Multiple sequence alignment - TraesCS2B01G184800

Loading Multiple Alignment...

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 TraesCS2B01G184800 chr2B 100.000 3222 0 0 1 3222 159603454 159600233 0.000000e+00 5951.0
1 TraesCS2B01G184800 chr2B 96.919 1136 30 5 1010 2142 159573304 159574437 0.000000e+00 1899.0
2 TraesCS2B01G184800 chr2B 83.855 607 66 16 2127 2702 159574451 159575056 1.690000e-152 549.0
3 TraesCS2B01G184800 chr2B 81.007 437 54 19 1881 2297 159326521 159326948 1.440000e-83 320.0
4 TraesCS2B01G184800 chr2B 92.500 160 9 2 3049 3207 159575067 159575224 3.230000e-55 226.0
5 TraesCS2B01G184800 chr2B 91.803 61 3 2 951 1011 159573198 159573256 2.060000e-12 84.2
6 TraesCS2B01G184800 chr2D 89.748 2302 127 48 1006 3222 110403221 110405498 0.000000e+00 2843.0
7 TraesCS2B01G184800 chr2D 92.875 1207 58 9 818 2005 110630639 110629442 0.000000e+00 1727.0
8 TraesCS2B01G184800 chr2D 86.816 804 64 19 1526 2293 109913687 109914484 0.000000e+00 859.0
9 TraesCS2B01G184800 chr2D 84.253 743 84 14 1 722 110631403 110630673 0.000000e+00 693.0
10 TraesCS2B01G184800 chr2D 93.390 469 23 2 1057 1524 109906396 109906857 0.000000e+00 688.0
11 TraesCS2B01G184800 chr2D 83.962 106 6 8 901 1002 110403074 110403172 1.230000e-14 91.6
12 TraesCS2B01G184800 chr2A 93.139 1370 61 16 904 2248 106654018 106652657 0.000000e+00 1978.0
13 TraesCS2B01G184800 chr2A 94.155 1249 53 8 841 2077 105682006 105683246 0.000000e+00 1884.0
14 TraesCS2B01G184800 chr2A 88.107 1009 70 27 2237 3222 105683250 105684231 0.000000e+00 1153.0
15 TraesCS2B01G184800 chr2A 86.324 680 76 15 1 664 106655935 106655257 0.000000e+00 725.0
16 TraesCS2B01G184800 chr2A 83.515 643 89 11 1 629 440005037 440005676 4.630000e-163 584.0
17 TraesCS2B01G184800 chr2A 87.795 254 27 1 1756 2005 105592054 105592307 8.740000e-76 294.0
18 TraesCS2B01G184800 chr2A 83.871 93 10 4 3132 3222 105594817 105594906 2.060000e-12 84.2
19 TraesCS2B01G184800 chr3B 83.851 644 88 14 1 630 606230946 606230305 1.650000e-167 599.0
20 TraesCS2B01G184800 chr3B 83.489 642 92 12 1 629 606227263 606226623 1.290000e-163 586.0
21 TraesCS2B01G184800 chr3B 94.595 37 0 2 2518 2552 702859600 702859636 4.490000e-04 56.5
22 TraesCS2B01G184800 chr3D 83.826 643 89 12 1 629 178934861 178934220 5.950000e-167 597.0
23 TraesCS2B01G184800 chr4A 83.721 645 87 12 2 630 445054124 445053482 7.700000e-166 593.0
24 TraesCS2B01G184800 chr5A 83.721 645 86 12 1 630 382645754 382645114 2.770000e-165 592.0
25 TraesCS2B01G184800 chr4B 83.566 645 89 14 1 630 431428086 431427444 3.580000e-164 588.0
26 TraesCS2B01G184800 chrUn 100.000 53 0 0 3039 3091 233526771 233526823 7.360000e-17 99.0
27 TraesCS2B01G184800 chrUn 100.000 53 0 0 3039 3091 257942609 257942557 7.360000e-17 99.0
28 TraesCS2B01G184800 chrUn 100.000 53 0 0 3039 3091 429574691 429574639 7.360000e-17 99.0
29 TraesCS2B01G184800 chr7D 100.000 53 0 0 3039 3091 307087994 307087942 7.360000e-17 99.0
30 TraesCS2B01G184800 chr6D 100.000 53 0 0 3039 3091 283185909 283185857 7.360000e-17 99.0
31 TraesCS2B01G184800 chr4D 100.000 53 0 0 3039 3091 123687459 123687407 7.360000e-17 99.0


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 TraesCS2B01G184800 chr2B 159600233 159603454 3221 True 5951.00 5951 100.00000 1 3222 1 chr2B.!!$R1 3221
1 TraesCS2B01G184800 chr2B 159573198 159575224 2026 False 689.55 1899 91.26925 951 3207 4 chr2B.!!$F2 2256
2 TraesCS2B01G184800 chr2D 110403074 110405498 2424 False 1467.30 2843 86.85500 901 3222 2 chr2D.!!$F3 2321
3 TraesCS2B01G184800 chr2D 110629442 110631403 1961 True 1210.00 1727 88.56400 1 2005 2 chr2D.!!$R1 2004
4 TraesCS2B01G184800 chr2D 109913687 109914484 797 False 859.00 859 86.81600 1526 2293 1 chr2D.!!$F2 767
5 TraesCS2B01G184800 chr2A 105682006 105684231 2225 False 1518.50 1884 91.13100 841 3222 2 chr2A.!!$F3 2381
6 TraesCS2B01G184800 chr2A 106652657 106655935 3278 True 1351.50 1978 89.73150 1 2248 2 chr2A.!!$R1 2247
7 TraesCS2B01G184800 chr2A 440005037 440005676 639 False 584.00 584 83.51500 1 629 1 chr2A.!!$F1 628
8 TraesCS2B01G184800 chr3B 606226623 606230946 4323 True 592.50 599 83.67000 1 630 2 chr3B.!!$R1 629
9 TraesCS2B01G184800 chr3D 178934220 178934861 641 True 597.00 597 83.82600 1 629 1 chr3D.!!$R1 628
10 TraesCS2B01G184800 chr4A 445053482 445054124 642 True 593.00 593 83.72100 2 630 1 chr4A.!!$R1 628
11 TraesCS2B01G184800 chr5A 382645114 382645754 640 True 592.00 592 83.72100 1 630 1 chr5A.!!$R1 629
12 TraesCS2B01G184800 chr4B 431427444 431428086 642 True 588.00 588 83.56600 1 630 1 chr4B.!!$R1 629

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
814 4646 0.033504 TGTTGTCCGTGAAGAGCTCC 59.966 55.0 10.93 0.0 0.0 4.7 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2323 7304 0.679505 GGAAGGTTCCCAAAACTGCC 59.32 55.0 0.0 0.0 40.89 4.85 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
82 91 1.079503 GTCATTCTCGTGGAAGGTGC 58.920 55.000 5.75 0.00 37.08 5.01
83 92 0.684535 TCATTCTCGTGGAAGGTGCA 59.315 50.000 0.00 0.00 37.08 4.57
94 103 1.614317 GGAAGGTGCACAGGCTGTTAT 60.614 52.381 19.43 0.14 41.91 1.89
142 151 3.053544 TCCCACAACCTCCAAAGTTAACA 60.054 43.478 8.61 0.00 0.00 2.41
208 218 8.445275 TGAAACATTTTCACAACTAGCTAAGA 57.555 30.769 0.00 0.00 0.00 2.10
237 247 4.414182 TGTCCCTACTATAAAACCCCATGG 59.586 45.833 4.14 4.14 37.80 3.66
259 270 5.482526 TGGCCCTATCCTTTTAAAAACCTTC 59.517 40.000 0.00 0.00 0.00 3.46
274 286 3.485463 ACCTTCTGTCAAACCATTCGA 57.515 42.857 0.00 0.00 0.00 3.71
330 344 4.888239 CCGAGAGATCCTTACTACCTTTGA 59.112 45.833 0.00 0.00 0.00 2.69
339 353 7.311092 TCCTTACTACCTTTGATCTTGTGAA 57.689 36.000 0.00 0.00 0.00 3.18
381 397 0.981943 AACCTCTGGTTCCCCGTAAG 59.018 55.000 0.00 0.00 43.05 2.34
390 406 1.880819 TTCCCCGTAAGTCGTGCTCC 61.881 60.000 0.00 0.00 37.94 4.70
447 4148 6.199908 CAGTTTATGGTTTTGCAATTGTTCGA 59.800 34.615 7.40 0.00 0.00 3.71
449 4150 7.440856 AGTTTATGGTTTTGCAATTGTTCGAAT 59.559 29.630 7.40 0.00 0.00 3.34
459 4160 2.172851 TTGTTCGAATAGCGGGTTGT 57.827 45.000 0.00 0.00 41.33 3.32
471 4172 2.631545 AGCGGGTTGTAGTTCTTGTAGT 59.368 45.455 0.00 0.00 0.00 2.73
481 4182 4.608948 AGTTCTTGTAGTTCCAGTCAGG 57.391 45.455 0.00 0.00 39.47 3.86
504 4206 1.238625 CCCAACGTACGGGTTGCATT 61.239 55.000 21.06 0.00 44.58 3.56
538 4240 9.930693 GTCAGGTATAAATCTAGTTATTCTGGG 57.069 37.037 11.66 0.00 31.50 4.45
582 4289 2.287103 TCGATCCTACGACGTGAAGATG 59.713 50.000 11.56 5.58 37.37 2.90
583 4290 2.287103 CGATCCTACGACGTGAAGATGA 59.713 50.000 11.56 0.00 35.09 2.92
591 4298 2.351835 CGACGTGAAGATGAAGACACCT 60.352 50.000 0.00 0.00 0.00 4.00
672 4501 1.303236 TCTCCGGTGTTGCAATGGG 60.303 57.895 0.59 1.92 0.00 4.00
736 4568 1.217585 CTGATTGGATGCGACGCGAT 61.218 55.000 15.93 9.80 0.00 4.58
737 4569 1.215014 TGATTGGATGCGACGCGATC 61.215 55.000 15.93 17.38 0.00 3.69
738 4570 0.941463 GATTGGATGCGACGCGATCT 60.941 55.000 15.93 10.36 0.00 2.75
742 4574 0.726452 GGATGCGACGCGATCTAGAC 60.726 60.000 15.93 9.68 0.00 2.59
743 4575 0.726452 GATGCGACGCGATCTAGACC 60.726 60.000 15.93 0.00 0.00 3.85
744 4576 1.444917 ATGCGACGCGATCTAGACCA 61.445 55.000 15.93 0.00 0.00 4.02
746 4578 1.369448 CGACGCGATCTAGACCAGC 60.369 63.158 15.93 0.00 0.00 4.85
749 4581 4.618513 GCGATCTAGACCAGCGAC 57.381 61.111 0.00 0.00 0.00 5.19
750 4582 1.728069 GCGATCTAGACCAGCGACA 59.272 57.895 0.00 0.00 0.00 4.35
751 4583 0.100682 GCGATCTAGACCAGCGACAA 59.899 55.000 0.00 0.00 0.00 3.18
752 4584 1.828832 CGATCTAGACCAGCGACAAC 58.171 55.000 0.00 0.00 0.00 3.32
753 4585 1.132453 CGATCTAGACCAGCGACAACA 59.868 52.381 0.00 0.00 0.00 3.33
754 4586 2.415491 CGATCTAGACCAGCGACAACAA 60.415 50.000 0.00 0.00 0.00 2.83
755 4587 2.433868 TCTAGACCAGCGACAACAAC 57.566 50.000 0.00 0.00 0.00 3.32
756 4588 1.000506 TCTAGACCAGCGACAACAACC 59.999 52.381 0.00 0.00 0.00 3.77
757 4589 1.000955 CTAGACCAGCGACAACAACCT 59.999 52.381 0.00 0.00 0.00 3.50
758 4590 0.180406 AGACCAGCGACAACAACCTT 59.820 50.000 0.00 0.00 0.00 3.50
759 4591 1.021968 GACCAGCGACAACAACCTTT 58.978 50.000 0.00 0.00 0.00 3.11
760 4592 0.738389 ACCAGCGACAACAACCTTTG 59.262 50.000 0.00 0.00 0.00 2.77
762 4594 1.533756 CCAGCGACAACAACCTTTGTG 60.534 52.381 0.00 0.00 44.59 3.33
763 4595 1.132262 CAGCGACAACAACCTTTGTGT 59.868 47.619 0.00 0.00 44.59 3.72
764 4596 1.816224 AGCGACAACAACCTTTGTGTT 59.184 42.857 0.00 0.00 44.59 3.32
765 4597 2.230266 AGCGACAACAACCTTTGTGTTT 59.770 40.909 0.00 0.00 44.59 2.83
766 4598 2.990514 GCGACAACAACCTTTGTGTTTT 59.009 40.909 0.00 0.00 44.59 2.43
767 4599 3.430556 GCGACAACAACCTTTGTGTTTTT 59.569 39.130 0.00 0.00 44.59 1.94
804 4636 3.224884 CAAAACCTTTGTGTTGTCCGT 57.775 42.857 0.00 0.00 35.36 4.69
805 4637 2.920490 CAAAACCTTTGTGTTGTCCGTG 59.080 45.455 0.00 0.00 35.36 4.94
806 4638 2.116827 AACCTTTGTGTTGTCCGTGA 57.883 45.000 0.00 0.00 0.00 4.35
807 4639 2.116827 ACCTTTGTGTTGTCCGTGAA 57.883 45.000 0.00 0.00 0.00 3.18
808 4640 2.014128 ACCTTTGTGTTGTCCGTGAAG 58.986 47.619 0.00 0.00 0.00 3.02
809 4641 2.285083 CCTTTGTGTTGTCCGTGAAGA 58.715 47.619 0.00 0.00 0.00 2.87
810 4642 2.287915 CCTTTGTGTTGTCCGTGAAGAG 59.712 50.000 0.00 0.00 0.00 2.85
811 4643 1.295792 TTGTGTTGTCCGTGAAGAGC 58.704 50.000 0.00 0.00 0.00 4.09
812 4644 0.464036 TGTGTTGTCCGTGAAGAGCT 59.536 50.000 0.00 0.00 0.00 4.09
813 4645 1.140816 GTGTTGTCCGTGAAGAGCTC 58.859 55.000 5.27 5.27 0.00 4.09
814 4646 0.033504 TGTTGTCCGTGAAGAGCTCC 59.966 55.000 10.93 0.00 0.00 4.70
815 4647 0.318762 GTTGTCCGTGAAGAGCTCCT 59.681 55.000 10.93 0.00 0.00 3.69
816 4648 0.603569 TTGTCCGTGAAGAGCTCCTC 59.396 55.000 10.93 7.90 0.00 3.71
830 4662 2.959030 AGCTCCTCTGCATTGACGTATA 59.041 45.455 0.00 0.00 34.99 1.47
838 4670 3.670625 TGCATTGACGTATATAAGGGCC 58.329 45.455 0.00 0.00 0.00 5.80
882 4725 2.882793 GACCGGATCGATTTCGTCC 58.117 57.895 9.46 6.64 40.80 4.79
946 5735 7.798596 ATAATCTCTCGGTTCGTTTAGTCTA 57.201 36.000 0.00 0.00 0.00 2.59
947 5736 6.506500 AATCTCTCGGTTCGTTTAGTCTAA 57.493 37.500 0.00 0.00 0.00 2.10
948 5737 6.696441 ATCTCTCGGTTCGTTTAGTCTAAT 57.304 37.500 0.00 0.00 0.00 1.73
949 5738 7.798596 ATCTCTCGGTTCGTTTAGTCTAATA 57.201 36.000 0.00 0.00 0.00 0.98
1069 5914 4.093514 CAGATAGCAACAATCAAACAGCG 58.906 43.478 0.00 0.00 0.00 5.18
1316 6162 4.427661 GAGGCAGTCGCGCTCTGT 62.428 66.667 23.90 11.51 39.92 3.41
1477 6323 5.057149 CCCCTACAAAATAATCGAGGTCTG 58.943 45.833 0.00 0.00 0.00 3.51
1798 6673 1.302033 GGCGGCTATCTGTGGATGG 60.302 63.158 0.00 0.00 33.71 3.51
1805 6680 2.487805 GCTATCTGTGGATGGATGGCAA 60.488 50.000 0.00 0.00 42.99 4.52
1806 6681 3.813240 GCTATCTGTGGATGGATGGCAAT 60.813 47.826 0.00 0.00 42.99 3.56
2005 6886 5.454045 GGATCAAGGTAGAATCTTCAGGTCC 60.454 48.000 0.00 0.00 0.00 4.46
2006 6887 4.689062 TCAAGGTAGAATCTTCAGGTCCT 58.311 43.478 0.00 0.00 0.00 3.85
2007 6888 5.838955 TCAAGGTAGAATCTTCAGGTCCTA 58.161 41.667 0.00 0.00 0.00 2.94
2008 6889 5.894393 TCAAGGTAGAATCTTCAGGTCCTAG 59.106 44.000 0.00 0.00 0.00 3.02
2071 6956 7.681679 TGTTTAGGTTATGTTCACTACATCCA 58.318 34.615 0.00 0.00 44.15 3.41
2166 7122 4.854839 AGTGAACTTTTTCGTTTTTCACCG 59.145 37.500 8.72 0.00 44.69 4.94
2218 7184 6.420588 TCGGTTAAAATTAACGACTGTGTTG 58.579 36.000 9.30 0.00 42.97 3.33
2270 7236 1.326548 GCGTAGGTTGTTCAATAGCGG 59.673 52.381 0.00 0.00 0.00 5.52
2301 7267 3.760035 CCCTCGCGCAGGTAGTGT 61.760 66.667 19.93 0.00 41.51 3.55
2308 7274 1.737696 CGCGCAGGTAGTGTTCCATAA 60.738 52.381 8.75 0.00 0.00 1.90
2323 7304 4.164843 TCCATAAAGGATTTCTTCCCCG 57.835 45.455 0.00 0.00 46.81 5.73
2324 7305 3.117663 TCCATAAAGGATTTCTTCCCCGG 60.118 47.826 0.00 0.00 46.81 5.73
2363 7344 6.236558 TCCCTAAACCGGTTTTTCATTTTT 57.763 33.333 35.69 12.61 34.23 1.94
2366 7347 5.467399 CCTAAACCGGTTTTTCATTTTTCCC 59.533 40.000 35.69 0.00 34.23 3.97
2375 7356 7.923878 CGGTTTTTCATTTTTCCCTTTTCTCTA 59.076 33.333 0.00 0.00 0.00 2.43
2503 7493 8.945481 ATGAACAATTTTCAGATTCACAAACA 57.055 26.923 8.38 0.00 32.42 2.83
2764 7756 8.116136 GGAAACAAATTATGAAATTCGCAATCC 58.884 33.333 0.00 0.00 34.12 3.01
2765 7757 8.545229 AAACAAATTATGAAATTCGCAATCCA 57.455 26.923 0.00 0.00 34.12 3.41
2820 7813 9.487790 AAAGTCACAAACATTTTTCTGAAAAGA 57.512 25.926 14.52 7.65 38.09 2.52
2861 7854 2.412770 GCCAACATTTTTGGAATCTGCG 59.587 45.455 5.76 0.00 42.06 5.18
2890 7883 9.971744 GATTTAATGATTTCCGGAACAATTTTG 57.028 29.630 18.64 0.00 0.00 2.44
2985 7980 8.119246 TGGAATCCCAAATTATTTTACAGGAGA 58.881 33.333 0.00 0.00 40.09 3.71
3071 8072 8.850007 AGAAGTGGTTCCTTTTCTTTCTATAC 57.150 34.615 3.78 0.00 32.48 1.47
3125 8128 3.626924 GCGGGGAGTGTGAGGTGT 61.627 66.667 0.00 0.00 0.00 4.16
3147 8150 1.078497 TTCCGCGTCTTCATGCCAT 60.078 52.632 4.92 0.00 0.00 4.40
3179 8182 0.252742 AAAGGAGGTCCCCATCGAGT 60.253 55.000 0.00 0.00 36.42 4.18
3183 8186 1.679032 GGAGGTCCCCATCGAGTTTTG 60.679 57.143 0.00 0.00 0.00 2.44
3184 8187 1.003233 GAGGTCCCCATCGAGTTTTGT 59.997 52.381 0.00 0.00 0.00 2.83
3185 8188 1.003233 AGGTCCCCATCGAGTTTTGTC 59.997 52.381 0.00 0.00 0.00 3.18
3186 8189 1.271163 GGTCCCCATCGAGTTTTGTCA 60.271 52.381 0.00 0.00 0.00 3.58
3187 8190 2.618045 GGTCCCCATCGAGTTTTGTCAT 60.618 50.000 0.00 0.00 0.00 3.06
3188 8191 3.370103 GGTCCCCATCGAGTTTTGTCATA 60.370 47.826 0.00 0.00 0.00 2.15
3189 8192 3.621715 GTCCCCATCGAGTTTTGTCATAC 59.378 47.826 0.00 0.00 0.00 2.39
3190 8193 3.517901 TCCCCATCGAGTTTTGTCATACT 59.482 43.478 0.00 0.00 0.00 2.12
3191 8194 4.712829 TCCCCATCGAGTTTTGTCATACTA 59.287 41.667 0.00 0.00 0.00 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
47 56 6.587990 CGAGAATGACTAGAATGTTTGACTGT 59.412 38.462 0.00 0.00 0.00 3.55
82 91 0.729116 CGAAGCCATAACAGCCTGTG 59.271 55.000 0.00 0.00 0.00 3.66
83 92 0.324943 ACGAAGCCATAACAGCCTGT 59.675 50.000 0.00 0.00 0.00 4.00
94 103 1.804151 CCTCGAAAATTCACGAAGCCA 59.196 47.619 7.97 0.00 38.05 4.75
129 138 5.125578 GGGGAATAAGCTGTTAACTTTGGAG 59.874 44.000 7.22 0.00 0.00 3.86
142 151 2.624293 GGCTTTCTTGGGGGAATAAGCT 60.624 50.000 0.00 0.00 32.68 3.74
198 208 2.468915 GGACAACCCCTCTTAGCTAGT 58.531 52.381 0.00 0.00 0.00 2.57
237 247 6.210784 ACAGAAGGTTTTTAAAAGGATAGGGC 59.789 38.462 0.14 0.00 0.00 5.19
259 270 4.377431 GCTTGTAGTCGAATGGTTTGACAG 60.377 45.833 11.49 3.01 44.82 3.51
274 286 4.528596 AGTCTTCCTGTGTATGCTTGTAGT 59.471 41.667 0.00 0.00 0.00 2.73
330 344 6.038356 GCAAATCCGAATGAATTCACAAGAT 58.962 36.000 11.07 8.12 36.61 2.40
339 353 3.313526 CCTTCTCGCAAATCCGAATGAAT 59.686 43.478 0.00 0.00 36.72 2.57
423 441 6.276847 TCGAACAATTGCAAAACCATAAACT 58.723 32.000 1.71 0.00 0.00 2.66
447 4148 4.281898 ACAAGAACTACAACCCGCTATT 57.718 40.909 0.00 0.00 0.00 1.73
449 4150 3.828451 ACTACAAGAACTACAACCCGCTA 59.172 43.478 0.00 0.00 0.00 4.26
459 4160 4.021368 GCCTGACTGGAACTACAAGAACTA 60.021 45.833 1.91 0.00 38.35 2.24
471 4172 0.038166 GTTGGGATGCCTGACTGGAA 59.962 55.000 4.35 0.00 38.35 3.53
513 4215 9.670442 ACCCAGAATAACTAGATTTATACCTGA 57.330 33.333 0.00 0.00 30.95 3.86
583 4290 2.107204 AGTTCATGCCTGAAGGTGTCTT 59.893 45.455 4.51 0.00 41.96 3.01
591 4298 2.542020 TGAACGAGTTCATGCCTGAA 57.458 45.000 13.96 0.00 43.90 3.02
672 4501 4.389576 CAAGTTGCCGGCGAGTGC 62.390 66.667 24.98 9.82 41.71 4.40
713 4542 1.451927 GTCGCATCCAATCAGCCCA 60.452 57.895 0.00 0.00 0.00 5.36
736 4568 1.000506 GGTTGTTGTCGCTGGTCTAGA 59.999 52.381 0.00 0.00 0.00 2.43
737 4569 1.000955 AGGTTGTTGTCGCTGGTCTAG 59.999 52.381 0.00 0.00 0.00 2.43
738 4570 1.045407 AGGTTGTTGTCGCTGGTCTA 58.955 50.000 0.00 0.00 0.00 2.59
742 4574 0.738389 ACAAAGGTTGTTGTCGCTGG 59.262 50.000 0.00 0.00 42.22 4.85
743 4575 1.132262 ACACAAAGGTTGTTGTCGCTG 59.868 47.619 0.00 0.00 43.23 5.18
744 4576 1.459450 ACACAAAGGTTGTTGTCGCT 58.541 45.000 0.00 0.00 43.23 4.93
782 4614 2.920490 CGGACAACACAAAGGTTTTGTG 59.080 45.455 25.05 25.05 45.30 3.33
784 4616 2.920490 CACGGACAACACAAAGGTTTTG 59.080 45.455 0.28 0.28 39.89 2.44
785 4617 2.820787 TCACGGACAACACAAAGGTTTT 59.179 40.909 0.00 0.00 0.00 2.43
786 4618 2.438411 TCACGGACAACACAAAGGTTT 58.562 42.857 0.00 0.00 0.00 3.27
787 4619 2.116827 TCACGGACAACACAAAGGTT 57.883 45.000 0.00 0.00 0.00 3.50
788 4620 2.014128 CTTCACGGACAACACAAAGGT 58.986 47.619 0.00 0.00 0.00 3.50
789 4621 2.285083 TCTTCACGGACAACACAAAGG 58.715 47.619 0.00 0.00 0.00 3.11
790 4622 2.286418 GCTCTTCACGGACAACACAAAG 60.286 50.000 0.00 0.00 0.00 2.77
791 4623 1.668751 GCTCTTCACGGACAACACAAA 59.331 47.619 0.00 0.00 0.00 2.83
792 4624 1.134521 AGCTCTTCACGGACAACACAA 60.135 47.619 0.00 0.00 0.00 3.33
793 4625 0.464036 AGCTCTTCACGGACAACACA 59.536 50.000 0.00 0.00 0.00 3.72
794 4626 1.140816 GAGCTCTTCACGGACAACAC 58.859 55.000 6.43 0.00 0.00 3.32
795 4627 0.033504 GGAGCTCTTCACGGACAACA 59.966 55.000 14.64 0.00 0.00 3.33
796 4628 0.318762 AGGAGCTCTTCACGGACAAC 59.681 55.000 14.64 0.00 0.00 3.32
797 4629 0.603569 GAGGAGCTCTTCACGGACAA 59.396 55.000 20.15 0.00 0.00 3.18
798 4630 0.251386 AGAGGAGCTCTTCACGGACA 60.251 55.000 25.83 0.00 37.60 4.02
799 4631 0.172352 CAGAGGAGCTCTTCACGGAC 59.828 60.000 25.83 1.43 38.99 4.79
800 4632 1.599606 GCAGAGGAGCTCTTCACGGA 61.600 60.000 25.83 0.00 38.99 4.69
801 4633 1.153667 GCAGAGGAGCTCTTCACGG 60.154 63.158 25.83 15.98 38.99 4.94
802 4634 0.175302 ATGCAGAGGAGCTCTTCACG 59.825 55.000 25.83 17.46 38.99 4.35
803 4635 2.008329 CAATGCAGAGGAGCTCTTCAC 58.992 52.381 25.83 17.84 38.99 3.18
804 4636 1.904537 TCAATGCAGAGGAGCTCTTCA 59.095 47.619 25.83 8.30 38.99 3.02
805 4637 2.278854 GTCAATGCAGAGGAGCTCTTC 58.721 52.381 17.68 17.68 38.99 2.87
806 4638 1.405256 CGTCAATGCAGAGGAGCTCTT 60.405 52.381 14.64 5.66 38.99 2.85
807 4639 0.175302 CGTCAATGCAGAGGAGCTCT 59.825 55.000 14.64 0.00 42.11 4.09
808 4640 0.108424 ACGTCAATGCAGAGGAGCTC 60.108 55.000 4.71 4.71 34.99 4.09
809 4641 1.186200 TACGTCAATGCAGAGGAGCT 58.814 50.000 0.00 0.00 34.99 4.09
810 4642 2.231215 ATACGTCAATGCAGAGGAGC 57.769 50.000 0.00 0.00 0.00 4.70
811 4643 6.096036 CCTTATATACGTCAATGCAGAGGAG 58.904 44.000 0.00 0.00 0.00 3.69
812 4644 5.047306 CCCTTATATACGTCAATGCAGAGGA 60.047 44.000 0.00 0.00 0.00 3.71
813 4645 5.171476 CCCTTATATACGTCAATGCAGAGG 58.829 45.833 0.00 0.00 0.00 3.69
814 4646 4.627467 GCCCTTATATACGTCAATGCAGAG 59.373 45.833 0.00 0.00 0.00 3.35
815 4647 4.562757 GGCCCTTATATACGTCAATGCAGA 60.563 45.833 0.00 0.00 0.00 4.26
816 4648 3.684788 GGCCCTTATATACGTCAATGCAG 59.315 47.826 0.00 0.00 0.00 4.41
830 4662 1.850345 TCCATTCTTTCCGGCCCTTAT 59.150 47.619 0.00 0.00 0.00 1.73
838 4670 1.209128 CGTCCGATCCATTCTTTCCG 58.791 55.000 0.00 0.00 0.00 4.30
885 4728 1.377536 AAGGCGACTACTACGAGTCC 58.622 55.000 0.00 0.00 42.51 3.85
1069 5914 5.527582 ACCTCCATGCTAATCACGTTAATTC 59.472 40.000 0.00 0.00 0.00 2.17
1477 6323 3.283259 AGTTTGAGATTTCGGGGATCC 57.717 47.619 1.92 1.92 0.00 3.36
1798 6673 3.728845 AGTACGTGACCATATTGCCATC 58.271 45.455 0.00 0.00 0.00 3.51
2005 6886 4.036971 ACAAGTTCATCGGCTACTAGCTAG 59.963 45.833 19.44 19.44 41.99 3.42
2006 6887 3.952323 ACAAGTTCATCGGCTACTAGCTA 59.048 43.478 7.99 0.00 41.99 3.32
2007 6888 2.761208 ACAAGTTCATCGGCTACTAGCT 59.239 45.455 7.99 0.00 41.99 3.32
2008 6889 3.166489 ACAAGTTCATCGGCTACTAGC 57.834 47.619 0.00 0.00 41.46 3.42
2147 7055 4.168014 GGACGGTGAAAAACGAAAAAGTT 58.832 39.130 0.00 0.00 35.59 2.66
2156 7111 1.104630 TTGTGGGGACGGTGAAAAAC 58.895 50.000 0.00 0.00 0.00 2.43
2166 7122 2.171003 CAAAAGAGGGATTGTGGGGAC 58.829 52.381 0.00 0.00 0.00 4.46
2270 7236 3.241515 GAGGGGGTATGCGCTAGGC 62.242 68.421 9.73 0.00 43.96 3.93
2323 7304 0.679505 GGAAGGTTCCCAAAACTGCC 59.320 55.000 0.00 0.00 40.89 4.85
2345 7326 5.105567 AGGGAAAAATGAAAAACCGGTTT 57.894 34.783 26.87 26.87 0.00 3.27
2477 7464 9.381033 TGTTTGTGAATCTGAAAATTGTTCATT 57.619 25.926 0.00 0.00 32.19 2.57
2516 7506 4.153958 TCACGGATTTGGAAAATGTTCG 57.846 40.909 0.00 0.00 34.28 3.95
2740 7732 8.545229 TGGATTGCGAATTTCATAATTTGTTT 57.455 26.923 0.00 0.00 37.43 2.83
2861 7854 9.586435 AATTGTTCCGGAAATCATTAAATCTTC 57.414 29.630 20.79 1.28 0.00 2.87
3118 8121 2.279851 CGCGGAACACACACCTCA 60.280 61.111 0.00 0.00 0.00 3.86
3125 8128 1.565156 GCATGAAGACGCGGAACACA 61.565 55.000 12.47 4.30 0.00 3.72
3183 8186 9.155975 CAACCAGCCTGATTATTATAGTATGAC 57.844 37.037 0.00 0.00 0.00 3.06
3184 8187 8.880244 ACAACCAGCCTGATTATTATAGTATGA 58.120 33.333 0.00 0.00 0.00 2.15
3185 8188 8.939929 CACAACCAGCCTGATTATTATAGTATG 58.060 37.037 0.00 0.00 0.00 2.39
3186 8189 8.660435 ACACAACCAGCCTGATTATTATAGTAT 58.340 33.333 0.00 0.00 0.00 2.12
3187 8190 8.029782 ACACAACCAGCCTGATTATTATAGTA 57.970 34.615 0.00 0.00 0.00 1.82
3188 8191 6.900194 ACACAACCAGCCTGATTATTATAGT 58.100 36.000 0.00 0.00 0.00 2.12
3189 8192 7.283127 ACAACACAACCAGCCTGATTATTATAG 59.717 37.037 0.00 0.00 0.00 1.31
3190 8193 7.116075 ACAACACAACCAGCCTGATTATTATA 58.884 34.615 0.00 0.00 0.00 0.98
3191 8194 5.951747 ACAACACAACCAGCCTGATTATTAT 59.048 36.000 0.00 0.00 0.00 1.28
3200 8203 1.488812 TGTAGACAACACAACCAGCCT 59.511 47.619 0.00 0.00 31.43 4.58


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

AutoCloner maintained by Alex Coulton.