Multiple sequence alignment - TraesCS3A01G489800

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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 TraesCS3A01G489800 chr3A 100.000 3221 0 0 1 3221 717306427 717303207 0.000000e+00 5949
1 TraesCS3A01G489800 chr3D 90.702 2904 160 39 396 3219 587752827 587749954 0.000000e+00 3766
2 TraesCS3A01G489800 chr3D 92.944 411 21 8 1 408 587753911 587753506 2.770000e-165 592
3 TraesCS3A01G489800 chr3B 88.918 1895 124 39 396 2256 785291496 785289654 0.000000e+00 2257
4 TraesCS3A01G489800 chr3B 93.171 410 22 6 1 408 785292583 785292178 5.950000e-167 597
5 TraesCS3A01G489800 chr3B 90.981 377 23 5 2541 2907 785289252 785288877 6.210000e-137 497
6 TraesCS3A01G489800 chr3B 95.876 97 4 0 2252 2348 785289685 785289589 1.200000e-34 158
7 TraesCS3A01G489800 chr3B 94.624 93 5 0 2977 3069 785288864 785288772 9.310000e-31 145
8 TraesCS3A01G489800 chr3B 88.542 96 8 2 2401 2496 785289470 785289378 2.630000e-21 113


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 TraesCS3A01G489800 chr3A 717303207 717306427 3220 True 5949.000000 5949 100.000000 1 3221 1 chr3A.!!$R1 3220
1 TraesCS3A01G489800 chr3D 587749954 587753911 3957 True 2179.000000 3766 91.823000 1 3219 2 chr3D.!!$R1 3218
2 TraesCS3A01G489800 chr3B 785288772 785292583 3811 True 627.833333 2257 92.018667 1 3069 6 chr3B.!!$R1 3068

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
588 1300 0.247460 TGCTGTCAAGTCATCCCTCG 59.753 55.0 0.0 0.0 0.0 4.63 F
589 1301 0.247736 GCTGTCAAGTCATCCCTCGT 59.752 55.0 0.0 0.0 0.0 4.18 F
868 1588 0.254395 ACCTACTCTCTCCCCCTCCT 60.254 60.0 0.0 0.0 0.0 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1641 2401 0.387929 TGTCGTCGTTCTCTTTGGCT 59.612 50.0 0.0 0.0 0.00 4.75 R
1760 2520 0.793250 GTTCTTGCTTCCGTCTGAGC 59.207 55.0 0.0 0.0 0.00 4.26 R
2840 3773 0.106519 ACAATGCTATGGGTGGGAGC 60.107 55.0 0.0 0.0 36.72 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
74 75 4.909696 AACATGTCCGATTGTCACAAAA 57.090 36.364 0.00 0.00 0.00 2.44
75 76 4.909696 ACATGTCCGATTGTCACAAAAA 57.090 36.364 0.00 0.00 0.00 1.94
116 117 2.961526 ATCAGTAACGCTCGAACCAT 57.038 45.000 0.00 0.00 0.00 3.55
118 119 3.853831 TCAGTAACGCTCGAACCATTA 57.146 42.857 0.00 0.00 0.00 1.90
120 121 4.751060 TCAGTAACGCTCGAACCATTAAT 58.249 39.130 0.00 0.00 0.00 1.40
121 122 5.893687 TCAGTAACGCTCGAACCATTAATA 58.106 37.500 0.00 0.00 0.00 0.98
122 123 6.509656 TCAGTAACGCTCGAACCATTAATAT 58.490 36.000 0.00 0.00 0.00 1.28
292 295 8.865090 TCATTGGGCTTAAGTTGAAATAGAAAA 58.135 29.630 4.02 0.00 0.00 2.29
311 314 5.538433 AGAAAATAAAACTAGGCCTGCACAA 59.462 36.000 17.99 0.00 0.00 3.33
357 360 6.015688 CCACTCGGTAATGCTAGGAAGTTATA 60.016 42.308 0.00 0.00 0.00 0.98
429 1126 9.886132 AGTTTTGTAGGACTAAATCGTAATCAT 57.114 29.630 0.00 0.00 29.63 2.45
449 1146 3.057969 TGGCTTACCATGTGAACAGAG 57.942 47.619 0.00 0.00 42.67 3.35
450 1147 1.740025 GGCTTACCATGTGAACAGAGC 59.260 52.381 0.00 0.00 35.26 4.09
451 1148 2.616510 GGCTTACCATGTGAACAGAGCT 60.617 50.000 0.00 0.00 35.26 4.09
452 1149 3.369471 GGCTTACCATGTGAACAGAGCTA 60.369 47.826 0.00 0.00 35.26 3.32
453 1150 4.253685 GCTTACCATGTGAACAGAGCTAA 58.746 43.478 0.00 0.00 0.00 3.09
454 1151 4.331168 GCTTACCATGTGAACAGAGCTAAG 59.669 45.833 0.00 0.00 0.00 2.18
455 1152 5.724328 CTTACCATGTGAACAGAGCTAAGA 58.276 41.667 0.00 0.00 0.00 2.10
456 1153 4.199432 ACCATGTGAACAGAGCTAAGAG 57.801 45.455 0.00 0.00 0.00 2.85
457 1154 3.834813 ACCATGTGAACAGAGCTAAGAGA 59.165 43.478 0.00 0.00 0.00 3.10
458 1155 4.284490 ACCATGTGAACAGAGCTAAGAGAA 59.716 41.667 0.00 0.00 0.00 2.87
459 1156 5.221722 ACCATGTGAACAGAGCTAAGAGAAA 60.222 40.000 0.00 0.00 0.00 2.52
460 1157 5.121454 CCATGTGAACAGAGCTAAGAGAAAC 59.879 44.000 0.00 0.00 0.00 2.78
461 1158 5.276461 TGTGAACAGAGCTAAGAGAAACA 57.724 39.130 0.00 0.00 0.00 2.83
462 1159 5.858381 TGTGAACAGAGCTAAGAGAAACAT 58.142 37.500 0.00 0.00 0.00 2.71
519 1231 2.917933 TCCACTGTGAAACTTGGACAG 58.082 47.619 9.86 0.00 42.41 3.51
522 1234 3.181497 CCACTGTGAAACTTGGACAGTTG 60.181 47.826 9.86 0.00 46.41 3.16
523 1235 3.689161 CACTGTGAAACTTGGACAGTTGA 59.311 43.478 0.32 0.00 46.41 3.18
524 1236 3.689649 ACTGTGAAACTTGGACAGTTGAC 59.310 43.478 0.00 0.00 46.41 3.18
525 1237 3.680490 TGTGAAACTTGGACAGTTGACA 58.320 40.909 0.00 0.00 45.77 3.58
526 1238 3.438781 TGTGAAACTTGGACAGTTGACAC 59.561 43.478 13.60 13.60 45.77 3.67
527 1239 2.675844 TGAAACTTGGACAGTTGACACG 59.324 45.455 0.00 0.00 45.77 4.49
528 1240 2.684001 AACTTGGACAGTTGACACGA 57.316 45.000 0.00 0.00 44.70 4.35
529 1241 1.935933 ACTTGGACAGTTGACACGAC 58.064 50.000 0.00 0.00 27.32 4.34
558 1270 3.503748 ACACTGCTTACTGCTGAATTTCC 59.496 43.478 0.00 0.00 42.27 3.13
560 1272 2.424956 CTGCTTACTGCTGAATTTCCCC 59.575 50.000 0.00 0.00 42.27 4.81
588 1300 0.247460 TGCTGTCAAGTCATCCCTCG 59.753 55.000 0.00 0.00 0.00 4.63
589 1301 0.247736 GCTGTCAAGTCATCCCTCGT 59.752 55.000 0.00 0.00 0.00 4.18
596 1308 2.674852 CAAGTCATCCCTCGTCAATGTG 59.325 50.000 0.00 0.00 0.00 3.21
601 1313 0.320374 TCCCTCGTCAATGTGGACAC 59.680 55.000 0.00 0.00 37.66 3.67
763 1476 1.733526 GTGCAAGGGTGTGGACAAC 59.266 57.895 0.00 0.00 39.46 3.32
774 1487 1.077357 TGGACAACAAGCAACGGGT 60.077 52.632 0.00 0.00 0.00 5.28
806 1526 4.577283 CACATAGTGGACATGAATGATGCA 59.423 41.667 0.00 0.00 35.15 3.96
864 1584 0.688087 CACCACCTACTCTCTCCCCC 60.688 65.000 0.00 0.00 0.00 5.40
868 1588 0.254395 ACCTACTCTCTCCCCCTCCT 60.254 60.000 0.00 0.00 0.00 3.69
887 1615 5.514834 CCTCCTCAAAGTCCTAACAATTCCA 60.515 44.000 0.00 0.00 0.00 3.53
894 1622 5.074746 AGTCCTAACAATTCCAAAGGGTT 57.925 39.130 0.00 0.00 34.93 4.11
971 1728 4.733972 TGATGATCGTCTAGTGATCGAC 57.266 45.455 15.81 14.46 44.13 4.20
1329 2089 1.154413 GTGCGAAGTGTTGATGCGG 60.154 57.895 0.00 0.00 0.00 5.69
1372 2132 2.203788 ACCAGCTCCTCGGGTTCA 60.204 61.111 0.00 0.00 40.49 3.18
1590 2350 2.501610 GTGGTCATCCTCGAGCCC 59.498 66.667 6.99 1.78 32.32 5.19
1626 2386 4.886489 GTGGACTACCTAGGTATCGAGTTT 59.114 45.833 22.02 0.00 37.04 2.66
1641 2401 2.483013 CGAGTTTCCTGACCTCAACACA 60.483 50.000 0.00 0.00 0.00 3.72
1760 2520 0.652592 GAGAATTCGATGCCGGTGTG 59.347 55.000 1.90 0.00 36.24 3.82
1764 2524 2.520465 ATTCGATGCCGGTGTGCTCA 62.520 55.000 1.90 0.00 36.24 4.26
2112 2872 2.733301 CTGCCGATGGAGCTCGAT 59.267 61.111 11.42 11.42 41.12 3.59
2305 3065 7.511268 AGAGACCTACTACGATTATTCAGAGT 58.489 38.462 0.00 0.00 0.00 3.24
2307 3067 7.281098 AGACCTACTACGATTATTCAGAGTGA 58.719 38.462 0.00 0.00 0.00 3.41
2360 3157 3.059257 TGATTGTTCATCGTCGTTGTTGG 60.059 43.478 3.38 0.00 34.08 3.77
2365 3162 0.725784 CATCGTCGTTGTTGGCTTGC 60.726 55.000 0.00 0.00 0.00 4.01
2505 3353 3.007506 TGCGGTTATTCAGAGTGAGGAAA 59.992 43.478 0.00 0.00 0.00 3.13
2524 3372 2.502142 AATCTGATGTCTGCCTGCAA 57.498 45.000 0.00 0.00 0.00 4.08
2525 3373 2.502142 ATCTGATGTCTGCCTGCAAA 57.498 45.000 0.00 0.00 0.00 3.68
2526 3374 1.817357 TCTGATGTCTGCCTGCAAAG 58.183 50.000 0.00 0.00 0.00 2.77
2527 3375 0.809385 CTGATGTCTGCCTGCAAAGG 59.191 55.000 0.00 0.00 0.00 3.11
2548 3467 1.201998 CGCTGCTGCACTCAATTACAG 60.202 52.381 16.29 0.00 39.64 2.74
2581 3500 7.492669 ACAGTACATGTGATATGTCTTGCTAAC 59.507 37.037 9.11 0.00 41.91 2.34
2600 3519 6.014925 TGCTAACAAGAGTAACATGTGGAGTA 60.015 38.462 0.00 0.00 30.63 2.59
2722 3646 3.626217 GCTGCAGATCACTGATCATTGAA 59.374 43.478 20.43 5.52 46.03 2.69
2807 3733 5.065914 ACTCAAGTATGCTGCTTTTCTTGA 58.934 37.500 21.64 21.64 38.84 3.02
2840 3773 3.374764 TCCTATCATATGGATGGTCCCG 58.625 50.000 2.13 0.00 36.72 5.14
2861 3794 2.301346 CTCCCACCCATAGCATTGTTC 58.699 52.381 0.00 0.00 0.00 3.18
2901 3834 5.299531 ACCTTGGTTTAGCTTCTTTCTTGAC 59.700 40.000 0.00 0.00 0.00 3.18
2920 3853 2.409975 ACCGACGATATAAATTGCGGG 58.590 47.619 0.00 0.00 38.99 6.13
2921 3854 1.127951 CCGACGATATAAATTGCGGGC 59.872 52.381 0.00 0.00 34.85 6.13
2944 3877 0.324368 TAGGTGTGAGCACTCGGGAT 60.324 55.000 0.00 0.00 44.65 3.85
2945 3878 1.194781 AGGTGTGAGCACTCGGGATT 61.195 55.000 0.00 0.00 44.65 3.01
2948 3881 1.880027 GTGTGAGCACTCGGGATTTTT 59.120 47.619 0.00 0.00 42.13 1.94
2952 3885 2.224523 TGAGCACTCGGGATTTTTCACT 60.225 45.455 0.00 0.00 0.00 3.41
3092 4047 2.854805 GCTCTTGTGCCTGACGTTTTTC 60.855 50.000 0.00 0.00 0.00 2.29
3094 4049 2.612212 TCTTGTGCCTGACGTTTTTCTC 59.388 45.455 0.00 0.00 0.00 2.87
3096 4051 1.134220 TGTGCCTGACGTTTTTCTCCT 60.134 47.619 0.00 0.00 0.00 3.69
3098 4053 2.357952 GTGCCTGACGTTTTTCTCCTTT 59.642 45.455 0.00 0.00 0.00 3.11
3101 4056 3.796717 GCCTGACGTTTTTCTCCTTTTTG 59.203 43.478 0.00 0.00 0.00 2.44
3142 4099 1.425267 CCACGCACGTGTTGTTGAGA 61.425 55.000 20.53 0.00 44.02 3.27
3147 4104 2.660094 CGCACGTGTTGTTGAGATTGAG 60.660 50.000 18.38 0.00 0.00 3.02
3166 4123 4.613944 TGAGAAACGCCGATACGATAATT 58.386 39.130 0.00 0.00 36.70 1.40
3167 4124 5.761003 TGAGAAACGCCGATACGATAATTA 58.239 37.500 0.00 0.00 36.70 1.40
3168 4125 5.854866 TGAGAAACGCCGATACGATAATTAG 59.145 40.000 0.00 0.00 36.70 1.73
3169 4126 5.766222 AGAAACGCCGATACGATAATTAGT 58.234 37.500 0.00 0.00 36.70 2.24
3170 4127 5.628193 AGAAACGCCGATACGATAATTAGTG 59.372 40.000 0.00 0.00 36.70 2.74
3171 4128 3.240069 ACGCCGATACGATAATTAGTGC 58.760 45.455 0.00 0.00 36.70 4.40
3174 4131 4.384846 CGCCGATACGATAATTAGTGCTTT 59.615 41.667 0.00 0.00 34.06 3.51
3175 4132 5.107607 CGCCGATACGATAATTAGTGCTTTT 60.108 40.000 0.00 0.00 34.06 2.27
3176 4133 6.088483 CGCCGATACGATAATTAGTGCTTTTA 59.912 38.462 0.00 0.00 34.06 1.52
3177 4134 7.201410 CGCCGATACGATAATTAGTGCTTTTAT 60.201 37.037 0.00 0.00 34.06 1.40
3178 4135 8.108782 GCCGATACGATAATTAGTGCTTTTATC 58.891 37.037 0.00 0.00 0.00 1.75
3212 4169 1.135803 CGTTCCCGCGAAATGAAATGT 60.136 47.619 8.23 0.00 0.00 2.71
3219 4176 2.853594 CGCGAAATGAAATGTTGGATGG 59.146 45.455 0.00 0.00 0.00 3.51
3220 4177 3.189285 GCGAAATGAAATGTTGGATGGG 58.811 45.455 0.00 0.00 0.00 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
99 100 6.764877 ATATTAATGGTTCGAGCGTTACTG 57.235 37.500 0.00 0.00 28.03 2.74
100 101 7.781548 AAATATTAATGGTTCGAGCGTTACT 57.218 32.000 0.00 0.00 28.03 2.24
292 295 4.301072 TCTTGTGCAGGCCTAGTTTTAT 57.699 40.909 3.98 0.00 0.00 1.40
311 314 1.481772 GAGGTTGCTCTGCTCTCATCT 59.518 52.381 0.00 0.00 0.00 2.90
449 1146 5.178438 GGTGCATAGCTATGTTTCTCTTAGC 59.822 44.000 29.62 14.97 44.78 3.09
450 1147 6.201806 GTGGTGCATAGCTATGTTTCTCTTAG 59.798 42.308 29.62 5.90 36.11 2.18
451 1148 6.049149 GTGGTGCATAGCTATGTTTCTCTTA 58.951 40.000 29.62 10.00 36.11 2.10
452 1149 4.878397 GTGGTGCATAGCTATGTTTCTCTT 59.122 41.667 29.62 0.00 36.11 2.85
453 1150 4.446371 GTGGTGCATAGCTATGTTTCTCT 58.554 43.478 29.62 0.00 36.11 3.10
454 1151 3.561725 GGTGGTGCATAGCTATGTTTCTC 59.438 47.826 29.62 19.40 36.11 2.87
455 1152 3.545703 GGTGGTGCATAGCTATGTTTCT 58.454 45.455 29.62 0.00 36.11 2.52
456 1153 2.287915 CGGTGGTGCATAGCTATGTTTC 59.712 50.000 29.62 20.35 36.11 2.78
457 1154 2.093181 TCGGTGGTGCATAGCTATGTTT 60.093 45.455 29.62 0.00 36.11 2.83
458 1155 1.484653 TCGGTGGTGCATAGCTATGTT 59.515 47.619 29.62 0.00 36.11 2.71
459 1156 1.119684 TCGGTGGTGCATAGCTATGT 58.880 50.000 29.62 0.00 36.11 2.29
460 1157 1.502231 GTCGGTGGTGCATAGCTATG 58.498 55.000 26.42 26.42 36.78 2.23
461 1158 0.393077 GGTCGGTGGTGCATAGCTAT 59.607 55.000 0.00 0.00 0.00 2.97
462 1159 1.820581 GGTCGGTGGTGCATAGCTA 59.179 57.895 0.00 0.00 0.00 3.32
519 1231 0.250124 TGTCATGGGGTCGTGTCAAC 60.250 55.000 0.00 0.00 0.00 3.18
522 1234 0.670546 CAGTGTCATGGGGTCGTGTC 60.671 60.000 0.00 0.00 0.00 3.67
523 1235 1.371183 CAGTGTCATGGGGTCGTGT 59.629 57.895 0.00 0.00 0.00 4.49
524 1236 2.034879 GCAGTGTCATGGGGTCGTG 61.035 63.158 0.00 0.00 0.00 4.35
525 1237 1.768684 AAGCAGTGTCATGGGGTCGT 61.769 55.000 0.00 0.00 0.00 4.34
526 1238 0.249120 TAAGCAGTGTCATGGGGTCG 59.751 55.000 0.00 0.00 0.00 4.79
527 1239 1.279271 AGTAAGCAGTGTCATGGGGTC 59.721 52.381 0.00 0.00 0.00 4.46
528 1240 1.003580 CAGTAAGCAGTGTCATGGGGT 59.996 52.381 0.00 0.00 0.00 4.95
529 1241 1.742761 CAGTAAGCAGTGTCATGGGG 58.257 55.000 0.00 0.00 0.00 4.96
558 1270 2.624838 ACTTGACAGCAACATTTCTGGG 59.375 45.455 0.00 0.00 34.76 4.45
560 1272 4.556942 TGACTTGACAGCAACATTTCTG 57.443 40.909 0.00 0.00 36.45 3.02
588 1300 1.238439 CTGGGTGTGTCCACATTGAC 58.762 55.000 3.07 0.00 43.97 3.18
589 1301 0.537143 GCTGGGTGTGTCCACATTGA 60.537 55.000 3.07 0.00 43.97 2.57
596 1308 3.629142 AAAGTATAGCTGGGTGTGTCC 57.371 47.619 0.00 0.00 0.00 4.02
601 1313 7.454260 AGAAAAAGAAAAGTATAGCTGGGTG 57.546 36.000 0.00 0.00 0.00 4.61
727 1440 2.764314 CCGCAATTCTTGGCCTCGG 61.764 63.158 3.32 0.17 0.00 4.63
763 1476 1.069227 GTGCTCTTTACCCGTTGCTTG 60.069 52.381 0.00 0.00 0.00 4.01
774 1487 4.882842 TGTCCACTATGTGTGCTCTTTA 57.117 40.909 0.00 0.00 44.92 1.85
864 1584 5.560724 TGGAATTGTTAGGACTTTGAGGAG 58.439 41.667 0.00 0.00 0.00 3.69
868 1588 5.538433 CCCTTTGGAATTGTTAGGACTTTGA 59.462 40.000 0.00 0.00 0.00 2.69
887 1615 5.632034 AGACAGTTTCTCACTAACCCTTT 57.368 39.130 0.00 0.00 32.76 3.11
894 1622 5.050490 GCAGTTGAAGACAGTTTCTCACTA 58.950 41.667 0.00 0.00 32.76 2.74
992 1749 0.603975 GGCAGGCTCCATTATCGACC 60.604 60.000 0.00 0.00 0.00 4.79
997 1754 2.224967 GGAATCTGGCAGGCTCCATTAT 60.225 50.000 23.07 3.60 35.22 1.28
1317 2077 2.037136 GCAGCTCCGCATCAACACT 61.037 57.895 0.00 0.00 0.00 3.55
1414 2174 4.292178 CTCCCGCCGCTCCATCTC 62.292 72.222 0.00 0.00 0.00 2.75
1417 2177 4.162690 GAACTCCCGCCGCTCCAT 62.163 66.667 0.00 0.00 0.00 3.41
1612 2372 4.208746 AGGTCAGGAAACTCGATACCTAG 58.791 47.826 0.00 0.00 40.21 3.02
1614 2374 3.025262 GAGGTCAGGAAACTCGATACCT 58.975 50.000 0.00 0.00 40.21 3.08
1626 2386 1.053835 TGGCTGTGTTGAGGTCAGGA 61.054 55.000 0.00 0.00 0.00 3.86
1641 2401 0.387929 TGTCGTCGTTCTCTTTGGCT 59.612 50.000 0.00 0.00 0.00 4.75
1760 2520 0.793250 GTTCTTGCTTCCGTCTGAGC 59.207 55.000 0.00 0.00 0.00 4.26
1764 2524 1.668151 GGCGTTCTTGCTTCCGTCT 60.668 57.895 0.00 0.00 34.52 4.18
1920 2680 4.324991 GCCCCTCCGTTGGACGTT 62.325 66.667 0.00 0.00 40.58 3.99
2305 3065 5.879223 GCAAGAAGAGATCAGATTTTCCTCA 59.121 40.000 0.00 0.00 0.00 3.86
2307 3067 5.813383 TGCAAGAAGAGATCAGATTTTCCT 58.187 37.500 0.00 0.00 0.00 3.36
2360 3157 2.475487 AGTCTTAACGAACGAAGCAAGC 59.525 45.455 0.14 0.00 0.00 4.01
2365 3162 6.345565 CCACAAGTTAGTCTTAACGAACGAAG 60.346 42.308 0.14 0.00 43.39 3.79
2421 3250 3.188873 CAGAAGAAAGAAGGCTCTGCTTG 59.811 47.826 0.00 0.00 28.37 4.01
2505 3353 2.502142 TTGCAGGCAGACATCAGATT 57.498 45.000 0.00 0.00 0.00 2.40
2528 3376 0.798159 TGTAATTGAGTGCAGCAGCG 59.202 50.000 0.00 0.00 46.23 5.18
2529 3377 2.079158 TCTGTAATTGAGTGCAGCAGC 58.921 47.619 0.00 0.00 42.57 5.25
2530 3378 3.332919 AGTCTGTAATTGAGTGCAGCAG 58.667 45.455 0.00 0.00 0.00 4.24
2581 3500 6.536582 CCATTCTACTCCACATGTTACTCTTG 59.463 42.308 0.00 0.00 0.00 3.02
2600 3519 2.225091 TGCCCACATGAAACTCCATTCT 60.225 45.455 0.00 0.00 0.00 2.40
2711 3635 9.543783 TCTATCTCAATGTTCTTCAATGATCAG 57.456 33.333 0.09 0.00 35.71 2.90
2722 3646 9.676861 TTTCACAATGATCTATCTCAATGTTCT 57.323 29.630 0.00 0.00 37.21 3.01
2807 3733 7.520798 TCCATATGATAGGAGCAAGAATTTGT 58.479 34.615 3.65 0.00 36.65 2.83
2840 3773 0.106519 ACAATGCTATGGGTGGGAGC 60.107 55.000 0.00 0.00 36.72 4.70
2861 3794 1.986882 AGGTGTTCCTTTGCTTCTGG 58.013 50.000 0.00 0.00 42.12 3.86
2901 3834 1.127951 GCCCGCAATTTATATCGTCGG 59.872 52.381 0.00 0.00 35.60 4.79
2944 3877 3.003275 GCGTCTGTTCCATGAGTGAAAAA 59.997 43.478 0.00 0.00 0.00 1.94
2945 3878 2.548057 GCGTCTGTTCCATGAGTGAAAA 59.452 45.455 0.00 0.00 0.00 2.29
2948 3881 0.969149 AGCGTCTGTTCCATGAGTGA 59.031 50.000 0.00 0.00 0.00 3.41
2952 3885 0.684535 TGGAAGCGTCTGTTCCATGA 59.315 50.000 0.41 0.00 46.96 3.07
3101 4056 5.510889 GGAAAACCCATGGAAGTTGCAAAC 61.511 45.833 15.22 0.00 40.44 2.93
3142 4099 2.572191 TCGTATCGGCGTTTCTCAAT 57.428 45.000 6.85 0.00 0.00 2.57
3147 4104 5.664735 GCACTAATTATCGTATCGGCGTTTC 60.665 44.000 6.85 0.00 0.00 2.78
3166 4123 5.180492 CGGGACAGTTTTGATAAAAGCACTA 59.820 40.000 0.00 0.00 0.00 2.74
3167 4124 4.023193 CGGGACAGTTTTGATAAAAGCACT 60.023 41.667 0.00 0.00 0.00 4.40
3168 4125 4.226761 CGGGACAGTTTTGATAAAAGCAC 58.773 43.478 0.00 0.00 0.00 4.40
3169 4126 3.305064 GCGGGACAGTTTTGATAAAAGCA 60.305 43.478 0.00 0.00 0.00 3.91
3170 4127 3.242518 GCGGGACAGTTTTGATAAAAGC 58.757 45.455 0.00 0.00 0.00 3.51
3171 4128 3.669557 CGGCGGGACAGTTTTGATAAAAG 60.670 47.826 0.00 0.00 0.00 2.27
3174 4131 1.270947 ACGGCGGGACAGTTTTGATAA 60.271 47.619 13.24 0.00 0.00 1.75
3175 4132 0.322322 ACGGCGGGACAGTTTTGATA 59.678 50.000 13.24 0.00 0.00 2.15
3176 4133 0.536460 AACGGCGGGACAGTTTTGAT 60.536 50.000 13.24 0.00 32.27 2.57
3177 4134 1.153127 AACGGCGGGACAGTTTTGA 60.153 52.632 13.24 0.00 32.27 2.69
3178 4135 1.281656 GAACGGCGGGACAGTTTTG 59.718 57.895 13.24 0.00 36.76 2.44
3181 4138 4.324991 GGGAACGGCGGGACAGTT 62.325 66.667 13.24 0.00 39.56 3.16


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

AutoCloner maintained by Alex Coulton.