Multiple sequence alignment - TraesCS6B01G331200

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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 TraesCS6B01G331200 chr6B 100.000 3683 0 0 2092 5774 582338055 582341737 0.000000e+00 6802
1 TraesCS6B01G331200 chr6B 100.000 1829 0 0 1 1829 582335964 582337792 0.000000e+00 3378
2 TraesCS6B01G331200 chr6A 92.946 2254 113 24 3169 5413 535819130 535821346 0.000000e+00 3240
3 TraesCS6B01G331200 chr6A 94.671 957 45 3 873 1829 535816685 535817635 0.000000e+00 1480
4 TraesCS6B01G331200 chr6A 91.041 893 41 19 21 884 535815425 535816307 0.000000e+00 1170
5 TraesCS6B01G331200 chr6A 95.549 674 26 4 2092 2762 535817724 535818396 0.000000e+00 1075
6 TraesCS6B01G331200 chr6A 99.029 103 1 0 2761 2863 535818480 535818582 9.880000e-43 185
7 TraesCS6B01G331200 chr6A 93.056 72 5 0 2860 2931 535819061 535819132 7.910000e-19 106
8 TraesCS6B01G331200 chr6D 93.815 2102 85 13 3326 5398 389302340 389304425 0.000000e+00 3120
9 TraesCS6B01G331200 chr6D 91.518 1627 88 19 230 1829 389298298 389299901 0.000000e+00 2194
10 TraesCS6B01G331200 chr6D 92.593 459 23 2 2864 3321 389301842 389302290 0.000000e+00 649
11 TraesCS6B01G331200 chr6D 93.593 359 17 5 2407 2762 389300253 389300608 1.100000e-146 531
12 TraesCS6B01G331200 chr6D 96.198 263 10 0 2092 2354 389299993 389300255 1.150000e-116 431
13 TraesCS6B01G331200 chr6D 80.690 290 41 10 5431 5705 389304424 389304713 1.630000e-50 211
14 TraesCS6B01G331200 chr6D 92.105 152 4 2 21 164 389297665 389297816 2.110000e-49 207
15 TraesCS6B01G331200 chr6D 99.099 111 1 0 2753 2863 389301084 389301194 3.530000e-47 200


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 TraesCS6B01G331200 chr6B 582335964 582341737 5773 False 5090.000000 6802 100.000000 1 5774 2 chr6B.!!$F1 5773
1 TraesCS6B01G331200 chr6A 535815425 535821346 5921 False 1209.333333 3240 94.382000 21 5413 6 chr6A.!!$F1 5392
2 TraesCS6B01G331200 chr6D 389297665 389304713 7048 False 942.875000 3120 92.451375 21 5705 8 chr6D.!!$F1 5684

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
966 1813 0.109504 GGCCGCGATTTTGCTGTTAA 60.110 50.0 8.23 0.00 0.00 2.01 F
1195 2042 0.486879 TGGGGCATCAGGAAACCTTT 59.513 50.0 0.00 0.00 0.00 3.11 F
1610 2457 0.548031 GTCCAGCATCCTCCAATGGA 59.452 55.0 0.48 0.48 40.82 3.41 F
3490 5525 0.106708 TCATCGTTGCTATCCCTGCC 59.893 55.0 0.00 0.00 0.00 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2907 4895 0.517316 CGAGAAGCCAAAAGAACCCG 59.483 55.0 0.0 0.00 0.0 5.28 R
2918 4906 2.031069 GTGAAAGGGAAAACGAGAAGCC 60.031 50.0 0.0 0.00 0.0 4.35 R
3514 5549 0.321996 AAGAGGGACGCAGAAGAACC 59.678 55.0 0.0 0.00 0.0 3.62 R
5071 7145 0.037882 ACATCCACGTGCTGACTGAG 60.038 55.0 19.4 1.15 0.0 3.35 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
219 251 3.454858 ACCAGAGAGAGAGAGAGAGAGT 58.545 50.000 0.00 0.00 0.00 3.24
220 252 3.452627 ACCAGAGAGAGAGAGAGAGAGTC 59.547 52.174 0.00 0.00 0.00 3.36
221 253 3.181461 CCAGAGAGAGAGAGAGAGAGTCC 60.181 56.522 0.00 0.00 0.00 3.85
222 254 3.041946 AGAGAGAGAGAGAGAGAGTCCC 58.958 54.545 0.00 0.00 0.00 4.46
223 255 3.041946 GAGAGAGAGAGAGAGAGTCCCT 58.958 54.545 0.00 0.00 0.00 4.20
224 256 3.456277 GAGAGAGAGAGAGAGAGTCCCTT 59.544 52.174 0.00 0.00 0.00 3.95
225 257 3.456277 AGAGAGAGAGAGAGAGTCCCTTC 59.544 52.174 0.00 0.00 0.00 3.46
226 258 2.509964 AGAGAGAGAGAGAGTCCCTTCC 59.490 54.545 0.00 0.00 0.00 3.46
227 259 1.569072 AGAGAGAGAGAGTCCCTTCCC 59.431 57.143 0.00 0.00 0.00 3.97
228 260 1.286553 GAGAGAGAGAGTCCCTTCCCA 59.713 57.143 0.00 0.00 0.00 4.37
371 802 1.228306 TGTAGGTTTTGGCCCGGTG 60.228 57.895 0.00 0.00 0.00 4.94
437 868 2.386661 TTCCTGTCAGATTCGGCTTC 57.613 50.000 0.00 0.00 0.00 3.86
474 909 0.181350 AGCTGGAATCCCCGTTGATC 59.819 55.000 0.00 0.00 37.93 2.92
503 938 1.269102 CGATAGACTCGCCGTTTCCAT 60.269 52.381 0.00 0.00 41.14 3.41
605 1053 2.558265 TTAACGCGCATTACGTCCTA 57.442 45.000 5.73 0.00 44.30 2.94
612 1060 3.059044 CGCGCATTACGTCCTATGTATTC 59.941 47.826 8.75 0.00 46.11 1.75
613 1061 4.235360 GCGCATTACGTCCTATGTATTCT 58.765 43.478 0.30 0.00 46.11 2.40
733 1192 0.671251 CAGTTAGCTCCTAGCCTCCG 59.329 60.000 0.00 0.00 43.77 4.63
743 1202 2.374830 CTAGCCTCCGAGCACATGGG 62.375 65.000 0.00 0.00 34.23 4.00
747 1206 0.533755 CCTCCGAGCACATGGGATTC 60.534 60.000 0.00 0.00 34.92 2.52
749 1208 0.982852 TCCGAGCACATGGGATTCCT 60.983 55.000 0.00 0.00 29.43 3.36
759 1218 1.937191 TGGGATTCCTTTTGCTTCCC 58.063 50.000 2.01 0.00 45.28 3.97
762 1221 1.893137 GGATTCCTTTTGCTTCCCGTT 59.107 47.619 0.00 0.00 0.00 4.44
771 1230 0.981183 TGCTTCCCGTTGTCCTGTAT 59.019 50.000 0.00 0.00 0.00 2.29
773 1232 2.769663 TGCTTCCCGTTGTCCTGTATAT 59.230 45.455 0.00 0.00 0.00 0.86
774 1233 3.962063 TGCTTCCCGTTGTCCTGTATATA 59.038 43.478 0.00 0.00 0.00 0.86
776 1235 4.989168 GCTTCCCGTTGTCCTGTATATAAG 59.011 45.833 0.00 0.00 0.00 1.73
777 1236 5.221382 GCTTCCCGTTGTCCTGTATATAAGA 60.221 44.000 0.00 0.00 0.00 2.10
778 1237 5.779529 TCCCGTTGTCCTGTATATAAGAC 57.220 43.478 3.10 3.10 0.00 3.01
779 1238 4.276678 TCCCGTTGTCCTGTATATAAGACG 59.723 45.833 0.00 0.00 31.75 4.18
796 1255 1.336755 GACGGCACAACCATTTTCACT 59.663 47.619 0.00 0.00 39.03 3.41
807 1266 5.446143 ACCATTTTCACTATTCGCAAACA 57.554 34.783 0.00 0.00 0.00 2.83
832 1291 4.066646 GCCCTTTGTTTTGGCTCTAAAA 57.933 40.909 0.00 0.00 42.01 1.52
891 1738 9.154847 CTTTCTCAACACAGTATGAATACATCA 57.845 33.333 3.43 0.00 43.67 3.07
947 1794 6.597262 TGCAGTTGTATTATATGGTTGTCG 57.403 37.500 0.00 0.00 0.00 4.35
950 1797 5.049680 CAGTTGTATTATATGGTTGTCGGCC 60.050 44.000 0.00 0.00 0.00 6.13
951 1798 3.655486 TGTATTATATGGTTGTCGGCCG 58.345 45.455 22.12 22.12 0.00 6.13
966 1813 0.109504 GGCCGCGATTTTGCTGTTAA 60.110 50.000 8.23 0.00 0.00 2.01
968 1815 1.846175 GCCGCGATTTTGCTGTTAATC 59.154 47.619 8.23 0.00 0.00 1.75
969 1816 2.477863 GCCGCGATTTTGCTGTTAATCT 60.478 45.455 8.23 0.00 0.00 2.40
972 1819 4.158384 CGCGATTTTGCTGTTAATCTTGT 58.842 39.130 0.00 0.00 0.00 3.16
987 1834 7.225931 TGTTAATCTTGTCAAGTTGGTGAGTAC 59.774 37.037 12.30 0.00 0.00 2.73
1113 1960 3.009916 AGAATGCAGGTGGAGTCAAGATT 59.990 43.478 1.79 0.00 32.88 2.40
1122 1969 2.758979 TGGAGTCAAGATTAGTCGGGTC 59.241 50.000 0.00 0.00 0.00 4.46
1195 2042 0.486879 TGGGGCATCAGGAAACCTTT 59.513 50.000 0.00 0.00 0.00 3.11
1204 2051 5.463392 GCATCAGGAAACCTTTTTGAAGTTC 59.537 40.000 0.00 0.00 0.00 3.01
1317 2164 6.105333 GCTACTATCCAAGGATGATGATGAC 58.895 44.000 11.82 0.00 36.17 3.06
1319 2166 2.245159 TCCAAGGATGATGATGACGC 57.755 50.000 0.00 0.00 0.00 5.19
1332 2179 1.421410 ATGACGCGAGGAATCGTTGC 61.421 55.000 15.93 5.16 39.22 4.17
1338 2185 1.864435 GCGAGGAATCGTTGCGTATCT 60.864 52.381 0.00 0.00 35.26 1.98
1540 2387 6.378280 GGTTGTATCACCAGGAAATCAGAATT 59.622 38.462 0.00 0.00 36.73 2.17
1610 2457 0.548031 GTCCAGCATCCTCCAATGGA 59.452 55.000 0.48 0.48 40.82 3.41
1700 2547 7.048629 TGTTTACATGAATTTCTTGCTTCCA 57.951 32.000 0.00 3.01 0.00 3.53
1712 2559 7.701539 TTTCTTGCTTCCACATGTATTGTAT 57.298 32.000 0.00 0.00 36.57 2.29
1753 2600 7.554118 CCATGTGAACATACACCTTATCTCTTT 59.446 37.037 0.00 0.00 39.69 2.52
1787 2634 4.286297 ACAGCTGCTTTTATGTGGACTA 57.714 40.909 15.27 0.00 0.00 2.59
2201 3048 6.408869 TGAATTCAATGCAGACAGATACTCA 58.591 36.000 5.45 0.00 0.00 3.41
2226 3073 1.140452 GAGCTGCAGAGATGGGATTCA 59.860 52.381 20.43 0.00 0.00 2.57
2323 3170 9.962759 CGTAAGTTGTTTTACACCTACAATATC 57.037 33.333 0.00 0.00 34.63 1.63
2354 3201 3.371591 GTCAAAATTATGCCGACGGTGTA 59.628 43.478 16.73 6.02 0.00 2.90
2382 3229 4.764679 TCAATTTGTATGGTGTCACTGC 57.235 40.909 2.35 0.00 0.00 4.40
2408 3255 6.534079 GGTTAGTAGCGAATAGTTGTGATTGT 59.466 38.462 0.00 0.00 0.00 2.71
2613 3463 7.062605 CACAAAATATTTCATGACCAGCTCAAC 59.937 37.037 0.10 0.00 30.60 3.18
2698 3548 3.832527 AGTAGGCAGTTGGTGTCATTTT 58.167 40.909 0.00 0.00 30.67 1.82
2907 4895 5.509670 GCCTATTTGGGCCAATTATTGACTC 60.510 44.000 21.65 0.00 45.92 3.36
2911 4899 1.409661 GGGCCAATTATTGACTCGGGT 60.410 52.381 4.39 0.00 0.00 5.28
2912 4900 2.375146 GGCCAATTATTGACTCGGGTT 58.625 47.619 6.50 0.00 0.00 4.11
2913 4901 2.357952 GGCCAATTATTGACTCGGGTTC 59.642 50.000 6.50 0.00 0.00 3.62
2914 4902 3.279434 GCCAATTATTGACTCGGGTTCT 58.721 45.455 6.50 0.00 0.00 3.01
2915 4903 3.694566 GCCAATTATTGACTCGGGTTCTT 59.305 43.478 6.50 0.00 0.00 2.52
2916 4904 4.157840 GCCAATTATTGACTCGGGTTCTTT 59.842 41.667 6.50 0.00 0.00 2.52
2917 4905 5.336451 GCCAATTATTGACTCGGGTTCTTTT 60.336 40.000 6.50 0.00 0.00 2.27
2918 4906 6.092748 CCAATTATTGACTCGGGTTCTTTTG 58.907 40.000 6.50 0.00 0.00 2.44
2919 4907 5.897377 ATTATTGACTCGGGTTCTTTTGG 57.103 39.130 0.00 0.00 0.00 3.28
2920 4908 1.314730 TTGACTCGGGTTCTTTTGGC 58.685 50.000 0.00 0.00 0.00 4.52
2938 4926 2.227194 GGCTTCTCGTTTTCCCTTTCA 58.773 47.619 0.00 0.00 0.00 2.69
2982 4970 6.505044 TTCTTTGACTCATTGACCATGATG 57.495 37.500 0.00 0.00 41.35 3.07
2990 4978 5.421056 ACTCATTGACCATGATGATTTTGCT 59.579 36.000 0.00 0.00 41.35 3.91
2991 4979 5.656480 TCATTGACCATGATGATTTTGCTG 58.344 37.500 0.00 0.00 36.94 4.41
3015 5004 2.046729 TGGGACCCTGGGTAGAATTAGT 59.953 50.000 20.61 0.00 35.25 2.24
3017 5006 3.136077 GGGACCCTGGGTAGAATTAGTTC 59.864 52.174 20.61 1.47 35.25 3.01
3099 5088 2.303022 CCTTAGGAGTCAAAGCACCTGA 59.697 50.000 0.00 0.00 34.42 3.86
3103 5092 2.079925 GGAGTCAAAGCACCTGATGAC 58.920 52.381 0.00 0.00 41.88 3.06
3256 5245 7.111247 TCTCAGACATGGTGTTTGAATTTTT 57.889 32.000 0.00 0.00 40.33 1.94
3333 5367 4.270808 GTGCATTAAGTATGGGCAAATTGC 59.729 41.667 9.87 9.87 37.40 3.56
3348 5382 5.517770 GGCAAATTGCTACAAGCTTAGATTG 59.482 40.000 18.04 8.79 44.28 2.67
3370 5404 4.022935 TGCAGTGAAAAGGCAAACTGATAG 60.023 41.667 5.87 0.00 42.09 2.08
3424 5459 6.265577 GCAAGGGCTGTACATAAATAAACTG 58.734 40.000 0.00 0.00 36.96 3.16
3429 5464 6.260271 GGGCTGTACATAAATAAACTGAGGAC 59.740 42.308 0.00 0.00 0.00 3.85
3490 5525 0.106708 TCATCGTTGCTATCCCTGCC 59.893 55.000 0.00 0.00 0.00 4.85
3543 5578 1.882352 GCGTCCCTCTTTCCATGTGTT 60.882 52.381 0.00 0.00 0.00 3.32
3544 5579 2.504367 CGTCCCTCTTTCCATGTGTTT 58.496 47.619 0.00 0.00 0.00 2.83
3602 5637 2.501723 TGCTCCTTATTCACCTGTCCTC 59.498 50.000 0.00 0.00 0.00 3.71
3678 5713 1.956477 TGAGGCCTTTCTGAAGCAAAC 59.044 47.619 6.77 0.00 0.00 2.93
3681 5716 1.683385 GGCCTTTCTGAAGCAAACTGT 59.317 47.619 0.00 0.00 0.00 3.55
3740 5776 1.141657 TGAGCAGGATATTGCAGGACC 59.858 52.381 2.38 0.00 46.47 4.46
3789 5825 2.327343 GCTGCCAAGATCGTGTGCA 61.327 57.895 18.30 18.30 0.00 4.57
3837 5873 0.620030 TGGAGCAGCAGCCATAGAAA 59.380 50.000 0.00 0.00 43.56 2.52
3985 6038 3.653344 TCACTTCCAATGAACTGAGTCG 58.347 45.455 0.00 0.00 0.00 4.18
4036 6089 1.410153 CCAAAGGTTGCAGAGCTTGTT 59.590 47.619 12.07 0.00 44.94 2.83
4196 6249 5.692204 GCATAGCACGATAATGTGAGTTAGT 59.308 40.000 0.00 0.00 42.55 2.24
4253 6306 8.088365 GGCCTTCAAAGTTAGTTGAATGTATTT 58.912 33.333 0.00 0.00 44.38 1.40
4315 6368 6.091713 CCTTTTGTCATTGAAAATCTCATGGC 59.908 38.462 0.00 0.00 32.78 4.40
4455 6511 4.617253 TGTGTAGCATTCACTACCTTGT 57.383 40.909 0.00 0.00 41.57 3.16
4457 6513 4.283467 TGTGTAGCATTCACTACCTTGTCT 59.717 41.667 0.00 0.00 41.57 3.41
4458 6514 4.627467 GTGTAGCATTCACTACCTTGTCTG 59.373 45.833 0.00 0.00 41.57 3.51
4459 6515 4.526650 TGTAGCATTCACTACCTTGTCTGA 59.473 41.667 0.00 0.00 41.57 3.27
4460 6516 4.623932 AGCATTCACTACCTTGTCTGAA 57.376 40.909 0.00 0.00 0.00 3.02
4461 6517 4.973168 AGCATTCACTACCTTGTCTGAAA 58.027 39.130 0.00 0.00 0.00 2.69
4462 6518 4.999950 AGCATTCACTACCTTGTCTGAAAG 59.000 41.667 0.00 0.00 0.00 2.62
4463 6519 4.997395 GCATTCACTACCTTGTCTGAAAGA 59.003 41.667 0.00 0.00 43.69 2.52
4540 6605 5.312895 TGTGTGGTGACTTGTTATGCTATT 58.687 37.500 0.00 0.00 0.00 1.73
4577 6642 7.754924 TCTGTGATCAACTTTGTTCTTTTTGTC 59.245 33.333 0.00 0.00 0.00 3.18
4598 6663 5.241064 TGTCTGAAGACCAGTTCACTACTAC 59.759 44.000 7.96 0.00 44.15 2.73
4632 6697 5.636903 ATCTGCATATTCCCTTACTGTGT 57.363 39.130 0.00 0.00 0.00 3.72
4658 6723 6.211587 TGGAGTATTTCATTGCTTGATTGG 57.788 37.500 0.00 0.00 33.34 3.16
4793 6858 0.463654 TCATCAATTCTTCGCCGGGG 60.464 55.000 13.31 13.31 0.00 5.73
4836 6901 4.577283 GGTTGTGCTCTGGTAAACTTGTTA 59.423 41.667 0.00 0.00 0.00 2.41
4886 6951 8.514594 TGGATCTTTTTGAATCAAGATGTGTAC 58.485 33.333 1.05 0.00 39.41 2.90
4890 6955 7.658167 TCTTTTTGAATCAAGATGTGTACGGTA 59.342 33.333 0.00 0.00 0.00 4.02
4921 6986 3.008704 TCAACTAGCAAGTTAGGGGGTTC 59.991 47.826 0.00 0.00 44.28 3.62
4945 7010 2.381911 AGTAGGAAATTCGGCCGTAGA 58.618 47.619 27.15 13.13 0.00 2.59
4964 7029 8.193438 GCCGTAGAGATTACTCCTAACTTAAAA 58.807 37.037 0.00 0.00 43.53 1.52
4995 7060 3.005684 AGCATCTTAGCCTCTGAAGATCG 59.994 47.826 0.00 0.00 39.79 3.69
4996 7061 3.243704 GCATCTTAGCCTCTGAAGATCGT 60.244 47.826 0.00 0.00 39.79 3.73
4998 7063 3.892284 TCTTAGCCTCTGAAGATCGTCT 58.108 45.455 10.08 0.00 0.00 4.18
5020 7085 7.305993 CGTCTGAGGAAATGCTTTTGTAAAAAC 60.306 37.037 1.76 0.00 0.00 2.43
5069 7143 2.365617 TGTGACAGGAGTCCTTTCAGTC 59.634 50.000 25.26 20.72 40.44 3.51
5070 7144 1.613925 TGACAGGAGTCCTTTCAGTCG 59.386 52.381 21.76 6.42 44.33 4.18
5071 7145 0.318762 ACAGGAGTCCTTTCAGTCGC 59.681 55.000 9.68 0.00 0.00 5.19
5072 7146 0.605589 CAGGAGTCCTTTCAGTCGCT 59.394 55.000 9.68 0.00 0.00 4.93
5073 7147 0.892063 AGGAGTCCTTTCAGTCGCTC 59.108 55.000 5.62 0.00 0.00 5.03
5074 7148 0.603569 GGAGTCCTTTCAGTCGCTCA 59.396 55.000 0.41 0.00 0.00 4.26
5075 7149 1.403514 GGAGTCCTTTCAGTCGCTCAG 60.404 57.143 0.41 0.00 0.00 3.35
5076 7150 1.271102 GAGTCCTTTCAGTCGCTCAGT 59.729 52.381 0.00 0.00 0.00 3.41
5077 7151 1.271102 AGTCCTTTCAGTCGCTCAGTC 59.729 52.381 0.00 0.00 0.00 3.51
5078 7152 1.000163 GTCCTTTCAGTCGCTCAGTCA 60.000 52.381 0.00 0.00 0.00 3.41
5160 7234 8.243426 GGAAGTGCAAATAATGTCATTTGACTA 58.757 33.333 11.67 0.00 44.96 2.59
5398 7475 1.001974 CCATCCTGTTTCTGACGTGGA 59.998 52.381 0.00 0.00 37.71 4.02
5413 7490 8.160521 TCTGACGTGGAAATTTGATAAAGAAA 57.839 30.769 0.00 0.00 0.00 2.52
5414 7491 8.792633 TCTGACGTGGAAATTTGATAAAGAAAT 58.207 29.630 0.00 0.00 0.00 2.17
5429 7506 8.950210 TGATAAAGAAATAGTTCAGCTTTCTGG 58.050 33.333 5.62 0.00 38.77 3.86
5430 7507 6.581171 AAAGAAATAGTTCAGCTTTCTGGG 57.419 37.500 5.62 0.00 38.77 4.45
5431 7508 4.593956 AGAAATAGTTCAGCTTTCTGGGG 58.406 43.478 5.62 0.00 40.69 4.96
5432 7509 3.372440 AATAGTTCAGCTTTCTGGGGG 57.628 47.619 0.00 0.00 40.69 5.40
5433 7510 2.038863 TAGTTCAGCTTTCTGGGGGA 57.961 50.000 0.00 0.00 40.69 4.81
5456 7533 8.887393 GGGATTTATTTAGGACCCTGATAAGTA 58.113 37.037 0.00 0.00 35.03 2.24
5464 7541 5.206587 AGGACCCTGATAAGTATTACACGT 58.793 41.667 0.00 0.00 30.46 4.49
5487 7564 4.640647 TGTGGCACAAACACATTACAACTA 59.359 37.500 19.74 0.00 44.16 2.24
5510 7587 9.423061 ACTATGAATGTTTTTATGGCAAGTTTC 57.577 29.630 0.00 0.00 0.00 2.78
5524 7601 5.945191 TGGCAAGTTTCATGATGTGAAGATA 59.055 36.000 0.00 0.00 46.85 1.98
5533 7610 9.897744 TTTCATGATGTGAAGATAACAACTTTC 57.102 29.630 0.00 0.00 46.85 2.62
5551 7650 9.087424 ACAACTTTCTTTTTGATAGCAAGTTTC 57.913 29.630 0.00 0.00 32.69 2.78
5596 7695 8.801715 TCTTTTCAGATGACAACTTTAATTGC 57.198 30.769 0.00 0.00 32.47 3.56
5623 7722 3.014085 TTAGGGCCGGAGTGCTTCG 62.014 63.158 5.05 0.00 0.00 3.79
5626 7725 4.681978 GGCCGGAGTGCTTCGTGT 62.682 66.667 5.05 0.00 0.00 4.49
5631 7730 0.667487 CGGAGTGCTTCGTGTCACAT 60.667 55.000 3.42 0.00 35.76 3.21
5632 7731 1.402325 CGGAGTGCTTCGTGTCACATA 60.402 52.381 3.42 0.00 35.76 2.29
5633 7732 2.735444 CGGAGTGCTTCGTGTCACATAT 60.735 50.000 3.42 0.00 35.76 1.78
5665 7773 8.621286 ACTTCTTTATTTATATTGTTCCTGGCG 58.379 33.333 0.00 0.00 0.00 5.69
5694 7802 6.126863 TCTCAAGGAGAAATTAAGCAGGAA 57.873 37.500 0.00 0.00 35.59 3.36
5705 7813 7.820872 AGAAATTAAGCAGGAACAAAATCATGG 59.179 33.333 0.00 0.00 32.00 3.66
5706 7814 6.855763 ATTAAGCAGGAACAAAATCATGGA 57.144 33.333 0.00 0.00 32.00 3.41
5707 7815 6.662865 TTAAGCAGGAACAAAATCATGGAA 57.337 33.333 0.00 0.00 32.00 3.53
5708 7816 5.549742 AAGCAGGAACAAAATCATGGAAA 57.450 34.783 0.00 0.00 32.00 3.13
5709 7817 5.549742 AGCAGGAACAAAATCATGGAAAA 57.450 34.783 0.00 0.00 32.00 2.29
5710 7818 5.299949 AGCAGGAACAAAATCATGGAAAAC 58.700 37.500 0.00 0.00 32.00 2.43
5711 7819 4.452114 GCAGGAACAAAATCATGGAAAACC 59.548 41.667 0.00 0.00 32.00 3.27
5712 7820 4.996758 CAGGAACAAAATCATGGAAAACCC 59.003 41.667 0.00 0.00 0.00 4.11
5723 7831 3.673543 TGGAAAACCCACAACCTAGTT 57.326 42.857 0.00 0.00 40.82 2.24
5724 7832 3.558033 TGGAAAACCCACAACCTAGTTC 58.442 45.455 0.00 0.00 40.82 3.01
5725 7833 2.889045 GGAAAACCCACAACCTAGTTCC 59.111 50.000 0.00 0.00 34.14 3.62
5726 7834 2.670019 AAACCCACAACCTAGTTCCC 57.330 50.000 0.00 0.00 0.00 3.97
5727 7835 0.775542 AACCCACAACCTAGTTCCCC 59.224 55.000 0.00 0.00 0.00 4.81
5728 7836 0.104090 ACCCACAACCTAGTTCCCCT 60.104 55.000 0.00 0.00 0.00 4.79
5729 7837 1.073098 CCCACAACCTAGTTCCCCTT 58.927 55.000 0.00 0.00 0.00 3.95
5730 7838 1.004394 CCCACAACCTAGTTCCCCTTC 59.996 57.143 0.00 0.00 0.00 3.46
5731 7839 1.985895 CCACAACCTAGTTCCCCTTCT 59.014 52.381 0.00 0.00 0.00 2.85
5732 7840 2.027100 CCACAACCTAGTTCCCCTTCTC 60.027 54.545 0.00 0.00 0.00 2.87
5733 7841 1.900486 ACAACCTAGTTCCCCTTCTCG 59.100 52.381 0.00 0.00 0.00 4.04
5734 7842 2.176889 CAACCTAGTTCCCCTTCTCGA 58.823 52.381 0.00 0.00 0.00 4.04
5735 7843 1.849977 ACCTAGTTCCCCTTCTCGAC 58.150 55.000 0.00 0.00 0.00 4.20
5736 7844 1.358445 ACCTAGTTCCCCTTCTCGACT 59.642 52.381 0.00 0.00 0.00 4.18
5737 7845 2.579860 ACCTAGTTCCCCTTCTCGACTA 59.420 50.000 0.00 0.00 0.00 2.59
5738 7846 2.950975 CCTAGTTCCCCTTCTCGACTAC 59.049 54.545 0.00 0.00 0.00 2.73
5739 7847 2.599408 AGTTCCCCTTCTCGACTACA 57.401 50.000 0.00 0.00 0.00 2.74
5740 7848 3.103080 AGTTCCCCTTCTCGACTACAT 57.897 47.619 0.00 0.00 0.00 2.29
5741 7849 2.761208 AGTTCCCCTTCTCGACTACATG 59.239 50.000 0.00 0.00 0.00 3.21
5742 7850 2.496470 GTTCCCCTTCTCGACTACATGT 59.504 50.000 2.69 2.69 0.00 3.21
5743 7851 2.376109 TCCCCTTCTCGACTACATGTC 58.624 52.381 0.00 0.00 42.06 3.06
5744 7852 1.409427 CCCCTTCTCGACTACATGTCC 59.591 57.143 0.00 0.00 42.49 4.02
5745 7853 1.409427 CCCTTCTCGACTACATGTCCC 59.591 57.143 0.00 0.00 42.49 4.46
5746 7854 1.409427 CCTTCTCGACTACATGTCCCC 59.591 57.143 0.00 0.00 42.49 4.81
5747 7855 2.379972 CTTCTCGACTACATGTCCCCT 58.620 52.381 0.00 0.00 42.49 4.79
5748 7856 1.763968 TCTCGACTACATGTCCCCTG 58.236 55.000 0.00 0.00 42.49 4.45
5749 7857 0.103208 CTCGACTACATGTCCCCTGC 59.897 60.000 0.00 0.00 42.49 4.85
5750 7858 1.226974 CGACTACATGTCCCCTGCG 60.227 63.158 0.00 0.00 42.49 5.18
5751 7859 1.144057 GACTACATGTCCCCTGCGG 59.856 63.158 0.00 0.00 39.69 5.69
5752 7860 2.203070 CTACATGTCCCCTGCGGC 60.203 66.667 0.00 0.00 0.00 6.53
5753 7861 2.687200 TACATGTCCCCTGCGGCT 60.687 61.111 0.00 0.00 0.00 5.52
5754 7862 2.930385 CTACATGTCCCCTGCGGCTG 62.930 65.000 0.00 0.00 0.00 4.85
5766 7874 4.457496 CGGCTGCGGGTGACTCAT 62.457 66.667 0.00 0.00 0.00 2.90
5767 7875 2.821366 GGCTGCGGGTGACTCATG 60.821 66.667 0.00 0.00 0.00 3.07
5768 7876 2.046892 GCTGCGGGTGACTCATGT 60.047 61.111 0.00 0.00 0.00 3.21
5769 7877 2.393768 GCTGCGGGTGACTCATGTG 61.394 63.158 0.00 0.00 0.00 3.21
5770 7878 1.742880 CTGCGGGTGACTCATGTGG 60.743 63.158 0.00 0.00 0.00 4.17
5771 7879 3.127533 GCGGGTGACTCATGTGGC 61.128 66.667 0.00 0.00 0.00 5.01
5772 7880 2.815211 CGGGTGACTCATGTGGCG 60.815 66.667 0.00 0.00 0.00 5.69
5773 7881 2.436646 GGGTGACTCATGTGGCGG 60.437 66.667 0.00 0.00 0.00 6.13
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 3.072622 GGTTGGTAGGAATAGGATGGACC 59.927 52.174 0.00 0.00 39.35 4.46
4 5 3.714798 TGGTTGGTAGGAATAGGATGGAC 59.285 47.826 0.00 0.00 0.00 4.02
5 6 4.015617 TGGTTGGTAGGAATAGGATGGA 57.984 45.455 0.00 0.00 0.00 3.41
6 7 4.461198 GTTGGTTGGTAGGAATAGGATGG 58.539 47.826 0.00 0.00 0.00 3.51
7 8 4.127171 CGTTGGTTGGTAGGAATAGGATG 58.873 47.826 0.00 0.00 0.00 3.51
8 9 3.433173 GCGTTGGTTGGTAGGAATAGGAT 60.433 47.826 0.00 0.00 0.00 3.24
9 10 2.093341 GCGTTGGTTGGTAGGAATAGGA 60.093 50.000 0.00 0.00 0.00 2.94
10 11 2.285977 GCGTTGGTTGGTAGGAATAGG 58.714 52.381 0.00 0.00 0.00 2.57
11 12 1.931172 CGCGTTGGTTGGTAGGAATAG 59.069 52.381 0.00 0.00 0.00 1.73
12 13 2.008045 GCGCGTTGGTTGGTAGGAATA 61.008 52.381 8.43 0.00 0.00 1.75
13 14 1.303091 GCGCGTTGGTTGGTAGGAAT 61.303 55.000 8.43 0.00 0.00 3.01
14 15 1.962306 GCGCGTTGGTTGGTAGGAA 60.962 57.895 8.43 0.00 0.00 3.36
15 16 2.357760 GCGCGTTGGTTGGTAGGA 60.358 61.111 8.43 0.00 0.00 2.94
16 17 3.784412 CGCGCGTTGGTTGGTAGG 61.784 66.667 24.19 0.00 0.00 3.18
17 18 4.439472 GCGCGCGTTGGTTGGTAG 62.439 66.667 32.35 0.00 0.00 3.18
159 168 2.332654 CGAAAAGGGTTGGAGCGGG 61.333 63.158 0.00 0.00 0.00 6.13
222 254 3.979497 GTGGGGTGGGGTGGGAAG 61.979 72.222 0.00 0.00 0.00 3.46
223 255 4.542627 AGTGGGGTGGGGTGGGAA 62.543 66.667 0.00 0.00 0.00 3.97
224 256 4.995058 GAGTGGGGTGGGGTGGGA 62.995 72.222 0.00 0.00 0.00 4.37
226 258 3.330720 GAGAGTGGGGTGGGGTGG 61.331 72.222 0.00 0.00 0.00 4.61
227 259 3.330720 GGAGAGTGGGGTGGGGTG 61.331 72.222 0.00 0.00 0.00 4.61
228 260 3.542602 AGGAGAGTGGGGTGGGGT 61.543 66.667 0.00 0.00 0.00 4.95
307 737 4.041762 TAGGGTTTGGGGGCGCAG 62.042 66.667 10.83 0.00 0.00 5.18
371 802 4.281947 GCCTCCCGCGTAGTAGCC 62.282 72.222 4.92 0.00 0.00 3.93
411 842 3.338249 CGAATCTGACAGGAAACATGGT 58.662 45.455 1.81 0.00 0.00 3.55
474 909 2.979401 CGAGTCTATCGTCAGGATGG 57.021 55.000 0.00 0.00 46.62 3.51
733 1192 2.417787 GCAAAAGGAATCCCATGTGCTC 60.418 50.000 9.79 0.00 33.99 4.26
743 1202 2.296190 ACAACGGGAAGCAAAAGGAATC 59.704 45.455 0.00 0.00 0.00 2.52
747 1206 0.313987 GGACAACGGGAAGCAAAAGG 59.686 55.000 0.00 0.00 0.00 3.11
749 1208 1.028905 CAGGACAACGGGAAGCAAAA 58.971 50.000 0.00 0.00 0.00 2.44
759 1218 3.979495 GCCGTCTTATATACAGGACAACG 59.021 47.826 0.00 0.00 0.00 4.10
762 1221 3.955551 TGTGCCGTCTTATATACAGGACA 59.044 43.478 0.00 0.00 0.00 4.02
771 1230 5.004448 TGAAAATGGTTGTGCCGTCTTATA 58.996 37.500 0.00 0.00 41.21 0.98
773 1232 3.003897 GTGAAAATGGTTGTGCCGTCTTA 59.996 43.478 0.00 0.00 41.21 2.10
774 1233 2.028130 TGAAAATGGTTGTGCCGTCTT 58.972 42.857 0.00 0.00 41.21 3.01
776 1235 1.336755 AGTGAAAATGGTTGTGCCGTC 59.663 47.619 0.00 0.00 41.21 4.79
777 1236 1.398692 AGTGAAAATGGTTGTGCCGT 58.601 45.000 0.00 0.00 41.21 5.68
778 1237 3.848272 ATAGTGAAAATGGTTGTGCCG 57.152 42.857 0.00 0.00 41.21 5.69
779 1238 4.165779 CGAATAGTGAAAATGGTTGTGCC 58.834 43.478 0.00 0.00 37.90 5.01
796 1255 4.461081 ACAAAGGGCTAATGTTTGCGAATA 59.539 37.500 0.00 0.00 35.05 1.75
859 1318 3.214696 ACTGTGTTGAGAAAGAAGGGG 57.785 47.619 0.00 0.00 0.00 4.79
947 1794 0.109504 TTAACAGCAAAATCGCGGCC 60.110 50.000 6.13 0.00 36.85 6.13
950 1797 4.158384 ACAAGATTAACAGCAAAATCGCG 58.842 39.130 0.00 0.00 37.22 5.87
951 1798 5.153513 TGACAAGATTAACAGCAAAATCGC 58.846 37.500 0.00 0.00 37.22 4.58
966 1813 4.642429 GGTACTCACCAACTTGACAAGAT 58.358 43.478 21.95 7.21 45.04 2.40
987 1834 0.809385 CAGTCATTGCAGCTTCCAGG 59.191 55.000 0.00 0.00 0.00 4.45
1195 2042 6.015519 CCAATACCATCAACCAGAACTTCAAA 60.016 38.462 0.00 0.00 0.00 2.69
1204 2051 3.763360 TCTTTGCCAATACCATCAACCAG 59.237 43.478 0.00 0.00 0.00 4.00
1332 2179 3.561725 GGCCAGAAGAATCCAAAGATACG 59.438 47.826 0.00 0.00 30.42 3.06
1338 2185 3.157087 GTTGAGGCCAGAAGAATCCAAA 58.843 45.455 5.01 0.00 0.00 3.28
1540 2387 0.790207 GCGTCAAATGAAGACTGCGA 59.210 50.000 0.38 0.00 33.89 5.10
1610 2457 1.872773 TTTTTCCAAGCCACCAACCT 58.127 45.000 0.00 0.00 0.00 3.50
1787 2634 6.196918 TCTTGCATCCTGATAATGGAGATT 57.803 37.500 0.00 0.00 36.99 2.40
2093 2940 6.310149 AGAAAGGTTTGACAGAGATGGAATT 58.690 36.000 0.00 0.00 0.00 2.17
2108 2955 8.237811 TCTTCTTCAATGCTAAAGAAAGGTTT 57.762 30.769 0.00 0.00 40.09 3.27
2201 3048 2.040813 TCCCATCTCTGCAGCTCTTTTT 59.959 45.455 9.47 0.00 0.00 1.94
2323 3170 5.124776 TCGGCATAATTTTGACTAAGTTGGG 59.875 40.000 0.00 0.00 0.00 4.12
2344 3191 2.875087 TGATACCAATACACCGTCGG 57.125 50.000 10.48 10.48 0.00 4.79
2354 3201 7.615365 AGTGACACCATACAAATTGATACCAAT 59.385 33.333 0.00 0.00 44.38 3.16
2382 3229 4.665212 TCACAACTATTCGCTACTAACCG 58.335 43.478 0.00 0.00 0.00 4.44
2528 3376 9.603921 AAAATGTAATGATAAATTGAAGGCCAG 57.396 29.630 5.01 0.00 0.00 4.85
2698 3548 4.328536 ACACCGTCTAATATGTGGCAAAA 58.671 39.130 0.00 0.00 33.07 2.44
2907 4895 0.517316 CGAGAAGCCAAAAGAACCCG 59.483 55.000 0.00 0.00 0.00 5.28
2911 4899 3.067601 GGGAAAACGAGAAGCCAAAAGAA 59.932 43.478 0.00 0.00 0.00 2.52
2912 4900 2.621526 GGGAAAACGAGAAGCCAAAAGA 59.378 45.455 0.00 0.00 0.00 2.52
2913 4901 2.623416 AGGGAAAACGAGAAGCCAAAAG 59.377 45.455 0.00 0.00 0.00 2.27
2914 4902 2.661718 AGGGAAAACGAGAAGCCAAAA 58.338 42.857 0.00 0.00 0.00 2.44
2915 4903 2.358322 AGGGAAAACGAGAAGCCAAA 57.642 45.000 0.00 0.00 0.00 3.28
2916 4904 2.358322 AAGGGAAAACGAGAAGCCAA 57.642 45.000 0.00 0.00 0.00 4.52
2917 4905 2.227194 GAAAGGGAAAACGAGAAGCCA 58.773 47.619 0.00 0.00 0.00 4.75
2918 4906 2.031069 GTGAAAGGGAAAACGAGAAGCC 60.031 50.000 0.00 0.00 0.00 4.35
2919 4907 2.879026 AGTGAAAGGGAAAACGAGAAGC 59.121 45.455 0.00 0.00 0.00 3.86
2920 4908 5.500645 AAAGTGAAAGGGAAAACGAGAAG 57.499 39.130 0.00 0.00 0.00 2.85
2982 4970 2.276869 GGTCCCACCCAGCAAAATC 58.723 57.895 0.00 0.00 30.04 2.17
3015 5004 6.267014 AGCACAAAGTAGTGTAGTAGGAAGAA 59.733 38.462 0.00 0.00 41.52 2.52
3017 5006 6.026947 AGCACAAAGTAGTGTAGTAGGAAG 57.973 41.667 0.00 0.00 41.52 3.46
3066 5055 4.847512 TGACTCCTAAGGTTATGGGTCAAA 59.152 41.667 5.53 0.00 32.39 2.69
3078 5067 2.303022 TCAGGTGCTTTGACTCCTAAGG 59.697 50.000 0.00 0.00 32.35 2.69
3099 5088 7.707624 AACAACATATGAAAGATGTGGTCAT 57.292 32.000 10.38 0.00 39.98 3.06
3103 5092 9.345517 CAAGTAAACAACATATGAAAGATGTGG 57.654 33.333 10.38 0.00 37.59 4.17
3256 5245 4.026744 AGAATCCAGTACTAGAGCAAGCA 58.973 43.478 0.00 0.00 0.00 3.91
3333 5367 6.486253 TTTCACTGCAATCTAAGCTTGTAG 57.514 37.500 9.86 3.92 40.73 2.74
3348 5382 2.869233 TCAGTTTGCCTTTTCACTGC 57.131 45.000 0.00 0.00 37.22 4.40
3370 5404 7.227314 AGCATTGGATTTTCCTTTCTTGTTTTC 59.773 33.333 0.00 0.00 37.46 2.29
3424 5459 2.087646 GGCACAAGAGATTTGGTCCTC 58.912 52.381 0.00 0.00 0.00 3.71
3429 5464 2.503895 AGGAGGCACAAGAGATTTGG 57.496 50.000 0.00 0.00 0.00 3.28
3490 5525 1.439365 GCGCAAAAGCTCTGACACG 60.439 57.895 0.30 0.00 0.00 4.49
3506 5541 2.510615 CGCAGAAGAACCTTTTAGCG 57.489 50.000 0.00 0.00 37.91 4.26
3514 5549 0.321996 AAGAGGGACGCAGAAGAACC 59.678 55.000 0.00 0.00 0.00 3.62
3543 5578 5.580691 GTGATTGACGGATATGTTGTCTGAA 59.419 40.000 0.00 0.00 33.81 3.02
3544 5579 5.109210 GTGATTGACGGATATGTTGTCTGA 58.891 41.667 0.00 0.00 33.81 3.27
3602 5637 3.365969 GGCTGGTGGAACAAAATAACTCG 60.366 47.826 0.00 0.00 44.16 4.18
3681 5716 3.140325 CTTTCTAAGGAGGTGTGGCAA 57.860 47.619 0.00 0.00 0.00 4.52
3740 5776 7.143340 CCCATGTTGTTTGCTTATATGATCAG 58.857 38.462 0.09 0.00 0.00 2.90
3789 5825 6.813152 CAGGAATTGAACAGTGAACAAACTTT 59.187 34.615 0.00 0.00 0.00 2.66
3985 6038 2.403561 AGGGGACTGAATTCCTCTAGC 58.596 52.381 2.27 0.00 45.56 3.42
4036 6089 1.304464 TCCTCTGAAGCTCGGCTCA 60.304 57.895 0.00 0.00 38.25 4.26
4041 6094 1.337703 CAGGATCTCCTCTGAAGCTCG 59.662 57.143 0.00 0.00 46.65 5.03
4179 6232 3.431766 GGGGCACTAACTCACATTATCGT 60.432 47.826 0.00 0.00 0.00 3.73
4196 6249 2.364722 TTAGCAAGGCACAAGGGGCA 62.365 55.000 0.00 0.00 35.46 5.36
4315 6368 3.053619 ACCCTAAAGCTAGACCAAATGGG 60.054 47.826 4.17 0.00 44.81 4.00
4422 6476 6.094048 GTGAATGCTACACAATCTACCACAAT 59.906 38.462 0.00 0.00 38.05 2.71
4435 6491 4.627467 CAGACAAGGTAGTGAATGCTACAC 59.373 45.833 5.74 0.00 42.18 2.90
4455 6511 9.252962 GAAAATTTCTTTCAAGCATCTTTCAGA 57.747 29.630 0.00 0.00 0.00 3.27
4540 6605 6.650427 AGTTGATCACAGAAGTACACTGTA 57.350 37.500 19.88 12.03 45.15 2.74
4577 6642 7.470147 TTGAAGTAGTAGTGAACTGGTCTTCAG 60.470 40.741 14.91 0.00 43.64 3.02
4627 6692 7.325660 AGCAATGAAATACTCCAATACACAG 57.674 36.000 0.00 0.00 0.00 3.66
4629 6694 7.761409 TCAAGCAATGAAATACTCCAATACAC 58.239 34.615 0.00 0.00 34.30 2.90
4632 6697 8.415553 CCAATCAAGCAATGAAATACTCCAATA 58.584 33.333 0.00 0.00 42.54 1.90
4658 6723 7.902387 AGCACATGATCATATACTGACAATC 57.098 36.000 8.15 0.00 36.48 2.67
4695 6760 1.888512 GAATGCTGCACAGAAAGGGAA 59.111 47.619 3.57 0.00 0.00 3.97
4793 6858 1.080995 GTGCATGCAGGACTCGTCTC 61.081 60.000 23.41 0.56 35.41 3.36
4836 6901 4.753186 CTTATCCTACTACATCCCAGGGT 58.247 47.826 5.01 0.00 0.00 4.34
4886 6951 3.749088 TGCTAGTTGACAACCAAATACCG 59.251 43.478 14.72 0.00 36.36 4.02
4890 6955 5.852282 AACTTGCTAGTTGACAACCAAAT 57.148 34.783 12.87 0.00 42.91 2.32
4921 6986 1.933853 CGGCCGAATTTCCTACTTGAG 59.066 52.381 24.07 0.00 0.00 3.02
4945 7010 9.833917 GCCTATGTTTTAAGTTAGGAGTAATCT 57.166 33.333 0.00 0.00 34.36 2.40
4964 7029 1.072965 GGCTAAGATGCTGGCCTATGT 59.927 52.381 3.32 0.00 41.20 2.29
4995 7060 7.042725 GGTTTTTACAAAAGCATTTCCTCAGAC 60.043 37.037 6.33 0.00 37.28 3.51
4996 7061 6.983890 GGTTTTTACAAAAGCATTTCCTCAGA 59.016 34.615 6.33 0.00 37.28 3.27
4998 7063 6.883744 AGGTTTTTACAAAAGCATTTCCTCA 58.116 32.000 12.34 0.00 37.28 3.86
5020 7085 3.325135 ACAGTTCACAACTCCCTCTAAGG 59.675 47.826 0.00 0.00 40.46 2.69
5071 7145 0.037882 ACATCCACGTGCTGACTGAG 60.038 55.000 19.40 1.15 0.00 3.35
5072 7146 0.319813 CACATCCACGTGCTGACTGA 60.320 55.000 19.40 7.71 0.00 3.41
5073 7147 0.319813 TCACATCCACGTGCTGACTG 60.320 55.000 19.40 10.51 36.80 3.51
5074 7148 0.037882 CTCACATCCACGTGCTGACT 60.038 55.000 19.40 0.00 36.80 3.41
5075 7149 0.038251 TCTCACATCCACGTGCTGAC 60.038 55.000 19.40 0.00 36.80 3.51
5076 7150 0.897621 ATCTCACATCCACGTGCTGA 59.102 50.000 19.40 9.72 36.80 4.26
5077 7151 2.467838 CTATCTCACATCCACGTGCTG 58.532 52.381 10.91 12.21 36.80 4.41
5078 7152 1.202463 GCTATCTCACATCCACGTGCT 60.202 52.381 10.91 0.00 36.80 4.40
5160 7234 2.159327 GCAGCAAGCATGGAAAAACT 57.841 45.000 0.00 0.00 44.79 2.66
5413 7490 2.562296 TCCCCCAGAAAGCTGAACTAT 58.438 47.619 0.00 0.00 45.17 2.12
5414 7491 2.038863 TCCCCCAGAAAGCTGAACTA 57.961 50.000 0.00 0.00 45.17 2.24
5415 7492 1.376649 ATCCCCCAGAAAGCTGAACT 58.623 50.000 0.00 0.00 45.17 3.01
5416 7493 2.222227 AATCCCCCAGAAAGCTGAAC 57.778 50.000 0.00 0.00 45.17 3.18
5417 7494 2.999185 AAATCCCCCAGAAAGCTGAA 57.001 45.000 0.00 0.00 45.17 3.02
5418 7495 4.608170 AATAAATCCCCCAGAAAGCTGA 57.392 40.909 0.00 0.00 45.17 4.26
5419 7496 5.302823 CCTAAATAAATCCCCCAGAAAGCTG 59.697 44.000 0.00 0.00 41.93 4.24
5420 7497 5.195756 TCCTAAATAAATCCCCCAGAAAGCT 59.804 40.000 0.00 0.00 0.00 3.74
5421 7498 5.302059 GTCCTAAATAAATCCCCCAGAAAGC 59.698 44.000 0.00 0.00 0.00 3.51
5422 7499 5.833667 GGTCCTAAATAAATCCCCCAGAAAG 59.166 44.000 0.00 0.00 0.00 2.62
5423 7500 5.341369 GGGTCCTAAATAAATCCCCCAGAAA 60.341 44.000 0.00 0.00 0.00 2.52
5424 7501 4.169264 GGGTCCTAAATAAATCCCCCAGAA 59.831 45.833 0.00 0.00 0.00 3.02
5425 7502 3.725267 GGGTCCTAAATAAATCCCCCAGA 59.275 47.826 0.00 0.00 0.00 3.86
5426 7503 3.727391 AGGGTCCTAAATAAATCCCCCAG 59.273 47.826 0.00 0.00 35.90 4.45
5427 7504 3.465588 CAGGGTCCTAAATAAATCCCCCA 59.534 47.826 0.00 0.00 35.90 4.96
5428 7505 3.725267 TCAGGGTCCTAAATAAATCCCCC 59.275 47.826 0.00 0.00 35.90 5.40
5429 7506 5.600669 ATCAGGGTCCTAAATAAATCCCC 57.399 43.478 0.00 0.00 35.90 4.81
5430 7507 7.756614 ACTTATCAGGGTCCTAAATAAATCCC 58.243 38.462 0.00 0.00 35.56 3.85
5456 7533 2.017782 TGTTTGTGCCACACGTGTAAT 58.982 42.857 22.90 0.00 37.14 1.89
5464 7541 3.445450 AGTTGTAATGTGTTTGTGCCACA 59.555 39.130 0.00 0.00 46.03 4.17
5480 7557 9.853555 CTTGCCATAAAAACATTCATAGTTGTA 57.146 29.630 0.00 0.00 0.00 2.41
5481 7558 8.367156 ACTTGCCATAAAAACATTCATAGTTGT 58.633 29.630 0.00 0.00 0.00 3.32
5487 7564 8.723311 CATGAAACTTGCCATAAAAACATTCAT 58.277 29.630 0.00 0.00 34.98 2.57
5510 7587 9.903682 AAAGAAAGTTGTTATCTTCACATCATG 57.096 29.630 0.00 0.00 32.45 3.07
5570 7669 9.248291 GCAATTAAAGTTGTCATCTGAAAAGAA 57.752 29.630 0.00 0.00 0.00 2.52
5571 7670 8.412456 TGCAATTAAAGTTGTCATCTGAAAAGA 58.588 29.630 0.00 0.00 0.00 2.52
5572 7671 8.578308 TGCAATTAAAGTTGTCATCTGAAAAG 57.422 30.769 0.00 0.00 0.00 2.27
5573 7672 8.939201 TTGCAATTAAAGTTGTCATCTGAAAA 57.061 26.923 0.00 0.00 0.00 2.29
5574 7673 8.939201 TTTGCAATTAAAGTTGTCATCTGAAA 57.061 26.923 0.00 0.00 0.00 2.69
5575 7674 8.939201 TTTTGCAATTAAAGTTGTCATCTGAA 57.061 26.923 0.00 0.00 0.00 3.02
5576 7675 8.939201 TTTTTGCAATTAAAGTTGTCATCTGA 57.061 26.923 0.00 0.00 0.00 3.27
5606 7705 3.458163 CGAAGCACTCCGGCCCTA 61.458 66.667 0.00 0.00 0.00 3.53
5613 7712 2.363788 TATGTGACACGAAGCACTCC 57.636 50.000 0.22 0.00 36.05 3.85
5662 7770 4.388499 TCCTTGAGAACGGCCGCC 62.388 66.667 28.58 18.14 0.00 6.13
5663 7771 2.781595 TTCTCCTTGAGAACGGCCGC 62.782 60.000 28.58 10.42 42.78 6.53
5665 7773 2.115343 ATTTCTCCTTGAGAACGGCC 57.885 50.000 6.05 0.00 46.54 6.13
5705 7813 2.889045 GGGAACTAGGTTGTGGGTTTTC 59.111 50.000 0.00 0.00 0.00 2.29
5706 7814 2.425247 GGGGAACTAGGTTGTGGGTTTT 60.425 50.000 0.00 0.00 0.00 2.43
5707 7815 1.146359 GGGGAACTAGGTTGTGGGTTT 59.854 52.381 0.00 0.00 0.00 3.27
5708 7816 0.775542 GGGGAACTAGGTTGTGGGTT 59.224 55.000 0.00 0.00 0.00 4.11
5709 7817 0.104090 AGGGGAACTAGGTTGTGGGT 60.104 55.000 0.00 0.00 0.00 4.51
5710 7818 1.004394 GAAGGGGAACTAGGTTGTGGG 59.996 57.143 0.00 0.00 0.00 4.61
5711 7819 1.985895 AGAAGGGGAACTAGGTTGTGG 59.014 52.381 0.00 0.00 0.00 4.17
5712 7820 2.353803 CGAGAAGGGGAACTAGGTTGTG 60.354 54.545 0.00 0.00 0.00 3.33
5713 7821 1.900486 CGAGAAGGGGAACTAGGTTGT 59.100 52.381 0.00 0.00 0.00 3.32
5714 7822 2.094130 GTCGAGAAGGGGAACTAGGTTG 60.094 54.545 0.00 0.00 0.00 3.77
5715 7823 2.177734 GTCGAGAAGGGGAACTAGGTT 58.822 52.381 0.00 0.00 0.00 3.50
5716 7824 1.358445 AGTCGAGAAGGGGAACTAGGT 59.642 52.381 0.00 0.00 0.00 3.08
5717 7825 2.146920 AGTCGAGAAGGGGAACTAGG 57.853 55.000 0.00 0.00 0.00 3.02
5718 7826 3.618351 TGTAGTCGAGAAGGGGAACTAG 58.382 50.000 0.00 0.00 0.00 2.57
5719 7827 3.726557 TGTAGTCGAGAAGGGGAACTA 57.273 47.619 0.00 0.00 0.00 2.24
5720 7828 2.599408 TGTAGTCGAGAAGGGGAACT 57.401 50.000 0.00 0.00 0.00 3.01
5721 7829 2.496470 ACATGTAGTCGAGAAGGGGAAC 59.504 50.000 0.00 0.00 0.00 3.62
5722 7830 2.758979 GACATGTAGTCGAGAAGGGGAA 59.241 50.000 0.00 0.00 37.53 3.97
5723 7831 2.376109 GACATGTAGTCGAGAAGGGGA 58.624 52.381 0.00 0.00 37.53 4.81
5724 7832 2.873133 GACATGTAGTCGAGAAGGGG 57.127 55.000 0.00 0.00 37.53 4.79
5733 7841 4.835927 CGCAGGGGACATGTAGTC 57.164 61.111 0.00 0.00 46.83 2.59
5749 7857 4.457496 ATGAGTCACCCGCAGCCG 62.457 66.667 0.00 0.00 0.00 5.52
5750 7858 2.821366 CATGAGTCACCCGCAGCC 60.821 66.667 0.00 0.00 0.00 4.85
5751 7859 2.046892 ACATGAGTCACCCGCAGC 60.047 61.111 0.00 0.00 0.00 5.25
5752 7860 1.742880 CCACATGAGTCACCCGCAG 60.743 63.158 0.00 0.00 0.00 5.18
5753 7861 2.347114 CCACATGAGTCACCCGCA 59.653 61.111 0.00 0.00 0.00 5.69
5754 7862 3.127533 GCCACATGAGTCACCCGC 61.128 66.667 0.00 0.00 0.00 6.13
5755 7863 2.815211 CGCCACATGAGTCACCCG 60.815 66.667 0.00 0.00 0.00 5.28
5756 7864 2.436646 CCGCCACATGAGTCACCC 60.437 66.667 0.00 0.00 0.00 4.61


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

AutoCloner maintained by Alex Coulton.