Multiple sequence alignment - TraesCS6B01G277000

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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 TraesCS6B01G277000 chr6B 100.000 4895 0 0 1 4895 501106001 501110895 0.000000e+00 9040.0
1 TraesCS6B01G277000 chr6B 76.511 728 144 18 4182 4895 397731569 397730855 5.980000e-99 372.0
2 TraesCS6B01G277000 chr6A 92.859 3725 138 46 28 3692 459847943 459844287 0.000000e+00 5288.0
3 TraesCS6B01G277000 chr6A 88.653 943 83 10 3690 4623 459842213 459841286 0.000000e+00 1127.0
4 TraesCS6B01G277000 chr6A 84.733 655 85 10 4244 4888 459716709 459716060 4.130000e-180 641.0
5 TraesCS6B01G277000 chr6D 92.729 1444 79 20 2227 3661 322456837 322455411 0.000000e+00 2061.0
6 TraesCS6B01G277000 chr6D 94.771 612 22 7 1448 2049 322457514 322456903 0.000000e+00 944.0
7 TraesCS6B01G277000 chr6D 92.178 652 24 11 821 1447 322458220 322457571 0.000000e+00 896.0
8 TraesCS6B01G277000 chr6D 87.566 756 43 23 28 769 322459409 322458691 0.000000e+00 828.0
9 TraesCS6B01G277000 chr2D 95.367 259 12 0 2355 2613 79386508 79386250 3.530000e-111 412.0
10 TraesCS6B01G277000 chr2D 89.606 279 15 2 2058 2336 79386867 79386603 4.690000e-90 342.0
11 TraesCS6B01G277000 chr2D 94.595 37 2 0 2185 2221 462207836 462207872 1.900000e-04 58.4
12 TraesCS6B01G277000 chr2B 76.000 700 143 18 4184 4866 317788180 317787489 6.070000e-89 339.0
13 TraesCS6B01G277000 chr7D 75.272 736 138 31 4184 4895 321383351 321384066 1.320000e-80 311.0
14 TraesCS6B01G277000 chr2A 100.000 33 0 0 2188 2220 68245887 68245855 1.470000e-05 62.1
15 TraesCS6B01G277000 chr5A 100.000 31 0 0 2190 2220 55022421 55022451 1.900000e-04 58.4
16 TraesCS6B01G277000 chr5A 100.000 31 0 0 2190 2220 118646914 118646944 1.900000e-04 58.4
17 TraesCS6B01G277000 chr3B 97.059 34 1 0 2191 2224 49860237 49860204 1.900000e-04 58.4
18 TraesCS6B01G277000 chr1B 100.000 31 0 0 2191 2221 148417859 148417889 1.900000e-04 58.4
19 TraesCS6B01G277000 chr4D 92.308 39 0 3 2180 2217 493836409 493836445 9.000000e-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 TraesCS6B01G277000 chr6B 501106001 501110895 4894 False 9040.00 9040 100.0000 1 4895 1 chr6B.!!$F1 4894
1 TraesCS6B01G277000 chr6B 397730855 397731569 714 True 372.00 372 76.5110 4182 4895 1 chr6B.!!$R1 713
2 TraesCS6B01G277000 chr6A 459841286 459847943 6657 True 3207.50 5288 90.7560 28 4623 2 chr6A.!!$R2 4595
3 TraesCS6B01G277000 chr6A 459716060 459716709 649 True 641.00 641 84.7330 4244 4888 1 chr6A.!!$R1 644
4 TraesCS6B01G277000 chr6D 322455411 322459409 3998 True 1182.25 2061 91.8110 28 3661 4 chr6D.!!$R1 3633
5 TraesCS6B01G277000 chr2D 79386250 79386867 617 True 377.00 412 92.4865 2058 2613 2 chr2D.!!$R1 555
6 TraesCS6B01G277000 chr2B 317787489 317788180 691 True 339.00 339 76.0000 4184 4866 1 chr2B.!!$R1 682
7 TraesCS6B01G277000 chr7D 321383351 321384066 715 False 311.00 311 75.2720 4184 4895 1 chr7D.!!$F1 711

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
769 789 0.107165 CGAATTCCTCCCTTCCACCC 60.107 60.000 0.0 0.0 0.00 4.61 F
1640 2160 0.250467 TCTTGCAGCACTCAAGGTCC 60.250 55.000 0.0 0.0 40.82 4.46 F
2784 3398 1.926510 TCTTGATGTGTATTGCTCGCG 59.073 47.619 0.0 0.0 0.00 5.87 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2520 3130 0.384669 CCGTAGAGGCGTCCTAAAGG 59.615 60.0 2.06 0.0 31.76 3.11 R
3617 4236 0.253044 GGCTGATCAAGTGGGCTACA 59.747 55.0 3.15 0.0 0.00 2.74 R
3940 6636 0.179062 ACGATTGCAGCTCTCCCATC 60.179 55.0 0.00 0.0 0.00 3.51 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 3.103637 CCCTTTTGGTTCGGTGTGA 57.896 52.632 0.00 0.00 38.10 3.58
29 30 1.394618 CCCTTTTGGTTCGGTGTGAA 58.605 50.000 0.00 0.00 38.10 3.18
30 31 1.336755 CCCTTTTGGTTCGGTGTGAAG 59.663 52.381 0.00 0.00 37.23 3.02
46 47 4.695455 GTGTGAAGCTAATTACTTCCAGCA 59.305 41.667 17.62 13.34 42.35 4.41
49 50 6.538742 TGTGAAGCTAATTACTTCCAGCATAC 59.461 38.462 17.62 11.88 42.35 2.39
78 80 8.980481 TCATCCTTTTTAGGGTAGAATTCATC 57.020 34.615 8.44 0.00 0.00 2.92
156 158 1.212441 TCCCTGTTGGTACGTTTTGGT 59.788 47.619 0.00 0.00 34.77 3.67
160 162 2.809696 CTGTTGGTACGTTTTGGTAGGG 59.190 50.000 0.00 0.00 0.00 3.53
180 182 9.577222 GGTAGGGCATGTTACCTTAATTAATTA 57.423 33.333 10.32 3.71 38.30 1.40
231 233 9.062524 TCAGATTTTTAGGAATCAAAAGTCGAA 57.937 29.630 0.00 0.00 36.96 3.71
243 246 8.532977 AATCAAAAGTCGAACATTTTTATGGG 57.467 30.769 0.00 0.00 0.00 4.00
246 249 7.650104 TCAAAAGTCGAACATTTTTATGGGAAC 59.350 33.333 0.00 0.00 0.00 3.62
250 253 8.575649 AGTCGAACATTTTTATGGGAACTTAT 57.424 30.769 0.00 0.00 0.00 1.73
292 301 6.909550 ATTTAGTTGGTGAGTATGGCAAAA 57.090 33.333 0.00 0.00 0.00 2.44
306 315 2.785713 GCAAAACCGCCTCAAGTAAA 57.214 45.000 0.00 0.00 0.00 2.01
307 316 3.086818 GCAAAACCGCCTCAAGTAAAA 57.913 42.857 0.00 0.00 0.00 1.52
308 317 3.649073 GCAAAACCGCCTCAAGTAAAAT 58.351 40.909 0.00 0.00 0.00 1.82
309 318 3.673338 GCAAAACCGCCTCAAGTAAAATC 59.327 43.478 0.00 0.00 0.00 2.17
310 319 4.234574 CAAAACCGCCTCAAGTAAAATCC 58.765 43.478 0.00 0.00 0.00 3.01
311 320 1.734163 ACCGCCTCAAGTAAAATCCG 58.266 50.000 0.00 0.00 0.00 4.18
312 321 0.377203 CCGCCTCAAGTAAAATCCGC 59.623 55.000 0.00 0.00 0.00 5.54
313 322 1.369625 CGCCTCAAGTAAAATCCGCT 58.630 50.000 0.00 0.00 0.00 5.52
314 323 1.327764 CGCCTCAAGTAAAATCCGCTC 59.672 52.381 0.00 0.00 0.00 5.03
315 324 1.671328 GCCTCAAGTAAAATCCGCTCC 59.329 52.381 0.00 0.00 0.00 4.70
316 325 2.939640 GCCTCAAGTAAAATCCGCTCCA 60.940 50.000 0.00 0.00 0.00 3.86
317 326 3.343617 CCTCAAGTAAAATCCGCTCCAA 58.656 45.455 0.00 0.00 0.00 3.53
347 356 6.204882 ACAGAAGTTGTGTTTTAGCATAGGAC 59.795 38.462 0.00 0.00 38.99 3.85
362 371 9.653287 TTAGCATAGGACTTATATGTGCAATAC 57.347 33.333 11.91 0.81 33.90 1.89
363 372 7.911651 AGCATAGGACTTATATGTGCAATACT 58.088 34.615 11.91 2.74 33.90 2.12
474 483 7.703755 AGGACAAAGGGAAAGAAAAGAGATAT 58.296 34.615 0.00 0.00 0.00 1.63
567 576 0.750850 TGCCCGAATCCAGCTACTAC 59.249 55.000 0.00 0.00 0.00 2.73
699 719 0.314935 CAGCCAATCGCCAGTGTTTT 59.685 50.000 0.00 0.00 38.78 2.43
769 789 0.107165 CGAATTCCTCCCTTCCACCC 60.107 60.000 0.00 0.00 0.00 4.61
770 790 1.299939 GAATTCCTCCCTTCCACCCT 58.700 55.000 0.00 0.00 0.00 4.34
771 791 1.213182 GAATTCCTCCCTTCCACCCTC 59.787 57.143 0.00 0.00 0.00 4.30
772 792 0.624795 ATTCCTCCCTTCCACCCTCC 60.625 60.000 0.00 0.00 0.00 4.30
773 793 3.083997 CCTCCCTTCCACCCTCCG 61.084 72.222 0.00 0.00 0.00 4.63
774 794 3.083997 CTCCCTTCCACCCTCCGG 61.084 72.222 0.00 0.00 0.00 5.14
775 795 3.607299 TCCCTTCCACCCTCCGGA 61.607 66.667 2.93 2.93 0.00 5.14
776 796 3.083997 CCCTTCCACCCTCCGGAG 61.084 72.222 25.36 25.36 33.01 4.63
777 797 3.787001 CCTTCCACCCTCCGGAGC 61.787 72.222 26.87 0.00 33.01 4.70
778 798 3.787001 CTTCCACCCTCCGGAGCC 61.787 72.222 26.87 0.00 33.01 4.70
782 802 4.787280 CACCCTCCGGAGCCCTCT 62.787 72.222 26.87 2.34 0.00 3.69
783 803 4.467107 ACCCTCCGGAGCCCTCTC 62.467 72.222 26.87 0.00 38.62 3.20
791 811 2.520741 GAGCCCTCTCCTCCTCCG 60.521 72.222 0.00 0.00 33.19 4.63
792 812 3.024356 AGCCCTCTCCTCCTCCGA 61.024 66.667 0.00 0.00 0.00 4.55
793 813 2.200092 GCCCTCTCCTCCTCCGAT 59.800 66.667 0.00 0.00 0.00 4.18
794 814 1.458588 GCCCTCTCCTCCTCCGATT 60.459 63.158 0.00 0.00 0.00 3.34
813 833 4.523282 GCCCCCTCTCCCCCATCT 62.523 72.222 0.00 0.00 0.00 2.90
816 836 1.534235 CCCCTCTCCCCCATCTACG 60.534 68.421 0.00 0.00 0.00 3.51
932 1394 4.803426 GACTCTGCCGGCGAGTGG 62.803 72.222 39.44 26.21 41.53 4.00
1103 1565 3.063510 TCTGCTGTTTCTTGATCCCTG 57.936 47.619 0.00 0.00 0.00 4.45
1136 1598 2.034685 GGACTGATCGGATCGTTCATGA 59.965 50.000 9.00 0.00 35.52 3.07
1137 1599 3.305676 GGACTGATCGGATCGTTCATGAT 60.306 47.826 9.00 0.00 35.52 2.45
1236 1698 2.634453 AGCTTTCAAGGTGGGGATTTTG 59.366 45.455 0.00 0.00 35.05 2.44
1237 1699 2.871637 GCTTTCAAGGTGGGGATTTTGC 60.872 50.000 0.00 0.00 0.00 3.68
1408 1870 2.969238 GGATCCTGCGGCATCACG 60.969 66.667 1.75 0.00 0.00 4.35
1450 1970 7.694388 TTAGATGCGTTAATTGCTACTGTAG 57.306 36.000 10.48 10.48 0.00 2.74
1486 2006 0.387929 CCCATCTCATGTGGCATTGC 59.612 55.000 0.00 0.00 35.35 3.56
1554 2074 5.279456 GGATTACCAATGCAAGGACAAGTTT 60.279 40.000 14.81 0.00 35.97 2.66
1563 2083 4.276678 TGCAAGGACAAGTTTCTCATTCAG 59.723 41.667 0.00 0.00 0.00 3.02
1569 2089 4.130118 ACAAGTTTCTCATTCAGAGCGTT 58.870 39.130 0.00 0.00 44.35 4.84
1570 2090 4.024556 ACAAGTTTCTCATTCAGAGCGTTG 60.025 41.667 0.00 0.00 44.35 4.10
1572 2092 3.496130 AGTTTCTCATTCAGAGCGTTGTG 59.504 43.478 0.00 0.00 44.35 3.33
1632 2152 2.638480 TGGTAAGTTCTTGCAGCACT 57.362 45.000 0.00 0.00 0.00 4.40
1634 2154 2.158827 TGGTAAGTTCTTGCAGCACTCA 60.159 45.455 0.00 0.00 0.00 3.41
1640 2160 0.250467 TCTTGCAGCACTCAAGGTCC 60.250 55.000 0.00 0.00 40.82 4.46
1643 2163 2.320587 GCAGCACTCAAGGTCCACG 61.321 63.158 0.00 0.00 0.00 4.94
1669 2199 3.067106 GGATGTTGTCGTCTGTGTCATT 58.933 45.455 0.00 0.00 0.00 2.57
1808 2338 4.037446 AGACGAGGAAGAGATTGCAGATAC 59.963 45.833 0.00 0.00 0.00 2.24
1862 2392 2.495669 TGATCGATGCTGTAAGTGGTGA 59.504 45.455 0.54 0.00 35.30 4.02
1924 2454 9.983024 TTTGTTCCTAAATCCTAATGATGGTTA 57.017 29.630 0.00 0.00 32.68 2.85
2024 2554 5.843673 TTGTTCCACTGAAAACAGCATTA 57.156 34.783 0.00 0.00 36.78 1.90
2083 2613 4.025145 GTCTAAGTACCTGTTGTTGCACAC 60.025 45.833 0.00 0.00 0.00 3.82
2200 2732 6.433093 GCTTAAAAGAACATTTACTCCCTCCA 59.567 38.462 0.00 0.00 0.00 3.86
2220 2752 5.056480 TCCAATCCATATTACTTGTCGCTG 58.944 41.667 0.00 0.00 0.00 5.18
2249 2781 7.039293 TGGAATGGCGATATTTAGCTCTAGTTA 60.039 37.037 0.00 0.00 0.00 2.24
2250 2782 7.489757 GGAATGGCGATATTTAGCTCTAGTTAG 59.510 40.741 0.00 0.00 0.00 2.34
2251 2783 5.710984 TGGCGATATTTAGCTCTAGTTAGC 58.289 41.667 0.00 0.00 43.11 3.09
2252 2784 5.243060 TGGCGATATTTAGCTCTAGTTAGCA 59.757 40.000 6.24 0.00 45.30 3.49
2480 3090 9.762381 ATGTTTATACCATCTTAAAAGTTCCCA 57.238 29.630 0.00 0.00 0.00 4.37
2515 3125 7.312657 TGTTTCTGACATTATTGATCTGCTC 57.687 36.000 0.00 0.00 32.00 4.26
2520 3130 7.153315 TCTGACATTATTGATCTGCTCTGATC 58.847 38.462 9.07 9.07 42.19 2.92
2757 3371 6.605471 TCTTCCAAGTTATGCAGAGAACTA 57.395 37.500 10.78 0.00 32.31 2.24
2784 3398 1.926510 TCTTGATGTGTATTGCTCGCG 59.073 47.619 0.00 0.00 0.00 5.87
2871 3485 6.212589 TGCCAAACCTGATATAATATCTCCGA 59.787 38.462 0.00 0.00 0.00 4.55
3180 3794 3.307199 GGATGACAGGTCGGAAGGTTTAA 60.307 47.826 0.00 0.00 0.00 1.52
3673 4292 2.122768 CCTAGAATCTCTGCTTGGGGT 58.877 52.381 0.00 0.00 0.00 4.95
3678 4297 2.490270 ATCTCTGCTTGGGGTGCCAC 62.490 60.000 0.00 0.00 0.00 5.01
3679 4298 4.284550 TCTGCTTGGGGTGCCACC 62.285 66.667 4.93 4.93 37.60 4.61
3680 4299 4.601794 CTGCTTGGGGTGCCACCA 62.602 66.667 17.22 0.00 41.02 4.17
3681 4300 3.892104 CTGCTTGGGGTGCCACCAT 62.892 63.158 17.22 0.00 41.02 3.55
3682 4301 2.604382 GCTTGGGGTGCCACCATT 60.604 61.111 17.22 0.00 41.02 3.16
3683 4302 2.649129 GCTTGGGGTGCCACCATTC 61.649 63.158 17.22 5.21 41.02 2.67
3685 4304 0.831288 CTTGGGGTGCCACCATTCAA 60.831 55.000 17.22 14.82 41.02 2.69
3687 4306 0.707024 TGGGGTGCCACCATTCAATA 59.293 50.000 17.22 0.00 41.02 1.90
3688 4307 1.290431 TGGGGTGCCACCATTCAATAT 59.710 47.619 17.22 0.00 41.02 1.28
3692 6384 4.592778 GGGGTGCCACCATTCAATATTTAT 59.407 41.667 17.22 0.00 41.02 1.40
3700 6392 6.367695 CCACCATTCAATATTTATGCTGCATG 59.632 38.462 24.59 8.07 0.00 4.06
3817 6509 2.892373 TTTTGTTGCGACCGATGATC 57.108 45.000 0.45 0.00 0.00 2.92
3840 6536 5.976534 TCACATGAGTTTTGTCGGAATTTTG 59.023 36.000 0.00 0.00 0.00 2.44
3853 6549 3.245048 CGGAATTTTGTTTGCTGGAACAC 59.755 43.478 1.30 0.00 39.11 3.32
3873 6569 2.174969 GTGGTGCAAACCGACGACA 61.175 57.895 0.00 0.00 0.00 4.35
3878 6574 1.954146 GCAAACCGACGACAGCAGA 60.954 57.895 0.00 0.00 0.00 4.26
3907 6603 2.045926 GGTGACGCTGGGAATGCT 60.046 61.111 0.00 0.00 0.00 3.79
3915 6611 1.888018 CTGGGAATGCTGCAACCAG 59.112 57.895 26.05 26.05 42.28 4.00
3916 6612 1.601419 CTGGGAATGCTGCAACCAGG 61.601 60.000 28.85 17.83 43.80 4.45
3936 6632 1.228094 TGAATGCACGCTGGAACCA 60.228 52.632 0.00 0.00 0.00 3.67
3960 6656 0.179062 ATGGGAGAGCTGCAATCGTC 60.179 55.000 1.02 0.00 0.00 4.20
3963 6659 1.661341 GGAGAGCTGCAATCGTCAAT 58.339 50.000 1.02 0.00 0.00 2.57
3980 6676 1.547472 AATGGCAAAAGCTGGAGCCC 61.547 55.000 17.77 3.04 46.45 5.19
3987 6683 3.951769 AAGCTGGAGCCCACATGCC 62.952 63.158 0.00 0.00 43.38 4.40
4027 6723 1.811266 CGAGTGGACGGCAAGATGG 60.811 63.158 0.00 0.00 0.00 3.51
4028 6724 2.045926 AGTGGACGGCAAGATGGC 60.046 61.111 0.00 0.00 39.85 4.40
4045 6741 4.124910 CGATGCGCTGGTACCATT 57.875 55.556 16.75 0.00 0.00 3.16
4047 6743 1.356624 GATGCGCTGGTACCATTGC 59.643 57.895 24.41 24.41 0.00 3.56
4106 6802 2.854187 GCACCCTACGAAGGAGGTGC 62.854 65.000 16.36 16.36 46.77 5.01
4112 6808 2.167398 TACGAAGGAGGTGCACTGGC 62.167 60.000 17.98 6.20 41.68 4.85
4138 6834 2.027625 CCTCTTTCCCGTGTGCGTC 61.028 63.158 0.00 0.00 36.15 5.19
4141 6837 0.948623 TCTTTCCCGTGTGCGTCATG 60.949 55.000 0.00 0.00 36.15 3.07
4152 6848 4.838152 CGTCATGCGGGGTGGGAG 62.838 72.222 2.16 0.00 36.85 4.30
4153 6849 4.489771 GTCATGCGGGGTGGGAGG 62.490 72.222 0.00 0.00 0.00 4.30
4156 6852 4.047125 ATGCGGGGTGGGAGGTTG 62.047 66.667 0.00 0.00 0.00 3.77
4159 6855 4.344865 CGGGGTGGGAGGTTGGTG 62.345 72.222 0.00 0.00 0.00 4.17
4160 6856 2.856988 GGGGTGGGAGGTTGGTGA 60.857 66.667 0.00 0.00 0.00 4.02
4161 6857 2.434774 GGGTGGGAGGTTGGTGAC 59.565 66.667 0.00 0.00 0.00 3.67
4162 6858 2.032071 GGTGGGAGGTTGGTGACG 59.968 66.667 0.00 0.00 0.00 4.35
4163 6859 2.032071 GTGGGAGGTTGGTGACGG 59.968 66.667 0.00 0.00 0.00 4.79
4164 6860 2.446994 TGGGAGGTTGGTGACGGT 60.447 61.111 0.00 0.00 0.00 4.83
4165 6861 2.032071 GGGAGGTTGGTGACGGTG 59.968 66.667 0.00 0.00 0.00 4.94
4166 6862 2.814835 GGGAGGTTGGTGACGGTGT 61.815 63.158 0.00 0.00 0.00 4.16
4167 6863 1.474332 GGGAGGTTGGTGACGGTGTA 61.474 60.000 0.00 0.00 0.00 2.90
4168 6864 0.037605 GGAGGTTGGTGACGGTGTAG 60.038 60.000 0.00 0.00 0.00 2.74
4169 6865 0.677842 GAGGTTGGTGACGGTGTAGT 59.322 55.000 0.00 0.00 0.00 2.73
4170 6866 1.888512 GAGGTTGGTGACGGTGTAGTA 59.111 52.381 0.00 0.00 0.00 1.82
4171 6867 1.615392 AGGTTGGTGACGGTGTAGTAC 59.385 52.381 0.00 0.00 0.00 2.73
4172 6868 1.340889 GGTTGGTGACGGTGTAGTACA 59.659 52.381 0.00 0.00 0.00 2.90
4210 6906 1.285578 GGTTGCTCGATCTTCTCAGC 58.714 55.000 0.00 0.00 0.00 4.26
4291 6989 2.363306 TGTTCCTCTGTTGCCAATGT 57.637 45.000 0.00 0.00 0.00 2.71
4312 7010 4.532126 TGTGACAGATCTTCAACCCTATGT 59.468 41.667 0.00 0.00 0.00 2.29
4480 7183 3.430218 CCGATCGATGCAAAGAGGAATAC 59.570 47.826 18.66 0.00 0.00 1.89
4482 7185 4.507756 CGATCGATGCAAAGAGGAATACAA 59.492 41.667 10.26 0.00 0.00 2.41
4484 7187 4.191544 TCGATGCAAAGAGGAATACAAGG 58.808 43.478 0.00 0.00 0.00 3.61
4549 7252 4.303794 TCAGGTATAACATGGCCTAACCT 58.696 43.478 3.32 3.39 40.22 3.50
4570 7273 7.775053 ACCTTAAAAGCCATGAATTACAAGA 57.225 32.000 0.00 0.00 0.00 3.02
4610 7314 2.711542 GTCCAATCTAGTGTTGGGGTG 58.288 52.381 21.41 4.88 44.92 4.61
4664 7374 4.495690 AAAAGGACTCTATCTTCTGGCC 57.504 45.455 0.00 0.00 0.00 5.36
4725 7438 4.171103 GCGGATTGGGGGCTACGT 62.171 66.667 0.00 0.00 0.00 3.57
4728 7441 2.895372 GATTGGGGGCTACGTGCG 60.895 66.667 0.00 0.00 44.05 5.34
4735 7449 1.590792 GGGCTACGTGCGTATGGTC 60.591 63.158 0.00 0.00 44.05 4.02
4741 7455 2.157834 ACGTGCGTATGGTCTGAAAA 57.842 45.000 0.00 0.00 0.00 2.29
4742 7456 2.695359 ACGTGCGTATGGTCTGAAAAT 58.305 42.857 0.00 0.00 0.00 1.82
4751 7465 5.575606 CGTATGGTCTGAAAATACACGAGTT 59.424 40.000 0.00 0.00 0.00 3.01
4766 7480 6.870971 ACACGAGTTAAGCTTTCCAAATTA 57.129 33.333 3.20 0.00 0.00 1.40
4835 7549 1.818060 CAATTTCGGACCTCATGGCAA 59.182 47.619 0.00 0.00 36.63 4.52
4854 7568 4.539870 GCAATCAATCCGAATATGGTGTG 58.460 43.478 0.00 0.00 0.00 3.82
4855 7569 4.275689 GCAATCAATCCGAATATGGTGTGA 59.724 41.667 0.00 0.00 0.00 3.58
4880 7594 7.234355 AGATTTTCCTTCTCTTTATGTGGTGT 58.766 34.615 0.00 0.00 0.00 4.16
4881 7595 6.633500 TTTTCCTTCTCTTTATGTGGTGTG 57.367 37.500 0.00 0.00 0.00 3.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 1.336755 CTTCACACCGAACCAAAAGGG 59.663 52.381 0.00 0.00 44.81 3.95
11 12 1.269051 GCTTCACACCGAACCAAAAGG 60.269 52.381 0.00 0.00 0.00 3.11
12 13 1.676006 AGCTTCACACCGAACCAAAAG 59.324 47.619 0.00 0.00 0.00 2.27
13 14 1.757682 AGCTTCACACCGAACCAAAA 58.242 45.000 0.00 0.00 0.00 2.44
14 15 2.623878 TAGCTTCACACCGAACCAAA 57.376 45.000 0.00 0.00 0.00 3.28
15 16 2.623878 TTAGCTTCACACCGAACCAA 57.376 45.000 0.00 0.00 0.00 3.67
16 17 2.851263 ATTAGCTTCACACCGAACCA 57.149 45.000 0.00 0.00 0.00 3.67
17 18 4.251268 AGTAATTAGCTTCACACCGAACC 58.749 43.478 0.00 0.00 0.00 3.62
18 19 5.163884 GGAAGTAATTAGCTTCACACCGAAC 60.164 44.000 20.02 5.90 42.88 3.95
19 20 4.933400 GGAAGTAATTAGCTTCACACCGAA 59.067 41.667 20.02 0.00 42.88 4.30
20 21 4.020928 TGGAAGTAATTAGCTTCACACCGA 60.021 41.667 20.02 4.23 42.88 4.69
21 22 4.250464 TGGAAGTAATTAGCTTCACACCG 58.750 43.478 20.02 0.00 42.88 4.94
22 23 4.095036 GCTGGAAGTAATTAGCTTCACACC 59.905 45.833 20.02 10.49 42.88 4.16
23 24 4.695455 TGCTGGAAGTAATTAGCTTCACAC 59.305 41.667 20.02 12.93 42.88 3.82
24 25 4.905429 TGCTGGAAGTAATTAGCTTCACA 58.095 39.130 20.02 15.98 42.88 3.58
25 26 6.538742 TGTATGCTGGAAGTAATTAGCTTCAC 59.461 38.462 20.02 13.13 42.88 3.18
26 27 6.649155 TGTATGCTGGAAGTAATTAGCTTCA 58.351 36.000 20.02 11.20 42.88 3.02
27 28 6.763610 ACTGTATGCTGGAAGTAATTAGCTTC 59.236 38.462 14.44 14.44 41.01 3.86
28 29 6.653989 ACTGTATGCTGGAAGTAATTAGCTT 58.346 36.000 0.00 0.00 37.10 3.74
29 30 6.240549 ACTGTATGCTGGAAGTAATTAGCT 57.759 37.500 0.00 0.00 37.10 3.32
30 31 6.538742 TGAACTGTATGCTGGAAGTAATTAGC 59.461 38.462 0.00 0.00 35.30 3.09
31 32 8.668510 ATGAACTGTATGCTGGAAGTAATTAG 57.331 34.615 0.00 0.00 35.30 1.73
32 33 7.715249 GGATGAACTGTATGCTGGAAGTAATTA 59.285 37.037 0.00 0.00 35.30 1.40
36 37 4.716784 AGGATGAACTGTATGCTGGAAGTA 59.283 41.667 0.00 0.00 35.30 2.24
37 38 3.521126 AGGATGAACTGTATGCTGGAAGT 59.479 43.478 0.00 0.00 35.30 3.01
46 47 8.388656 TCTACCCTAAAAAGGATGAACTGTAT 57.611 34.615 0.00 0.00 0.00 2.29
49 50 8.581253 AATTCTACCCTAAAAAGGATGAACTG 57.419 34.615 0.00 0.00 0.00 3.16
78 80 5.821470 AGCCACTAATGATCTGATCAAACAG 59.179 40.000 22.91 19.82 43.50 3.16
95 97 1.229177 TGAGGTGCAGGAGCCACTA 60.229 57.895 0.00 0.00 41.13 2.74
218 220 8.364142 TCCCATAAAAATGTTCGACTTTTGATT 58.636 29.630 0.00 0.00 0.00 2.57
220 222 7.278461 TCCCATAAAAATGTTCGACTTTTGA 57.722 32.000 0.00 0.00 0.00 2.69
221 223 7.651704 AGTTCCCATAAAAATGTTCGACTTTTG 59.348 33.333 0.00 0.00 0.00 2.44
243 246 6.126409 TGTCATCCCCAACCAATATAAGTTC 58.874 40.000 0.00 0.00 0.00 3.01
246 249 7.601705 ATTTGTCATCCCCAACCAATATAAG 57.398 36.000 0.00 0.00 0.00 1.73
250 253 6.957020 ACTAAATTTGTCATCCCCAACCAATA 59.043 34.615 0.00 0.00 0.00 1.90
254 257 5.478407 CAACTAAATTTGTCATCCCCAACC 58.522 41.667 0.00 0.00 0.00 3.77
259 262 5.476945 ACTCACCAACTAAATTTGTCATCCC 59.523 40.000 0.00 0.00 0.00 3.85
292 301 1.734163 CGGATTTTACTTGAGGCGGT 58.266 50.000 0.00 0.00 0.00 5.68
301 310 6.657541 TCTGTTAAATTGGAGCGGATTTTACT 59.342 34.615 0.00 0.00 30.38 2.24
302 311 6.848451 TCTGTTAAATTGGAGCGGATTTTAC 58.152 36.000 0.00 0.00 0.00 2.01
303 312 7.175990 ACTTCTGTTAAATTGGAGCGGATTTTA 59.824 33.333 0.00 0.00 0.00 1.52
304 313 5.975693 TCTGTTAAATTGGAGCGGATTTT 57.024 34.783 0.00 0.00 0.00 1.82
305 314 5.476945 ACTTCTGTTAAATTGGAGCGGATTT 59.523 36.000 0.00 0.00 0.00 2.17
306 315 5.010282 ACTTCTGTTAAATTGGAGCGGATT 58.990 37.500 0.00 0.00 0.00 3.01
307 316 4.589908 ACTTCTGTTAAATTGGAGCGGAT 58.410 39.130 0.00 0.00 0.00 4.18
308 317 4.015872 ACTTCTGTTAAATTGGAGCGGA 57.984 40.909 0.00 0.00 0.00 5.54
309 318 4.023193 ACAACTTCTGTTAAATTGGAGCGG 60.023 41.667 0.00 0.00 32.99 5.52
310 319 4.911610 CACAACTTCTGTTAAATTGGAGCG 59.088 41.667 0.00 0.00 35.47 5.03
311 320 5.831997 ACACAACTTCTGTTAAATTGGAGC 58.168 37.500 0.00 0.00 35.47 4.70
312 321 8.702163 AAAACACAACTTCTGTTAAATTGGAG 57.298 30.769 0.00 0.00 35.47 3.86
313 322 9.796120 CTAAAACACAACTTCTGTTAAATTGGA 57.204 29.630 0.00 0.00 35.47 3.53
314 323 8.539674 GCTAAAACACAACTTCTGTTAAATTGG 58.460 33.333 0.00 0.00 35.47 3.16
315 324 9.081997 TGCTAAAACACAACTTCTGTTAAATTG 57.918 29.630 0.00 0.00 35.47 2.32
316 325 9.816354 ATGCTAAAACACAACTTCTGTTAAATT 57.184 25.926 0.00 0.00 35.47 1.82
400 409 6.007703 TCCACCTTTTCCTAACATTAACCAG 58.992 40.000 0.00 0.00 0.00 4.00
402 411 5.106436 CGTCCACCTTTTCCTAACATTAACC 60.106 44.000 0.00 0.00 0.00 2.85
474 483 3.792736 CCGCCCGGGAAAGGATCA 61.793 66.667 29.31 0.00 38.47 2.92
556 565 5.188988 TGAGGAGTTTAGTAGTAGCTGGA 57.811 43.478 0.00 0.00 0.00 3.86
567 576 2.489971 TGCGTTGGTTGAGGAGTTTAG 58.510 47.619 0.00 0.00 0.00 1.85
699 719 1.766625 TTAGGCGGTTTCGGTTGGGA 61.767 55.000 0.00 0.00 36.79 4.37
774 794 2.366153 ATCGGAGGAGGAGAGGGCTC 62.366 65.000 0.00 0.00 40.54 4.70
775 795 1.955458 AATCGGAGGAGGAGAGGGCT 61.955 60.000 0.00 0.00 0.00 5.19
776 796 1.458588 AATCGGAGGAGGAGAGGGC 60.459 63.158 0.00 0.00 0.00 5.19
777 797 1.175983 CGAATCGGAGGAGGAGAGGG 61.176 65.000 0.00 0.00 0.00 4.30
778 798 1.801309 GCGAATCGGAGGAGGAGAGG 61.801 65.000 4.35 0.00 0.00 3.69
779 799 1.657556 GCGAATCGGAGGAGGAGAG 59.342 63.158 4.35 0.00 0.00 3.20
780 800 1.828660 GGCGAATCGGAGGAGGAGA 60.829 63.158 4.35 0.00 0.00 3.71
781 801 2.731374 GGCGAATCGGAGGAGGAG 59.269 66.667 4.35 0.00 0.00 3.69
782 802 2.838225 GGGCGAATCGGAGGAGGA 60.838 66.667 4.35 0.00 0.00 3.71
783 803 3.930012 GGGGCGAATCGGAGGAGG 61.930 72.222 4.35 0.00 0.00 4.30
784 804 3.930012 GGGGGCGAATCGGAGGAG 61.930 72.222 4.35 0.00 0.00 3.69
785 805 4.475444 AGGGGGCGAATCGGAGGA 62.475 66.667 4.35 0.00 0.00 3.71
786 806 3.930012 GAGGGGGCGAATCGGAGG 61.930 72.222 4.35 0.00 0.00 4.30
787 807 2.840102 AGAGGGGGCGAATCGGAG 60.840 66.667 4.35 0.00 0.00 4.63
788 808 2.838225 GAGAGGGGGCGAATCGGA 60.838 66.667 4.35 0.00 0.00 4.55
789 809 3.930012 GGAGAGGGGGCGAATCGG 61.930 72.222 4.35 0.00 0.00 4.18
790 810 3.930012 GGGAGAGGGGGCGAATCG 61.930 72.222 0.00 0.00 0.00 3.34
791 811 3.561241 GGGGAGAGGGGGCGAATC 61.561 72.222 0.00 0.00 0.00 2.52
813 833 1.120530 GGAAGGGCAGAGGATTCGTA 58.879 55.000 0.00 0.00 0.00 3.43
816 836 0.990818 AGGGGAAGGGCAGAGGATTC 60.991 60.000 0.00 0.00 0.00 2.52
932 1394 6.641169 AACACCAAAGATTCTCCTTCTTTC 57.359 37.500 0.00 0.00 40.53 2.62
1103 1565 2.142292 ATCAGTCCCCACAGGCCAAC 62.142 60.000 5.01 0.00 34.51 3.77
1136 1598 2.002586 CAACTGCTCGGAACATCGAAT 58.997 47.619 0.00 0.00 38.77 3.34
1137 1599 1.000394 TCAACTGCTCGGAACATCGAA 60.000 47.619 0.00 0.00 38.77 3.71
1236 1698 0.310854 CTCAGAACAAAACCGTGGGC 59.689 55.000 0.00 0.00 0.00 5.36
1237 1699 1.675552 ACTCAGAACAAAACCGTGGG 58.324 50.000 0.00 0.00 0.00 4.61
1408 1870 4.174009 TCTAATGCAAAGTAGACGCACTC 58.826 43.478 0.00 0.00 38.73 3.51
1438 1903 6.237901 TCAACCAATCAACTACAGTAGCAAT 58.762 36.000 7.57 0.00 0.00 3.56
1440 1905 5.222079 TCAACCAATCAACTACAGTAGCA 57.778 39.130 7.57 0.00 0.00 3.49
1441 1906 5.874810 TCATCAACCAATCAACTACAGTAGC 59.125 40.000 7.57 0.00 0.00 3.58
1442 1907 6.036517 GCTCATCAACCAATCAACTACAGTAG 59.963 42.308 6.00 6.00 0.00 2.57
1443 1908 5.874810 GCTCATCAACCAATCAACTACAGTA 59.125 40.000 0.00 0.00 0.00 2.74
1444 1909 4.697352 GCTCATCAACCAATCAACTACAGT 59.303 41.667 0.00 0.00 0.00 3.55
1445 1910 4.095483 GGCTCATCAACCAATCAACTACAG 59.905 45.833 0.00 0.00 0.00 2.74
1446 1911 4.009675 GGCTCATCAACCAATCAACTACA 58.990 43.478 0.00 0.00 0.00 2.74
1450 1970 2.170166 TGGGCTCATCAACCAATCAAC 58.830 47.619 0.00 0.00 0.00 3.18
1486 2006 2.537625 GCATCGTAACTAGAGCAAGCAG 59.462 50.000 0.00 0.00 0.00 4.24
1490 2010 2.738643 GCCTGCATCGTAACTAGAGCAA 60.739 50.000 0.00 0.00 0.00 3.91
1554 2074 1.344438 ACCACAACGCTCTGAATGAGA 59.656 47.619 0.00 0.00 45.39 3.27
1563 2083 1.845809 CTTCCTGCACCACAACGCTC 61.846 60.000 0.00 0.00 0.00 5.03
1569 2089 1.004277 GTTATCCCTTCCTGCACCACA 59.996 52.381 0.00 0.00 0.00 4.17
1570 2090 1.751437 GTTATCCCTTCCTGCACCAC 58.249 55.000 0.00 0.00 0.00 4.16
1572 2092 1.095807 GCGTTATCCCTTCCTGCACC 61.096 60.000 0.00 0.00 0.00 5.01
1640 2160 2.860293 GACAACATCCACGGCGTG 59.140 61.111 31.78 31.78 0.00 5.34
1643 2163 1.374252 AGACGACAACATCCACGGC 60.374 57.895 0.00 0.00 0.00 5.68
1669 2199 5.585445 ACAAACCGTAACACTCACATTACAA 59.415 36.000 0.00 0.00 31.91 2.41
1808 2338 0.458543 CACTTCATGGTCGACCTCCG 60.459 60.000 33.39 21.40 40.25 4.63
1924 2454 3.495806 CCTGAAAAGGAAGAGAGCACACT 60.496 47.826 0.00 0.00 0.00 3.55
2024 2554 7.039714 TGTCACTGACAGATACAAGAACATAGT 60.040 37.037 10.08 0.00 37.67 2.12
2083 2613 5.280164 TGTACTGCACATTTGATGTTGTTG 58.720 37.500 0.00 0.00 42.70 3.33
2183 2713 4.855340 TGGATTGGAGGGAGTAAATGTTC 58.145 43.478 0.00 0.00 0.00 3.18
2185 2715 6.786843 ATATGGATTGGAGGGAGTAAATGT 57.213 37.500 0.00 0.00 0.00 2.71
2186 2716 8.386264 AGTAATATGGATTGGAGGGAGTAAATG 58.614 37.037 0.00 0.00 0.00 2.32
2200 2732 4.708177 AGCAGCGACAAGTAATATGGATT 58.292 39.130 0.00 0.00 0.00 3.01
2220 2752 3.503748 AGCTAAATATCGCCATTCCAAGC 59.496 43.478 0.00 0.00 0.00 4.01
2520 3130 0.384669 CCGTAGAGGCGTCCTAAAGG 59.615 60.000 2.06 0.00 31.76 3.11
2662 3272 6.217487 TCAGGATAAAGATTTTGGGGAGAAGA 59.783 38.462 0.00 0.00 0.00 2.87
2736 3349 5.248477 ACCTAGTTCTCTGCATAACTTGGAA 59.752 40.000 27.67 5.72 45.62 3.53
2757 3371 6.258727 CGAGCAATACACATCAAGATTTACCT 59.741 38.462 0.00 0.00 0.00 3.08
2871 3485 8.373048 TCTTTTCGTGTTGTGTTATGATAGTT 57.627 30.769 0.00 0.00 0.00 2.24
3443 4062 8.672815 CAAAAGGTTCTAAAATTTGCAAAAGGA 58.327 29.630 17.19 0.13 0.00 3.36
3445 4064 9.838975 AACAAAAGGTTCTAAAATTTGCAAAAG 57.161 25.926 17.19 9.11 33.35 2.27
3617 4236 0.253044 GGCTGATCAAGTGGGCTACA 59.747 55.000 3.15 0.00 0.00 2.74
3673 4292 5.739647 GCAGCATAAATATTGAATGGTGGCA 60.740 40.000 27.51 0.00 44.98 4.92
3678 4297 8.301720 ACTACATGCAGCATAAATATTGAATGG 58.698 33.333 7.82 0.00 32.03 3.16
3681 4300 9.336171 TGTACTACATGCAGCATAAATATTGAA 57.664 29.630 7.82 0.00 0.00 2.69
3682 4301 8.900983 TGTACTACATGCAGCATAAATATTGA 57.099 30.769 7.82 0.00 0.00 2.57
3687 4306 8.224389 TCAATTGTACTACATGCAGCATAAAT 57.776 30.769 7.82 0.00 0.00 1.40
3688 4307 7.336679 ACTCAATTGTACTACATGCAGCATAAA 59.663 33.333 7.82 0.00 0.00 1.40
3692 6384 4.578871 ACTCAATTGTACTACATGCAGCA 58.421 39.130 5.13 0.00 0.00 4.41
3802 6494 1.004610 CATGTGATCATCGGTCGCAAC 60.005 52.381 0.00 0.00 39.29 4.17
3811 6503 4.631377 TCCGACAAAACTCATGTGATCATC 59.369 41.667 0.00 0.00 31.15 2.92
3813 6505 4.001618 TCCGACAAAACTCATGTGATCA 57.998 40.909 0.94 0.00 0.00 2.92
3816 6508 5.766150 AAATTCCGACAAAACTCATGTGA 57.234 34.783 0.94 0.00 0.00 3.58
3817 6509 5.748152 ACAAAATTCCGACAAAACTCATGTG 59.252 36.000 0.00 0.00 0.00 3.21
3840 6536 1.358759 CCACCGTGTTCCAGCAAAC 59.641 57.895 0.00 0.00 0.00 2.93
3873 6569 1.454847 CCTCCTACGGCTCTCTGCT 60.455 63.158 0.00 0.00 42.39 4.24
3878 6574 1.749638 CGTCACCTCCTACGGCTCT 60.750 63.158 0.00 0.00 35.51 4.09
3896 6592 2.221906 CTGGTTGCAGCATTCCCAGC 62.222 60.000 18.36 5.09 36.58 4.85
3907 6603 1.152589 TGCATTCACCCTGGTTGCA 60.153 52.632 9.52 9.52 40.73 4.08
3915 6611 1.971167 TTCCAGCGTGCATTCACCC 60.971 57.895 0.00 0.00 40.04 4.61
3916 6612 1.210155 GTTCCAGCGTGCATTCACC 59.790 57.895 0.00 0.00 40.04 4.02
3928 6624 2.124570 CCCATCGGCTGGTTCCAG 60.125 66.667 13.88 13.88 44.30 3.86
3936 6632 3.859414 GCAGCTCTCCCATCGGCT 61.859 66.667 0.00 0.00 35.23 5.52
3940 6636 0.179062 ACGATTGCAGCTCTCCCATC 60.179 55.000 0.00 0.00 0.00 3.51
3980 6676 3.891400 CCGGGATTGCGGCATGTG 61.891 66.667 2.28 0.00 0.00 3.21
4008 6704 1.079819 CATCTTGCCGTCCACTCGT 60.080 57.895 0.00 0.00 0.00 4.18
4015 6711 3.017323 CATCGCCATCTTGCCGTC 58.983 61.111 0.00 0.00 0.00 4.79
4028 6724 1.643292 CAATGGTACCAGCGCATCG 59.357 57.895 21.41 0.00 0.00 3.84
4029 6725 1.356624 GCAATGGTACCAGCGCATC 59.643 57.895 25.86 8.11 0.00 3.91
4035 6731 3.202001 CGGCCGCAATGGTACCAG 61.202 66.667 21.41 8.83 41.21 4.00
4038 6734 3.560278 CGTCGGCCGCAATGGTAC 61.560 66.667 23.51 10.87 41.21 3.34
4112 6808 2.184579 GGGAAAGAGGCGGAGTCG 59.815 66.667 0.00 0.00 36.95 4.18
4125 6821 3.047280 GCATGACGCACACGGGAA 61.047 61.111 0.00 0.00 46.04 3.97
4138 6834 4.047125 AACCTCCCACCCCGCATG 62.047 66.667 0.00 0.00 0.00 4.06
4147 6843 2.446994 ACCGTCACCAACCTCCCA 60.447 61.111 0.00 0.00 0.00 4.37
4148 6844 1.474332 TACACCGTCACCAACCTCCC 61.474 60.000 0.00 0.00 0.00 4.30
4151 6847 1.615392 GTACTACACCGTCACCAACCT 59.385 52.381 0.00 0.00 0.00 3.50
4152 6848 1.340889 TGTACTACACCGTCACCAACC 59.659 52.381 0.00 0.00 0.00 3.77
4153 6849 2.397549 GTGTACTACACCGTCACCAAC 58.602 52.381 7.99 0.00 43.05 3.77
4154 6850 2.798976 GTGTACTACACCGTCACCAA 57.201 50.000 7.99 0.00 43.05 3.67
4172 6868 1.999002 CCTTATCACCACCCCCGGT 60.999 63.158 0.00 0.00 41.07 5.28
4173 6869 2.752807 CCCTTATCACCACCCCCGG 61.753 68.421 0.00 0.00 0.00 5.73
4174 6870 2.752807 CCCCTTATCACCACCCCCG 61.753 68.421 0.00 0.00 0.00 5.73
4210 6906 2.049959 GTCATCGACATCATCAGCTCG 58.950 52.381 0.00 0.00 32.09 5.03
4239 6935 3.531538 TGTGAGTCTCGCAAATTATCCC 58.468 45.455 13.73 0.00 33.43 3.85
4291 6989 8.727100 ATATACATAGGGTTGAAGATCTGTCA 57.273 34.615 0.00 0.00 0.00 3.58
4312 7010 3.932822 AGTGTGTGGTGTTGCGAATATA 58.067 40.909 0.00 0.00 0.00 0.86
4378 7077 5.815740 GTGTAATATGTCGTTCCACTTGGAT 59.184 40.000 0.00 0.00 44.98 3.41
4480 7183 6.258230 TGTAAGCATTCATCTGAAACCTTG 57.742 37.500 13.95 3.89 37.61 3.61
4482 7185 5.769662 TGTTGTAAGCATTCATCTGAAACCT 59.230 36.000 0.00 0.00 37.61 3.50
4484 7187 8.524870 AATTGTTGTAAGCATTCATCTGAAAC 57.475 30.769 0.00 0.00 37.61 2.78
4570 7273 6.496743 TGGACGCCTAGGGTATTTATATACT 58.503 40.000 11.72 0.00 37.39 2.12
4586 7290 2.386661 CAACACTAGATTGGACGCCT 57.613 50.000 0.00 0.00 0.00 5.52
4635 7339 8.908903 CAGAAGATAGAGTCCTTTTAAGCTAGA 58.091 37.037 0.00 0.00 0.00 2.43
4639 7343 5.525745 GCCAGAAGATAGAGTCCTTTTAAGC 59.474 44.000 0.00 0.00 0.00 3.09
4658 7362 2.975799 GCGGTTGTTTCGGCCAGA 60.976 61.111 2.24 0.00 0.00 3.86
4664 7374 2.961522 ACAATACTGCGGTTGTTTCG 57.038 45.000 1.99 0.00 35.13 3.46
4714 7424 2.760799 ATACGCACGTAGCCCCCA 60.761 61.111 8.99 0.00 41.38 4.96
4725 7438 3.615056 CGTGTATTTTCAGACCATACGCA 59.385 43.478 10.44 0.00 34.78 5.24
4728 7441 6.963049 AACTCGTGTATTTTCAGACCATAC 57.037 37.500 0.00 0.00 0.00 2.39
4735 7449 7.015877 GGAAAGCTTAACTCGTGTATTTTCAG 58.984 38.462 0.00 0.00 0.00 3.02
4741 7455 7.448748 AATTTGGAAAGCTTAACTCGTGTAT 57.551 32.000 0.00 0.00 0.00 2.29
4742 7456 6.870971 AATTTGGAAAGCTTAACTCGTGTA 57.129 33.333 0.00 0.00 0.00 2.90
4766 7480 7.877097 TGTGCTTCAAATAAGGCATGTAAATTT 59.123 29.630 0.00 0.00 37.05 1.82
4835 7549 5.551305 TCTCACACCATATTCGGATTGAT 57.449 39.130 0.00 0.00 0.00 2.57
4854 7568 7.391833 ACACCACATAAAGAGAAGGAAAATCTC 59.608 37.037 0.00 0.00 42.95 2.75
4855 7569 7.175641 CACACCACATAAAGAGAAGGAAAATCT 59.824 37.037 0.00 0.00 0.00 2.40


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

AutoCloner maintained by Alex Coulton.