Multiple sequence alignment - TraesCS2B01G168900

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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 TraesCS2B01G168900 chr2B 100.000 6728 0 0 1 6728 141842524 141835797 0.000000e+00 12425
1 TraesCS2B01G168900 chr2B 95.443 395 18 0 1 395 141868631 141868237 1.230000e-176 630
2 TraesCS2B01G168900 chr2B 95.190 395 19 0 1 395 141907193 141906799 5.730000e-175 625
3 TraesCS2B01G168900 chr2B 97.419 155 3 1 407 561 141860363 141860210 5.170000e-66 263
4 TraesCS2B01G168900 chr2B 96.774 62 2 0 3751 3812 721868940 721868879 3.320000e-18 104
5 TraesCS2B01G168900 chr2A 94.444 1890 85 10 1882 3758 88987058 88985176 0.000000e+00 2891
6 TraesCS2B01G168900 chr2A 93.253 1586 91 10 4405 5977 88985180 88983598 0.000000e+00 2322
7 TraesCS2B01G168900 chr2A 92.060 1335 63 27 492 1789 88988417 88987089 0.000000e+00 1838
8 TraesCS2B01G168900 chr2A 88.710 372 21 7 5998 6367 88983616 88983264 1.040000e-117 435
9 TraesCS2B01G168900 chr2A 85.401 137 19 1 4277 4412 579521123 579520987 2.530000e-29 141
10 TraesCS2B01G168900 chr2D 94.437 1582 47 17 4405 5977 89260885 89259336 0.000000e+00 2396
11 TraesCS2B01G168900 chr2D 90.240 1834 118 28 1 1789 89264570 89262753 0.000000e+00 2338
12 TraesCS2B01G168900 chr2D 94.859 1167 51 5 2592 3756 89262042 89260883 0.000000e+00 1814
13 TraesCS2B01G168900 chr2D 93.014 730 30 9 5998 6723 89259354 89258642 0.000000e+00 1046
14 TraesCS2B01G168900 chr2D 94.815 675 25 5 1895 2564 89262705 89262036 0.000000e+00 1044
15 TraesCS2B01G168900 chr2D 90.909 99 9 0 6625 6723 161896507 161896409 4.230000e-27 134
16 TraesCS2B01G168900 chr2D 95.714 70 3 0 1813 1882 89262753 89262684 5.510000e-21 113
17 TraesCS2B01G168900 chr3A 86.155 1264 129 19 1905 3160 154659683 154660908 0.000000e+00 1323
18 TraesCS2B01G168900 chr3A 88.329 694 67 10 4405 5088 154661882 154662571 0.000000e+00 821
19 TraesCS2B01G168900 chr3A 82.759 870 120 15 4933 5796 154662882 154663727 0.000000e+00 749
20 TraesCS2B01G168900 chr3A 88.514 592 58 6 3175 3756 154661293 154661884 0.000000e+00 708
21 TraesCS2B01G168900 chr3A 83.818 791 78 30 1076 1822 154658778 154659562 0.000000e+00 706
22 TraesCS2B01G168900 chr3A 84.192 291 29 10 2871 3160 154660933 154661207 4.000000e-67 267
23 TraesCS2B01G168900 chr3A 81.752 274 28 12 5998 6256 154663837 154664103 6.840000e-50 209
24 TraesCS2B01G168900 chr3B 85.485 999 105 23 646 1617 199526465 199527450 0.000000e+00 1005
25 TraesCS2B01G168900 chr3B 80.673 1366 159 46 4933 6256 199531078 199532380 0.000000e+00 963
26 TraesCS2B01G168900 chr3B 88.522 697 64 11 4406 5088 199529977 199530671 0.000000e+00 830
27 TraesCS2B01G168900 chr3B 88.115 589 60 6 3175 3753 199529387 199529975 0.000000e+00 691
28 TraesCS2B01G168900 chr3B 86.293 642 71 12 2525 3160 199527975 199528605 0.000000e+00 682
29 TraesCS2B01G168900 chr3B 83.959 293 29 13 2871 3160 199529015 199529292 1.440000e-66 265
30 TraesCS2B01G168900 chr3B 82.427 239 28 9 2871 3109 199528630 199528854 5.320000e-46 196
31 TraesCS2B01G168900 chr3B 87.755 147 16 2 1895 2039 199527815 199527961 3.230000e-38 171
32 TraesCS2B01G168900 chr3B 91.000 100 9 0 6624 6723 719424535 719424436 1.180000e-27 135
33 TraesCS2B01G168900 chr3D 83.567 1071 131 22 4933 5982 136726156 136727202 0.000000e+00 961
34 TraesCS2B01G168900 chr3D 86.659 847 90 17 2322 3160 136723122 136723953 0.000000e+00 917
35 TraesCS2B01G168900 chr3D 89.255 698 60 10 4405 5088 136724906 136725602 0.000000e+00 859
36 TraesCS2B01G168900 chr3D 81.974 932 94 32 952 1822 136721799 136722717 0.000000e+00 723
37 TraesCS2B01G168900 chr3D 88.345 592 59 6 3175 3756 136724317 136724908 0.000000e+00 702
38 TraesCS2B01G168900 chr3D 88.146 329 28 7 1882 2204 136722808 136723131 1.370000e-101 381
39 TraesCS2B01G168900 chr3D 87.225 227 20 8 2935 3160 136724004 136724222 4.030000e-62 250
40 TraesCS2B01G168900 chr6D 87.263 369 16 14 3929 4267 430885675 430886042 6.330000e-105 392
41 TraesCS2B01G168900 chr6D 97.887 142 3 0 3760 3901 430885536 430885677 5.210000e-61 246
42 TraesCS2B01G168900 chr6D 93.617 141 9 0 4265 4405 430886144 430886284 1.900000e-50 211
43 TraesCS2B01G168900 chr5D 91.608 143 6 2 4163 4299 544135526 544135384 6.890000e-45 193
44 TraesCS2B01G168900 chr5D 90.000 100 10 0 6624 6723 465705941 465705842 5.480000e-26 130
45 TraesCS2B01G168900 chr5D 92.771 83 4 2 4324 4406 544135314 544135234 1.190000e-22 119
46 TraesCS2B01G168900 chr1D 92.000 100 8 0 6624 6723 478926829 478926730 2.530000e-29 141
47 TraesCS2B01G168900 chr6A 92.157 102 2 1 4303 4404 577757851 577757946 9.100000e-29 139
48 TraesCS2B01G168900 chr6A 90.909 99 8 1 6625 6723 52149459 52149556 1.520000e-26 132
49 TraesCS2B01G168900 chr6A 90.000 100 10 0 6624 6723 12090422 12090521 5.480000e-26 130
50 TraesCS2B01G168900 chr4D 90.000 100 10 0 6624 6723 475197858 475197759 5.480000e-26 130
51 TraesCS2B01G168900 chr4D 90.000 100 10 0 6624 6723 503352545 503352446 5.480000e-26 130


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 TraesCS2B01G168900 chr2B 141835797 141842524 6727 True 12425.000000 12425 100.000000 1 6728 1 chr2B.!!$R1 6727
1 TraesCS2B01G168900 chr2A 88983264 88988417 5153 True 1871.500000 2891 92.116750 492 6367 4 chr2A.!!$R2 5875
2 TraesCS2B01G168900 chr2D 89258642 89264570 5928 True 1458.500000 2396 93.846500 1 6723 6 chr2D.!!$R2 6722
3 TraesCS2B01G168900 chr3A 154658778 154664103 5325 False 683.285714 1323 85.074143 1076 6256 7 chr3A.!!$F1 5180
4 TraesCS2B01G168900 chr3B 199526465 199532380 5915 False 600.375000 1005 85.403625 646 6256 8 chr3B.!!$F1 5610
5 TraesCS2B01G168900 chr3D 136721799 136727202 5403 False 684.714286 961 86.453000 952 5982 7 chr3D.!!$F1 5030
6 TraesCS2B01G168900 chr6D 430885536 430886284 748 False 283.000000 392 92.922333 3760 4405 3 chr6D.!!$F1 645

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
524 538 0.040958 GTTCGTGTACGTCGTGACCT 60.041 55.0 8.47 0.0 40.80 3.85 F
1276 1341 0.320374 AATCTTTCGACCGTCCAGCA 59.680 50.0 0.00 0.0 0.00 4.41 F
1598 1670 0.606401 CTCGGATTGTTGGCCACTGT 60.606 55.0 3.88 0.0 0.00 3.55 F
3539 4858 1.923356 ATGAACAACATGTGGACCCC 58.077 50.0 7.39 0.0 37.87 4.95 F
4211 5559 0.625849 AGGATTTGGCTCCCGTGATT 59.374 50.0 0.00 0.0 35.79 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1364 1430 1.001641 AGCCGCCAAAAGCAGAGAT 60.002 52.632 0.00 0.0 44.04 2.75 R
2780 3016 0.460109 TCACCATCGGCACAAGATCG 60.460 55.000 0.00 0.0 0.00 3.69 R
3558 4877 3.146066 TGTTTAGCAAGCATTTCGTCCT 58.854 40.909 0.00 0.0 0.00 3.85 R
5115 7709 0.957395 CACTGGCTGGGTTACTGCTG 60.957 60.000 0.00 0.0 42.95 4.41 R
5855 8451 0.109735 GAAACTAAACGCTGCTGCCC 60.110 55.000 10.24 0.0 35.36 5.36 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
32 33 2.029970 GCGGTGGTGTGTATTTGTATCG 59.970 50.000 0.00 0.00 0.00 2.92
64 65 7.801716 TGTTGGTCATTGCCTTATCTATAAC 57.198 36.000 0.00 0.00 0.00 1.89
66 67 6.169557 TGGTCATTGCCTTATCTATAACGT 57.830 37.500 0.00 0.00 0.00 3.99
67 68 7.292713 TGGTCATTGCCTTATCTATAACGTA 57.707 36.000 0.00 0.00 0.00 3.57
69 70 6.812160 GGTCATTGCCTTATCTATAACGTAGG 59.188 42.308 0.00 0.00 0.00 3.18
70 71 6.812160 GTCATTGCCTTATCTATAACGTAGGG 59.188 42.308 0.00 0.00 0.00 3.53
76 77 6.091437 CCTTATCTATAACGTAGGGCGAAAG 58.909 44.000 0.00 0.00 44.77 2.62
111 112 0.933097 CAAATCCATCGACCTCGCTG 59.067 55.000 0.00 0.00 39.60 5.18
122 123 0.176680 ACCTCGCTGCATTGGACTAG 59.823 55.000 0.00 0.00 0.00 2.57
170 171 4.129380 CGATGATTGCCCATTAGTTCTCA 58.871 43.478 0.00 0.00 0.00 3.27
173 174 3.523157 TGATTGCCCATTAGTTCTCAGGA 59.477 43.478 0.00 0.00 0.00 3.86
180 181 4.503991 CCCATTAGTTCTCAGGATAGGTGC 60.504 50.000 0.00 0.00 0.00 5.01
184 185 2.166664 AGTTCTCAGGATAGGTGCGTTC 59.833 50.000 0.00 0.00 0.00 3.95
188 189 1.480954 TCAGGATAGGTGCGTTCCTTC 59.519 52.381 5.91 4.54 37.80 3.46
190 191 2.093447 CAGGATAGGTGCGTTCCTTCTT 60.093 50.000 5.91 0.00 37.80 2.52
191 192 2.572104 AGGATAGGTGCGTTCCTTCTTT 59.428 45.455 5.91 0.00 36.46 2.52
194 195 0.765510 AGGTGCGTTCCTTCTTTCCT 59.234 50.000 0.00 0.00 33.52 3.36
195 196 1.157585 GGTGCGTTCCTTCTTTCCTC 58.842 55.000 0.00 0.00 0.00 3.71
196 197 0.790814 GTGCGTTCCTTCTTTCCTCG 59.209 55.000 0.00 0.00 0.00 4.63
197 198 0.320421 TGCGTTCCTTCTTTCCTCGG 60.320 55.000 0.00 0.00 0.00 4.63
208 209 0.327924 TTTCCTCGGGTGCATCACAT 59.672 50.000 0.00 0.00 35.86 3.21
213 214 2.300152 CCTCGGGTGCATCACATATAGT 59.700 50.000 0.00 0.00 35.86 2.12
214 215 3.579709 CTCGGGTGCATCACATATAGTC 58.420 50.000 0.00 0.00 35.86 2.59
216 217 2.688507 GGGTGCATCACATATAGTCCG 58.311 52.381 0.00 0.00 35.86 4.79
225 226 6.571344 GCATCACATATAGTCCGAAGACATCT 60.571 42.308 0.00 0.00 46.15 2.90
233 234 2.930682 GTCCGAAGACATCTTACAAGGC 59.069 50.000 0.00 0.00 42.99 4.35
270 272 4.638865 ACCGATTTATCCTTGTGTAAAGGC 59.361 41.667 0.00 0.00 37.34 4.35
293 295 1.154150 GCGAATCTGCCAGCACAAC 60.154 57.895 0.00 0.00 0.00 3.32
336 338 3.416156 AGTAGAAAGGCAAAAGGCTCAG 58.584 45.455 0.00 0.00 44.01 3.35
350 352 1.200020 GGCTCAGGGACAAAAATGACG 59.800 52.381 0.00 0.00 0.00 4.35
352 354 2.749621 GCTCAGGGACAAAAATGACGAT 59.250 45.455 0.00 0.00 0.00 3.73
353 355 3.426695 GCTCAGGGACAAAAATGACGATG 60.427 47.826 0.00 0.00 0.00 3.84
354 356 3.081061 TCAGGGACAAAAATGACGATGG 58.919 45.455 0.00 0.00 0.00 3.51
357 359 1.543802 GGACAAAAATGACGATGGCCA 59.456 47.619 8.56 8.56 40.86 5.36
358 360 2.166254 GGACAAAAATGACGATGGCCAT 59.834 45.455 20.96 20.96 40.86 4.40
359 361 3.181397 GACAAAAATGACGATGGCCATG 58.819 45.455 26.56 17.71 0.00 3.66
371 373 6.824196 TGACGATGGCCATGTATTACTAAAAA 59.176 34.615 26.56 0.00 0.00 1.94
372 374 7.011950 TGACGATGGCCATGTATTACTAAAAAG 59.988 37.037 26.56 0.00 0.00 2.27
434 436 8.646356 ACAAACATCAAATAAATGTTGCATACG 58.354 29.630 2.53 0.00 44.44 3.06
441 443 2.256445 AATGTTGCATACGAAACGGC 57.744 45.000 0.00 0.00 0.00 5.68
451 453 2.010817 CGAAACGGCACAGCAAAGC 61.011 57.895 0.00 0.00 0.00 3.51
452 454 1.360192 GAAACGGCACAGCAAAGCT 59.640 52.632 0.00 0.00 40.77 3.74
473 475 4.446051 GCTGACGGCTGATTCTAGTAAATC 59.554 45.833 0.00 0.00 38.06 2.17
474 476 5.737635 GCTGACGGCTGATTCTAGTAAATCT 60.738 44.000 0.00 0.00 36.73 2.40
524 538 0.040958 GTTCGTGTACGTCGTGACCT 60.041 55.000 8.47 0.00 40.80 3.85
625 640 0.881118 TTGCATTCCGTTGGAGAAGC 59.119 50.000 0.00 0.00 31.21 3.86
678 694 4.406456 AGTTGAGTGGAATGGTAAATGCA 58.594 39.130 0.00 0.00 0.00 3.96
679 695 4.832266 AGTTGAGTGGAATGGTAAATGCAA 59.168 37.500 0.00 0.00 0.00 4.08
680 696 5.304101 AGTTGAGTGGAATGGTAAATGCAAA 59.696 36.000 0.00 0.00 0.00 3.68
718 736 4.625311 GGAAAATGGTAAATGCAGTTTCCG 59.375 41.667 16.25 0.00 41.18 4.30
820 838 2.413837 CCGAACGGTCATCTGTTTCTT 58.586 47.619 0.00 0.00 42.44 2.52
926 959 1.005630 GTGCAGCTCGTCAGTCCTT 60.006 57.895 0.00 0.00 0.00 3.36
972 1005 2.046892 CCCAAGCACCAGGACTCG 60.047 66.667 0.00 0.00 0.00 4.18
1048 1081 0.840722 TTCACCCCCTCCACTTCCTC 60.841 60.000 0.00 0.00 0.00 3.71
1058 1091 2.493675 CTCCACTTCCTCTGATTCGTGA 59.506 50.000 0.00 0.00 0.00 4.35
1205 1259 3.717400 TTCGTCATCCTGTGATAGCTC 57.283 47.619 0.00 0.00 39.48 4.09
1244 1308 8.925161 TCTTGGAACATAAAAAGAAAGTGTTG 57.075 30.769 0.00 0.00 39.30 3.33
1276 1341 0.320374 AATCTTTCGACCGTCCAGCA 59.680 50.000 0.00 0.00 0.00 4.41
1315 1380 2.158652 TCTACGGCCTACTGCTAGATGT 60.159 50.000 0.00 0.00 40.92 3.06
1316 1381 0.747255 ACGGCCTACTGCTAGATGTG 59.253 55.000 0.00 0.00 40.92 3.21
1496 1568 0.963962 CACTGGTGCATCAAAGGCTT 59.036 50.000 0.00 0.00 0.00 4.35
1576 1648 2.235650 TGAGGTCCTTCAGCTTGAGATG 59.764 50.000 0.00 0.00 30.88 2.90
1598 1670 0.606401 CTCGGATTGTTGGCCACTGT 60.606 55.000 3.88 0.00 0.00 3.55
1725 1843 5.694910 TGGAGTCTGAAATCGTCTGTTTAAC 59.305 40.000 0.00 0.00 0.00 2.01
1726 1844 5.927115 GGAGTCTGAAATCGTCTGTTTAACT 59.073 40.000 0.00 0.00 0.00 2.24
1789 1937 7.665559 AGCAACTAATACTTCCAACATTCTGAA 59.334 33.333 0.00 0.00 0.00 3.02
1807 1955 9.270640 CATTCTGAACTTATCCATTCTCTTAGG 57.729 37.037 0.00 0.00 0.00 2.69
1886 2108 9.975218 AAGTATGGAGTAATTTGTTTATCTGGT 57.025 29.630 0.00 0.00 0.00 4.00
1891 2113 9.802039 TGGAGTAATTTGTTTATCTGGTAAAGT 57.198 29.630 0.00 0.00 33.11 2.66
2285 2518 4.017808 TCCTCGTTTGTTTTCCCTTTCAA 58.982 39.130 0.00 0.00 0.00 2.69
2298 2531 6.729690 TTCCCTTTCAACTCACAATTTCAT 57.270 33.333 0.00 0.00 0.00 2.57
2360 2593 6.530019 AAGAGTTGGTTTCTTTGTCATGTT 57.470 33.333 0.00 0.00 30.98 2.71
2520 2753 6.411630 TTGGTCGTTATCGTGGAAAATTAG 57.588 37.500 0.00 0.00 38.33 1.73
2586 2822 5.358922 TGCTTCAAAGATTTTGAAACCCAG 58.641 37.500 15.38 6.99 37.89 4.45
2631 2867 9.941325 ATCTTCAACAATTGCATAAAATGGTTA 57.059 25.926 5.05 0.00 32.92 2.85
2910 3148 8.028938 ACCTTCTTTTTGTGAACATACATATGC 58.971 33.333 1.58 0.00 37.19 3.14
2911 3149 8.028354 CCTTCTTTTTGTGAACATACATATGCA 58.972 33.333 1.58 0.00 37.19 3.96
2912 3150 9.577110 CTTCTTTTTGTGAACATACATATGCAT 57.423 29.630 3.79 3.79 37.19 3.96
2913 3151 9.926158 TTCTTTTTGTGAACATACATATGCATT 57.074 25.926 3.54 0.00 37.19 3.56
2914 3152 9.926158 TCTTTTTGTGAACATACATATGCATTT 57.074 25.926 3.54 0.00 37.19 2.32
3080 3622 8.718102 TTCTAAACATTTATGGACTCTGCTAC 57.282 34.615 0.00 0.00 0.00 3.58
3225 4537 4.622740 GGTAGCTGCTGTTAATTGCAAAAG 59.377 41.667 13.43 0.00 38.81 2.27
3231 4543 5.609423 TGCTGTTAATTGCAAAAGGACATT 58.391 33.333 1.71 0.00 36.15 2.71
3514 4833 8.268850 TCAAAGCTTAAGAATTAGGTGATCAC 57.731 34.615 17.91 17.91 29.27 3.06
3539 4858 1.923356 ATGAACAACATGTGGACCCC 58.077 50.000 7.39 0.00 37.87 4.95
3558 4877 4.169856 ACCCCAGAGGCCAAATATTGAATA 59.830 41.667 5.01 0.00 40.58 1.75
3562 4881 5.474876 CCAGAGGCCAAATATTGAATAGGAC 59.525 44.000 5.01 0.00 0.00 3.85
3570 4889 7.651808 CCAAATATTGAATAGGACGAAATGCT 58.348 34.615 0.00 0.00 0.00 3.79
3583 4902 5.107875 GGACGAAATGCTTGCTAAACAAAAG 60.108 40.000 0.00 0.00 37.96 2.27
3606 4926 9.914131 AAAGACAGATTGCCTTTTCTTTTATAC 57.086 29.630 0.00 0.00 33.77 1.47
3757 5078 2.029828 ACGCTTCCTGAGTGTCACTTAG 60.030 50.000 16.06 16.06 45.79 2.18
3833 5154 4.359971 AACGTTACAAGTGTTTGGTTCC 57.640 40.909 0.00 0.00 38.66 3.62
3841 5162 2.203437 GTTTGGTTCCCGTGGGCT 60.203 61.111 0.00 0.00 34.68 5.19
3868 5189 3.875134 ACCGTTTCCATGTAATCCGATTC 59.125 43.478 0.00 0.00 0.00 2.52
3915 5236 2.115266 CCCCCTGCGGAAACAGTT 59.885 61.111 0.00 0.00 35.83 3.16
3916 5237 2.268076 CCCCCTGCGGAAACAGTTG 61.268 63.158 0.00 0.00 35.83 3.16
3917 5238 2.644992 CCCTGCGGAAACAGTTGC 59.355 61.111 0.00 0.00 35.83 4.17
3918 5239 2.644992 CCTGCGGAAACAGTTGCC 59.355 61.111 0.00 0.00 35.83 4.52
3925 5246 1.816074 GGAAACAGTTGCCGATACCA 58.184 50.000 0.00 0.00 0.00 3.25
3926 5247 1.737793 GGAAACAGTTGCCGATACCAG 59.262 52.381 0.00 0.00 0.00 4.00
3927 5248 1.737793 GAAACAGTTGCCGATACCAGG 59.262 52.381 0.00 0.00 0.00 4.45
3947 5268 2.296190 GGCCCAAATCTCGTGTTTCTTT 59.704 45.455 0.00 0.00 0.00 2.52
4062 5401 1.444250 CCGGCCGGAAAGCTATACA 59.556 57.895 41.82 0.00 37.50 2.29
4065 5404 1.583054 GGCCGGAAAGCTATACACAG 58.417 55.000 5.05 0.00 0.00 3.66
4070 5409 2.223641 CGGAAAGCTATACACAGCGGTA 60.224 50.000 0.00 0.00 46.52 4.02
4119 5462 2.434884 CGTTCATGGCGGCAGTCT 60.435 61.111 19.29 0.00 0.00 3.24
4163 5506 1.661821 GCAGTAGTATGCGGCGGAG 60.662 63.158 9.78 0.00 36.28 4.63
4190 5538 4.830765 GCGCCGTCCATGGTAGCA 62.831 66.667 12.58 0.00 35.71 3.49
4211 5559 0.625849 AGGATTTGGCTCCCGTGATT 59.374 50.000 0.00 0.00 35.79 2.57
4248 5599 1.610038 TGCAAGGCTGTTCTTGTGATG 59.390 47.619 12.07 0.00 44.26 3.07
4302 5757 7.709269 ATACTGTTTATGCATACCGTTACAG 57.291 36.000 19.80 19.80 38.12 2.74
4317 5772 5.154932 CCGTTACAGTCACAAAACAAACAA 58.845 37.500 0.00 0.00 0.00 2.83
4356 5811 2.027837 ACCGTTTCCTTTACAGGCGTAT 60.028 45.455 0.00 0.00 40.58 3.06
4366 5821 4.746535 TTACAGGCGTATTCTGATTCCA 57.253 40.909 0.00 0.00 36.22 3.53
4405 5860 3.053619 AGTTTCTGAACCAAACACCTCCT 60.054 43.478 0.00 0.00 36.38 3.69
4406 5861 3.662759 TTCTGAACCAAACACCTCCTT 57.337 42.857 0.00 0.00 0.00 3.36
4407 5862 4.781775 TTCTGAACCAAACACCTCCTTA 57.218 40.909 0.00 0.00 0.00 2.69
4419 5874 3.104512 CACCTCCTTAGTGTACATGGGA 58.895 50.000 0.00 4.06 0.00 4.37
4420 5875 3.711704 CACCTCCTTAGTGTACATGGGAT 59.288 47.826 0.00 0.00 0.00 3.85
4421 5876 3.711704 ACCTCCTTAGTGTACATGGGATG 59.288 47.826 0.00 4.78 0.00 3.51
4424 5879 3.045634 CCTTAGTGTACATGGGATGGGA 58.954 50.000 0.00 0.00 33.60 4.37
4429 5884 5.930209 AGTGTACATGGGATGGGAATTAT 57.070 39.130 0.00 0.00 33.60 1.28
4507 5962 1.305046 CCCAGGGTCTACCGTCTGT 60.305 63.158 0.00 0.00 46.96 3.41
4533 5988 1.067354 GCAACAAGCATCTCCCAAAGG 60.067 52.381 0.00 0.00 44.79 3.11
4634 6089 1.398692 GTGGTTGGAGAGGTTTTGCA 58.601 50.000 0.00 0.00 0.00 4.08
4730 6185 6.176183 TGTTTCCCAACACATTTTCAATTGT 58.824 32.000 5.13 0.00 38.03 2.71
4739 6194 9.588774 CAACACATTTTCAATTGTTTGATCATC 57.411 29.630 5.13 0.00 41.38 2.92
4833 6298 3.580895 TCTGCCCGCACTTATCCAATATA 59.419 43.478 0.00 0.00 0.00 0.86
5181 7775 6.757897 TTTTCAGATACAGCCATCGATTTT 57.242 33.333 0.00 0.00 0.00 1.82
5672 8266 1.969923 GGAGATGGAGGAGATGGAGTG 59.030 57.143 0.00 0.00 0.00 3.51
5691 8285 3.816524 AGCGCGAAGAGGACGGAG 61.817 66.667 12.10 0.00 0.00 4.63
5799 8394 1.032014 ATGGCCATTTCGGTATGCAC 58.968 50.000 14.09 0.00 36.97 4.57
5801 8396 0.100503 GGCCATTTCGGTATGCACAC 59.899 55.000 0.00 0.00 36.97 3.82
5859 8455 2.025037 AGATTAGAACTGCATTGGGGCA 60.025 45.455 0.00 0.00 42.53 5.36
5963 8607 1.136141 CGCTTCTTGTGCAGCAACTAG 60.136 52.381 0.00 0.00 35.60 2.57
5964 8608 1.198637 GCTTCTTGTGCAGCAACTAGG 59.801 52.381 0.00 0.00 35.95 3.02
5965 8609 2.771089 CTTCTTGTGCAGCAACTAGGA 58.229 47.619 0.00 0.00 32.90 2.94
5966 8610 3.341823 CTTCTTGTGCAGCAACTAGGAT 58.658 45.455 0.00 0.00 32.90 3.24
5967 8611 2.703416 TCTTGTGCAGCAACTAGGATG 58.297 47.619 0.00 0.00 32.90 3.51
6054 8701 1.136828 TAACCTAGCCCCATCGCATT 58.863 50.000 0.00 0.00 0.00 3.56
6156 8809 5.207768 GTTTGAGTAGTTGTTGAGTGCATG 58.792 41.667 0.00 0.00 0.00 4.06
6184 8854 1.730612 GTTCCCTGCGTTTGCTAGTAC 59.269 52.381 0.00 0.00 43.34 2.73
6302 8972 1.668419 GGCGTTCCTATGCACTCAAT 58.332 50.000 0.00 0.00 38.06 2.57
6337 9007 0.247460 TGACTGACTGCATTCCTCCG 59.753 55.000 1.11 0.00 0.00 4.63
6340 9010 2.892425 GACTGCATTCCTCCGGCG 60.892 66.667 0.00 0.00 0.00 6.46
6548 9218 0.394192 CAGACACAAGCCCTCTGACA 59.606 55.000 0.00 0.00 34.46 3.58
6570 9240 2.103094 TGGAGACAGGCCTGATATTTCG 59.897 50.000 39.19 10.62 35.01 3.46
6575 9245 1.860950 CAGGCCTGATATTTCGTGTCG 59.139 52.381 29.88 0.00 0.00 4.35
6576 9246 1.202533 AGGCCTGATATTTCGTGTCGG 60.203 52.381 3.11 0.00 0.00 4.79
6614 9284 4.994282 TCTCTTTTCCTTTTAAGACCCCC 58.006 43.478 0.00 0.00 0.00 5.40
6646 9318 2.480419 AGCAACTAGTTAACAAGCGCTG 59.520 45.455 12.58 8.13 0.00 5.18
6647 9319 2.223377 GCAACTAGTTAACAAGCGCTGT 59.777 45.455 12.58 8.89 41.27 4.40
6650 9322 5.270853 CAACTAGTTAACAAGCGCTGTTTT 58.729 37.500 23.58 14.70 46.49 2.43
6651 9323 4.844267 ACTAGTTAACAAGCGCTGTTTTG 58.156 39.130 23.58 15.95 46.49 2.44
6653 9325 2.685897 AGTTAACAAGCGCTGTTTTGGA 59.314 40.909 23.58 8.87 46.49 3.53
6661 9333 0.883833 CGCTGTTTTGGAAGCCTCAT 59.116 50.000 0.00 0.00 35.98 2.90
6670 9342 6.095860 TGTTTTGGAAGCCTCATAATGATCAG 59.904 38.462 0.09 0.00 0.00 2.90
6672 9344 2.740981 GGAAGCCTCATAATGATCAGCG 59.259 50.000 0.09 0.00 0.00 5.18
6673 9345 3.397482 GAAGCCTCATAATGATCAGCGT 58.603 45.455 0.09 0.00 0.00 5.07
6726 9398 2.956964 CGCTCCGGACGCTCATTC 60.957 66.667 19.30 0.00 0.00 2.67
6727 9399 2.586357 GCTCCGGACGCTCATTCC 60.586 66.667 15.90 0.00 0.00 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 3.952675 CACACCACCGCAGCACAC 61.953 66.667 0.00 0.00 0.00 3.82
9 10 1.234821 ACAAATACACACCACCGCAG 58.765 50.000 0.00 0.00 0.00 5.18
12 13 2.605818 CCGATACAAATACACACCACCG 59.394 50.000 0.00 0.00 0.00 4.94
18 19 8.608317 CAACATACAATCCGATACAAATACACA 58.392 33.333 0.00 0.00 0.00 3.72
32 33 3.701040 AGGCAATGACCAACATACAATCC 59.299 43.478 0.00 0.00 38.38 3.01
76 77 7.096477 CGATGGATTTGAATTATCGAAAAAGGC 60.096 37.037 14.02 0.00 42.16 4.35
86 87 4.452455 GCGAGGTCGATGGATTTGAATTAT 59.548 41.667 2.94 0.00 43.02 1.28
111 112 3.886123 ACCATTACCACTAGTCCAATGC 58.114 45.455 12.22 0.00 0.00 3.56
122 123 7.675962 TGTGTATTCTTTGTACCATTACCAC 57.324 36.000 0.00 0.00 0.00 4.16
147 148 4.141733 TGAGAACTAATGGGCAATCATCGA 60.142 41.667 0.00 0.00 0.00 3.59
148 149 4.129380 TGAGAACTAATGGGCAATCATCG 58.871 43.478 0.00 0.00 0.00 3.84
170 171 1.867363 AGAAGGAACGCACCTATCCT 58.133 50.000 1.43 0.00 45.43 3.24
173 174 2.572104 AGGAAAGAAGGAACGCACCTAT 59.428 45.455 1.43 0.00 39.62 2.57
180 181 0.320697 ACCCGAGGAAAGAAGGAACG 59.679 55.000 0.00 0.00 0.00 3.95
184 185 0.035056 ATGCACCCGAGGAAAGAAGG 60.035 55.000 0.00 0.00 0.00 3.46
188 189 0.321564 TGTGATGCACCCGAGGAAAG 60.322 55.000 0.00 0.00 32.73 2.62
190 191 1.199615 TATGTGATGCACCCGAGGAA 58.800 50.000 0.00 0.00 32.73 3.36
191 192 1.423584 ATATGTGATGCACCCGAGGA 58.576 50.000 0.00 0.00 32.73 3.71
194 195 2.299013 GGACTATATGTGATGCACCCGA 59.701 50.000 0.00 0.00 32.73 5.14
195 196 2.688507 GGACTATATGTGATGCACCCG 58.311 52.381 0.00 0.00 32.73 5.28
196 197 2.299013 TCGGACTATATGTGATGCACCC 59.701 50.000 0.00 0.00 32.73 4.61
197 198 3.660501 TCGGACTATATGTGATGCACC 57.339 47.619 0.00 0.00 32.73 5.01
208 209 6.238953 GCCTTGTAAGATGTCTTCGGACTATA 60.239 42.308 0.00 0.00 44.70 1.31
213 214 2.093658 GGCCTTGTAAGATGTCTTCGGA 60.094 50.000 0.00 0.00 37.40 4.55
214 215 2.280628 GGCCTTGTAAGATGTCTTCGG 58.719 52.381 0.00 0.00 37.40 4.30
216 217 1.666189 GCGGCCTTGTAAGATGTCTTC 59.334 52.381 0.00 0.00 37.40 2.87
225 226 1.302192 GACACCTGCGGCCTTGTAA 60.302 57.895 0.00 0.00 0.00 2.41
250 252 7.041712 GCTAGAGCCTTTACACAAGGATAAATC 60.042 40.741 4.74 0.00 39.81 2.17
254 256 4.202121 CGCTAGAGCCTTTACACAAGGATA 60.202 45.833 4.74 0.00 39.81 2.59
270 272 0.103755 TGCTGGCAGATTCGCTAGAG 59.896 55.000 20.86 0.00 42.69 2.43
317 319 2.555227 CCCTGAGCCTTTTGCCTTTCTA 60.555 50.000 0.00 0.00 42.71 2.10
325 327 3.817709 TTTTTGTCCCTGAGCCTTTTG 57.182 42.857 0.00 0.00 0.00 2.44
336 338 1.135112 GGCCATCGTCATTTTTGTCCC 60.135 52.381 0.00 0.00 0.00 4.46
412 414 8.859156 GTTTCGTATGCAACATTTATTTGATGT 58.141 29.630 0.00 0.00 39.31 3.06
419 421 4.142578 TGCCGTTTCGTATGCAACATTTAT 60.143 37.500 0.00 0.00 0.00 1.40
434 436 1.360192 AGCTTTGCTGTGCCGTTTC 59.640 52.632 0.00 0.00 37.57 2.78
451 453 5.837437 AGATTTACTAGAATCAGCCGTCAG 58.163 41.667 0.00 0.00 38.27 3.51
452 454 5.854010 AGATTTACTAGAATCAGCCGTCA 57.146 39.130 0.00 0.00 38.27 4.35
454 456 7.952671 TCATAAGATTTACTAGAATCAGCCGT 58.047 34.615 0.00 0.00 38.27 5.68
473 475 6.780457 ATTGGGTTTCACCTCAATCATAAG 57.220 37.500 4.63 0.00 35.60 1.73
474 476 6.773976 GATTGGGTTTCACCTCAATCATAA 57.226 37.500 20.80 0.00 45.25 1.90
625 640 3.802685 GGATTAACGGAATGACCTCGAAG 59.197 47.826 0.00 0.00 36.31 3.79
926 959 0.887933 GCAAAAATGGCGGAGAGGAA 59.112 50.000 0.00 0.00 0.00 3.36
958 991 1.867919 CTCGTCGAGTCCTGGTGCTT 61.868 60.000 14.27 0.00 0.00 3.91
1048 1081 0.529337 ATCGCAGCCTCACGAATCAG 60.529 55.000 0.00 0.00 42.31 2.90
1058 1091 4.982916 CGAACTAAGTATAAATCGCAGCCT 59.017 41.667 0.00 0.00 0.00 4.58
1205 1259 5.065914 TGTTCCAAGAATCACTTTCTCCAG 58.934 41.667 0.00 0.00 44.09 3.86
1244 1308 6.466097 CGGTCGAAAGATTTATTTTCTCAAGC 59.534 38.462 0.00 0.00 45.19 4.01
1364 1430 1.001641 AGCCGCCAAAAGCAGAGAT 60.002 52.632 0.00 0.00 44.04 2.75
1576 1648 1.002624 TGGCCAACAATCCGAGTCC 60.003 57.895 0.61 0.00 0.00 3.85
1598 1670 8.035394 CAGAAAATAAAGACTACTGCAGACCTA 58.965 37.037 23.35 0.91 0.00 3.08
1725 1843 6.809869 ACAGTGAAGATTTGAAGGGAAAAAG 58.190 36.000 0.00 0.00 0.00 2.27
1726 1844 6.607198 AGACAGTGAAGATTTGAAGGGAAAAA 59.393 34.615 0.00 0.00 0.00 1.94
1789 1937 9.900112 ACCTATAACCTAAGAGAATGGATAAGT 57.100 33.333 0.00 0.00 0.00 2.24
1795 1943 8.035448 AGGAAACCTATAACCTAAGAGAATGG 57.965 38.462 0.00 0.00 28.47 3.16
1807 1955 6.706716 GGCAGTCATCTAAGGAAACCTATAAC 59.293 42.308 0.00 0.00 31.13 1.89
2248 2478 1.737363 CGAGGAGCTAGAGCCACAAAC 60.737 57.143 0.00 0.00 43.38 2.93
2285 2518 8.084073 CACTTGTAATTCCATGAAATTGTGAGT 58.916 33.333 0.00 0.00 31.50 3.41
2298 2531 6.204688 CAGTAAGCTGAACACTTGTAATTCCA 59.795 38.462 0.00 0.00 45.28 3.53
2352 2585 1.737236 GCCGCACAATCTAACATGACA 59.263 47.619 0.00 0.00 0.00 3.58
2360 2593 2.125310 CCGTGGCCGCACAATCTA 60.125 61.111 18.18 0.00 0.00 1.98
2429 2662 8.017061 TACTTTAGCAGTGTCAGTATCCTGAGA 61.017 40.741 0.00 0.00 41.58 3.27
2531 2764 9.466497 AGCTCATAAATGAAATTGGAAGAACTA 57.534 29.630 0.00 0.00 36.10 2.24
2631 2867 4.853468 ACCCAACCAACCAAAATCTTTT 57.147 36.364 0.00 0.00 0.00 2.27
2780 3016 0.460109 TCACCATCGGCACAAGATCG 60.460 55.000 0.00 0.00 0.00 3.69
2823 3060 3.813529 ACAAGAGTGTCTTAAATGCGC 57.186 42.857 0.00 0.00 33.78 6.09
3080 3622 3.909776 ATGGAGCAATGCATATGAACG 57.090 42.857 8.35 0.00 0.00 3.95
3160 4391 8.771920 TTCATAGTTAGTACATGGTTTCAGTG 57.228 34.615 0.00 0.00 0.00 3.66
3225 4537 4.846779 TTGAAGTACCTTGCAAATGTCC 57.153 40.909 0.00 0.00 0.00 4.02
3231 4543 6.524101 AGAAAAGTTTGAAGTACCTTGCAA 57.476 33.333 0.00 0.00 0.00 4.08
3514 4833 5.106157 GGGTCCACATGTTGTTCATAAGAAG 60.106 44.000 0.00 0.00 34.67 2.85
3539 4858 5.180117 CGTCCTATTCAATATTTGGCCTCTG 59.820 44.000 3.32 0.00 0.00 3.35
3558 4877 3.146066 TGTTTAGCAAGCATTTCGTCCT 58.854 40.909 0.00 0.00 0.00 3.85
3562 4881 5.458452 TGTCTTTTGTTTAGCAAGCATTTCG 59.542 36.000 0.00 0.00 38.47 3.46
3570 4889 5.068987 AGGCAATCTGTCTTTTGTTTAGCAA 59.931 36.000 0.00 0.00 34.87 3.91
3583 4902 7.826690 TGGTATAAAAGAAAAGGCAATCTGTC 58.173 34.615 0.00 0.00 0.00 3.51
3707 5028 9.137459 ACACATATACTAAGCTTATGAGACTGT 57.863 33.333 6.64 2.17 0.00 3.55
3757 5078 4.871933 AATTGATGAACCAAACACCTCC 57.128 40.909 0.00 0.00 0.00 4.30
3833 5154 1.167781 AAACGGTTTACAGCCCACGG 61.168 55.000 3.90 0.00 0.00 4.94
3841 5162 4.392445 CGGATTACATGGAAACGGTTTACA 59.608 41.667 20.05 20.05 37.99 2.41
3868 5189 2.279517 GGCCGTGACTAGCGATGG 60.280 66.667 0.00 0.00 0.00 3.51
3902 5223 1.577328 ATCGGCAACTGTTTCCGCAG 61.577 55.000 23.64 10.28 42.65 5.18
3903 5224 0.320858 TATCGGCAACTGTTTCCGCA 60.321 50.000 23.64 14.32 42.65 5.69
3904 5225 0.096454 GTATCGGCAACTGTTTCCGC 59.904 55.000 23.64 9.45 42.65 5.54
3905 5226 0.725117 GGTATCGGCAACTGTTTCCG 59.275 55.000 22.70 22.70 44.16 4.30
3906 5227 1.737793 CTGGTATCGGCAACTGTTTCC 59.262 52.381 0.00 0.00 0.00 3.13
3907 5228 1.737793 CCTGGTATCGGCAACTGTTTC 59.262 52.381 0.00 0.00 0.00 2.78
3908 5229 1.821216 CCTGGTATCGGCAACTGTTT 58.179 50.000 0.00 0.00 0.00 2.83
3909 5230 0.676782 GCCTGGTATCGGCAACTGTT 60.677 55.000 4.28 0.00 46.77 3.16
3910 5231 1.078426 GCCTGGTATCGGCAACTGT 60.078 57.895 4.28 0.00 46.77 3.55
3911 5232 3.813596 GCCTGGTATCGGCAACTG 58.186 61.111 4.28 0.00 46.77 3.16
3916 5237 1.152756 ATTTGGGCCTGGTATCGGC 60.153 57.895 4.53 0.79 46.83 5.54
3917 5238 0.474184 AGATTTGGGCCTGGTATCGG 59.526 55.000 4.53 0.00 0.00 4.18
3918 5239 1.873903 CGAGATTTGGGCCTGGTATCG 60.874 57.143 4.53 5.85 0.00 2.92
3919 5240 1.141053 ACGAGATTTGGGCCTGGTATC 59.859 52.381 4.53 2.44 0.00 2.24
3920 5241 1.134098 CACGAGATTTGGGCCTGGTAT 60.134 52.381 4.53 0.00 0.00 2.73
3921 5242 0.251916 CACGAGATTTGGGCCTGGTA 59.748 55.000 4.53 0.00 0.00 3.25
3922 5243 1.002134 CACGAGATTTGGGCCTGGT 60.002 57.895 4.53 0.00 0.00 4.00
3923 5244 0.609131 AACACGAGATTTGGGCCTGG 60.609 55.000 4.53 0.00 0.00 4.45
3924 5245 1.200020 GAAACACGAGATTTGGGCCTG 59.800 52.381 4.53 0.00 0.00 4.85
3925 5246 1.073923 AGAAACACGAGATTTGGGCCT 59.926 47.619 4.53 0.00 0.00 5.19
3926 5247 1.534729 AGAAACACGAGATTTGGGCC 58.465 50.000 0.00 0.00 0.00 5.80
3927 5248 3.253432 AGAAAGAAACACGAGATTTGGGC 59.747 43.478 0.00 0.00 0.00 5.36
3928 5249 4.377431 CGAGAAAGAAACACGAGATTTGGG 60.377 45.833 0.00 0.00 0.00 4.12
3929 5250 4.702392 CGAGAAAGAAACACGAGATTTGG 58.298 43.478 0.00 0.00 0.00 3.28
3930 5251 4.144555 GCGAGAAAGAAACACGAGATTTG 58.855 43.478 0.00 0.00 0.00 2.32
3931 5252 3.186613 GGCGAGAAAGAAACACGAGATTT 59.813 43.478 0.00 0.00 0.00 2.17
3947 5268 3.706373 GTGGGGCAGAAGGCGAGA 61.706 66.667 0.00 0.00 46.16 4.04
4027 5366 4.792648 GCTCAGCTGCTCTCGCGT 62.793 66.667 9.47 0.00 39.65 6.01
4058 5397 2.936498 GTTGAGCAATACCGCTGTGTAT 59.064 45.455 0.00 0.00 44.01 2.29
4062 5401 0.324943 AGGTTGAGCAATACCGCTGT 59.675 50.000 0.00 0.00 44.01 4.40
4065 5404 0.727398 GACAGGTTGAGCAATACCGC 59.273 55.000 0.00 0.00 39.46 5.68
4070 5409 1.675641 GCCGGACAGGTTGAGCAAT 60.676 57.895 5.05 0.00 43.70 3.56
4115 5458 1.751924 GCCACGTCATCCTTCTAGACT 59.248 52.381 0.00 0.00 0.00 3.24
4119 5462 1.813859 CCGCCACGTCATCCTTCTA 59.186 57.895 0.00 0.00 0.00 2.10
4149 5492 1.796190 CTGCTCTCCGCCGCATACTA 61.796 60.000 0.00 0.00 38.05 1.82
4150 5493 3.144120 CTGCTCTCCGCCGCATACT 62.144 63.158 0.00 0.00 38.05 2.12
4211 5559 1.135108 CATCAGCGCGAACATTGCA 59.865 52.632 12.10 0.00 0.00 4.08
4278 5733 7.270047 ACTGTAACGGTATGCATAAACAGTAT 58.730 34.615 24.04 11.88 43.17 2.12
4281 5736 5.579119 TGACTGTAACGGTATGCATAAACAG 59.421 40.000 21.06 21.06 39.14 3.16
4285 5740 5.074584 TGTGACTGTAACGGTATGCATAA 57.925 39.130 8.28 0.00 0.00 1.90
4302 5757 6.763303 ACTCAACTTTGTTTGTTTTGTGAC 57.237 33.333 0.00 0.00 0.00 3.67
4335 5790 0.107268 ACGCCTGTAAAGGAAACGGT 59.893 50.000 1.93 0.00 0.00 4.83
4356 5811 4.704540 ACGCAAATGGTAATGGAATCAGAA 59.295 37.500 0.00 0.00 0.00 3.02
4366 5821 6.205853 TCAGAAACTGTAACGCAAATGGTAAT 59.794 34.615 0.00 0.00 32.61 1.89
4405 5860 5.725551 AATTCCCATCCCATGTACACTAA 57.274 39.130 0.00 0.00 0.00 2.24
4406 5861 7.073088 TCAATAATTCCCATCCCATGTACACTA 59.927 37.037 0.00 0.00 0.00 2.74
4407 5862 5.930209 ATAATTCCCATCCCATGTACACT 57.070 39.130 0.00 0.00 0.00 3.55
4420 5875 9.859152 AAAAGGAAATGTTTTCAATAATTCCCA 57.141 25.926 0.00 0.00 35.21 4.37
4533 5988 5.135508 TCTAGCACAAAAGTAGTGTCCTC 57.864 43.478 0.00 0.00 39.17 3.71
4545 6000 4.384537 CCCATCCTCATCTTCTAGCACAAA 60.385 45.833 0.00 0.00 0.00 2.83
4739 6194 5.679638 GCCTGCCAATCAATAGTGTAAAAGG 60.680 44.000 0.00 0.00 0.00 3.11
4970 7150 9.683069 ATTCACAAGTGTAAAATCAAGACAATC 57.317 29.630 0.00 0.00 0.00 2.67
5115 7709 0.957395 CACTGGCTGGGTTACTGCTG 60.957 60.000 0.00 0.00 42.95 4.41
5181 7775 7.211573 AGTTGCTGAAATTTTTCACATCATCA 58.788 30.769 1.66 0.00 41.88 3.07
5588 8182 3.368948 GGACTCGAGCTCCTTCATTTTCT 60.369 47.826 13.61 0.00 0.00 2.52
5691 8285 3.733344 TAACCGCCGCAGCATCTCC 62.733 63.158 0.00 0.00 39.83 3.71
5855 8451 0.109735 GAAACTAAACGCTGCTGCCC 60.110 55.000 10.24 0.00 35.36 5.36
5859 8455 3.113260 ACTCTGAAACTAAACGCTGCT 57.887 42.857 0.00 0.00 0.00 4.24
5985 8629 3.687698 GCATCCTAGTTACCTCGCAAAAA 59.312 43.478 0.00 0.00 0.00 1.94
5986 8630 3.055385 AGCATCCTAGTTACCTCGCAAAA 60.055 43.478 0.00 0.00 0.00 2.44
5987 8631 2.500098 AGCATCCTAGTTACCTCGCAAA 59.500 45.455 0.00 0.00 0.00 3.68
5988 8632 2.108168 AGCATCCTAGTTACCTCGCAA 58.892 47.619 0.00 0.00 0.00 4.85
5989 8633 1.409064 CAGCATCCTAGTTACCTCGCA 59.591 52.381 0.00 0.00 0.00 5.10
5990 8634 1.409427 ACAGCATCCTAGTTACCTCGC 59.591 52.381 0.00 0.00 0.00 5.03
5991 8635 3.802948 AACAGCATCCTAGTTACCTCG 57.197 47.619 0.00 0.00 0.00 4.63
6042 8689 2.270986 GGATGGAATGCGATGGGGC 61.271 63.158 0.00 0.00 0.00 5.80
6098 8750 2.305927 TCTTCCTTCCATTCTCACCACC 59.694 50.000 0.00 0.00 0.00 4.61
6156 8809 0.814010 AACGCAGGGAACACACACTC 60.814 55.000 0.00 0.00 0.00 3.51
6184 8854 0.953727 TAAAACAGCTGCCTGCACAG 59.046 50.000 15.27 0.01 45.94 3.66
6302 8972 5.063880 GTCAGTCAGGGCTTCTTTTCTTTA 58.936 41.667 0.00 0.00 0.00 1.85
6452 9122 0.176219 CGGCCACGGGTAAATAGTCA 59.824 55.000 2.24 0.00 36.18 3.41
6530 9200 1.002888 CATGTCAGAGGGCTTGTGTCT 59.997 52.381 0.00 0.00 0.00 3.41
6548 9218 3.244353 CGAAATATCAGGCCTGTCTCCAT 60.244 47.826 31.58 19.53 0.00 3.41
6570 9240 0.682209 TCTAGCAGTACCCCCGACAC 60.682 60.000 0.00 0.00 0.00 3.67
6575 9245 2.033372 GAGAAGTCTAGCAGTACCCCC 58.967 57.143 0.00 0.00 0.00 5.40
6576 9246 3.021177 AGAGAAGTCTAGCAGTACCCC 57.979 52.381 0.00 0.00 0.00 4.95
6614 9284 8.997621 TGTTAACTAGTTGCTCTAATAGTTGG 57.002 34.615 18.56 0.00 38.55 3.77
6616 9286 9.152595 GCTTGTTAACTAGTTGCTCTAATAGTT 57.847 33.333 18.56 8.60 40.55 2.24
6618 9288 7.515371 GCGCTTGTTAACTAGTTGCTCTAATAG 60.515 40.741 18.56 6.98 0.00 1.73
6619 9289 6.255020 GCGCTTGTTAACTAGTTGCTCTAATA 59.745 38.462 18.56 0.00 0.00 0.98
6620 9290 5.063564 GCGCTTGTTAACTAGTTGCTCTAAT 59.936 40.000 18.56 0.00 0.00 1.73
6646 9318 6.455360 TGATCATTATGAGGCTTCCAAAAC 57.545 37.500 0.29 0.00 0.00 2.43
6647 9319 5.068198 GCTGATCATTATGAGGCTTCCAAAA 59.932 40.000 0.29 0.00 0.00 2.44
6650 9322 3.748083 GCTGATCATTATGAGGCTTCCA 58.252 45.455 0.29 0.00 0.00 3.53
6651 9323 2.740981 CGCTGATCATTATGAGGCTTCC 59.259 50.000 0.29 0.00 0.00 3.46
6653 9325 3.181462 TGACGCTGATCATTATGAGGCTT 60.181 43.478 0.29 0.00 0.00 4.35
6661 9333 2.279741 GCCAAGTGACGCTGATCATTA 58.720 47.619 0.00 0.00 0.00 1.90
6672 9344 3.482783 GAGAGCGCGCCAAGTGAC 61.483 66.667 30.33 10.54 0.00 3.67
6673 9345 3.921767 CTGAGAGCGCGCCAAGTGA 62.922 63.158 30.33 6.19 0.00 3.41


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

AutoCloner maintained by Alex Coulton.