.680 42.308 0.00 0.00 0.00 3.82
4313 4774 5.359576 GCCATATTAACCATTGAGTTCCACA 59.640 40.000 0.00 0.00 0.00 4.17
4314 4775 5.594317 AGCCATATTAACCATTGAGTTCCAC 59.406 40.000 0.00 0.00 0.00 4.02
4315 4776 5.765510 AGCCATATTAACCATTGAGTTCCA 58.234 37.500 0.00 0.00 0.00 3.53
4316 4777 8.947115 GTATAGCCATATTAACCATTGAGTTCC 58.053 37.037 0.00 0.00 0.00 3.62
4317 4778 9.502091 TGTATAGCCATATTAACCATTGAGTTC 57.498 33.333 0.00 0.00 0.00 3.01
4319 4780 9.453572 CATGTATAGCCATATTAACCATTGAGT 57.546 33.333 0.00 0.00 0.00 3.41
4320 4781 8.400947 GCATGTATAGCCATATTAACCATTGAG 58.599 37.037 0.00 0.00 0.00 3.02
4321 4782 8.108999 AGCATGTATAGCCATATTAACCATTGA 58.891 33.333 0.00 0.00 0.00 2.57
4322 4783 8.186163 CAGCATGTATAGCCATATTAACCATTG 58.814 37.037 0.00 0.00 0.00 2.82
4323 4784 7.148018 GCAGCATGTATAGCCATATTAACCATT 60.148 37.037 0.00 0.00 39.31 3.16
4324 4785 6.319658 GCAGCATGTATAGCCATATTAACCAT 59.680 38.462 0.00 0.00 39.31 3.55
4325 4786 5.647658 GCAGCATGTATAGCCATATTAACCA 59.352 40.000 0.00 0.00 39.31 3.67
4326 4787 5.066505 GGCAGCATGTATAGCCATATTAACC 59.933 44.000 12.76 0.00 46.26 2.85
4327 4788 6.124088 GGCAGCATGTATAGCCATATTAAC 57.876 41.667 12.76 0.00 46.26 2.01
4336 4797 3.005554 CCACATAGGCAGCATGTATAGC 58.994 50.000 0.00 0.00 39.31 2.97
4349 4810 3.347216 ACTGCACTTTAAGCCACATAGG 58.653 45.455 0.00 0.00 41.84 2.57
4350 4811 5.586243 ACATACTGCACTTTAAGCCACATAG 59.414 40.000 0.00 0.00 0.00 2.23
4351 4812 5.496556 ACATACTGCACTTTAAGCCACATA 58.503 37.500 0.00 0.00 0.00 2.29
4352 4813 4.335416 ACATACTGCACTTTAAGCCACAT 58.665 39.130 0.00 0.00 0.00 3.21
4353 4814 3.750371 ACATACTGCACTTTAAGCCACA 58.250 40.909 0.00 0.00 0.00 4.17
4354 4815 4.475944 CAACATACTGCACTTTAAGCCAC 58.524 43.478 0.00 0.00 0.00 5.01
4355 4816 3.505680 CCAACATACTGCACTTTAAGCCA 59.494 43.478 0.00 0.00 0.00 4.75
4356 4817 3.119495 CCCAACATACTGCACTTTAAGCC 60.119 47.826 0.00 0.00 0.00 4.35
4357 4818 3.673323 GCCCAACATACTGCACTTTAAGC 60.673 47.826 0.00 0.00 0.00 3.09
4358 4819 3.505680 TGCCCAACATACTGCACTTTAAG 59.494 43.478 0.00 0.00 0.00 1.85
4359 4820 3.491342 TGCCCAACATACTGCACTTTAA 58.509 40.909 0.00 0.00 0.00 1.52
4360 4821 3.147553 TGCCCAACATACTGCACTTTA 57.852 42.857 0.00 0.00 0.00 1.85
4361 4822 1.993956 TGCCCAACATACTGCACTTT 58.006 45.000 0.00 0.00 0.00 2.66
4362 4823 2.094675 GATGCCCAACATACTGCACTT 58.905 47.619 0.00 0.00 39.84 3.16
4363 4824 1.755179 GATGCCCAACATACTGCACT 58.245 50.000 0.00 0.00 39.84 4.40
4364 4825 0.378257 CGATGCCCAACATACTGCAC 59.622 55.000 0.00 0.00 39.84 4.57
4365 4826 0.035534 ACGATGCCCAACATACTGCA 60.036 50.000 0.00 0.00 39.84 4.41
4366 4827 1.948104 TACGATGCCCAACATACTGC 58.052 50.000 0.00 0.00 39.84 4.40
4367 4828 4.883083 ACTATACGATGCCCAACATACTG 58.117 43.478 0.00 0.00 39.84 2.74
4368 4829 5.069914 TGAACTATACGATGCCCAACATACT 59.930 40.000 0.00 0.00 39.84 2.12
4369 4830 5.294356 TGAACTATACGATGCCCAACATAC 58.706 41.667 0.00 0.00 39.84 2.39
4370 4831 5.538849 TGAACTATACGATGCCCAACATA 57.461 39.130 0.00 0.00 39.84 2.29
4371 4832 4.415881 TGAACTATACGATGCCCAACAT 57.584 40.909 0.00 0.00 43.54 2.71
4372 4833 3.897141 TGAACTATACGATGCCCAACA 57.103 42.857 0.00 0.00 0.00 3.33
4373 4834 5.527582 AGAAATGAACTATACGATGCCCAAC 59.472 40.000 0.00 0.00 0.00 3.77
4374 4835 5.527214 CAGAAATGAACTATACGATGCCCAA 59.473 40.000 0.00 0.00 0.00 4.12
4375 4836 5.056480 CAGAAATGAACTATACGATGCCCA 58.944 41.667 0.00 0.00 0.00 5.36
4376 4837 5.177696 GTCAGAAATGAACTATACGATGCCC 59.822 44.000 0.00 0.00 0.00 5.36
4377 4838 5.753438 TGTCAGAAATGAACTATACGATGCC 59.247 40.000 0.00 0.00 0.00 4.40
4378 4839 6.828502 TGTCAGAAATGAACTATACGATGC 57.171 37.500 0.00 0.00 0.00 3.91


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

AutoCloner maintained by Alex Coulton.