Multiple sequence alignment - TraesCS2A01G448800

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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 TraesCS2A01G448800 chr2A 100.000 4845 0 0 1 4845 698135621 698130777 0.000000e+00 8948.0
1 TraesCS2A01G448800 chr2D 91.988 2334 131 26 1525 3830 557795071 557792766 0.000000e+00 3223.0
2 TraesCS2A01G448800 chr2D 88.828 1468 85 35 71 1496 557796502 557795072 0.000000e+00 1729.0
3 TraesCS2A01G448800 chr2B 90.108 1203 80 15 1549 2739 666089494 666088319 0.000000e+00 1526.0
4 TraesCS2A01G448800 chr2B 90.108 1203 80 15 1549 2739 666095932 666094757 0.000000e+00 1526.0
5 TraesCS2A01G448800 chr2B 90.884 1108 65 21 2752 3830 666088256 666087156 0.000000e+00 1454.0
6 TraesCS2A01G448800 chr2B 90.884 1108 65 21 2752 3830 666094694 666093594 0.000000e+00 1454.0
7 TraesCS2A01G448800 chr2B 88.571 1225 65 32 365 1547 666090720 666089529 0.000000e+00 1417.0
8 TraesCS2A01G448800 chr2B 88.571 1225 65 32 365 1547 666097158 666095967 0.000000e+00 1417.0
9 TraesCS2A01G448800 chr2B 91.644 371 17 8 1 366 666098979 666098618 7.240000e-138 501.0
10 TraesCS2A01G448800 chr7D 84.028 983 106 27 3860 4804 159710091 159709122 0.000000e+00 898.0
11 TraesCS2A01G448800 chr7D 84.379 749 84 16 4027 4755 128910746 128910011 0.000000e+00 704.0
12 TraesCS2A01G448800 chr7D 83.851 161 20 5 4648 4804 118821324 118821166 1.090000e-31 148.0
13 TraesCS2A01G448800 chr4D 84.336 964 88 31 3860 4804 337414356 337415275 0.000000e+00 885.0
14 TraesCS2A01G448800 chr4D 81.979 283 29 8 4538 4801 337424225 337424504 2.270000e-53 220.0
15 TraesCS2A01G448800 chr4D 83.140 172 26 2 1275 1446 470506952 470507120 2.340000e-33 154.0
16 TraesCS2A01G448800 chr3A 83.642 972 122 27 3860 4810 9049344 9048389 0.000000e+00 880.0
17 TraesCS2A01G448800 chr3A 83.588 719 107 6 3896 4611 573105718 573105008 0.000000e+00 664.0
18 TraesCS2A01G448800 chr3A 81.195 452 63 16 4315 4754 690982781 690982340 1.290000e-90 344.0
19 TraesCS2A01G448800 chr3A 86.047 172 18 6 4636 4804 511080193 511080361 3.850000e-41 180.0
20 TraesCS2A01G448800 chr4B 83.035 949 124 22 3864 4804 388833192 388832273 0.000000e+00 826.0
21 TraesCS2A01G448800 chr4B 84.242 165 23 2 1282 1446 592819806 592819967 1.810000e-34 158.0
22 TraesCS2A01G448800 chr6B 83.886 844 102 19 3861 4684 623175909 623175080 0.000000e+00 774.0
23 TraesCS2A01G448800 chr6B 77.431 545 71 35 1867 2376 523777665 523778192 1.330000e-70 278.0
24 TraesCS2A01G448800 chr6D 84.433 803 84 16 3861 4640 457643375 457644159 0.000000e+00 752.0
25 TraesCS2A01G448800 chr6D 78.004 541 75 30 1870 2376 354419865 354419335 2.830000e-77 300.0
26 TraesCS2A01G448800 chr6D 88.957 163 18 0 1284 1446 354420405 354420243 8.220000e-48 202.0
27 TraesCS2A01G448800 chr1D 81.412 963 137 24 3866 4804 397634176 397633232 0.000000e+00 749.0
28 TraesCS2A01G448800 chr1D 84.190 525 64 5 4246 4753 365441597 365441075 4.360000e-135 492.0
29 TraesCS2A01G448800 chr5A 83.158 855 106 21 3862 4709 653846081 653845258 0.000000e+00 747.0
30 TraesCS2A01G448800 chr5A 83.588 524 63 13 4251 4756 608853934 608853416 2.040000e-128 470.0
31 TraesCS2A01G448800 chr5A 85.057 174 19 6 1275 1446 462145404 462145572 2.320000e-38 171.0
32 TraesCS2A01G448800 chr6A 76.994 539 81 29 1867 2376 487692531 487693055 7.990000e-68 268.0
33 TraesCS2A01G448800 chr6A 91.026 156 14 0 1284 1439 487691962 487692117 1.370000e-50 211.0
34 TraesCS2A01G448800 chr5D 86.585 164 15 5 1275 1436 361606664 361606822 1.790000e-39 174.0
35 TraesCS2A01G448800 chr4A 83.721 172 22 5 4636 4804 590611224 590611056 1.810000e-34 158.0
36 TraesCS2A01G448800 chr1B 77.895 190 33 6 4624 4810 659690182 659689999 5.130000e-20 110.0
37 TraesCS2A01G448800 chr3D 78.882 161 18 5 4648 4804 352747969 352747821 1.440000e-15 95.3
38 TraesCS2A01G448800 chr7A 91.525 59 3 2 4747 4804 121390054 121390111 4.020000e-11 80.5


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 TraesCS2A01G448800 chr2A 698130777 698135621 4844 True 8948.000000 8948 100.0000 1 4845 1 chr2A.!!$R1 4844
1 TraesCS2A01G448800 chr2D 557792766 557796502 3736 True 2476.000000 3223 90.4080 71 3830 2 chr2D.!!$R1 3759
2 TraesCS2A01G448800 chr2B 666087156 666098979 11823 True 1327.857143 1526 90.1100 1 3830 7 chr2B.!!$R1 3829
3 TraesCS2A01G448800 chr7D 159709122 159710091 969 True 898.000000 898 84.0280 3860 4804 1 chr7D.!!$R3 944
4 TraesCS2A01G448800 chr7D 128910011 128910746 735 True 704.000000 704 84.3790 4027 4755 1 chr7D.!!$R2 728
5 TraesCS2A01G448800 chr4D 337414356 337415275 919 False 885.000000 885 84.3360 3860 4804 1 chr4D.!!$F1 944
6 TraesCS2A01G448800 chr3A 9048389 9049344 955 True 880.000000 880 83.6420 3860 4810 1 chr3A.!!$R1 950
7 TraesCS2A01G448800 chr3A 573105008 573105718 710 True 664.000000 664 83.5880 3896 4611 1 chr3A.!!$R2 715
8 TraesCS2A01G448800 chr4B 388832273 388833192 919 True 826.000000 826 83.0350 3864 4804 1 chr4B.!!$R1 940
9 TraesCS2A01G448800 chr6B 623175080 623175909 829 True 774.000000 774 83.8860 3861 4684 1 chr6B.!!$R1 823
10 TraesCS2A01G448800 chr6B 523777665 523778192 527 False 278.000000 278 77.4310 1867 2376 1 chr6B.!!$F1 509
11 TraesCS2A01G448800 chr6D 457643375 457644159 784 False 752.000000 752 84.4330 3861 4640 1 chr6D.!!$F1 779
12 TraesCS2A01G448800 chr6D 354419335 354420405 1070 True 251.000000 300 83.4805 1284 2376 2 chr6D.!!$R1 1092
13 TraesCS2A01G448800 chr1D 397633232 397634176 944 True 749.000000 749 81.4120 3866 4804 1 chr1D.!!$R2 938
14 TraesCS2A01G448800 chr1D 365441075 365441597 522 True 492.000000 492 84.1900 4246 4753 1 chr1D.!!$R1 507
15 TraesCS2A01G448800 chr5A 653845258 653846081 823 True 747.000000 747 83.1580 3862 4709 1 chr5A.!!$R2 847
16 TraesCS2A01G448800 chr5A 608853416 608853934 518 True 470.000000 470 83.5880 4251 4756 1 chr5A.!!$R1 505
17 TraesCS2A01G448800 chr6A 487691962 487693055 1093 False 239.500000 268 84.0100 1284 2376 2 chr6A.!!$F1 1092

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
509 1981 0.323360 TTTGGCATTCCGAGAAGGGG 60.323 55.000 0.00 0.00 41.52 4.79 F
615 2119 1.003108 GCGCTCACTTTTCTCTAGCC 58.997 55.000 0.00 0.00 0.00 3.93 F
1051 2592 1.066587 CAGTCGGGCACTAGCTAGC 59.933 63.158 20.91 6.62 41.70 3.42 F
2556 10722 0.394762 GTGAGAATGATGCTGGGCCA 60.395 55.000 5.85 5.85 0.00 5.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2493 10657 1.066430 TCATTTTCCGGCGCTAACTCT 60.066 47.619 7.64 0.0 0.00 3.24 R
2551 10717 0.109132 CTTCGATTGCAAACTGGCCC 60.109 55.000 1.71 0.0 0.00 5.80 R
2590 10757 0.730494 GCCGCATGCAACAAAGAGAC 60.730 55.000 19.57 0.0 40.77 3.36 R
3857 12104 0.028902 GGCTAATTTAAGGCGTGCGG 59.971 55.000 0.00 0.0 31.82 5.69 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 26 2.344441 CGGTTGTACACATGACATCGAC 59.656 50.000 0.00 0.00 0.00 4.20
31 32 1.134401 ACACATGACATCGACCCATCC 60.134 52.381 0.00 0.00 0.00 3.51
34 35 2.224378 ACATGACATCGACCCATCCATC 60.224 50.000 0.00 0.00 0.00 3.51
114 116 2.768253 TTCCATCTCGTTCATGCACT 57.232 45.000 0.00 0.00 0.00 4.40
138 140 1.016627 ATTCCATGAACGGACGCATG 58.983 50.000 0.00 0.00 41.11 4.06
184 186 2.928801 TCACTGTTCAGCCTAAGCAA 57.071 45.000 0.00 0.00 43.56 3.91
191 197 0.840288 TCAGCCTAAGCAACCCCTGA 60.840 55.000 0.00 0.00 43.56 3.86
241 247 5.009110 GCAGAAGGTTTAGATGCCCTAATTC 59.991 44.000 0.00 0.00 37.22 2.17
266 272 5.353678 CCATTTTGGTCAAGAGAGATGAGTC 59.646 44.000 0.00 0.00 31.35 3.36
286 292 1.821332 GAGCCTTCCCCTTCATGCG 60.821 63.158 0.00 0.00 0.00 4.73
301 307 1.925285 ATGCGGATCCATGGTGGTGT 61.925 55.000 12.58 0.00 39.03 4.16
302 308 2.114670 GCGGATCCATGGTGGTGTG 61.115 63.158 12.58 0.00 39.03 3.82
303 309 1.451927 CGGATCCATGGTGGTGTGG 60.452 63.158 12.58 0.00 39.03 4.17
304 310 1.691219 GGATCCATGGTGGTGTGGT 59.309 57.895 12.58 0.00 39.03 4.16
397 1868 2.638354 AATCCACGTACCGCCACGA 61.638 57.895 13.07 0.00 44.69 4.35
498 1970 0.609662 GCAGGGTGTCATTTGGCATT 59.390 50.000 0.00 0.00 29.66 3.56
509 1981 0.323360 TTTGGCATTCCGAGAAGGGG 60.323 55.000 0.00 0.00 41.52 4.79
535 2015 1.525995 CCACACACACACTCCCACC 60.526 63.158 0.00 0.00 0.00 4.61
568 2048 2.481952 GCAGCGAGAGAAAATTCACAGT 59.518 45.455 0.00 0.00 0.00 3.55
591 2095 4.602259 AGCGTGACCACACACCCG 62.602 66.667 0.00 0.00 46.20 5.28
596 2100 2.049433 GACCACACACCCGTCTCG 60.049 66.667 0.00 0.00 0.00 4.04
608 2112 1.412606 CGTCTCGCGCTCACTTTTC 59.587 57.895 5.56 0.00 0.00 2.29
615 2119 1.003108 GCGCTCACTTTTCTCTAGCC 58.997 55.000 0.00 0.00 0.00 3.93
616 2120 1.272781 CGCTCACTTTTCTCTAGCCG 58.727 55.000 0.00 0.00 0.00 5.52
655 2159 2.428403 GCTAGCTAGCTCGCTCGC 60.428 66.667 33.71 18.06 45.62 5.03
656 2160 2.254051 CTAGCTAGCTCGCTCGCC 59.746 66.667 23.26 0.00 41.30 5.54
678 2182 2.088763 CCGTCACGTGTAGCAGCAG 61.089 63.158 16.51 0.00 0.00 4.24
685 2189 1.153568 GTGTAGCAGCAGCCGATCA 60.154 57.895 0.00 0.00 43.56 2.92
689 2193 2.360949 TAGCAGCAGCCGATCAGCTC 62.361 60.000 0.00 0.00 42.61 4.09
692 2196 2.588314 GCAGCCGATCAGCTCCAG 60.588 66.667 0.00 0.00 42.61 3.86
705 2209 2.440247 TCCAGAGATCTCGCCGCA 60.440 61.111 16.97 0.00 34.09 5.69
707 2211 1.068753 CCAGAGATCTCGCCGCAAT 59.931 57.895 16.97 0.00 34.09 3.56
772 2276 1.829096 TGGTGACCACGAACGGAGA 60.829 57.895 0.00 0.00 0.00 3.71
773 2277 1.080705 GGTGACCACGAACGGAGAG 60.081 63.158 0.00 0.00 0.00 3.20
779 2297 1.226323 CACGAACGGAGAGCCTACG 60.226 63.158 5.40 5.40 44.37 3.51
790 2308 2.278661 GCCTACGTACGCCTCTGC 60.279 66.667 16.72 7.62 0.00 4.26
1051 2592 1.066587 CAGTCGGGCACTAGCTAGC 59.933 63.158 20.91 6.62 41.70 3.42
1062 2603 2.289547 CACTAGCTAGCTCCTTCGAGTC 59.710 54.545 23.26 0.00 38.49 3.36
1192 2733 2.995872 GCCTCCTCTTCTGCGACGT 61.996 63.158 0.00 0.00 0.00 4.34
1322 2863 4.215349 GCGAGGAGCTGCAAGAAT 57.785 55.556 8.35 0.00 44.04 2.40
1454 2995 1.964373 CCACCGGGTAAGCACACAC 60.964 63.158 6.32 0.00 0.00 3.82
1482 3023 3.243234 CGTCTCGCTGAATTCCTGATACT 60.243 47.826 2.27 0.00 0.00 2.12
1497 3038 3.930336 TGATACTTTCTGCACTCCTGTG 58.070 45.455 0.00 0.00 46.37 3.66
1498 3039 3.324846 TGATACTTTCTGCACTCCTGTGT 59.675 43.478 0.00 0.00 45.44 3.72
1512 3054 1.276421 CCTGTGTCGAGTTCTTGGGAT 59.724 52.381 0.00 0.00 0.00 3.85
1521 3063 4.937620 TCGAGTTCTTGGGATGAAAATCTG 59.062 41.667 0.00 0.00 0.00 2.90
1596 3234 5.185249 TGTTCTTAACTACTACCAGAGCCAG 59.815 44.000 0.00 0.00 0.00 4.85
1679 9755 1.071385 CCATTAATGCGCCTCCTCTCT 59.929 52.381 10.11 0.00 0.00 3.10
1703 9779 8.628280 TCTCTATCATCACTTCACTCATAGTTG 58.372 37.037 0.00 0.00 0.00 3.16
1708 9784 7.315890 TCATCACTTCACTCATAGTTGTAGTG 58.684 38.462 0.00 0.00 41.58 2.74
1805 9918 3.434641 ACTTCTTCGATCACATGCAACAG 59.565 43.478 0.00 0.00 0.00 3.16
1806 9919 3.317603 TCTTCGATCACATGCAACAGA 57.682 42.857 0.00 0.00 0.00 3.41
2028 10144 4.108902 GATGCCATCGTCGAGCAA 57.891 55.556 12.47 0.00 40.46 3.91
2029 10145 2.383170 GATGCCATCGTCGAGCAAA 58.617 52.632 12.47 0.00 40.46 3.68
2215 10373 2.579787 GCGGACATCGAGGTGACG 60.580 66.667 7.79 13.43 42.43 4.35
2409 10572 3.423539 TGCCTGCAAACTATTCACTCT 57.576 42.857 0.00 0.00 0.00 3.24
2410 10573 3.338249 TGCCTGCAAACTATTCACTCTC 58.662 45.455 0.00 0.00 0.00 3.20
2427 10590 5.244178 TCACTCTCTTGTTACCTTCTCTTCC 59.756 44.000 0.00 0.00 0.00 3.46
2461 10624 2.620115 AGCCATCGCCAAAATCTACATG 59.380 45.455 0.00 0.00 34.57 3.21
2493 10657 9.473007 TTTTCTCCATCATATCATGGTGTAAAA 57.527 29.630 5.43 8.08 43.62 1.52
2551 10717 2.039818 AGCCTGTGAGAATGATGCTG 57.960 50.000 0.00 0.00 0.00 4.41
2556 10722 0.394762 GTGAGAATGATGCTGGGCCA 60.395 55.000 5.85 5.85 0.00 5.36
2606 10773 6.826893 TTTTTAAGTCTCTTTGTTGCATGC 57.173 33.333 11.82 11.82 0.00 4.06
2813 11031 1.040646 TTCCGGCTAGGCATCTACTG 58.959 55.000 17.45 0.00 40.77 2.74
2857 11076 0.516877 GTAGCGTGCATTGCTTGTGA 59.483 50.000 19.67 1.41 43.71 3.58
2864 11083 3.302935 CGTGCATTGCTTGTGATAGCTAG 60.303 47.826 10.49 0.00 41.76 3.42
2871 11093 3.515502 TGCTTGTGATAGCTAGAACCAGT 59.484 43.478 0.00 0.00 41.76 4.00
2893 11115 2.548178 CACTACCCAGTGCTGCTTG 58.452 57.895 0.00 0.00 45.44 4.01
3015 11243 1.075482 CAGAGGCTTTTGCTCCCCA 59.925 57.895 0.00 0.00 46.54 4.96
3017 11245 1.075659 GAGGCTTTTGCTCCCCAGT 59.924 57.895 0.00 0.00 46.54 4.00
3019 11247 0.829182 AGGCTTTTGCTCCCCAGTTG 60.829 55.000 0.00 0.00 46.54 3.16
3020 11248 1.115326 GGCTTTTGCTCCCCAGTTGT 61.115 55.000 0.00 0.00 46.54 3.32
3040 11269 0.098376 GGCTTTTGCTCTGATCTGCG 59.902 55.000 0.00 0.00 46.54 5.18
3289 11531 0.477795 AAGGGGAGGCTACAGGGTTT 60.478 55.000 0.00 0.00 0.00 3.27
3405 11647 1.663379 CCTCCGACGATGGTGTAGCA 61.663 60.000 0.00 0.00 0.00 3.49
3407 11649 1.878522 CCGACGATGGTGTAGCAGC 60.879 63.158 0.00 0.00 0.00 5.25
3417 11659 1.134699 GGTGTAGCAGCTGCAGTGATA 60.135 52.381 38.24 20.02 45.16 2.15
3428 11670 0.580578 GCAGTGATAGATGCAGCACG 59.419 55.000 4.07 0.49 42.11 5.34
3430 11672 0.463204 AGTGATAGATGCAGCACGCT 59.537 50.000 4.07 4.39 43.06 5.07
3431 11673 0.580578 GTGATAGATGCAGCACGCTG 59.419 55.000 14.73 14.73 46.15 5.18
3507 11751 1.097547 GCGTGTATTGGCCTGATGCT 61.098 55.000 3.32 0.00 40.92 3.79
3508 11752 0.659427 CGTGTATTGGCCTGATGCTG 59.341 55.000 3.32 0.00 40.92 4.41
3515 11759 3.712016 TTGGCCTGATGCTGTTTACTA 57.288 42.857 3.32 0.00 40.92 1.82
3549 11795 3.376218 GCTCCTGATGAGTGCGATT 57.624 52.632 0.00 0.00 43.48 3.34
3734 11981 6.763610 CAGGAGATTTTAAGTTAGCTAGGTGG 59.236 42.308 4.27 0.00 0.00 4.61
3745 11992 3.324108 TAGGTGGACCGGGGCAAC 61.324 66.667 6.32 0.00 42.08 4.17
3833 12080 5.825507 CTTTGGAGCATGGTTAATAAGAGC 58.174 41.667 0.00 0.00 0.00 4.09
3834 12081 4.502105 TGGAGCATGGTTAATAAGAGCA 57.498 40.909 0.00 0.00 0.00 4.26
3835 12082 5.052693 TGGAGCATGGTTAATAAGAGCAT 57.947 39.130 0.00 0.00 35.76 3.79
3840 12087 5.503662 CATGGTTAATAAGAGCATGTGCA 57.496 39.130 7.83 0.00 44.05 4.57
3841 12088 5.516996 CATGGTTAATAAGAGCATGTGCAG 58.483 41.667 7.83 0.00 44.05 4.41
3842 12089 3.378112 TGGTTAATAAGAGCATGTGCAGC 59.622 43.478 7.83 0.00 45.16 5.25
3843 12090 3.243201 GGTTAATAAGAGCATGTGCAGCC 60.243 47.826 7.83 0.00 45.16 4.85
3844 12091 1.019673 AATAAGAGCATGTGCAGCCG 58.980 50.000 7.83 0.00 45.16 5.52
3845 12092 0.816825 ATAAGAGCATGTGCAGCCGG 60.817 55.000 7.83 0.00 45.16 6.13
3846 12093 1.898330 TAAGAGCATGTGCAGCCGGA 61.898 55.000 5.05 0.00 45.16 5.14
3847 12094 3.503363 GAGCATGTGCAGCCGGAC 61.503 66.667 5.05 0.00 45.16 4.79
3848 12095 3.965539 GAGCATGTGCAGCCGGACT 62.966 63.158 5.05 0.00 45.16 3.85
3849 12096 3.058160 GCATGTGCAGCCGGACTT 61.058 61.111 5.05 0.00 41.59 3.01
3850 12097 2.629656 GCATGTGCAGCCGGACTTT 61.630 57.895 5.05 0.00 41.59 2.66
3851 12098 1.210931 CATGTGCAGCCGGACTTTG 59.789 57.895 5.05 0.00 33.94 2.77
3852 12099 2.629656 ATGTGCAGCCGGACTTTGC 61.630 57.895 5.05 9.80 38.30 3.68
3853 12100 3.286751 GTGCAGCCGGACTTTGCA 61.287 61.111 5.05 12.61 44.81 4.08
3854 12101 2.518112 TGCAGCCGGACTTTGCAA 60.518 55.556 17.30 0.00 44.13 4.08
3855 12102 2.124060 TGCAGCCGGACTTTGCAAA 61.124 52.632 17.30 12.14 44.13 3.68
3856 12103 1.290009 GCAGCCGGACTTTGCAAAT 59.710 52.632 13.23 3.03 37.75 2.32
3857 12104 0.733909 GCAGCCGGACTTTGCAAATC 60.734 55.000 13.23 11.89 37.75 2.17
3858 12105 0.109132 CAGCCGGACTTTGCAAATCC 60.109 55.000 21.35 21.35 0.00 3.01
3877 12124 0.315869 CGCACGCCTTAAATTAGCCG 60.316 55.000 0.00 0.00 0.00 5.52
3890 12138 2.964438 TTAGCCGCTTGTATCCGCCG 62.964 60.000 0.00 0.00 0.00 6.46
3908 12156 2.673368 GCCGCTCTCATATTTTATCCCG 59.327 50.000 0.00 0.00 0.00 5.14
3911 12159 5.661458 CCGCTCTCATATTTTATCCCGTAT 58.339 41.667 0.00 0.00 0.00 3.06
3915 12163 8.353684 CGCTCTCATATTTTATCCCGTATATCT 58.646 37.037 0.00 0.00 0.00 1.98
3942 12204 9.908152 ATACAAAACAAGCAAAAGTAATCCTAC 57.092 29.630 0.00 0.00 0.00 3.18
3943 12205 8.007405 ACAAAACAAGCAAAAGTAATCCTACT 57.993 30.769 0.00 0.00 40.25 2.57
3944 12206 9.127277 ACAAAACAAGCAAAAGTAATCCTACTA 57.873 29.630 0.00 0.00 37.39 1.82
3983 12259 7.737869 AGTATCCTATCTACTCTTTGTCTCGA 58.262 38.462 0.00 0.00 0.00 4.04
4000 12276 1.134367 TCGAAGATGTCCATGACGACC 59.866 52.381 0.00 0.00 34.95 4.79
4119 12395 1.227497 CCTCTTGCGCCTCCATCTC 60.227 63.158 4.18 0.00 0.00 2.75
4121 12397 1.684386 CTCTTGCGCCTCCATCTCCT 61.684 60.000 4.18 0.00 0.00 3.69
4122 12398 1.523258 CTTGCGCCTCCATCTCCTG 60.523 63.158 4.18 0.00 0.00 3.86
4123 12399 3.687321 TTGCGCCTCCATCTCCTGC 62.687 63.158 4.18 0.00 0.00 4.85
4124 12400 4.925861 GCGCCTCCATCTCCTGCC 62.926 72.222 0.00 0.00 0.00 4.85
4125 12401 4.598894 CGCCTCCATCTCCTGCCG 62.599 72.222 0.00 0.00 0.00 5.69
4161 12437 4.074526 GCCTCAGCAGCCGACTCA 62.075 66.667 0.00 0.00 39.53 3.41
4200 12476 3.058160 GCATGTTGCTCCGCCTGT 61.058 61.111 0.00 0.00 40.96 4.00
4230 12508 4.489771 CCAGCGTCCCCACATCCC 62.490 72.222 0.00 0.00 0.00 3.85
4249 12536 2.042435 CTCCTCCGGCTCCTCCTT 60.042 66.667 0.00 0.00 0.00 3.36
4277 12579 1.648568 TCCAACTCCTCCTCTGGATCT 59.351 52.381 0.00 0.00 35.30 2.75
4463 12766 1.613255 GGCGGACAGGATGAGGAAAAA 60.613 52.381 0.00 0.00 39.69 1.94
4528 12831 3.124921 GGGCAATGCACTACGCGT 61.125 61.111 19.17 19.17 46.97 6.01
4531 12834 2.387445 GCAATGCACTACGCGTCCA 61.387 57.895 18.63 9.81 46.97 4.02
4574 12890 0.894184 ACGGAGGAGACGAGCTTCAA 60.894 55.000 0.00 0.00 34.93 2.69
4626 12947 2.183555 CCTTAGTCCGACGTGGCC 59.816 66.667 0.00 0.00 37.80 5.36
4719 13052 0.168128 CGAATGTTTGAGGGCCGTTC 59.832 55.000 0.00 0.00 0.00 3.95
4757 13090 2.721945 AAAAATTGTGACCGGGCGA 58.278 47.368 6.32 0.00 0.00 5.54
4759 13092 0.820074 AAAATTGTGACCGGGCGACA 60.820 50.000 6.32 7.53 0.00 4.35
4761 13094 0.608035 AATTGTGACCGGGCGACAAT 60.608 50.000 24.06 24.06 41.09 2.71
4762 13095 1.305219 ATTGTGACCGGGCGACAATG 61.305 55.000 27.05 0.00 38.56 2.82
4763 13096 2.358247 GTGACCGGGCGACAATGT 60.358 61.111 6.32 0.00 0.00 2.71
4764 13097 2.047655 TGACCGGGCGACAATGTC 60.048 61.111 6.32 2.75 0.00 3.06
4765 13098 2.818274 GACCGGGCGACAATGTCC 60.818 66.667 6.32 0.70 0.00 4.02
4804 13148 0.252558 AGGGGTCCGGTTGTAGATGT 60.253 55.000 0.00 0.00 0.00 3.06
4806 13150 1.677820 GGGGTCCGGTTGTAGATGTTG 60.678 57.143 0.00 0.00 0.00 3.33
4810 13154 4.510571 GGTCCGGTTGTAGATGTTGTAAT 58.489 43.478 0.00 0.00 0.00 1.89
4811 13155 5.395546 GGGTCCGGTTGTAGATGTTGTAATA 60.396 44.000 0.00 0.00 0.00 0.98
4812 13156 5.521372 GGTCCGGTTGTAGATGTTGTAATAC 59.479 44.000 0.00 0.00 0.00 1.89
4813 13157 6.101332 GTCCGGTTGTAGATGTTGTAATACA 58.899 40.000 0.00 0.00 0.00 2.29
4814 13158 6.255020 GTCCGGTTGTAGATGTTGTAATACAG 59.745 42.308 0.00 0.00 30.39 2.74
4815 13159 6.071221 TCCGGTTGTAGATGTTGTAATACAGT 60.071 38.462 0.00 0.00 30.39 3.55
4816 13160 6.255020 CCGGTTGTAGATGTTGTAATACAGTC 59.745 42.308 0.00 0.00 30.39 3.51
4817 13161 6.809689 CGGTTGTAGATGTTGTAATACAGTCA 59.190 38.462 0.00 0.00 30.39 3.41
4818 13162 7.329962 CGGTTGTAGATGTTGTAATACAGTCAA 59.670 37.037 0.00 0.00 30.39 3.18
4819 13163 8.440833 GGTTGTAGATGTTGTAATACAGTCAAC 58.559 37.037 0.00 0.00 40.91 3.18
4827 13171 8.214721 TGTTGTAATACAGTCAACAATCAACA 57.785 30.769 7.36 0.00 45.05 3.33
4828 13172 8.845227 TGTTGTAATACAGTCAACAATCAACAT 58.155 29.630 7.36 0.00 45.05 2.71
4829 13173 9.117145 GTTGTAATACAGTCAACAATCAACATG 57.883 33.333 0.00 0.00 40.44 3.21
4830 13174 8.389779 TGTAATACAGTCAACAATCAACATGT 57.610 30.769 0.00 0.00 0.00 3.21
4831 13175 8.503196 TGTAATACAGTCAACAATCAACATGTC 58.497 33.333 0.00 0.00 0.00 3.06
4832 13176 7.509141 AATACAGTCAACAATCAACATGTCA 57.491 32.000 0.00 0.00 0.00 3.58
4833 13177 7.692460 ATACAGTCAACAATCAACATGTCAT 57.308 32.000 0.00 0.00 0.00 3.06
4834 13178 6.005583 ACAGTCAACAATCAACATGTCATC 57.994 37.500 0.00 0.00 0.00 2.92
4835 13179 5.766670 ACAGTCAACAATCAACATGTCATCT 59.233 36.000 0.00 0.00 0.00 2.90
4836 13180 6.936335 ACAGTCAACAATCAACATGTCATCTA 59.064 34.615 0.00 0.00 0.00 1.98
4837 13181 7.118825 ACAGTCAACAATCAACATGTCATCTAG 59.881 37.037 0.00 0.00 0.00 2.43
4838 13182 7.332678 CAGTCAACAATCAACATGTCATCTAGA 59.667 37.037 0.00 0.00 0.00 2.43
4839 13183 7.548427 AGTCAACAATCAACATGTCATCTAGAG 59.452 37.037 0.00 0.00 0.00 2.43
4840 13184 7.332926 GTCAACAATCAACATGTCATCTAGAGT 59.667 37.037 0.00 0.00 0.00 3.24
4841 13185 7.547019 TCAACAATCAACATGTCATCTAGAGTC 59.453 37.037 0.00 0.00 0.00 3.36
4842 13186 6.939622 ACAATCAACATGTCATCTAGAGTCA 58.060 36.000 0.00 0.00 0.00 3.41
4843 13187 7.389232 ACAATCAACATGTCATCTAGAGTCAA 58.611 34.615 0.00 0.00 0.00 3.18
4844 13188 8.045507 ACAATCAACATGTCATCTAGAGTCAAT 58.954 33.333 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 1.896465 TGGGTCGATGTCATGTGTACA 59.104 47.619 0.00 0.00 0.00 2.90
13 14 1.203237 TGGATGGGTCGATGTCATGT 58.797 50.000 0.00 0.00 0.00 3.21
25 26 1.079543 GAGGCGATCGATGGATGGG 60.080 63.158 21.57 0.00 31.51 4.00
31 32 1.301244 CAAGGGGAGGCGATCGATG 60.301 63.158 21.57 0.00 0.00 3.84
34 35 2.107141 GACAAGGGGAGGCGATCG 59.893 66.667 11.69 11.69 0.00 3.69
93 94 3.614092 AGTGCATGAACGAGATGGAATT 58.386 40.909 0.00 0.00 0.00 2.17
114 116 2.209273 CGTCCGTTCATGGAATGCATA 58.791 47.619 0.00 0.00 46.21 3.14
121 123 2.106074 GCATGCGTCCGTTCATGGA 61.106 57.895 0.00 0.00 40.16 3.41
147 149 2.430080 GAAAGTGGCGCTGTCACGTG 62.430 60.000 13.35 9.94 43.57 4.49
148 150 2.203015 AAAGTGGCGCTGTCACGT 60.203 55.556 7.64 2.18 43.57 4.49
149 151 2.243957 TGAAAGTGGCGCTGTCACG 61.244 57.895 16.81 0.00 43.57 4.35
184 186 2.748641 TTTCCTCGGCTCTCAGGGGT 62.749 60.000 0.00 0.00 0.00 4.95
191 197 1.073923 ACCACAAATTTCCTCGGCTCT 59.926 47.619 0.00 0.00 0.00 4.09
241 247 4.592942 TCATCTCTCTTGACCAAAATGGG 58.407 43.478 0.87 0.00 43.37 4.00
266 272 1.153086 CATGAAGGGGAAGGCTCCG 60.153 63.158 0.00 0.00 43.51 4.63
286 292 0.680921 CACCACACCACCATGGATCC 60.681 60.000 21.47 4.20 40.96 3.36
301 307 0.468958 CATTTCACCCCACCACACCA 60.469 55.000 0.00 0.00 0.00 4.17
302 308 0.469144 ACATTTCACCCCACCACACC 60.469 55.000 0.00 0.00 0.00 4.16
303 309 0.958822 GACATTTCACCCCACCACAC 59.041 55.000 0.00 0.00 0.00 3.82
304 310 0.553333 TGACATTTCACCCCACCACA 59.447 50.000 0.00 0.00 0.00 4.17
396 1867 1.459592 CGATAATTGGGAATCGGCGTC 59.540 52.381 6.85 0.00 40.93 5.19
397 1868 1.508632 CGATAATTGGGAATCGGCGT 58.491 50.000 6.85 0.00 40.93 5.68
418 1889 2.587194 CATCTTGCGCGAGAGGGG 60.587 66.667 29.95 18.77 45.27 4.79
498 1970 3.319198 GTGGTGCCCCTTCTCGGA 61.319 66.667 0.00 0.00 33.16 4.55
509 1981 3.216292 GTGTGTGTGGGGTGGTGC 61.216 66.667 0.00 0.00 0.00 5.01
535 2015 0.996229 CTCGCTGCTTCGCTCGATAG 60.996 60.000 0.00 0.00 35.03 2.08
552 2032 4.067896 TCCTGCACTGTGAATTTTCTCTC 58.932 43.478 12.86 0.00 0.00 3.20
554 2034 3.365767 GCTCCTGCACTGTGAATTTTCTC 60.366 47.826 12.86 0.00 39.41 2.87
561 2041 1.595109 CACGCTCCTGCACTGTGAA 60.595 57.895 12.86 0.00 39.64 3.18
568 2048 3.545574 TGTGGTCACGCTCCTGCA 61.546 61.111 0.00 0.00 39.64 4.41
591 2095 0.711118 GAGAAAAGTGAGCGCGAGAC 59.289 55.000 12.10 1.67 0.00 3.36
596 2100 1.003108 GGCTAGAGAAAAGTGAGCGC 58.997 55.000 0.00 0.00 33.85 5.92
598 2102 1.003108 GCGGCTAGAGAAAAGTGAGC 58.997 55.000 0.00 0.00 0.00 4.26
664 2168 3.481903 CGGCTGCTGCTACACGTG 61.482 66.667 15.48 15.48 39.59 4.49
678 2182 0.038343 GATCTCTGGAGCTGATCGGC 60.038 60.000 19.30 19.30 0.00 5.54
685 2189 2.192861 CGGCGAGATCTCTGGAGCT 61.193 63.158 20.26 0.00 41.28 4.09
689 2193 1.068753 ATTGCGGCGAGATCTCTGG 59.931 57.895 20.26 10.11 0.00 3.86
692 2196 2.602322 GGCATTGCGGCGAGATCTC 61.602 63.158 12.98 13.05 33.57 2.75
705 2209 2.438434 CCGCTTTCCCTCGGCATT 60.438 61.111 0.00 0.00 39.14 3.56
714 2218 0.389817 GCACCAAAATCCCGCTTTCC 60.390 55.000 0.00 0.00 0.00 3.13
773 2277 2.278661 GCAGAGGCGTACGTAGGC 60.279 66.667 27.57 27.57 36.43 3.93
812 2340 3.605664 GGCAAAGGCAACAGCGGT 61.606 61.111 0.00 0.00 43.71 5.68
874 2406 0.600255 CCAACTCCGTGTGTGGACTC 60.600 60.000 0.00 0.00 33.48 3.36
875 2407 1.445942 CCAACTCCGTGTGTGGACT 59.554 57.895 0.00 0.00 33.48 3.85
876 2408 2.251642 GCCAACTCCGTGTGTGGAC 61.252 63.158 0.00 0.00 33.48 4.02
877 2409 2.110213 GCCAACTCCGTGTGTGGA 59.890 61.111 0.00 0.00 36.37 4.02
979 2512 1.721257 CGTGCGTTTCTAGCGAGACG 61.721 60.000 0.00 0.00 46.81 4.18
1247 2788 1.656652 CTTCTTCCACCGGCACTATG 58.343 55.000 0.00 0.00 0.00 2.23
1248 2789 0.541863 CCTTCTTCCACCGGCACTAT 59.458 55.000 0.00 0.00 0.00 2.12
1249 2790 1.550130 CCCTTCTTCCACCGGCACTA 61.550 60.000 0.00 0.00 0.00 2.74
1497 3038 4.938226 AGATTTTCATCCCAAGAACTCGAC 59.062 41.667 0.00 0.00 0.00 4.20
1498 3039 4.937620 CAGATTTTCATCCCAAGAACTCGA 59.062 41.667 0.00 0.00 0.00 4.04
1512 3054 2.677836 GCGCTGGATGTACAGATTTTCA 59.322 45.455 0.00 0.00 40.97 2.69
1521 3063 2.766313 TCATAATGGCGCTGGATGTAC 58.234 47.619 7.64 0.00 0.00 2.90
1679 9755 8.298729 ACAACTATGAGTGAAGTGATGATAGA 57.701 34.615 0.00 0.00 0.00 1.98
1757 9863 7.222161 ACAACTTAAAAGAACAGGGTAGTAGG 58.778 38.462 0.00 0.00 0.00 3.18
1805 9918 6.703607 CAGGTACATTCATCCATACAGAAGTC 59.296 42.308 0.00 0.00 0.00 3.01
1806 9919 6.156949 ACAGGTACATTCATCCATACAGAAGT 59.843 38.462 0.00 0.00 0.00 3.01
1815 9928 5.483937 AGTCAAGTACAGGTACATTCATCCA 59.516 40.000 11.78 0.00 38.48 3.41
1879 9992 2.514592 CCGCCGACAATGGATGCT 60.515 61.111 0.00 0.00 0.00 3.79
2143 10286 1.285023 GAGGCGACACACGTACTGT 59.715 57.895 0.00 0.00 44.60 3.55
2427 10590 3.592381 CGATGGCTTAGGTTTTCATCG 57.408 47.619 9.11 9.11 46.69 3.84
2461 10624 8.636213 ACCATGATATGATGGAGAAAAATGAAC 58.364 33.333 25.85 0.00 45.24 3.18
2493 10657 1.066430 TCATTTTCCGGCGCTAACTCT 60.066 47.619 7.64 0.00 0.00 3.24
2536 10700 0.394762 GGCCCAGCATCATTCTCACA 60.395 55.000 0.00 0.00 0.00 3.58
2551 10717 0.109132 CTTCGATTGCAAACTGGCCC 60.109 55.000 1.71 0.00 0.00 5.80
2556 10722 4.507710 TCTAGATGCTTCGATTGCAAACT 58.492 39.130 15.75 17.61 44.01 2.66
2590 10757 0.730494 GCCGCATGCAACAAAGAGAC 60.730 55.000 19.57 0.00 40.77 3.36
2712 10880 3.499338 TCACAAAATGTCCAAGCCTCAT 58.501 40.909 0.00 0.00 0.00 2.90
2813 11031 2.107705 AGCAGAGCTGATGCAATGC 58.892 52.632 19.67 0.00 46.31 3.56
2840 11058 1.399440 CTATCACAAGCAATGCACGCT 59.601 47.619 8.35 6.64 42.98 5.07
2857 11076 3.917300 AGTGGCTACTGGTTCTAGCTAT 58.083 45.455 0.13 0.00 37.39 2.97
2864 11083 1.207329 CTGGGTAGTGGCTACTGGTTC 59.793 57.143 13.76 0.72 37.78 3.62
2954 11181 3.062042 CTGGTCAAAAAGCAAATGAGCC 58.938 45.455 8.02 0.00 40.03 4.70
2956 11183 6.218019 TCAATCTGGTCAAAAAGCAAATGAG 58.782 36.000 0.00 0.00 34.32 2.90
3015 11243 2.057137 TCAGAGCAAAAGCCACAACT 57.943 45.000 0.00 0.00 0.00 3.16
3017 11245 2.555325 CAGATCAGAGCAAAAGCCACAA 59.445 45.455 0.00 0.00 0.00 3.33
3019 11247 1.135460 GCAGATCAGAGCAAAAGCCAC 60.135 52.381 0.00 0.00 0.00 5.01
3020 11248 1.171308 GCAGATCAGAGCAAAAGCCA 58.829 50.000 0.00 0.00 0.00 4.75
3189 11427 2.649245 TTCTCCATGGCGCCATCTCG 62.649 60.000 38.60 26.53 33.90 4.04
3289 11531 0.033601 AAGGAAAGGCACCACACACA 60.034 50.000 0.00 0.00 0.00 3.72
3387 11629 0.248661 CTGCTACACCATCGTCGGAG 60.249 60.000 0.00 0.00 0.00 4.63
3392 11634 1.448540 GCAGCTGCTACACCATCGT 60.449 57.895 31.33 0.00 38.21 3.73
3430 11672 4.393155 AACAGGCGATCGGCAGCA 62.393 61.111 38.28 0.00 46.16 4.41
3431 11673 3.567797 GAACAGGCGATCGGCAGC 61.568 66.667 38.28 22.09 46.16 5.25
3432 11674 2.125552 TGAACAGGCGATCGGCAG 60.126 61.111 38.28 33.33 46.16 4.85
3433 11675 2.434185 GTGAACAGGCGATCGGCA 60.434 61.111 38.28 18.63 46.16 5.69
3434 11676 3.195698 GGTGAACAGGCGATCGGC 61.196 66.667 32.17 32.17 42.51 5.54
3507 11751 5.176774 CGAAGTTCACTGCACATAGTAAACA 59.823 40.000 3.32 0.00 32.35 2.83
3508 11752 5.609088 CGAAGTTCACTGCACATAGTAAAC 58.391 41.667 3.32 0.00 30.44 2.01
3515 11759 1.151668 GAGCGAAGTTCACTGCACAT 58.848 50.000 3.32 0.00 37.80 3.21
3549 11795 4.069869 GCCTGAGCTTTGTCTGCA 57.930 55.556 0.00 0.00 35.50 4.41
3572 11818 4.209703 CCTGCACACATGAATCAAAAACAC 59.790 41.667 0.00 0.00 0.00 3.32
3573 11819 4.141981 ACCTGCACACATGAATCAAAAACA 60.142 37.500 0.00 0.00 0.00 2.83
3769 12016 8.098912 ACTACACTTTACAAATTACTACCCCTG 58.901 37.037 0.00 0.00 0.00 4.45
3773 12020 8.929746 GTCCACTACACTTTACAAATTACTACC 58.070 37.037 0.00 0.00 0.00 3.18
3830 12077 3.503363 GTCCGGCTGCACATGCTC 61.503 66.667 5.31 0.00 42.66 4.26
3831 12078 3.557903 AAGTCCGGCTGCACATGCT 62.558 57.895 5.31 0.00 42.66 3.79
3832 12079 2.629656 AAAGTCCGGCTGCACATGC 61.630 57.895 0.50 0.00 42.50 4.06
3833 12080 1.210931 CAAAGTCCGGCTGCACATG 59.789 57.895 0.50 0.00 0.00 3.21
3834 12081 2.629656 GCAAAGTCCGGCTGCACAT 61.630 57.895 0.50 0.00 36.09 3.21
3835 12082 3.286751 GCAAAGTCCGGCTGCACA 61.287 61.111 0.50 0.00 36.09 4.57
3836 12083 2.348605 TTTGCAAAGTCCGGCTGCAC 62.349 55.000 16.62 1.64 45.31 4.57
3837 12084 1.462731 ATTTGCAAAGTCCGGCTGCA 61.463 50.000 18.19 13.98 44.04 4.41
3838 12085 0.733909 GATTTGCAAAGTCCGGCTGC 60.734 55.000 18.19 3.43 36.60 5.25
3839 12086 0.109132 GGATTTGCAAAGTCCGGCTG 60.109 55.000 18.19 0.00 43.07 4.85
3840 12087 2.267045 GGATTTGCAAAGTCCGGCT 58.733 52.632 18.19 0.00 43.07 5.52
3841 12088 4.889427 GGATTTGCAAAGTCCGGC 57.111 55.556 18.19 2.72 43.07 6.13
3850 12097 1.237954 TTAAGGCGTGCGGATTTGCA 61.238 50.000 1.71 0.00 43.95 4.08
3851 12098 0.109504 TTTAAGGCGTGCGGATTTGC 60.110 50.000 0.00 0.00 0.00 3.68
3852 12099 2.559998 ATTTAAGGCGTGCGGATTTG 57.440 45.000 0.00 0.00 0.00 2.32
3853 12100 3.488553 GCTAATTTAAGGCGTGCGGATTT 60.489 43.478 0.00 0.00 0.00 2.17
3854 12101 2.032924 GCTAATTTAAGGCGTGCGGATT 59.967 45.455 0.00 0.00 0.00 3.01
3855 12102 1.602377 GCTAATTTAAGGCGTGCGGAT 59.398 47.619 0.00 0.00 0.00 4.18
3856 12103 1.011333 GCTAATTTAAGGCGTGCGGA 58.989 50.000 0.00 0.00 0.00 5.54
3857 12104 0.028902 GGCTAATTTAAGGCGTGCGG 59.971 55.000 0.00 0.00 31.82 5.69
3858 12105 3.526825 GGCTAATTTAAGGCGTGCG 57.473 52.632 0.00 0.00 31.82 5.34
3877 12124 1.951631 GAGAGCGGCGGATACAAGC 60.952 63.158 9.78 0.00 0.00 4.01
3926 12174 9.819267 GATGTAGTTAGTAGGATTACTTTTGCT 57.181 33.333 0.00 0.00 40.55 3.91
3959 12221 7.966246 TCGAGACAAAGAGTAGATAGGATAC 57.034 40.000 0.00 0.00 0.00 2.24
3962 12224 6.651086 TCTTCGAGACAAAGAGTAGATAGGA 58.349 40.000 0.00 0.00 0.00 2.94
3983 12259 0.895530 ACGGTCGTCATGGACATCTT 59.104 50.000 4.76 0.00 38.70 2.40
4031 12307 4.247380 GGATGAGCCGGAGCCCTG 62.247 72.222 5.05 0.00 41.25 4.45
4149 12425 3.753434 CGGTCTGAGTCGGCTGCT 61.753 66.667 0.00 0.00 0.00 4.24
4161 12437 1.455959 CCTCGATTCCCTCCGGTCT 60.456 63.158 0.00 0.00 0.00 3.85
4200 12476 2.543802 CGCTGGCGACGGAGATCTA 61.544 63.158 0.00 0.00 42.83 1.98
4244 12522 2.107366 GAGTTGGAGGAGGAGAAGGAG 58.893 57.143 0.00 0.00 0.00 3.69
4249 12536 0.336737 GGAGGAGTTGGAGGAGGAGA 59.663 60.000 0.00 0.00 0.00 3.71
4277 12579 1.414158 GGCTACCTCCTGATGCAGTA 58.586 55.000 0.00 0.00 0.00 2.74
4405 12708 1.955080 CTCCACCCGTCCATCTAGTAC 59.045 57.143 0.00 0.00 0.00 2.73
4454 12757 4.656100 TCATCCATCCACTTTTTCCTCA 57.344 40.909 0.00 0.00 0.00 3.86
4463 12766 3.071602 CGAAACCCTATCATCCATCCACT 59.928 47.826 0.00 0.00 0.00 4.00
4719 13052 0.468214 TGACCCAGATAGGCCTCTCG 60.468 60.000 9.68 5.76 35.39 4.04
4757 13090 0.250124 TCTCAAACGCCGGACATTGT 60.250 50.000 5.05 0.00 0.00 2.71
4759 13092 1.289109 CGTCTCAAACGCCGGACATT 61.289 55.000 5.05 0.00 45.76 2.71
4761 13094 2.355363 CGTCTCAAACGCCGGACA 60.355 61.111 5.05 0.00 45.76 4.02
4804 13148 8.845227 ACATGTTGATTGTTGACTGTATTACAA 58.155 29.630 0.00 0.00 35.25 2.41
4806 13150 8.503196 TGACATGTTGATTGTTGACTGTATTAC 58.497 33.333 0.00 0.00 0.00 1.89
4810 13154 6.936335 AGATGACATGTTGATTGTTGACTGTA 59.064 34.615 0.00 0.00 0.00 2.74
4811 13155 5.766670 AGATGACATGTTGATTGTTGACTGT 59.233 36.000 0.00 0.00 0.00 3.55
4812 13156 6.250344 AGATGACATGTTGATTGTTGACTG 57.750 37.500 0.00 0.00 0.00 3.51
4813 13157 7.389232 TCTAGATGACATGTTGATTGTTGACT 58.611 34.615 0.00 0.00 0.00 3.41
4814 13158 7.332926 ACTCTAGATGACATGTTGATTGTTGAC 59.667 37.037 0.00 0.00 0.00 3.18
4815 13159 7.389232 ACTCTAGATGACATGTTGATTGTTGA 58.611 34.615 0.00 0.00 0.00 3.18
4816 13160 7.332678 TGACTCTAGATGACATGTTGATTGTTG 59.667 37.037 0.00 0.00 0.00 3.33
4817 13161 7.389232 TGACTCTAGATGACATGTTGATTGTT 58.611 34.615 0.00 0.00 0.00 2.83
4818 13162 6.939622 TGACTCTAGATGACATGTTGATTGT 58.060 36.000 0.00 0.00 0.00 2.71
4819 13163 7.838771 TTGACTCTAGATGACATGTTGATTG 57.161 36.000 0.00 0.00 0.00 2.67


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

AutoCloner maintained by Alex Coulton.