Multiple sequence alignment - TraesCS2A01G214100

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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 TraesCS2A01G214100 chr2A 100.000 4019 0 0 1 4019 199730043 199726025 0.000000e+00 7422.0
1 TraesCS2A01G214100 chr2A 71.807 1284 310 43 1406 2662 147538030 147536772 6.480000e-83 318.0
2 TraesCS2A01G214100 chr2D 95.384 3098 102 20 878 3952 187109783 187106704 0.000000e+00 4891.0
3 TraesCS2A01G214100 chr2D 79.883 512 55 13 3 471 187112416 187111910 8.330000e-87 331.0
4 TraesCS2A01G214100 chr2B 95.794 737 24 4 871 1604 243075518 243074786 0.000000e+00 1182.0
5 TraesCS2A01G214100 chr2B 90.281 782 48 6 1673 2445 243004248 243003486 0.000000e+00 998.0
6 TraesCS2A01G214100 chr2B 90.351 684 45 11 2722 3404 242992942 242992279 0.000000e+00 878.0
7 TraesCS2A01G214100 chr2B 89.474 684 52 10 2722 3404 242949123 242948459 0.000000e+00 846.0
8 TraesCS2A01G214100 chr2B 91.542 603 48 3 3408 4008 242948407 242947806 0.000000e+00 828.0
9 TraesCS2A01G214100 chr2B 91.486 599 45 4 3407 4003 242992239 242991645 0.000000e+00 819.0
10 TraesCS2A01G214100 chr2B 90.213 235 19 1 2443 2673 242949357 242949123 1.810000e-78 303.0
11 TraesCS2A01G214100 chr2B 90.213 235 19 2 2443 2673 242993176 242992942 1.810000e-78 303.0
12 TraesCS2A01G214100 chr2B 70.499 1583 403 52 1071 2619 551637866 551639418 1.100000e-70 278.0
13 TraesCS2A01G214100 chr2B 77.535 503 64 22 13 483 243077830 243077345 1.430000e-64 257.0
14 TraesCS2A01G214100 chr2B 96.296 81 3 0 1597 1677 243072080 243072000 2.520000e-27 134.0
15 TraesCS2A01G214100 chr2B 100.000 51 0 0 796 846 243075895 243075845 1.190000e-15 95.3
16 TraesCS2A01G214100 chr2B 81.176 85 11 4 3820 3901 547942917 547942835 3.350000e-06 63.9
17 TraesCS2A01G214100 chr6D 74.859 1599 355 41 1085 2658 264178103 264179679 0.000000e+00 682.0
18 TraesCS2A01G214100 chr6D 73.038 1962 424 71 1075 2979 86721419 86723332 2.670000e-166 595.0
19 TraesCS2A01G214100 chr6B 73.043 1955 424 69 1075 2973 164363013 164364920 2.670000e-166 595.0
20 TraesCS2A01G214100 chr6A 72.838 1966 427 63 1078 2982 104413813 104411894 1.250000e-159 573.0
21 TraesCS2A01G214100 chr6A 71.285 1494 378 42 1252 2717 373067128 373068598 6.440000e-88 335.0


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 TraesCS2A01G214100 chr2A 199726025 199730043 4018 True 7422.000000 7422 100.000000 1 4019 1 chr2A.!!$R2 4018
1 TraesCS2A01G214100 chr2A 147536772 147538030 1258 True 318.000000 318 71.807000 1406 2662 1 chr2A.!!$R1 1256
2 TraesCS2A01G214100 chr2D 187106704 187112416 5712 True 2611.000000 4891 87.633500 3 3952 2 chr2D.!!$R1 3949
3 TraesCS2A01G214100 chr2B 243003486 243004248 762 True 998.000000 998 90.281000 1673 2445 1 chr2B.!!$R1 772
4 TraesCS2A01G214100 chr2B 242991645 242993176 1531 True 666.666667 878 90.683333 2443 4003 3 chr2B.!!$R4 1560
5 TraesCS2A01G214100 chr2B 242947806 242949357 1551 True 659.000000 846 90.409667 2443 4008 3 chr2B.!!$R3 1565
6 TraesCS2A01G214100 chr2B 243072000 243077830 5830 True 417.075000 1182 92.406250 13 1677 4 chr2B.!!$R5 1664
7 TraesCS2A01G214100 chr2B 551637866 551639418 1552 False 278.000000 278 70.499000 1071 2619 1 chr2B.!!$F1 1548
8 TraesCS2A01G214100 chr6D 264178103 264179679 1576 False 682.000000 682 74.859000 1085 2658 1 chr6D.!!$F2 1573
9 TraesCS2A01G214100 chr6D 86721419 86723332 1913 False 595.000000 595 73.038000 1075 2979 1 chr6D.!!$F1 1904
10 TraesCS2A01G214100 chr6B 164363013 164364920 1907 False 595.000000 595 73.043000 1075 2973 1 chr6B.!!$F1 1898
11 TraesCS2A01G214100 chr6A 104411894 104413813 1919 True 573.000000 573 72.838000 1078 2982 1 chr6A.!!$R1 1904
12 TraesCS2A01G214100 chr6A 373067128 373068598 1470 False 335.000000 335 71.285000 1252 2717 1 chr6A.!!$F1 1465

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
925 3188 0.179089 ATTGGTAGAGCAGCTGAGCG 60.179 55.0 20.43 0.0 40.15 5.03 F
2719 7793 0.447801 GGTACTTGAGCATTGGCACG 59.552 55.0 0.00 0.0 44.61 5.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2828 7905 0.107703 CTGTCGCATTCCTGGCCTTA 60.108 55.0 3.32 0.0 0.0 2.69 R
3668 8794 0.816018 ACATGAAAACACGGTGCGGA 60.816 50.0 8.30 0.0 0.0 5.54 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
22 23 2.606378 ACCTAGGTTCAAGTCGTCCTT 58.394 47.619 9.21 0.00 0.00 3.36
29 30 3.005578 GGTTCAAGTCGTCCTTACTCTGT 59.994 47.826 0.00 0.00 0.00 3.41
66 68 6.508030 TTAGGGCATCTACAACCATATTGA 57.492 37.500 0.00 0.00 0.00 2.57
79 81 3.776417 ACCATATTGAGCAAATTTGGCCT 59.224 39.130 19.47 9.00 46.06 5.19
82 84 3.881937 ATTGAGCAAATTTGGCCTCTC 57.118 42.857 19.47 16.06 0.00 3.20
86 88 3.579586 TGAGCAAATTTGGCCTCTCAAAT 59.420 39.130 19.47 0.00 45.86 2.32
92 94 3.665745 TTTGGCCTCTCAAATTTCTGC 57.334 42.857 3.32 0.00 32.39 4.26
114 116 2.767445 CGCGTCCGGTCAGTATCCA 61.767 63.158 0.00 0.00 0.00 3.41
115 117 1.514087 GCGTCCGGTCAGTATCCAA 59.486 57.895 0.00 0.00 0.00 3.53
117 119 0.815734 CGTCCGGTCAGTATCCAAGT 59.184 55.000 0.00 0.00 0.00 3.16
151 153 2.969950 AGCCCTCATTTATGCATGCATT 59.030 40.909 36.23 17.76 37.82 3.56
152 154 3.064207 GCCCTCATTTATGCATGCATTG 58.936 45.455 36.23 27.41 37.82 2.82
193 224 2.309755 TGGGGATGTGCAGAGAGAAAAT 59.690 45.455 0.00 0.00 0.00 1.82
196 227 5.136105 GGGGATGTGCAGAGAGAAAATAAT 58.864 41.667 0.00 0.00 0.00 1.28
232 263 1.502690 TATGTGGTACGGAATGGGCT 58.497 50.000 0.00 0.00 0.00 5.19
242 273 1.475751 CGGAATGGGCTGCATTCTACT 60.476 52.381 13.72 0.00 38.65 2.57
245 276 3.282021 GAATGGGCTGCATTCTACTTGA 58.718 45.455 0.50 0.00 36.44 3.02
246 277 3.589951 ATGGGCTGCATTCTACTTGAT 57.410 42.857 0.50 0.00 0.00 2.57
247 278 4.712051 ATGGGCTGCATTCTACTTGATA 57.288 40.909 0.50 0.00 0.00 2.15
271 303 0.828022 TCTGGACACGCCCGAATATT 59.172 50.000 0.00 0.00 34.97 1.28
288 320 5.473162 CGAATATTGTGATCCCTATTTGGCA 59.527 40.000 0.00 0.00 0.00 4.92
386 430 4.154195 AGAGCGCAATAACGTGAATTCTTT 59.846 37.500 11.47 0.31 34.88 2.52
387 431 4.158384 AGCGCAATAACGTGAATTCTTTG 58.842 39.130 11.47 0.00 34.88 2.77
416 460 3.938109 GAAGCTTCCGGAACTTCCT 57.062 52.632 29.80 16.95 34.95 3.36
420 464 1.838073 GCTTCCGGAACTTCCTGGGA 61.838 60.000 14.35 8.86 33.30 4.37
423 467 1.612442 CCGGAACTTCCTGGGAGGA 60.612 63.158 6.99 0.00 44.10 3.71
426 470 0.906066 GGAACTTCCTGGGAGGACTC 59.094 60.000 6.99 0.00 45.78 3.36
516 784 7.606858 TTTTCTGATTTTGTTCAAATGCACA 57.393 28.000 0.00 0.00 35.02 4.57
536 804 7.969314 TGCACAAACTTCTTTAAAATCCAAAC 58.031 30.769 0.00 0.00 0.00 2.93
538 806 8.116136 GCACAAACTTCTTTAAAATCCAAACAG 58.884 33.333 0.00 0.00 0.00 3.16
539 807 9.150348 CACAAACTTCTTTAAAATCCAAACAGT 57.850 29.630 0.00 0.00 0.00 3.55
545 814 8.725405 TTCTTTAAAATCCAAACAGTTTTCCC 57.275 30.769 0.00 0.00 0.00 3.97
557 826 5.675684 ACAGTTTTCCCAATTTGTGAACT 57.324 34.783 0.00 0.00 0.00 3.01
560 829 6.939730 ACAGTTTTCCCAATTTGTGAACTTTT 59.060 30.769 0.00 0.00 0.00 2.27
632 905 8.277713 TCGTTAACTCTTTTAAAATCCACGAAG 58.722 33.333 0.09 0.00 0.00 3.79
652 925 6.526674 ACGAAGTTTTGTCAGTTTTTGCTAAG 59.473 34.615 0.00 0.00 37.78 2.18
692 966 5.546526 TGAACTTTTTCAGTTTGCCAACTT 58.453 33.333 0.00 0.00 46.53 2.66
721 995 6.336842 AGTGAACTTCTTTCAAATCCATGG 57.663 37.500 4.97 4.97 46.09 3.66
722 996 6.070656 AGTGAACTTCTTTCAAATCCATGGA 58.929 36.000 18.88 18.88 46.09 3.41
724 998 7.890127 AGTGAACTTCTTTCAAATCCATGGATA 59.110 33.333 27.54 9.73 46.09 2.59
861 2399 4.524802 ATGGCTGATGGGTCAAAGAATA 57.475 40.909 0.00 0.00 33.05 1.75
863 2401 5.645056 TGGCTGATGGGTCAAAGAATATA 57.355 39.130 0.00 0.00 33.05 0.86
865 2403 6.613699 TGGCTGATGGGTCAAAGAATATATT 58.386 36.000 0.00 0.00 33.05 1.28
866 2404 7.068702 TGGCTGATGGGTCAAAGAATATATTT 58.931 34.615 0.00 0.00 33.05 1.40
867 2405 7.014518 TGGCTGATGGGTCAAAGAATATATTTG 59.985 37.037 0.00 6.89 38.68 2.32
868 2406 7.373493 GCTGATGGGTCAAAGAATATATTTGG 58.627 38.462 11.43 0.00 38.04 3.28
870 2408 8.463930 TGATGGGTCAAAGAATATATTTGGTC 57.536 34.615 11.43 6.97 38.04 4.02
871 2409 6.935741 TGGGTCAAAGAATATATTTGGTCG 57.064 37.500 11.43 0.00 38.04 4.79
872 2410 6.654959 TGGGTCAAAGAATATATTTGGTCGA 58.345 36.000 11.43 0.00 38.04 4.20
873 2411 6.540914 TGGGTCAAAGAATATATTTGGTCGAC 59.459 38.462 7.13 7.13 38.04 4.20
912 3175 5.449862 GCATGATTTTCCTGCGTAATTGGTA 60.450 40.000 0.00 0.00 29.00 3.25
925 3188 0.179089 ATTGGTAGAGCAGCTGAGCG 60.179 55.000 20.43 0.00 40.15 5.03
926 3189 2.105930 GGTAGAGCAGCTGAGCGG 59.894 66.667 20.43 0.00 40.15 5.52
927 3190 2.716017 GGTAGAGCAGCTGAGCGGT 61.716 63.158 20.43 3.54 40.15 5.68
928 3191 1.226831 GTAGAGCAGCTGAGCGGTC 60.227 63.158 20.43 16.52 40.15 4.79
929 3192 1.678970 TAGAGCAGCTGAGCGGTCA 60.679 57.895 20.43 17.59 40.15 4.02
953 3227 4.082895 GCAAGTCAGCAGTCAATTCATTCT 60.083 41.667 0.00 0.00 0.00 2.40
986 3260 3.047718 CTCCTCCGCGTACGAGCAA 62.048 63.158 21.65 5.79 43.93 3.91
1341 3621 3.692406 GTCCTGTTCGTCGCCCCT 61.692 66.667 0.00 0.00 0.00 4.79
2448 7518 4.508124 CGGGACATCAAAGCTAGTAATGTC 59.492 45.833 16.93 16.93 43.40 3.06
2683 7757 4.450757 GGCAAAATTTACAAGGCGAACAAT 59.549 37.500 0.00 0.00 0.00 2.71
2719 7793 0.447801 GGTACTTGAGCATTGGCACG 59.552 55.000 0.00 0.00 44.61 5.34
2828 7905 2.744494 GCTCGCATCCTCTCTCCAATTT 60.744 50.000 0.00 0.00 0.00 1.82
2851 7928 1.296392 CCAGGAATGCGACAGGTCA 59.704 57.895 0.00 0.00 0.00 4.02
2897 7974 2.097825 ACTACCGGAGCTTACGTTGAT 58.902 47.619 9.46 0.00 0.00 2.57
2911 7988 2.926200 ACGTTGATGAATGAGAGCTTCG 59.074 45.455 0.00 0.00 0.00 3.79
2923 8000 1.474478 AGAGCTTCGAGATTCTTGCGA 59.526 47.619 0.00 0.00 0.00 5.10
3106 8183 7.147312 TGCACAAAATTATATGGCTGCTATTC 58.853 34.615 3.18 0.00 0.00 1.75
3107 8184 6.587608 GCACAAAATTATATGGCTGCTATTCC 59.412 38.462 3.18 0.00 0.00 3.01
3360 8438 8.328864 GGACATTCACGATCAACTAATTCTAAC 58.671 37.037 0.00 0.00 0.00 2.34
3439 8565 5.102967 ACTATTCTTAGGGGGTGTACCAAA 58.897 41.667 3.11 0.00 42.91 3.28
3454 8580 7.865889 GGGTGTACCAAAAGAAAACTCAAATAG 59.134 37.037 3.11 0.00 39.85 1.73
3471 8597 6.390721 TCAAATAGACTTCTCTCCAAACTCG 58.609 40.000 0.00 0.00 0.00 4.18
3548 8674 4.706962 AGAGAAGTGGGGCATTTGATAAAC 59.293 41.667 0.00 0.00 0.00 2.01
3815 8943 6.714810 TGGTTATGTTGATATTGGAGGTATGC 59.285 38.462 0.00 0.00 0.00 3.14
3917 9045 2.831685 TGGACATTGCAGTACTCGTT 57.168 45.000 0.00 0.00 0.00 3.85
3922 9050 4.201724 GGACATTGCAGTACTCGTTGATTC 60.202 45.833 0.00 0.00 0.00 2.52
3925 9053 5.577164 ACATTGCAGTACTCGTTGATTCTAC 59.423 40.000 0.00 0.00 0.00 2.59
3929 9057 6.726230 TGCAGTACTCGTTGATTCTACTATC 58.274 40.000 0.00 0.00 0.00 2.08
3977 9105 7.438459 ACCTAAGATACTTGTTGATATGTTCGC 59.562 37.037 0.00 0.00 0.00 4.70
3981 9109 4.584029 ACTTGTTGATATGTTCGCGAAG 57.416 40.909 24.13 8.20 0.00 3.79
4008 9136 0.316841 TTGCTGTTTTGGCCGATTCC 59.683 50.000 0.00 0.00 0.00 3.01
4009 9137 0.825425 TGCTGTTTTGGCCGATTCCA 60.825 50.000 0.00 0.00 0.00 3.53
4010 9138 0.388520 GCTGTTTTGGCCGATTCCAC 60.389 55.000 0.00 0.00 35.50 4.02
4011 9139 1.247567 CTGTTTTGGCCGATTCCACT 58.752 50.000 0.00 0.00 35.50 4.00
4012 9140 0.958091 TGTTTTGGCCGATTCCACTG 59.042 50.000 0.00 0.00 35.50 3.66
4013 9141 0.958822 GTTTTGGCCGATTCCACTGT 59.041 50.000 0.00 0.00 35.50 3.55
4014 9142 1.068541 GTTTTGGCCGATTCCACTGTC 60.069 52.381 0.00 0.00 35.50 3.51
4015 9143 0.608035 TTTGGCCGATTCCACTGTCC 60.608 55.000 0.00 0.00 35.50 4.02
4016 9144 2.124695 GGCCGATTCCACTGTCCC 60.125 66.667 0.00 0.00 0.00 4.46
4017 9145 2.124695 GCCGATTCCACTGTCCCC 60.125 66.667 0.00 0.00 0.00 4.81
4018 9146 2.670148 GCCGATTCCACTGTCCCCT 61.670 63.158 0.00 0.00 0.00 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 4.966965 AGACACATACAGAGTAAGGACG 57.033 45.455 0.00 0.00 0.00 4.79
22 23 7.341256 CCCTAAAACCTAGACACATACAGAGTA 59.659 40.741 0.00 0.00 0.00 2.59
29 30 5.665812 AGATGCCCTAAAACCTAGACACATA 59.334 40.000 0.00 0.00 0.00 2.29
63 64 2.596346 TGAGAGGCCAAATTTGCTCAA 58.404 42.857 20.89 10.72 30.26 3.02
79 81 0.796312 GCGTCCGCAGAAATTTGAGA 59.204 50.000 6.82 0.00 41.49 3.27
82 84 0.789383 GACGCGTCCGCAGAAATTTG 60.789 55.000 28.61 0.00 42.06 2.32
114 116 5.826643 TGAGGGCTTAAAATGGACATACTT 58.173 37.500 0.00 0.00 0.00 2.24
115 117 5.450818 TGAGGGCTTAAAATGGACATACT 57.549 39.130 0.00 0.00 0.00 2.12
117 119 8.859090 CATAAATGAGGGCTTAAAATGGACATA 58.141 33.333 0.00 0.00 0.00 2.29
153 155 2.986479 CCATCATTCGCATGCATGATTG 59.014 45.455 30.64 18.79 37.93 2.67
155 157 1.544246 CCCATCATTCGCATGCATGAT 59.456 47.619 30.64 21.73 40.17 2.45
156 158 0.955905 CCCATCATTCGCATGCATGA 59.044 50.000 30.64 19.55 33.92 3.07
165 196 0.949397 CTGCACATCCCCATCATTCG 59.051 55.000 0.00 0.00 0.00 3.34
171 202 1.588239 TTCTCTCTGCACATCCCCAT 58.412 50.000 0.00 0.00 0.00 4.00
204 235 6.542370 CCATTCCGTACCACATATTCTCTTTT 59.458 38.462 0.00 0.00 0.00 2.27
215 246 1.298340 CAGCCCATTCCGTACCACA 59.702 57.895 0.00 0.00 0.00 4.17
227 258 4.080356 AGTTATCAAGTAGAATGCAGCCCA 60.080 41.667 0.00 0.00 0.00 5.36
232 263 6.070824 TCCAGACAGTTATCAAGTAGAATGCA 60.071 38.462 0.00 0.00 0.00 3.96
242 273 2.611971 GGCGTGTCCAGACAGTTATCAA 60.612 50.000 0.00 0.00 42.74 2.57
245 276 0.249398 GGGCGTGTCCAGACAGTTAT 59.751 55.000 0.00 0.00 42.74 1.89
246 277 1.669440 GGGCGTGTCCAGACAGTTA 59.331 57.895 0.00 0.00 42.74 2.24
247 278 2.426023 GGGCGTGTCCAGACAGTT 59.574 61.111 0.00 0.00 42.74 3.16
271 303 1.064017 GGGTGCCAAATAGGGATCACA 60.064 52.381 0.00 0.00 41.45 3.58
386 430 1.347378 GGAAGCTTCCCAAAAATGGCA 59.653 47.619 31.91 0.00 41.62 4.92
387 431 1.672737 CGGAAGCTTCCCAAAAATGGC 60.673 52.381 34.54 10.42 44.67 4.40
416 460 2.683933 GCTTCCCGAGTCCTCCCA 60.684 66.667 0.00 0.00 0.00 4.37
420 464 1.261238 CCAGAAGCTTCCCGAGTCCT 61.261 60.000 22.81 0.00 0.00 3.85
423 467 0.321996 GTTCCAGAAGCTTCCCGAGT 59.678 55.000 22.81 0.59 0.00 4.18
426 470 1.741770 CCGTTCCAGAAGCTTCCCG 60.742 63.158 22.81 14.06 0.00 5.14
490 758 8.675504 TGTGCATTTGAACAAAATCAGAAAAAT 58.324 25.926 4.12 0.00 36.28 1.82
491 759 8.037382 TGTGCATTTGAACAAAATCAGAAAAA 57.963 26.923 4.12 0.00 36.28 1.94
493 761 7.606858 TTGTGCATTTGAACAAAATCAGAAA 57.393 28.000 1.50 1.96 40.44 2.52
504 772 9.986833 ATTTTAAAGAAGTTTGTGCATTTGAAC 57.013 25.926 0.00 0.00 0.00 3.18
536 804 6.983474 AAAGTTCACAAATTGGGAAAACTG 57.017 33.333 12.72 0.00 42.08 3.16
538 806 7.609760 AGAAAAGTTCACAAATTGGGAAAAC 57.390 32.000 12.72 1.91 42.08 2.43
539 807 8.754080 TCTAGAAAAGTTCACAAATTGGGAAAA 58.246 29.630 12.72 0.00 42.08 2.29
570 839 8.419076 AAAATTGCGAAGTTGTAAAAGTTCAT 57.581 26.923 12.68 0.00 32.93 2.57
607 880 8.066000 ACTTCGTGGATTTTAAAAGAGTTAACG 58.934 33.333 6.79 9.91 0.00 3.18
608 881 9.726232 AACTTCGTGGATTTTAAAAGAGTTAAC 57.274 29.630 6.79 0.00 0.00 2.01
628 901 6.526674 ACTTAGCAAAAACTGACAAAACTTCG 59.473 34.615 0.00 0.00 0.00 3.79
735 1009 8.293699 AGTTCACTAAAAGAGGTTTGTGAAAT 57.706 30.769 13.71 11.14 42.35 2.17
741 1015 8.458843 TGAAAGAAGTTCACTAAAAGAGGTTTG 58.541 33.333 5.50 0.00 41.47 2.93
742 1016 8.575649 TGAAAGAAGTTCACTAAAAGAGGTTT 57.424 30.769 5.50 0.00 41.47 3.27
787 1061 9.693739 ATTAATTGGGATAACTGTATGTGAACA 57.306 29.630 0.00 0.00 0.00 3.18
791 1065 9.663904 CGAAATTAATTGGGATAACTGTATGTG 57.336 33.333 0.39 0.00 0.00 3.21
792 1066 8.349983 GCGAAATTAATTGGGATAACTGTATGT 58.650 33.333 0.39 0.00 0.00 2.29
793 1067 8.349245 TGCGAAATTAATTGGGATAACTGTATG 58.651 33.333 0.39 0.00 0.00 2.39
794 1068 8.458573 TGCGAAATTAATTGGGATAACTGTAT 57.541 30.769 0.39 0.00 0.00 2.29
912 3175 2.993840 TGACCGCTCAGCTGCTCT 60.994 61.111 9.47 0.00 0.00 4.09
925 3188 0.250038 TGACTGCTGACTTGCTGACC 60.250 55.000 0.00 0.00 36.10 4.02
926 3189 1.586422 TTGACTGCTGACTTGCTGAC 58.414 50.000 0.00 0.00 36.10 3.51
927 3190 2.556144 ATTGACTGCTGACTTGCTGA 57.444 45.000 0.00 0.00 36.10 4.26
928 3191 2.551032 TGAATTGACTGCTGACTTGCTG 59.449 45.455 0.00 0.00 37.79 4.41
929 3192 2.854963 TGAATTGACTGCTGACTTGCT 58.145 42.857 0.00 0.00 0.00 3.91
930 3193 3.844577 ATGAATTGACTGCTGACTTGC 57.155 42.857 0.00 0.00 0.00 4.01
931 3194 5.180680 TGAGAATGAATTGACTGCTGACTTG 59.819 40.000 0.00 0.00 0.00 3.16
932 3195 5.311265 TGAGAATGAATTGACTGCTGACTT 58.689 37.500 0.00 0.00 0.00 3.01
986 3260 3.021451 GGCATAGCCGGTATTGCTT 57.979 52.632 19.30 0.00 39.62 3.91
1341 3621 1.550130 CGGAGAAGTTGTAGCCCCCA 61.550 60.000 0.00 0.00 0.00 4.96
2448 7518 3.808466 TTCATCTCATTGTCGAGGAGG 57.192 47.619 1.96 0.00 36.82 4.30
2669 7743 4.142491 CCAGCATTAATTGTTCGCCTTGTA 60.142 41.667 0.00 0.00 0.00 2.41
2673 7747 2.423538 GACCAGCATTAATTGTTCGCCT 59.576 45.455 0.00 0.00 0.00 5.52
2683 7757 0.981183 ACCCAGTCGACCAGCATTAA 59.019 50.000 13.01 0.00 0.00 1.40
2719 7793 1.680249 GGTTTCAGCCAGTGATCCTCC 60.680 57.143 0.00 0.00 34.17 4.30
2828 7905 0.107703 CTGTCGCATTCCTGGCCTTA 60.108 55.000 3.32 0.00 0.00 2.69
2851 7928 4.099573 CACGTCTCCATTAAGGTACCTCAT 59.900 45.833 16.64 7.84 39.02 2.90
2897 7974 4.998671 AGAATCTCGAAGCTCTCATTCA 57.001 40.909 0.00 0.00 0.00 2.57
2923 8000 2.489329 CAAACCCTTCGTTCTGCATCAT 59.511 45.455 0.00 0.00 31.78 2.45
3086 8163 6.010219 ACCGGAATAGCAGCCATATAATTTT 58.990 36.000 9.46 0.00 0.00 1.82
3106 8183 2.350899 TGACGTGTTACACATACCGG 57.649 50.000 16.09 0.00 33.40 5.28
3107 8184 3.060230 CACATGACGTGTTACACATACCG 59.940 47.826 16.09 3.57 39.62 4.02
3263 8341 3.543626 TGGGGGTGGGAGGTACCA 61.544 66.667 15.94 0.00 40.03 3.25
3360 8438 2.108776 TGATGCATTGGGAGAATAGGGG 59.891 50.000 0.00 0.00 0.00 4.79
3413 8539 6.270755 TGGTACACCCCCTAAGAATAGTTTA 58.729 40.000 0.00 0.00 34.29 2.01
3439 8565 8.432805 TGGAGAGAAGTCTATTTGAGTTTTCTT 58.567 33.333 9.12 0.00 44.56 2.52
3454 8580 4.506886 TTCTCGAGTTTGGAGAGAAGTC 57.493 45.455 13.13 0.00 43.53 3.01
3471 8597 9.267084 AGAAAAGTTCAACTCTCTGTTATTCTC 57.733 33.333 0.00 0.00 37.07 2.87
3553 8679 8.317679 CCCATTTTATTACTCAAATTTGGGTCA 58.682 33.333 26.62 16.99 41.90 4.02
3668 8794 0.816018 ACATGAAAACACGGTGCGGA 60.816 50.000 8.30 0.00 0.00 5.54
3850 8978 7.228507 TGCAAGAACAACTTACTACAACATCAT 59.771 33.333 0.00 0.00 37.03 2.45
3960 9088 4.242475 TCTTCGCGAACATATCAACAAGT 58.758 39.130 19.38 0.00 0.00 3.16
3975 9103 2.174349 GCAAGCCAGTTCTTCGCG 59.826 61.111 0.00 0.00 0.00 5.87
3977 9105 0.947244 AACAGCAAGCCAGTTCTTCG 59.053 50.000 0.00 0.00 0.00 3.79
3981 9109 1.856802 CCAAAACAGCAAGCCAGTTC 58.143 50.000 1.75 0.00 0.00 3.01
3984 9112 1.301165 GGCCAAAACAGCAAGCCAG 60.301 57.895 0.00 0.00 43.32 4.85


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

AutoCloner maintained by Alex Coulton.