Multiple sequence alignment - TraesCS3D01G092800

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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 TraesCS3D01G092800 chr3D 100.000 5077 0 0 1 5077 46967950 46962874 0.000000e+00 9376
1 TraesCS3D01G092800 chr3D 92.925 424 24 5 4345 4766 46958449 46958030 3.360000e-171 612
2 TraesCS3D01G092800 chr3D 84.630 527 53 15 4576 5076 148879934 148879410 2.730000e-137 499
3 TraesCS3D01G092800 chr3B 87.407 4693 235 149 1 4527 73307884 73303382 0.000000e+00 5064
4 TraesCS3D01G092800 chr3A 91.343 2599 93 46 4 2514 58687867 58685313 0.000000e+00 3432
5 TraesCS3D01G092800 chr3A 87.747 1673 93 40 2904 4527 58684702 58683093 0.000000e+00 1851
6 TraesCS3D01G092800 chr3A 91.530 366 18 6 2550 2908 58685169 58684810 4.570000e-135 492
7 TraesCS3D01G092800 chr3A 96.567 233 8 0 3716 3948 58071532 58071300 2.220000e-103 387
8 TraesCS3D01G092800 chr3A 79.794 485 29 31 4023 4471 58071300 58070849 6.430000e-74 289
9 TraesCS3D01G092800 chr2D 87.849 502 23 22 4576 5077 86472401 86471938 5.740000e-154 555
10 TraesCS3D01G092800 chr2D 82.164 499 52 32 4576 5066 620210870 620210401 1.320000e-105 394
11 TraesCS3D01G092800 chr2D 84.928 345 41 9 4576 4915 424633352 424633014 6.300000e-89 339
12 TraesCS3D01G092800 chr1D 82.746 539 49 28 4576 5077 87896445 87895914 1.680000e-119 440
13 TraesCS3D01G092800 chr1D 93.642 173 9 2 2293 2464 111514650 111514479 1.810000e-64 257
14 TraesCS3D01G092800 chr7D 90.253 277 26 1 4576 4852 414276529 414276254 1.340000e-95 361
15 TraesCS3D01G092800 chr7D 87.708 301 30 6 4576 4870 586424921 586424622 1.350000e-90 344
16 TraesCS3D01G092800 chr7D 81.793 368 60 5 3711 4075 197150540 197150903 8.260000e-78 302
17 TraesCS3D01G092800 chr4D 88.112 286 32 2 4578 4863 54385468 54385185 6.300000e-89 339
18 TraesCS3D01G092800 chr7A 81.793 368 60 5 3711 4075 206582250 206582613 8.260000e-78 302
19 TraesCS3D01G092800 chr7B 81.250 368 62 5 3711 4075 161447874 161448237 1.790000e-74 291
20 TraesCS3D01G092800 chr1A 93.567 171 9 2 2295 2464 117889715 117889546 2.350000e-63 254
21 TraesCS3D01G092800 chr1B 92.045 176 12 2 2293 2467 170515218 170515044 3.930000e-61 246
22 TraesCS3D01G092800 chr5D 87.755 98 9 1 1176 1273 545286733 545286639 1.490000e-20 111


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 TraesCS3D01G092800 chr3D 46962874 46967950 5076 True 9376 9376 100.000000 1 5077 1 chr3D.!!$R2 5076
1 TraesCS3D01G092800 chr3D 148879410 148879934 524 True 499 499 84.630000 4576 5076 1 chr3D.!!$R3 500
2 TraesCS3D01G092800 chr3B 73303382 73307884 4502 True 5064 5064 87.407000 1 4527 1 chr3B.!!$R1 4526
3 TraesCS3D01G092800 chr3A 58683093 58687867 4774 True 1925 3432 90.206667 4 4527 3 chr3A.!!$R2 4523
4 TraesCS3D01G092800 chr3A 58070849 58071532 683 True 338 387 88.180500 3716 4471 2 chr3A.!!$R1 755
5 TraesCS3D01G092800 chr1D 87895914 87896445 531 True 440 440 82.746000 4576 5077 1 chr1D.!!$R1 501

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
666 768 1.537202 GTCCACCACATCACTTCAAGC 59.463 52.381 0.00 0.0 0.0 4.01 F
1546 1671 0.243095 GGCCGTCGTTCTGAAGTAGT 59.757 55.000 0.00 0.0 0.0 2.73 F
3316 3713 0.035317 AAACCGATGTGAGCTGAGCA 59.965 50.000 7.39 0.0 0.0 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2261 2420 0.179129 CCAAACGGCCATCATCAAGC 60.179 55.0 2.24 0.00 0.00 4.01 R
3405 3802 0.246635 TCCAGTAGGTGAAGAAGCGC 59.753 55.0 0.00 0.00 35.89 5.92 R
4507 4980 0.249868 TCTTATTGAGGCGCATCCCG 60.250 55.0 20.64 3.34 40.75 5.14 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
65 66 1.749033 GCGGACAGGGATAGGAAGG 59.251 63.158 0.00 0.00 0.00 3.46
66 67 1.749033 CGGACAGGGATAGGAAGGC 59.251 63.158 0.00 0.00 0.00 4.35
212 213 1.802069 AAAGCGAAGGAAGAGTGAGC 58.198 50.000 0.00 0.00 0.00 4.26
279 285 2.558286 CGGTGGATGCCATGCCATC 61.558 63.158 8.15 8.15 40.65 3.51
416 469 2.224719 GCAGTAATCCATCCATCCAGCT 60.225 50.000 0.00 0.00 0.00 4.24
418 471 4.573900 CAGTAATCCATCCATCCAGCTAC 58.426 47.826 0.00 0.00 0.00 3.58
423 489 2.439507 TCCATCCATCCAGCTACCTTTC 59.560 50.000 0.00 0.00 0.00 2.62
516 587 2.201921 ATGAGATGATGCCATGGCTC 57.798 50.000 35.53 27.90 42.51 4.70
666 768 1.537202 GTCCACCACATCACTTCAAGC 59.463 52.381 0.00 0.00 0.00 4.01
709 811 4.074408 CCCATCCCCACCCCCAAC 62.074 72.222 0.00 0.00 0.00 3.77
710 812 4.074408 CCATCCCCACCCCCAACC 62.074 72.222 0.00 0.00 0.00 3.77
711 813 4.074408 CATCCCCACCCCCAACCC 62.074 72.222 0.00 0.00 0.00 4.11
747 849 2.819608 CGACATTTGGTTGACCTTCCAT 59.180 45.455 1.34 0.00 36.82 3.41
751 853 4.524328 ACATTTGGTTGACCTTCCATCTTC 59.476 41.667 1.34 0.00 36.82 2.87
753 855 4.387026 TTGGTTGACCTTCCATCTTCAT 57.613 40.909 1.34 0.00 36.82 2.57
760 862 4.281941 TGACCTTCCATCTTCATATCGAGG 59.718 45.833 0.00 0.00 0.00 4.63
761 863 3.007398 ACCTTCCATCTTCATATCGAGGC 59.993 47.826 0.00 0.00 0.00 4.70
762 864 3.260380 CCTTCCATCTTCATATCGAGGCT 59.740 47.826 0.00 0.00 0.00 4.58
763 865 4.493547 CTTCCATCTTCATATCGAGGCTC 58.506 47.826 3.87 3.87 0.00 4.70
764 866 2.828520 TCCATCTTCATATCGAGGCTCC 59.171 50.000 9.32 0.00 0.00 4.70
765 867 2.416566 CCATCTTCATATCGAGGCTCCG 60.417 54.545 9.32 4.45 0.00 4.63
784 902 2.126071 CCACACTACGCCTCCACG 60.126 66.667 0.00 0.00 39.50 4.94
785 903 2.809601 CACACTACGCCTCCACGC 60.810 66.667 0.00 0.00 36.19 5.34
786 904 2.989824 ACACTACGCCTCCACGCT 60.990 61.111 0.00 0.00 36.19 5.07
787 905 1.676635 ACACTACGCCTCCACGCTA 60.677 57.895 0.00 0.00 36.19 4.26
807 925 6.260493 ACGCTAGCTCCTATATTTATAGTCGG 59.740 42.308 13.93 0.00 35.09 4.79
923 1044 1.565305 GGATACAGACAAGCGAGCAG 58.435 55.000 0.00 0.00 0.00 4.24
942 1063 2.356382 CAGCAACGACTCTACTCCCTAG 59.644 54.545 0.00 0.00 0.00 3.02
944 1065 1.677052 CAACGACTCTACTCCCTAGCC 59.323 57.143 0.00 0.00 0.00 3.93
972 1096 4.827284 GGTTTTGAGGTGAATCCAAGAGAA 59.173 41.667 0.00 0.00 39.02 2.87
973 1097 5.048434 GGTTTTGAGGTGAATCCAAGAGAAG 60.048 44.000 0.00 0.00 39.02 2.85
974 1098 5.567037 TTTGAGGTGAATCCAAGAGAAGA 57.433 39.130 0.00 0.00 39.02 2.87
1179 1303 1.846541 GAGCTTACCAGAGCATCGTC 58.153 55.000 0.00 0.00 45.12 4.20
1281 1405 0.676782 GATGTTTGACCCCCGACCTG 60.677 60.000 0.00 0.00 0.00 4.00
1462 1586 2.088674 GAGGTCGTCCATCCCATCCG 62.089 65.000 0.51 0.00 35.89 4.18
1472 1596 0.764752 ATCCCATCCGTCCCTTCTCC 60.765 60.000 0.00 0.00 0.00 3.71
1473 1597 1.689233 CCCATCCGTCCCTTCTCCA 60.689 63.158 0.00 0.00 0.00 3.86
1546 1671 0.243095 GGCCGTCGTTCTGAAGTAGT 59.757 55.000 0.00 0.00 0.00 2.73
1551 1676 3.852536 CCGTCGTTCTGAAGTAGTGATTC 59.147 47.826 0.00 0.00 0.00 2.52
1559 1684 7.148722 CGTTCTGAAGTAGTGATTCTCCTTTTC 60.149 40.741 0.00 0.00 0.00 2.29
1560 1685 6.702329 TCTGAAGTAGTGATTCTCCTTTTCC 58.298 40.000 0.00 0.00 0.00 3.13
1561 1686 6.498651 TCTGAAGTAGTGATTCTCCTTTTCCT 59.501 38.462 0.00 0.00 0.00 3.36
1628 1753 2.184579 GAGGAAGAAGGGGACGCG 59.815 66.667 3.53 3.53 0.00 6.01
1805 1930 2.181021 GACGGCCACGAGGTACTG 59.819 66.667 2.24 0.00 41.55 2.74
1807 1932 3.760035 CGGCCACGAGGTACTGCT 61.760 66.667 2.24 0.00 41.55 4.24
1808 1933 2.412323 CGGCCACGAGGTACTGCTA 61.412 63.158 2.24 0.00 41.55 3.49
1809 1934 1.141234 GGCCACGAGGTACTGCTAC 59.859 63.158 0.00 0.00 41.55 3.58
1810 1935 1.226603 GCCACGAGGTACTGCTACG 60.227 63.158 0.00 0.00 41.55 3.51
1812 1937 1.226603 CACGAGGTACTGCTACGCC 60.227 63.158 0.00 0.00 41.55 5.68
1815 1942 1.757340 GAGGTACTGCTACGCCCCT 60.757 63.158 0.00 0.00 41.55 4.79
1819 1946 1.831286 TACTGCTACGCCCCTAGCC 60.831 63.158 0.84 0.00 38.77 3.93
1852 1985 2.604614 CGTACGGCGATCTCATCAATCA 60.605 50.000 16.62 0.00 44.77 2.57
1856 1989 2.411069 CGGCGATCTCATCAATCATCAC 59.589 50.000 0.00 0.00 0.00 3.06
1897 2037 5.124776 CCAGATTAGCGGTACCATTGAAAAA 59.875 40.000 13.54 0.00 0.00 1.94
1900 2040 3.230743 AGCGGTACCATTGAAAAATGC 57.769 42.857 13.54 2.73 0.00 3.56
1928 2068 2.356313 ACAGCGGCTTCACTGACG 60.356 61.111 0.00 0.00 42.16 4.35
1961 2101 1.214589 CGTAGCCAGTAACTGCGGT 59.785 57.895 0.00 0.00 39.23 5.68
2010 2150 3.670523 CCACACGATCGCTCAATAGTATG 59.329 47.826 16.60 4.19 0.00 2.39
2261 2420 2.262423 GGCATGGACCTTAGCCTTAG 57.738 55.000 13.15 0.00 43.70 2.18
2262 2421 1.598882 GCATGGACCTTAGCCTTAGC 58.401 55.000 0.00 0.00 40.32 3.09
2473 2632 1.553690 GCTGGCAGGTACCTTCTCCA 61.554 60.000 13.15 17.90 0.00 3.86
2480 2639 1.437547 AGGTACCTTCTCCACCTTCCT 59.562 52.381 9.21 0.00 39.73 3.36
2482 2641 1.832366 GTACCTTCTCCACCTTCCTCC 59.168 57.143 0.00 0.00 0.00 4.30
2488 2647 4.294347 CTTCTCCACCTTCCTCCTATCTT 58.706 47.826 0.00 0.00 0.00 2.40
2497 2656 4.521146 CTTCCTCCTATCTTGTTGCATGT 58.479 43.478 0.00 0.00 0.00 3.21
2500 2659 5.674525 TCCTCCTATCTTGTTGCATGTAAG 58.325 41.667 0.00 0.00 0.00 2.34
2554 2822 4.636648 TCTTCTTCTCGAGACAGTACCATC 59.363 45.833 16.36 0.00 33.02 3.51
2581 2849 9.167311 GAAGAGTGTTAATGTGAAAGATATGGT 57.833 33.333 0.00 0.00 0.00 3.55
2602 2870 4.637534 GGTGAATAGCTGCAAGATCTTTCA 59.362 41.667 4.86 6.41 33.85 2.69
2605 2873 2.574006 AGCTGCAAGATCTTTCACCA 57.426 45.000 4.86 0.33 34.07 4.17
2607 2875 2.157738 GCTGCAAGATCTTTCACCAGT 58.842 47.619 4.86 0.00 34.07 4.00
2613 2881 4.633565 GCAAGATCTTTCACCAGTTAGAGG 59.366 45.833 4.86 0.00 0.00 3.69
2692 2966 0.933796 GGCTGCAAAGCGATCTAGTC 59.066 55.000 0.50 0.00 35.24 2.59
2693 2967 1.472376 GGCTGCAAAGCGATCTAGTCT 60.472 52.381 0.50 0.00 35.24 3.24
2694 2968 2.223829 GGCTGCAAAGCGATCTAGTCTA 60.224 50.000 0.50 0.00 35.24 2.59
2695 2969 3.049206 GCTGCAAAGCGATCTAGTCTAG 58.951 50.000 0.00 0.00 0.00 2.43
2696 2970 3.490078 GCTGCAAAGCGATCTAGTCTAGT 60.490 47.826 6.77 0.00 0.00 2.57
2714 2988 2.349445 AGTTATAATGGGAGGGAGGGC 58.651 52.381 0.00 0.00 0.00 5.19
2805 3083 2.240500 GCAGGTCGATCGATGTGGC 61.241 63.158 22.50 17.90 0.00 5.01
2947 3337 9.064706 AGGATAAGTCATGATCAAGCATTTTAG 57.935 33.333 0.00 0.00 0.00 1.85
2957 3347 8.978874 TGATCAAGCATTTTAGGTACACATAT 57.021 30.769 0.00 0.00 0.00 1.78
2960 3350 8.360325 TCAAGCATTTTAGGTACACATATACG 57.640 34.615 0.00 0.00 0.00 3.06
2983 3373 7.873910 ACGTATTAAGATTAGCAGAGTAGTCC 58.126 38.462 0.00 0.00 0.00 3.85
3000 3390 7.285858 AGAGTAGTCCAGACACCATTATAGTTC 59.714 40.741 0.00 0.00 0.00 3.01
3005 3395 6.926272 GTCCAGACACCATTATAGTTCAGATC 59.074 42.308 0.00 0.00 0.00 2.75
3008 3398 7.448420 CAGACACCATTATAGTTCAGATCCAT 58.552 38.462 0.00 0.00 0.00 3.41
3048 3438 2.740981 GCATCCTTGATCGCCATCTTAG 59.259 50.000 0.00 0.00 0.00 2.18
3049 3439 3.805108 GCATCCTTGATCGCCATCTTAGT 60.805 47.826 0.00 0.00 0.00 2.24
3050 3440 4.561530 GCATCCTTGATCGCCATCTTAGTA 60.562 45.833 0.00 0.00 0.00 1.82
3075 3465 3.076621 GTGAACATGCATCCTTGTCTCA 58.923 45.455 0.00 0.00 0.00 3.27
3086 3476 5.163581 GCATCCTTGTCTCATTGCAGTAAAT 60.164 40.000 0.00 0.00 0.00 1.40
3118 3508 2.436417 TCTTGTTAGCATGCTTGACCC 58.564 47.619 28.02 9.91 0.00 4.46
3146 3536 2.226437 GGTTGCATGTTGACTGTGTAGG 59.774 50.000 0.00 0.00 0.00 3.18
3147 3537 3.138304 GTTGCATGTTGACTGTGTAGGA 58.862 45.455 0.00 0.00 0.00 2.94
3148 3538 3.044235 TGCATGTTGACTGTGTAGGAG 57.956 47.619 0.00 0.00 0.00 3.69
3149 3539 2.368548 TGCATGTTGACTGTGTAGGAGT 59.631 45.455 0.00 0.00 0.00 3.85
3150 3540 3.576550 TGCATGTTGACTGTGTAGGAGTA 59.423 43.478 0.00 0.00 0.00 2.59
3151 3541 4.177026 GCATGTTGACTGTGTAGGAGTAG 58.823 47.826 0.00 0.00 0.00 2.57
3236 3626 1.149174 AGTGCCACAGTTGACCTGG 59.851 57.895 0.00 0.00 46.06 4.45
3237 3627 1.152963 GTGCCACAGTTGACCTGGT 60.153 57.895 0.00 0.00 46.06 4.00
3238 3628 0.751643 GTGCCACAGTTGACCTGGTT 60.752 55.000 0.00 0.00 46.06 3.67
3283 3673 1.746787 GGGTTTGAAACGAGTGTGGTT 59.253 47.619 1.53 0.00 0.00 3.67
3288 3682 3.248495 TGAAACGAGTGTGGTTGTACA 57.752 42.857 0.00 0.00 0.00 2.90
3316 3713 0.035317 AAACCGATGTGAGCTGAGCA 59.965 50.000 7.39 0.00 0.00 4.26
3347 3744 3.612860 GCAGTCCATACGTGTTAACTCTG 59.387 47.826 7.22 3.04 0.00 3.35
3431 3828 3.705051 TCTTCACCTACTGGACGGTAAT 58.295 45.455 0.00 0.00 37.04 1.89
3453 3859 2.158667 TCCTCCTCTCAACCAAAACACC 60.159 50.000 0.00 0.00 0.00 4.16
3455 3861 1.210967 TCCTCTCAACCAAAACACCGT 59.789 47.619 0.00 0.00 0.00 4.83
3456 3862 1.333619 CCTCTCAACCAAAACACCGTG 59.666 52.381 0.00 0.00 0.00 4.94
3459 3865 0.681564 TCAACCAAAACACCGTGGCT 60.682 50.000 3.03 0.00 38.58 4.75
3461 3867 0.681564 AACCAAAACACCGTGGCTCA 60.682 50.000 3.03 0.00 38.58 4.26
3462 3868 0.681564 ACCAAAACACCGTGGCTCAA 60.682 50.000 3.03 0.00 38.58 3.02
3463 3869 0.673437 CCAAAACACCGTGGCTCAAT 59.327 50.000 3.03 0.00 0.00 2.57
3464 3870 1.068434 CCAAAACACCGTGGCTCAATT 59.932 47.619 3.03 0.00 0.00 2.32
3523 3930 8.376942 GTGCAAAAACGAAGAAAACTAAATGAA 58.623 29.630 0.00 0.00 0.00 2.57
3524 3931 8.926710 TGCAAAAACGAAGAAAACTAAATGAAA 58.073 25.926 0.00 0.00 0.00 2.69
3525 3932 9.914923 GCAAAAACGAAGAAAACTAAATGAAAT 57.085 25.926 0.00 0.00 0.00 2.17
3782 4189 0.980231 CCTCCCTCTTCTCCCACCTG 60.980 65.000 0.00 0.00 0.00 4.00
3926 4333 2.027625 CTTCCGCAACGTCCAGGTC 61.028 63.158 0.00 0.00 0.00 3.85
3929 4336 3.403057 CGCAACGTCCAGGTCGTG 61.403 66.667 12.75 8.14 41.38 4.35
3956 4363 3.647771 AACAACCTCCTCCCCGCC 61.648 66.667 0.00 0.00 0.00 6.13
4077 4484 3.901797 AACGTGCACTGCCCCTAGC 62.902 63.158 16.19 0.00 44.14 3.42
4133 4549 1.157585 GTGCCGGAGAAAAAGGAGAC 58.842 55.000 5.05 0.00 0.00 3.36
4144 4560 4.962995 AGAAAAAGGAGACCCATCGATCTA 59.037 41.667 0.00 0.00 33.88 1.98
4154 4577 5.533154 AGACCCATCGATCTACTTAACTGAG 59.467 44.000 0.00 0.00 0.00 3.35
4252 4691 2.225019 GGCAGCAAACATCGATCCTATG 59.775 50.000 0.00 1.99 0.00 2.23
4270 4709 5.535406 TCCTATGTAGCTAGCTAGTGGTTTC 59.465 44.000 24.78 11.53 0.00 2.78
4271 4710 3.777465 TGTAGCTAGCTAGTGGTTTCG 57.223 47.619 24.78 0.00 0.00 3.46
4310 4772 2.229792 TGATGTGGTTGAGGCTTGTTC 58.770 47.619 0.00 0.00 0.00 3.18
4313 4775 2.297701 TGTGGTTGAGGCTTGTTCTTC 58.702 47.619 0.00 0.00 0.00 2.87
4315 4777 2.550180 GTGGTTGAGGCTTGTTCTTCTC 59.450 50.000 0.00 0.00 0.00 2.87
4316 4778 2.155279 GGTTGAGGCTTGTTCTTCTCC 58.845 52.381 0.00 0.00 0.00 3.71
4324 4787 4.103943 AGGCTTGTTCTTCTCCTTTTCTCT 59.896 41.667 0.00 0.00 0.00 3.10
4334 4797 6.830838 TCTTCTCCTTTTCTCTTTTTGAGCTT 59.169 34.615 0.00 0.00 42.38 3.74
4421 4894 4.435425 TCCTATTATGTACGGTGTGTTGC 58.565 43.478 0.00 0.00 0.00 4.17
4433 4906 1.004292 GTGTGTTGCACCGTAGTGTTC 60.004 52.381 0.00 0.00 46.35 3.18
4435 4908 0.533308 TGTTGCACCGTAGTGTTCCC 60.533 55.000 0.00 0.00 46.35 3.97
4436 4909 1.071814 TTGCACCGTAGTGTTCCCC 59.928 57.895 0.00 0.00 46.35 4.81
4504 4977 4.272991 GCTGTTCATGAACTGATGAGGATC 59.727 45.833 35.84 19.05 41.07 3.36
4507 4980 4.952071 TCATGAACTGATGAGGATCTCC 57.048 45.455 0.00 0.00 34.92 3.71
4519 4992 3.581687 GATCTCCGGGATGCGCCTC 62.582 68.421 4.18 3.99 34.33 4.70
4527 5000 1.230324 GGGATGCGCCTCAATAAGAC 58.770 55.000 14.77 0.00 36.66 3.01
4528 5001 0.861837 GGATGCGCCTCAATAAGACG 59.138 55.000 14.77 0.00 0.00 4.18
4534 5007 1.852942 GCCTCAATAAGACGCGATGA 58.147 50.000 15.93 6.22 0.00 2.92
4535 5008 1.523095 GCCTCAATAAGACGCGATGAC 59.477 52.381 15.93 0.65 0.00 3.06
4536 5009 2.799917 GCCTCAATAAGACGCGATGACT 60.800 50.000 15.93 3.36 0.00 3.41
4537 5010 3.550233 GCCTCAATAAGACGCGATGACTA 60.550 47.826 15.93 0.00 0.00 2.59
4538 5011 4.799678 CCTCAATAAGACGCGATGACTAT 58.200 43.478 15.93 0.00 0.00 2.12
4539 5012 5.223382 CCTCAATAAGACGCGATGACTATT 58.777 41.667 15.93 5.54 0.00 1.73
4540 5013 5.692204 CCTCAATAAGACGCGATGACTATTT 59.308 40.000 15.93 1.67 0.00 1.40
4541 5014 6.129062 CCTCAATAAGACGCGATGACTATTTC 60.129 42.308 15.93 0.00 0.00 2.17
4542 5015 6.504398 TCAATAAGACGCGATGACTATTTCT 58.496 36.000 15.93 0.00 0.00 2.52
4543 5016 6.637254 TCAATAAGACGCGATGACTATTTCTC 59.363 38.462 15.93 0.00 0.00 2.87
4544 5017 2.988343 AGACGCGATGACTATTTCTCG 58.012 47.619 15.93 0.00 0.00 4.04
4551 5024 5.814314 CGATGACTATTTCTCGCCTTAAG 57.186 43.478 0.00 0.00 0.00 1.85
4552 5025 4.149046 CGATGACTATTTCTCGCCTTAAGC 59.851 45.833 0.00 0.00 38.52 3.09
4563 5036 2.388310 GCCTTAAGCGAGACTTCCTT 57.612 50.000 0.00 0.00 39.97 3.36
4564 5037 2.272678 GCCTTAAGCGAGACTTCCTTC 58.727 52.381 0.00 0.00 39.97 3.46
4565 5038 2.093921 GCCTTAAGCGAGACTTCCTTCT 60.094 50.000 0.00 0.00 39.97 2.85
4566 5039 3.516615 CCTTAAGCGAGACTTCCTTCTG 58.483 50.000 0.00 0.00 39.97 3.02
4567 5040 3.056465 CCTTAAGCGAGACTTCCTTCTGT 60.056 47.826 0.00 0.00 39.97 3.41
4568 5041 2.734276 AAGCGAGACTTCCTTCTGTC 57.266 50.000 0.00 0.00 30.77 3.51
4569 5042 1.917872 AGCGAGACTTCCTTCTGTCT 58.082 50.000 0.00 0.00 45.06 3.41
4574 5047 4.027572 GAGACTTCCTTCTGTCTCGATG 57.972 50.000 7.27 0.00 46.10 3.84
4612 5085 1.613255 CCCCGCATAAGTGGTCAAACT 60.613 52.381 0.00 0.00 44.14 2.66
4615 5088 2.066262 CGCATAAGTGGTCAAACTCGT 58.934 47.619 0.00 0.00 0.00 4.18
4622 5095 8.395633 GCATAAGTGGTCAAACTCGTAAAATAT 58.604 33.333 0.00 0.00 0.00 1.28
4685 5160 1.065998 CCCCTTAAAATCGTCCGACCA 60.066 52.381 0.00 0.00 0.00 4.02
4690 5165 5.529800 CCCTTAAAATCGTCCGACCATTAAT 59.470 40.000 0.00 0.00 0.00 1.40
4694 5169 9.349145 CTTAAAATCGTCCGACCATTAATTTTT 57.651 29.630 0.00 0.00 0.00 1.94
4802 5277 2.289195 ACGTTGGCGGTTGAGAAATCTA 60.289 45.455 0.00 0.00 43.45 1.98
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
191 192 2.158645 GCTCACTCTTCCTTCGCTTTTC 59.841 50.000 0.00 0.00 0.00 2.29
199 200 1.594310 GAGCGGCTCACTCTTCCTT 59.406 57.895 24.42 0.00 0.00 3.36
212 213 3.591835 GAGGAGAGGAGCGAGCGG 61.592 72.222 0.00 0.00 0.00 5.52
293 299 1.006832 GAAACAGAGCGTGTGTGTGT 58.993 50.000 0.00 0.00 40.26 3.72
299 305 6.293462 GGAATAAAGAAAGAAACAGAGCGTGT 60.293 38.462 0.00 0.00 43.24 4.49
445 511 1.589414 CCCTCTCCACATTCCCTTCT 58.411 55.000 0.00 0.00 0.00 2.85
547 618 1.362406 CGCTTTTTCCCGAGGAGAGC 61.362 60.000 11.46 11.46 33.64 4.09
642 744 0.321671 AAGTGATGTGGTGGACGGAG 59.678 55.000 0.00 0.00 0.00 4.63
666 768 1.301293 GGGGAGGTGAGCTTGAAGG 59.699 63.158 0.00 0.00 0.00 3.46
733 835 5.684704 GATATGAAGATGGAAGGTCAACCA 58.315 41.667 1.33 0.00 40.57 3.67
747 849 1.248486 CCGGAGCCTCGATATGAAGA 58.752 55.000 0.00 0.00 0.00 2.87
761 863 4.814294 GGCGTAGTGTGGCCGGAG 62.814 72.222 5.05 0.00 39.93 4.63
774 892 3.827898 GAGCTAGCGTGGAGGCGT 61.828 66.667 9.55 0.00 38.18 5.68
776 894 1.182385 ATAGGAGCTAGCGTGGAGGC 61.182 60.000 9.55 0.00 0.00 4.70
784 902 6.546772 ACCCGACTATAAATATAGGAGCTAGC 59.453 42.308 6.62 6.62 39.91 3.42
785 903 9.275398 CTACCCGACTATAAATATAGGAGCTAG 57.725 40.741 11.18 0.00 39.91 3.42
786 904 8.776119 ACTACCCGACTATAAATATAGGAGCTA 58.224 37.037 11.18 0.00 39.91 3.32
787 905 7.641249 ACTACCCGACTATAAATATAGGAGCT 58.359 38.462 11.18 0.00 39.91 4.09
807 925 1.153208 TCGCCCGAGAGAGACTACC 60.153 63.158 0.00 0.00 0.00 3.18
923 1044 1.065851 GCTAGGGAGTAGAGTCGTTGC 59.934 57.143 0.00 0.00 0.00 4.17
942 1063 1.398692 TCACCTCAAAACCTTGTGGC 58.601 50.000 6.00 0.00 46.03 5.01
944 1065 3.636300 TGGATTCACCTCAAAACCTTGTG 59.364 43.478 0.00 0.00 39.86 3.33
972 1096 2.217038 TGCGTGGGCTTCTCCTTCT 61.217 57.895 0.00 0.00 40.82 2.85
973 1097 2.035442 GTGCGTGGGCTTCTCCTTC 61.035 63.158 0.00 0.00 40.82 3.46
974 1098 2.032681 GTGCGTGGGCTTCTCCTT 59.967 61.111 0.00 0.00 40.82 3.36
1164 1288 1.141019 GGCGACGATGCTCTGGTAA 59.859 57.895 0.00 0.00 34.52 2.85
1179 1303 1.889105 CATCTTGTCCATCCGGGCG 60.889 63.158 0.00 0.00 41.18 6.13
1281 1405 3.254892 GAACAAGGTGGTCGAGAGATTC 58.745 50.000 0.00 0.00 45.19 2.52
1462 1586 1.840635 AGTTGGCTATGGAGAAGGGAC 59.159 52.381 0.00 0.00 0.00 4.46
1472 1596 3.065786 CAGCATTGGTGTAGTTGGCTATG 59.934 47.826 7.69 0.00 0.00 2.23
1473 1597 3.282021 CAGCATTGGTGTAGTTGGCTAT 58.718 45.455 7.69 0.00 0.00 2.97
1546 1671 5.458041 CTGCAAAAGGAAAAGGAGAATCA 57.542 39.130 0.00 0.00 36.25 2.57
1577 1702 0.341258 TGATCTTGGGCCTCTCCTCT 59.659 55.000 4.53 0.00 34.39 3.69
1810 1935 1.690352 TGTTAGTTATCGGCTAGGGGC 59.310 52.381 0.00 0.00 40.90 5.80
1812 1937 2.360165 ACGTGTTAGTTATCGGCTAGGG 59.640 50.000 0.00 0.00 0.00 3.53
1815 1942 3.002246 CCGTACGTGTTAGTTATCGGCTA 59.998 47.826 15.21 0.00 0.00 3.93
1819 1946 1.769622 CGCCGTACGTGTTAGTTATCG 59.230 52.381 15.21 0.00 36.87 2.92
1852 1985 3.117888 GGTGGGTCAGTATTGATGGTGAT 60.118 47.826 0.00 0.00 35.39 3.06
1856 1989 2.505407 TCTGGTGGGTCAGTATTGATGG 59.495 50.000 0.00 0.00 35.39 3.51
1897 2037 1.064505 CCGCTGTCGATCAATTTGCAT 59.935 47.619 0.00 0.00 38.10 3.96
1900 2040 0.729116 AGCCGCTGTCGATCAATTTG 59.271 50.000 0.00 0.00 38.10 2.32
1928 2068 1.531470 GCTACGAGCCTACGACTGTTC 60.531 57.143 0.00 0.00 34.48 3.18
1961 2101 2.070783 GATTTGGTCGCGTGGTTAAGA 58.929 47.619 5.77 0.00 0.00 2.10
2010 2150 2.971428 TTATCCAGCTACTGCGCGCC 62.971 60.000 30.77 12.97 45.42 6.53
2057 2197 1.101635 ACGCAGGTCGATGCTAGCTA 61.102 55.000 17.23 2.58 44.24 3.32
2058 2198 2.343163 GACGCAGGTCGATGCTAGCT 62.343 60.000 17.23 0.83 44.24 3.32
2059 2199 1.946650 GACGCAGGTCGATGCTAGC 60.947 63.158 8.10 8.10 44.24 3.42
2237 2385 0.183492 GCTAAGGTCCATGCCATCCA 59.817 55.000 0.00 0.00 0.00 3.41
2257 2416 1.959042 ACGGCCATCATCAAGCTAAG 58.041 50.000 2.24 0.00 0.00 2.18
2258 2417 2.418368 AACGGCCATCATCAAGCTAA 57.582 45.000 2.24 0.00 0.00 3.09
2259 2418 2.016318 CAAACGGCCATCATCAAGCTA 58.984 47.619 2.24 0.00 0.00 3.32
2260 2419 0.813184 CAAACGGCCATCATCAAGCT 59.187 50.000 2.24 0.00 0.00 3.74
2261 2420 0.179129 CCAAACGGCCATCATCAAGC 60.179 55.000 2.24 0.00 0.00 4.01
2262 2421 0.179129 GCCAAACGGCCATCATCAAG 60.179 55.000 2.24 0.00 44.46 3.02
2473 2632 2.912956 TGCAACAAGATAGGAGGAAGGT 59.087 45.455 0.00 0.00 0.00 3.50
2480 2639 5.102953 AGCTTACATGCAACAAGATAGGA 57.897 39.130 8.91 0.00 34.99 2.94
2482 2641 6.983307 AGAGTAGCTTACATGCAACAAGATAG 59.017 38.462 8.91 0.00 34.99 2.08
2524 2683 9.575783 GTACTGTCTCGAGAAGAAGAAAAATAT 57.424 33.333 18.55 0.76 35.21 1.28
2554 2822 8.331022 CCATATCTTTCACATTAACACTCTTCG 58.669 37.037 0.00 0.00 0.00 3.79
2581 2849 4.637534 GGTGAAAGATCTTGCAGCTATTCA 59.362 41.667 30.42 15.92 41.98 2.57
2586 2854 2.224719 ACTGGTGAAAGATCTTGCAGCT 60.225 45.455 34.57 20.14 44.70 4.24
2587 2855 2.157738 ACTGGTGAAAGATCTTGCAGC 58.842 47.619 30.83 30.83 44.68 5.25
2602 2870 2.563179 CTGCTACACACCTCTAACTGGT 59.437 50.000 0.00 0.00 38.53 4.00
2605 2873 3.170991 TCCTGCTACACACCTCTAACT 57.829 47.619 0.00 0.00 0.00 2.24
2607 2875 3.507411 ACTTCCTGCTACACACCTCTAA 58.493 45.455 0.00 0.00 0.00 2.10
2613 2881 4.246458 CTCCTTAACTTCCTGCTACACAC 58.754 47.826 0.00 0.00 0.00 3.82
2617 2885 3.195825 TCAGCTCCTTAACTTCCTGCTAC 59.804 47.826 0.00 0.00 0.00 3.58
2692 2966 3.519913 GCCCTCCCTCCCATTATAACTAG 59.480 52.174 0.00 0.00 0.00 2.57
2693 2967 3.116120 TGCCCTCCCTCCCATTATAACTA 60.116 47.826 0.00 0.00 0.00 2.24
2694 2968 2.349445 GCCCTCCCTCCCATTATAACT 58.651 52.381 0.00 0.00 0.00 2.24
2695 2969 2.040412 CTGCCCTCCCTCCCATTATAAC 59.960 54.545 0.00 0.00 0.00 1.89
2696 2970 2.348472 CTGCCCTCCCTCCCATTATAA 58.652 52.381 0.00 0.00 0.00 0.98
2854 3132 1.252904 GCTGGGCATTCAAGCAAGGA 61.253 55.000 0.00 0.00 35.83 3.36
2957 3347 8.997323 GGACTACTCTGCTAATCTTAATACGTA 58.003 37.037 0.00 0.00 0.00 3.57
2958 3348 7.501559 TGGACTACTCTGCTAATCTTAATACGT 59.498 37.037 0.00 0.00 0.00 3.57
2959 3349 7.872881 TGGACTACTCTGCTAATCTTAATACG 58.127 38.462 0.00 0.00 0.00 3.06
2960 3350 9.069082 TCTGGACTACTCTGCTAATCTTAATAC 57.931 37.037 0.00 0.00 0.00 1.89
2965 3355 5.126384 GTGTCTGGACTACTCTGCTAATCTT 59.874 44.000 2.38 0.00 0.00 2.40
2983 3373 6.820335 TGGATCTGAACTATAATGGTGTCTG 58.180 40.000 0.00 0.00 0.00 3.51
3000 3390 8.672823 TGTTCAGATATTCTTGAATGGATCTG 57.327 34.615 19.83 19.83 40.97 2.90
3005 3395 7.034685 TGCATGTTCAGATATTCTTGAATGG 57.965 36.000 6.15 0.00 0.00 3.16
3008 3398 7.058525 AGGATGCATGTTCAGATATTCTTGAA 58.941 34.615 2.46 0.00 0.00 2.69
3048 3438 2.009774 AGGATGCATGTTCACGCTTAC 58.990 47.619 2.46 0.00 0.00 2.34
3049 3439 2.401583 AGGATGCATGTTCACGCTTA 57.598 45.000 2.46 0.00 0.00 3.09
3050 3440 1.200716 CAAGGATGCATGTTCACGCTT 59.799 47.619 2.46 0.00 0.00 4.68
3086 3476 7.824289 AGCATGCTAACAAGATTCTACTTACAA 59.176 33.333 21.21 0.00 0.00 2.41
3146 3536 7.657023 TTTCCACCTCCTTTCTATACTACTC 57.343 40.000 0.00 0.00 0.00 2.59
3147 3537 9.145442 GTATTTCCACCTCCTTTCTATACTACT 57.855 37.037 0.00 0.00 0.00 2.57
3148 3538 8.921205 TGTATTTCCACCTCCTTTCTATACTAC 58.079 37.037 0.00 0.00 0.00 2.73
3149 3539 9.496710 TTGTATTTCCACCTCCTTTCTATACTA 57.503 33.333 0.00 0.00 0.00 1.82
3150 3540 7.989947 TGTATTTCCACCTCCTTTCTATACT 57.010 36.000 0.00 0.00 0.00 2.12
3151 3541 8.265764 AGTTGTATTTCCACCTCCTTTCTATAC 58.734 37.037 0.00 0.00 0.00 1.47
3236 3626 9.797556 AACAACCAGAAAACAAGAAGTAATAAC 57.202 29.630 0.00 0.00 0.00 1.89
3237 3627 9.796120 CAACAACCAGAAAACAAGAAGTAATAA 57.204 29.630 0.00 0.00 0.00 1.40
3238 3628 8.410141 CCAACAACCAGAAAACAAGAAGTAATA 58.590 33.333 0.00 0.00 0.00 0.98
3283 3673 1.340568 TCGGTTTGACCACGATGTACA 59.659 47.619 0.00 0.00 38.47 2.90
3316 3713 1.755179 GTATGGACTGCATGCAACCT 58.245 50.000 30.40 22.12 29.34 3.50
3347 3744 1.678101 AGAAAGCAAGGAACAGTGCAC 59.322 47.619 9.40 9.40 42.90 4.57
3405 3802 0.246635 TCCAGTAGGTGAAGAAGCGC 59.753 55.000 0.00 0.00 35.89 5.92
3431 3828 3.551846 GTGTTTTGGTTGAGAGGAGGAA 58.448 45.455 0.00 0.00 0.00 3.36
3455 3861 0.251698 TGCATGGTGGAATTGAGCCA 60.252 50.000 0.00 0.00 35.28 4.75
3456 3862 1.068127 GATGCATGGTGGAATTGAGCC 59.932 52.381 2.46 0.00 0.00 4.70
3459 3865 4.346730 AGAAAGATGCATGGTGGAATTGA 58.653 39.130 2.46 0.00 0.00 2.57
3461 3867 4.773674 TGAAGAAAGATGCATGGTGGAATT 59.226 37.500 2.46 0.00 0.00 2.17
3462 3868 4.346730 TGAAGAAAGATGCATGGTGGAAT 58.653 39.130 2.46 0.00 0.00 3.01
3463 3869 3.765381 TGAAGAAAGATGCATGGTGGAA 58.235 40.909 2.46 0.00 0.00 3.53
3464 3870 3.438216 TGAAGAAAGATGCATGGTGGA 57.562 42.857 2.46 0.00 0.00 4.02
3523 3930 3.891056 CATGCATGCATCGACACTATT 57.109 42.857 30.07 3.48 33.90 1.73
3544 3951 2.158330 TACGCGTCGCTCTGCAATG 61.158 57.895 18.63 0.00 0.00 2.82
3546 3953 2.803670 GTACGCGTCGCTCTGCAA 60.804 61.111 18.63 0.00 0.00 4.08
3926 4333 1.164041 GGTTGTTGTCCCAGTCCACG 61.164 60.000 0.00 0.00 0.00 4.94
3929 4336 0.250770 GGAGGTTGTTGTCCCAGTCC 60.251 60.000 0.00 0.00 0.00 3.85
4010 4417 4.483243 CCCCAGGCGCGGTTGTAT 62.483 66.667 8.83 0.00 0.00 2.29
4077 4484 7.972354 CGATGACGATCAGTACGTAGACGTG 62.972 52.000 17.56 1.55 46.86 4.49
4082 4489 2.543012 ACCGATGACGATCAGTACGTAG 59.457 50.000 0.00 0.00 43.97 3.51
4125 4535 3.917300 AGTAGATCGATGGGTCTCCTTT 58.083 45.455 0.54 0.00 0.00 3.11
4133 4549 6.392625 TTCTCAGTTAAGTAGATCGATGGG 57.607 41.667 0.54 0.00 0.00 4.00
4144 4560 6.817184 TCAGCAGTACTTTTCTCAGTTAAGT 58.183 36.000 0.00 0.00 36.23 2.24
4154 4577 5.786401 ACGATCAATCAGCAGTACTTTTC 57.214 39.130 0.00 0.00 0.00 2.29
4201 4630 0.315382 GCAATGCTCATCACGCGTAC 60.315 55.000 13.44 0.00 0.00 3.67
4202 4631 1.428370 GGCAATGCTCATCACGCGTA 61.428 55.000 13.44 0.28 0.00 4.42
4203 4632 2.753966 GGCAATGCTCATCACGCGT 61.754 57.895 5.58 5.58 0.00 6.01
4204 4633 2.023741 GGCAATGCTCATCACGCG 59.976 61.111 3.53 3.53 0.00 6.01
4205 4634 0.524816 CTTGGCAATGCTCATCACGC 60.525 55.000 4.82 0.00 0.00 5.34
4252 4691 2.461903 GCGAAACCACTAGCTAGCTAC 58.538 52.381 20.67 8.16 0.00 3.58
4278 4740 1.963515 ACCACATCAAAAGAAGCACCC 59.036 47.619 0.00 0.00 0.00 4.61
4334 4797 5.550232 TTCTTCACGTATACAAGCTACGA 57.450 39.130 12.64 0.00 43.50 3.43
4394 4861 8.761497 CAACACACCGTACATAATAGGATTAAG 58.239 37.037 0.00 0.00 0.00 1.85
4397 4864 5.526111 GCAACACACCGTACATAATAGGATT 59.474 40.000 0.00 0.00 0.00 3.01
4425 4898 5.266733 TGATGTATAACGGGGAACACTAC 57.733 43.478 0.00 0.00 0.00 2.73
4433 4906 7.822334 TCAATTATAGCTTGATGTATAACGGGG 59.178 37.037 0.00 0.00 0.00 5.73
4504 4977 2.099652 TATTGAGGCGCATCCCGGAG 62.100 60.000 20.64 0.00 37.44 4.63
4507 4980 0.249868 TCTTATTGAGGCGCATCCCG 60.250 55.000 20.64 3.34 40.75 5.14
4519 4992 6.397998 CGAGAAATAGTCATCGCGTCTTATTG 60.398 42.308 5.77 0.00 34.75 1.90
4529 5002 4.149046 GCTTAAGGCGAGAAATAGTCATCG 59.851 45.833 4.29 0.00 38.19 3.84
4530 5003 5.583969 GCTTAAGGCGAGAAATAGTCATC 57.416 43.478 4.29 0.00 0.00 2.92
4544 5017 2.093921 AGAAGGAAGTCTCGCTTAAGGC 60.094 50.000 4.29 0.00 37.59 4.35
4545 5018 3.056465 ACAGAAGGAAGTCTCGCTTAAGG 60.056 47.826 4.29 0.00 37.59 2.69
4546 5019 4.082463 AGACAGAAGGAAGTCTCGCTTAAG 60.082 45.833 0.00 0.00 40.96 1.85
4547 5020 3.827302 AGACAGAAGGAAGTCTCGCTTAA 59.173 43.478 0.00 0.00 40.96 1.85
4548 5021 3.422796 AGACAGAAGGAAGTCTCGCTTA 58.577 45.455 0.00 0.00 40.96 3.09
4549 5022 2.243810 AGACAGAAGGAAGTCTCGCTT 58.756 47.619 0.00 0.00 40.96 4.68
4550 5023 1.917872 AGACAGAAGGAAGTCTCGCT 58.082 50.000 0.00 0.00 40.96 4.93
4555 5028 3.692101 TCTCATCGAGACAGAAGGAAGTC 59.308 47.826 0.00 0.00 33.35 3.01
4556 5029 3.691575 TCTCATCGAGACAGAAGGAAGT 58.308 45.455 0.00 0.00 33.35 3.01
4557 5030 3.489059 GCTCTCATCGAGACAGAAGGAAG 60.489 52.174 0.00 0.00 42.62 3.46
4558 5031 2.425312 GCTCTCATCGAGACAGAAGGAA 59.575 50.000 0.00 0.00 42.62 3.36
4559 5032 2.020720 GCTCTCATCGAGACAGAAGGA 58.979 52.381 0.00 0.00 42.62 3.36
4560 5033 1.747924 TGCTCTCATCGAGACAGAAGG 59.252 52.381 0.00 0.00 42.62 3.46
4561 5034 3.631144 GATGCTCTCATCGAGACAGAAG 58.369 50.000 0.00 0.00 42.62 2.85
4562 5035 3.706802 GATGCTCTCATCGAGACAGAA 57.293 47.619 0.00 0.00 42.62 3.02
4571 5044 3.057315 GGTCTGCTAGAGATGCTCTCATC 60.057 52.174 13.42 0.00 45.73 2.92
4572 5045 2.892852 GGTCTGCTAGAGATGCTCTCAT 59.107 50.000 13.42 4.25 45.73 2.90
4573 5046 2.305928 GGTCTGCTAGAGATGCTCTCA 58.694 52.381 13.42 0.00 45.73 3.27
4574 5047 1.613437 GGGTCTGCTAGAGATGCTCTC 59.387 57.143 0.00 5.36 43.70 3.20
4650 5125 3.637273 GGGTCTGTTCGGGCCTGT 61.637 66.667 12.43 0.00 0.00 4.00
4651 5126 4.410400 GGGGTCTGTTCGGGCCTG 62.410 72.222 4.71 4.71 0.00 4.85
4652 5127 2.758852 TAAGGGGTCTGTTCGGGCCT 62.759 60.000 0.84 0.00 0.00 5.19
4694 5169 0.540133 GTTCACGGGGCCCCTTAAAA 60.540 55.000 38.17 22.77 0.00 1.52
4716 5191 3.344515 AGATACGAGGGTTTTTGGCTTC 58.655 45.455 0.00 0.00 0.00 3.86
4726 5201 5.337330 CCTTCAAAACTGTAGATACGAGGGT 60.337 44.000 0.00 0.00 0.00 4.34
4732 5207 6.803154 AGTTGCCTTCAAAACTGTAGATAC 57.197 37.500 0.00 0.00 35.34 2.24
4759 5234 2.375345 CCGGTATTCAGGGCCCTGT 61.375 63.158 43.64 31.36 43.96 4.00
4963 5495 2.105128 CTAGCTCCTCCGTTGCCG 59.895 66.667 0.00 0.00 0.00 5.69
4967 5499 2.421220 GCTAGCTAGCTCCTCCGTT 58.579 57.895 33.71 0.00 45.62 4.44


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

AutoCloner maintained by Alex Coulton.