Multiple sequence alignment - TraesCS2B01G498500

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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 TraesCS2B01G498500 chr2B 100.000 4892 0 0 1 4892 695001060 694996169 0.000000e+00 9034.0
1 TraesCS2B01G498500 chr2A 94.013 3441 124 21 831 4230 715818696 715815297 0.000000e+00 5138.0
2 TraesCS2B01G498500 chr2D 93.871 3459 122 27 828 4245 577597016 577600425 0.000000e+00 5131.0
3 TraesCS2B01G498500 chr2D 85.000 800 82 17 2040 2826 577573154 577573928 0.000000e+00 778.0
4 TraesCS2B01G498500 chr2D 85.437 721 80 13 1 707 577596173 577596882 0.000000e+00 726.0
5 TraesCS2B01G498500 chr2D 88.083 193 12 8 1813 1998 577573153 577573341 8.240000e-53 219.0
6 TraesCS2B01G498500 chr2D 80.090 221 33 10 450 664 433686768 433686983 2.360000e-33 154.0
7 TraesCS2B01G498500 chr2D 89.655 58 5 1 4247 4303 577600585 577600642 6.790000e-09 73.1
8 TraesCS2B01G498500 chr2D 100.000 29 0 0 353 381 115648774 115648802 2.000000e-03 54.7
9 TraesCS2B01G498500 chr7A 98.480 592 5 1 4305 4892 628648468 628649059 0.000000e+00 1040.0
10 TraesCS2B01G498500 chr7A 82.249 169 28 2 4716 4883 706066855 706066688 1.420000e-30 145.0
11 TraesCS2B01G498500 chr7A 81.579 152 16 3 230 381 92881367 92881506 1.110000e-21 115.0
12 TraesCS2B01G498500 chr7A 81.579 152 16 3 230 381 92883069 92883208 1.110000e-21 115.0
13 TraesCS2B01G498500 chr7A 81.579 152 16 3 230 381 92884950 92885089 1.110000e-21 115.0
14 TraesCS2B01G498500 chr4B 98.314 593 6 1 4304 4892 601302083 601301491 0.000000e+00 1037.0
15 TraesCS2B01G498500 chrUn 98.311 592 6 1 4305 4892 36528174 36528765 0.000000e+00 1035.0
16 TraesCS2B01G498500 chr7D 83.544 395 37 17 393 764 163249873 163250262 1.300000e-90 344.0
17 TraesCS2B01G498500 chr5B 82.439 410 48 16 375 762 523362740 523363147 2.180000e-88 337.0
18 TraesCS2B01G498500 chr5B 76.966 356 65 16 419 762 535695942 535696292 2.320000e-43 187.0
19 TraesCS2B01G498500 chr4A 80.977 389 56 13 380 762 507452279 507451903 4.790000e-75 292.0
20 TraesCS2B01G498500 chr4A 79.221 154 20 7 230 382 476995349 476995491 4.030000e-16 97.1
21 TraesCS2B01G498500 chr3D 80.808 297 46 10 474 761 451373563 451373269 6.370000e-54 222.0
22 TraesCS2B01G498500 chr3D 82.727 110 15 2 272 381 532773619 532773724 1.450000e-15 95.3
23 TraesCS2B01G498500 chr5D 77.083 384 64 17 380 744 51676249 51675871 2.990000e-47 200.0
24 TraesCS2B01G498500 chr4D 81.959 194 26 8 477 664 359202790 359202980 6.560000e-34 156.0
25 TraesCS2B01G498500 chr1D 78.289 152 18 5 230 381 251397110 251396974 3.140000e-12 84.2
26 TraesCS2B01G498500 chr5A 100.000 30 0 0 352 381 6793215 6793244 6.840000e-04 56.5
27 TraesCS2B01G498500 chr3A 100.000 28 0 0 3998 4025 673900989 673901016 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 TraesCS2B01G498500 chr2B 694996169 695001060 4891 True 9034.0 9034 100.000000 1 4892 1 chr2B.!!$R1 4891
1 TraesCS2B01G498500 chr2A 715815297 715818696 3399 True 5138.0 5138 94.013000 831 4230 1 chr2A.!!$R1 3399
2 TraesCS2B01G498500 chr2D 577596173 577600642 4469 False 1976.7 5131 89.654333 1 4303 3 chr2D.!!$F4 4302
3 TraesCS2B01G498500 chr2D 577573153 577573928 775 False 498.5 778 86.541500 1813 2826 2 chr2D.!!$F3 1013
4 TraesCS2B01G498500 chr7A 628648468 628649059 591 False 1040.0 1040 98.480000 4305 4892 1 chr7A.!!$F1 587
5 TraesCS2B01G498500 chr4B 601301491 601302083 592 True 1037.0 1037 98.314000 4304 4892 1 chr4B.!!$R1 588
6 TraesCS2B01G498500 chrUn 36528174 36528765 591 False 1035.0 1035 98.311000 4305 4892 1 chrUn.!!$F1 587

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
914 980 0.249911 ACTGCCGATCCCTAATTCGC 60.250 55.000 0.0 0.0 34.1 4.70 F
2610 2712 0.536687 TCGACTTCACTCGTGTCCCT 60.537 55.000 0.0 0.0 35.1 4.20 F
3253 3365 1.207089 TGTGGAGCGAATCTAGGGTTG 59.793 52.381 0.0 0.0 0.0 3.77 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2763 2865 0.700564 TGAGCCTTTCCCATGCTTCT 59.299 50.000 0.00 0.0 34.99 2.85 R
3460 3572 0.105709 AAGGGCCCCCAAATATTCCG 60.106 55.000 21.43 0.0 38.92 4.30 R
4261 4385 1.490490 TGTGCTCTTTCTGGGTTCAGT 59.510 47.619 0.00 0.0 41.59 3.41 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
25 27 4.442706 TCTTGATCCAGCCGAGAAATTAC 58.557 43.478 0.00 0.00 0.00 1.89
27 29 2.135933 GATCCAGCCGAGAAATTACCG 58.864 52.381 0.00 0.00 0.00 4.02
28 30 0.461339 TCCAGCCGAGAAATTACCGC 60.461 55.000 0.00 0.00 0.00 5.68
34 36 1.278238 CGAGAAATTACCGCGAGCTT 58.722 50.000 8.23 0.00 0.00 3.74
41 43 2.345880 TTACCGCGAGCTTCCGATCC 62.346 60.000 8.23 0.00 0.00 3.36
51 53 1.948104 CTTCCGATCCGTGGCAAATA 58.052 50.000 0.00 0.00 0.00 1.40
63 65 4.398319 CGTGGCAAATAATCTAATCCCCT 58.602 43.478 0.00 0.00 0.00 4.79
64 66 5.514136 CCGTGGCAAATAATCTAATCCCCTA 60.514 44.000 0.00 0.00 0.00 3.53
68 70 7.836183 GTGGCAAATAATCTAATCCCCTATGAT 59.164 37.037 0.00 0.00 0.00 2.45
82 84 2.106511 CCTATGATTGATCCCCCACGTT 59.893 50.000 0.00 0.00 0.00 3.99
103 105 3.254629 GCTTGGGAGCTCATGAACA 57.745 52.632 17.19 3.18 45.65 3.18
109 111 1.071605 GGAGCTCATGAACACGACAC 58.928 55.000 17.19 0.00 0.00 3.67
152 154 7.369803 AGTTTGTGTGATCAGTATTCATGTC 57.630 36.000 0.00 0.00 0.00 3.06
158 160 5.215903 GTGATCAGTATTCATGTCGATCGT 58.784 41.667 15.94 0.00 33.55 3.73
161 163 3.796717 TCAGTATTCATGTCGATCGTTGC 59.203 43.478 15.94 7.51 0.00 4.17
167 169 2.411748 TCATGTCGATCGTTGCAGTTTC 59.588 45.455 15.94 0.00 0.00 2.78
169 171 1.144969 GTCGATCGTTGCAGTTTCCA 58.855 50.000 15.94 0.00 0.00 3.53
194 197 2.079925 GAATGTGACTGACTTCTGGGC 58.920 52.381 0.00 0.00 0.00 5.36
197 200 0.398318 GTGACTGACTTCTGGGCCTT 59.602 55.000 4.53 0.00 0.00 4.35
224 227 9.334947 GATCAGGAACTCATGATAATTTCTCAA 57.665 33.333 6.84 0.00 41.19 3.02
250 253 5.621904 AGGGGGATTAGATAATTTGCCAT 57.378 39.130 0.00 0.00 0.00 4.40
255 258 6.393171 GGGATTAGATAATTTGCCATGCTTC 58.607 40.000 0.00 0.00 0.00 3.86
256 259 6.015180 GGGATTAGATAATTTGCCATGCTTCA 60.015 38.462 0.00 0.00 0.00 3.02
285 288 4.682021 AAGGTTCAGATGATTTTCCCCT 57.318 40.909 0.00 0.00 0.00 4.79
297 300 3.439857 TTTTCCCCTGGATTGTCTCAG 57.560 47.619 0.00 0.00 0.00 3.35
312 315 2.033141 CAGTGACCAGTGGCCCTG 59.967 66.667 9.78 8.96 41.15 4.45
330 333 2.124695 GCCCCACCCGTCAATCTC 60.125 66.667 0.00 0.00 0.00 2.75
337 340 2.186903 CCGTCAATCTCGGGGTGG 59.813 66.667 0.00 0.00 43.68 4.61
338 341 2.186903 CGTCAATCTCGGGGTGGG 59.813 66.667 0.00 0.00 0.00 4.61
339 342 2.590092 GTCAATCTCGGGGTGGGG 59.410 66.667 0.00 0.00 0.00 4.96
389 392 2.517402 GTGTGGGTTTGGTGCCGA 60.517 61.111 0.00 0.00 0.00 5.54
394 397 3.056328 GGTTTGGTGCCGAGGCTC 61.056 66.667 15.75 11.55 42.51 4.70
402 405 1.683707 TGCCGAGGCTCAGATGAGT 60.684 57.895 15.95 0.00 43.85 3.41
423 437 1.330521 CCGGGCATGAACAGTAAATCG 59.669 52.381 0.00 0.00 0.00 3.34
427 441 4.378978 CGGGCATGAACAGTAAATCGAAAA 60.379 41.667 0.00 0.00 0.00 2.29
477 491 4.272018 GTGATGCAAGATTCTTAGATGCGT 59.728 41.667 0.00 0.55 39.81 5.24
497 511 3.773549 CGTGATACTCGTGCAAAATTTCG 59.226 43.478 0.00 0.00 0.00 3.46
514 528 3.870723 TTCGTGAAGTTTGGACATTCG 57.129 42.857 0.00 0.00 0.00 3.34
518 532 3.985279 CGTGAAGTTTGGACATTCGAGTA 59.015 43.478 0.00 0.00 0.00 2.59
521 535 3.963428 AGTTTGGACATTCGAGTAGCT 57.037 42.857 0.00 0.00 0.00 3.32
573 587 7.715657 TGTGAGAAACATTTGAAAATAGCACT 58.284 30.769 0.00 0.00 32.36 4.40
579 593 8.891671 AAACATTTGAAAATAGCACTGTTCAT 57.108 26.923 0.00 0.00 30.51 2.57
581 595 7.436118 ACATTTGAAAATAGCACTGTTCATGT 58.564 30.769 0.00 0.00 30.51 3.21
590 604 3.058016 AGCACTGTTCATGTCCGAATTTG 60.058 43.478 0.00 0.00 0.00 2.32
595 609 5.049405 ACTGTTCATGTCCGAATTTGTCTTC 60.049 40.000 0.00 0.00 0.00 2.87
602 616 2.225491 TCCGAATTTGTCTTCTTTGCCG 59.775 45.455 0.00 0.00 0.00 5.69
637 651 5.793026 TCAAACTTCACCAAATTTTGCAC 57.207 34.783 3.50 0.00 37.40 4.57
641 655 3.862845 ACTTCACCAAATTTTGCACGAAC 59.137 39.130 3.50 0.00 0.00 3.95
660 674 2.715046 ACATCACACACATGGACATCC 58.285 47.619 0.00 0.00 0.00 3.51
667 681 1.352017 ACACATGGACATCCTGCTTGA 59.648 47.619 0.00 0.00 36.82 3.02
722 766 8.988064 TTCTATTTCTGATCACTGTACTGTTC 57.012 34.615 2.16 0.45 0.00 3.18
724 768 8.753133 TCTATTTCTGATCACTGTACTGTTCAT 58.247 33.333 2.16 0.00 0.00 2.57
726 770 4.986622 TCTGATCACTGTACTGTTCATCG 58.013 43.478 2.16 5.35 0.00 3.84
727 771 4.108336 CTGATCACTGTACTGTTCATCGG 58.892 47.826 2.16 8.81 0.00 4.18
728 772 3.119137 TGATCACTGTACTGTTCATCGGG 60.119 47.826 2.16 0.00 0.00 5.14
729 773 1.067142 TCACTGTACTGTTCATCGGGC 60.067 52.381 2.16 0.00 0.00 6.13
730 774 1.066858 CACTGTACTGTTCATCGGGCT 60.067 52.381 2.16 0.00 0.00 5.19
731 775 1.204941 ACTGTACTGTTCATCGGGCTC 59.795 52.381 0.00 0.00 0.00 4.70
732 776 1.204704 CTGTACTGTTCATCGGGCTCA 59.795 52.381 0.00 0.00 0.00 4.26
733 777 1.831106 TGTACTGTTCATCGGGCTCAT 59.169 47.619 0.00 0.00 0.00 2.90
734 778 2.159099 TGTACTGTTCATCGGGCTCATC 60.159 50.000 0.00 0.00 0.00 2.92
735 779 1.198713 ACTGTTCATCGGGCTCATCT 58.801 50.000 0.00 0.00 0.00 2.90
736 780 1.134580 ACTGTTCATCGGGCTCATCTG 60.135 52.381 0.00 0.00 0.00 2.90
737 781 1.137675 CTGTTCATCGGGCTCATCTGA 59.862 52.381 0.00 0.00 0.00 3.27
738 782 1.137675 TGTTCATCGGGCTCATCTGAG 59.862 52.381 2.75 2.75 44.75 3.35
747 791 2.764128 TCATCTGAGCCCGGGACC 60.764 66.667 29.31 15.73 0.00 4.46
748 792 2.765807 CATCTGAGCCCGGGACCT 60.766 66.667 29.31 13.70 0.00 3.85
776 842 0.899720 ATTCGGAGTTCGTTGGGCTA 59.100 50.000 0.00 0.00 40.32 3.93
777 843 0.680618 TTCGGAGTTCGTTGGGCTAA 59.319 50.000 0.00 0.00 40.32 3.09
790 856 4.201783 CGTTGGGCTAACTCTAAATTTCCG 60.202 45.833 12.06 0.00 37.13 4.30
791 857 3.275999 TGGGCTAACTCTAAATTTCCGC 58.724 45.455 0.00 0.00 0.00 5.54
792 858 3.275999 GGGCTAACTCTAAATTTCCGCA 58.724 45.455 0.00 0.00 0.00 5.69
816 882 2.509052 AAAAAGTTCGCTGGGCTTTC 57.491 45.000 0.00 0.00 32.04 2.62
817 883 1.692411 AAAAGTTCGCTGGGCTTTCT 58.308 45.000 0.00 0.00 32.04 2.52
818 884 1.692411 AAAGTTCGCTGGGCTTTCTT 58.308 45.000 0.00 0.00 0.00 2.52
819 885 1.692411 AAGTTCGCTGGGCTTTCTTT 58.308 45.000 0.00 0.00 0.00 2.52
820 886 1.692411 AGTTCGCTGGGCTTTCTTTT 58.308 45.000 0.00 0.00 0.00 2.27
821 887 2.031870 AGTTCGCTGGGCTTTCTTTTT 58.968 42.857 0.00 0.00 0.00 1.94
844 910 2.017049 GTTGATGTTCGCTGGGCTTAT 58.983 47.619 0.00 0.00 0.00 1.73
867 933 1.000171 GTCACCGAAACGTCCTTACCT 60.000 52.381 0.00 0.00 0.00 3.08
914 980 0.249911 ACTGCCGATCCCTAATTCGC 60.250 55.000 0.00 0.00 34.10 4.70
983 1049 2.100631 CGCCGTCGCATTTCTTCCT 61.101 57.895 0.00 0.00 34.03 3.36
987 1053 0.727398 CGTCGCATTTCTTCCTTCCC 59.273 55.000 0.00 0.00 0.00 3.97
988 1054 1.676014 CGTCGCATTTCTTCCTTCCCT 60.676 52.381 0.00 0.00 0.00 4.20
1207 1282 3.787001 CGGGGAAGGAGACCCTGC 61.787 72.222 0.00 0.00 45.38 4.85
1233 1308 3.431725 GCTATATTGCGGGCGGCC 61.432 66.667 20.04 20.04 42.61 6.13
1310 1386 4.680537 AGGAGACCGGCGGACTGT 62.681 66.667 33.87 18.49 0.00 3.55
1321 1397 1.079127 CGGACTGTGGGCAAGGTAG 60.079 63.158 0.00 0.00 0.00 3.18
1399 1475 2.681778 ACCCAGGTGGAGAGAGCG 60.682 66.667 0.00 0.00 37.39 5.03
1461 1538 7.468141 TCGTCACATCTCCTGCTAATAATAT 57.532 36.000 0.00 0.00 0.00 1.28
1462 1539 8.575649 TCGTCACATCTCCTGCTAATAATATA 57.424 34.615 0.00 0.00 0.00 0.86
1463 1540 9.190317 TCGTCACATCTCCTGCTAATAATATAT 57.810 33.333 0.00 0.00 0.00 0.86
1464 1541 9.242477 CGTCACATCTCCTGCTAATAATATATG 57.758 37.037 0.00 0.00 0.00 1.78
1544 1622 1.473857 CGCTGCAATGGCGTTTATGC 61.474 55.000 10.38 0.00 46.37 3.14
1569 1647 1.597797 ATGGCCGGCAGTCACATTTG 61.598 55.000 30.85 0.00 0.00 2.32
1592 1670 3.456365 AGCTGTGCGGCTCGATCT 61.456 61.111 0.00 0.00 38.24 2.75
1651 1729 2.842256 GCTGCGGCCCATGATTCTG 61.842 63.158 6.12 0.00 0.00 3.02
1850 1930 8.399425 GTCGTATCATAGGAGGATACAATACAG 58.601 40.741 10.76 0.00 44.64 2.74
2015 2106 4.153958 TGTTTCCGTACATTCATGCAAC 57.846 40.909 0.00 0.00 0.00 4.17
2019 2110 5.794687 TTCCGTACATTCATGCAACTAAG 57.205 39.130 0.00 0.00 0.00 2.18
2020 2111 4.188462 TCCGTACATTCATGCAACTAAGG 58.812 43.478 0.00 0.00 0.00 2.69
2038 2129 9.090692 CAACTAAGGGCAAGAAATATGAAATTG 57.909 33.333 0.00 0.00 0.00 2.32
2039 2130 8.366359 ACTAAGGGCAAGAAATATGAAATTGT 57.634 30.769 0.00 0.00 0.00 2.71
2106 2205 6.759497 AAACTTAGTCTTCTTGTTTGCTGT 57.241 33.333 0.00 0.00 32.47 4.40
2107 2206 5.741388 ACTTAGTCTTCTTGTTTGCTGTG 57.259 39.130 0.00 0.00 0.00 3.66
2172 2271 6.597280 GCTAAGAAGTCTGAAGAAATGGACAT 59.403 38.462 0.00 0.00 0.00 3.06
2272 2374 7.386851 CCTTTTAGTCTGAGTGAATTCCAGTA 58.613 38.462 2.27 0.00 0.00 2.74
2286 2388 1.623811 TCCAGTAACTCAAGCAGTCCC 59.376 52.381 0.00 0.00 32.30 4.46
2384 2486 9.793252 ATGTGCTGTCATTTTAATTAGTGATTC 57.207 29.630 0.00 0.00 0.00 2.52
2432 2534 4.984295 TGTCCTGAAATTCATGTTGGAGA 58.016 39.130 0.00 0.00 0.00 3.71
2568 2670 3.743521 TCAGGAACACATGTTTCAGGAG 58.256 45.455 17.03 0.62 38.56 3.69
2610 2712 0.536687 TCGACTTCACTCGTGTCCCT 60.537 55.000 0.00 0.00 35.10 4.20
2763 2865 6.681729 AGATTGGTAGGTCAAAGAACACTA 57.318 37.500 0.00 0.00 0.00 2.74
3253 3365 1.207089 TGTGGAGCGAATCTAGGGTTG 59.793 52.381 0.00 0.00 0.00 3.77
3269 3381 8.331730 TCTAGGGTTGCTAAAATTGTACTTTC 57.668 34.615 0.00 0.00 0.00 2.62
3335 3447 7.724305 TTTGAAGGTTATCTGTGTTAGTGAC 57.276 36.000 0.00 0.00 0.00 3.67
3418 3530 6.140303 TGATATCAGGCAATTTCTTTCAGC 57.860 37.500 0.00 0.00 0.00 4.26
3445 3557 8.182227 GGGAGACTTAACTGCATTGTAAATTAC 58.818 37.037 0.00 0.00 0.00 1.89
3453 3565 5.105756 ACTGCATTGTAAATTACCCAGAAGC 60.106 40.000 13.25 5.66 0.00 3.86
3455 3567 4.159506 GCATTGTAAATTACCCAGAAGCCA 59.840 41.667 0.18 0.00 0.00 4.75
3460 3572 5.475564 TGTAAATTACCCAGAAGCCAAGAAC 59.524 40.000 0.18 0.00 0.00 3.01
3520 3632 1.343069 AATCGAGGGATGGTAGCTCC 58.657 55.000 0.00 0.00 31.83 4.70
3590 3702 7.038302 GGAATTCTTTTTCCAAGGGGATTACTT 60.038 37.037 5.23 0.00 44.48 2.24
3682 3794 7.597288 TGTTATAAGCAAGCTATGTAGAGGA 57.403 36.000 0.00 0.00 0.00 3.71
3794 3906 2.348411 ACACACAACTTAGCTTGGCT 57.652 45.000 0.00 0.00 43.41 4.75
3798 3910 0.321653 ACAACTTAGCTTGGCTCCCG 60.322 55.000 0.00 0.00 40.44 5.14
3805 3917 1.007387 GCTTGGCTCCCGTTTTGTG 60.007 57.895 0.00 0.00 0.00 3.33
3806 3918 1.734388 GCTTGGCTCCCGTTTTGTGT 61.734 55.000 0.00 0.00 0.00 3.72
3807 3919 1.600023 CTTGGCTCCCGTTTTGTGTA 58.400 50.000 0.00 0.00 0.00 2.90
3808 3920 1.265905 CTTGGCTCCCGTTTTGTGTAC 59.734 52.381 0.00 0.00 0.00 2.90
3809 3921 0.470766 TGGCTCCCGTTTTGTGTACT 59.529 50.000 0.00 0.00 0.00 2.73
3810 3922 0.872388 GGCTCCCGTTTTGTGTACTG 59.128 55.000 0.00 0.00 0.00 2.74
3811 3923 1.541670 GGCTCCCGTTTTGTGTACTGA 60.542 52.381 0.00 0.00 0.00 3.41
3812 3924 2.423577 GCTCCCGTTTTGTGTACTGAT 58.576 47.619 0.00 0.00 0.00 2.90
3813 3925 2.812011 GCTCCCGTTTTGTGTACTGATT 59.188 45.455 0.00 0.00 0.00 2.57
3814 3926 3.998341 GCTCCCGTTTTGTGTACTGATTA 59.002 43.478 0.00 0.00 0.00 1.75
3815 3927 4.634443 GCTCCCGTTTTGTGTACTGATTAT 59.366 41.667 0.00 0.00 0.00 1.28
3816 3928 5.123344 GCTCCCGTTTTGTGTACTGATTATT 59.877 40.000 0.00 0.00 0.00 1.40
3817 3929 6.674760 GCTCCCGTTTTGTGTACTGATTATTC 60.675 42.308 0.00 0.00 0.00 1.75
3818 3930 5.644636 TCCCGTTTTGTGTACTGATTATTCC 59.355 40.000 0.00 0.00 0.00 3.01
3819 3931 5.413213 CCCGTTTTGTGTACTGATTATTCCA 59.587 40.000 0.00 0.00 0.00 3.53
3820 3932 6.403200 CCCGTTTTGTGTACTGATTATTCCAG 60.403 42.308 0.00 0.00 37.64 3.86
3821 3933 6.021596 CGTTTTGTGTACTGATTATTCCAGC 58.978 40.000 0.00 0.00 35.14 4.85
3822 3934 6.322491 GTTTTGTGTACTGATTATTCCAGCC 58.678 40.000 0.00 0.00 35.14 4.85
3823 3935 4.835284 TGTGTACTGATTATTCCAGCCA 57.165 40.909 0.00 0.00 35.14 4.75
3824 3936 4.513442 TGTGTACTGATTATTCCAGCCAC 58.487 43.478 0.00 0.00 37.34 5.01
3825 3937 4.019771 TGTGTACTGATTATTCCAGCCACA 60.020 41.667 0.00 0.00 40.89 4.17
3826 3938 5.126067 GTGTACTGATTATTCCAGCCACAT 58.874 41.667 0.00 0.00 37.07 3.21
3867 3979 2.710096 TTGGCTGATAAGCTGGGTAC 57.290 50.000 1.00 0.00 34.73 3.34
3897 4009 8.461222 TGAATTTCATGTACATTAAAGCTGAGG 58.539 33.333 17.61 0.00 0.00 3.86
3898 4010 8.579850 AATTTCATGTACATTAAAGCTGAGGA 57.420 30.769 17.61 2.09 0.00 3.71
3979 4096 6.465084 AGTACTCCCTCTGTCAAAATGTAAC 58.535 40.000 0.00 0.00 0.00 2.50
3999 4116 8.219546 TGTAACATGTTTTTGAGTCTCAATCA 57.780 30.769 17.78 14.69 36.11 2.57
4045 4164 5.235850 TGATAAAGGGAGTGCTTTGTACA 57.764 39.130 0.00 0.00 0.00 2.90
4126 4250 7.698628 TGTTTTTCATTTGTCGTCTGTCATTA 58.301 30.769 0.00 0.00 0.00 1.90
4148 4272 3.992643 TGGAAACATGTTTCTGCAATGG 58.007 40.909 37.19 0.00 46.01 3.16
4212 4336 8.757982 ATCTGTTGCCAGTATCAAATAAGAAT 57.242 30.769 0.00 0.00 39.82 2.40
4213 4337 8.579850 TCTGTTGCCAGTATCAAATAAGAATT 57.420 30.769 0.00 0.00 39.82 2.17
4238 4362 7.461182 TTTTTCAGGTTGGGTCATACATTAG 57.539 36.000 0.00 0.00 0.00 1.73
4257 4381 6.877322 ACATTAGTATGTAAAGTCGGCAGTTT 59.123 34.615 0.00 0.00 43.12 2.66
4258 4382 6.715344 TTAGTATGTAAAGTCGGCAGTTTG 57.285 37.500 0.00 0.00 0.00 2.93
4260 4384 5.488341 AGTATGTAAAGTCGGCAGTTTGAT 58.512 37.500 0.00 0.00 0.00 2.57
4261 4385 6.636705 AGTATGTAAAGTCGGCAGTTTGATA 58.363 36.000 0.00 0.00 0.00 2.15
4262 4386 5.796350 ATGTAAAGTCGGCAGTTTGATAC 57.204 39.130 0.00 0.00 0.00 2.24
4263 4387 4.890088 TGTAAAGTCGGCAGTTTGATACT 58.110 39.130 0.00 0.00 37.68 2.12
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 18 1.593469 GGAAGCTCGCGGTAATTTCTC 59.407 52.381 6.13 0.00 0.00 2.87
27 29 2.956964 CACGGATCGGAAGCTCGC 60.957 66.667 7.35 0.00 0.00 5.03
28 30 2.278857 CCACGGATCGGAAGCTCG 60.279 66.667 7.35 0.00 0.00 5.03
34 36 2.104111 AGATTATTTGCCACGGATCGGA 59.896 45.455 7.35 0.00 0.00 4.55
41 43 4.398319 AGGGGATTAGATTATTTGCCACG 58.602 43.478 0.00 0.00 0.00 4.94
51 53 6.161170 GGGGATCAATCATAGGGGATTAGATT 59.839 42.308 0.00 0.00 35.79 2.40
63 65 3.550820 CAAACGTGGGGGATCAATCATA 58.449 45.455 0.00 0.00 0.00 2.15
64 66 2.378038 CAAACGTGGGGGATCAATCAT 58.622 47.619 0.00 0.00 0.00 2.45
68 70 1.605165 GCCAAACGTGGGGGATCAA 60.605 57.895 8.45 0.00 46.09 2.57
72 74 2.203422 CAAGCCAAACGTGGGGGA 60.203 61.111 8.45 0.00 46.09 4.81
99 101 1.433837 AAGTTGCCGGTGTCGTGTTC 61.434 55.000 1.90 0.00 33.95 3.18
103 105 2.590575 CCAAGTTGCCGGTGTCGT 60.591 61.111 1.90 0.00 33.95 4.34
125 127 6.944557 TGAATACTGATCACACAAACTACG 57.055 37.500 0.00 0.00 0.00 3.51
127 129 7.275560 CGACATGAATACTGATCACACAAACTA 59.724 37.037 0.00 0.00 0.00 2.24
152 154 3.242413 CCTTATGGAAACTGCAACGATCG 60.242 47.826 14.88 14.88 34.57 3.69
167 169 5.583854 CAGAAGTCAGTCACATTCCTTATGG 59.416 44.000 0.00 0.00 38.64 2.74
169 171 5.338708 CCCAGAAGTCAGTCACATTCCTTAT 60.339 44.000 0.00 0.00 0.00 1.73
177 180 0.764369 AGGCCCAGAAGTCAGTCACA 60.764 55.000 0.00 0.00 0.00 3.58
178 181 0.398318 AAGGCCCAGAAGTCAGTCAC 59.602 55.000 0.00 0.00 0.00 3.67
181 184 1.280421 GATCAAGGCCCAGAAGTCAGT 59.720 52.381 0.00 0.00 0.00 3.41
183 186 1.280133 CTGATCAAGGCCCAGAAGTCA 59.720 52.381 0.00 0.00 0.00 3.41
197 200 8.488668 TGAGAAATTATCATGAGTTCCTGATCA 58.511 33.333 0.09 0.00 34.14 2.92
206 209 9.359653 CCCCTTAATTGAGAAATTATCATGAGT 57.640 33.333 0.09 0.00 0.00 3.41
210 213 9.903190 AATCCCCCTTAATTGAGAAATTATCAT 57.097 29.630 0.00 0.00 0.00 2.45
224 227 7.543755 TGGCAAATTATCTAATCCCCCTTAAT 58.456 34.615 0.00 0.00 0.00 1.40
250 253 7.882791 TCATCTGAACCTTAATAAAGTGAAGCA 59.117 33.333 0.00 0.00 0.00 3.91
280 283 1.203300 TCACTGAGACAATCCAGGGGA 60.203 52.381 0.00 0.00 34.69 4.81
312 315 3.699134 GAGATTGACGGGTGGGGCC 62.699 68.421 0.00 0.00 0.00 5.80
322 325 1.972660 CTCCCCACCCCGAGATTGAC 61.973 65.000 0.00 0.00 0.00 3.18
389 392 1.760086 CCCGGACTCATCTGAGCCT 60.760 63.158 0.73 0.00 45.79 4.58
394 397 0.178767 TTCATGCCCGGACTCATCTG 59.821 55.000 0.73 0.00 0.00 2.90
402 405 2.639065 GATTTACTGTTCATGCCCGGA 58.361 47.619 0.73 0.00 0.00 5.14
449 463 7.543172 GCATCTAAGAATCTTGCATCACAAAAA 59.457 33.333 5.64 0.00 37.96 1.94
466 480 3.548214 GCACGAGTATCACGCATCTAAGA 60.548 47.826 0.00 0.00 32.63 2.10
469 483 1.673920 TGCACGAGTATCACGCATCTA 59.326 47.619 0.00 0.00 37.05 1.98
477 491 4.449405 TCACGAAATTTTGCACGAGTATCA 59.551 37.500 5.27 0.00 33.17 2.15
497 511 4.143094 GCTACTCGAATGTCCAAACTTCAC 60.143 45.833 0.00 0.00 0.00 3.18
546 560 9.624697 GTGCTATTTTCAAATGTTTCTCACATA 57.375 29.630 0.00 0.00 46.23 2.29
548 562 7.648908 CAGTGCTATTTTCAAATGTTTCTCACA 59.351 33.333 0.00 0.00 40.71 3.58
573 587 5.063204 AGAAGACAAATTCGGACATGAACA 58.937 37.500 0.00 0.00 34.27 3.18
579 593 3.004315 GGCAAAGAAGACAAATTCGGACA 59.996 43.478 0.00 0.00 34.27 4.02
581 595 2.225491 CGGCAAAGAAGACAAATTCGGA 59.775 45.455 0.00 0.00 34.27 4.55
608 622 1.961793 TGGTGAAGTTTGAACGAGGG 58.038 50.000 0.00 0.00 0.00 4.30
637 651 2.142319 TGTCCATGTGTGTGATGTTCG 58.858 47.619 0.00 0.00 0.00 3.95
641 655 2.681344 CAGGATGTCCATGTGTGTGATG 59.319 50.000 1.30 0.00 38.89 3.07
699 743 8.939201 ATGAACAGTACAGTGATCAGAAATAG 57.061 34.615 0.00 0.00 33.28 1.73
707 751 3.448686 CCCGATGAACAGTACAGTGATC 58.551 50.000 0.00 0.00 0.00 2.92
709 753 1.067142 GCCCGATGAACAGTACAGTGA 60.067 52.381 0.00 0.00 0.00 3.41
729 773 2.801631 GGTCCCGGGCTCAGATGAG 61.802 68.421 18.49 5.45 44.75 2.90
730 774 1.944896 TAGGTCCCGGGCTCAGATGA 61.945 60.000 18.49 0.00 0.00 2.92
731 775 1.048724 TTAGGTCCCGGGCTCAGATG 61.049 60.000 18.49 0.00 0.00 2.90
732 776 0.760945 CTTAGGTCCCGGGCTCAGAT 60.761 60.000 18.49 0.14 0.00 2.90
733 777 1.381327 CTTAGGTCCCGGGCTCAGA 60.381 63.158 18.49 0.00 0.00 3.27
734 778 1.686110 ACTTAGGTCCCGGGCTCAG 60.686 63.158 18.49 11.71 0.00 3.35
735 779 1.987855 CACTTAGGTCCCGGGCTCA 60.988 63.158 18.49 0.00 0.00 4.26
736 780 2.732619 CCACTTAGGTCCCGGGCTC 61.733 68.421 18.49 11.56 0.00 4.70
737 781 2.547123 ATCCACTTAGGTCCCGGGCT 62.547 60.000 18.49 11.24 39.02 5.19
738 782 0.761702 TATCCACTTAGGTCCCGGGC 60.762 60.000 18.49 11.44 39.02 6.13
741 785 2.029290 CCGAATATCCACTTAGGTCCCG 60.029 54.545 0.00 0.00 39.02 5.14
744 788 5.530712 GAACTCCGAATATCCACTTAGGTC 58.469 45.833 0.00 0.00 39.02 3.85
747 791 5.184340 ACGAACTCCGAATATCCACTTAG 57.816 43.478 0.00 0.00 41.76 2.18
748 792 5.345702 CAACGAACTCCGAATATCCACTTA 58.654 41.667 0.00 0.00 41.76 2.24
800 866 1.692411 AAAGAAAGCCCAGCGAACTT 58.308 45.000 0.00 0.00 0.00 2.66
801 867 1.692411 AAAAGAAAGCCCAGCGAACT 58.308 45.000 0.00 0.00 0.00 3.01
802 868 2.509052 AAAAAGAAAGCCCAGCGAAC 57.491 45.000 0.00 0.00 0.00 3.95
818 884 3.305064 GCCCAGCGAACATCAACTAAAAA 60.305 43.478 0.00 0.00 0.00 1.94
819 885 2.227865 GCCCAGCGAACATCAACTAAAA 59.772 45.455 0.00 0.00 0.00 1.52
820 886 1.810151 GCCCAGCGAACATCAACTAAA 59.190 47.619 0.00 0.00 0.00 1.85
821 887 1.003118 AGCCCAGCGAACATCAACTAA 59.997 47.619 0.00 0.00 0.00 2.24
822 888 0.613260 AGCCCAGCGAACATCAACTA 59.387 50.000 0.00 0.00 0.00 2.24
823 889 0.250901 AAGCCCAGCGAACATCAACT 60.251 50.000 0.00 0.00 0.00 3.16
824 890 1.448985 TAAGCCCAGCGAACATCAAC 58.551 50.000 0.00 0.00 0.00 3.18
825 891 2.418368 ATAAGCCCAGCGAACATCAA 57.582 45.000 0.00 0.00 0.00 2.57
826 892 3.181455 ACATATAAGCCCAGCGAACATCA 60.181 43.478 0.00 0.00 0.00 3.07
829 895 2.169561 TGACATATAAGCCCAGCGAACA 59.830 45.455 0.00 0.00 0.00 3.18
844 910 3.367292 GGTAAGGACGTTTCGGTGACATA 60.367 47.826 0.00 0.00 0.00 2.29
1190 1265 3.787001 GCAGGGTCTCCTTCCCCG 61.787 72.222 0.00 0.00 46.17 5.73
1233 1308 2.526873 CAGGGGATAGGACGGGGG 60.527 72.222 0.00 0.00 0.00 5.40
1292 1368 4.135153 CAGTCCGCCGGTCTCCTG 62.135 72.222 1.63 1.76 0.00 3.86
1310 1386 0.907704 ACGGATGACTACCTTGCCCA 60.908 55.000 0.00 0.00 0.00 5.36
1321 1397 0.106894 GGAAGGGGATGACGGATGAC 59.893 60.000 0.00 0.00 0.00 3.06
1371 1447 3.041940 CCTGGGTGTTGCGTCGAC 61.042 66.667 5.18 5.18 0.00 4.20
1395 1471 9.865484 GTATATTTCCTCTAAATTTTGTCGCTC 57.135 33.333 0.00 0.00 38.71 5.03
1461 1538 5.339944 AGGAAACAAGCATCCATGGTACATA 60.340 40.000 12.58 0.00 37.57 2.29
1462 1539 4.570505 AGGAAACAAGCATCCATGGTACAT 60.571 41.667 12.58 0.00 37.57 2.29
1463 1540 3.245229 AGGAAACAAGCATCCATGGTACA 60.245 43.478 12.58 0.00 37.57 2.90
1464 1541 3.129287 CAGGAAACAAGCATCCATGGTAC 59.871 47.826 12.58 2.32 37.57 3.34
1563 1641 0.879765 GCACAGCTCTGAGCAAATGT 59.120 50.000 29.49 21.79 45.56 2.71
1569 1647 4.756458 AGCCGCACAGCTCTGAGC 62.756 66.667 21.72 21.72 39.48 4.26
1592 1670 5.652452 TCGAAGAGTACATCCTCAGATTCAA 59.348 40.000 0.00 0.00 33.75 2.69
1651 1729 3.926616 TGTTCGGTTCTTGATCCTCTTC 58.073 45.455 0.00 0.00 0.00 2.87
1822 1901 7.776618 ATTGTATCCTCCTATGATACGACAA 57.223 36.000 0.00 0.00 44.83 3.18
1850 1930 5.729974 ACAAACGAGAAGACCAAGTTTAC 57.270 39.130 0.00 0.00 34.19 2.01
2019 2110 8.872845 CACTTAACAATTTCATATTTCTTGCCC 58.127 33.333 0.00 0.00 0.00 5.36
2020 2111 9.423061 ACACTTAACAATTTCATATTTCTTGCC 57.577 29.630 0.00 0.00 0.00 4.52
2089 2188 3.281727 TCCACAGCAAACAAGAAGACT 57.718 42.857 0.00 0.00 0.00 3.24
2103 2202 5.185635 TGCCAAAATAAGGATCTTTCCACAG 59.814 40.000 0.00 0.00 45.30 3.66
2106 2205 5.579047 TCTGCCAAAATAAGGATCTTTCCA 58.421 37.500 0.00 0.00 45.30 3.53
2107 2206 6.322201 TGATCTGCCAAAATAAGGATCTTTCC 59.678 38.462 0.00 0.00 42.96 3.13
2272 2374 1.494721 TCAAAGGGGACTGCTTGAGTT 59.505 47.619 0.00 0.00 42.68 3.01
2286 2388 8.597662 ATGAGAACAAATGTGAAAATCAAAGG 57.402 30.769 0.00 0.00 0.00 3.11
2387 2489 8.463930 ACAAAATCTACAGGATGAGTCAAAAA 57.536 30.769 0.00 0.00 39.69 1.94
2406 2508 7.015487 TCTCCAACATGAATTTCAGGACAAAAT 59.985 33.333 17.21 0.00 31.79 1.82
2432 2534 6.513720 GCAAGTTTTCATTTGATGTGCCATTT 60.514 34.615 0.00 0.00 0.00 2.32
2445 2547 3.118956 TGAAACCGTGGCAAGTTTTCATT 60.119 39.130 18.86 0.00 36.36 2.57
2454 2556 1.376543 TACGTTTGAAACCGTGGCAA 58.623 45.000 13.11 0.00 37.91 4.52
2554 2656 5.121811 CCTTATCTCCTCCTGAAACATGTG 58.878 45.833 0.00 0.00 0.00 3.21
2568 2670 2.038295 CCTCTGGTCATGCCTTATCTCC 59.962 54.545 7.54 0.00 38.35 3.71
2610 2712 2.365582 TGACATAGCTCGAGTACAGCA 58.634 47.619 15.13 3.27 39.56 4.41
2763 2865 0.700564 TGAGCCTTTCCCATGCTTCT 59.299 50.000 0.00 0.00 34.99 2.85
3253 3365 7.537306 TGAATTCTGCGAAAGTACAATTTTAGC 59.463 33.333 7.05 0.00 36.90 3.09
3269 3381 6.031471 TCATTTGATTCACATGAATTCTGCG 58.969 36.000 12.04 0.00 44.14 5.18
3335 3447 3.936372 TTTCCTTCTCACCTACTGTCG 57.064 47.619 0.00 0.00 0.00 4.35
3418 3530 2.699954 ACAATGCAGTTAAGTCTCCCG 58.300 47.619 0.00 0.00 0.00 5.14
3445 3557 0.250727 TTCCGTTCTTGGCTTCTGGG 60.251 55.000 0.00 0.00 0.00 4.45
3453 3565 2.693074 CCCCCAAATATTCCGTTCTTGG 59.307 50.000 0.00 0.00 36.99 3.61
3455 3567 2.384828 GCCCCCAAATATTCCGTTCTT 58.615 47.619 0.00 0.00 0.00 2.52
3460 3572 0.105709 AAGGGCCCCCAAATATTCCG 60.106 55.000 21.43 0.00 38.92 4.30
3520 3632 2.616960 TGATGTTACAGTAGCAAGGCG 58.383 47.619 0.69 0.00 0.00 5.52
3567 3679 7.244886 CAAGTAATCCCCTTGGAAAAAGAAT 57.755 36.000 0.00 0.00 45.98 2.40
3590 3702 2.625790 GGTAATGTGAACAAACTGCCCA 59.374 45.455 0.00 0.00 0.00 5.36
3592 3704 5.001232 TCTAGGTAATGTGAACAAACTGCC 58.999 41.667 0.00 0.00 0.00 4.85
3593 3705 6.149474 ACATCTAGGTAATGTGAACAAACTGC 59.851 38.462 0.00 0.00 36.04 4.40
3784 3896 1.243902 CAAAACGGGAGCCAAGCTAA 58.756 50.000 0.00 0.00 39.88 3.09
3794 3906 5.644636 GGAATAATCAGTACACAAAACGGGA 59.355 40.000 0.00 0.00 0.00 5.14
3798 3910 6.072175 TGGCTGGAATAATCAGTACACAAAAC 60.072 38.462 0.00 0.00 34.89 2.43
3805 3917 5.126067 ACATGTGGCTGGAATAATCAGTAC 58.874 41.667 0.00 0.00 34.89 2.73
3806 3918 5.372343 ACATGTGGCTGGAATAATCAGTA 57.628 39.130 0.00 0.00 34.89 2.74
3807 3919 4.240881 ACATGTGGCTGGAATAATCAGT 57.759 40.909 0.00 0.00 34.89 3.41
3808 3920 5.237996 CAGTACATGTGGCTGGAATAATCAG 59.762 44.000 18.74 0.00 35.49 2.90
3809 3921 5.104569 TCAGTACATGTGGCTGGAATAATCA 60.105 40.000 23.20 6.99 0.00 2.57
3810 3922 5.368145 TCAGTACATGTGGCTGGAATAATC 58.632 41.667 23.20 0.00 0.00 1.75
3811 3923 5.372343 TCAGTACATGTGGCTGGAATAAT 57.628 39.130 23.20 0.00 0.00 1.28
3812 3924 4.835284 TCAGTACATGTGGCTGGAATAA 57.165 40.909 23.20 8.57 0.00 1.40
3813 3925 5.372343 AATCAGTACATGTGGCTGGAATA 57.628 39.130 23.20 11.00 0.00 1.75
3814 3926 3.939740 ATCAGTACATGTGGCTGGAAT 57.060 42.857 23.20 13.06 0.00 3.01
3815 3927 3.719268 AATCAGTACATGTGGCTGGAA 57.281 42.857 23.20 11.78 0.00 3.53
3816 3928 5.368145 GAATAATCAGTACATGTGGCTGGA 58.632 41.667 23.20 14.67 0.00 3.86
3817 3929 4.516698 GGAATAATCAGTACATGTGGCTGG 59.483 45.833 23.20 11.26 0.00 4.85
3818 3930 5.125356 TGGAATAATCAGTACATGTGGCTG 58.875 41.667 19.83 19.83 0.00 4.85
3819 3931 5.371526 CTGGAATAATCAGTACATGTGGCT 58.628 41.667 9.11 3.64 0.00 4.75
3820 3932 4.023707 GCTGGAATAATCAGTACATGTGGC 60.024 45.833 9.11 1.02 34.89 5.01
3821 3933 4.516698 GGCTGGAATAATCAGTACATGTGG 59.483 45.833 9.11 0.00 34.89 4.17
3822 3934 5.008019 GTGGCTGGAATAATCAGTACATGTG 59.992 44.000 9.11 0.00 34.89 3.21
3823 3935 5.126067 GTGGCTGGAATAATCAGTACATGT 58.874 41.667 2.69 2.69 34.89 3.21
3824 3936 5.125356 TGTGGCTGGAATAATCAGTACATG 58.875 41.667 0.00 0.00 34.89 3.21
3825 3937 5.372343 TGTGGCTGGAATAATCAGTACAT 57.628 39.130 0.00 0.00 34.89 2.29
3826 3938 4.835284 TGTGGCTGGAATAATCAGTACA 57.165 40.909 0.00 0.00 34.89 2.90
3897 4009 8.931385 AAAAACATGTGGAAAGCATATACATC 57.069 30.769 0.00 0.00 30.15 3.06
4148 4272 4.695217 TCCAAACGAATGGTAAAGCATC 57.305 40.909 10.28 0.00 41.46 3.91
4157 4281 4.093998 CACTTCTCTGATCCAAACGAATGG 59.906 45.833 5.09 5.09 42.12 3.16
4161 4285 2.037121 TGCACTTCTCTGATCCAAACGA 59.963 45.455 0.00 0.00 0.00 3.85
4162 4286 2.416747 TGCACTTCTCTGATCCAAACG 58.583 47.619 0.00 0.00 0.00 3.60
4238 4362 5.796350 ATCAAACTGCCGACTTTACATAC 57.204 39.130 0.00 0.00 0.00 2.39
4253 4377 6.187727 TCTTTCTGGGTTCAGTATCAAACT 57.812 37.500 0.00 0.00 41.59 2.66
4254 4378 5.106515 GCTCTTTCTGGGTTCAGTATCAAAC 60.107 44.000 0.00 0.00 41.59 2.93
4257 4381 3.582647 TGCTCTTTCTGGGTTCAGTATCA 59.417 43.478 0.00 0.00 41.59 2.15
4258 4382 3.935828 GTGCTCTTTCTGGGTTCAGTATC 59.064 47.826 0.00 0.00 41.59 2.24
4260 4384 2.703536 TGTGCTCTTTCTGGGTTCAGTA 59.296 45.455 0.00 0.00 41.59 2.74
4261 4385 1.490490 TGTGCTCTTTCTGGGTTCAGT 59.510 47.619 0.00 0.00 41.59 3.41
4262 4386 2.149578 CTGTGCTCTTTCTGGGTTCAG 58.850 52.381 0.00 0.00 42.21 3.02
4263 4387 1.768275 TCTGTGCTCTTTCTGGGTTCA 59.232 47.619 0.00 0.00 0.00 3.18
4264 4388 2.224402 ACTCTGTGCTCTTTCTGGGTTC 60.224 50.000 0.00 0.00 0.00 3.62
4599 4886 3.589988 GACCAGAGAAGCGATCAAAGAA 58.410 45.455 0.00 0.00 0.00 2.52
4821 5108 5.255687 TGGCAGATGAAGCTTTCAAAGATA 58.744 37.500 0.00 0.00 43.95 1.98


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

AutoCloner maintained by Alex Coulton.