Multiple sequence alignment - TraesCS2A01G279100

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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 TraesCS2A01G279100 chr2A 100.000 3478 0 0 1 3478 463932997 463929520 0.000000e+00 6423.0
1 TraesCS2A01G279100 chr2D 92.384 2232 90 25 467 2650 348725909 348723710 0.000000e+00 3107.0
2 TraesCS2A01G279100 chr2D 91.909 482 36 3 2998 3478 348723374 348722895 0.000000e+00 671.0
3 TraesCS2A01G279100 chr2D 93.947 380 20 3 1 379 348726753 348726376 3.890000e-159 571.0
4 TraesCS2A01G279100 chr2D 88.806 268 14 1 2686 2937 348723638 348723371 7.250000e-82 315.0
5 TraesCS2A01G279100 chr2B 95.862 1716 58 5 940 2650 414767002 414765295 0.000000e+00 2763.0
6 TraesCS2A01G279100 chr2B 87.903 496 46 7 467 954 414774734 414774245 3.890000e-159 571.0
7 TraesCS2A01G279100 chr2B 89.390 377 33 4 1 377 414775582 414775213 5.260000e-128 468.0
8 TraesCS2A01G279100 chr2B 88.400 250 25 3 2997 3245 414609690 414609444 7.300000e-77 298.0
9 TraesCS2A01G279100 chr2B 91.121 214 19 0 3265 3478 414609395 414609182 1.220000e-74 291.0
10 TraesCS2A01G279100 chr2B 94.152 171 10 0 2832 3002 414765047 414764877 9.570000e-66 261.0
11 TraesCS2A01G279100 chr2B 91.111 135 7 5 2686 2818 414765223 414765092 9.920000e-41 178.0
12 TraesCS2A01G279100 chr3B 81.897 116 17 3 696 809 812340195 812340308 1.030000e-15 95.3
13 TraesCS2A01G279100 chr1B 74.490 196 33 12 3155 3335 278594077 278594270 6.230000e-08 69.4
14 TraesCS2A01G279100 chr7A 78.505 107 19 4 3162 3266 289296386 289296282 2.240000e-07 67.6


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 TraesCS2A01G279100 chr2A 463929520 463932997 3477 True 6423.000000 6423 100.000000 1 3478 1 chr2A.!!$R1 3477
1 TraesCS2A01G279100 chr2D 348722895 348726753 3858 True 1166.000000 3107 91.761500 1 3478 4 chr2D.!!$R1 3477
2 TraesCS2A01G279100 chr2B 414764877 414767002 2125 True 1067.333333 2763 93.708333 940 3002 3 chr2B.!!$R2 2062
3 TraesCS2A01G279100 chr2B 414774245 414775582 1337 True 519.500000 571 88.646500 1 954 2 chr2B.!!$R3 953
4 TraesCS2A01G279100 chr2B 414609182 414609690 508 True 294.500000 298 89.760500 2997 3478 2 chr2B.!!$R1 481

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
703 1108 1.105457 TATGTTGCTGCAAGGATGGC 58.895 50.0 16.53 3.32 30.66 4.4 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2480 2936 0.034477 CGGGGAAGGCACCAGTTATT 60.034 55.0 3.41 0.0 37.48 1.4 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
27 28 2.049077 TTCACAATGTGTTGCGATGC 57.951 45.000 13.55 0.00 38.96 3.91
55 56 3.395607 TGGGAGTAGCAATGGCATATCTT 59.604 43.478 0.00 0.00 44.61 2.40
141 142 1.522569 GCATAGAGCGGTGTCCCTT 59.477 57.895 0.00 0.00 0.00 3.95
155 156 2.694992 CCTTCCCCACCTACCCCC 60.695 72.222 0.00 0.00 0.00 5.40
166 167 1.933812 CTACCCCCACCCCAACCAT 60.934 63.158 0.00 0.00 0.00 3.55
206 208 7.775053 AACCTTTGCATCCTTCTAATTGTTA 57.225 32.000 0.00 0.00 0.00 2.41
214 216 7.598493 TGCATCCTTCTAATTGTTAAACTTTGC 59.402 33.333 0.00 0.00 0.00 3.68
433 806 6.096987 CACCTGACTGTCTATATACACCAACT 59.903 42.308 9.51 0.00 0.00 3.16
434 807 6.096987 ACCTGACTGTCTATATACACCAACTG 59.903 42.308 9.51 0.00 0.00 3.16
436 809 5.656859 TGACTGTCTATATACACCAACTGCT 59.343 40.000 9.51 0.00 0.00 4.24
437 810 6.150396 ACTGTCTATATACACCAACTGCTC 57.850 41.667 0.00 0.00 0.00 4.26
438 811 5.183014 TGTCTATATACACCAACTGCTCG 57.817 43.478 0.00 0.00 0.00 5.03
452 825 3.820557 ACTGCTCGGTATATGCCATTTT 58.179 40.909 10.70 0.00 0.00 1.82
470 843 5.068198 CCATTTTTCCAGGAGACCATACATG 59.932 44.000 0.00 0.00 0.00 3.21
471 844 5.512942 TTTTTCCAGGAGACCATACATGA 57.487 39.130 0.00 0.00 0.00 3.07
483 888 7.067372 GGAGACCATACATGATGTCATTTCAAA 59.933 37.037 0.00 0.00 33.61 2.69
562 967 7.888021 AGTTGGTCATGAACATAAATGGTAGAA 59.112 33.333 15.62 0.00 0.00 2.10
673 1078 5.443185 AGCATGATAAATCAAATGTCCGG 57.557 39.130 0.00 0.00 40.69 5.14
677 1082 7.448161 AGCATGATAAATCAAATGTCCGGAATA 59.552 33.333 5.23 0.00 40.69 1.75
702 1107 4.395959 AATTATGTTGCTGCAAGGATGG 57.604 40.909 16.53 0.00 30.66 3.51
703 1108 1.105457 TATGTTGCTGCAAGGATGGC 58.895 50.000 16.53 3.32 30.66 4.40
723 1128 3.867493 GGCAATTTCCTTTAGCAAGCATC 59.133 43.478 0.00 0.00 0.00 3.91
741 1146 8.697067 GCAAGCATCATAATATTTGTCATGTTC 58.303 33.333 0.00 0.00 0.00 3.18
756 1161 3.698539 TCATGTTCAGTTGTTTTGCCAGA 59.301 39.130 0.00 0.00 0.00 3.86
758 1163 4.527509 TGTTCAGTTGTTTTGCCAGAAA 57.472 36.364 0.00 0.00 0.00 2.52
762 1167 7.946207 TGTTCAGTTGTTTTGCCAGAAATATA 58.054 30.769 0.00 0.00 0.00 0.86
763 1168 8.417106 TGTTCAGTTGTTTTGCCAGAAATATAA 58.583 29.630 0.00 0.00 0.00 0.98
770 1175 7.609960 TGTTTTGCCAGAAATATAAATGCTCA 58.390 30.769 0.00 0.00 0.00 4.26
789 1194 4.439289 GCTCACTAAATGAAACTGCCATCC 60.439 45.833 0.00 0.00 36.69 3.51
790 1195 4.922206 TCACTAAATGAAACTGCCATCCT 58.078 39.130 0.00 0.00 33.02 3.24
794 1199 2.134789 ATGAAACTGCCATCCTCACC 57.865 50.000 0.00 0.00 0.00 4.02
918 1359 7.012044 TCAGGTAAGAAGTTACAAAGAAGCAAC 59.988 37.037 0.00 0.00 40.46 4.17
994 1435 3.999285 ACTCTCCGGCCACCTCCT 61.999 66.667 2.24 0.00 0.00 3.69
1025 1469 2.102420 CACACACCACACTCCTCTACAA 59.898 50.000 0.00 0.00 0.00 2.41
1314 1758 4.087892 CCGGTGCTCAGGACCCTG 62.088 72.222 10.26 9.74 44.86 4.45
1860 2304 2.970324 TCGTGGTTCCTGCGCAAC 60.970 61.111 13.05 6.89 0.00 4.17
2004 2448 1.065273 GCCGGTGATGACGTCGTAT 59.935 57.895 10.95 0.00 0.00 3.06
2205 2649 2.022240 GACCTCGCTAGCTCCTTGGG 62.022 65.000 13.93 7.86 0.00 4.12
2432 2888 1.968540 GCTGTGCCGGAAGAAGCTT 60.969 57.895 5.05 0.00 0.00 3.74
2433 2889 1.871772 CTGTGCCGGAAGAAGCTTG 59.128 57.895 5.05 0.00 0.00 4.01
2434 2890 0.603707 CTGTGCCGGAAGAAGCTTGA 60.604 55.000 5.05 0.00 0.00 3.02
2435 2891 0.036732 TGTGCCGGAAGAAGCTTGAT 59.963 50.000 5.05 0.00 0.00 2.57
2436 2892 0.449388 GTGCCGGAAGAAGCTTGATG 59.551 55.000 5.05 0.00 0.00 3.07
2437 2893 1.308069 TGCCGGAAGAAGCTTGATGC 61.308 55.000 5.05 0.00 43.29 3.91
2463 2919 5.509272 CGCTTGCATTTGTCTGTACTAATTG 59.491 40.000 0.00 0.00 30.07 2.32
2506 2965 3.068691 TGCCTTCCCCGTCTCTCG 61.069 66.667 0.00 0.00 39.52 4.04
2559 3023 1.167851 GTAGCATGCCAGCAGTTTCA 58.832 50.000 15.66 0.00 36.85 2.69
2626 3090 4.273480 GCATCAACAAGACAACAGTAGTGT 59.727 41.667 0.00 0.00 39.19 3.55
2627 3091 5.465390 GCATCAACAAGACAACAGTAGTGTA 59.535 40.000 3.00 0.00 35.08 2.90
2628 3092 6.018262 GCATCAACAAGACAACAGTAGTGTAA 60.018 38.462 3.00 0.00 35.08 2.41
2629 3093 7.466725 GCATCAACAAGACAACAGTAGTGTAAA 60.467 37.037 3.00 0.00 35.08 2.01
2630 3094 8.559536 CATCAACAAGACAACAGTAGTGTAAAT 58.440 33.333 3.00 0.00 35.08 1.40
2631 3095 8.138365 TCAACAAGACAACAGTAGTGTAAATC 57.862 34.615 3.00 2.44 35.08 2.17
2632 3096 7.766738 TCAACAAGACAACAGTAGTGTAAATCA 59.233 33.333 3.00 0.00 35.08 2.57
2633 3097 7.478520 ACAAGACAACAGTAGTGTAAATCAC 57.521 36.000 3.00 0.00 46.46 3.06
2656 3120 8.615211 TCACATTTCAGTTGTCATATATTGAGC 58.385 33.333 0.00 0.00 34.17 4.26
2657 3121 8.618677 CACATTTCAGTTGTCATATATTGAGCT 58.381 33.333 0.00 0.00 34.17 4.09
2705 3237 7.667043 TTGAGTATAAACGAAATTGCTCTGT 57.333 32.000 0.00 0.00 0.00 3.41
2741 3273 2.830923 CTGAGGACAGTTGGATGAGAGT 59.169 50.000 0.00 0.00 39.11 3.24
2860 3439 2.179767 CCATCGGCGACACGTGTA 59.820 61.111 23.44 5.76 34.94 2.90
2869 3448 0.388006 CGACACGTGTAGGTGATGCA 60.388 55.000 23.44 0.00 40.38 3.96
2889 3468 2.125753 CTGCTGTCGCTGGGTCTC 60.126 66.667 0.00 0.00 36.97 3.36
2915 3494 1.302033 CAGTTCCTCGCTTGTGGCT 60.302 57.895 0.00 0.00 39.13 4.75
2931 3510 2.591753 CTGGCCGTCATGGATGGT 59.408 61.111 0.00 0.00 40.59 3.55
2985 3564 1.698532 GGTCCATCATGCTCCTGATCT 59.301 52.381 0.00 0.00 33.59 2.75
3026 3605 4.529731 GGCCCTCCCCTCATTGGC 62.530 72.222 0.00 0.00 41.42 4.52
3075 3654 1.889829 CGACATCCCAGATCTAGGGTC 59.110 57.143 22.26 14.86 46.82 4.46
3081 3661 1.786441 CCCAGATCTAGGGTCCTCTCT 59.214 57.143 17.57 0.00 41.61 3.10
3119 3699 1.187567 AACTTTGGGATGCAGTGGGC 61.188 55.000 0.00 0.00 45.13 5.36
3149 3729 3.819652 TTGGTGTGGCAGCAGGGT 61.820 61.111 0.00 0.00 42.79 4.34
3151 3731 4.269523 GGTGTGGCAGCAGGGTGA 62.270 66.667 2.13 0.00 0.00 4.02
3203 3783 1.228154 GTGGTGGGTGAAGGTGGAC 60.228 63.158 0.00 0.00 0.00 4.02
3210 3790 2.606519 TGAAGGTGGACCCCCTCG 60.607 66.667 0.00 0.00 36.42 4.63
3245 3825 2.646175 GCTCTGGTAGGTGGCACGA 61.646 63.158 12.17 0.00 0.00 4.35
3248 3828 1.116536 TCTGGTAGGTGGCACGACAA 61.117 55.000 19.16 10.07 0.00 3.18
3257 3837 0.392706 TGGCACGACAACATCACTCT 59.607 50.000 0.00 0.00 0.00 3.24
3283 3892 2.579201 CTCGTGGGTTGCCTCGAT 59.421 61.111 0.00 0.00 32.48 3.59
3288 3897 2.055633 TGGGTTGCCTCGATCGCTA 61.056 57.895 11.09 0.00 0.00 4.26
3328 3937 2.507944 GGAGGCGTCCATCATGCT 59.492 61.111 20.47 0.00 43.31 3.79
3340 3949 0.251922 ATCATGCTGGTGTGGGCTTT 60.252 50.000 0.00 0.00 0.00 3.51
3354 3963 2.492773 GCTTTGCTGCCACCACACT 61.493 57.895 0.00 0.00 0.00 3.55
3372 3981 0.679002 CTTGGTCCGGGAGTCGTCTA 60.679 60.000 0.00 0.00 37.11 2.59
3387 3996 1.132643 CGTCTACTCCTTTCCTCGGTG 59.867 57.143 0.00 0.00 0.00 4.94
3428 4037 0.914417 ATGATGGGGGTCGTGTCCTT 60.914 55.000 0.00 0.00 0.00 3.36
3454 4063 5.278463 GCAAAAGCTTTTCCTCACTATGTCA 60.278 40.000 21.45 0.00 0.00 3.58
3465 4074 1.788886 CACTATGTCATGTCGGCGATG 59.211 52.381 14.79 8.77 0.00 3.84
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
27 28 2.579873 CCATTGCTACTCCCATTCCTG 58.420 52.381 0.00 0.00 0.00 3.86
88 89 3.891366 TCTCTCGAGGATGCAATACATGA 59.109 43.478 13.56 0.00 39.84 3.07
141 142 4.358181 GGTGGGGGTAGGTGGGGA 62.358 72.222 0.00 0.00 0.00 4.81
155 156 3.373830 ACAAATATGGATGGTTGGGGTG 58.626 45.455 0.00 0.00 0.00 4.61
166 167 8.354711 TGCAAAGGTTTATGTACAAATATGGA 57.645 30.769 0.00 0.00 0.00 3.41
206 208 3.103637 TGCACCTACGGCAAAGTTT 57.896 47.368 0.00 0.00 38.54 2.66
228 230 8.479280 GCAACATATGAAACAAAATAATAGCCG 58.521 33.333 10.38 0.00 0.00 5.52
270 272 8.114331 ACATGAAACCATGCATATCGAATAAT 57.886 30.769 0.00 0.00 43.92 1.28
298 300 8.472007 ACCATAAACTAAACAAAGTCCAATGA 57.528 30.769 0.00 0.00 0.00 2.57
346 348 9.226606 CCTACCAAACAGTAACAAATTCATAGA 57.773 33.333 0.00 0.00 0.00 1.98
389 762 4.821805 AGGTGTATTTACTATGCCACATGC 59.178 41.667 0.00 0.00 41.77 4.06
392 765 5.188948 AGTCAGGTGTATTTACTATGCCACA 59.811 40.000 0.00 0.00 0.00 4.17
423 796 4.799586 GCATATACCGAGCAGTTGGTGTAT 60.800 45.833 0.00 0.00 42.57 2.29
433 806 3.568007 GGAAAAATGGCATATACCGAGCA 59.432 43.478 0.00 0.00 0.00 4.26
434 807 3.568007 TGGAAAAATGGCATATACCGAGC 59.432 43.478 0.00 0.00 0.00 5.03
436 809 4.141287 CCTGGAAAAATGGCATATACCGA 58.859 43.478 0.00 0.00 0.00 4.69
437 810 4.141287 TCCTGGAAAAATGGCATATACCG 58.859 43.478 0.00 0.31 0.00 4.02
438 811 5.241728 GTCTCCTGGAAAAATGGCATATACC 59.758 44.000 0.00 3.27 0.00 2.73
452 825 4.040047 ACATCATGTATGGTCTCCTGGAA 58.960 43.478 0.00 0.00 40.16 3.53
470 843 6.915843 ACCGTTGTAGTTTTTGAAATGACATC 59.084 34.615 0.00 0.00 0.00 3.06
471 844 6.695278 CACCGTTGTAGTTTTTGAAATGACAT 59.305 34.615 0.00 0.00 0.00 3.06
505 910 4.072131 GCCTCTGAAGGATTGTTTGTGTA 58.928 43.478 0.00 0.00 46.67 2.90
562 967 3.323115 TGAGAGAGTGTCAGAAATGCTGT 59.677 43.478 0.00 0.00 45.14 4.40
633 1038 3.002791 TGCTAAAAGAATCTGGCGTCTG 58.997 45.455 0.00 0.00 0.00 3.51
634 1039 3.334583 TGCTAAAAGAATCTGGCGTCT 57.665 42.857 0.00 0.00 0.00 4.18
673 1078 7.545265 TCCTTGCAGCAACATAATTTGTTATTC 59.455 33.333 2.83 1.37 46.90 1.75
702 1107 4.497300 TGATGCTTGCTAAAGGAAATTGC 58.503 39.130 0.00 0.00 37.29 3.56
703 1108 8.882415 ATTATGATGCTTGCTAAAGGAAATTG 57.118 30.769 0.00 0.00 37.29 2.32
709 1114 9.403110 GACAAATATTATGATGCTTGCTAAAGG 57.597 33.333 0.00 0.00 33.68 3.11
741 1146 8.170553 GCATTTATATTTCTGGCAAAACAACTG 58.829 33.333 0.00 0.00 0.00 3.16
758 1163 9.956720 GCAGTTTCATTTAGTGAGCATTTATAT 57.043 29.630 0.00 0.00 38.29 0.86
762 1167 5.010922 TGGCAGTTTCATTTAGTGAGCATTT 59.989 36.000 0.00 0.00 38.29 2.32
763 1168 4.523943 TGGCAGTTTCATTTAGTGAGCATT 59.476 37.500 0.00 0.00 38.29 3.56
770 1175 4.702131 GTGAGGATGGCAGTTTCATTTAGT 59.298 41.667 0.00 0.00 0.00 2.24
781 1186 2.715749 TATTGTGGTGAGGATGGCAG 57.284 50.000 0.00 0.00 0.00 4.85
830 1264 3.195396 ACGTCCGGTTTTTAGGCATAGTA 59.805 43.478 0.00 0.00 0.00 1.82
831 1265 2.027837 ACGTCCGGTTTTTAGGCATAGT 60.028 45.455 0.00 0.00 0.00 2.12
832 1266 2.624636 ACGTCCGGTTTTTAGGCATAG 58.375 47.619 0.00 0.00 0.00 2.23
834 1268 1.900245 AACGTCCGGTTTTTAGGCAT 58.100 45.000 0.00 0.00 34.41 4.40
918 1359 1.541147 CTGGTGTTGTTATGCCAGTGG 59.459 52.381 4.20 4.20 42.47 4.00
994 1435 1.152798 TGGTGTGTGCCATTGCTGA 60.153 52.632 0.00 0.00 38.71 4.26
1025 1469 2.618241 GAGAGCGAGAGTGAGATGACAT 59.382 50.000 0.00 0.00 0.00 3.06
1130 1574 2.419198 GCCAGAGATCGGCGTCAT 59.581 61.111 6.85 0.00 40.35 3.06
1293 1737 2.430367 GTCCTGAGCACCGGGTTT 59.570 61.111 6.32 0.00 42.20 3.27
1301 1745 1.986757 GAGAGCAGGGTCCTGAGCA 60.987 63.158 20.22 0.00 46.30 4.26
1447 1891 2.897350 GAAGCCATTCTCCCGCGG 60.897 66.667 21.04 21.04 32.33 6.46
1502 1946 0.608035 GAAGTCGGCCATTTCCACCA 60.608 55.000 2.24 0.00 0.00 4.17
1558 2002 2.750350 CGTGAGCAGGAACCCCTT 59.250 61.111 0.00 0.00 42.02 3.95
1712 2156 2.805353 CGTCGAAGGCCGTGACAG 60.805 66.667 20.19 11.76 39.75 3.51
2399 2843 0.251354 ACAGCCATGAGAACGATGCT 59.749 50.000 0.00 0.00 0.00 3.79
2436 2892 2.126734 AGACAAATGCAAGCGCGC 60.127 55.556 26.66 26.66 42.97 6.86
2437 2893 0.165727 TACAGACAAATGCAAGCGCG 59.834 50.000 0.00 0.00 42.97 6.86
2438 2894 1.197721 AGTACAGACAAATGCAAGCGC 59.802 47.619 0.00 0.00 39.24 5.92
2439 2895 4.661993 TTAGTACAGACAAATGCAAGCG 57.338 40.909 0.00 0.00 0.00 4.68
2440 2896 6.381801 ACAATTAGTACAGACAAATGCAAGC 58.618 36.000 0.00 0.00 0.00 4.01
2441 2897 7.023575 GGACAATTAGTACAGACAAATGCAAG 58.976 38.462 0.00 0.00 0.00 4.01
2442 2898 6.714810 AGGACAATTAGTACAGACAAATGCAA 59.285 34.615 0.00 0.00 31.45 4.08
2443 2899 6.237901 AGGACAATTAGTACAGACAAATGCA 58.762 36.000 0.00 0.00 31.45 3.96
2480 2936 0.034477 CGGGGAAGGCACCAGTTATT 60.034 55.000 3.41 0.00 37.48 1.40
2506 2965 7.500992 TCCTAATCATGTTGGAGTGAATAGAC 58.499 38.462 0.00 0.00 32.22 2.59
2630 3094 8.615211 GCTCAATATATGACAACTGAAATGTGA 58.385 33.333 0.00 0.00 33.47 3.58
2631 3095 8.618677 AGCTCAATATATGACAACTGAAATGTG 58.381 33.333 0.00 0.00 33.47 3.21
2632 3096 8.743085 AGCTCAATATATGACAACTGAAATGT 57.257 30.769 0.00 0.00 33.47 2.71
2649 3113 9.844790 CAACTGAAATGTGATTTAAGCTCAATA 57.155 29.630 0.00 0.00 34.62 1.90
2650 3114 8.362639 ACAACTGAAATGTGATTTAAGCTCAAT 58.637 29.630 0.00 0.00 34.62 2.57
2651 3115 7.715657 ACAACTGAAATGTGATTTAAGCTCAA 58.284 30.769 0.00 0.00 34.62 3.02
2652 3116 7.013178 TGACAACTGAAATGTGATTTAAGCTCA 59.987 33.333 0.00 0.00 34.62 4.26
2653 3117 7.362662 TGACAACTGAAATGTGATTTAAGCTC 58.637 34.615 0.00 0.00 34.62 4.09
2654 3118 7.275888 TGACAACTGAAATGTGATTTAAGCT 57.724 32.000 0.00 0.00 34.62 3.74
2655 3119 9.793252 ATATGACAACTGAAATGTGATTTAAGC 57.207 29.630 0.00 0.00 34.62 3.09
2684 3148 6.170506 TCCACAGAGCAATTTCGTTTATACT 58.829 36.000 0.00 0.00 0.00 2.12
2705 3237 3.197766 GTCCTCAGGTTGTACATCATCCA 59.802 47.826 0.00 0.00 38.12 3.41
2741 3273 0.175760 GCAGTAGACGGCTGGAATGA 59.824 55.000 0.00 0.00 34.73 2.57
2915 3494 2.135903 AACACCATCCATGACGGCCA 62.136 55.000 2.24 0.00 33.14 5.36
2919 3498 1.089481 CGGGAACACCATCCATGACG 61.089 60.000 0.00 0.00 41.55 4.35
2949 3528 1.673168 GACCTTGTGGATCCAGCATC 58.327 55.000 16.81 3.57 37.04 3.91
2966 3545 2.367894 TCAGATCAGGAGCATGATGGAC 59.632 50.000 2.01 0.00 40.02 4.02
2985 3564 1.550130 CCAAGGAAGCTACCGGGTCA 61.550 60.000 6.32 0.00 34.73 4.02
3075 3654 1.276421 CCTTGTACCCACACAGAGAGG 59.724 57.143 0.00 0.00 33.30 3.69
3081 3661 3.200385 AGTTTACACCTTGTACCCACACA 59.800 43.478 0.00 0.00 31.69 3.72
3119 3699 0.603707 ACACCAACACAGCTCCATCG 60.604 55.000 0.00 0.00 0.00 3.84
3121 3701 0.538057 CCACACCAACACAGCTCCAT 60.538 55.000 0.00 0.00 0.00 3.41
3149 3729 0.735978 CGCAAGCATACAGTCGGTCA 60.736 55.000 0.00 0.00 0.00 4.02
3151 3731 0.175760 ATCGCAAGCATACAGTCGGT 59.824 50.000 0.00 0.00 37.18 4.69
3225 3805 2.203922 TGCCACCTACCAGAGCCA 60.204 61.111 0.00 0.00 0.00 4.75
3245 3825 1.079819 CCCGCGAGAGTGATGTTGT 60.080 57.895 8.23 0.00 46.66 3.32
3248 3828 2.573869 CACCCGCGAGAGTGATGT 59.426 61.111 8.23 0.00 46.66 3.06
3272 3881 1.300233 CCTAGCGATCGAGGCAACC 60.300 63.158 21.57 0.00 37.17 3.77
3274 3883 3.129300 CCCTAGCGATCGAGGCAA 58.871 61.111 21.57 0.00 34.20 4.52
3328 3937 3.225798 GCAGCAAAGCCCACACCA 61.226 61.111 0.00 0.00 0.00 4.17
3340 3949 2.519063 CCAAGTGTGGTGGCAGCA 60.519 61.111 16.56 16.56 40.42 4.41
3354 3963 0.962356 GTAGACGACTCCCGGACCAA 60.962 60.000 0.73 0.00 43.93 3.67
3372 3981 4.968553 TCCACCGAGGAAAGGAGT 57.031 55.556 0.00 0.00 45.65 3.85
3387 3996 2.183555 GTCCATCGGTCACGGTCC 59.816 66.667 0.00 0.00 41.39 4.46


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

AutoCloner maintained by Alex Coulton.