Multiple sequence alignment - TraesCS5A01G253500

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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 TraesCS5A01G253500 chr5A 100.000 4290 0 0 1 4290 469607594 469611883 0.000000e+00 7923.0
1 TraesCS5A01G253500 chr5D 94.533 3000 105 22 716 3692 367689515 367692478 0.000000e+00 4577.0
2 TraesCS5A01G253500 chr5D 90.254 708 34 19 1 688 367688542 367689234 0.000000e+00 893.0
3 TraesCS5A01G253500 chr5D 85.774 478 37 16 3828 4283 367692648 367693116 1.080000e-130 477.0
4 TraesCS5A01G253500 chr5B 91.878 2167 103 37 1 2124 435155528 435157664 0.000000e+00 2959.0
5 TraesCS5A01G253500 chr5B 93.306 1464 63 10 2153 3604 435157749 435159189 0.000000e+00 2128.0
6 TraesCS5A01G253500 chr5B 85.057 174 15 4 3941 4110 435159387 435159553 2.650000e-37 167.0
7 TraesCS5A01G253500 chr5B 95.745 47 1 1 3880 3925 668067816 668067862 1.650000e-09 75.0
8 TraesCS5A01G253500 chr2A 79.901 403 71 10 2605 3002 642910698 642911095 1.950000e-73 287.0
9 TraesCS5A01G253500 chr2A 91.489 47 4 0 3879 3925 202840521 202840567 9.960000e-07 65.8
10 TraesCS5A01G253500 chr1D 97.778 90 2 0 3705 3794 462914182 462914271 5.740000e-34 156.0
11 TraesCS5A01G253500 chr1D 97.778 90 2 0 3705 3794 462921409 462921498 5.740000e-34 156.0
12 TraesCS5A01G253500 chr1D 97.778 90 2 0 3705 3794 462928059 462928148 5.740000e-34 156.0
13 TraesCS5A01G253500 chr1D 96.667 90 3 0 3705 3794 462888540 462888629 2.670000e-32 150.0
14 TraesCS5A01G253500 chr1D 96.667 90 3 0 3705 3794 462901357 462901446 2.670000e-32 150.0
15 TraesCS5A01G253500 chr1D 96.667 90 3 0 3705 3794 462925502 462925591 2.670000e-32 150.0
16 TraesCS5A01G253500 chr1D 96.667 90 3 0 3705 3794 462930092 462930181 2.670000e-32 150.0
17 TraesCS5A01G253500 chr1D 96.667 90 3 0 3705 3794 462935066 462935155 2.670000e-32 150.0
18 TraesCS5A01G253500 chr1D 95.349 43 1 1 3879 3920 406665065 406665023 2.770000e-07 67.6
19 TraesCS5A01G253500 chr3D 97.727 88 2 0 3705 3792 32145535 32145448 7.430000e-33 152.0
20 TraesCS5A01G253500 chr3D 100.000 28 0 0 3924 3951 579233531 579233504 8.000000e-03 52.8
21 TraesCS5A01G253500 chr7A 86.250 80 7 2 3877 3952 69218955 69219034 2.750000e-12 84.2
22 TraesCS5A01G253500 chr7D 93.878 49 2 1 3878 3925 42634939 42634987 5.950000e-09 73.1
23 TraesCS5A01G253500 chr2D 91.837 49 3 1 3878 3925 262614620 262614668 2.770000e-07 67.6
24 TraesCS5A01G253500 chr2D 93.478 46 2 1 3881 3925 270849539 270849494 2.770000e-07 67.6
25 TraesCS5A01G253500 chr2B 93.478 46 2 1 3881 3925 505494877 505494922 2.770000e-07 67.6
26 TraesCS5A01G253500 chr6B 100.000 29 0 0 3924 3952 704182038 704182010 2.000000e-03 54.7
27 TraesCS5A01G253500 chr1B 100.000 29 0 0 3924 3952 548535478 548535450 2.000000e-03 54.7


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 TraesCS5A01G253500 chr5A 469607594 469611883 4289 False 7923.000000 7923 100.000000 1 4290 1 chr5A.!!$F1 4289
1 TraesCS5A01G253500 chr5D 367688542 367693116 4574 False 1982.333333 4577 90.187000 1 4283 3 chr5D.!!$F1 4282
2 TraesCS5A01G253500 chr5B 435155528 435159553 4025 False 1751.333333 2959 90.080333 1 4110 3 chr5B.!!$F2 4109

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
921 1209 0.035056 AGGAGGTTGGGAATTGCTCG 60.035 55.0 0.00 0.00 0.00 5.03 F
2437 2792 0.179100 TAGATGCGCTGCAGAGGAAC 60.179 55.0 20.43 15.03 43.65 3.62 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2629 2984 0.039035 GGGTGCCCACAAAGGACATA 59.961 55.0 1.66 0.0 41.22 2.29 R
4003 4478 0.107361 TCCAGCCGAGAGATACGTCA 60.107 55.0 0.00 0.0 0.00 4.35 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
113 115 0.536233 TTTCCGTTGCTTGCCTGCTA 60.536 50.000 0.00 0.00 0.00 3.49
141 143 4.431131 AATGGGGGCGCTGGAGTG 62.431 66.667 7.64 0.00 0.00 3.51
169 171 1.461091 CCATGCCCTGATGTGGATGC 61.461 60.000 0.00 0.00 33.53 3.91
296 306 2.204244 GGGAGGGGAAAGGTGGGA 60.204 66.667 0.00 0.00 0.00 4.37
345 369 1.228644 TGCCAGGTTGCAATGCTCT 60.229 52.632 6.82 0.00 38.56 4.09
371 395 0.553333 CCTTCCTCCCCCTTTCCATC 59.447 60.000 0.00 0.00 0.00 3.51
375 399 1.309102 CTCCCCCTTTCCATCCCCT 60.309 63.158 0.00 0.00 0.00 4.79
376 400 0.926220 CTCCCCCTTTCCATCCCCTT 60.926 60.000 0.00 0.00 0.00 3.95
377 401 0.924226 TCCCCCTTTCCATCCCCTTC 60.924 60.000 0.00 0.00 0.00 3.46
378 402 1.221213 CCCCCTTTCCATCCCCTTCA 61.221 60.000 0.00 0.00 0.00 3.02
484 509 2.747855 CTGCTGGCTCGGGGTTTC 60.748 66.667 0.00 0.00 0.00 2.78
485 510 4.344865 TGCTGGCTCGGGGTTTCC 62.345 66.667 0.00 0.00 0.00 3.13
486 511 4.035102 GCTGGCTCGGGGTTTCCT 62.035 66.667 0.00 0.00 0.00 3.36
487 512 2.045926 CTGGCTCGGGGTTTCCTG 60.046 66.667 0.00 0.00 40.84 3.86
488 513 3.628646 CTGGCTCGGGGTTTCCTGG 62.629 68.421 0.00 0.00 39.90 4.45
489 514 4.426313 GGCTCGGGGTTTCCTGGG 62.426 72.222 0.00 0.00 42.99 4.45
490 515 4.426313 GCTCGGGGTTTCCTGGGG 62.426 72.222 0.00 0.00 40.37 4.96
491 516 3.728373 CTCGGGGTTTCCTGGGGG 61.728 72.222 0.00 0.00 39.90 5.40
492 517 4.603097 TCGGGGTTTCCTGGGGGT 62.603 66.667 0.00 0.00 39.90 4.95
535 560 5.013079 TGTGATTTCTTCTTTCTAGCCAGGA 59.987 40.000 0.00 0.00 0.00 3.86
547 572 1.760480 GCCAGGACCTCTCTCCTCC 60.760 68.421 0.00 0.00 38.77 4.30
567 592 2.107366 CCTTCACCTCCTCTCTTCTCC 58.893 57.143 0.00 0.00 0.00 3.71
568 593 2.292192 CCTTCACCTCCTCTCTTCTCCT 60.292 54.545 0.00 0.00 0.00 3.69
569 594 2.818751 TCACCTCCTCTCTTCTCCTC 57.181 55.000 0.00 0.00 0.00 3.71
570 595 2.283834 TCACCTCCTCTCTTCTCCTCT 58.716 52.381 0.00 0.00 0.00 3.69
574 605 3.837731 ACCTCCTCTCTTCTCCTCTTTTG 59.162 47.826 0.00 0.00 0.00 2.44
632 667 3.044059 CTGCCCAGCGCTTAGTTGC 62.044 63.158 7.50 6.82 38.78 4.17
635 670 1.672356 CCCAGCGCTTAGTTGCAGT 60.672 57.895 7.50 0.00 0.00 4.40
678 713 2.039084 GTGACTTCTTGGTCTCATGGGT 59.961 50.000 0.00 0.00 37.16 4.51
737 1024 6.207614 GTGTAGGGATTTCTTTCTTTTCTGCT 59.792 38.462 0.00 0.00 0.00 4.24
742 1029 1.148310 TCTTTCTTTTCTGCTCGGCG 58.852 50.000 0.00 0.00 0.00 6.46
795 1083 4.463050 TTACCTGGTGGTTTGGATTTCT 57.537 40.909 10.23 0.00 46.05 2.52
813 1101 8.284435 TGGATTTCTTGGAATATTTCTGATCCT 58.716 33.333 0.00 0.00 33.02 3.24
815 1103 9.962783 GATTTCTTGGAATATTTCTGATCCTTG 57.037 33.333 0.00 0.00 33.02 3.61
816 1104 8.884124 TTTCTTGGAATATTTCTGATCCTTGT 57.116 30.769 0.00 0.00 33.02 3.16
820 1108 8.511604 TTGGAATATTTCTGATCCTTGTTCTC 57.488 34.615 0.00 0.00 33.02 2.87
823 1111 8.835439 GGAATATTTCTGATCCTTGTTCTCTTC 58.165 37.037 0.00 0.00 0.00 2.87
824 1112 9.612066 GAATATTTCTGATCCTTGTTCTCTTCT 57.388 33.333 0.00 0.00 0.00 2.85
836 1124 6.881065 CCTTGTTCTCTTCTGGTGAATTGATA 59.119 38.462 0.00 0.00 31.43 2.15
921 1209 0.035056 AGGAGGTTGGGAATTGCTCG 60.035 55.000 0.00 0.00 0.00 5.03
941 1229 1.433534 GTCAGCCTTGTACTGAGCAC 58.566 55.000 0.00 0.00 44.51 4.40
945 1233 1.001406 AGCCTTGTACTGAGCACTGAC 59.999 52.381 0.00 0.00 0.00 3.51
947 1235 1.670087 CCTTGTACTGAGCACTGACCG 60.670 57.143 0.00 0.00 0.00 4.79
948 1236 0.317160 TTGTACTGAGCACTGACCGG 59.683 55.000 0.00 0.00 0.00 5.28
949 1237 1.215647 GTACTGAGCACTGACCGGG 59.784 63.158 6.32 0.00 0.00 5.73
950 1238 2.646175 TACTGAGCACTGACCGGGC 61.646 63.158 6.32 1.57 0.00 6.13
959 1247 4.753662 TGACCGGGCGCCTAGACT 62.754 66.667 28.56 9.16 0.00 3.24
978 1266 0.671251 TGGGCGTTTGTTGTGATTCC 59.329 50.000 0.00 0.00 0.00 3.01
1101 1389 0.676151 CTGCTGCTGAGGAGGTTTCC 60.676 60.000 2.44 0.00 44.39 3.13
1167 1455 2.014010 AGGATGCTCCAGATCTCTCC 57.986 55.000 0.00 0.00 39.61 3.71
1168 1456 1.504660 AGGATGCTCCAGATCTCTCCT 59.495 52.381 0.00 0.00 39.61 3.69
1233 1521 7.098477 CAGAATCTGATGAGTCAAAAGAGACT 58.902 38.462 3.77 10.63 41.71 3.24
1365 1653 2.561419 GACCAGTGGTAGTGCTAAGACA 59.439 50.000 16.72 0.00 35.25 3.41
1479 1767 2.521708 AGTGCCACCACAAAGCCC 60.522 61.111 0.00 0.00 44.53 5.19
1740 2028 1.971481 TGGATCATCCATTTCTGCCG 58.029 50.000 0.66 0.00 42.67 5.69
1803 2091 1.559682 GTTATGGAGTTCTGCCCTGGA 59.440 52.381 0.00 0.00 0.00 3.86
1818 2106 1.770110 TGGAGGGGACTTGCACACT 60.770 57.895 0.00 0.00 44.43 3.55
1963 2258 2.410053 GTCTCGTCTGCTTCAACATCAC 59.590 50.000 0.00 0.00 0.00 3.06
2018 2313 4.136796 GCCATAGTCAGGTTGCATATGAA 58.863 43.478 6.97 0.00 0.00 2.57
2191 2545 1.134075 GCTGTGCTGAATGCTGACG 59.866 57.895 0.00 0.00 43.37 4.35
2284 2639 3.475566 TTGGAGTACCTGCATATGCTC 57.524 47.619 27.13 15.28 42.66 4.26
2422 2777 2.659428 GGTGCAAATCCTGGCTTAGAT 58.341 47.619 0.00 0.00 0.00 1.98
2437 2792 0.179100 TAGATGCGCTGCAGAGGAAC 60.179 55.000 20.43 15.03 43.65 3.62
2464 2819 2.048597 TACTGCGTCCAACCTGCG 60.049 61.111 0.00 0.00 0.00 5.18
2545 2900 4.713792 ATCCAAGTCCAAGTCAAAGTCT 57.286 40.909 0.00 0.00 0.00 3.24
2629 2984 1.078848 GCCAACTGATGCTCGGTCT 60.079 57.895 0.00 0.00 34.28 3.85
2641 2996 2.271800 GCTCGGTCTATGTCCTTTGTG 58.728 52.381 0.00 0.00 0.00 3.33
2668 3023 2.427245 CGAGTACCTGGCCCCAGAG 61.427 68.421 15.76 8.31 46.30 3.35
2689 3044 1.681229 TAGTGAAAGGGGAAGGCCAT 58.319 50.000 5.01 0.00 35.15 4.40
2716 3071 0.251165 CGGTGGATTGGTGGACCTTT 60.251 55.000 0.00 0.00 36.82 3.11
2734 3089 5.250200 ACCTTTGGCATATTCTTGTACGAA 58.750 37.500 0.00 0.00 0.00 3.85
2959 3314 4.660938 GGCGTGAACTGGGCCCTT 62.661 66.667 25.70 10.23 41.01 3.95
3141 3496 3.747388 GCATTATGGATCCTCCGGAACAA 60.747 47.826 14.23 0.00 40.17 2.83
3146 3501 0.036388 GATCCTCCGGAACAACAGCA 60.036 55.000 5.23 0.00 34.34 4.41
3162 3517 0.251033 AGCACATTTGAGCTGAGGCA 60.251 50.000 1.57 0.00 40.38 4.75
3178 3535 2.810852 GAGGCACCACAGAAAGAGAAAG 59.189 50.000 0.00 0.00 0.00 2.62
3303 3664 5.508200 TTTTCGCCATTGAACTTGTTAGT 57.492 34.783 0.00 0.00 35.68 2.24
3320 3681 6.821031 TGTTAGTCCTCTCTCTTAGTCAAC 57.179 41.667 0.00 0.00 0.00 3.18
3399 3766 0.883370 GAACGGGTTTGAAGGAGCGT 60.883 55.000 0.00 0.00 0.00 5.07
3457 3824 7.506114 TGTACCTTGTAACTGATGTTTCTTCT 58.494 34.615 0.00 0.00 37.59 2.85
3474 3842 0.031314 TCTTCATCCATCGCTCGCTC 59.969 55.000 0.00 0.00 0.00 5.03
3498 3866 2.363683 GTGGCTTATTCTGCTGCTTCT 58.636 47.619 0.00 0.00 0.00 2.85
3543 3911 3.131709 ACAGACAATGCAGCTGTTACT 57.868 42.857 16.64 4.09 39.69 2.24
3544 3912 4.271696 ACAGACAATGCAGCTGTTACTA 57.728 40.909 16.64 0.00 39.69 1.82
3545 3913 4.836825 ACAGACAATGCAGCTGTTACTAT 58.163 39.130 16.64 0.00 39.69 2.12
3614 3982 3.961480 TTGTGACATGTGGAGAGTAGG 57.039 47.619 1.15 0.00 0.00 3.18
3616 3984 3.506398 TGTGACATGTGGAGAGTAGGAA 58.494 45.455 1.15 0.00 0.00 3.36
3617 3985 3.258372 TGTGACATGTGGAGAGTAGGAAC 59.742 47.826 1.15 0.00 0.00 3.62
3618 3986 3.258372 GTGACATGTGGAGAGTAGGAACA 59.742 47.826 1.15 0.00 0.00 3.18
3619 3987 3.901222 TGACATGTGGAGAGTAGGAACAA 59.099 43.478 1.15 0.00 0.00 2.83
3620 3988 4.021104 TGACATGTGGAGAGTAGGAACAAG 60.021 45.833 1.15 0.00 0.00 3.16
3621 3989 3.265791 CATGTGGAGAGTAGGAACAAGC 58.734 50.000 0.00 0.00 0.00 4.01
3622 3990 2.609747 TGTGGAGAGTAGGAACAAGCT 58.390 47.619 0.00 0.00 0.00 3.74
3624 3992 4.157246 TGTGGAGAGTAGGAACAAGCTTA 58.843 43.478 0.00 0.00 0.00 3.09
3626 3994 5.248477 TGTGGAGAGTAGGAACAAGCTTATT 59.752 40.000 0.00 0.00 0.00 1.40
3627 3995 6.174049 GTGGAGAGTAGGAACAAGCTTATTT 58.826 40.000 0.00 0.00 0.00 1.40
3629 3997 7.988028 GTGGAGAGTAGGAACAAGCTTATTTAT 59.012 37.037 0.00 0.00 0.00 1.40
3630 3998 7.987458 TGGAGAGTAGGAACAAGCTTATTTATG 59.013 37.037 0.00 0.00 0.00 1.90
3631 3999 7.988028 GGAGAGTAGGAACAAGCTTATTTATGT 59.012 37.037 0.00 0.00 0.00 2.29
3679 4047 5.471116 TGATGTTGTGTGAGATGAAAGAAGG 59.529 40.000 0.00 0.00 0.00 3.46
3692 4060 7.339482 AGATGAAAGAAGGGTGGTTTATACTC 58.661 38.462 0.00 0.00 0.00 2.59
3694 4062 4.857130 AAGAAGGGTGGTTTATACTCCC 57.143 45.455 8.27 8.27 38.07 4.30
3695 4063 4.090027 AGAAGGGTGGTTTATACTCCCT 57.910 45.455 11.45 11.45 44.37 4.20
3696 4064 5.230746 AGAAGGGTGGTTTATACTCCCTA 57.769 43.478 15.34 0.00 42.95 3.53
3697 4065 5.800653 AGAAGGGTGGTTTATACTCCCTAT 58.199 41.667 15.34 8.40 42.95 2.57
3699 4067 6.681541 AGAAGGGTGGTTTATACTCCCTATTT 59.318 38.462 15.34 5.40 42.95 1.40
3700 4068 6.262056 AGGGTGGTTTATACTCCCTATTTG 57.738 41.667 14.13 0.00 42.43 2.32
3701 4069 5.734634 AGGGTGGTTTATACTCCCTATTTGT 59.265 40.000 14.13 0.00 42.43 2.83
3703 4071 6.544931 GGGTGGTTTATACTCCCTATTTGTTC 59.455 42.308 8.80 0.00 36.33 3.18
3707 4127 7.777910 TGGTTTATACTCCCTATTTGTTCATGG 59.222 37.037 0.00 0.00 0.00 3.66
3708 4128 7.996644 GGTTTATACTCCCTATTTGTTCATGGA 59.003 37.037 0.00 0.00 0.00 3.41
3711 4131 5.456921 ACTCCCTATTTGTTCATGGATGT 57.543 39.130 0.00 0.00 0.00 3.06
3713 4133 6.357367 ACTCCCTATTTGTTCATGGATGTAC 58.643 40.000 0.00 0.00 0.00 2.90
3714 4134 5.690865 TCCCTATTTGTTCATGGATGTACC 58.309 41.667 0.00 0.00 39.54 3.34
3765 4197 9.806203 CATCTATATTTTGACAAATGAAAGGCA 57.194 29.630 0.50 0.00 34.29 4.75
3767 4199 9.806203 TCTATATTTTGACAAATGAAAGGCATG 57.194 29.630 0.50 0.00 37.28 4.06
3772 4204 7.655236 TTTGACAAATGAAAGGCATGTATTG 57.345 32.000 0.00 0.00 37.28 1.90
3773 4205 6.343716 TGACAAATGAAAGGCATGTATTGT 57.656 33.333 0.00 0.00 37.87 2.71
3775 4207 5.481105 ACAAATGAAAGGCATGTATTGTGG 58.519 37.500 0.00 0.00 35.32 4.17
3780 4212 2.779755 AGGCATGTATTGTGGAACGA 57.220 45.000 0.00 0.00 42.39 3.85
3800 4232 4.525487 ACGAAGGGAGTACATACTTTCACA 59.475 41.667 0.00 0.00 36.50 3.58
3801 4233 4.863131 CGAAGGGAGTACATACTTTCACAC 59.137 45.833 0.00 0.00 36.50 3.82
3806 4238 4.876107 GGAGTACATACTTTCACACCATGG 59.124 45.833 11.19 11.19 36.50 3.66
3808 4240 6.313519 AGTACATACTTTCACACCATGGAT 57.686 37.500 21.47 2.53 31.13 3.41
3809 4241 6.115446 AGTACATACTTTCACACCATGGATG 58.885 40.000 21.47 16.25 31.13 3.51
3811 4243 2.592102 ACTTTCACACCATGGATGCT 57.408 45.000 21.47 0.00 0.00 3.79
3812 4244 2.880443 ACTTTCACACCATGGATGCTT 58.120 42.857 21.47 0.00 0.00 3.91
3813 4245 2.821969 ACTTTCACACCATGGATGCTTC 59.178 45.455 21.47 0.00 0.00 3.86
3814 4246 2.885135 TTCACACCATGGATGCTTCT 57.115 45.000 21.47 0.00 0.00 2.85
3815 4247 2.885135 TCACACCATGGATGCTTCTT 57.115 45.000 21.47 0.00 0.00 2.52
3816 4248 3.159213 TCACACCATGGATGCTTCTTT 57.841 42.857 21.47 0.00 0.00 2.52
3818 4250 3.507233 TCACACCATGGATGCTTCTTTTC 59.493 43.478 21.47 0.00 0.00 2.29
3819 4251 3.508793 CACACCATGGATGCTTCTTTTCT 59.491 43.478 21.47 0.00 0.00 2.52
3820 4252 3.508793 ACACCATGGATGCTTCTTTTCTG 59.491 43.478 21.47 3.47 0.00 3.02
3822 4254 4.015084 ACCATGGATGCTTCTTTTCTGAG 58.985 43.478 21.47 0.00 0.00 3.35
3823 4255 3.380637 CCATGGATGCTTCTTTTCTGAGG 59.619 47.826 5.56 0.00 0.00 3.86
3824 4256 3.077484 TGGATGCTTCTTTTCTGAGGG 57.923 47.619 0.00 0.00 0.00 4.30
3825 4257 2.644299 TGGATGCTTCTTTTCTGAGGGA 59.356 45.455 0.00 0.00 0.00 4.20
3847 4312 6.488006 GGGAATTCACATCATGTATGCTACTT 59.512 38.462 7.93 0.00 39.39 2.24
3852 4317 4.993584 CACATCATGTATGCTACTTCCTCC 59.006 45.833 0.00 0.00 39.39 4.30
3857 4322 3.362706 TGTATGCTACTTCCTCCGTCTT 58.637 45.455 0.00 0.00 0.00 3.01
3889 4356 6.068971 ACTGTCTCTGATTTAGTACCCCTCTA 60.069 42.308 0.00 0.00 0.00 2.43
3936 4403 9.893634 TGGATCACTATTTTATTTCTTTACGGA 57.106 29.630 0.00 0.00 0.00 4.69
3985 4452 4.560427 GGATTTGCTTCAGCGAGATTTTTC 59.440 41.667 0.00 0.00 45.83 2.29
3997 4472 2.231235 GAGATTTTTCGCATGGGTGGTT 59.769 45.455 9.86 0.00 0.00 3.67
4003 4478 0.327924 TCGCATGGGTGGTTCAGATT 59.672 50.000 9.86 0.00 0.00 2.40
4036 4511 2.363683 GGCTGGAGATGAACTTTCAGG 58.636 52.381 0.00 0.00 41.08 3.86
4039 4514 3.557898 GCTGGAGATGAACTTTCAGGACA 60.558 47.826 0.00 0.00 41.08 4.02
4046 4521 3.808728 TGAACTTTCAGGACAGAACAGG 58.191 45.455 0.00 0.00 32.50 4.00
4067 4542 0.038892 GATGCACCACCAGCACTTTG 60.039 55.000 0.00 0.00 45.95 2.77
4110 4587 2.816087 CACTCAAGTCAGTTTGGGGATG 59.184 50.000 0.00 0.00 32.71 3.51
4117 4594 1.780309 TCAGTTTGGGGATGTTGGAGT 59.220 47.619 0.00 0.00 0.00 3.85
4118 4595 2.983192 TCAGTTTGGGGATGTTGGAGTA 59.017 45.455 0.00 0.00 0.00 2.59
4119 4596 3.009033 TCAGTTTGGGGATGTTGGAGTAG 59.991 47.826 0.00 0.00 0.00 2.57
4123 4609 2.398588 TGGGGATGTTGGAGTAGCTAG 58.601 52.381 0.00 0.00 0.00 3.42
4138 4624 0.248539 GCTAGCTAGGAACCGTGTCG 60.249 60.000 22.10 0.00 0.00 4.35
4147 4634 1.828331 GAACCGTGTCGTGCTGGAAC 61.828 60.000 0.00 0.00 0.00 3.62
4200 4687 4.587262 GGAAGTTTTAAGCTGGGGAGAAAA 59.413 41.667 0.00 0.00 0.00 2.29
4201 4688 5.069914 GGAAGTTTTAAGCTGGGGAGAAAAA 59.930 40.000 0.00 0.00 0.00 1.94
4202 4689 6.239600 GGAAGTTTTAAGCTGGGGAGAAAAAT 60.240 38.462 0.00 0.00 0.00 1.82
4203 4690 7.039293 GGAAGTTTTAAGCTGGGGAGAAAAATA 60.039 37.037 0.00 0.00 0.00 1.40
4204 4691 8.435931 AAGTTTTAAGCTGGGGAGAAAAATAT 57.564 30.769 0.00 0.00 0.00 1.28
4205 4692 8.067751 AGTTTTAAGCTGGGGAGAAAAATATC 57.932 34.615 0.00 0.00 0.00 1.63
4207 4694 8.311109 GTTTTAAGCTGGGGAGAAAAATATCAA 58.689 33.333 0.00 0.00 0.00 2.57
4208 4695 5.921962 AAGCTGGGGAGAAAAATATCAAC 57.078 39.130 0.00 0.00 0.00 3.18
4209 4696 4.281657 AGCTGGGGAGAAAAATATCAACC 58.718 43.478 0.00 0.00 0.00 3.77
4210 4697 3.066760 GCTGGGGAGAAAAATATCAACCG 59.933 47.826 0.00 0.00 0.00 4.44
4214 4701 5.775701 TGGGGAGAAAAATATCAACCGAAAA 59.224 36.000 0.00 0.00 0.00 2.29
4216 4703 6.294843 GGGGAGAAAAATATCAACCGAAAACA 60.295 38.462 0.00 0.00 0.00 2.83
4217 4704 7.149307 GGGAGAAAAATATCAACCGAAAACAA 58.851 34.615 0.00 0.00 0.00 2.83
4218 4705 7.115805 GGGAGAAAAATATCAACCGAAAACAAC 59.884 37.037 0.00 0.00 0.00 3.32
4219 4706 7.650104 GGAGAAAAATATCAACCGAAAACAACA 59.350 33.333 0.00 0.00 0.00 3.33
4220 4707 8.574196 AGAAAAATATCAACCGAAAACAACAG 57.426 30.769 0.00 0.00 0.00 3.16
4221 4708 8.194769 AGAAAAATATCAACCGAAAACAACAGT 58.805 29.630 0.00 0.00 0.00 3.55
4224 4711 4.823790 ATCAACCGAAAACAACAGTACC 57.176 40.909 0.00 0.00 0.00 3.34
4231 4718 4.279659 CGAAAACAACAGTACCTTTCAGC 58.720 43.478 0.00 0.00 0.00 4.26
4254 4741 2.484264 GGAAACATCACCCTCAAAGACG 59.516 50.000 0.00 0.00 0.00 4.18
4262 4749 1.270358 ACCCTCAAAGACGAGTCAAGC 60.270 52.381 5.99 0.00 0.00 4.01
4263 4750 1.433534 CCTCAAAGACGAGTCAAGCC 58.566 55.000 5.99 0.00 0.00 4.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
84 86 3.311486 AGCAACGGAAAGAAGAGAGAG 57.689 47.619 0.00 0.00 0.00 3.20
113 115 1.619807 GCCCCCATTGAATGCAAGCT 61.620 55.000 0.00 0.00 37.45 3.74
169 171 2.946329 ACGTAGAGACAGACTAGCATGG 59.054 50.000 0.00 0.00 0.00 3.66
276 286 1.691823 CCACCTTTCCCCTCCCTTC 59.308 63.158 0.00 0.00 0.00 3.46
277 287 1.857348 CCCACCTTTCCCCTCCCTT 60.857 63.158 0.00 0.00 0.00 3.95
278 288 2.151586 ATCCCACCTTTCCCCTCCCT 62.152 60.000 0.00 0.00 0.00 4.20
279 289 1.622752 ATCCCACCTTTCCCCTCCC 60.623 63.158 0.00 0.00 0.00 4.30
280 290 1.214992 ACATCCCACCTTTCCCCTCC 61.215 60.000 0.00 0.00 0.00 4.30
296 306 2.606961 CGTCACAAGGCGCACACAT 61.607 57.895 10.83 0.00 0.00 3.21
345 369 1.162951 AGGGGGAGGAAGGAAGGAGA 61.163 60.000 0.00 0.00 0.00 3.71
375 399 2.668212 CCAAAGCGGCGAGGTGAA 60.668 61.111 12.98 0.00 0.00 3.18
376 400 4.697756 CCCAAAGCGGCGAGGTGA 62.698 66.667 12.98 0.00 0.00 4.02
535 560 0.041982 GGTGAAGGGAGGAGAGAGGT 59.958 60.000 0.00 0.00 0.00 3.85
547 572 2.107366 GGAGAAGAGAGGAGGTGAAGG 58.893 57.143 0.00 0.00 0.00 3.46
567 592 2.764314 CCGCCGCATCCCAAAAGAG 61.764 63.158 0.00 0.00 0.00 2.85
568 593 2.749839 CCGCCGCATCCCAAAAGA 60.750 61.111 0.00 0.00 0.00 2.52
569 594 2.749839 TCCGCCGCATCCCAAAAG 60.750 61.111 0.00 0.00 0.00 2.27
570 595 2.749839 CTCCGCCGCATCCCAAAA 60.750 61.111 0.00 0.00 0.00 2.44
632 667 3.055591 CAGACTCACACACAAGCTACTG 58.944 50.000 0.00 0.00 0.00 2.74
635 670 1.412343 TGCAGACTCACACACAAGCTA 59.588 47.619 0.00 0.00 0.00 3.32
678 713 3.440127 GGGGGAATCATTTTGAGAACCA 58.560 45.455 0.00 0.00 0.00 3.67
709 746 7.445402 CAGAAAAGAAAGAAATCCCTACACAGA 59.555 37.037 0.00 0.00 0.00 3.41
710 747 7.588512 CAGAAAAGAAAGAAATCCCTACACAG 58.411 38.462 0.00 0.00 0.00 3.66
742 1029 4.359971 AACAACAACCTAAAACGGACAC 57.640 40.909 0.00 0.00 0.00 3.67
749 1036 6.687081 ATCGACAGAAACAACAACCTAAAA 57.313 33.333 0.00 0.00 0.00 1.52
795 1083 8.331740 AGAGAACAAGGATCAGAAATATTCCAA 58.668 33.333 0.00 0.00 0.00 3.53
813 1101 6.368791 CGTATCAATTCACCAGAAGAGAACAA 59.631 38.462 0.00 0.00 37.14 2.83
815 1103 6.100004 TCGTATCAATTCACCAGAAGAGAAC 58.900 40.000 0.00 0.00 37.14 3.01
816 1104 6.280855 TCGTATCAATTCACCAGAAGAGAA 57.719 37.500 0.00 0.00 37.14 2.87
820 1108 6.480524 TTGTTCGTATCAATTCACCAGAAG 57.519 37.500 0.00 0.00 37.14 2.85
823 1111 5.390613 GGTTTGTTCGTATCAATTCACCAG 58.609 41.667 0.00 0.00 0.00 4.00
824 1112 4.216687 GGGTTTGTTCGTATCAATTCACCA 59.783 41.667 0.00 0.00 29.77 4.17
836 1124 8.517056 CCAATAAAATAACTAGGGTTTGTTCGT 58.483 33.333 0.00 0.00 36.92 3.85
864 1152 0.105593 CCCAGACAGCGTATCAGCAT 59.894 55.000 0.00 0.00 40.15 3.79
885 1173 4.706962 ACCTCCTAACCTGCAAATCAATTC 59.293 41.667 0.00 0.00 0.00 2.17
921 1209 0.321671 TGCTCAGTACAAGGCTGACC 59.678 55.000 0.00 0.00 37.98 4.02
931 1219 1.215647 CCCGGTCAGTGCTCAGTAC 59.784 63.158 0.00 0.00 0.00 2.73
941 1229 4.208686 GTCTAGGCGCCCGGTCAG 62.209 72.222 26.15 12.89 0.00 3.51
952 1240 1.156736 CAACAAACGCCCAGTCTAGG 58.843 55.000 0.00 0.00 0.00 3.02
953 1241 1.531149 CACAACAAACGCCCAGTCTAG 59.469 52.381 0.00 0.00 0.00 2.43
954 1242 1.139256 TCACAACAAACGCCCAGTCTA 59.861 47.619 0.00 0.00 0.00 2.59
955 1243 0.107410 TCACAACAAACGCCCAGTCT 60.107 50.000 0.00 0.00 0.00 3.24
959 1247 0.671251 GGAATCACAACAAACGCCCA 59.329 50.000 0.00 0.00 0.00 5.36
988 1276 3.405831 TGGAAGACATGAACTGAGCAAG 58.594 45.455 0.00 0.00 0.00 4.01
993 1281 2.373169 AGGCTTGGAAGACATGAACTGA 59.627 45.455 0.00 0.00 36.14 3.41
1062 1350 0.538584 ATCGCTGCCTGTCATCTTCA 59.461 50.000 0.00 0.00 0.00 3.02
1167 1455 2.040278 AGGCCCCCAGAGTCTGAG 59.960 66.667 22.09 8.37 32.44 3.35
1168 1456 2.284921 CAGGCCCCCAGAGTCTGA 60.285 66.667 22.09 0.00 32.44 3.27
1233 1521 3.760151 TCTCGTTGGAATCGGAGTTCTTA 59.240 43.478 0.00 0.00 0.00 2.10
1365 1653 0.673644 CGGTGAAATCTCGGCCACTT 60.674 55.000 2.24 0.00 0.00 3.16
1479 1767 2.684881 CCTCGAATCATTCCCTTTGTGG 59.315 50.000 0.00 0.00 0.00 4.17
1572 1860 1.541233 CCGATATCACCAGAACCCAGC 60.541 57.143 3.12 0.00 0.00 4.85
1692 1980 1.102222 GTATCTCCCGCTCGGTCTGT 61.102 60.000 7.59 0.00 0.00 3.41
1740 2028 7.039923 TCCGTCTCAAAATGAGTATATAGGGTC 60.040 40.741 7.21 0.00 44.58 4.46
1803 2091 0.398318 GAAGAGTGTGCAAGTCCCCT 59.602 55.000 0.00 0.00 0.00 4.79
1818 2106 0.603707 CAGGCTGCCTTTGTCGAAGA 60.604 55.000 20.79 0.00 37.57 2.87
1963 2258 6.041296 AGCTATCAGGCCCAAAAATAATGAAG 59.959 38.462 0.00 0.00 0.00 3.02
2284 2639 5.830000 TGAGATCACGGTATATAATCCCG 57.170 43.478 8.34 8.34 46.93 5.14
2422 2777 1.302752 ATTGTTCCTCTGCAGCGCA 60.303 52.632 11.47 3.35 36.92 6.09
2458 2813 3.058160 GGCTGAATGCACGCAGGT 61.058 61.111 16.68 0.00 45.15 4.00
2464 2819 0.454600 CACAGGATGGCTGAATGCAC 59.545 55.000 0.00 0.00 43.62 4.57
2545 2900 2.615493 CGGCTTTGGCTTCTCCTTCTTA 60.615 50.000 0.00 0.00 38.73 2.10
2629 2984 0.039035 GGGTGCCCACAAAGGACATA 59.961 55.000 1.66 0.00 41.22 2.29
2641 2996 3.001406 AGGTACTCGTGGGTGCCC 61.001 66.667 3.15 0.00 41.80 5.36
2668 3023 1.564348 TGGCCTTCCCCTTTCACTATC 59.436 52.381 3.32 0.00 0.00 2.08
2695 3050 3.124921 GTCCACCAATCCACCGCG 61.125 66.667 0.00 0.00 0.00 6.46
2698 3053 1.256812 CAAAGGTCCACCAATCCACC 58.743 55.000 0.00 0.00 38.89 4.61
2716 3071 6.040247 CAGTAGTTCGTACAAGAATATGCCA 58.960 40.000 0.00 0.00 33.55 4.92
2734 3089 0.320697 GGGTCTTGCCGAACAGTAGT 59.679 55.000 0.00 0.00 38.44 2.73
2776 3131 1.563173 GACGTTGAAAAGCGTCGCT 59.437 52.632 15.47 15.47 45.86 4.93
2905 3260 1.912220 CTTTATCTCCGTGGCCCCA 59.088 57.895 0.00 0.00 0.00 4.96
2908 3263 1.440145 GCTGCTTTATCTCCGTGGCC 61.440 60.000 0.00 0.00 0.00 5.36
2959 3314 0.243907 GAGGGCTCGCGCATCTTATA 59.756 55.000 8.75 0.00 38.10 0.98
3029 3384 4.060038 GACCTTCCCGTTCGCCGA 62.060 66.667 0.00 0.00 39.56 5.54
3146 3501 0.111061 TGGTGCCTCAGCTCAAATGT 59.889 50.000 0.00 0.00 40.80 2.71
3162 3517 5.740513 GCTCTACACTTTCTCTTTCTGTGGT 60.741 44.000 0.00 0.00 33.44 4.16
3178 3535 0.827368 CAAGAGGGGGAGCTCTACAC 59.173 60.000 14.64 8.41 0.00 2.90
3284 3645 3.071479 GGACTAACAAGTTCAATGGCGA 58.929 45.455 0.00 0.00 0.00 5.54
3303 3664 6.954684 AGTATTTGGTTGACTAAGAGAGAGGA 59.045 38.462 0.00 0.00 0.00 3.71
3320 3681 7.324375 CGCAATTAACATGCATAGAGTATTTGG 59.676 37.037 13.66 0.00 44.01 3.28
3457 3824 1.068083 GGAGCGAGCGATGGATGAA 59.932 57.895 0.00 0.00 0.00 2.57
3474 3842 1.815421 AGCAGAATAAGCCACGCGG 60.815 57.895 12.47 0.00 0.00 6.46
3480 3848 3.559242 CACTAGAAGCAGCAGAATAAGCC 59.441 47.826 0.00 0.00 0.00 4.35
3498 3866 4.080919 AGCATGAAGGTATCAGCAACACTA 60.081 41.667 0.00 0.00 42.53 2.74
3542 3910 4.085733 CCTGGTCCTGGTGAGATAGATAG 58.914 52.174 6.63 0.00 0.00 2.08
3543 3911 3.467483 ACCTGGTCCTGGTGAGATAGATA 59.533 47.826 19.13 0.00 34.44 1.98
3544 3912 2.248686 ACCTGGTCCTGGTGAGATAGAT 59.751 50.000 19.13 0.00 34.44 1.98
3545 3913 1.646447 ACCTGGTCCTGGTGAGATAGA 59.354 52.381 19.13 0.00 34.44 1.98
3614 3982 9.845305 GACGTACATACATAAATAAGCTTGTTC 57.155 33.333 9.86 0.00 0.00 3.18
3616 3984 9.245962 GAGACGTACATACATAAATAAGCTTGT 57.754 33.333 9.86 0.00 0.00 3.16
3617 3985 9.464714 AGAGACGTACATACATAAATAAGCTTG 57.535 33.333 9.86 0.00 0.00 4.01
3619 3987 9.464714 CAAGAGACGTACATACATAAATAAGCT 57.535 33.333 0.00 0.00 0.00 3.74
3620 3988 8.215132 GCAAGAGACGTACATACATAAATAAGC 58.785 37.037 0.00 0.00 0.00 3.09
3621 3989 8.700644 GGCAAGAGACGTACATACATAAATAAG 58.299 37.037 0.00 0.00 0.00 1.73
3622 3990 7.654520 GGGCAAGAGACGTACATACATAAATAA 59.345 37.037 0.00 0.00 0.00 1.40
3624 3992 5.989777 GGGCAAGAGACGTACATACATAAAT 59.010 40.000 0.00 0.00 0.00 1.40
3626 3994 4.498513 CGGGCAAGAGACGTACATACATAA 60.499 45.833 0.00 0.00 0.00 1.90
3627 3995 3.004002 CGGGCAAGAGACGTACATACATA 59.996 47.826 0.00 0.00 0.00 2.29
3629 3997 1.133598 CGGGCAAGAGACGTACATACA 59.866 52.381 0.00 0.00 0.00 2.29
3630 3998 1.535437 CCGGGCAAGAGACGTACATAC 60.535 57.143 0.00 0.00 0.00 2.39
3631 3999 0.742505 CCGGGCAAGAGACGTACATA 59.257 55.000 0.00 0.00 0.00 2.29
3632 4000 1.255667 ACCGGGCAAGAGACGTACAT 61.256 55.000 6.32 0.00 0.00 2.29
3679 4047 7.114095 TGAACAAATAGGGAGTATAAACCACC 58.886 38.462 0.00 0.00 0.00 4.61
3692 4060 5.694995 AGGTACATCCATGAACAAATAGGG 58.305 41.667 0.00 0.00 39.02 3.53
3745 4165 9.941325 AATACATGCCTTTCATTTGTCAAAATA 57.059 25.926 1.31 0.00 34.14 1.40
3748 4168 7.171167 CACAATACATGCCTTTCATTTGTCAAA 59.829 33.333 0.00 0.00 33.62 2.69
3750 4170 6.157904 CACAATACATGCCTTTCATTTGTCA 58.842 36.000 0.00 0.00 33.62 3.58
3752 4172 5.245751 TCCACAATACATGCCTTTCATTTGT 59.754 36.000 0.00 0.00 35.27 2.83
3753 4173 5.722263 TCCACAATACATGCCTTTCATTTG 58.278 37.500 0.00 0.00 31.79 2.32
3754 4174 5.999205 TCCACAATACATGCCTTTCATTT 57.001 34.783 0.00 0.00 31.79 2.32
3756 4176 4.142403 CGTTCCACAATACATGCCTTTCAT 60.142 41.667 0.00 0.00 35.31 2.57
3757 4177 3.190327 CGTTCCACAATACATGCCTTTCA 59.810 43.478 0.00 0.00 0.00 2.69
3763 4195 2.097466 CCCTTCGTTCCACAATACATGC 59.903 50.000 0.00 0.00 0.00 4.06
3765 4197 3.263425 ACTCCCTTCGTTCCACAATACAT 59.737 43.478 0.00 0.00 0.00 2.29
3767 4199 3.329929 ACTCCCTTCGTTCCACAATAC 57.670 47.619 0.00 0.00 0.00 1.89
3772 4204 3.446516 AGTATGTACTCCCTTCGTTCCAC 59.553 47.826 0.00 0.00 0.00 4.02
3773 4205 3.705051 AGTATGTACTCCCTTCGTTCCA 58.295 45.455 0.00 0.00 0.00 3.53
3775 4207 5.575995 GTGAAAGTATGTACTCCCTTCGTTC 59.424 44.000 0.00 0.00 34.99 3.95
3780 4212 4.595781 TGGTGTGAAAGTATGTACTCCCTT 59.404 41.667 0.00 0.00 34.99 3.95
3800 4232 4.015084 CTCAGAAAAGAAGCATCCATGGT 58.985 43.478 12.58 0.00 40.78 3.55
3801 4233 3.380637 CCTCAGAAAAGAAGCATCCATGG 59.619 47.826 4.97 4.97 0.00 3.66
3806 4238 5.416952 TGAATTCCCTCAGAAAAGAAGCATC 59.583 40.000 2.27 0.00 38.21 3.91
3808 4240 4.520492 GTGAATTCCCTCAGAAAAGAAGCA 59.480 41.667 2.27 0.00 38.21 3.91
3809 4241 4.520492 TGTGAATTCCCTCAGAAAAGAAGC 59.480 41.667 2.27 0.00 38.21 3.86
3811 4243 6.306199 TGATGTGAATTCCCTCAGAAAAGAA 58.694 36.000 2.27 0.00 38.21 2.52
3812 4244 5.879763 TGATGTGAATTCCCTCAGAAAAGA 58.120 37.500 2.27 0.00 38.21 2.52
3813 4245 6.152323 ACATGATGTGAATTCCCTCAGAAAAG 59.848 38.462 0.00 0.00 38.21 2.27
3814 4246 6.012113 ACATGATGTGAATTCCCTCAGAAAA 58.988 36.000 0.00 0.00 38.21 2.29
3815 4247 5.573219 ACATGATGTGAATTCCCTCAGAAA 58.427 37.500 0.00 0.00 38.21 2.52
3816 4248 5.183530 ACATGATGTGAATTCCCTCAGAA 57.816 39.130 0.00 0.00 39.32 3.02
3818 4250 5.048921 GCATACATGATGTGAATTCCCTCAG 60.049 44.000 8.61 1.41 37.90 3.35
3819 4251 4.823442 GCATACATGATGTGAATTCCCTCA 59.177 41.667 8.61 3.76 37.90 3.86
3820 4252 5.068636 AGCATACATGATGTGAATTCCCTC 58.931 41.667 8.61 0.00 37.90 4.30
3822 4254 6.000219 AGTAGCATACATGATGTGAATTCCC 59.000 40.000 8.61 0.00 46.26 3.97
3823 4255 7.308229 GGAAGTAGCATACATGATGTGAATTCC 60.308 40.741 8.61 8.56 46.26 3.01
3824 4256 7.443575 AGGAAGTAGCATACATGATGTGAATTC 59.556 37.037 8.61 0.00 46.26 2.17
3825 4257 7.285566 AGGAAGTAGCATACATGATGTGAATT 58.714 34.615 8.61 0.00 46.26 2.17
3847 4312 6.436532 AGAGACAGTTATTTTAAGACGGAGGA 59.563 38.462 0.00 0.00 0.00 3.71
3916 4383 8.546322 ACTCCCTCCGTAAAGAAATAAAATAGT 58.454 33.333 0.00 0.00 0.00 2.12
3919 4386 8.323567 TGTACTCCCTCCGTAAAGAAATAAAAT 58.676 33.333 0.00 0.00 0.00 1.82
3934 4401 1.982958 TCCCAAAGTTGTACTCCCTCC 59.017 52.381 0.00 0.00 0.00 4.30
3936 4403 1.985895 CCTCCCAAAGTTGTACTCCCT 59.014 52.381 0.00 0.00 0.00 4.20
3938 4405 1.982958 TCCCTCCCAAAGTTGTACTCC 59.017 52.381 0.00 0.00 0.00 3.85
3985 4452 0.452987 CAATCTGAACCACCCATGCG 59.547 55.000 0.00 0.00 0.00 4.73
3997 4472 2.290916 GCCGAGAGATACGTCAATCTGA 59.709 50.000 5.56 0.00 36.33 3.27
4003 4478 0.107361 TCCAGCCGAGAGATACGTCA 60.107 55.000 0.00 0.00 0.00 4.35
4036 4511 1.002430 TGGTGCATCTCCTGTTCTGTC 59.998 52.381 0.00 0.00 0.00 3.51
4039 4514 0.326264 GGTGGTGCATCTCCTGTTCT 59.674 55.000 10.90 0.00 0.00 3.01
4046 4521 0.607489 AAGTGCTGGTGGTGCATCTC 60.607 55.000 0.00 0.00 42.69 2.75
4067 4542 0.947244 CAACAGGCCTGTGAGTTGTC 59.053 55.000 38.35 0.00 44.13 3.18
4110 4587 3.068448 GGTTCCTAGCTAGCTACTCCAAC 59.932 52.174 20.67 17.52 0.00 3.77
4117 4594 2.295885 GACACGGTTCCTAGCTAGCTA 58.704 52.381 22.85 22.85 0.00 3.32
4118 4595 1.104630 GACACGGTTCCTAGCTAGCT 58.895 55.000 23.12 23.12 0.00 3.32
4119 4596 0.248539 CGACACGGTTCCTAGCTAGC 60.249 60.000 15.74 6.62 0.00 3.42
4123 4609 2.092882 GCACGACACGGTTCCTAGC 61.093 63.158 0.00 0.00 0.00 3.42
4138 4624 3.796844 GCCAAAAGAAGAAGTTCCAGCAC 60.797 47.826 0.00 0.00 32.48 4.40
4147 4634 2.096713 CACTCGTCGCCAAAAGAAGAAG 60.097 50.000 0.00 0.00 0.00 2.85
4200 4687 6.713450 AGGTACTGTTGTTTTCGGTTGATATT 59.287 34.615 0.00 0.00 37.18 1.28
4201 4688 6.235664 AGGTACTGTTGTTTTCGGTTGATAT 58.764 36.000 0.00 0.00 37.18 1.63
4202 4689 5.613329 AGGTACTGTTGTTTTCGGTTGATA 58.387 37.500 0.00 0.00 37.18 2.15
4203 4690 4.457466 AGGTACTGTTGTTTTCGGTTGAT 58.543 39.130 0.00 0.00 37.18 2.57
4204 4691 3.876341 AGGTACTGTTGTTTTCGGTTGA 58.124 40.909 0.00 0.00 37.18 3.18
4205 4692 4.625972 AAGGTACTGTTGTTTTCGGTTG 57.374 40.909 0.00 0.00 40.86 3.77
4207 4694 4.263435 TGAAAGGTACTGTTGTTTTCGGT 58.737 39.130 0.00 0.00 40.86 4.69
4208 4695 4.788521 GCTGAAAGGTACTGTTGTTTTCGG 60.789 45.833 11.71 11.71 40.86 4.30
4209 4696 4.279659 GCTGAAAGGTACTGTTGTTTTCG 58.720 43.478 0.00 0.00 40.86 3.46
4210 4697 4.279659 CGCTGAAAGGTACTGTTGTTTTC 58.720 43.478 0.00 0.00 40.86 2.29
4214 4701 1.542547 CCCGCTGAAAGGTACTGTTGT 60.543 52.381 0.00 0.00 40.86 3.32
4216 4703 1.053424 TCCCGCTGAAAGGTACTGTT 58.947 50.000 0.00 0.00 40.86 3.16
4217 4704 1.053424 TTCCCGCTGAAAGGTACTGT 58.947 50.000 0.00 0.00 40.86 3.55
4218 4705 1.804748 GTTTCCCGCTGAAAGGTACTG 59.195 52.381 0.00 0.00 43.46 2.74
4219 4706 1.418637 TGTTTCCCGCTGAAAGGTACT 59.581 47.619 0.00 0.00 43.46 2.73
4220 4707 1.886886 TGTTTCCCGCTGAAAGGTAC 58.113 50.000 0.00 0.00 43.46 3.34
4221 4708 2.039216 TGATGTTTCCCGCTGAAAGGTA 59.961 45.455 0.00 0.00 43.46 3.08
4224 4711 1.200020 GGTGATGTTTCCCGCTGAAAG 59.800 52.381 0.00 0.00 43.46 2.62
4254 4741 1.668151 GACGGTGGTGGCTTGACTC 60.668 63.158 0.00 0.00 0.00 3.36
4262 4749 2.357034 CTCAACGGACGGTGGTGG 60.357 66.667 10.10 0.00 32.83 4.61
4263 4750 2.357034 CCTCAACGGACGGTGGTG 60.357 66.667 10.10 3.59 32.83 4.17


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

AutoCloner maintained by Alex Coulton.