Multiple sequence alignment - TraesCS7B01G454100

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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 TraesCS7B01G454100 chr7B 100.000 3375 0 0 1 3375 714738808 714742182 0.000000e+00 6233.0
1 TraesCS7B01G454100 chr7B 96.429 1792 53 8 947 2737 714759001 714760782 0.000000e+00 2944.0
2 TraesCS7B01G454100 chr7B 93.343 691 21 6 10 684 714758054 714758735 0.000000e+00 998.0
3 TraesCS7B01G454100 chr7B 99.543 219 1 0 701 919 714758791 714759009 1.890000e-107 399.0
4 TraesCS7B01G454100 chr7B 87.500 192 19 2 3184 3375 714761155 714761341 2.040000e-52 217.0
5 TraesCS7B01G454100 chr7B 77.105 380 43 23 2807 3181 714760778 714761118 2.680000e-41 180.0
6 TraesCS7B01G454100 chr7D 90.653 2311 126 41 492 2737 619200010 619202295 0.000000e+00 2988.0
7 TraesCS7B01G454100 chr7D 91.355 2140 114 38 492 2571 619230587 619232715 0.000000e+00 2861.0
8 TraesCS7B01G454100 chr7D 90.457 503 42 6 1 499 619198767 619199267 0.000000e+00 658.0
9 TraesCS7B01G454100 chr7D 90.000 310 31 0 2859 3168 619232852 619233161 5.250000e-108 401.0
10 TraesCS7B01G454100 chr7D 89.691 194 19 1 3182 3375 619202621 619202813 2.600000e-61 246.0
11 TraesCS7B01G454100 chr7D 89.908 109 7 3 3182 3288 619233207 619233313 1.630000e-28 137.0
12 TraesCS7B01G454100 chr7D 92.063 63 5 0 3034 3096 619202475 619202537 4.640000e-14 89.8
13 TraesCS7B01G454100 chr7A 90.395 2280 152 33 492 2737 713649085 713651331 0.000000e+00 2935.0
14 TraesCS7B01G454100 chr7A 89.991 2288 153 37 492 2737 713403758 713406011 0.000000e+00 2887.0
15 TraesCS7B01G454100 chr7A 89.912 2280 157 33 492 2731 713332349 713334595 0.000000e+00 2868.0
16 TraesCS7B01G454100 chr7A 89.714 2275 160 36 492 2731 713468387 713470622 0.000000e+00 2837.0
17 TraesCS7B01G454100 chr7A 89.557 2279 167 31 492 2731 713264426 713266672 0.000000e+00 2824.0
18 TraesCS7B01G454100 chr7A 92.517 1617 94 18 1122 2737 713614746 713616336 0.000000e+00 2290.0
19 TraesCS7B01G454100 chr7A 91.968 1631 97 18 1108 2731 713554744 713556347 0.000000e+00 2255.0
20 TraesCS7B01G454100 chr7A 91.660 1187 77 9 1552 2731 713527456 713528627 0.000000e+00 1624.0
21 TraesCS7B01G454100 chr7A 92.754 69 5 0 5 73 713332060 713332128 2.140000e-17 100.0
22 TraesCS7B01G454100 chr7A 92.754 69 5 0 5 73 713403469 713403537 2.140000e-17 100.0
23 TraesCS7B01G454100 chr7A 92.754 69 5 0 5 73 713468098 713468166 2.140000e-17 100.0
24 TraesCS7B01G454100 chr7A 91.304 69 6 0 5 73 713525859 713525927 9.970000e-16 95.3
25 TraesCS7B01G454100 chr7A 91.304 69 6 0 5 73 713648796 713648864 9.970000e-16 95.3
26 TraesCS7B01G454100 chrUn 79.710 276 42 7 913 1177 93249450 93249178 1.600000e-43 187.0


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 TraesCS7B01G454100 chr7B 714738808 714742182 3374 False 6233.00 6233 100.0000 1 3375 1 chr7B.!!$F1 3374
1 TraesCS7B01G454100 chr7B 714758054 714761341 3287 False 947.60 2944 90.7840 10 3375 5 chr7B.!!$F2 3365
2 TraesCS7B01G454100 chr7D 619230587 619233313 2726 False 1133.00 2861 90.4210 492 3288 3 chr7D.!!$F2 2796
3 TraesCS7B01G454100 chr7D 619198767 619202813 4046 False 995.45 2988 90.7160 1 3375 4 chr7D.!!$F1 3374
4 TraesCS7B01G454100 chr7A 713264426 713266672 2246 False 2824.00 2824 89.5570 492 2731 1 chr7A.!!$F1 2239
5 TraesCS7B01G454100 chr7A 713614746 713616336 1590 False 2290.00 2290 92.5170 1122 2737 1 chr7A.!!$F3 1615
6 TraesCS7B01G454100 chr7A 713554744 713556347 1603 False 2255.00 2255 91.9680 1108 2731 1 chr7A.!!$F2 1623
7 TraesCS7B01G454100 chr7A 713648796 713651331 2535 False 1515.15 2935 90.8495 5 2737 2 chr7A.!!$F8 2732
8 TraesCS7B01G454100 chr7A 713403469 713406011 2542 False 1493.50 2887 91.3725 5 2737 2 chr7A.!!$F5 2732
9 TraesCS7B01G454100 chr7A 713332060 713334595 2535 False 1484.00 2868 91.3330 5 2731 2 chr7A.!!$F4 2726
10 TraesCS7B01G454100 chr7A 713468098 713470622 2524 False 1468.50 2837 91.2340 5 2731 2 chr7A.!!$F6 2726
11 TraesCS7B01G454100 chr7A 713525859 713528627 2768 False 859.65 1624 91.4820 5 2731 2 chr7A.!!$F7 2726

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
582 1360 0.037326 GATGTGCCTTCGTCTCCACA 60.037 55.00 0.00 0.0 41.77 4.17 F
2076 3120 3.486474 CGCGCATGATGCAAATTAAATCA 59.514 39.13 18.47 0.0 45.36 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2285 3329 0.320374 CCAGCAGTTGTCGGGTAAGA 59.680 55.0 0.0 0.0 0.0 2.10 R
3244 4359 0.103937 GGAAGCATCTGTCTCTCCCG 59.896 60.0 0.0 0.0 0.0 5.14 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
61 62 1.977056 TCTGAGTGTGTGTACCTCGT 58.023 50.000 0.00 0.00 31.02 4.18
69 71 5.947443 AGTGTGTGTACCTCGTAATAACTC 58.053 41.667 0.00 0.00 0.00 3.01
93 95 7.262772 TCTTCGTTCTCTCAAAGTGTTTTAGA 58.737 34.615 0.00 0.00 0.00 2.10
120 122 3.042682 TGGTAAGGAGTGAAAGTGTGGA 58.957 45.455 0.00 0.00 0.00 4.02
179 182 6.601332 ACTAAGAAAAGTTTCACCATGGAGA 58.399 36.000 21.47 14.37 39.61 3.71
193 196 7.861629 TCACCATGGAGAAGTTAGATGTTTAT 58.138 34.615 21.47 0.00 0.00 1.40
213 216 9.871175 TGTTTATATTACCTCCTTTTATTCCCC 57.129 33.333 0.00 0.00 0.00 4.81
467 473 4.915667 CGATTTGTCGTCTCTCTTACAACA 59.084 41.667 0.00 0.00 31.92 3.33
489 495 4.792513 AAGAGCTTTGATCCAGGATCAT 57.207 40.909 29.52 16.78 46.52 2.45
565 1343 3.706594 TCTATCGTCTTTGCTCCCAAGAT 59.293 43.478 0.00 0.00 31.52 2.40
582 1360 0.037326 GATGTGCCTTCGTCTCCACA 60.037 55.000 0.00 0.00 41.77 4.17
2076 3120 3.486474 CGCGCATGATGCAAATTAAATCA 59.514 39.130 18.47 0.00 45.36 2.57
2078 3122 4.741185 GCGCATGATGCAAATTAAATCAGA 59.259 37.500 18.47 0.00 45.36 3.27
2285 3329 3.157750 AGAAGTTCTACTGGGACGAGT 57.842 47.619 2.75 0.00 0.00 4.18
2378 3422 2.485302 CGGGACTATGTTCCATGATGCA 60.485 50.000 0.00 0.00 37.40 3.96
2382 3426 5.769662 GGGACTATGTTCCATGATGCATTTA 59.230 40.000 0.00 0.00 37.40 1.40
2421 3465 0.675083 TCCATTGCTTGTTGGTGCAG 59.325 50.000 0.00 0.00 40.46 4.41
2430 3474 4.824537 TGCTTGTTGGTGCAGTATCTTTTA 59.175 37.500 0.00 0.00 34.84 1.52
2488 3533 8.996024 TTTAGGAAGAAACTTTTGAGGTTTTG 57.004 30.769 0.00 0.00 37.07 2.44
2491 3536 7.450074 AGGAAGAAACTTTTGAGGTTTTGTTT 58.550 30.769 0.00 0.00 37.07 2.83
2526 3571 4.134563 TGAACTTTGGTCTAGTTGCCTTC 58.865 43.478 0.00 0.00 36.04 3.46
2541 3586 7.346751 AGTTGCCTTCATGTTTTAAGAAAGA 57.653 32.000 0.00 0.00 0.00 2.52
2543 3588 9.077885 AGTTGCCTTCATGTTTTAAGAAAGATA 57.922 29.630 0.00 0.00 28.64 1.98
2547 3592 8.184848 GCCTTCATGTTTTAAGAAAGATAGTCC 58.815 37.037 0.00 0.00 28.64 3.85
2573 3618 9.186323 CTATTATATATGGTGAATCTAGCGTGC 57.814 37.037 0.00 0.00 0.00 5.34
2590 3635 3.201290 CGTGCATCTATTTGAGGAGCTT 58.799 45.455 0.00 0.00 0.00 3.74
2609 3654 0.682532 TGTGGGAGTTGCAGCAAACA 60.683 50.000 10.11 7.48 32.21 2.83
2610 3655 0.459489 GTGGGAGTTGCAGCAAACAA 59.541 50.000 10.11 0.00 32.21 2.83
2624 3669 2.204237 CAAACAAAGAAGGTGCTTGGC 58.796 47.619 0.00 0.00 0.00 4.52
2629 3674 3.084039 CAAAGAAGGTGCTTGGCTGATA 58.916 45.455 0.00 0.00 0.00 2.15
2630 3675 2.706339 AGAAGGTGCTTGGCTGATAG 57.294 50.000 0.00 0.00 0.00 2.08
2631 3676 2.191400 AGAAGGTGCTTGGCTGATAGA 58.809 47.619 0.00 0.00 0.00 1.98
2632 3677 2.170187 AGAAGGTGCTTGGCTGATAGAG 59.830 50.000 0.00 0.00 0.00 2.43
2633 3678 1.577736 AGGTGCTTGGCTGATAGAGT 58.422 50.000 0.00 0.00 0.00 3.24
2634 3679 1.209019 AGGTGCTTGGCTGATAGAGTG 59.791 52.381 0.00 0.00 0.00 3.51
2635 3680 1.208052 GGTGCTTGGCTGATAGAGTGA 59.792 52.381 0.00 0.00 0.00 3.41
2636 3681 2.158842 GGTGCTTGGCTGATAGAGTGAT 60.159 50.000 0.00 0.00 0.00 3.06
2637 3682 3.070159 GGTGCTTGGCTGATAGAGTGATA 59.930 47.826 0.00 0.00 0.00 2.15
2649 3694 8.364142 GCTGATAGAGTGATAGGTTCTATTTGT 58.636 37.037 0.00 0.00 35.02 2.83
2705 3752 2.325583 TTGGTCTCAAAGACTGCGTT 57.674 45.000 7.02 0.00 44.46 4.84
2755 3802 2.675519 CATCTCGTGCTGCTCTTCC 58.324 57.895 0.00 0.00 0.00 3.46
2756 3803 0.809241 CATCTCGTGCTGCTCTTCCC 60.809 60.000 0.00 0.00 0.00 3.97
2758 3805 1.447489 CTCGTGCTGCTCTTCCCTG 60.447 63.158 0.00 0.00 0.00 4.45
2759 3806 3.123620 CGTGCTGCTCTTCCCTGC 61.124 66.667 0.00 0.00 0.00 4.85
2762 3809 4.774503 GCTGCTCTTCCCTGCGCT 62.775 66.667 9.73 0.00 0.00 5.92
2763 3810 2.818714 CTGCTCTTCCCTGCGCTG 60.819 66.667 9.73 8.47 0.00 5.18
2790 3837 3.055719 CCTCGCGCATGGTTGGTT 61.056 61.111 8.75 0.00 0.00 3.67
2791 3838 2.625823 CCTCGCGCATGGTTGGTTT 61.626 57.895 8.75 0.00 0.00 3.27
2792 3839 1.442520 CTCGCGCATGGTTGGTTTG 60.443 57.895 8.75 0.00 0.00 2.93
2793 3840 3.105157 CGCGCATGGTTGGTTTGC 61.105 61.111 8.75 0.00 0.00 3.68
2794 3841 2.738139 GCGCATGGTTGGTTTGCC 60.738 61.111 0.30 0.00 32.76 4.52
2795 3842 2.430582 CGCATGGTTGGTTTGCCG 60.431 61.111 0.00 0.00 37.67 5.69
2796 3843 2.733945 GCATGGTTGGTTTGCCGT 59.266 55.556 0.00 0.00 37.67 5.68
2797 3844 1.068921 GCATGGTTGGTTTGCCGTT 59.931 52.632 0.00 0.00 37.67 4.44
2798 3845 1.220817 GCATGGTTGGTTTGCCGTTG 61.221 55.000 0.00 0.00 37.67 4.10
2799 3846 1.068921 ATGGTTGGTTTGCCGTTGC 59.931 52.632 0.00 0.00 37.67 4.17
2856 3903 4.666253 GGGTGCCAAGCCAGCTCA 62.666 66.667 0.00 0.00 43.91 4.26
2857 3904 2.362120 GGTGCCAAGCCAGCTCAT 60.362 61.111 0.00 0.00 0.00 2.90
2881 3928 1.263217 GACGTGGCAAAGACGACAAAT 59.737 47.619 0.00 0.00 39.21 2.32
2902 3949 2.588596 CACACTGGCACTCGCACA 60.589 61.111 0.00 0.00 41.24 4.57
2909 3956 2.280119 GCACTCGCACACCAGACA 60.280 61.111 0.00 0.00 38.36 3.41
2917 3964 0.602638 GCACACCAGACATTCGTCCA 60.603 55.000 0.00 0.00 43.73 4.02
2929 3976 2.048222 CGTCCAGCTTTCTCGGCA 60.048 61.111 0.00 0.00 0.00 5.69
2937 3984 3.067106 CAGCTTTCTCGGCACTTCTTTA 58.933 45.455 0.00 0.00 0.00 1.85
2942 4001 3.040147 TCTCGGCACTTCTTTAAGGTG 57.960 47.619 0.00 0.00 37.01 4.00
2943 4002 2.367567 TCTCGGCACTTCTTTAAGGTGT 59.632 45.455 3.96 0.00 37.01 4.16
2944 4003 3.139077 CTCGGCACTTCTTTAAGGTGTT 58.861 45.455 3.96 0.00 37.01 3.32
2945 4004 3.547746 TCGGCACTTCTTTAAGGTGTTT 58.452 40.909 3.96 0.00 37.01 2.83
2946 4005 3.314080 TCGGCACTTCTTTAAGGTGTTTG 59.686 43.478 3.96 0.00 37.01 2.93
2947 4006 3.066203 CGGCACTTCTTTAAGGTGTTTGT 59.934 43.478 3.96 0.00 37.01 2.83
2948 4007 4.439563 CGGCACTTCTTTAAGGTGTTTGTT 60.440 41.667 3.96 0.00 37.01 2.83
2949 4008 5.041287 GGCACTTCTTTAAGGTGTTTGTTC 58.959 41.667 3.96 0.00 37.01 3.18
2950 4009 5.393678 GGCACTTCTTTAAGGTGTTTGTTCA 60.394 40.000 3.96 0.00 37.01 3.18
2951 4010 5.743872 GCACTTCTTTAAGGTGTTTGTTCAG 59.256 40.000 3.96 0.00 37.01 3.02
2952 4011 6.265577 CACTTCTTTAAGGTGTTTGTTCAGG 58.734 40.000 0.00 0.00 37.01 3.86
2953 4012 5.949952 ACTTCTTTAAGGTGTTTGTTCAGGT 59.050 36.000 0.00 0.00 37.01 4.00
2957 4016 6.317893 TCTTTAAGGTGTTTGTTCAGGTTCTC 59.682 38.462 0.00 0.00 0.00 2.87
2959 4018 2.509964 AGGTGTTTGTTCAGGTTCTCCT 59.490 45.455 0.00 0.00 46.37 3.69
2975 4034 0.981183 TCCTTTCACCATGTACGCCT 59.019 50.000 0.00 0.00 0.00 5.52
3014 4073 4.032104 GTGTTTATGTCGTCGTTCCCATAC 59.968 45.833 0.00 0.00 0.00 2.39
3015 4074 2.761392 TATGTCGTCGTTCCCATACG 57.239 50.000 0.00 0.00 42.68 3.06
3016 4075 0.813184 ATGTCGTCGTTCCCATACGT 59.187 50.000 0.00 0.00 42.01 3.57
3017 4076 0.168788 TGTCGTCGTTCCCATACGTC 59.831 55.000 0.00 0.00 42.01 4.34
3018 4077 0.449388 GTCGTCGTTCCCATACGTCT 59.551 55.000 0.00 0.00 42.01 4.18
3019 4078 1.135575 GTCGTCGTTCCCATACGTCTT 60.136 52.381 0.00 0.00 42.01 3.01
3020 4079 1.135603 TCGTCGTTCCCATACGTCTTG 60.136 52.381 0.00 0.00 42.01 3.02
3021 4080 1.401931 CGTCGTTCCCATACGTCTTGT 60.402 52.381 0.00 0.00 42.01 3.16
3022 4081 2.257034 GTCGTTCCCATACGTCTTGTC 58.743 52.381 0.00 0.00 42.01 3.18
3023 4082 1.135603 TCGTTCCCATACGTCTTGTCG 60.136 52.381 0.00 0.00 42.01 4.35
3024 4083 1.401931 CGTTCCCATACGTCTTGTCGT 60.402 52.381 0.00 0.00 45.97 4.34
3026 4085 3.670359 CGTTCCCATACGTCTTGTCGTAA 60.670 47.826 0.00 0.00 46.63 3.18
3027 4086 3.492421 TCCCATACGTCTTGTCGTAAC 57.508 47.619 0.00 0.00 46.63 2.50
3028 4087 2.819019 TCCCATACGTCTTGTCGTAACA 59.181 45.455 0.00 0.00 46.63 2.41
3029 4088 3.119743 TCCCATACGTCTTGTCGTAACAG 60.120 47.826 0.00 0.00 46.63 3.16
3030 4089 3.366679 CCCATACGTCTTGTCGTAACAGT 60.367 47.826 0.00 0.00 46.63 3.55
3031 4090 4.142622 CCCATACGTCTTGTCGTAACAGTA 60.143 45.833 0.00 0.00 46.63 2.74
3032 4091 5.026462 CCATACGTCTTGTCGTAACAGTAG 58.974 45.833 0.00 0.00 46.63 2.57
3070 4148 4.771127 GGTCGTGCCTGTGAGAAA 57.229 55.556 0.00 0.00 0.00 2.52
3071 4149 2.235546 GGTCGTGCCTGTGAGAAAC 58.764 57.895 0.00 0.00 0.00 2.78
3138 4220 6.092533 GGTATTTGTTTCAATTCCAATGGCAG 59.907 38.462 0.00 0.00 0.00 4.85
3141 4223 0.903942 TTCAATTCCAATGGCAGGCC 59.096 50.000 2.62 2.62 0.00 5.19
3171 4253 2.604046 ACAAGCTAGGTCTTATGCCG 57.396 50.000 0.00 0.00 0.00 5.69
3177 4259 2.231478 GCTAGGTCTTATGCCGCAGATA 59.769 50.000 0.00 0.00 0.00 1.98
3180 4262 4.357918 AGGTCTTATGCCGCAGATATTT 57.642 40.909 0.00 0.00 0.00 1.40
3221 4336 6.754675 GCTTGGTTTCTTTTACTTTGCTGTTA 59.245 34.615 0.00 0.00 0.00 2.41
3223 4338 6.259638 TGGTTTCTTTTACTTTGCTGTTACG 58.740 36.000 0.00 0.00 0.00 3.18
3230 4345 8.492748 TCTTTTACTTTGCTGTTACGAGTATTG 58.507 33.333 0.00 0.00 0.00 1.90
3244 4359 4.694037 ACGAGTATTGGGAAGCAAGTTAAC 59.306 41.667 0.00 0.00 0.00 2.01
3253 4368 2.745515 AGCAAGTTAACGGGAGAGAC 57.254 50.000 0.00 0.00 0.00 3.36
3262 4377 0.820871 ACGGGAGAGACAGATGCTTC 59.179 55.000 0.00 0.00 0.00 3.86
3302 4417 2.166459 TGATCACTTCAAGCTAGTCCGG 59.834 50.000 0.00 0.00 0.00 5.14
3329 4444 5.319043 TGTTGGTGGATCCTAAAGAAAGT 57.681 39.130 14.23 0.00 37.07 2.66
3334 4449 8.803235 GTTGGTGGATCCTAAAGAAAGTAAAAT 58.197 33.333 14.23 0.00 37.07 1.82
3339 4454 9.768215 TGGATCCTAAAGAAAGTAAAATGGAAT 57.232 29.630 14.23 0.00 0.00 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 3.634504 TCCCAAATGCAATATGACTGCT 58.365 40.909 0.00 0.00 40.59 4.24
61 62 8.358148 ACACTTTGAGAGAACGAAGAGTTATTA 58.642 33.333 0.00 0.00 44.35 0.98
69 71 7.464830 TCTAAAACACTTTGAGAGAACGAAG 57.535 36.000 0.00 0.00 37.32 3.79
93 95 4.460382 CACTTTCACTCCTTACCATGCATT 59.540 41.667 0.00 0.00 0.00 3.56
127 130 4.223556 TGTGTTTCAAGACAACCTGGTA 57.776 40.909 0.00 0.00 0.00 3.25
213 216 5.302357 GGAGAAAACTCCAGCACATAAAG 57.698 43.478 10.86 0.00 42.86 1.85
467 473 4.581309 TGATCCTGGATCAAAGCTCTTT 57.419 40.909 31.80 0.00 44.70 2.52
489 495 7.046862 CGACAGATAGATAGAATCGTCGTTA 57.953 40.000 15.52 0.00 40.81 3.18
550 1326 1.538047 GCACATCTTGGGAGCAAAGA 58.462 50.000 0.00 0.00 38.01 2.52
551 1327 0.529378 GGCACATCTTGGGAGCAAAG 59.471 55.000 0.00 0.00 0.00 2.77
552 1328 0.112995 AGGCACATCTTGGGAGCAAA 59.887 50.000 0.00 0.00 0.00 3.68
554 1330 0.322816 GAAGGCACATCTTGGGAGCA 60.323 55.000 0.00 0.00 0.00 4.26
555 1331 1.372087 CGAAGGCACATCTTGGGAGC 61.372 60.000 0.00 0.00 0.00 4.70
565 1343 0.396435 AATGTGGAGACGAAGGCACA 59.604 50.000 0.00 0.00 0.00 4.57
2101 3145 7.362056 GCATACACATAGTTCCAACAGATGTTT 60.362 37.037 0.00 5.05 36.32 2.83
2285 3329 0.320374 CCAGCAGTTGTCGGGTAAGA 59.680 55.000 0.00 0.00 0.00 2.10
2378 3422 9.708092 GGATCGAGCTAAACCTAAACTATAAAT 57.292 33.333 0.00 0.00 0.00 1.40
2382 3426 6.726490 TGGATCGAGCTAAACCTAAACTAT 57.274 37.500 0.00 0.00 0.00 2.12
2478 3522 5.474825 GAACACAAGGAAACAAAACCTCAA 58.525 37.500 0.00 0.00 35.25 3.02
2547 3592 9.186323 GCACGCTAGATTCACCATATATAATAG 57.814 37.037 0.00 0.00 0.00 1.73
2550 3595 6.930731 TGCACGCTAGATTCACCATATATAA 58.069 36.000 0.00 0.00 0.00 0.98
2573 3618 3.881688 CCCACAAGCTCCTCAAATAGATG 59.118 47.826 0.00 0.00 0.00 2.90
2590 3635 0.682532 TGTTTGCTGCAACTCCCACA 60.683 50.000 15.72 13.30 0.00 4.17
2609 3654 2.299326 ATCAGCCAAGCACCTTCTTT 57.701 45.000 0.00 0.00 0.00 2.52
2610 3655 2.573462 TCTATCAGCCAAGCACCTTCTT 59.427 45.455 0.00 0.00 0.00 2.52
2624 3669 9.689976 CACAAATAGAACCTATCACTCTATCAG 57.310 37.037 0.00 0.00 32.44 2.90
2629 3674 7.482169 TGACACAAATAGAACCTATCACTCT 57.518 36.000 0.00 0.00 0.00 3.24
2630 3675 8.035394 TCTTGACACAAATAGAACCTATCACTC 58.965 37.037 0.00 0.00 0.00 3.51
2631 3676 7.907389 TCTTGACACAAATAGAACCTATCACT 58.093 34.615 0.00 0.00 0.00 3.41
2632 3677 8.723942 ATCTTGACACAAATAGAACCTATCAC 57.276 34.615 0.00 0.00 0.00 3.06
2649 3694 9.408648 TGCGATCCTATATATCTAATCTTGACA 57.591 33.333 0.00 0.00 0.00 3.58
2705 3752 4.418392 GAGCGTTACCTCAATCGACTAAA 58.582 43.478 0.00 0.00 0.00 1.85
2739 3786 1.607756 AGGGAAGAGCAGCACGAGA 60.608 57.895 0.00 0.00 0.00 4.04
2773 3820 2.625823 AAACCAACCATGCGCGAGG 61.626 57.895 12.10 15.52 0.00 4.63
2774 3821 1.442520 CAAACCAACCATGCGCGAG 60.443 57.895 12.10 0.00 0.00 5.03
2775 3822 2.642129 CAAACCAACCATGCGCGA 59.358 55.556 12.10 0.00 0.00 5.87
2776 3823 3.105157 GCAAACCAACCATGCGCG 61.105 61.111 0.00 0.00 0.00 6.86
2777 3824 2.738139 GGCAAACCAACCATGCGC 60.738 61.111 0.00 0.00 40.94 6.09
2778 3825 2.430582 CGGCAAACCAACCATGCG 60.431 61.111 0.00 0.00 40.94 4.73
2779 3826 1.068921 AACGGCAAACCAACCATGC 59.931 52.632 0.00 0.00 39.33 4.06
2780 3827 1.220817 GCAACGGCAAACCAACCATG 61.221 55.000 0.00 0.00 40.72 3.66
2781 3828 1.068921 GCAACGGCAAACCAACCAT 59.931 52.632 0.00 0.00 40.72 3.55
2782 3829 2.496817 GCAACGGCAAACCAACCA 59.503 55.556 0.00 0.00 40.72 3.67
2796 3843 4.610714 TACCGCCACGCACTGCAA 62.611 61.111 1.11 0.00 0.00 4.08
2807 3854 4.692475 AACACCCGTGCTACCGCC 62.692 66.667 0.00 0.00 34.43 6.13
2808 3855 2.667199 AAACACCCGTGCTACCGC 60.667 61.111 0.00 0.00 0.00 5.68
2809 3856 1.301087 TCAAACACCCGTGCTACCG 60.301 57.895 0.00 0.00 0.00 4.02
2810 3857 0.533308 TGTCAAACACCCGTGCTACC 60.533 55.000 0.00 0.00 0.00 3.18
2831 3878 3.233507 CTGGCTTGGCACCCATAATATT 58.766 45.455 6.53 0.00 31.53 1.28
2833 3880 1.753847 GCTGGCTTGGCACCCATAATA 60.754 52.381 6.53 0.00 31.53 0.98
2836 3883 2.044053 GCTGGCTTGGCACCCATA 60.044 61.111 6.53 0.00 31.53 2.74
2855 3902 1.721489 CGTCTTTGCCACGTCGAAATG 60.721 52.381 0.00 0.00 32.41 2.32
2856 3903 0.511221 CGTCTTTGCCACGTCGAAAT 59.489 50.000 0.00 0.00 32.41 2.17
2857 3904 0.528033 TCGTCTTTGCCACGTCGAAA 60.528 50.000 0.00 0.00 38.45 3.46
2881 3928 2.049526 CGAGTGCCAGTGTGCGTA 60.050 61.111 0.00 0.00 0.00 4.42
2902 3949 0.687354 AAGCTGGACGAATGTCTGGT 59.313 50.000 0.00 0.00 44.83 4.00
2909 3956 0.741221 GCCGAGAAAGCTGGACGAAT 60.741 55.000 0.00 0.00 0.00 3.34
2917 3964 2.262423 AAAGAAGTGCCGAGAAAGCT 57.738 45.000 0.00 0.00 0.00 3.74
2929 3976 5.949952 ACCTGAACAAACACCTTAAAGAAGT 59.050 36.000 0.00 0.00 0.00 3.01
2937 3984 3.053619 AGGAGAACCTGAACAAACACCTT 60.054 43.478 0.00 0.00 45.92 3.50
2951 4010 3.000727 CGTACATGGTGAAAGGAGAACC 58.999 50.000 0.00 0.00 34.38 3.62
2952 4011 2.415512 GCGTACATGGTGAAAGGAGAAC 59.584 50.000 0.00 0.00 0.00 3.01
2953 4012 2.614481 GGCGTACATGGTGAAAGGAGAA 60.614 50.000 0.00 0.00 0.00 2.87
2957 4016 1.369625 GAGGCGTACATGGTGAAAGG 58.630 55.000 0.00 0.00 0.00 3.11
2959 4018 0.390603 CCGAGGCGTACATGGTGAAA 60.391 55.000 0.00 0.00 0.00 2.69
3014 4073 2.095364 AGGCTACTGTTACGACAAGACG 60.095 50.000 0.00 0.00 34.85 4.18
3015 4074 3.243336 CAGGCTACTGTTACGACAAGAC 58.757 50.000 0.00 0.00 39.92 3.01
3016 4075 3.570926 CAGGCTACTGTTACGACAAGA 57.429 47.619 0.00 0.00 39.92 3.02
3028 4087 4.094442 GTGCGCTTTTAATTACAGGCTACT 59.906 41.667 9.73 0.00 0.00 2.57
3029 4088 4.142773 TGTGCGCTTTTAATTACAGGCTAC 60.143 41.667 9.73 4.35 0.00 3.58
3030 4089 4.004314 TGTGCGCTTTTAATTACAGGCTA 58.996 39.130 9.73 0.00 0.00 3.93
3031 4090 2.817258 TGTGCGCTTTTAATTACAGGCT 59.183 40.909 9.73 0.00 0.00 4.58
3032 4091 3.171277 CTGTGCGCTTTTAATTACAGGC 58.829 45.455 9.73 0.00 33.69 4.85
3070 4148 1.676384 GCAGAGAGCCAAGTGGAGT 59.324 57.895 0.18 0.00 37.39 3.85
3071 4149 4.613929 GCAGAGAGCCAAGTGGAG 57.386 61.111 0.18 0.00 37.39 3.86
3138 4220 0.811281 GCTTGTTACAGACATGGGCC 59.189 55.000 0.00 0.00 38.26 5.80
3141 4223 4.081420 AGACCTAGCTTGTTACAGACATGG 60.081 45.833 0.00 0.00 38.26 3.66
3221 4336 3.418684 AACTTGCTTCCCAATACTCGT 57.581 42.857 0.00 0.00 31.91 4.18
3223 4338 4.094442 CCGTTAACTTGCTTCCCAATACTC 59.906 45.833 3.71 0.00 31.91 2.59
3230 4345 1.002773 TCTCCCGTTAACTTGCTTCCC 59.997 52.381 3.71 0.00 0.00 3.97
3244 4359 0.103937 GGAAGCATCTGTCTCTCCCG 59.896 60.000 0.00 0.00 0.00 5.14
3262 4377 6.264067 GTGATCAATATTTCCTTCTTCCCAGG 59.736 42.308 0.00 0.00 0.00 4.45
3302 4417 5.376625 TCTTTAGGATCCACCAACATATGC 58.623 41.667 15.82 0.00 42.04 3.14
3334 4449 9.349713 GTCCCAATTCAACTATAACATATTCCA 57.650 33.333 0.00 0.00 0.00 3.53
3344 4459 7.578571 GCACCATTTTGTCCCAATTCAACTATA 60.579 37.037 0.00 0.00 0.00 1.31
3345 4460 6.700352 CACCATTTTGTCCCAATTCAACTAT 58.300 36.000 0.00 0.00 0.00 2.12


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

AutoCloner maintained by Alex Coulton.