Multiple sequence alignment - TraesCS6B01G338200

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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 TraesCS6B01G338200 chr6B 100.000 8592 0 0 760 9351 595958667 595950076 0.000000e+00 15867.0
1 TraesCS6B01G338200 chr6B 84.245 1701 243 16 6092 7783 595288659 595286975 0.000000e+00 1633.0
2 TraesCS6B01G338200 chr6B 78.316 2458 432 61 2909 5313 595291729 595289320 0.000000e+00 1493.0
3 TraesCS6B01G338200 chr6B 100.000 408 0 0 1 408 595959426 595959019 0.000000e+00 754.0
4 TraesCS6B01G338200 chr6B 92.473 93 6 1 2641 2732 468624575 468624667 2.120000e-26 132.0
5 TraesCS6B01G338200 chr6D 95.588 6664 181 47 2722 9320 398740970 398734355 0.000000e+00 10573.0
6 TraesCS6B01G338200 chr6D 93.304 1837 65 25 849 2645 398742794 398740976 0.000000e+00 2658.0
7 TraesCS6B01G338200 chr6D 84.118 1700 247 14 6092 7783 398228932 398227248 0.000000e+00 1622.0
8 TraesCS6B01G338200 chr6D 78.429 2457 434 54 2909 5313 398232005 398229593 0.000000e+00 1513.0
9 TraesCS6B01G338200 chr6D 94.132 409 15 8 1 408 398743738 398743338 1.730000e-171 614.0
10 TraesCS6B01G338200 chr6D 95.745 47 2 0 763 809 398743146 398743100 1.010000e-09 76.8
11 TraesCS6B01G338200 chr6A 94.842 6766 219 59 2640 9338 544479253 544472551 0.000000e+00 10442.0
12 TraesCS6B01G338200 chr6A 91.807 1904 93 31 776 2645 544481170 544479296 0.000000e+00 2593.0
13 TraesCS6B01G338200 chr6A 81.335 2277 340 50 6092 8337 544206265 544204043 0.000000e+00 1772.0
14 TraesCS6B01G338200 chr6A 78.048 2510 446 62 2860 5313 544209386 544206926 0.000000e+00 1485.0
15 TraesCS6B01G338200 chr6A 94.477 344 16 2 65 408 544481985 544481645 2.310000e-145 527.0
16 TraesCS6B01G338200 chr7A 93.617 94 5 1 2635 2727 580665365 580665272 1.270000e-28 139.0
17 TraesCS6B01G338200 chr7B 92.632 95 6 1 2636 2729 144686248 144686342 1.640000e-27 135.0
18 TraesCS6B01G338200 chr4B 91.667 96 7 1 2641 2735 638146279 638146374 2.120000e-26 132.0
19 TraesCS6B01G338200 chr4B 88.288 111 7 5 2636 2740 180553864 180553974 2.740000e-25 128.0
20 TraesCS6B01G338200 chr3D 92.473 93 6 1 2638 2729 509255201 509255109 2.120000e-26 132.0
21 TraesCS6B01G338200 chr4D 88.182 110 8 5 2631 2736 182071811 182071703 9.860000e-25 126.0
22 TraesCS6B01G338200 chr3A 87.850 107 11 2 2634 2739 32446234 32446129 3.550000e-24 124.0
23 TraesCS6B01G338200 chr3A 88.119 101 8 2 1510 1609 62269022 62268925 5.930000e-22 117.0


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 TraesCS6B01G338200 chr6B 595950076 595959426 9350 True 8310.500000 15867 100.000000 1 9351 2 chr6B.!!$R2 9350
1 TraesCS6B01G338200 chr6B 595286975 595291729 4754 True 1563.000000 1633 81.280500 2909 7783 2 chr6B.!!$R1 4874
2 TraesCS6B01G338200 chr6D 398734355 398743738 9383 True 3480.450000 10573 94.692250 1 9320 4 chr6D.!!$R2 9319
3 TraesCS6B01G338200 chr6D 398227248 398232005 4757 True 1567.500000 1622 81.273500 2909 7783 2 chr6D.!!$R1 4874
4 TraesCS6B01G338200 chr6A 544472551 544481985 9434 True 4520.666667 10442 93.708667 65 9338 3 chr6A.!!$R2 9273
5 TraesCS6B01G338200 chr6A 544204043 544209386 5343 True 1628.500000 1772 79.691500 2860 8337 2 chr6A.!!$R1 5477

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
62 64 0.025001 CGGTAAACAAGAGCGCATCG 59.975 55.000 11.47 0.0 0.00 3.84 F
128 130 0.450983 CGAGGAAGACGGGTCACTAC 59.549 60.000 1.17 0.0 0.00 2.73 F
1018 1405 0.620121 CCCCTGCCTCTTTCCTCTCT 60.620 60.000 0.00 0.0 0.00 3.10 F
2086 2502 0.442310 CCACATGTAAAGGCGTGTCG 59.558 55.000 0.00 0.0 36.56 4.35 F
2834 3318 0.386352 TGTTCTCCGAGCGTTACACG 60.386 55.000 0.00 0.0 45.88 4.49 F
3942 4429 1.680207 GAATTTCTCATGGCCCTGCTC 59.320 52.381 0.00 0.0 0.00 4.26 F
4290 4798 0.173708 AGTCGAATCCGCTCACTTCC 59.826 55.000 0.00 0.0 35.37 3.46 F
4618 5135 0.749649 AGCTACTGCGGGAAGATCTG 59.250 55.000 0.00 0.0 45.42 2.90 F
6385 6950 0.109342 CTGGGATCCATGTACCTGGC 59.891 60.000 15.23 0.0 36.16 4.85 F
7240 7805 1.546476 GTTGTTTCCACACCACCAACA 59.454 47.619 0.00 0.0 34.00 3.33 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1210 1615 0.032515 GAATTTGGGGATTCGGGGGT 60.033 55.000 0.00 0.0 0.00 4.95 R
2086 2502 0.512952 AGCAACAACGCGACATCTTC 59.487 50.000 15.93 0.0 36.85 2.87 R
2182 2598 1.069090 ACGACACGACTTGCACCAT 59.931 52.632 0.00 0.0 0.00 3.55 R
3942 4429 1.005340 GCAATCTTGAGAGAGCACGG 58.995 55.000 0.00 0.0 34.85 4.94 R
4257 4765 1.891178 TCGACTTCGTAACAGCATCG 58.109 50.000 0.00 0.0 40.80 3.84 R
5316 5848 0.037303 CTTGAAGCTGAGAAGGGGCA 59.963 55.000 0.00 0.0 0.00 5.36 R
5973 6517 1.610522 CACCCAAGACTTCAGCCTTTG 59.389 52.381 0.00 0.0 0.00 2.77 R
6410 6975 1.250840 GGGGCAGGCAAACCACTTAG 61.251 60.000 0.00 0.0 39.06 2.18 R
7731 8299 0.884704 TGCAAGGTCTCGCCAAAGTC 60.885 55.000 0.00 0.0 40.61 3.01 R
9060 9717 0.099791 GGACGCGGAAAGAGAGAGAG 59.900 60.000 12.47 0.0 0.00 3.20 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
62 64 0.025001 CGGTAAACAAGAGCGCATCG 59.975 55.000 11.47 0.00 0.00 3.84
89 91 1.588139 GCTGCATCCGCTTCATTGC 60.588 57.895 0.00 0.00 39.64 3.56
118 120 2.417936 GCCGGATCCGAGGAAGAC 59.582 66.667 35.42 11.15 42.83 3.01
128 130 0.450983 CGAGGAAGACGGGTCACTAC 59.549 60.000 1.17 0.00 0.00 2.73
159 161 1.591768 GAACTTACCCATCCCCCTGA 58.408 55.000 0.00 0.00 0.00 3.86
188 190 4.389576 GAGCAAACACGGCGGCAG 62.390 66.667 13.24 0.00 36.08 4.85
267 269 0.878523 CTCCTGGCGAAACAACACGA 60.879 55.000 0.00 0.00 0.00 4.35
347 349 0.762418 ACGGGTGTCCATGTCAAAGA 59.238 50.000 0.00 0.00 0.00 2.52
348 350 1.270839 ACGGGTGTCCATGTCAAAGAG 60.271 52.381 0.00 0.00 0.00 2.85
349 351 1.001974 CGGGTGTCCATGTCAAAGAGA 59.998 52.381 0.00 0.00 0.00 3.10
862 1237 1.299850 CACCGCGAGTCAACAGTGA 60.300 57.895 8.23 0.00 0.00 3.41
871 1246 2.111043 CAACAGTGACCCACCGCT 59.889 61.111 0.00 0.00 34.49 5.52
978 1365 4.814294 GGGATCTTCGTGCGCGGT 62.814 66.667 21.04 3.58 38.89 5.68
979 1366 2.813908 GGATCTTCGTGCGCGGTT 60.814 61.111 21.04 1.89 38.89 4.44
980 1367 2.395690 GATCTTCGTGCGCGGTTG 59.604 61.111 21.04 10.23 38.89 3.77
981 1368 3.083600 GATCTTCGTGCGCGGTTGG 62.084 63.158 21.04 7.69 38.89 3.77
1017 1404 1.911471 CCCCTGCCTCTTTCCTCTC 59.089 63.158 0.00 0.00 0.00 3.20
1018 1405 0.620121 CCCCTGCCTCTTTCCTCTCT 60.620 60.000 0.00 0.00 0.00 3.10
1026 1413 2.666317 CTCTTTCCTCTCTCTCCCTCC 58.334 57.143 0.00 0.00 0.00 4.30
1074 1465 2.649190 TCTCTTCCTCATCTCCGTCTG 58.351 52.381 0.00 0.00 0.00 3.51
1158 1557 3.003173 CTCTCCCCTTCGCCACCA 61.003 66.667 0.00 0.00 0.00 4.17
1224 1629 3.012722 GACACCCCCGAATCCCCA 61.013 66.667 0.00 0.00 0.00 4.96
1385 1791 3.464494 GCTAGGGTTACCGCCGGT 61.464 66.667 15.63 15.63 43.47 5.28
1825 2235 2.812591 AGTTTGCTGCTCAAGTCATCAG 59.187 45.455 0.00 0.00 35.84 2.90
1826 2236 2.810274 GTTTGCTGCTCAAGTCATCAGA 59.190 45.455 0.00 0.00 35.84 3.27
1827 2237 3.345508 TTGCTGCTCAAGTCATCAGAT 57.654 42.857 0.00 0.00 0.00 2.90
1829 2239 1.941294 GCTGCTCAAGTCATCAGATGG 59.059 52.381 10.67 0.00 0.00 3.51
1830 2240 1.941294 CTGCTCAAGTCATCAGATGGC 59.059 52.381 6.93 6.93 34.38 4.40
1846 2259 4.215827 CAGATGGCTATCATTTCTGCTTCC 59.784 45.833 13.04 0.00 35.97 3.46
1919 2332 1.448013 GTAGTCTCGGGTTGCTGCC 60.448 63.158 0.00 0.00 0.00 4.85
1921 2334 1.264749 TAGTCTCGGGTTGCTGCCAT 61.265 55.000 0.00 0.00 0.00 4.40
1977 2391 1.588667 GCTGGTTGTGCGTTTGGTG 60.589 57.895 0.00 0.00 0.00 4.17
1978 2392 1.999071 GCTGGTTGTGCGTTTGGTGA 61.999 55.000 0.00 0.00 0.00 4.02
1987 2403 1.102978 GCGTTTGGTGATAATGGCCT 58.897 50.000 3.32 0.00 0.00 5.19
2014 2430 4.265904 TCTTCTAAATGGTGCAACGAGA 57.734 40.909 0.00 0.00 38.12 4.04
2015 2431 4.832248 TCTTCTAAATGGTGCAACGAGAT 58.168 39.130 0.00 0.00 38.12 2.75
2041 2457 4.329462 TTTTGTATGGTTGGAGTTTGGC 57.671 40.909 0.00 0.00 0.00 4.52
2086 2502 0.442310 CCACATGTAAAGGCGTGTCG 59.558 55.000 0.00 0.00 36.56 4.35
2150 2566 2.603110 CGTGTCGTTGGTCTATTGGATG 59.397 50.000 0.00 0.00 0.00 3.51
2163 2579 6.239600 GGTCTATTGGATGGTGAAGCTATACA 60.240 42.308 0.00 0.00 0.00 2.29
2182 2598 7.220683 GCTATACAATTCGAAGGTGTTTACGTA 59.779 37.037 19.01 0.00 0.00 3.57
2206 2622 0.859232 GCAAGTCGTGTCGTGTTCAT 59.141 50.000 0.00 0.00 0.00 2.57
2260 2677 5.826643 TGTTTCTATATCCCTGGTTGCTTT 58.173 37.500 0.00 0.00 0.00 3.51
2261 2678 6.964464 TGTTTCTATATCCCTGGTTGCTTTA 58.036 36.000 0.00 0.00 0.00 1.85
2371 2788 3.554934 TCAGACTTGGTTGTGAGCATTT 58.445 40.909 0.00 0.00 32.51 2.32
2372 2789 3.953612 TCAGACTTGGTTGTGAGCATTTT 59.046 39.130 0.00 0.00 32.51 1.82
2388 2805 7.170658 GTGAGCATTTTGTACATTGCCTAAAAA 59.829 33.333 17.44 5.28 35.71 1.94
2421 2838 8.587608 TGGAAATTTCAGATTTTGTGCTCTAAT 58.412 29.630 19.49 0.00 0.00 1.73
2431 2848 7.553044 AGATTTTGTGCTCTAATGGTTAGGTAC 59.447 37.037 0.00 0.00 34.00 3.34
2432 2849 6.368779 TTTGTGCTCTAATGGTTAGGTACT 57.631 37.500 0.00 0.00 46.37 2.73
2511 2929 4.754618 TGTGCATTAATTCGTTGAGTCAGT 59.245 37.500 0.00 0.00 0.00 3.41
2516 2934 7.119116 TGCATTAATTCGTTGAGTCAGTGTATT 59.881 33.333 0.00 0.00 0.00 1.89
2518 2936 9.265938 CATTAATTCGTTGAGTCAGTGTATTTG 57.734 33.333 0.00 0.00 0.00 2.32
2519 2937 8.596271 TTAATTCGTTGAGTCAGTGTATTTGA 57.404 30.769 0.00 0.00 0.00 2.69
2520 2938 5.900339 TTCGTTGAGTCAGTGTATTTGAC 57.100 39.130 0.00 0.00 44.09 3.18
2521 2939 4.939271 TCGTTGAGTCAGTGTATTTGACA 58.061 39.130 7.96 0.00 45.72 3.58
2522 2940 5.538118 TCGTTGAGTCAGTGTATTTGACAT 58.462 37.500 7.96 0.00 45.72 3.06
2628 3064 1.010125 CTTTGCAACCCGACACGTG 60.010 57.895 15.48 15.48 0.00 4.49
2645 3081 7.254556 CCGACACGTGTAGATAATCAACTACTA 60.255 40.741 27.54 0.00 39.46 1.82
2646 3082 7.581959 CGACACGTGTAGATAATCAACTACTAC 59.418 40.741 23.44 1.04 39.46 2.73
2668 3150 2.132762 CCGTCCCATAATGTAAGACGC 58.867 52.381 5.39 0.00 46.66 5.19
2672 3154 4.260212 CGTCCCATAATGTAAGACGCTTTG 60.260 45.833 0.00 0.00 43.07 2.77
2678 3160 6.183360 CCATAATGTAAGACGCTTTGTGACAT 60.183 38.462 0.00 0.25 30.28 3.06
2681 3163 5.839262 TGTAAGACGCTTTGTGACATTAG 57.161 39.130 0.00 0.00 0.00 1.73
2682 3164 5.294356 TGTAAGACGCTTTGTGACATTAGT 58.706 37.500 0.00 0.00 0.00 2.24
2683 3165 4.732285 AAGACGCTTTGTGACATTAGTG 57.268 40.909 7.09 7.09 0.00 2.74
2687 3169 4.628074 ACGCTTTGTGACATTAGTGTAGT 58.372 39.130 11.21 0.00 39.09 2.73
2750 3232 0.667993 TAGCTGTTTGGCTGTTGCAC 59.332 50.000 0.00 0.00 43.01 4.57
2760 3242 1.676014 GGCTGTTGCACGGAGAGTTAT 60.676 52.381 0.00 0.00 41.91 1.89
2834 3318 0.386352 TGTTCTCCGAGCGTTACACG 60.386 55.000 0.00 0.00 45.88 4.49
2845 3329 2.029290 AGCGTTACACGTTCTCCTTCAT 60.029 45.455 0.00 0.00 44.73 2.57
2846 3330 3.192001 AGCGTTACACGTTCTCCTTCATA 59.808 43.478 0.00 0.00 44.73 2.15
2854 3338 5.421056 ACACGTTCTCCTTCATAGTTATCCA 59.579 40.000 0.00 0.00 0.00 3.41
2855 3339 6.098409 ACACGTTCTCCTTCATAGTTATCCAT 59.902 38.462 0.00 0.00 0.00 3.41
2932 3416 2.030958 GGACGGGCGTGAATTTCGT 61.031 57.895 0.00 0.00 36.74 3.85
2986 3470 4.733077 TGTTCCTCCTTTCATTGGGTTA 57.267 40.909 0.00 0.00 0.00 2.85
3081 3565 5.151389 CGTCAAACTTAACAAGGCAATACC 58.849 41.667 0.00 0.00 39.61 2.73
3651 4138 8.830201 TGAAGCATGCATTTACAAAGTTTATT 57.170 26.923 21.98 0.00 0.00 1.40
3765 4252 1.972198 CCTTGGTGGTCGAGTAGCA 59.028 57.895 0.00 0.00 0.00 3.49
3942 4429 1.680207 GAATTTCTCATGGCCCTGCTC 59.320 52.381 0.00 0.00 0.00 4.26
4113 4600 4.624452 GCTGAAATGAAGTCAAATGAAGCC 59.376 41.667 0.00 0.00 0.00 4.35
4257 4765 1.098050 CAGCTAAACCTGGTGCATCC 58.902 55.000 0.00 0.00 0.00 3.51
4290 4798 0.173708 AGTCGAATCCGCTCACTTCC 59.826 55.000 0.00 0.00 35.37 3.46
4291 4799 0.173708 GTCGAATCCGCTCACTTCCT 59.826 55.000 0.00 0.00 35.37 3.36
4618 5135 0.749649 AGCTACTGCGGGAAGATCTG 59.250 55.000 0.00 0.00 45.42 2.90
4637 5154 0.862283 GCCTCACTCGATCGTTCGTC 60.862 60.000 15.94 0.00 45.65 4.20
4803 5320 1.469335 TTGAGGACCCGTCTGTCACC 61.469 60.000 0.00 0.00 36.97 4.02
4869 5392 1.064060 CGGCGGGTGAAAATGAAGATC 59.936 52.381 0.00 0.00 0.00 2.75
5308 5840 7.074502 CAGCATTGAGAAGTTGAAAGTAGAAC 58.925 38.462 0.00 0.00 0.00 3.01
5316 5848 6.761714 AGAAGTTGAAAGTAGAACGTGACATT 59.238 34.615 0.00 0.00 0.00 2.71
5355 5890 4.550076 AGGTTCCTCAGATGTTCAGAAG 57.450 45.455 0.00 0.00 0.00 2.85
5415 5950 2.871096 TTGCCAAGGAGGAACGTAAT 57.129 45.000 0.00 0.00 41.22 1.89
5638 6173 9.834628 TCTGTTTTTATCGACATTTTTATGGAC 57.165 29.630 0.00 0.00 0.00 4.02
5916 6451 3.758715 TGGATACACGTGATGGCAG 57.241 52.632 25.01 0.00 46.17 4.85
5917 6452 0.901827 TGGATACACGTGATGGCAGT 59.098 50.000 25.01 0.00 46.17 4.40
5918 6453 2.104170 TGGATACACGTGATGGCAGTA 58.896 47.619 25.01 1.93 46.17 2.74
5919 6454 2.159156 TGGATACACGTGATGGCAGTAC 60.159 50.000 25.01 2.90 46.17 2.73
5920 6455 2.100916 GGATACACGTGATGGCAGTACT 59.899 50.000 25.01 0.00 0.00 2.73
5973 6517 1.106944 CCACTGGTTGTTGGTCCCAC 61.107 60.000 0.00 0.00 0.00 4.61
6062 6612 6.093219 CACTTCAGCTGATGTTAACAAGCTAT 59.907 38.462 26.56 14.36 31.13 2.97
6088 6653 0.605319 TCCCAGTTGATGTGCCGAAC 60.605 55.000 0.00 0.00 0.00 3.95
6259 6824 1.473434 GGTGAGGGTTCTTCTATGGCG 60.473 57.143 0.00 0.00 0.00 5.69
6373 6938 7.451877 TCTCCTGTTATATGTACTTCTGGGATC 59.548 40.741 0.00 0.00 0.00 3.36
6385 6950 0.109342 CTGGGATCCATGTACCTGGC 59.891 60.000 15.23 0.00 36.16 4.85
6410 6975 4.386867 TCTCCATTCGTATCACCTGTTC 57.613 45.455 0.00 0.00 0.00 3.18
6793 7358 3.054139 TGAATAGGGCTGATGAAGTTGCT 60.054 43.478 0.00 0.00 0.00 3.91
6946 7511 1.674962 CCAAGCCTTGATGAAGCTAGC 59.325 52.381 6.62 6.62 0.00 3.42
7003 7568 2.856222 GCTAGCAGCATACCATTCCTT 58.144 47.619 10.63 0.00 41.89 3.36
7036 7601 2.037902 TGGTCTTAGAATGAACGGCACA 59.962 45.455 0.00 0.00 0.00 4.57
7170 7735 2.278245 TGGAACCCAGAGGATGATTGT 58.722 47.619 0.00 0.00 36.73 2.71
7240 7805 1.546476 GTTGTTTCCACACCACCAACA 59.454 47.619 0.00 0.00 34.00 3.33
7387 7952 4.433186 TTCATACTTTCCAACCATTGCG 57.567 40.909 0.00 0.00 0.00 4.85
7567 8132 3.906720 TTAGAAGGGAAGGATGAACGG 57.093 47.619 0.00 0.00 0.00 4.44
7696 8261 2.757124 GGGCAGTTGGGATCCCGAT 61.757 63.158 24.36 10.23 39.42 4.18
7731 8299 2.756760 AGCAATTGTCATGGCAGTAAGG 59.243 45.455 7.40 0.00 0.00 2.69
7763 8334 3.748568 AGACCTTGCATCGACTTCTTTTC 59.251 43.478 0.00 0.00 0.00 2.29
7783 8354 4.623932 TCTCTGGTGAGCTTGTTTGTAT 57.376 40.909 0.00 0.00 40.03 2.29
8042 8643 1.071699 TCCTGGAACCAGTTTTCCTCG 59.928 52.381 17.92 2.41 44.89 4.63
8138 8741 2.158957 GGAGATGGAACGGTAATGCTCA 60.159 50.000 0.00 0.00 0.00 4.26
8142 8745 3.066291 TGGAACGGTAATGCTCATTGT 57.934 42.857 5.43 0.00 32.50 2.71
8195 8798 2.691526 GTCCCGGTGGTTCTTTTCTTTT 59.308 45.455 0.00 0.00 0.00 2.27
8197 8800 3.382227 TCCCGGTGGTTCTTTTCTTTTTC 59.618 43.478 0.00 0.00 0.00 2.29
8267 8875 5.220912 GCACATCTGCAGCTTTAACATATGA 60.221 40.000 9.47 0.00 43.62 2.15
8325 8934 3.638627 TGTCGCATCAGTAGATCAGGAAT 59.361 43.478 0.00 0.00 30.20 3.01
8359 8970 1.707989 TGGCTGACCCTGTTATTTCCA 59.292 47.619 0.00 0.00 33.59 3.53
8380 8991 4.142182 CCATGTTGGTTTCTGTTCTGTGTT 60.142 41.667 0.00 0.00 31.35 3.32
8382 8993 4.075682 TGTTGGTTTCTGTTCTGTGTTGA 58.924 39.130 0.00 0.00 0.00 3.18
8384 8995 2.682856 TGGTTTCTGTTCTGTGTTGAGC 59.317 45.455 0.00 0.00 0.00 4.26
8385 8996 2.682856 GGTTTCTGTTCTGTGTTGAGCA 59.317 45.455 0.00 0.00 0.00 4.26
8386 8997 3.316308 GGTTTCTGTTCTGTGTTGAGCAT 59.684 43.478 0.00 0.00 0.00 3.79
8387 8998 4.202050 GGTTTCTGTTCTGTGTTGAGCATT 60.202 41.667 0.00 0.00 0.00 3.56
8463 9088 0.236711 CTGCACCTTTCTTGCTCACG 59.763 55.000 0.00 0.00 40.86 4.35
8465 9090 0.884704 GCACCTTTCTTGCTCACGGA 60.885 55.000 0.00 0.00 37.00 4.69
8489 9114 2.031508 CGCGTCTGTTGTAAATTTGGGT 60.032 45.455 0.00 0.00 0.00 4.51
8522 9147 2.861274 TGGTGTCATCTGTTGCATCAA 58.139 42.857 0.00 0.00 0.00 2.57
8535 9160 6.585702 TCTGTTGCATCAATAATTTTTGACCG 59.414 34.615 12.69 8.84 38.37 4.79
8549 9177 1.663074 GACCGCTGCATCGATCTCC 60.663 63.158 12.26 0.00 0.00 3.71
8552 9180 2.013483 CGCTGCATCGATCTCCGTC 61.013 63.158 3.33 0.00 39.75 4.79
8559 9187 1.773054 ATCGATCTCCGTCGGTCGTG 61.773 60.000 18.71 6.39 41.74 4.35
8601 9230 1.462283 CGATGGTGACTGTTTGCTGAG 59.538 52.381 0.00 0.00 0.00 3.35
8622 9251 3.776969 AGGCTGATCTCCATGAGTAAACA 59.223 43.478 0.00 0.00 0.00 2.83
8623 9252 4.225942 AGGCTGATCTCCATGAGTAAACAA 59.774 41.667 0.00 0.00 0.00 2.83
8624 9253 4.333926 GGCTGATCTCCATGAGTAAACAAC 59.666 45.833 0.00 0.00 0.00 3.32
8646 9275 7.883311 ACAACCATTTGTATTCTGCTACTACTT 59.117 33.333 0.00 0.00 44.53 2.24
8647 9276 7.849804 ACCATTTGTATTCTGCTACTACTTG 57.150 36.000 0.00 0.00 0.00 3.16
8649 9278 7.549488 ACCATTTGTATTCTGCTACTACTTGTC 59.451 37.037 0.00 0.00 0.00 3.18
8650 9279 7.549134 CCATTTGTATTCTGCTACTACTTGTCA 59.451 37.037 0.00 0.00 0.00 3.58
8653 9282 9.582431 TTTGTATTCTGCTACTACTTGTCATAC 57.418 33.333 0.00 0.00 0.00 2.39
8671 9304 6.374613 TGTCATACTTCGACATCTCTACAGTT 59.625 38.462 0.00 0.00 38.45 3.16
8694 9327 0.698238 CATGACACCCCCAGGAAGAA 59.302 55.000 0.00 0.00 36.73 2.52
8695 9328 1.075374 CATGACACCCCCAGGAAGAAA 59.925 52.381 0.00 0.00 36.73 2.52
8696 9329 0.771127 TGACACCCCCAGGAAGAAAG 59.229 55.000 0.00 0.00 36.73 2.62
8697 9330 1.064825 GACACCCCCAGGAAGAAAGA 58.935 55.000 0.00 0.00 36.73 2.52
8698 9331 1.003696 GACACCCCCAGGAAGAAAGAG 59.996 57.143 0.00 0.00 36.73 2.85
8699 9332 1.362224 CACCCCCAGGAAGAAAGAGA 58.638 55.000 0.00 0.00 36.73 3.10
8700 9333 1.705186 CACCCCCAGGAAGAAAGAGAA 59.295 52.381 0.00 0.00 36.73 2.87
8701 9334 1.988846 ACCCCCAGGAAGAAAGAGAAG 59.011 52.381 0.00 0.00 36.73 2.85
8702 9335 2.269940 CCCCCAGGAAGAAAGAGAAGA 58.730 52.381 0.00 0.00 33.47 2.87
8715 9348 1.379977 AGAAGAGACCCGGCGATGA 60.380 57.895 9.30 0.00 0.00 2.92
8723 9356 2.100991 CCGGCGATGAAAGCAAGC 59.899 61.111 9.30 0.00 36.08 4.01
8743 9376 1.404181 CGAAGATGAAGCGGAACAGGA 60.404 52.381 0.00 0.00 0.00 3.86
8745 9378 0.539051 AGATGAAGCGGAACAGGAGG 59.461 55.000 0.00 0.00 0.00 4.30
8746 9379 0.462759 GATGAAGCGGAACAGGAGGG 60.463 60.000 0.00 0.00 0.00 4.30
8747 9380 1.915078 ATGAAGCGGAACAGGAGGGG 61.915 60.000 0.00 0.00 0.00 4.79
8748 9381 3.330720 AAGCGGAACAGGAGGGGG 61.331 66.667 0.00 0.00 0.00 5.40
8774 9407 1.154207 ATGTCTCTCGACGCGTGTG 60.154 57.895 20.70 9.54 43.21 3.82
8775 9408 3.166630 GTCTCTCGACGCGTGTGC 61.167 66.667 20.70 0.00 37.91 4.57
8865 9498 0.394899 CAGGACAGGATGCCCCTTTC 60.395 60.000 1.03 1.03 40.91 2.62
8935 9571 1.850755 AGCGGAGGGGGAAAAGGAA 60.851 57.895 0.00 0.00 0.00 3.36
9023 9679 4.379243 CGTCCCTGTCCGCTGCTT 62.379 66.667 0.00 0.00 0.00 3.91
9042 9698 1.305549 CCCTGCCATGCCTTCCTTT 60.306 57.895 0.00 0.00 0.00 3.11
9046 9702 1.475682 CTGCCATGCCTTCCTTTCTTC 59.524 52.381 0.00 0.00 0.00 2.87
9050 9706 0.336392 ATGCCTTCCTTTCTTCCCCC 59.664 55.000 0.00 0.00 0.00 5.40
9054 9710 3.262448 TTCCTTTCTTCCCCCGCGG 62.262 63.158 21.04 21.04 0.00 6.46
9080 9737 1.139947 CTCTCTCTTTCCGCGTCCC 59.860 63.158 4.92 0.00 0.00 4.46
9094 9756 3.006728 TCCCGGCATTTCCCGTCT 61.007 61.111 0.00 0.00 46.71 4.18
9223 9908 5.683681 GGTCCTTTCCCCGTTATTAATACA 58.316 41.667 0.00 0.00 0.00 2.29
9298 9983 1.661197 GCAAACGTACGTCGACCCA 60.661 57.895 23.05 0.00 42.86 4.51
9301 9986 0.040067 AAACGTACGTCGACCCAGTC 60.040 55.000 23.05 0.00 42.86 3.51
9308 9993 3.975591 TCGACCCAGTCCCCGTCT 61.976 66.667 0.00 0.00 0.00 4.18
9321 10006 1.029681 CCCGTCTACATCATCCGTCA 58.970 55.000 0.00 0.00 0.00 4.35
9324 10009 2.554462 CCGTCTACATCATCCGTCATCT 59.446 50.000 0.00 0.00 0.00 2.90
9332 10017 5.195940 ACATCATCCGTCATCTCCATTTTT 58.804 37.500 0.00 0.00 0.00 1.94
9338 10023 2.747446 CGTCATCTCCATTTTTCCCGTT 59.253 45.455 0.00 0.00 0.00 4.44
9339 10024 3.181510 CGTCATCTCCATTTTTCCCGTTC 60.182 47.826 0.00 0.00 0.00 3.95
9340 10025 3.128764 GTCATCTCCATTTTTCCCGTTCC 59.871 47.826 0.00 0.00 0.00 3.62
9341 10026 1.816074 TCTCCATTTTTCCCGTTCCG 58.184 50.000 0.00 0.00 0.00 4.30
9342 10027 1.348366 TCTCCATTTTTCCCGTTCCGA 59.652 47.619 0.00 0.00 0.00 4.55
9343 10028 2.026636 TCTCCATTTTTCCCGTTCCGAT 60.027 45.455 0.00 0.00 0.00 4.18
9344 10029 3.198200 TCTCCATTTTTCCCGTTCCGATA 59.802 43.478 0.00 0.00 0.00 2.92
9345 10030 3.942748 CTCCATTTTTCCCGTTCCGATAA 59.057 43.478 0.00 0.00 0.00 1.75
9346 10031 4.528920 TCCATTTTTCCCGTTCCGATAAT 58.471 39.130 0.00 0.00 0.00 1.28
9347 10032 4.951094 TCCATTTTTCCCGTTCCGATAATT 59.049 37.500 0.00 0.00 0.00 1.40
9348 10033 5.419471 TCCATTTTTCCCGTTCCGATAATTT 59.581 36.000 0.00 0.00 0.00 1.82
9349 10034 6.071278 TCCATTTTTCCCGTTCCGATAATTTT 60.071 34.615 0.00 0.00 0.00 1.82
9350 10035 6.592220 CCATTTTTCCCGTTCCGATAATTTTT 59.408 34.615 0.00 0.00 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
38 40 1.024579 CGCTCTTGTTTACCGGCCAT 61.025 55.000 0.00 0.00 0.00 4.40
39 41 1.669760 CGCTCTTGTTTACCGGCCA 60.670 57.895 0.00 0.00 0.00 5.36
118 120 0.317160 TGCTGTCTTGTAGTGACCCG 59.683 55.000 0.00 0.00 33.83 5.28
121 123 1.000607 TCCGTGCTGTCTTGTAGTGAC 60.001 52.381 0.00 0.00 35.21 3.67
128 130 1.798813 GGTAAGTTCCGTGCTGTCTTG 59.201 52.381 0.00 0.00 0.00 3.02
159 161 0.437295 GTTTGCTCGCGTTCGTGTAT 59.563 50.000 5.77 0.00 36.96 2.29
759 761 4.643387 AAGTGGTCTGGGCCGTGC 62.643 66.667 0.00 0.00 0.00 5.34
760 762 2.669569 CAAGTGGTCTGGGCCGTG 60.670 66.667 0.00 0.00 0.00 4.94
761 763 3.168528 ACAAGTGGTCTGGGCCGT 61.169 61.111 0.00 0.00 0.00 5.68
762 764 2.358737 GACAAGTGGTCTGGGCCG 60.359 66.667 0.00 0.00 43.46 6.13
763 765 2.034221 GGACAAGTGGTCTGGGCC 59.966 66.667 0.00 0.00 46.16 5.80
768 770 0.469331 TGGACTCGGACAAGTGGTCT 60.469 55.000 0.00 0.00 46.16 3.85
814 923 2.499685 GTGGCCGTAGCGATTCCT 59.500 61.111 0.00 0.00 41.24 3.36
983 1370 1.143838 GGGCATTTCCGGCATTTCC 59.856 57.895 0.00 0.00 34.94 3.13
984 1371 1.143838 GGGGCATTTCCGGCATTTC 59.856 57.895 0.00 0.00 34.94 2.17
1048 1435 3.951037 CGGAGATGAGGAAGAGAAAGAGA 59.049 47.826 0.00 0.00 0.00 3.10
1091 1482 5.620738 TTTGGAGGAGAGAGATGGTTATG 57.379 43.478 0.00 0.00 0.00 1.90
1170 1569 2.242572 CGGTCTCGATCTACGGCGA 61.243 63.158 16.62 0.00 42.82 5.54
1196 1601 2.993264 GGGTGTCCGGTCCGAGAA 60.993 66.667 14.39 0.00 0.00 2.87
1210 1615 0.032515 GAATTTGGGGATTCGGGGGT 60.033 55.000 0.00 0.00 0.00 4.95
1224 1629 3.566351 GGGGAGATTTGATCGGGAATTT 58.434 45.455 0.00 0.00 0.00 1.82
1825 2235 4.139786 TGGAAGCAGAAATGATAGCCATC 58.860 43.478 0.00 0.00 33.53 3.51
1826 2236 4.174704 TGGAAGCAGAAATGATAGCCAT 57.825 40.909 0.00 0.00 36.99 4.40
1827 2237 3.650281 TGGAAGCAGAAATGATAGCCA 57.350 42.857 0.00 0.00 0.00 4.75
1829 2239 5.958955 AGTTTTGGAAGCAGAAATGATAGC 58.041 37.500 0.00 0.00 0.00 2.97
1910 2323 2.362120 AGGAGCATGGCAGCAACC 60.362 61.111 10.71 11.97 36.85 3.77
1971 2385 3.951563 AGCTAGGCCATTATCACCAAA 57.048 42.857 5.01 0.00 0.00 3.28
1977 2391 9.323985 CATTTAGAAGATAGCTAGGCCATTATC 57.676 37.037 5.01 6.61 0.00 1.75
1978 2392 8.270744 CCATTTAGAAGATAGCTAGGCCATTAT 58.729 37.037 5.01 0.00 0.00 1.28
1987 2403 5.753438 CGTTGCACCATTTAGAAGATAGCTA 59.247 40.000 0.00 0.00 0.00 3.32
2035 2451 2.229792 TCTCACAATGAGGTGCCAAAC 58.770 47.619 6.01 0.00 44.39 2.93
2041 2457 3.128242 GCCAGAATTCTCACAATGAGGTG 59.872 47.826 4.57 0.00 44.39 4.00
2086 2502 0.512952 AGCAACAACGCGACATCTTC 59.487 50.000 15.93 0.00 36.85 2.87
2097 2513 6.366877 ACAATTCTTATCATGCAAGCAACAAC 59.633 34.615 0.00 0.00 0.00 3.32
2150 2566 5.006746 CACCTTCGAATTGTATAGCTTCACC 59.993 44.000 0.00 0.00 0.00 4.02
2163 2579 5.121142 CACCATACGTAAACACCTTCGAATT 59.879 40.000 0.00 0.00 0.00 2.17
2182 2598 1.069090 ACGACACGACTTGCACCAT 59.931 52.632 0.00 0.00 0.00 3.55
2206 2622 9.982291 GCAAAATACGTTATCTTAATGAAGTCA 57.018 29.630 0.00 0.00 34.03 3.41
2371 2788 7.980662 CCATGATGATTTTTAGGCAATGTACAA 59.019 33.333 0.00 0.00 0.00 2.41
2372 2789 7.341512 TCCATGATGATTTTTAGGCAATGTACA 59.658 33.333 0.00 0.00 0.00 2.90
2388 2805 9.378551 CACAAAATCTGAAATTTCCATGATGAT 57.621 29.630 15.48 6.84 0.00 2.45
2421 2838 6.549433 ACGAAAATGGATAGTACCTAACCA 57.451 37.500 3.16 3.16 41.78 3.67
2431 2848 5.215160 GCAATGGCTTACGAAAATGGATAG 58.785 41.667 0.00 0.00 36.96 2.08
2432 2849 4.642437 TGCAATGGCTTACGAAAATGGATA 59.358 37.500 0.00 0.00 41.91 2.59
2441 2858 4.717233 ATCAAATTGCAATGGCTTACGA 57.283 36.364 13.82 2.75 41.91 3.43
2442 2859 6.696583 TCATAATCAAATTGCAATGGCTTACG 59.303 34.615 13.82 4.04 41.91 3.18
2444 2861 9.047371 CATTCATAATCAAATTGCAATGGCTTA 57.953 29.630 13.82 10.73 41.91 3.09
2488 2905 4.754618 ACTGACTCAACGAATTAATGCACA 59.245 37.500 0.00 0.00 0.00 4.57
2500 2917 5.845985 ATGTCAAATACACTGACTCAACG 57.154 39.130 4.74 0.00 43.03 4.10
2516 2934 6.071221 AGGCATGCTTCAAATCTTAATGTCAA 60.071 34.615 18.92 0.00 0.00 3.18
2518 2936 5.899299 AGGCATGCTTCAAATCTTAATGTC 58.101 37.500 18.92 0.00 0.00 3.06
2519 2937 5.419788 TGAGGCATGCTTCAAATCTTAATGT 59.580 36.000 28.20 0.00 0.00 2.71
2520 2938 5.898174 TGAGGCATGCTTCAAATCTTAATG 58.102 37.500 28.20 0.00 0.00 1.90
2521 2939 6.550108 AGATGAGGCATGCTTCAAATCTTAAT 59.450 34.615 32.69 16.17 35.71 1.40
2522 2940 5.889853 AGATGAGGCATGCTTCAAATCTTAA 59.110 36.000 32.69 10.36 35.71 1.85
2646 3082 3.639538 CGTCTTACATTATGGGACGGAG 58.360 50.000 20.50 2.74 43.69 4.63
2834 3318 7.439655 GTCACATGGATAACTATGAAGGAGAAC 59.560 40.741 3.30 0.00 38.18 3.01
2845 3329 7.795047 ACATCTTCATGTCACATGGATAACTA 58.205 34.615 17.96 0.00 39.15 2.24
2846 3330 6.656902 ACATCTTCATGTCACATGGATAACT 58.343 36.000 17.96 0.00 39.15 2.24
2854 3338 9.017509 AGAAACATAAACATCTTCATGTCACAT 57.982 29.630 0.00 0.00 42.89 3.21
2855 3339 8.394971 AGAAACATAAACATCTTCATGTCACA 57.605 30.769 0.00 0.00 42.89 3.58
2932 3416 4.159321 TGAAAAAGTGCACAATCTCCAACA 59.841 37.500 21.04 4.48 0.00 3.33
3022 3506 5.458041 AGAGCCAACTTACACGTAACTTA 57.542 39.130 0.00 0.00 0.00 2.24
3187 3671 4.845580 ATTCCGGCTGGCAGCTCG 62.846 66.667 35.73 32.76 41.99 5.03
3651 4138 1.939934 CCTTTGTCTGTGAACTTCGCA 59.060 47.619 4.96 4.96 35.36 5.10
3765 4252 7.770433 TCTGTAGCTGAAATAATATGTGCAAGT 59.230 33.333 0.00 0.00 0.00 3.16
3800 4287 1.533625 CACAAATCTCCCGAGGCAAA 58.466 50.000 0.00 0.00 0.00 3.68
3942 4429 1.005340 GCAATCTTGAGAGAGCACGG 58.995 55.000 0.00 0.00 34.85 4.94
4113 4600 5.940470 AGCTTGACCAGATACTAAAGGTTTG 59.060 40.000 0.00 0.00 33.77 2.93
4257 4765 1.891178 TCGACTTCGTAACAGCATCG 58.109 50.000 0.00 0.00 40.80 3.84
4290 4798 3.111098 GTGTTGCAACTTTGAAGAGCAG 58.889 45.455 28.61 0.00 39.92 4.24
4291 4799 2.491298 TGTGTTGCAACTTTGAAGAGCA 59.509 40.909 28.61 11.28 38.24 4.26
4327 4835 2.045561 TCCTTCGAGTTGGTTGCAAA 57.954 45.000 0.00 0.00 0.00 3.68
4637 5154 4.764679 TGTGATGATTTTTCCTGGAACG 57.235 40.909 9.04 0.00 0.00 3.95
4803 5320 3.505680 CAGGAGATGAAGATCTACTCCCG 59.494 52.174 22.80 15.24 45.71 5.14
5308 5840 0.321564 TGAGAAGGGGCAATGTCACG 60.322 55.000 0.00 0.00 0.00 4.35
5316 5848 0.037303 CTTGAAGCTGAGAAGGGGCA 59.963 55.000 0.00 0.00 0.00 5.36
5355 5890 3.569701 TCTCTTGCTTCACCAAAATGACC 59.430 43.478 0.00 0.00 0.00 4.02
5415 5950 3.432749 GCAATGATAAGTGAGCCCTCTGA 60.433 47.826 0.00 0.00 0.00 3.27
5545 6080 3.555168 CCAGGTACAGGAAGACACTTGTC 60.555 52.174 0.77 0.77 40.61 3.18
5611 6146 9.834628 TCCATAAAAATGTCGATAAAAACAGAC 57.165 29.630 0.00 0.00 0.00 3.51
5912 6447 5.093849 TCCAATTTACTACCAGTACTGCC 57.906 43.478 17.86 0.00 28.93 4.85
5913 6448 7.335924 TCAAATCCAATTTACTACCAGTACTGC 59.664 37.037 17.86 0.00 28.93 4.40
5914 6449 8.786826 TCAAATCCAATTTACTACCAGTACTG 57.213 34.615 16.34 16.34 28.93 2.74
5915 6450 9.449719 CTTCAAATCCAATTTACTACCAGTACT 57.550 33.333 0.00 0.00 28.93 2.73
5916 6451 9.227777 ACTTCAAATCCAATTTACTACCAGTAC 57.772 33.333 0.00 0.00 28.93 2.73
5917 6452 9.444600 GACTTCAAATCCAATTTACTACCAGTA 57.555 33.333 0.00 0.00 0.00 2.74
5918 6453 8.164070 AGACTTCAAATCCAATTTACTACCAGT 58.836 33.333 0.00 0.00 0.00 4.00
5919 6454 8.567285 AGACTTCAAATCCAATTTACTACCAG 57.433 34.615 0.00 0.00 0.00 4.00
5920 6455 8.934023 AAGACTTCAAATCCAATTTACTACCA 57.066 30.769 0.00 0.00 0.00 3.25
5973 6517 1.610522 CACCCAAGACTTCAGCCTTTG 59.389 52.381 0.00 0.00 0.00 2.77
6062 6612 2.288948 GCACATCAACTGGGAATGCAAA 60.289 45.455 0.00 0.00 34.70 3.68
6088 6653 8.451908 AACTATCCTTTGATTCTTTAATCCCG 57.548 34.615 0.00 0.00 40.78 5.14
6373 6938 1.408822 GGAGAAAGGCCAGGTACATGG 60.409 57.143 22.17 22.17 43.72 3.66
6385 6950 4.122776 CAGGTGATACGAATGGAGAAAGG 58.877 47.826 0.00 0.00 0.00 3.11
6410 6975 1.250840 GGGGCAGGCAAACCACTTAG 61.251 60.000 0.00 0.00 39.06 2.18
6625 7190 6.252967 ACATTTAGATCAATGTCAAACGCA 57.747 33.333 5.76 0.00 42.63 5.24
6793 7358 9.436957 GAGTTTGAGATAAACTGGTTATTCTCA 57.563 33.333 16.60 16.60 40.27 3.27
6946 7511 0.535780 TCCTTTGTGCAGGCTCTGTG 60.536 55.000 0.00 0.00 33.35 3.66
7003 7568 3.239449 TCTAAGACCAGCAACTTGAGGA 58.761 45.455 7.48 0.00 0.00 3.71
7187 7752 2.749076 CTGAATCACTTCCGAATTGGCA 59.251 45.455 0.00 0.00 37.80 4.92
7387 7952 1.098712 TTGACCCAACAAGTGACGGC 61.099 55.000 0.00 0.00 0.00 5.68
7618 8183 3.368531 GGTACATTCTCGTTTGCTCCTCT 60.369 47.826 0.00 0.00 0.00 3.69
7696 8261 8.780249 CATGACAATTGCTTGTATGATGATCTA 58.220 33.333 5.05 0.00 45.57 1.98
7731 8299 0.884704 TGCAAGGTCTCGCCAAAGTC 60.885 55.000 0.00 0.00 40.61 3.01
7763 8334 4.573900 AGATACAAACAAGCTCACCAGAG 58.426 43.478 0.00 0.00 44.96 3.35
7783 8354 8.445588 AGGGTCTTTAAAGTTGGATTTTCTAGA 58.554 33.333 14.74 0.00 0.00 2.43
7837 8431 2.224161 GCAAACATAAAAGCACCCACCA 60.224 45.455 0.00 0.00 0.00 4.17
8138 8741 5.278660 GCTTGAGGTGTTTGAAGATGACAAT 60.279 40.000 0.00 0.00 0.00 2.71
8142 8745 3.149196 GGCTTGAGGTGTTTGAAGATGA 58.851 45.455 0.00 0.00 0.00 2.92
8267 8875 4.380531 CAGGATACATGTCACGGCTAAAT 58.619 43.478 0.00 0.00 41.41 1.40
8306 8915 8.763049 TTATTAATTCCTGATCTACTGATGCG 57.237 34.615 0.00 0.00 32.19 4.73
8325 8934 4.159506 GGGTCAGCCACAGCAAATTATTAA 59.840 41.667 0.00 0.00 43.56 1.40
8359 8970 4.704540 TCAACACAGAACAGAAACCAACAT 59.295 37.500 0.00 0.00 0.00 2.71
8384 8995 5.276207 CGCAGCAAAATAGAGCATTTGAATG 60.276 40.000 2.66 0.00 38.50 2.67
8385 8996 4.802039 CGCAGCAAAATAGAGCATTTGAAT 59.198 37.500 2.66 0.00 38.50 2.57
8386 8997 4.082841 TCGCAGCAAAATAGAGCATTTGAA 60.083 37.500 2.66 0.00 38.50 2.69
8387 8998 3.439825 TCGCAGCAAAATAGAGCATTTGA 59.560 39.130 2.66 0.00 38.50 2.69
8465 9090 0.863144 AATTTACAACAGACGCGCGT 59.137 45.000 38.52 38.52 0.00 6.01
8489 9114 4.532126 AGATGACACCAACCAAGTAGATGA 59.468 41.667 0.00 0.00 0.00 2.92
8522 9147 3.376859 TCGATGCAGCGGTCAAAAATTAT 59.623 39.130 25.69 0.00 0.00 1.28
8535 9160 2.013483 CGACGGAGATCGATGCAGC 61.013 63.158 0.54 0.00 45.13 5.25
8552 9180 3.803082 CAGCAATGCCCACGACCG 61.803 66.667 0.00 0.00 0.00 4.79
8601 9230 4.142609 TGTTTACTCATGGAGATCAGCC 57.857 45.455 0.00 0.00 33.32 4.85
8622 9251 7.883311 ACAAGTAGTAGCAGAATACAAATGGTT 59.117 33.333 0.00 0.00 0.00 3.67
8623 9252 7.394816 ACAAGTAGTAGCAGAATACAAATGGT 58.605 34.615 0.00 0.00 0.00 3.55
8624 9253 7.549134 TGACAAGTAGTAGCAGAATACAAATGG 59.451 37.037 0.00 0.00 0.00 3.16
8647 9276 6.366315 ACTGTAGAGATGTCGAAGTATGAC 57.634 41.667 0.00 0.00 36.88 3.06
8649 9278 7.219154 GTCAAACTGTAGAGATGTCGAAGTATG 59.781 40.741 0.00 0.00 0.00 2.39
8650 9279 7.094334 TGTCAAACTGTAGAGATGTCGAAGTAT 60.094 37.037 0.00 0.00 0.00 2.12
8652 9281 5.009710 TGTCAAACTGTAGAGATGTCGAAGT 59.990 40.000 0.00 0.00 0.00 3.01
8653 9282 5.461526 TGTCAAACTGTAGAGATGTCGAAG 58.538 41.667 0.00 0.00 0.00 3.79
8671 9304 0.770166 TCCTGGGGGTGTCATGTCAA 60.770 55.000 0.00 0.00 0.00 3.18
8694 9327 0.684805 ATCGCCGGGTCTCTTCTCTT 60.685 55.000 2.18 0.00 0.00 2.85
8695 9328 1.076632 ATCGCCGGGTCTCTTCTCT 60.077 57.895 2.18 0.00 0.00 3.10
8696 9329 1.066587 CATCGCCGGGTCTCTTCTC 59.933 63.158 2.18 0.00 0.00 2.87
8697 9330 0.970937 TTCATCGCCGGGTCTCTTCT 60.971 55.000 2.18 0.00 0.00 2.85
8698 9331 0.108329 TTTCATCGCCGGGTCTCTTC 60.108 55.000 2.18 0.00 0.00 2.87
8699 9332 0.108138 CTTTCATCGCCGGGTCTCTT 60.108 55.000 2.18 0.00 0.00 2.85
8700 9333 1.517832 CTTTCATCGCCGGGTCTCT 59.482 57.895 2.18 0.00 0.00 3.10
8701 9334 2.174319 GCTTTCATCGCCGGGTCTC 61.174 63.158 2.18 0.00 0.00 3.36
8702 9335 2.125106 GCTTTCATCGCCGGGTCT 60.125 61.111 2.18 0.00 0.00 3.85
8715 9348 1.135859 CGCTTCATCTTCGCTTGCTTT 60.136 47.619 0.00 0.00 0.00 3.51
8723 9356 1.002366 CCTGTTCCGCTTCATCTTCG 58.998 55.000 0.00 0.00 0.00 3.79
8845 9478 3.415087 AGGGGCATCCTGTCCTGC 61.415 66.667 0.00 0.00 46.07 4.85
8865 9498 2.551912 GGCAGTGGTTTCCGTGGTG 61.552 63.158 0.00 0.00 0.00 4.17
8935 9571 4.379243 CGTGCCTGTCGCCTTCCT 62.379 66.667 0.00 0.00 36.24 3.36
9023 9679 1.803453 AAAGGAAGGCATGGCAGGGA 61.803 55.000 22.64 0.00 0.00 4.20
9054 9710 1.119684 GGAAAGAGAGAGAGGAGGCC 58.880 60.000 0.00 0.00 0.00 5.19
9060 9717 0.099791 GGACGCGGAAAGAGAGAGAG 59.900 60.000 12.47 0.00 0.00 3.20
9061 9718 1.313812 GGGACGCGGAAAGAGAGAGA 61.314 60.000 12.47 0.00 0.00 3.10
9062 9719 1.139947 GGGACGCGGAAAGAGAGAG 59.860 63.158 12.47 0.00 0.00 3.20
9063 9720 3.285371 GGGACGCGGAAAGAGAGA 58.715 61.111 12.47 0.00 0.00 3.10
9094 9756 3.740397 CCTACGTGGTGCGACGGA 61.740 66.667 11.06 1.75 43.84 4.69
9114 9776 1.606601 CGGGAGACTGGACTGGACA 60.607 63.158 0.00 0.00 0.00 4.02
9223 9908 3.432588 CGCTGTCGAGAGGGACGT 61.433 66.667 20.37 0.00 39.83 4.34
9283 9968 1.576421 GACTGGGTCGACGTACGTT 59.424 57.895 23.70 6.19 43.13 3.99
9298 9983 1.705873 GGATGATGTAGACGGGGACT 58.294 55.000 0.00 0.00 0.00 3.85
9301 9986 0.314302 GACGGATGATGTAGACGGGG 59.686 60.000 0.00 0.00 0.00 5.73
9308 9993 5.551305 AAATGGAGATGACGGATGATGTA 57.449 39.130 0.00 0.00 0.00 2.29


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

AutoCloner maintained by Alex Coulton.