Multiple sequence alignment - TraesCS2B01G175500

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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 TraesCS2B01G175500 chr2B 100.000 5041 0 0 1 5041 150703318 150708358 0.000000e+00 9310.0
1 TraesCS2B01G175500 chr2B 84.330 485 65 8 2194 2677 150606592 150607066 9.890000e-127 464.0
2 TraesCS2B01G175500 chr2B 93.600 250 15 1 990 1238 150604256 150604505 6.160000e-99 372.0
3 TraesCS2B01G175500 chr2A 94.683 2652 79 14 1873 4496 98121706 98124323 0.000000e+00 4060.0
4 TraesCS2B01G175500 chr2A 98.397 499 7 1 792 1289 98120151 98120649 0.000000e+00 876.0
5 TraesCS2B01G175500 chr2A 94.970 497 18 1 4491 4980 98124361 98124857 0.000000e+00 773.0
6 TraesCS2B01G175500 chr2A 83.903 497 74 5 2183 2677 97858512 97859004 2.120000e-128 470.0
7 TraesCS2B01G175500 chr2A 90.939 309 11 6 1510 1812 98121208 98121505 2.830000e-107 399.0
8 TraesCS2B01G175500 chr2A 92.339 248 18 1 990 1236 97855701 97855948 8.030000e-93 351.0
9 TraesCS2B01G175500 chr2A 97.333 150 4 0 1324 1473 98121062 98121211 6.480000e-64 255.0
10 TraesCS2B01G175500 chr2A 96.364 55 2 0 739 793 98119881 98119935 1.930000e-14 91.6
11 TraesCS2B01G175500 chr2D 96.618 2454 52 4 2054 4493 99126931 99129367 0.000000e+00 4043.0
12 TraesCS2B01G175500 chr2D 96.322 1169 35 4 714 1880 99125215 99126377 0.000000e+00 1914.0
13 TraesCS2B01G175500 chr2D 84.948 485 68 4 2194 2677 98988811 98989291 2.110000e-133 486.0
14 TraesCS2B01G175500 chr2D 94.000 250 14 1 990 1238 98986466 98986715 1.320000e-100 377.0
15 TraesCS2B01G175500 chr2D 96.512 172 6 0 4491 4662 99129409 99129580 8.260000e-73 285.0
16 TraesCS2B01G175500 chr2D 93.750 192 7 1 1872 2058 99126527 99126718 2.970000e-72 283.0
17 TraesCS2B01G175500 chr2D 84.691 307 16 12 4689 4987 99129579 99129862 1.380000e-70 278.0
18 TraesCS2B01G175500 chr4B 99.025 718 5 2 1 717 575386341 575387057 0.000000e+00 1286.0
19 TraesCS2B01G175500 chr4B 99.485 583 3 0 1 583 575385684 575386266 0.000000e+00 1061.0
20 TraesCS2B01G175500 chr7B 98.886 718 6 2 1 717 17176335 17175619 0.000000e+00 1280.0
21 TraesCS2B01G175500 chrUn 99.431 703 3 1 1 702 8447775 8448477 0.000000e+00 1275.0
22 TraesCS2B01G175500 chr6B 98.739 714 6 3 1 711 44202845 44203558 0.000000e+00 1266.0
23 TraesCS2B01G175500 chr5A 98.738 713 6 2 1 712 229771907 229771197 0.000000e+00 1264.0
24 TraesCS2B01G175500 chr3B 98.459 714 9 2 1 712 800172116 800172829 0.000000e+00 1256.0
25 TraesCS2B01G175500 chr1B 98.056 720 8 6 1 717 169658500 169659216 0.000000e+00 1247.0
26 TraesCS2B01G175500 chr1B 88.889 207 19 3 508 712 390717764 390717560 8.380000e-63 252.0
27 TraesCS2B01G175500 chr4A 96.489 712 4 3 1 711 5995494 5996185 0.000000e+00 1157.0
28 TraesCS2B01G175500 chr5B 89.655 116 9 1 4524 4636 340322336 340322451 1.460000e-30 145.0


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 TraesCS2B01G175500 chr2B 150703318 150708358 5040 False 9310.000000 9310 100.000000 1 5041 1 chr2B.!!$F1 5040
1 TraesCS2B01G175500 chr2B 150604256 150607066 2810 False 418.000000 464 88.965000 990 2677 2 chr2B.!!$F2 1687
2 TraesCS2B01G175500 chr2A 98119881 98124857 4976 False 1075.766667 4060 95.447667 739 4980 6 chr2A.!!$F2 4241
3 TraesCS2B01G175500 chr2A 97855701 97859004 3303 False 410.500000 470 88.121000 990 2677 2 chr2A.!!$F1 1687
4 TraesCS2B01G175500 chr2D 99125215 99129862 4647 False 1360.600000 4043 93.578600 714 4987 5 chr2D.!!$F2 4273
5 TraesCS2B01G175500 chr2D 98986466 98989291 2825 False 431.500000 486 89.474000 990 2677 2 chr2D.!!$F1 1687
6 TraesCS2B01G175500 chr4B 575385684 575387057 1373 False 1173.500000 1286 99.255000 1 717 2 chr4B.!!$F1 716
7 TraesCS2B01G175500 chr7B 17175619 17176335 716 True 1280.000000 1280 98.886000 1 717 1 chr7B.!!$R1 716
8 TraesCS2B01G175500 chrUn 8447775 8448477 702 False 1275.000000 1275 99.431000 1 702 1 chrUn.!!$F1 701
9 TraesCS2B01G175500 chr6B 44202845 44203558 713 False 1266.000000 1266 98.739000 1 711 1 chr6B.!!$F1 710
10 TraesCS2B01G175500 chr5A 229771197 229771907 710 True 1264.000000 1264 98.738000 1 712 1 chr5A.!!$R1 711
11 TraesCS2B01G175500 chr3B 800172116 800172829 713 False 1256.000000 1256 98.459000 1 712 1 chr3B.!!$F1 711
12 TraesCS2B01G175500 chr1B 169658500 169659216 716 False 1247.000000 1247 98.056000 1 717 1 chr1B.!!$F1 716
13 TraesCS2B01G175500 chr4A 5995494 5996185 691 False 1157.000000 1157 96.489000 1 711 1 chr4A.!!$F1 710

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
712 1376 0.035725 ACGGGCCCTTTTGCTAGTAC 60.036 55.0 22.43 0.0 0.00 2.73 F
1536 3085 0.036010 CCCAAGGTGCAGTGGTCTAG 60.036 60.0 9.53 0.0 32.60 2.43 F
2278 5954 0.535102 CCCTCCGCCAGCGAATTATT 60.535 55.0 14.67 0.0 42.83 1.40 F
2634 6310 0.593128 CCAAAGTGAAGCAACCTCGG 59.407 55.0 0.00 0.0 0.00 4.63 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2391 6067 1.000938 CAGAGCCAAACACTCTTTGCC 60.001 52.381 0.0 0.0 41.79 4.52 R
2726 6402 0.538287 AGAAGGCTGACTTGGTTGGC 60.538 55.000 0.0 0.0 40.21 4.52 R
3369 7045 0.819582 CACCCCATTGTCCAGCATTC 59.180 55.000 0.0 0.0 0.00 2.67 R
4172 7848 1.267038 CGCGACATCATTCTGAAACGG 60.267 52.381 0.0 0.0 0.00 4.44 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
217 218 6.704493 GTCGAATGCAGTTTAGTATATTCCCA 59.296 38.462 0.00 0.00 0.00 4.37
712 1376 0.035725 ACGGGCCCTTTTGCTAGTAC 60.036 55.000 22.43 0.00 0.00 2.73
725 1389 9.099454 CCTTTTGCTAGTACTATAAAGGAACAG 57.901 37.037 27.48 17.67 42.55 3.16
727 1391 9.871238 TTTTGCTAGTACTATAAAGGAACAGAG 57.129 33.333 2.33 0.00 0.00 3.35
763 1427 9.628500 GGGAAGGAGTATGTCTAAATTTATTGT 57.372 33.333 0.00 0.00 0.00 2.71
1050 1931 1.066143 GTGTGGTGGGACATCGAGAAT 60.066 52.381 0.00 0.00 46.67 2.40
1314 2196 5.016051 TGCTCTTCTTATTCAATCGCTCT 57.984 39.130 0.00 0.00 0.00 4.09
1410 2727 3.585862 TCTGTCGCAAATACTTCAGGAC 58.414 45.455 0.00 0.00 0.00 3.85
1536 3085 0.036010 CCCAAGGTGCAGTGGTCTAG 60.036 60.000 9.53 0.00 32.60 2.43
1795 3950 3.115554 GTGTGTGCAGGCTAAACTTTTG 58.884 45.455 0.00 0.00 0.00 2.44
1796 3951 2.757868 TGTGTGCAGGCTAAACTTTTGT 59.242 40.909 0.00 0.00 0.00 2.83
1797 3952 3.948473 TGTGTGCAGGCTAAACTTTTGTA 59.052 39.130 0.00 0.00 0.00 2.41
1880 4422 7.275888 CCAGCATTGGCAAATTACTTAGATA 57.724 36.000 3.01 0.00 44.61 1.98
2106 5601 4.799564 AGAAGTAGTGAGAGAAAGCTGG 57.200 45.455 0.00 0.00 0.00 4.85
2278 5954 0.535102 CCCTCCGCCAGCGAATTATT 60.535 55.000 14.67 0.00 42.83 1.40
2488 6164 3.814842 CGCATCAAGTGGCAATAAGGATA 59.185 43.478 0.00 0.00 0.00 2.59
2563 6239 3.944087 ACTAACCCTCAAGTGCAGAATC 58.056 45.455 0.00 0.00 0.00 2.52
2598 6274 7.969690 TGATTATCAAAATGGTGGTAATGGT 57.030 32.000 0.00 0.00 35.41 3.55
2634 6310 0.593128 CCAAAGTGAAGCAACCTCGG 59.407 55.000 0.00 0.00 0.00 4.63
2649 6325 4.559862 ACCTCGGAAAAATCAGACAGAT 57.440 40.909 0.00 0.00 39.09 2.90
2682 6358 2.212652 CCAGCAGGCAAAAAGGAAAAC 58.787 47.619 0.00 0.00 0.00 2.43
2697 6373 4.646572 AGGAAAACTCAGTTGATGGAGTC 58.353 43.478 0.00 0.00 43.26 3.36
2726 6402 2.479566 TCCAAAGGAAGCACTGCTAG 57.520 50.000 3.33 0.00 38.25 3.42
2786 6462 1.352083 TCAAGTCCTGAACCCCAGAG 58.648 55.000 0.00 0.00 45.78 3.35
2798 6474 1.077429 CCCAGAGTAGGGCAAAGGC 60.077 63.158 0.00 0.00 43.10 4.35
2936 6612 2.031682 GTGTGTCAACTGAATCTGCACC 60.032 50.000 0.00 0.00 0.00 5.01
2962 6638 1.452833 GGTGCTCCTGATTCTGGCC 60.453 63.158 0.00 0.00 0.00 5.36
3017 6693 0.677731 CAATCCTCTCAGCCGCCAAA 60.678 55.000 0.00 0.00 0.00 3.28
3066 6742 4.772100 CCTCACAATGGACCTGGTAATTTT 59.228 41.667 0.00 0.00 0.00 1.82
3148 6824 3.432186 GTGTTCCCACTGCACCAC 58.568 61.111 0.00 0.00 38.61 4.16
3273 6949 2.820787 TGACAACCAAGGTTCAAACGTT 59.179 40.909 0.51 0.00 37.48 3.99
3570 7246 2.947127 AGAAGGCTCTTGAAGTTGCT 57.053 45.000 11.16 0.00 0.00 3.91
3668 7344 8.628630 TGGAAATGCGTGAATATAATGGATAA 57.371 30.769 0.00 0.00 0.00 1.75
4157 7833 2.190398 ATATGGTGGCCCAGTCTACA 57.810 50.000 0.00 0.00 46.15 2.74
4158 7834 2.190398 TATGGTGGCCCAGTCTACAT 57.810 50.000 0.00 0.00 46.15 2.29
4159 7835 1.298953 ATGGTGGCCCAGTCTACATT 58.701 50.000 0.00 0.00 46.15 2.71
4160 7836 1.072266 TGGTGGCCCAGTCTACATTT 58.928 50.000 0.00 0.00 35.17 2.32
4161 7837 1.427368 TGGTGGCCCAGTCTACATTTT 59.573 47.619 0.00 0.00 35.17 1.82
4162 7838 1.818674 GGTGGCCCAGTCTACATTTTG 59.181 52.381 0.00 0.00 0.00 2.44
4163 7839 1.202348 GTGGCCCAGTCTACATTTTGC 59.798 52.381 0.00 0.00 0.00 3.68
4164 7840 0.817654 GGCCCAGTCTACATTTTGCC 59.182 55.000 0.00 0.00 0.00 4.52
4165 7841 1.544724 GCCCAGTCTACATTTTGCCA 58.455 50.000 0.00 0.00 0.00 4.92
4166 7842 1.474077 GCCCAGTCTACATTTTGCCAG 59.526 52.381 0.00 0.00 0.00 4.85
4167 7843 2.795329 CCCAGTCTACATTTTGCCAGT 58.205 47.619 0.00 0.00 0.00 4.00
4168 7844 3.872240 GCCCAGTCTACATTTTGCCAGTA 60.872 47.826 0.00 0.00 0.00 2.74
4169 7845 4.526970 CCCAGTCTACATTTTGCCAGTAT 58.473 43.478 0.00 0.00 0.00 2.12
4170 7846 4.949856 CCCAGTCTACATTTTGCCAGTATT 59.050 41.667 0.00 0.00 0.00 1.89
4171 7847 5.418840 CCCAGTCTACATTTTGCCAGTATTT 59.581 40.000 0.00 0.00 0.00 1.40
4172 7848 6.404734 CCCAGTCTACATTTTGCCAGTATTTC 60.405 42.308 0.00 0.00 0.00 2.17
4173 7849 6.404734 CCAGTCTACATTTTGCCAGTATTTCC 60.405 42.308 0.00 0.00 0.00 3.13
4220 7914 6.534634 AGTTTAAACTTGGTGTATGAGCTCT 58.465 36.000 15.22 3.04 35.21 4.09
4404 8111 4.135153 CGAGCTAGCCTGCCGTGT 62.135 66.667 12.13 0.00 0.00 4.49
4841 8600 2.987821 TGATGTTGTGAATTGCATTGCG 59.012 40.909 3.84 0.00 0.00 4.85
4853 8612 1.811359 TGCATTGCGTGTGATGATTGA 59.189 42.857 3.84 0.00 0.00 2.57
4876 8635 4.822896 ACACCTTGTTCACGCCTTTTATAA 59.177 37.500 0.00 0.00 0.00 0.98
4981 8740 3.731089 ACTTTTCGACGATTTGTACCCA 58.269 40.909 0.00 0.00 0.00 4.51
4987 8746 3.193056 TCGACGATTTGTACCCATGTGTA 59.807 43.478 0.00 0.00 0.00 2.90
4988 8747 3.550275 CGACGATTTGTACCCATGTGTAG 59.450 47.826 0.00 0.00 0.00 2.74
4989 8748 4.675933 CGACGATTTGTACCCATGTGTAGA 60.676 45.833 0.00 0.00 0.00 2.59
4990 8749 5.353394 ACGATTTGTACCCATGTGTAGAT 57.647 39.130 0.00 0.00 0.00 1.98
4991 8750 5.741011 ACGATTTGTACCCATGTGTAGATT 58.259 37.500 0.00 0.00 0.00 2.40
4992 8751 5.584649 ACGATTTGTACCCATGTGTAGATTG 59.415 40.000 0.00 0.00 0.00 2.67
4993 8752 5.504010 CGATTTGTACCCATGTGTAGATTGC 60.504 44.000 0.00 0.00 0.00 3.56
4994 8753 4.568072 TTGTACCCATGTGTAGATTGCT 57.432 40.909 0.00 0.00 0.00 3.91
4995 8754 4.137116 TGTACCCATGTGTAGATTGCTC 57.863 45.455 0.00 0.00 0.00 4.26
4996 8755 3.774766 TGTACCCATGTGTAGATTGCTCT 59.225 43.478 0.00 0.00 35.39 4.09
4997 8756 3.272574 ACCCATGTGTAGATTGCTCTG 57.727 47.619 0.00 0.00 32.66 3.35
4998 8757 1.945394 CCCATGTGTAGATTGCTCTGC 59.055 52.381 0.00 0.00 34.93 4.26
4999 8758 1.945394 CCATGTGTAGATTGCTCTGCC 59.055 52.381 0.00 0.00 33.54 4.85
5000 8759 1.945394 CATGTGTAGATTGCTCTGCCC 59.055 52.381 0.00 0.00 33.54 5.36
5001 8760 1.279496 TGTGTAGATTGCTCTGCCCT 58.721 50.000 0.00 0.00 33.54 5.19
5002 8761 1.208052 TGTGTAGATTGCTCTGCCCTC 59.792 52.381 0.00 0.00 33.54 4.30
5003 8762 1.484240 GTGTAGATTGCTCTGCCCTCT 59.516 52.381 0.00 0.00 33.54 3.69
5004 8763 2.695666 GTGTAGATTGCTCTGCCCTCTA 59.304 50.000 0.00 0.00 33.54 2.43
5005 8764 2.695666 TGTAGATTGCTCTGCCCTCTAC 59.304 50.000 15.49 15.49 39.64 2.59
5006 8765 2.173126 AGATTGCTCTGCCCTCTACT 57.827 50.000 0.00 0.00 0.00 2.57
5007 8766 3.320610 AGATTGCTCTGCCCTCTACTA 57.679 47.619 0.00 0.00 0.00 1.82
5008 8767 3.647636 AGATTGCTCTGCCCTCTACTAA 58.352 45.455 0.00 0.00 0.00 2.24
5009 8768 4.033709 AGATTGCTCTGCCCTCTACTAAA 58.966 43.478 0.00 0.00 0.00 1.85
5010 8769 3.611766 TTGCTCTGCCCTCTACTAAAC 57.388 47.619 0.00 0.00 0.00 2.01
5011 8770 2.821437 TGCTCTGCCCTCTACTAAACT 58.179 47.619 0.00 0.00 0.00 2.66
5012 8771 2.497675 TGCTCTGCCCTCTACTAAACTG 59.502 50.000 0.00 0.00 0.00 3.16
5013 8772 2.761208 GCTCTGCCCTCTACTAAACTGA 59.239 50.000 0.00 0.00 0.00 3.41
5014 8773 3.386402 GCTCTGCCCTCTACTAAACTGAT 59.614 47.826 0.00 0.00 0.00 2.90
5015 8774 4.141824 GCTCTGCCCTCTACTAAACTGATT 60.142 45.833 0.00 0.00 0.00 2.57
5016 8775 5.627968 GCTCTGCCCTCTACTAAACTGATTT 60.628 44.000 0.00 0.00 0.00 2.17
5017 8776 6.374417 TCTGCCCTCTACTAAACTGATTTT 57.626 37.500 0.00 0.00 0.00 1.82
5018 8777 6.407202 TCTGCCCTCTACTAAACTGATTTTC 58.593 40.000 0.00 0.00 0.00 2.29
5019 8778 6.013725 TCTGCCCTCTACTAAACTGATTTTCA 60.014 38.462 0.00 0.00 0.00 2.69
5033 8792 6.369059 CTGATTTTCAGCATGTAGTAAGGG 57.631 41.667 0.00 0.00 37.72 3.95
5034 8793 4.640201 TGATTTTCAGCATGTAGTAAGGGC 59.360 41.667 0.00 0.00 37.40 5.19
5035 8794 4.301072 TTTTCAGCATGTAGTAAGGGCT 57.699 40.909 0.00 0.00 37.40 5.19
5037 8796 2.698855 CAGCATGTAGTAAGGGCTGT 57.301 50.000 0.00 0.00 45.11 4.40
5038 8797 2.555199 CAGCATGTAGTAAGGGCTGTC 58.445 52.381 0.00 0.00 45.11 3.51
5039 8798 1.486726 AGCATGTAGTAAGGGCTGTCC 59.513 52.381 0.00 0.00 32.76 4.02
5040 8799 1.209504 GCATGTAGTAAGGGCTGTCCA 59.790 52.381 0.00 0.00 38.24 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 4.820894 ATCCGCTTTAGTACCAACTTCT 57.179 40.909 0.00 0.00 37.15 2.85
217 218 7.121315 GGAGCTAAAAATCACTACAGAACCAAT 59.879 37.037 0.00 0.00 0.00 3.16
725 1389 6.783482 ACATACTCCTTCCCTAATACTTCCTC 59.217 42.308 0.00 0.00 0.00 3.71
727 1391 6.783482 AGACATACTCCTTCCCTAATACTTCC 59.217 42.308 0.00 0.00 0.00 3.46
736 1400 9.853177 CAATAAATTTAGACATACTCCTTCCCT 57.147 33.333 3.94 0.00 0.00 4.20
737 1401 9.628500 ACAATAAATTTAGACATACTCCTTCCC 57.372 33.333 3.94 0.00 0.00 3.97
763 1427 1.302112 TCCGTGCATTGCGAAGGAA 60.302 52.632 14.47 2.54 45.69 3.36
1249 2131 2.687566 GAAAGAGGGGCGAGGGGA 60.688 66.667 0.00 0.00 0.00 4.81
1314 2196 4.178169 AACGGACCACCACGGCAA 62.178 61.111 0.00 0.00 39.03 4.52
1410 2727 4.997395 CCAAACCCTATGATTCCACTATCG 59.003 45.833 0.00 0.00 0.00 2.92
1507 3055 2.554032 CTGCACCTTGGGTAGAAACAAG 59.446 50.000 0.00 0.00 42.77 3.16
1608 3158 4.889832 AAAGCCTGCAATAGAAGATTCG 57.110 40.909 0.00 0.00 0.00 3.34
1795 3950 8.380867 ACTAATATACCAAGGGCAGGTTATTAC 58.619 37.037 0.82 0.00 40.54 1.89
1796 3951 8.514533 ACTAATATACCAAGGGCAGGTTATTA 57.485 34.615 0.82 8.27 40.54 0.98
1797 3952 7.402448 ACTAATATACCAAGGGCAGGTTATT 57.598 36.000 0.82 7.72 40.54 1.40
1880 4422 4.228210 TGGTCTCTGATTTTCTAATGCCCT 59.772 41.667 0.00 0.00 0.00 5.19
1935 4477 8.368668 ACTTTTCAGCTATACACTAGTCACTTT 58.631 33.333 0.00 0.00 0.00 2.66
2106 5601 6.016777 ACAACTCACTCATTCAATGAAGAACC 60.017 38.462 0.75 0.00 39.11 3.62
2278 5954 2.103094 CCCGATCACCAGAGATTAGCAA 59.897 50.000 0.00 0.00 0.00 3.91
2391 6067 1.000938 CAGAGCCAAACACTCTTTGCC 60.001 52.381 0.00 0.00 41.79 4.52
2488 6164 5.181245 CAGTGTTCCTTGACGTATCCAAATT 59.819 40.000 0.00 0.00 0.00 1.82
2537 6213 4.402793 TCTGCACTTGAGGGTTAGTATCTC 59.597 45.833 0.00 0.00 0.00 2.75
2563 6239 7.145985 CCATTTTGATAATCATGCTGAGAAGG 58.854 38.462 0.00 0.00 0.00 3.46
2598 6274 6.013206 TCACTTTGGGTTGCTTATCTACCTTA 60.013 38.462 0.00 0.00 39.96 2.69
2649 6325 2.951642 GCCTGCTGGTTTAGATGCATTA 59.048 45.455 11.69 0.00 34.79 1.90
2682 6358 1.203287 TCAGCGACTCCATCAACTGAG 59.797 52.381 0.00 0.00 35.99 3.35
2697 6373 3.378112 TGCTTCCTTTGGAATTATCAGCG 59.622 43.478 0.00 0.00 41.23 5.18
2726 6402 0.538287 AGAAGGCTGACTTGGTTGGC 60.538 55.000 0.00 0.00 40.21 4.52
2786 6462 1.302993 TGGTTCGCCTTTGCCCTAC 60.303 57.895 0.00 0.00 38.36 3.18
2798 6474 7.148523 GGTTTTTAGGTATACTTGTCTGGTTCG 60.149 40.741 2.25 0.00 0.00 3.95
2936 6612 3.441572 AGAATCAGGAGCACCATTTTTCG 59.558 43.478 2.07 0.00 38.94 3.46
3017 6693 3.846588 AGGAGTCACTGGATTATGTGGTT 59.153 43.478 0.00 0.00 35.15 3.67
3148 6824 1.970114 CACTTGGCCAGGACTGCAG 60.970 63.158 23.57 13.48 0.00 4.41
3273 6949 5.665812 ACCAGAATAGTTTGGATGGTAGCTA 59.334 40.000 6.76 0.00 39.21 3.32
3369 7045 0.819582 CACCCCATTGTCCAGCATTC 59.180 55.000 0.00 0.00 0.00 2.67
3585 7261 7.867403 ACAAGTCCTAACTTTTTCGTTACGATA 59.133 33.333 8.67 0.01 43.28 2.92
3668 7344 3.754965 TCTTTTGAGTGCCTAGCATTGT 58.245 40.909 0.00 0.00 41.91 2.71
4157 7833 5.242838 TCTGAAACGGAAATACTGGCAAAAT 59.757 36.000 0.00 0.00 0.00 1.82
4158 7834 4.580995 TCTGAAACGGAAATACTGGCAAAA 59.419 37.500 0.00 0.00 0.00 2.44
4159 7835 4.138290 TCTGAAACGGAAATACTGGCAAA 58.862 39.130 0.00 0.00 0.00 3.68
4160 7836 3.745799 TCTGAAACGGAAATACTGGCAA 58.254 40.909 0.00 0.00 0.00 4.52
4161 7837 3.410631 TCTGAAACGGAAATACTGGCA 57.589 42.857 0.00 0.00 0.00 4.92
4162 7838 4.394920 TCATTCTGAAACGGAAATACTGGC 59.605 41.667 0.00 0.00 32.18 4.85
4163 7839 6.094048 ACATCATTCTGAAACGGAAATACTGG 59.906 38.462 0.00 0.00 32.18 4.00
4164 7840 7.076842 ACATCATTCTGAAACGGAAATACTG 57.923 36.000 0.00 0.00 32.18 2.74
4165 7841 6.036083 CGACATCATTCTGAAACGGAAATACT 59.964 38.462 0.00 0.00 32.18 2.12
4166 7842 6.185399 CGACATCATTCTGAAACGGAAATAC 58.815 40.000 0.00 0.00 32.18 1.89
4167 7843 5.220586 GCGACATCATTCTGAAACGGAAATA 60.221 40.000 0.00 0.00 32.18 1.40
4168 7844 4.437390 GCGACATCATTCTGAAACGGAAAT 60.437 41.667 0.00 0.00 32.18 2.17
4169 7845 3.120338 GCGACATCATTCTGAAACGGAAA 60.120 43.478 0.00 0.00 32.18 3.13
4170 7846 2.415168 GCGACATCATTCTGAAACGGAA 59.585 45.455 0.00 0.00 33.01 4.30
4171 7847 1.999735 GCGACATCATTCTGAAACGGA 59.000 47.619 0.00 0.00 0.00 4.69
4172 7848 1.267038 CGCGACATCATTCTGAAACGG 60.267 52.381 0.00 0.00 0.00 4.44
4173 7849 1.267038 CCGCGACATCATTCTGAAACG 60.267 52.381 8.23 0.00 0.00 3.60
4220 7914 7.913789 AGTACCATTCTACAATAGTGAAACCA 58.086 34.615 0.00 0.00 37.80 3.67
4418 8125 4.260990 CGTTGAACACCTTGAATAGCAACA 60.261 41.667 0.00 0.00 35.40 3.33
4587 8338 4.802563 CAGTATCTACACACAGCATGACAG 59.197 45.833 0.00 0.00 39.69 3.51
4716 8467 2.579410 ACAAGACACCCCCAATGTAC 57.421 50.000 0.00 0.00 0.00 2.90
4783 8541 5.766222 CATCACTAGCAAAAGCAAGAACTT 58.234 37.500 0.00 0.00 0.00 2.66
4795 8554 2.771372 TGATACCCAGCATCACTAGCAA 59.229 45.455 0.00 0.00 0.00 3.91
4841 8600 4.275689 TGAACAAGGTGTCAATCATCACAC 59.724 41.667 0.00 0.00 41.95 3.82
4853 8612 1.470051 AAAAGGCGTGAACAAGGTGT 58.530 45.000 0.00 0.00 0.00 4.16
4981 8740 1.842562 AGGGCAGAGCAATCTACACAT 59.157 47.619 0.00 0.00 0.00 3.21
4987 8746 2.173126 AGTAGAGGGCAGAGCAATCT 57.827 50.000 0.00 0.00 0.00 2.40
4988 8747 4.123506 GTTTAGTAGAGGGCAGAGCAATC 58.876 47.826 0.00 0.00 0.00 2.67
4989 8748 3.777522 AGTTTAGTAGAGGGCAGAGCAAT 59.222 43.478 0.00 0.00 0.00 3.56
4990 8749 3.055819 CAGTTTAGTAGAGGGCAGAGCAA 60.056 47.826 0.00 0.00 0.00 3.91
4991 8750 2.497675 CAGTTTAGTAGAGGGCAGAGCA 59.502 50.000 0.00 0.00 0.00 4.26
4992 8751 2.761208 TCAGTTTAGTAGAGGGCAGAGC 59.239 50.000 0.00 0.00 0.00 4.09
4993 8752 5.606348 AATCAGTTTAGTAGAGGGCAGAG 57.394 43.478 0.00 0.00 0.00 3.35
4994 8753 6.013725 TGAAAATCAGTTTAGTAGAGGGCAGA 60.014 38.462 0.00 0.00 0.00 4.26
4995 8754 6.173339 TGAAAATCAGTTTAGTAGAGGGCAG 58.827 40.000 0.00 0.00 0.00 4.85
4996 8755 6.121776 TGAAAATCAGTTTAGTAGAGGGCA 57.878 37.500 0.00 0.00 0.00 5.36
4997 8756 5.065346 GCTGAAAATCAGTTTAGTAGAGGGC 59.935 44.000 8.97 0.00 45.94 5.19
4998 8757 6.173339 TGCTGAAAATCAGTTTAGTAGAGGG 58.827 40.000 8.97 0.00 45.94 4.30
4999 8758 7.335422 ACATGCTGAAAATCAGTTTAGTAGAGG 59.665 37.037 8.97 0.00 45.94 3.69
5000 8759 8.261492 ACATGCTGAAAATCAGTTTAGTAGAG 57.739 34.615 8.97 0.00 45.94 2.43
5001 8760 9.371136 CTACATGCTGAAAATCAGTTTAGTAGA 57.629 33.333 16.88 0.00 45.94 2.59
5002 8761 9.155975 ACTACATGCTGAAAATCAGTTTAGTAG 57.844 33.333 18.49 18.49 45.94 2.57
5004 8763 7.986085 ACTACATGCTGAAAATCAGTTTAGT 57.014 32.000 8.97 7.51 45.94 2.24
5005 8764 9.979270 CTTACTACATGCTGAAAATCAGTTTAG 57.021 33.333 8.97 7.02 45.94 1.85
5006 8765 8.946085 CCTTACTACATGCTGAAAATCAGTTTA 58.054 33.333 8.97 0.00 45.94 2.01
5007 8766 7.094205 CCCTTACTACATGCTGAAAATCAGTTT 60.094 37.037 8.97 0.00 45.94 2.66
5008 8767 6.375455 CCCTTACTACATGCTGAAAATCAGTT 59.625 38.462 8.97 0.00 45.94 3.16
5009 8768 5.882557 CCCTTACTACATGCTGAAAATCAGT 59.117 40.000 8.97 0.00 45.94 3.41
5010 8769 5.220931 GCCCTTACTACATGCTGAAAATCAG 60.221 44.000 3.00 3.00 46.90 2.90
5011 8770 4.640201 GCCCTTACTACATGCTGAAAATCA 59.360 41.667 0.00 0.00 0.00 2.57
5012 8771 4.884164 AGCCCTTACTACATGCTGAAAATC 59.116 41.667 0.00 0.00 0.00 2.17
5013 8772 4.860022 AGCCCTTACTACATGCTGAAAAT 58.140 39.130 0.00 0.00 0.00 1.82
5014 8773 4.301072 AGCCCTTACTACATGCTGAAAA 57.699 40.909 0.00 0.00 0.00 2.29
5019 8778 1.486726 GGACAGCCCTTACTACATGCT 59.513 52.381 0.00 0.00 0.00 3.79
5020 8779 1.209504 TGGACAGCCCTTACTACATGC 59.790 52.381 0.00 0.00 35.38 4.06


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

AutoCloner maintained by Alex Coulton.