Multiple sequence alignment - TraesCS3D01G324300

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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 TraesCS3D01G324300 chr3D 100.000 3400 0 0 1 3400 437486153 437489552 0.000000e+00 6279
1 TraesCS3D01G324300 chr3D 88.298 188 17 3 2593 2775 550509616 550509429 1.590000e-53 220
2 TraesCS3D01G324300 chr3A 93.593 2466 140 16 1 2457 575491692 575494148 0.000000e+00 3663
3 TraesCS3D01G324300 chr3A 90.257 544 17 19 2873 3400 575494323 575494846 0.000000e+00 678
4 TraesCS3D01G324300 chr3A 98.667 75 1 0 2456 2530 575494107 575494181 2.130000e-27 134
5 TraesCS3D01G324300 chr3B 91.363 2466 169 23 1 2456 572742887 572745318 0.000000e+00 3334
6 TraesCS3D01G324300 chr3B 89.758 537 27 14 2872 3400 572745490 572746006 0.000000e+00 662
7 TraesCS3D01G324300 chr3B 85.294 204 22 7 2606 2805 576481097 576480898 1.600000e-48 204
8 TraesCS3D01G324300 chr3B 84.259 216 17 6 8 222 746854856 746854657 9.630000e-46 195
9 TraesCS3D01G324300 chr3B 90.476 126 4 3 2456 2575 572745278 572745401 3.510000e-35 159
10 TraesCS3D01G324300 chr6B 90.505 1822 140 17 250 2066 711626624 711624831 0.000000e+00 2375
11 TraesCS3D01G324300 chr6B 91.720 785 62 3 1296 2080 711514670 711513889 0.000000e+00 1086
12 TraesCS3D01G324300 chr6B 90.828 785 69 3 1296 2080 711517361 711516580 0.000000e+00 1048
13 TraesCS3D01G324300 chr6B 90.874 778 68 3 1296 2073 711515654 711514880 0.000000e+00 1040
14 TraesCS3D01G324300 chr6B 90.573 785 69 5 1296 2080 711521292 711520513 0.000000e+00 1035
15 TraesCS3D01G324300 chr6B 90.446 785 71 4 1296 2080 711518344 711517564 0.000000e+00 1031
16 TraesCS3D01G324300 chr6B 90.605 777 71 2 1296 2072 711512592 711511818 0.000000e+00 1029
17 TraesCS3D01G324300 chr2A 91.071 168 12 3 2610 2774 422098835 422098668 1.230000e-54 224
18 TraesCS3D01G324300 chr1A 91.515 165 10 2 2612 2772 586112413 586112577 1.230000e-54 224
19 TraesCS3D01G324300 chr4D 90.588 170 12 2 2610 2775 93336682 93336851 4.420000e-54 222
20 TraesCS3D01G324300 chr5D 88.649 185 16 3 2608 2787 117350617 117350433 1.590000e-53 220
21 TraesCS3D01G324300 chr5D 91.946 149 12 0 386 534 256749951 256749803 3.440000e-50 209
22 TraesCS3D01G324300 chr5B 89.266 177 15 2 2601 2773 687987899 687987723 5.710000e-53 219
23 TraesCS3D01G324300 chr1D 90.116 172 12 3 2605 2772 199866832 199867002 5.710000e-53 219
24 TraesCS3D01G324300 chr1D 88.415 164 18 1 377 539 97132460 97132623 2.680000e-46 196
25 TraesCS3D01G324300 chr7A 89.266 177 13 4 2604 2775 320981344 320981169 2.050000e-52 217
26 TraesCS3D01G324300 chr7A 89.610 154 15 1 386 539 701301510 701301358 9.630000e-46 195
27 TraesCS3D01G324300 chr4B 89.024 164 16 2 386 549 78607617 78607456 5.750000e-48 202
28 TraesCS3D01G324300 chr4B 89.677 155 16 0 385 539 78607920 78607766 7.440000e-47 198
29 TraesCS3D01G324300 chr4B 88.961 154 17 0 386 539 78607768 78607615 1.250000e-44 191


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 TraesCS3D01G324300 chr3D 437486153 437489552 3399 False 6279.000000 6279 100.000000 1 3400 1 chr3D.!!$F1 3399
1 TraesCS3D01G324300 chr3A 575491692 575494846 3154 False 1491.666667 3663 94.172333 1 3400 3 chr3A.!!$F1 3399
2 TraesCS3D01G324300 chr3B 572742887 572746006 3119 False 1385.000000 3334 90.532333 1 3400 3 chr3B.!!$F1 3399
3 TraesCS3D01G324300 chr6B 711624831 711626624 1793 True 2375.000000 2375 90.505000 250 2066 1 chr6B.!!$R1 1816
4 TraesCS3D01G324300 chr6B 711511818 711521292 9474 True 1044.833333 1086 90.841000 1296 2080 6 chr6B.!!$R2 784

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
118 119 1.561076 TCATCCTGCACCACTTAGCAT 59.439 47.619 0.00 0.00 40.42 3.79 F
1469 6397 0.319555 TTCGTCTTCGTGGCCAAGAG 60.320 55.000 20.86 14.91 38.33 2.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1478 6406 0.748450 AGCCATCATTGCAATTCGGG 59.252 50.0 9.83 11.97 0.0 5.14 R
2467 11184 0.034337 TAAACTCCACACCACGCCTC 59.966 55.0 0.00 0.00 0.0 4.70 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
98 99 4.868067 CCGACATAGCGGTTCTAAATACT 58.132 43.478 0.00 0.00 46.07 2.12
118 119 1.561076 TCATCCTGCACCACTTAGCAT 59.439 47.619 0.00 0.00 40.42 3.79
142 143 1.595093 GCCACGCAGCAAAATAGGGT 61.595 55.000 0.00 0.00 0.00 4.34
145 146 2.595386 CACGCAGCAAAATAGGGTTTC 58.405 47.619 0.00 0.00 0.00 2.78
233 234 3.638627 AGAATCATAGTGCGTCTGGATCA 59.361 43.478 0.00 0.00 0.00 2.92
234 235 4.282957 AGAATCATAGTGCGTCTGGATCAT 59.717 41.667 0.00 0.00 0.00 2.45
243 244 2.802816 GCGTCTGGATCATGTGGATAAC 59.197 50.000 0.00 0.00 36.00 1.89
246 247 4.202151 CGTCTGGATCATGTGGATAACTGA 60.202 45.833 0.00 0.00 36.00 3.41
290 295 1.826720 AGGCAGTGTAATGGGCAAATG 59.173 47.619 0.00 0.00 0.00 2.32
314 319 3.901844 TGCTGAACTTTGGTCTAGTAGGT 59.098 43.478 0.00 0.00 0.00 3.08
447 452 8.965986 TTTTCTGAATCGGATGTATATAGACG 57.034 34.615 0.00 0.00 0.00 4.18
487 492 2.535984 CGCTCATTTCAGTCCGTATGTC 59.464 50.000 0.00 0.00 0.00 3.06
513 518 8.552865 CGTCCATATTGAAATATCCAAAACGTA 58.447 33.333 0.00 0.00 29.35 3.57
539 544 9.614792 AGTATAATTCAAAACTGAGGTGATACC 57.385 33.333 0.00 0.00 38.99 2.73
636 641 5.301805 CCAATTGTAAGTGGTGAGTTTTCCT 59.698 40.000 4.43 0.00 39.22 3.36
822 828 6.093495 TCCAGTCTACTGAAAAACAAACTGTG 59.907 38.462 11.69 0.00 46.59 3.66
839 845 2.100252 CTGTGCAATAGCCCTCAAATGG 59.900 50.000 0.00 0.00 41.13 3.16
844 850 3.954258 GCAATAGCCCTCAAATGGTAACT 59.046 43.478 0.00 0.00 33.11 2.24
858 864 4.349663 TGGTAACTGTAATGAAATGCGC 57.650 40.909 0.00 0.00 37.61 6.09
893 899 8.976986 AGCATTTCAGATTACAGTCAATTTTC 57.023 30.769 0.00 0.00 0.00 2.29
894 900 8.031277 AGCATTTCAGATTACAGTCAATTTTCC 58.969 33.333 0.00 0.00 0.00 3.13
925 931 8.532977 TTACATTTAAGAAAAAGCATTCCAGC 57.467 30.769 0.00 0.00 0.00 4.85
932 938 1.890876 AAAGCATTCCAGCGTGTACA 58.109 45.000 0.00 0.00 40.15 2.90
954 960 3.682858 ACTGCATACGGTACAAATCACAC 59.317 43.478 0.00 0.00 31.99 3.82
955 961 3.004171 TGCATACGGTACAAATCACACC 58.996 45.455 0.00 0.00 0.00 4.16
1075 1083 3.748048 CACAGTACCTTCTGACACCATTG 59.252 47.826 0.65 0.00 38.63 2.82
1097 1105 7.912056 TTGTCTTGTTCTCTTTCTGATATGG 57.088 36.000 0.00 0.00 0.00 2.74
1101 1109 9.823647 GTCTTGTTCTCTTTCTGATATGGATTA 57.176 33.333 0.00 0.00 0.00 1.75
1128 1136 7.975616 ACATGGAGTTAAATTGTTGTATGCATC 59.024 33.333 0.19 0.00 0.00 3.91
1148 1156 8.706492 TGCATCAACAATAGAAATCCAAATTC 57.294 30.769 0.00 0.00 0.00 2.17
1175 1183 3.692257 ATAGAGGTGATATGTGCAGCC 57.308 47.619 0.00 0.00 34.46 4.85
1192 1200 3.553508 GCAGCCAAACACATTGATTCTGT 60.554 43.478 0.00 0.00 41.85 3.41
1203 1211 7.088272 ACACATTGATTCTGTTTCATGACATG 58.912 34.615 9.28 9.28 0.00 3.21
1204 1212 6.034577 CACATTGATTCTGTTTCATGACATGC 59.965 38.462 10.76 0.00 0.00 4.06
1205 1213 5.708877 TTGATTCTGTTTCATGACATGCA 57.291 34.783 10.76 0.00 0.00 3.96
1249 1262 9.880064 CTTGCTATTTGATGAATGATGAGTTAG 57.120 33.333 0.00 0.00 0.00 2.34
1251 1264 7.994911 TGCTATTTGATGAATGATGAGTTAGGT 59.005 33.333 0.00 0.00 0.00 3.08
1304 1319 7.061054 GCTTACCTTTTCCCCTTAGTATTCAT 58.939 38.462 0.00 0.00 0.00 2.57
1348 4310 1.058404 GTTGCTCGTCGTTGGTACTC 58.942 55.000 0.00 0.00 0.00 2.59
1387 5332 3.879892 CCTGCTAATTCTGGGAGCTTAAC 59.120 47.826 0.00 0.00 37.12 2.01
1399 5344 3.451178 GGGAGCTTAACCTGTCACAGATA 59.549 47.826 6.30 0.00 32.44 1.98
1463 6391 1.134694 GCCAATTCGTCTTCGTGGC 59.865 57.895 0.00 0.00 44.75 5.01
1469 6397 0.319555 TTCGTCTTCGTGGCCAAGAG 60.320 55.000 20.86 14.91 38.33 2.85
1478 6406 1.869767 CGTGGCCAAGAGATAATCTGC 59.130 52.381 14.14 0.00 38.67 4.26
1481 6409 1.517242 GCCAAGAGATAATCTGCCCG 58.483 55.000 0.00 0.00 38.67 6.13
1988 10701 0.546267 ATCCAGTCTGCCCAGTCTGT 60.546 55.000 17.09 2.23 41.07 3.41
2276 10989 1.004918 CTCGTTCCTCTGGCCGTTT 60.005 57.895 0.00 0.00 0.00 3.60
2440 11157 2.280797 GCTGGAGGCGTTGTGTGA 60.281 61.111 0.00 0.00 0.00 3.58
2444 11161 1.598130 GGAGGCGTTGTGTGAAGCT 60.598 57.895 0.00 0.00 0.00 3.74
2445 11162 1.166531 GGAGGCGTTGTGTGAAGCTT 61.167 55.000 0.00 0.00 0.00 3.74
2446 11163 1.508632 GAGGCGTTGTGTGAAGCTTA 58.491 50.000 0.00 0.00 0.00 3.09
2447 11164 1.461127 GAGGCGTTGTGTGAAGCTTAG 59.539 52.381 0.00 0.00 0.00 2.18
2448 11165 1.070134 AGGCGTTGTGTGAAGCTTAGA 59.930 47.619 0.00 0.00 0.00 2.10
2449 11166 2.076863 GGCGTTGTGTGAAGCTTAGAT 58.923 47.619 0.00 0.00 0.00 1.98
2450 11167 3.056107 AGGCGTTGTGTGAAGCTTAGATA 60.056 43.478 0.00 0.00 0.00 1.98
2451 11168 3.871594 GGCGTTGTGTGAAGCTTAGATAT 59.128 43.478 0.00 0.00 0.00 1.63
2452 11169 5.047847 GGCGTTGTGTGAAGCTTAGATATA 58.952 41.667 0.00 0.00 0.00 0.86
2453 11170 5.696724 GGCGTTGTGTGAAGCTTAGATATAT 59.303 40.000 0.00 0.00 0.00 0.86
2454 11171 6.866770 GGCGTTGTGTGAAGCTTAGATATATA 59.133 38.462 0.00 0.00 0.00 0.86
2455 11172 7.545965 GGCGTTGTGTGAAGCTTAGATATATAT 59.454 37.037 0.00 0.00 0.00 0.86
2456 11173 8.376203 GCGTTGTGTGAAGCTTAGATATATATG 58.624 37.037 0.00 0.00 0.00 1.78
2457 11174 8.376203 CGTTGTGTGAAGCTTAGATATATATGC 58.624 37.037 0.00 7.05 0.00 3.14
2458 11175 9.429359 GTTGTGTGAAGCTTAGATATATATGCT 57.571 33.333 10.96 10.96 37.66 3.79
2459 11176 9.645059 TTGTGTGAAGCTTAGATATATATGCTC 57.355 33.333 15.67 10.88 35.70 4.26
2460 11177 8.253810 TGTGTGAAGCTTAGATATATATGCTCC 58.746 37.037 15.67 6.42 35.70 4.70
2461 11178 8.253810 GTGTGAAGCTTAGATATATATGCTCCA 58.746 37.037 15.67 8.71 35.70 3.86
2462 11179 8.815912 TGTGAAGCTTAGATATATATGCTCCAA 58.184 33.333 15.67 4.92 35.70 3.53
2463 11180 9.311916 GTGAAGCTTAGATATATATGCTCCAAG 57.688 37.037 15.67 0.00 35.70 3.61
2464 11181 7.984050 TGAAGCTTAGATATATATGCTCCAAGC 59.016 37.037 15.67 15.84 42.82 4.01
2465 11182 7.673641 AGCTTAGATATATATGCTCCAAGCT 57.326 36.000 18.41 18.41 42.97 3.74
2466 11183 7.499292 AGCTTAGATATATATGCTCCAAGCTG 58.501 38.462 21.06 0.00 43.21 4.24
2467 11184 6.705381 GCTTAGATATATATGCTCCAAGCTGG 59.295 42.308 16.11 0.00 42.97 4.85
2468 11185 7.418368 GCTTAGATATATATGCTCCAAGCTGGA 60.418 40.741 16.11 0.00 45.98 3.86
2477 11194 3.052082 CAAGCTGGAGGCGTGGTG 61.052 66.667 0.00 0.00 44.53 4.17
2478 11195 3.832237 CAAGCTGGAGGCGTGGTGT 62.832 63.158 0.00 0.00 44.53 4.16
2481 11198 3.625897 CTGGAGGCGTGGTGTGGA 61.626 66.667 0.00 0.00 0.00 4.02
2482 11199 3.596066 CTGGAGGCGTGGTGTGGAG 62.596 68.421 0.00 0.00 0.00 3.86
2483 11200 3.626924 GGAGGCGTGGTGTGGAGT 61.627 66.667 0.00 0.00 0.00 3.85
2551 11274 0.692476 ATGTTGGCTGGAGCTGTGTA 59.308 50.000 0.00 0.00 41.70 2.90
2553 11276 1.905894 TGTTGGCTGGAGCTGTGTATA 59.094 47.619 0.00 0.00 41.70 1.47
2575 11298 9.804758 GTATAAAATGTAAGCTGTCTACTGAGT 57.195 33.333 0.00 0.00 0.00 3.41
2576 11299 8.709386 ATAAAATGTAAGCTGTCTACTGAGTG 57.291 34.615 0.00 0.00 0.00 3.51
2577 11300 5.984695 AATGTAAGCTGTCTACTGAGTGA 57.015 39.130 0.00 0.00 0.00 3.41
2578 11301 5.574891 ATGTAAGCTGTCTACTGAGTGAG 57.425 43.478 0.00 0.00 0.00 3.51
2624 11349 9.498176 TTCTGTAGTAAAATACTCCCTTTGTTC 57.502 33.333 0.00 0.00 40.14 3.18
2625 11350 8.098912 TCTGTAGTAAAATACTCCCTTTGTTCC 58.901 37.037 0.00 0.00 40.14 3.62
2626 11351 7.747690 TGTAGTAAAATACTCCCTTTGTTCCA 58.252 34.615 0.00 0.00 40.14 3.53
2627 11352 8.219178 TGTAGTAAAATACTCCCTTTGTTCCAA 58.781 33.333 0.00 0.00 40.14 3.53
2628 11353 9.070179 GTAGTAAAATACTCCCTTTGTTCCAAA 57.930 33.333 0.00 0.00 40.14 3.28
2629 11354 8.721133 AGTAAAATACTCCCTTTGTTCCAAAT 57.279 30.769 0.00 0.00 32.47 2.32
2630 11355 9.816787 AGTAAAATACTCCCTTTGTTCCAAATA 57.183 29.630 0.00 0.00 32.47 1.40
2634 11359 9.942850 AAATACTCCCTTTGTTCCAAATATTTG 57.057 29.630 19.40 19.40 37.90 2.32
2635 11360 6.994421 ACTCCCTTTGTTCCAAATATTTGT 57.006 33.333 23.24 1.17 36.45 2.83
2636 11361 6.993079 ACTCCCTTTGTTCCAAATATTTGTC 58.007 36.000 23.24 14.75 36.45 3.18
2637 11362 6.782494 ACTCCCTTTGTTCCAAATATTTGTCT 59.218 34.615 23.24 0.00 36.45 3.41
2638 11363 7.290014 ACTCCCTTTGTTCCAAATATTTGTCTT 59.710 33.333 23.24 0.00 36.45 3.01
2639 11364 8.028652 TCCCTTTGTTCCAAATATTTGTCTTT 57.971 30.769 23.24 0.00 36.45 2.52
2640 11365 9.148879 TCCCTTTGTTCCAAATATTTGTCTTTA 57.851 29.630 23.24 6.48 36.45 1.85
2641 11366 9.942850 CCCTTTGTTCCAAATATTTGTCTTTAT 57.057 29.630 23.24 0.00 36.45 1.40
2659 11384 9.996554 TGTCTTTATAGAGATTTCAACAAGTGA 57.003 29.630 0.00 0.00 0.00 3.41
2667 11392 8.764524 AGAGATTTCAACAAGTGACTACATAC 57.235 34.615 0.00 0.00 35.39 2.39
2668 11393 7.542477 AGAGATTTCAACAAGTGACTACATACG 59.458 37.037 0.00 0.00 35.39 3.06
2669 11394 6.590292 AGATTTCAACAAGTGACTACATACGG 59.410 38.462 0.00 0.00 35.39 4.02
2670 11395 5.456548 TTCAACAAGTGACTACATACGGA 57.543 39.130 0.00 0.00 35.39 4.69
2671 11396 5.456548 TCAACAAGTGACTACATACGGAA 57.543 39.130 0.00 0.00 0.00 4.30
2672 11397 5.224888 TCAACAAGTGACTACATACGGAAC 58.775 41.667 0.00 0.00 0.00 3.62
2673 11398 4.859304 ACAAGTGACTACATACGGAACA 57.141 40.909 0.00 0.00 0.00 3.18
2674 11399 5.204409 ACAAGTGACTACATACGGAACAA 57.796 39.130 0.00 0.00 0.00 2.83
2675 11400 5.603596 ACAAGTGACTACATACGGAACAAA 58.396 37.500 0.00 0.00 0.00 2.83
2676 11401 6.050432 ACAAGTGACTACATACGGAACAAAA 58.950 36.000 0.00 0.00 0.00 2.44
2677 11402 6.708949 ACAAGTGACTACATACGGAACAAAAT 59.291 34.615 0.00 0.00 0.00 1.82
2678 11403 6.721571 AGTGACTACATACGGAACAAAATG 57.278 37.500 0.00 0.00 0.00 2.32
2679 11404 6.460781 AGTGACTACATACGGAACAAAATGA 58.539 36.000 0.00 0.00 0.00 2.57
2680 11405 6.590292 AGTGACTACATACGGAACAAAATGAG 59.410 38.462 0.00 0.00 0.00 2.90
2681 11406 6.367969 GTGACTACATACGGAACAAAATGAGT 59.632 38.462 0.00 0.00 0.00 3.41
2682 11407 6.367695 TGACTACATACGGAACAAAATGAGTG 59.632 38.462 0.00 0.00 0.00 3.51
2683 11408 6.460781 ACTACATACGGAACAAAATGAGTGA 58.539 36.000 0.00 0.00 0.00 3.41
2684 11409 6.932400 ACTACATACGGAACAAAATGAGTGAA 59.068 34.615 0.00 0.00 0.00 3.18
2685 11410 6.817765 ACATACGGAACAAAATGAGTGAAT 57.182 33.333 0.00 0.00 0.00 2.57
2686 11411 6.842163 ACATACGGAACAAAATGAGTGAATC 58.158 36.000 0.00 0.00 0.00 2.52
2687 11412 6.655003 ACATACGGAACAAAATGAGTGAATCT 59.345 34.615 0.00 0.00 0.00 2.40
2688 11413 7.822334 ACATACGGAACAAAATGAGTGAATCTA 59.178 33.333 0.00 0.00 0.00 1.98
2689 11414 8.830580 CATACGGAACAAAATGAGTGAATCTAT 58.169 33.333 0.00 0.00 0.00 1.98
2691 11416 8.964476 ACGGAACAAAATGAGTGAATCTATAT 57.036 30.769 0.00 0.00 0.00 0.86
2692 11417 9.396022 ACGGAACAAAATGAGTGAATCTATATT 57.604 29.630 0.00 0.00 0.00 1.28
2767 11492 8.943909 AAAGACTTATATTTAGGAACGGAGTG 57.056 34.615 0.00 0.00 45.00 3.51
2785 11510 5.307204 GGAGTGAGTATATCGGACTGTACT 58.693 45.833 0.00 0.16 0.00 2.73
2786 11511 5.179742 GGAGTGAGTATATCGGACTGTACTG 59.820 48.000 0.00 0.00 0.00 2.74
2787 11512 5.682659 AGTGAGTATATCGGACTGTACTGT 58.317 41.667 4.92 4.92 0.00 3.55
2788 11513 6.824553 AGTGAGTATATCGGACTGTACTGTA 58.175 40.000 5.27 0.00 0.00 2.74
2789 11514 6.705381 AGTGAGTATATCGGACTGTACTGTAC 59.295 42.308 10.98 10.98 0.00 2.90
2790 11515 6.705381 GTGAGTATATCGGACTGTACTGTACT 59.295 42.308 17.98 7.55 0.00 2.73
2791 11516 6.704937 TGAGTATATCGGACTGTACTGTACTG 59.295 42.308 19.36 19.36 0.00 2.74
2800 11525 5.452917 GGACTGTACTGTACTGGTTCAGTTT 60.453 44.000 23.12 9.38 42.59 2.66
2822 11547 6.647212 TTCAGCTGAACTTGTATTATCACG 57.353 37.500 25.16 0.00 0.00 4.35
2823 11548 4.566759 TCAGCTGAACTTGTATTATCACGC 59.433 41.667 15.67 0.00 0.00 5.34
2827 11552 5.276868 GCTGAACTTGTATTATCACGCGATT 60.277 40.000 15.93 0.00 32.73 3.34
2830 11555 9.124807 CTGAACTTGTATTATCACGCGATTATA 57.875 33.333 15.93 4.29 32.73 0.98
2833 11558 7.950236 ACTTGTATTATCACGCGATTATAAGC 58.050 34.615 15.93 10.60 32.73 3.09
2835 11560 7.506296 TGTATTATCACGCGATTATAAGCAG 57.494 36.000 15.93 0.00 32.73 4.24
2836 11561 7.088272 TGTATTATCACGCGATTATAAGCAGT 58.912 34.615 15.93 0.00 32.73 4.40
2837 11562 5.822584 TTATCACGCGATTATAAGCAGTG 57.177 39.130 15.93 15.85 38.35 3.66
2838 11563 3.430333 TCACGCGATTATAAGCAGTGA 57.570 42.857 15.93 18.89 41.04 3.41
2839 11564 3.372060 TCACGCGATTATAAGCAGTGAG 58.628 45.455 15.93 9.64 39.71 3.51
2840 11565 2.097202 CACGCGATTATAAGCAGTGAGC 60.097 50.000 15.93 4.49 46.19 4.26
2851 11576 2.259505 GCAGTGAGCAAGCAGAATTC 57.740 50.000 0.00 0.00 44.79 2.17
2852 11577 1.538512 GCAGTGAGCAAGCAGAATTCA 59.461 47.619 8.44 0.00 44.79 2.57
2854 11579 2.812591 CAGTGAGCAAGCAGAATTCAGT 59.187 45.455 8.44 0.00 0.00 3.41
2855 11580 3.072944 AGTGAGCAAGCAGAATTCAGTC 58.927 45.455 8.44 0.00 0.00 3.51
2856 11581 3.072944 GTGAGCAAGCAGAATTCAGTCT 58.927 45.455 8.44 0.00 0.00 3.24
2858 11583 3.244318 TGAGCAAGCAGAATTCAGTCTGA 60.244 43.478 8.44 0.00 46.76 3.27
2859 11584 3.748083 AGCAAGCAGAATTCAGTCTGAA 58.252 40.909 17.46 17.46 46.76 3.02
2860 11585 4.139786 AGCAAGCAGAATTCAGTCTGAAA 58.860 39.130 18.93 3.54 46.76 2.69
2861 11586 4.023365 AGCAAGCAGAATTCAGTCTGAAAC 60.023 41.667 18.93 15.09 46.76 2.78
2862 11587 4.461405 CAAGCAGAATTCAGTCTGAAACG 58.539 43.478 18.93 8.95 46.76 3.60
2863 11588 3.070018 AGCAGAATTCAGTCTGAAACGG 58.930 45.455 18.93 16.00 46.76 4.44
2865 11590 2.807967 CAGAATTCAGTCTGAAACGGCA 59.192 45.455 18.93 0.00 46.76 5.69
2866 11591 3.438087 CAGAATTCAGTCTGAAACGGCAT 59.562 43.478 18.93 0.00 46.76 4.40
2867 11592 4.074970 AGAATTCAGTCTGAAACGGCATT 58.925 39.130 18.93 7.85 40.12 3.56
2868 11593 4.520492 AGAATTCAGTCTGAAACGGCATTT 59.480 37.500 18.93 7.15 40.12 2.32
2870 11595 4.647424 TTCAGTCTGAAACGGCATTTTT 57.353 36.364 13.00 0.00 32.71 1.94
2871 11596 3.963665 TCAGTCTGAAACGGCATTTTTG 58.036 40.909 0.00 0.00 0.00 2.44
2872 11597 3.380004 TCAGTCTGAAACGGCATTTTTGT 59.620 39.130 0.00 0.00 0.00 2.83
2873 11598 4.111916 CAGTCTGAAACGGCATTTTTGTT 58.888 39.130 0.00 0.00 0.00 2.83
2874 11599 4.207019 CAGTCTGAAACGGCATTTTTGTTC 59.793 41.667 0.00 0.00 0.00 3.18
2875 11600 4.097892 AGTCTGAAACGGCATTTTTGTTCT 59.902 37.500 0.00 0.00 0.00 3.01
2876 11601 4.441087 GTCTGAAACGGCATTTTTGTTCTC 59.559 41.667 0.00 0.00 0.00 2.87
2877 11602 4.338118 TCTGAAACGGCATTTTTGTTCTCT 59.662 37.500 0.00 0.00 0.00 3.10
2878 11603 4.358851 TGAAACGGCATTTTTGTTCTCTG 58.641 39.130 0.00 0.00 0.00 3.35
2879 11604 4.142271 TGAAACGGCATTTTTGTTCTCTGT 60.142 37.500 0.00 0.00 0.00 3.41
2880 11605 3.354089 ACGGCATTTTTGTTCTCTGTG 57.646 42.857 0.00 0.00 0.00 3.66
2883 11608 2.796593 GGCATTTTTGTTCTCTGTGTGC 59.203 45.455 0.00 0.00 0.00 4.57
2901 11626 1.206115 GCCGCACAAAAGAAACGTGG 61.206 55.000 0.00 0.00 0.00 4.94
2963 11701 2.631545 ACTACTTGTTTAGTCAGGCCGT 59.368 45.455 0.00 0.00 38.33 5.68
2987 11725 5.236695 TCCAGACTTATCTATCTCACGTTCG 59.763 44.000 0.00 0.00 32.25 3.95
3108 11852 3.114065 GCTACCGTGTTATCTTCTTCCG 58.886 50.000 0.00 0.00 0.00 4.30
3195 11940 3.064324 GCCATGGTTTGCTCCGCT 61.064 61.111 14.67 0.00 0.00 5.52
3394 12139 7.041712 GGAGGAAGAAAATCGAGGTAATTGATC 60.042 40.741 0.00 0.00 30.03 2.92
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
98 99 0.983467 TGCTAAGTGGTGCAGGATGA 59.017 50.000 0.00 0.00 39.69 2.92
142 143 2.355108 GCTATCCAGCCTGTGTGAGAAA 60.355 50.000 0.00 0.00 42.37 2.52
145 146 3.376218 GCTATCCAGCCTGTGTGAG 57.624 57.895 0.00 0.00 42.37 3.51
233 234 4.393062 CGAAGCAACTTCAGTTATCCACAT 59.607 41.667 7.99 0.00 40.17 3.21
234 235 3.745975 CGAAGCAACTTCAGTTATCCACA 59.254 43.478 7.99 0.00 40.17 4.17
243 244 0.514691 GCCTGTCGAAGCAACTTCAG 59.485 55.000 7.99 1.56 40.17 3.02
246 247 3.094386 TTGCCTGTCGAAGCAACTT 57.906 47.368 13.10 0.00 43.74 2.66
290 295 5.112686 CCTACTAGACCAAAGTTCAGCATC 58.887 45.833 0.00 0.00 0.00 3.91
314 319 7.888021 TGAGAATAAGGCTCTTGAACCAATTAA 59.112 33.333 0.00 0.00 33.57 1.40
447 452 2.212466 GCGAACAAACACACTAAAACGC 59.788 45.455 0.00 0.00 36.06 4.84
487 492 7.414436 ACGTTTTGGATATTTCAATATGGACG 58.586 34.615 0.00 0.00 31.96 4.79
513 518 9.614792 GGTATCACCTCAGTTTTGAATTATACT 57.385 33.333 0.00 0.00 34.73 2.12
539 544 8.446273 CAGAATGGTGTACTCTGAATAAACAAG 58.554 37.037 3.56 0.00 39.15 3.16
822 828 3.954258 AGTTACCATTTGAGGGCTATTGC 59.046 43.478 0.00 0.00 38.76 3.56
839 845 5.022021 GTCTGCGCATTTCATTACAGTTAC 58.978 41.667 12.24 0.00 0.00 2.50
844 850 3.501828 ACTTGTCTGCGCATTTCATTACA 59.498 39.130 12.24 4.28 0.00 2.41
858 864 8.032952 TGTAATCTGAAATGCTTACTTGTCTG 57.967 34.615 0.00 0.00 0.00 3.51
909 915 1.956477 ACACGCTGGAATGCTTTTTCT 59.044 42.857 0.00 0.00 0.00 2.52
925 931 2.179589 GTACCGTATGCAGTGTACACG 58.820 52.381 19.93 15.36 34.97 4.49
932 938 3.682858 GTGTGATTTGTACCGTATGCAGT 59.317 43.478 0.00 0.00 0.00 4.40
982 989 2.545526 CCATTTGGCTACGCTGTGATAG 59.454 50.000 0.00 0.00 0.00 2.08
988 995 1.534595 GCAATCCATTTGGCTACGCTG 60.535 52.381 0.00 0.00 35.75 5.18
991 998 3.067180 AGAATGCAATCCATTTGGCTACG 59.933 43.478 0.00 0.00 44.02 3.51
1075 1083 8.729805 AATCCATATCAGAAAGAGAACAAGAC 57.270 34.615 0.00 0.00 0.00 3.01
1083 1091 9.217278 CTCCATGTTAATCCATATCAGAAAGAG 57.783 37.037 0.00 0.00 0.00 2.85
1101 1109 7.665690 TGCATACAACAATTTAACTCCATGTT 58.334 30.769 0.00 0.00 42.31 2.71
1123 1131 7.488792 CGAATTTGGATTTCTATTGTTGATGCA 59.511 33.333 0.00 0.00 0.00 3.96
1128 1136 8.755696 TTTCCGAATTTGGATTTCTATTGTTG 57.244 30.769 15.48 0.00 38.00 3.33
1140 1148 7.131907 TCACCTCTATATTTCCGAATTTGGA 57.868 36.000 10.65 10.65 35.83 3.53
1148 1156 6.398095 TGCACATATCACCTCTATATTTCCG 58.602 40.000 0.00 0.00 0.00 4.30
1168 1176 2.443887 ATCAATGTGTTTGGCTGCAC 57.556 45.000 0.50 0.00 35.92 4.57
1175 1183 7.435784 TGTCATGAAACAGAATCAATGTGTTTG 59.564 33.333 8.22 0.00 42.91 2.93
1262 1275 5.104900 AGGTAAGCCAGATAACTGTACTTGG 60.105 44.000 12.84 0.00 42.05 3.61
1278 1292 3.733883 ACTAAGGGGAAAAGGTAAGCC 57.266 47.619 0.00 0.00 0.00 4.35
1304 1319 8.194104 ACATTTGAAAACATACACTAGCACAAA 58.806 29.630 0.00 0.00 0.00 2.83
1374 5319 1.623811 GTGACAGGTTAAGCTCCCAGA 59.376 52.381 3.68 0.00 0.00 3.86
1387 5332 5.077134 TGACATCTTGTATCTGTGACAGG 57.923 43.478 13.33 0.00 31.51 4.00
1399 5344 2.880890 GTGGCTCTGTTTGACATCTTGT 59.119 45.455 0.00 0.00 0.00 3.16
1463 6391 3.475566 TTCGGGCAGATTATCTCTTGG 57.524 47.619 0.00 0.00 29.16 3.61
1469 6397 3.988379 TTGCAATTCGGGCAGATTATC 57.012 42.857 0.00 0.00 43.05 1.75
1478 6406 0.748450 AGCCATCATTGCAATTCGGG 59.252 50.000 9.83 11.97 0.00 5.14
1481 6409 5.593968 TGTATGAAGCCATCATTGCAATTC 58.406 37.500 9.83 4.45 46.85 2.17
1754 8389 1.623973 GCACGTTTACTCCGCTGTCC 61.624 60.000 0.00 0.00 0.00 4.02
1988 10701 3.071479 GCCAACTTCAAATCTGTCCGTA 58.929 45.455 0.00 0.00 0.00 4.02
2236 10949 4.500116 GGCTCCCTCTGTCGTCGC 62.500 72.222 0.00 0.00 0.00 5.19
2434 11151 8.253810 GGAGCATATATATCTAAGCTTCACACA 58.746 37.037 0.00 0.00 31.61 3.72
2444 11161 7.978099 TCCAGCTTGGAGCATATATATCTAA 57.022 36.000 2.47 0.00 42.67 2.10
2460 11177 3.052082 CACCACGCCTCCAGCTTG 61.052 66.667 0.00 0.00 40.35 4.01
2461 11178 3.560251 ACACCACGCCTCCAGCTT 61.560 61.111 0.00 0.00 40.39 3.74
2462 11179 4.320456 CACACCACGCCTCCAGCT 62.320 66.667 0.00 0.00 40.39 4.24
2464 11181 3.596066 CTCCACACCACGCCTCCAG 62.596 68.421 0.00 0.00 0.00 3.86
2465 11182 3.625897 CTCCACACCACGCCTCCA 61.626 66.667 0.00 0.00 0.00 3.86
2466 11183 2.676163 AAACTCCACACCACGCCTCC 62.676 60.000 0.00 0.00 0.00 4.30
2467 11184 0.034337 TAAACTCCACACCACGCCTC 59.966 55.000 0.00 0.00 0.00 4.70
2468 11185 0.034896 CTAAACTCCACACCACGCCT 59.965 55.000 0.00 0.00 0.00 5.52
2469 11186 0.034337 TCTAAACTCCACACCACGCC 59.966 55.000 0.00 0.00 0.00 5.68
2470 11187 2.094762 ATCTAAACTCCACACCACGC 57.905 50.000 0.00 0.00 0.00 5.34
2471 11188 8.520351 TCATATATATCTAAACTCCACACCACG 58.480 37.037 0.00 0.00 0.00 4.94
2551 11274 8.531982 TCACTCAGTAGACAGCTTACATTTTAT 58.468 33.333 0.00 0.00 0.00 1.40
2553 11276 6.759272 TCACTCAGTAGACAGCTTACATTTT 58.241 36.000 0.00 0.00 0.00 1.82
2575 11298 6.775594 ATATACAGTAGTTCACACTGCTCA 57.224 37.500 2.51 0.00 43.61 4.26
2576 11299 7.433719 CAGAATATACAGTAGTTCACACTGCTC 59.566 40.741 2.51 0.00 43.61 4.26
2577 11300 7.093727 ACAGAATATACAGTAGTTCACACTGCT 60.094 37.037 2.51 0.00 46.17 4.24
2578 11301 7.036220 ACAGAATATACAGTAGTTCACACTGC 58.964 38.462 2.51 0.00 45.96 4.40
2633 11358 9.996554 TCACTTGTTGAAATCTCTATAAAGACA 57.003 29.630 0.00 0.00 0.00 3.41
2641 11366 9.856488 GTATGTAGTCACTTGTTGAAATCTCTA 57.144 33.333 0.00 0.00 35.39 2.43
2642 11367 7.542477 CGTATGTAGTCACTTGTTGAAATCTCT 59.458 37.037 0.00 0.00 35.39 3.10
2643 11368 7.201444 CCGTATGTAGTCACTTGTTGAAATCTC 60.201 40.741 0.00 0.00 35.39 2.75
2644 11369 6.590292 CCGTATGTAGTCACTTGTTGAAATCT 59.410 38.462 0.00 0.00 35.39 2.40
2645 11370 6.588756 TCCGTATGTAGTCACTTGTTGAAATC 59.411 38.462 0.00 0.00 35.39 2.17
2646 11371 6.460781 TCCGTATGTAGTCACTTGTTGAAAT 58.539 36.000 0.00 0.00 35.39 2.17
2647 11372 5.845103 TCCGTATGTAGTCACTTGTTGAAA 58.155 37.500 0.00 0.00 35.39 2.69
2648 11373 5.456548 TCCGTATGTAGTCACTTGTTGAA 57.543 39.130 0.00 0.00 35.39 2.69
2649 11374 5.221283 TGTTCCGTATGTAGTCACTTGTTGA 60.221 40.000 0.00 0.00 0.00 3.18
2650 11375 4.986034 TGTTCCGTATGTAGTCACTTGTTG 59.014 41.667 0.00 0.00 0.00 3.33
2651 11376 5.204409 TGTTCCGTATGTAGTCACTTGTT 57.796 39.130 0.00 0.00 0.00 2.83
2652 11377 4.859304 TGTTCCGTATGTAGTCACTTGT 57.141 40.909 0.00 0.00 0.00 3.16
2653 11378 6.533819 TTTTGTTCCGTATGTAGTCACTTG 57.466 37.500 0.00 0.00 0.00 3.16
2654 11379 6.932400 TCATTTTGTTCCGTATGTAGTCACTT 59.068 34.615 0.00 0.00 0.00 3.16
2655 11380 6.460781 TCATTTTGTTCCGTATGTAGTCACT 58.539 36.000 0.00 0.00 0.00 3.41
2656 11381 6.367969 ACTCATTTTGTTCCGTATGTAGTCAC 59.632 38.462 0.00 0.00 0.00 3.67
2657 11382 6.367695 CACTCATTTTGTTCCGTATGTAGTCA 59.632 38.462 0.00 0.00 0.00 3.41
2658 11383 6.588756 TCACTCATTTTGTTCCGTATGTAGTC 59.411 38.462 0.00 0.00 0.00 2.59
2659 11384 6.460781 TCACTCATTTTGTTCCGTATGTAGT 58.539 36.000 0.00 0.00 0.00 2.73
2660 11385 6.961359 TCACTCATTTTGTTCCGTATGTAG 57.039 37.500 0.00 0.00 0.00 2.74
2661 11386 7.822334 AGATTCACTCATTTTGTTCCGTATGTA 59.178 33.333 0.00 0.00 0.00 2.29
2662 11387 6.655003 AGATTCACTCATTTTGTTCCGTATGT 59.345 34.615 0.00 0.00 0.00 2.29
2663 11388 7.076842 AGATTCACTCATTTTGTTCCGTATG 57.923 36.000 0.00 0.00 0.00 2.39
2664 11389 8.964476 ATAGATTCACTCATTTTGTTCCGTAT 57.036 30.769 0.00 0.00 0.00 3.06
2666 11391 8.964476 ATATAGATTCACTCATTTTGTTCCGT 57.036 30.769 0.00 0.00 0.00 4.69
2740 11465 9.955102 ACTCCGTTCCTAAATATAAGTCTTTTT 57.045 29.630 0.00 0.00 0.00 1.94
2741 11466 9.379791 CACTCCGTTCCTAAATATAAGTCTTTT 57.620 33.333 0.00 0.00 0.00 2.27
2742 11467 8.755977 TCACTCCGTTCCTAAATATAAGTCTTT 58.244 33.333 0.00 0.00 0.00 2.52
2743 11468 8.302515 TCACTCCGTTCCTAAATATAAGTCTT 57.697 34.615 0.00 0.00 0.00 3.01
2744 11469 7.560626 ACTCACTCCGTTCCTAAATATAAGTCT 59.439 37.037 0.00 0.00 0.00 3.24
2745 11470 7.714703 ACTCACTCCGTTCCTAAATATAAGTC 58.285 38.462 0.00 0.00 0.00 3.01
2746 11471 7.657023 ACTCACTCCGTTCCTAAATATAAGT 57.343 36.000 0.00 0.00 0.00 2.24
2750 11475 8.675504 CGATATACTCACTCCGTTCCTAAATAT 58.324 37.037 0.00 0.00 0.00 1.28
2751 11476 7.120285 CCGATATACTCACTCCGTTCCTAAATA 59.880 40.741 0.00 0.00 0.00 1.40
2752 11477 6.072064 CCGATATACTCACTCCGTTCCTAAAT 60.072 42.308 0.00 0.00 0.00 1.40
2753 11478 5.240183 CCGATATACTCACTCCGTTCCTAAA 59.760 44.000 0.00 0.00 0.00 1.85
2754 11479 4.758674 CCGATATACTCACTCCGTTCCTAA 59.241 45.833 0.00 0.00 0.00 2.69
2755 11480 4.040829 TCCGATATACTCACTCCGTTCCTA 59.959 45.833 0.00 0.00 0.00 2.94
2756 11481 3.147629 CCGATATACTCACTCCGTTCCT 58.852 50.000 0.00 0.00 0.00 3.36
2757 11482 3.058363 GTCCGATATACTCACTCCGTTCC 60.058 52.174 0.00 0.00 0.00 3.62
2758 11483 3.814283 AGTCCGATATACTCACTCCGTTC 59.186 47.826 0.00 0.00 0.00 3.95
2759 11484 3.564644 CAGTCCGATATACTCACTCCGTT 59.435 47.826 0.00 0.00 0.00 4.44
2760 11485 3.139850 CAGTCCGATATACTCACTCCGT 58.860 50.000 0.00 0.00 0.00 4.69
2761 11486 3.139850 ACAGTCCGATATACTCACTCCG 58.860 50.000 0.00 0.00 0.00 4.63
2762 11487 5.179742 CAGTACAGTCCGATATACTCACTCC 59.820 48.000 0.00 0.00 0.00 3.85
2763 11488 5.759273 ACAGTACAGTCCGATATACTCACTC 59.241 44.000 0.00 0.00 0.00 3.51
2764 11489 5.682659 ACAGTACAGTCCGATATACTCACT 58.317 41.667 0.00 0.00 0.00 3.41
2765 11490 6.705381 AGTACAGTACAGTCCGATATACTCAC 59.295 42.308 13.37 0.00 0.00 3.51
2766 11491 6.704937 CAGTACAGTACAGTCCGATATACTCA 59.295 42.308 13.37 0.00 0.00 3.41
2767 11492 6.147492 CCAGTACAGTACAGTCCGATATACTC 59.853 46.154 13.37 0.00 0.00 2.59
2785 11510 3.133901 TCAGCTGAAACTGAACCAGTACA 59.866 43.478 15.67 3.99 44.62 2.90
2786 11511 3.728845 TCAGCTGAAACTGAACCAGTAC 58.271 45.455 15.67 0.00 44.62 2.73
2800 11525 4.566759 GCGTGATAATACAAGTTCAGCTGA 59.433 41.667 13.74 13.74 0.00 4.26
2822 11547 3.605692 GCTTGCTCACTGCTTATAATCGC 60.606 47.826 0.00 0.00 43.37 4.58
2823 11548 3.557185 TGCTTGCTCACTGCTTATAATCG 59.443 43.478 0.00 0.00 43.37 3.34
2827 11552 3.893326 TCTGCTTGCTCACTGCTTATA 57.107 42.857 0.00 0.00 43.37 0.98
2830 11555 1.906990 ATTCTGCTTGCTCACTGCTT 58.093 45.000 0.00 0.00 43.37 3.91
2833 11558 2.812591 ACTGAATTCTGCTTGCTCACTG 59.187 45.455 11.86 0.00 0.00 3.66
2835 11560 3.072944 AGACTGAATTCTGCTTGCTCAC 58.927 45.455 11.86 0.00 0.00 3.51
2836 11561 3.072211 CAGACTGAATTCTGCTTGCTCA 58.928 45.455 11.86 0.00 36.83 4.26
2837 11562 3.332919 TCAGACTGAATTCTGCTTGCTC 58.667 45.455 11.86 2.64 42.52 4.26
2838 11563 3.413846 TCAGACTGAATTCTGCTTGCT 57.586 42.857 11.86 2.81 42.52 3.91
2839 11564 4.225208 GTTTCAGACTGAATTCTGCTTGC 58.775 43.478 18.38 0.73 42.52 4.01
2840 11565 4.461405 CGTTTCAGACTGAATTCTGCTTG 58.539 43.478 18.38 10.31 42.52 4.01
2844 11569 2.807967 TGCCGTTTCAGACTGAATTCTG 59.192 45.455 18.38 10.51 43.93 3.02
2845 11570 3.126001 TGCCGTTTCAGACTGAATTCT 57.874 42.857 18.38 0.00 36.11 2.40
2846 11571 4.425577 AATGCCGTTTCAGACTGAATTC 57.574 40.909 18.38 13.15 36.11 2.17
2847 11572 4.853924 AAATGCCGTTTCAGACTGAATT 57.146 36.364 18.38 6.22 36.11 2.17
2848 11573 4.853924 AAAATGCCGTTTCAGACTGAAT 57.146 36.364 18.38 0.00 36.11 2.57
2849 11574 4.142271 ACAAAAATGCCGTTTCAGACTGAA 60.142 37.500 13.99 13.99 34.03 3.02
2850 11575 3.380004 ACAAAAATGCCGTTTCAGACTGA 59.620 39.130 0.00 0.00 0.00 3.41
2851 11576 3.705604 ACAAAAATGCCGTTTCAGACTG 58.294 40.909 0.00 0.00 0.00 3.51
2852 11577 4.097892 AGAACAAAAATGCCGTTTCAGACT 59.902 37.500 0.00 0.00 0.00 3.24
2854 11579 4.338118 AGAGAACAAAAATGCCGTTTCAGA 59.662 37.500 0.00 0.00 0.00 3.27
2855 11580 4.442073 CAGAGAACAAAAATGCCGTTTCAG 59.558 41.667 0.00 0.00 0.00 3.02
2856 11581 4.142271 ACAGAGAACAAAAATGCCGTTTCA 60.142 37.500 0.00 0.00 0.00 2.69
2858 11583 4.111916 CACAGAGAACAAAAATGCCGTTT 58.888 39.130 0.00 0.00 0.00 3.60
2859 11584 3.130340 ACACAGAGAACAAAAATGCCGTT 59.870 39.130 0.00 0.00 0.00 4.44
2860 11585 2.687935 ACACAGAGAACAAAAATGCCGT 59.312 40.909 0.00 0.00 0.00 5.68
2861 11586 3.044986 CACACAGAGAACAAAAATGCCG 58.955 45.455 0.00 0.00 0.00 5.69
2862 11587 2.796593 GCACACAGAGAACAAAAATGCC 59.203 45.455 0.00 0.00 0.00 4.40
2863 11588 2.796593 GGCACACAGAGAACAAAAATGC 59.203 45.455 0.00 0.00 0.00 3.56
2865 11590 2.543653 GCGGCACACAGAGAACAAAAAT 60.544 45.455 0.00 0.00 0.00 1.82
2866 11591 1.202245 GCGGCACACAGAGAACAAAAA 60.202 47.619 0.00 0.00 0.00 1.94
2867 11592 0.380378 GCGGCACACAGAGAACAAAA 59.620 50.000 0.00 0.00 0.00 2.44
2868 11593 0.746204 TGCGGCACACAGAGAACAAA 60.746 50.000 0.00 0.00 0.00 2.83
2870 11595 2.503546 TGCGGCACACAGAGAACA 59.496 55.556 0.00 0.00 0.00 3.18
2878 11603 0.920664 GTTTCTTTTGTGCGGCACAC 59.079 50.000 33.44 17.35 44.47 3.82
2879 11604 0.524392 CGTTTCTTTTGTGCGGCACA 60.524 50.000 30.40 30.40 43.02 4.57
2880 11605 0.524604 ACGTTTCTTTTGTGCGGCAC 60.525 50.000 25.55 25.55 34.56 5.01
2883 11608 1.206115 GCCACGTTTCTTTTGTGCGG 61.206 55.000 0.00 0.00 32.32 5.69
2963 11701 5.236695 CGAACGTGAGATAGATAAGTCTGGA 59.763 44.000 0.00 0.00 35.87 3.86
2987 11725 3.184178 CGACATGTGTTTGGAATTTTGGC 59.816 43.478 1.15 0.00 0.00 4.52
3049 11787 2.665185 GCGACGGGTTTGAGCAGT 60.665 61.111 0.00 0.00 0.00 4.40
3108 11852 1.491668 GGGGGAGGAAGAAGAGACTC 58.508 60.000 0.00 0.00 0.00 3.36
3132 11876 1.377333 CTGAGAAACGGGGAAGGGC 60.377 63.158 0.00 0.00 0.00 5.19
3195 11940 0.743688 GGCTCTGCGAGAGAAGATGA 59.256 55.000 14.86 0.00 46.96 2.92
3326 12071 0.963962 TCTTACGCTTGGAGACCGTT 59.036 50.000 0.00 0.00 36.51 4.44


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

AutoCloner maintained by Alex Coulton.