Multiple sequence alignment - TraesCS3A01G163000

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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 TraesCS3A01G163000 chr3A 100.000 2884 0 0 816 3699 165320290 165323173 0.000000e+00 5326.0
1 TraesCS3A01G163000 chr3A 100.000 332 0 0 1 332 165319475 165319806 6.790000e-172 614.0
2 TraesCS3A01G163000 chr3D 91.750 2303 103 42 816 3079 147837161 147834907 0.000000e+00 3120.0
3 TraesCS3A01G163000 chr3D 85.926 270 15 8 9 257 147838762 147838495 2.190000e-67 267.0
4 TraesCS3A01G163000 chr3D 98.649 74 0 1 255 328 147837407 147837335 3.000000e-26 130.0
5 TraesCS3A01G163000 chr3B 90.182 1976 94 55 816 2755 214544574 214546485 0.000000e+00 2483.0
6 TraesCS3A01G163000 chr3B 89.170 277 7 9 2821 3079 214546765 214547036 1.280000e-84 324.0
7 TraesCS3A01G163000 chr3B 87.692 195 9 1 10 189 214543428 214543622 2.890000e-51 213.0
8 TraesCS3A01G163000 chr3B 94.872 78 3 1 252 329 214544360 214544436 1.800000e-23 121.0
9 TraesCS3A01G163000 chr3B 100.000 31 0 0 238 268 214543633 214543663 1.430000e-04 58.4
10 TraesCS3A01G163000 chr4A 97.284 626 16 1 3074 3699 208937898 208937274 0.000000e+00 1061.0
11 TraesCS3A01G163000 chr4A 93.153 628 39 4 3076 3699 610276577 610277204 0.000000e+00 918.0
12 TraesCS3A01G163000 chr2A 96.497 628 21 1 3072 3699 499766374 499767000 0.000000e+00 1037.0
13 TraesCS3A01G163000 chr2B 95.513 624 25 3 3077 3699 187199909 187199288 0.000000e+00 994.0
14 TraesCS3A01G163000 chr7A 93.910 624 34 4 3079 3699 36158503 36159125 0.000000e+00 939.0
15 TraesCS3A01G163000 chr7A 93.419 623 38 3 3079 3699 118154676 118154055 0.000000e+00 920.0
16 TraesCS3A01G163000 chr6A 93.631 628 36 4 3076 3699 575100968 575100341 0.000000e+00 935.0
17 TraesCS3A01G163000 chr1A 93.730 622 35 4 3078 3697 394604098 394603479 0.000000e+00 929.0
18 TraesCS3A01G163000 chr1A 87.313 134 6 4 2946 3079 34288347 34288225 3.850000e-30 143.0
19 TraesCS3A01G163000 chr7B 93.590 624 35 5 3078 3699 336654584 336653964 0.000000e+00 926.0


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 TraesCS3A01G163000 chr3A 165319475 165323173 3698 False 2970.000000 5326 100.000000 1 3699 2 chr3A.!!$F1 3698
1 TraesCS3A01G163000 chr3D 147834907 147838762 3855 True 1172.333333 3120 92.108333 9 3079 3 chr3D.!!$R1 3070
2 TraesCS3A01G163000 chr3B 214543428 214547036 3608 False 639.880000 2483 92.383200 10 3079 5 chr3B.!!$F1 3069
3 TraesCS3A01G163000 chr4A 208937274 208937898 624 True 1061.000000 1061 97.284000 3074 3699 1 chr4A.!!$R1 625
4 TraesCS3A01G163000 chr4A 610276577 610277204 627 False 918.000000 918 93.153000 3076 3699 1 chr4A.!!$F1 623
5 TraesCS3A01G163000 chr2A 499766374 499767000 626 False 1037.000000 1037 96.497000 3072 3699 1 chr2A.!!$F1 627
6 TraesCS3A01G163000 chr2B 187199288 187199909 621 True 994.000000 994 95.513000 3077 3699 1 chr2B.!!$R1 622
7 TraesCS3A01G163000 chr7A 36158503 36159125 622 False 939.000000 939 93.910000 3079 3699 1 chr7A.!!$F1 620
8 TraesCS3A01G163000 chr7A 118154055 118154676 621 True 920.000000 920 93.419000 3079 3699 1 chr7A.!!$R1 620
9 TraesCS3A01G163000 chr6A 575100341 575100968 627 True 935.000000 935 93.631000 3076 3699 1 chr6A.!!$R1 623
10 TraesCS3A01G163000 chr1A 394603479 394604098 619 True 929.000000 929 93.730000 3078 3697 1 chr1A.!!$R2 619
11 TraesCS3A01G163000 chr7B 336653964 336654584 620 True 926.000000 926 93.590000 3078 3699 1 chr7B.!!$R1 621

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
934 2354 0.244994 AGACAAGACAATCGCTCGCT 59.755 50.0 0.0 0.0 0.0 4.93 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2773 4246 0.099082 CGAGGTACCGCTTCTCAGTC 59.901 60.0 14.12 0.0 0.0 3.51 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
21 22 2.538222 TGGGGGTAATACGAACTGTCA 58.462 47.619 0.00 0.00 0.00 3.58
33 34 4.486090 ACGAACTGTCACTATGATGTGTC 58.514 43.478 0.00 0.00 38.90 3.67
95 112 5.822132 ATTTCACCCATGTTTTCCATTCA 57.178 34.783 0.00 0.00 0.00 2.57
96 113 4.599047 TTCACCCATGTTTTCCATTCAC 57.401 40.909 0.00 0.00 0.00 3.18
118 135 3.554324 CGTCGAAACTTCTCAACTTTCCA 59.446 43.478 0.00 0.00 0.00 3.53
131 148 4.580167 TCAACTTTCCATGGTCAAAGTCAG 59.420 41.667 24.35 20.31 41.09 3.51
268 290 7.547227 TCCCGGTTAAGTAACATTAGAGTAAC 58.453 38.462 0.00 0.00 37.92 2.50
269 291 7.178274 TCCCGGTTAAGTAACATTAGAGTAACA 59.822 37.037 0.00 0.00 37.92 2.41
329 1743 3.004734 GCAAGATAGAGACAGAGAGAGCC 59.995 52.174 0.00 0.00 0.00 4.70
331 1745 3.820557 AGATAGAGACAGAGAGAGCCAC 58.179 50.000 0.00 0.00 0.00 5.01
890 2305 3.860605 CGCCCATCCGTCCATCCA 61.861 66.667 0.00 0.00 0.00 3.41
891 2306 2.839098 GCCCATCCGTCCATCCAT 59.161 61.111 0.00 0.00 0.00 3.41
892 2307 1.302832 GCCCATCCGTCCATCCATC 60.303 63.158 0.00 0.00 0.00 3.51
901 2316 3.958860 CCATCCATCCCCGGCTCC 61.959 72.222 0.00 0.00 0.00 4.70
929 2349 1.578023 CGTACGAGACAAGACAATCGC 59.422 52.381 10.44 0.00 38.71 4.58
930 2350 2.728225 CGTACGAGACAAGACAATCGCT 60.728 50.000 10.44 0.00 38.71 4.93
931 2351 1.983972 ACGAGACAAGACAATCGCTC 58.016 50.000 0.00 0.00 38.71 5.03
932 2352 0.910513 CGAGACAAGACAATCGCTCG 59.089 55.000 0.00 0.00 39.12 5.03
933 2353 0.642800 GAGACAAGACAATCGCTCGC 59.357 55.000 0.00 0.00 0.00 5.03
934 2354 0.244994 AGACAAGACAATCGCTCGCT 59.755 50.000 0.00 0.00 0.00 4.93
1047 2477 3.237741 GCATCTCCCTCCTCCCCG 61.238 72.222 0.00 0.00 0.00 5.73
1218 2654 0.321671 TTCTTCAGCAACTCCCTCGG 59.678 55.000 0.00 0.00 0.00 4.63
1219 2655 1.743252 CTTCAGCAACTCCCTCGGC 60.743 63.158 0.00 0.00 0.00 5.54
1220 2656 3.589654 TTCAGCAACTCCCTCGGCG 62.590 63.158 0.00 0.00 0.00 6.46
1267 2703 4.285790 AAGGGGAGGACCAGGCCA 62.286 66.667 5.01 0.00 42.91 5.36
1327 2787 2.751436 GCCAAGGCGCAAGGATCA 60.751 61.111 10.83 0.00 38.28 2.92
1336 2796 1.817099 GCAAGGATCACGGAGGCTG 60.817 63.158 0.00 0.00 0.00 4.85
1585 3045 2.029964 ACGTCGTCCGCAACCATT 59.970 55.556 0.00 0.00 41.42 3.16
1657 3117 4.463879 CCCAGGCTCAGGCACTCG 62.464 72.222 0.00 0.00 40.87 4.18
1747 3212 2.433446 GGCATCCCATCATCGCCT 59.567 61.111 0.00 0.00 39.73 5.52
1768 3233 0.465705 ATCAGCAACCGATCGTGGAT 59.534 50.000 15.09 3.39 0.00 3.41
1780 3245 2.800881 TCGTGGATTGGATGATCGAG 57.199 50.000 0.00 0.00 0.00 4.04
1785 3250 2.037641 TGGATTGGATGATCGAGCGAAT 59.962 45.455 0.00 0.00 0.00 3.34
1786 3251 2.414481 GGATTGGATGATCGAGCGAATG 59.586 50.000 0.00 0.00 0.00 2.67
1787 3252 1.220529 TTGGATGATCGAGCGAATGC 58.779 50.000 0.00 0.00 43.24 3.56
1846 3311 2.121786 GACGAACTGACGTGCTGTTTA 58.878 47.619 0.00 0.00 46.52 2.01
1888 3353 2.574955 GCCGAGGATGATAGGCGGT 61.575 63.158 0.00 0.00 43.61 5.68
1936 3401 2.711311 CGCGACCTCCGATCGTTA 59.289 61.111 15.09 0.44 41.68 3.18
1981 3446 2.359169 CCGGGACAAGAGCAGCCTA 61.359 63.158 0.00 0.00 0.00 3.93
2029 3494 1.357334 GCTGGAGTCGATCGAGGTC 59.643 63.158 20.09 17.57 34.50 3.85
2193 3658 2.250485 CAACGACGACTCGACCGT 59.750 61.111 5.20 11.07 43.06 4.83
2447 3912 2.811431 CGACAAGAGTGTTAAATGGCCA 59.189 45.455 8.56 8.56 38.41 5.36
2474 3940 3.636043 CCGCCGTGTGTGTGTGTC 61.636 66.667 0.00 0.00 0.00 3.67
2479 3945 1.348250 CGTGTGTGTGTGTCTGTGC 59.652 57.895 0.00 0.00 0.00 4.57
2514 3984 3.057456 CACCTACGCTTCTTCTACACACT 60.057 47.826 0.00 0.00 0.00 3.55
2515 3985 3.190953 ACCTACGCTTCTTCTACACACTC 59.809 47.826 0.00 0.00 0.00 3.51
2541 4011 8.129840 CCAGAGATGATGATCAAGATTTGAAAC 58.870 37.037 0.00 0.00 43.95 2.78
2546 4016 9.797556 GATGATGATCAAGATTTGAAACAATCA 57.202 29.630 0.00 0.00 43.95 2.57
2550 4020 7.944061 TGATCAAGATTTGAAACAATCACACT 58.056 30.769 0.00 0.00 43.95 3.55
2551 4021 9.065798 TGATCAAGATTTGAAACAATCACACTA 57.934 29.630 0.00 0.00 43.95 2.74
2552 4022 9.552114 GATCAAGATTTGAAACAATCACACTAG 57.448 33.333 0.00 0.00 43.95 2.57
2553 4023 8.450578 TCAAGATTTGAAACAATCACACTAGT 57.549 30.769 0.00 0.00 37.92 2.57
2554 4024 9.554395 TCAAGATTTGAAACAATCACACTAGTA 57.446 29.630 0.00 0.00 37.92 1.82
2555 4025 9.599322 CAAGATTTGAAACAATCACACTAGTAC 57.401 33.333 0.00 0.00 37.92 2.73
2556 4026 8.018677 AGATTTGAAACAATCACACTAGTACG 57.981 34.615 0.00 0.00 37.92 3.67
2564 4034 1.655597 TCACACTAGTACGACTACGCG 59.344 52.381 3.53 3.53 43.96 6.01
2568 4038 0.381188 CTAGTACGACTACGCGCGAC 60.381 60.000 39.36 22.17 43.96 5.19
2651 4124 8.534954 TGAATATACACTTAGGTAGCTGTTCT 57.465 34.615 4.27 0.00 0.00 3.01
2652 4125 8.978472 TGAATATACACTTAGGTAGCTGTTCTT 58.022 33.333 4.27 0.00 0.00 2.52
2653 4126 9.465985 GAATATACACTTAGGTAGCTGTTCTTC 57.534 37.037 4.27 0.00 0.00 2.87
2654 4127 6.852420 ATACACTTAGGTAGCTGTTCTTCA 57.148 37.500 4.27 0.00 0.00 3.02
2655 4128 5.140747 ACACTTAGGTAGCTGTTCTTCAG 57.859 43.478 4.27 0.00 46.12 3.02
2656 4129 4.021016 ACACTTAGGTAGCTGTTCTTCAGG 60.021 45.833 4.27 0.00 43.78 3.86
2686 4159 7.895759 TCCCTGGTTGATTTCTGAAATAAAAG 58.104 34.615 15.14 9.52 0.00 2.27
2701 4174 9.158233 CTGAAATAAAAGCATGTGGAAATCATT 57.842 29.630 0.00 0.00 0.00 2.57
2704 4177 8.712285 AATAAAAGCATGTGGAAATCATTGAG 57.288 30.769 0.00 0.00 0.00 3.02
2719 4192 1.549203 TTGAGCCCTTTTGATCCAGC 58.451 50.000 0.00 0.00 0.00 4.85
2818 4465 3.432890 CCAAAGAGATCCTAGGCCTCAAC 60.433 52.174 24.00 13.29 0.00 3.18
2856 4542 4.764679 TGGACGGTTGATGAAATTTCTG 57.235 40.909 18.64 0.02 0.00 3.02
2961 4657 7.459795 AATGGAGTCCAAATCTTTCTTTCTC 57.540 36.000 17.71 0.00 36.95 2.87
3000 4701 3.913573 CGCGCTCATGGCACGTAC 61.914 66.667 5.56 0.00 40.99 3.67
3001 4702 3.913573 GCGCTCATGGCACGTACG 61.914 66.667 15.01 15.01 41.91 3.67
3002 4703 2.506217 CGCTCATGGCACGTACGT 60.506 61.111 16.72 16.72 41.91 3.57
3003 4704 1.226463 CGCTCATGGCACGTACGTA 60.226 57.895 22.34 6.15 41.91 3.57
3053 4760 1.586154 ATGCCGCTGGTACAAACTGC 61.586 55.000 0.00 0.00 38.70 4.40
3054 4761 1.966451 GCCGCTGGTACAAACTGCT 60.966 57.895 0.00 0.00 38.70 4.24
3179 4887 3.403038 CGAACATGGTTTCAAGGTCTCT 58.597 45.455 0.00 0.00 0.00 3.10
3333 5045 0.676736 GCCATCCAAACCGGTTGAAA 59.323 50.000 23.08 9.50 39.87 2.69
3438 5150 1.022735 GGATCAGAGCCGTAGTTCGA 58.977 55.000 0.00 0.00 42.86 3.71
3689 5401 6.267471 TCAAATAAGAGGTGTTTGATTGCCTT 59.733 34.615 0.00 0.00 41.02 4.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.109151 TGACAGTTCGTATTACCCCCAT 58.891 45.455 0.00 0.00 0.00 4.00
2 3 2.498885 AGTGACAGTTCGTATTACCCCC 59.501 50.000 0.00 0.00 0.00 5.40
3 4 3.881937 AGTGACAGTTCGTATTACCCC 57.118 47.619 0.00 0.00 0.00 4.95
5 6 7.167635 CACATCATAGTGACAGTTCGTATTACC 59.832 40.741 0.00 0.00 42.05 2.85
6 7 7.701078 ACACATCATAGTGACAGTTCGTATTAC 59.299 37.037 0.57 0.00 42.05 1.89
7 8 7.768240 ACACATCATAGTGACAGTTCGTATTA 58.232 34.615 0.57 0.00 42.05 0.98
21 22 3.777465 AACGCGTAGACACATCATAGT 57.223 42.857 14.46 0.00 0.00 2.12
95 112 3.554731 GGAAAGTTGAGAAGTTTCGACGT 59.445 43.478 9.45 0.00 46.78 4.34
96 113 3.554324 TGGAAAGTTGAGAAGTTTCGACG 59.446 43.478 9.45 0.00 46.78 5.12
118 135 2.034879 CGCGGCTGACTTTGACCAT 61.035 57.895 0.00 0.00 0.00 3.55
131 148 0.588980 GATCGTGGAAATTTCGCGGC 60.589 55.000 23.81 16.40 0.00 6.53
202 224 3.403881 GCGCTCGGGCTTATACGC 61.404 66.667 5.36 0.00 39.49 4.42
224 246 2.710724 AAGAACCGGCTGACGTGGTC 62.711 60.000 0.00 1.35 42.24 4.02
268 290 1.457455 ATTAGGGGCCCGGCAATTG 60.457 57.895 18.95 0.00 0.00 2.32
269 291 1.152546 GATTAGGGGCCCGGCAATT 60.153 57.895 18.95 0.00 0.00 2.32
272 294 3.804329 GTGATTAGGGGCCCGGCA 61.804 66.667 18.95 11.25 0.00 5.69
273 295 3.774599 CTGTGATTAGGGGCCCGGC 62.775 68.421 18.95 8.51 0.00 6.13
890 2305 4.565850 GAGGGAGGAGCCGGGGAT 62.566 72.222 2.18 0.00 37.63 3.85
1036 2466 1.834822 GATGAGACGGGGAGGAGGG 60.835 68.421 0.00 0.00 0.00 4.30
1047 2477 1.272781 CGCGGAACAAGAGATGAGAC 58.727 55.000 0.00 0.00 0.00 3.36
1078 2508 1.823041 GAAGGAGCTCATGCCTGGC 60.823 63.158 17.19 12.87 40.80 4.85
1079 2509 0.255318 AAGAAGGAGCTCATGCCTGG 59.745 55.000 17.19 0.00 40.80 4.45
1080 2510 1.339824 ACAAGAAGGAGCTCATGCCTG 60.340 52.381 17.19 9.96 40.80 4.85
1081 2511 0.990374 ACAAGAAGGAGCTCATGCCT 59.010 50.000 17.19 6.89 40.80 4.75
1137 2573 2.509561 GCTCGTCCGCCTTCTTCC 60.510 66.667 0.00 0.00 0.00 3.46
1319 2773 1.817099 GCAGCCTCCGTGATCCTTG 60.817 63.158 0.00 0.00 0.00 3.61
1321 2775 2.364842 AGCAGCCTCCGTGATCCT 60.365 61.111 0.00 0.00 0.00 3.24
1555 3015 2.186903 GACGTGACCGGCATGGAT 59.813 61.111 18.31 2.98 43.43 3.41
1657 3117 3.177920 CTCTCGAGCGTGCTGTGC 61.178 66.667 7.81 0.00 0.00 4.57
1712 3176 1.540267 GCCTATGATGCATTGGAGCTG 59.460 52.381 0.00 0.00 38.64 4.24
1714 3178 1.612676 TGCCTATGATGCATTGGAGC 58.387 50.000 0.00 1.57 38.64 4.70
1738 3203 2.498167 GGTTGCTGATAAGGCGATGAT 58.502 47.619 0.00 0.00 0.00 2.45
1747 3212 1.478916 TCCACGATCGGTTGCTGATAA 59.521 47.619 20.98 0.00 28.51 1.75
1768 3233 1.220529 GCATTCGCTCGATCATCCAA 58.779 50.000 0.00 0.00 34.30 3.53
1780 3245 1.558741 CTCAGACTCAGAGCATTCGC 58.441 55.000 0.00 0.00 38.99 4.70
1787 3252 2.294233 GCTCCATAGCTCAGACTCAGAG 59.706 54.545 0.00 0.00 45.85 3.35
1788 3253 2.305928 GCTCCATAGCTCAGACTCAGA 58.694 52.381 0.00 0.00 45.85 3.27
1789 3254 2.798976 GCTCCATAGCTCAGACTCAG 57.201 55.000 0.00 0.00 45.85 3.35
1846 3311 1.251251 GGTCAGGCTGCAATGAAAGT 58.749 50.000 10.34 0.00 0.00 2.66
1881 3346 3.774528 CTCTGCTGCCACCGCCTA 61.775 66.667 0.00 0.00 0.00 3.93
1981 3446 2.289945 GCTCTTCCACATCTTGTCCTGT 60.290 50.000 0.00 0.00 0.00 4.00
2029 3494 1.380302 CAGGTCCTTGAACCCCTGG 59.620 63.158 0.00 0.00 40.65 4.45
2162 3627 2.974698 GTTGTCGCTGGTGCTGCT 60.975 61.111 0.00 0.00 36.97 4.24
2460 3926 2.005995 CACAGACACACACACACGG 58.994 57.895 0.00 0.00 0.00 4.94
2461 3927 1.348250 GCACAGACACACACACACG 59.652 57.895 0.00 0.00 0.00 4.49
2462 3928 1.348250 CGCACAGACACACACACAC 59.652 57.895 0.00 0.00 0.00 3.82
2463 3929 2.460275 GCGCACAGACACACACACA 61.460 57.895 0.30 0.00 0.00 3.72
2464 3930 2.324477 GCGCACAGACACACACAC 59.676 61.111 0.30 0.00 0.00 3.82
2465 3931 2.894879 GGCGCACAGACACACACA 60.895 61.111 10.83 0.00 0.00 3.72
2466 3932 2.588877 AGGCGCACAGACACACAC 60.589 61.111 10.83 0.00 0.00 3.82
2467 3933 2.280119 GAGGCGCACAGACACACA 60.280 61.111 10.83 0.00 0.00 3.72
2468 3934 3.044305 GGAGGCGCACAGACACAC 61.044 66.667 10.83 0.00 0.00 3.82
2469 3935 2.882677 ATGGAGGCGCACAGACACA 61.883 57.895 10.83 0.00 0.00 3.72
2470 3936 2.046892 ATGGAGGCGCACAGACAC 60.047 61.111 10.83 0.00 0.00 3.67
2471 3937 2.046988 CATGGAGGCGCACAGACA 60.047 61.111 10.83 0.15 0.00 3.41
2472 3938 2.821366 CCATGGAGGCGCACAGAC 60.821 66.667 10.83 0.00 0.00 3.51
2494 3960 3.427773 GGAGTGTGTAGAAGAAGCGTAGG 60.428 52.174 0.00 0.00 0.00 3.18
2495 3961 3.190744 TGGAGTGTGTAGAAGAAGCGTAG 59.809 47.826 0.00 0.00 0.00 3.51
2496 3962 3.151554 TGGAGTGTGTAGAAGAAGCGTA 58.848 45.455 0.00 0.00 0.00 4.42
2497 3963 1.961394 TGGAGTGTGTAGAAGAAGCGT 59.039 47.619 0.00 0.00 0.00 5.07
2498 3964 2.229062 TCTGGAGTGTGTAGAAGAAGCG 59.771 50.000 0.00 0.00 0.00 4.68
2499 3965 3.508012 TCTCTGGAGTGTGTAGAAGAAGC 59.492 47.826 0.00 0.00 0.00 3.86
2500 3966 5.417266 TCATCTCTGGAGTGTGTAGAAGAAG 59.583 44.000 0.00 0.00 0.00 2.85
2501 3967 5.325239 TCATCTCTGGAGTGTGTAGAAGAA 58.675 41.667 0.00 0.00 0.00 2.52
2502 3968 4.923415 TCATCTCTGGAGTGTGTAGAAGA 58.077 43.478 0.00 0.00 0.00 2.87
2514 3984 7.133133 TCAAATCTTGATCATCATCTCTGGA 57.867 36.000 0.00 0.00 34.08 3.86
2515 3985 7.803279 TTCAAATCTTGATCATCATCTCTGG 57.197 36.000 0.00 0.00 39.84 3.86
2541 4011 4.027065 GCGTAGTCGTACTAGTGTGATTG 58.973 47.826 5.39 0.00 39.49 2.67
2544 4014 1.655597 CGCGTAGTCGTACTAGTGTGA 59.344 52.381 5.39 0.00 39.49 3.58
2545 4015 1.849737 GCGCGTAGTCGTACTAGTGTG 60.850 57.143 8.43 0.00 39.49 3.82
2546 4016 0.371645 GCGCGTAGTCGTACTAGTGT 59.628 55.000 8.43 0.00 39.49 3.55
2550 4020 1.631072 GTCGCGCGTAGTCGTACTA 59.369 57.895 30.98 2.41 39.49 1.82
2551 4021 2.397252 GTCGCGCGTAGTCGTACT 59.603 61.111 30.98 0.00 39.49 2.73
2552 4022 2.671345 ATCGTCGCGCGTAGTCGTAC 62.671 60.000 30.98 17.39 42.13 3.67
2553 4023 2.516589 ATCGTCGCGCGTAGTCGTA 61.517 57.895 30.98 17.77 42.13 3.43
2554 4024 3.857854 ATCGTCGCGCGTAGTCGT 61.858 61.111 30.98 16.03 42.13 4.34
2555 4025 3.368633 CATCGTCGCGCGTAGTCG 61.369 66.667 30.98 26.30 42.13 4.18
2556 4026 0.110956 TATCATCGTCGCGCGTAGTC 60.111 55.000 30.98 16.85 42.13 2.59
2564 4034 2.320367 GGAGTGTCATATCATCGTCGC 58.680 52.381 0.00 0.00 0.00 5.19
2568 4038 6.018751 ACAAAAATCGGAGTGTCATATCATCG 60.019 38.462 0.00 0.00 0.00 3.84
2627 4097 9.465985 GAAGAACAGCTACCTAAGTGTATATTC 57.534 37.037 0.00 0.00 0.00 1.75
2630 4100 7.068348 CCTGAAGAACAGCTACCTAAGTGTATA 59.932 40.741 0.00 0.00 44.52 1.47
2654 4127 2.350863 AATCAACCAGGGAGAGACCT 57.649 50.000 0.00 0.00 43.08 3.85
2655 4128 2.573915 AGAAATCAACCAGGGAGAGACC 59.426 50.000 0.00 0.00 38.08 3.85
2656 4129 3.261897 TCAGAAATCAACCAGGGAGAGAC 59.738 47.826 0.00 0.00 0.00 3.36
2657 4130 3.520696 TCAGAAATCAACCAGGGAGAGA 58.479 45.455 0.00 0.00 0.00 3.10
2658 4131 3.988976 TCAGAAATCAACCAGGGAGAG 57.011 47.619 0.00 0.00 0.00 3.20
2659 4132 4.722526 TTTCAGAAATCAACCAGGGAGA 57.277 40.909 0.00 0.00 0.00 3.71
2660 4133 7.466746 TTTATTTCAGAAATCAACCAGGGAG 57.533 36.000 11.87 0.00 32.38 4.30
2661 4134 7.525360 GCTTTTATTTCAGAAATCAACCAGGGA 60.525 37.037 11.87 0.00 32.38 4.20
2686 4159 2.482490 GGGCTCAATGATTTCCACATGC 60.482 50.000 0.00 0.00 0.00 4.06
2701 4174 0.323725 GGCTGGATCAAAAGGGCTCA 60.324 55.000 0.00 0.00 0.00 4.26
2704 4177 1.134610 CAATGGCTGGATCAAAAGGGC 60.135 52.381 0.00 0.00 0.00 5.19
2719 4192 5.831702 AATCTAAGAAAGAGCAGCAATGG 57.168 39.130 0.00 0.00 37.74 3.16
2737 4210 5.749109 CACGGAGAGAATTAACGCTAAATCT 59.251 40.000 0.00 0.00 31.20 2.40
2773 4246 0.099082 CGAGGTACCGCTTCTCAGTC 59.901 60.000 14.12 0.00 0.00 3.51
2818 4465 2.034878 TCCATTCTCTCATCTGGGTCG 58.965 52.381 0.00 0.00 0.00 4.79
2856 4542 0.739561 ATTCGGTAGCGAGAGTGACC 59.260 55.000 17.37 0.00 35.45 4.02
2961 4657 1.003233 ACGGAACCCCAGCTAAGAAAG 59.997 52.381 0.00 0.00 0.00 2.62
3000 4701 3.865745 CCAAATTGTCTGCTACCTCTACG 59.134 47.826 0.00 0.00 0.00 3.51
3001 4702 5.086104 TCCAAATTGTCTGCTACCTCTAC 57.914 43.478 0.00 0.00 0.00 2.59
3002 4703 5.248477 ACTTCCAAATTGTCTGCTACCTCTA 59.752 40.000 0.00 0.00 0.00 2.43
3003 4704 4.042187 ACTTCCAAATTGTCTGCTACCTCT 59.958 41.667 0.00 0.00 0.00 3.69
3053 4760 1.635844 TATCCTGCGTTGCGTGTAAG 58.364 50.000 0.00 0.00 0.00 2.34
3054 4761 1.996898 CTTATCCTGCGTTGCGTGTAA 59.003 47.619 0.00 0.00 0.00 2.41
3094 4801 0.909610 TGCAGAGACCGGGGAATTCT 60.910 55.000 6.32 0.00 0.00 2.40
3333 5045 4.020543 GGGAGATGGTAGCTCGAGATATT 58.979 47.826 18.75 3.43 33.19 1.28
3395 5107 2.184579 GGTCGCTACTCACCCAGC 59.815 66.667 0.00 0.00 0.00 4.85
3669 5381 5.885912 GGATAAGGCAATCAAACACCTCTTA 59.114 40.000 2.81 0.00 0.00 2.10


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

AutoCloner maintained by Alex Coulton.