Multiple sequence alignment - TraesCS4A01G487300

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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 TraesCS4A01G487300 chr4A 100.000 6867 0 0 1 6867 739804544 739811410 0.000000e+00 12682.0
1 TraesCS4A01G487300 chr4A 96.760 3117 98 2 3526 6642 740868269 740865156 0.000000e+00 5193.0
2 TraesCS4A01G487300 chr4A 94.223 3185 177 6 3685 6867 733927517 733924338 0.000000e+00 4855.0
3 TraesCS4A01G487300 chr4A 95.852 2941 90 11 1 2933 740871193 740868277 0.000000e+00 4726.0
4 TraesCS4A01G487300 chr4A 93.892 2816 162 4 3675 6482 739832932 739835745 0.000000e+00 4239.0
5 TraesCS4A01G487300 chr4A 93.703 2382 140 6 3675 6054 740061679 740059306 0.000000e+00 3559.0
6 TraesCS4A01G487300 chr4A 81.460 2028 245 70 715 2689 739830420 739832369 0.000000e+00 1541.0
7 TraesCS4A01G487300 chr4A 90.883 1031 91 1 1660 2687 740063272 740062242 0.000000e+00 1380.0
8 TraesCS4A01G487300 chr4A 90.601 1032 93 2 1660 2687 742271668 742270637 0.000000e+00 1365.0
9 TraesCS4A01G487300 chr4A 92.123 584 38 3 5971 6548 742267818 742267237 0.000000e+00 817.0
10 TraesCS4A01G487300 chr4A 91.254 343 29 1 6526 6867 742078164 742078506 3.750000e-127 466.0
11 TraesCS4A01G487300 chr4A 90.698 344 30 2 6526 6867 739684182 739684525 2.260000e-124 457.0
12 TraesCS4A01G487300 chr4A 91.304 161 13 1 6614 6774 742267232 742267073 1.160000e-52 219.0
13 TraesCS4A01G487300 chr7D 95.708 2982 94 9 3005 5971 3439813 3442775 0.000000e+00 4767.0
14 TraesCS4A01G487300 chr7D 92.607 2746 123 44 1 2730 3436895 3439576 0.000000e+00 3873.0
15 TraesCS4A01G487300 chr7D 93.758 2435 145 4 3675 6109 3699363 3701790 0.000000e+00 3648.0
16 TraesCS4A01G487300 chr7D 92.943 1077 75 1 1656 2732 3697386 3698461 0.000000e+00 1567.0
17 TraesCS4A01G487300 chr7D 93.211 545 24 2 2790 3321 3698458 3699002 0.000000e+00 789.0
18 TraesCS4A01G487300 chr7D 95.614 342 10 4 3353 3690 3699000 3699340 1.680000e-150 544.0
19 TraesCS4A01G487300 chr7D 91.613 310 21 4 6562 6867 3443415 3443723 2.290000e-114 424.0
20 TraesCS4A01G487300 chr7D 81.073 354 46 13 111 461 3696393 3696728 5.280000e-66 263.0
21 TraesCS4A01G487300 chr7D 80.070 286 37 11 660 930 3696895 3697175 1.950000e-45 195.0
22 TraesCS4A01G487300 chr7D 90.000 140 9 3 2842 2976 3439678 3439817 7.080000e-40 176.0
23 TraesCS4A01G487300 chr7A 94.764 2731 131 5 4081 6802 2552380 2549653 0.000000e+00 4241.0
24 TraesCS4A01G487300 chr7A 90.212 3157 257 30 3683 6800 3381228 3384371 0.000000e+00 4071.0
25 TraesCS4A01G487300 chr7A 94.090 2589 143 9 4093 6676 3001956 2999373 0.000000e+00 3925.0
26 TraesCS4A01G487300 chr7A 96.005 2303 86 2 436 2732 3005590 3003288 0.000000e+00 3738.0
27 TraesCS4A01G487300 chr7A 91.162 1041 88 2 1656 2696 3379601 3380637 0.000000e+00 1410.0
28 TraesCS4A01G487300 chr7A 89.504 1029 104 2 1662 2686 2554210 2553182 0.000000e+00 1299.0
29 TraesCS4A01G487300 chr7A 86.906 947 66 17 2790 3690 3003291 3002357 0.000000e+00 1009.0
30 TraesCS4A01G487300 chr7A 83.090 958 97 30 2790 3690 3581991 3582940 0.000000e+00 811.0
31 TraesCS4A01G487300 chr7A 85.824 649 50 14 6134 6774 2848154 2847540 0.000000e+00 651.0
32 TraesCS4A01G487300 chr7A 89.529 382 31 4 1 382 3005968 3005596 6.230000e-130 475.0
33 TraesCS4A01G487300 chr7A 88.978 372 41 0 3675 4046 2849729 2849358 1.750000e-125 460.0
34 TraesCS4A01G487300 chr7A 89.216 102 4 3 6706 6800 2999375 2999274 3.360000e-23 121.0
35 TraesCS4A01G487300 chr7A 89.394 66 6 1 2724 2788 75869354 75869289 1.590000e-11 82.4
36 TraesCS4A01G487300 chr6A 95.238 63 3 0 3349 3411 18036750 18036812 4.380000e-17 100.0
37 TraesCS4A01G487300 chr2B 92.063 63 4 1 2727 2788 140886207 140886269 3.410000e-13 87.9
38 TraesCS4A01G487300 chr2B 85.366 82 9 3 2708 2788 250686561 250686482 1.590000e-11 82.4
39 TraesCS4A01G487300 chr2B 89.394 66 5 2 2717 2781 694052138 694052202 1.590000e-11 82.4
40 TraesCS4A01G487300 chr3B 90.769 65 4 2 2725 2788 689513368 689513431 1.230000e-12 86.1
41 TraesCS4A01G487300 chr7B 87.671 73 6 3 2719 2788 248218319 248218391 1.590000e-11 82.4
42 TraesCS4A01G487300 chr6B 86.076 79 7 4 2715 2792 663535682 663535757 1.590000e-11 82.4
43 TraesCS4A01G487300 chr2D 86.842 76 4 5 2716 2788 368946145 368946073 5.710000e-11 80.5


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 TraesCS4A01G487300 chr4A 739804544 739811410 6866 False 12682.000000 12682 100.000000 1 6867 1 chr4A.!!$F2 6866
1 TraesCS4A01G487300 chr4A 740865156 740871193 6037 True 4959.500000 5193 96.306000 1 6642 2 chr4A.!!$R3 6641
2 TraesCS4A01G487300 chr4A 733924338 733927517 3179 True 4855.000000 4855 94.223000 3685 6867 1 chr4A.!!$R1 3182
3 TraesCS4A01G487300 chr4A 739830420 739835745 5325 False 2890.000000 4239 87.676000 715 6482 2 chr4A.!!$F4 5767
4 TraesCS4A01G487300 chr4A 740059306 740063272 3966 True 2469.500000 3559 92.293000 1660 6054 2 chr4A.!!$R2 4394
5 TraesCS4A01G487300 chr4A 742267073 742271668 4595 True 800.333333 1365 91.342667 1660 6774 3 chr4A.!!$R4 5114
6 TraesCS4A01G487300 chr7D 3436895 3443723 6828 False 2310.000000 4767 92.482000 1 6867 4 chr7D.!!$F1 6866
7 TraesCS4A01G487300 chr7D 3696393 3701790 5397 False 1167.666667 3648 89.444833 111 6109 6 chr7D.!!$F2 5998
8 TraesCS4A01G487300 chr7A 2549653 2554210 4557 True 2770.000000 4241 92.134000 1662 6802 2 chr7A.!!$R2 5140
9 TraesCS4A01G487300 chr7A 3379601 3384371 4770 False 2740.500000 4071 90.687000 1656 6800 2 chr7A.!!$F2 5144
10 TraesCS4A01G487300 chr7A 2999274 3005968 6694 True 1853.600000 3925 91.149200 1 6800 5 chr7A.!!$R4 6799
11 TraesCS4A01G487300 chr7A 3581991 3582940 949 False 811.000000 811 83.090000 2790 3690 1 chr7A.!!$F1 900
12 TraesCS4A01G487300 chr7A 2847540 2849729 2189 True 555.500000 651 87.401000 3675 6774 2 chr7A.!!$R3 3099

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
947 1036 0.752054 CTTTTTGGCAAGCTGGGTCA 59.248 50.000 0.00 0.0 0.00 4.02 F
1602 1742 0.102300 GCAACAACAACAGGGGACAC 59.898 55.000 0.00 0.0 0.00 3.67 F
1950 2094 0.787084 TCCCTCAAGACTCCCTCAGT 59.213 55.000 0.00 0.0 38.45 3.41 F
2560 2707 1.337167 TGTCAATGCTCTCTGGTCACG 60.337 52.381 0.00 0.0 0.00 4.35 F
3428 4085 0.595095 CAACCAGAAAGCCTGAGCAC 59.405 55.000 0.00 0.0 45.78 4.40 F
5156 5942 1.117994 TCATCAGCTGACTGGGCTAG 58.882 55.000 20.97 0.0 44.59 3.42 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2560 2707 1.519898 CATCATTGCTTTGCGGCCC 60.520 57.895 0.00 0.00 0.00 5.80 R
3340 3997 0.041400 CGATGCACGCTTTTGTGACA 60.041 50.000 0.00 0.00 42.55 3.58 R
3395 4052 0.681564 TGGTTGTTCGCCCTTTGTGT 60.682 50.000 0.00 0.00 0.00 3.72 R
3506 4194 1.206132 TGGTGTAACGGGCTAGACATG 59.794 52.381 0.00 0.00 38.12 3.21 R
5317 6109 1.160137 GGCCGATGATGTATCTTGGC 58.840 55.000 11.52 11.52 35.51 4.52 R
6025 6819 0.598562 ACAGAGTCAGCAGTACCACG 59.401 55.000 0.00 0.00 0.00 4.94 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
291 292 6.341316 TCGAAGTAATCAAGAGCATAGCTTT 58.659 36.000 0.00 0.00 39.88 3.51
382 384 5.771153 TCTTCAACATTGATTTCACAGCA 57.229 34.783 0.00 0.00 37.00 4.41
383 385 5.765176 TCTTCAACATTGATTTCACAGCAG 58.235 37.500 0.00 0.00 37.00 4.24
384 386 3.904571 TCAACATTGATTTCACAGCAGC 58.095 40.909 0.00 0.00 31.01 5.25
457 460 2.550606 GTGTCAGTTTGCGGGATAACAA 59.449 45.455 0.00 0.00 0.00 2.83
465 468 3.502191 TGCGGGATAACAAAATGAAGC 57.498 42.857 0.00 0.00 0.00 3.86
497 500 2.082140 TAGCCGGCCAGATCTTCTAA 57.918 50.000 26.15 0.00 0.00 2.10
498 501 0.755686 AGCCGGCCAGATCTTCTAAG 59.244 55.000 26.15 0.00 0.00 2.18
625 631 6.476053 GGGACGATTTAGTACTCACAAGAATC 59.524 42.308 0.00 1.02 0.00 2.52
827 909 6.441088 AAGGGAAGTGAACTCTGTCTATTT 57.559 37.500 0.00 0.00 0.00 1.40
947 1036 0.752054 CTTTTTGGCAAGCTGGGTCA 59.248 50.000 0.00 0.00 0.00 4.02
1067 1159 1.529010 CCAGTTTGCAGGTGCCTCA 60.529 57.895 0.00 0.00 41.18 3.86
1070 1162 1.741706 CAGTTTGCAGGTGCCTCATAG 59.258 52.381 0.00 0.00 41.18 2.23
1088 1180 2.744352 AGGCTCCCAATCTCCATTTC 57.256 50.000 0.00 0.00 0.00 2.17
1286 1380 6.496338 CATCATATGCAAGCATAGACATGT 57.504 37.500 18.40 0.00 41.51 3.21
1349 1443 1.134189 GCAGGGGGTAACATAGTGGTC 60.134 57.143 0.00 0.00 39.74 4.02
1369 1463 8.494433 AGTGGTCTTGATATATGTTGTGGTTAT 58.506 33.333 0.00 0.00 0.00 1.89
1602 1742 0.102300 GCAACAACAACAGGGGACAC 59.898 55.000 0.00 0.00 0.00 3.67
1950 2094 0.787084 TCCCTCAAGACTCCCTCAGT 59.213 55.000 0.00 0.00 38.45 3.41
2304 2448 2.045340 GGATTCGGTGGTGTGGGG 60.045 66.667 0.00 0.00 0.00 4.96
2560 2707 1.337167 TGTCAATGCTCTCTGGTCACG 60.337 52.381 0.00 0.00 0.00 4.35
2821 3201 5.010012 GTGACTGAACAATGGGAGTTTTGAT 59.990 40.000 0.00 0.00 0.00 2.57
3138 3745 3.384146 TGCAACATTGAGAAAAAGGCAGA 59.616 39.130 0.00 0.00 0.00 4.26
3140 3747 4.209911 GCAACATTGAGAAAAAGGCAGAAC 59.790 41.667 0.00 0.00 0.00 3.01
3141 3748 4.590850 ACATTGAGAAAAAGGCAGAACC 57.409 40.909 0.00 0.00 39.61 3.62
3161 3775 7.827236 CAGAACCTAACATACTAAATTGGACCA 59.173 37.037 0.00 0.00 0.00 4.02
3162 3776 8.387813 AGAACCTAACATACTAAATTGGACCAA 58.612 33.333 9.92 9.92 0.00 3.67
3163 3777 8.943594 AACCTAACATACTAAATTGGACCAAA 57.056 30.769 11.82 0.00 0.00 3.28
3164 3778 8.943594 ACCTAACATACTAAATTGGACCAAAA 57.056 30.769 11.82 0.00 0.00 2.44
3165 3779 9.369672 ACCTAACATACTAAATTGGACCAAAAA 57.630 29.630 11.82 0.00 0.00 1.94
3284 3928 4.991687 GGTTTACTCTTGGACTGTTGAGAG 59.008 45.833 11.84 11.84 41.04 3.20
3340 3997 5.186992 GGGTGGCCTGAACATTTTTACTAAT 59.813 40.000 3.32 0.00 0.00 1.73
3365 4022 1.906966 CAAAAGCGTGCATCGAATGAC 59.093 47.619 11.94 0.00 42.86 3.06
3395 4052 2.035832 GAGCAGTTAAGCAAAAGCCCAA 59.964 45.455 0.00 0.00 36.85 4.12
3428 4085 0.595095 CAACCAGAAAGCCTGAGCAC 59.405 55.000 0.00 0.00 45.78 4.40
3938 4701 3.138283 TCAACAGGGTGTTTCTGAATCCT 59.862 43.478 0.00 0.00 38.77 3.24
4335 5112 1.759445 GCCAGCAGATCTCAAGACCTA 59.241 52.381 0.00 0.00 0.00 3.08
5156 5942 1.117994 TCATCAGCTGACTGGGCTAG 58.882 55.000 20.97 0.00 44.59 3.42
5162 5948 1.918957 AGCTGACTGGGCTAGGAAAAT 59.081 47.619 2.02 0.00 38.36 1.82
5317 6109 1.135139 CTAGACACCATGACCACTCCG 59.865 57.143 0.00 0.00 0.00 4.63
5418 6210 4.851639 ATAAGCTGACCCTTTCTGTGAT 57.148 40.909 0.00 0.00 0.00 3.06
5616 6408 2.032030 TGCTTCGCTTCTTTGCAACTAC 60.032 45.455 0.00 0.00 0.00 2.73
5691 6483 3.480470 AGAGGATTGATATGCGGTTTGG 58.520 45.455 0.00 0.00 0.00 3.28
5917 6709 3.253188 CGGTTGACCAACAAATCATCTGT 59.747 43.478 14.00 0.00 42.85 3.41
5988 6782 5.183228 CCTTCTCGAGGGCTAAATAAACAA 58.817 41.667 13.56 0.00 42.26 2.83
6039 6833 2.649331 ATGTACGTGGTACTGCTGAC 57.351 50.000 0.00 0.00 39.49 3.51
6054 6848 2.629617 TGCTGACTCTGTCACTCATTCA 59.370 45.455 0.00 0.00 37.67 2.57
6295 7105 2.162408 GCAGGCAATGGTAGAGTTTGTC 59.838 50.000 0.00 0.00 0.00 3.18
6594 7540 7.674471 AAATGTAAGGTTTTAGAGAGCTCAC 57.326 36.000 17.77 10.21 0.00 3.51
6672 7620 2.693864 CCAGGAGCATGGGGGAGT 60.694 66.667 0.00 0.00 36.64 3.85
6766 7723 7.431249 CAAGAAACAGAGTAGTTACTACCACA 58.569 38.462 17.78 0.00 37.65 4.17
6771 7728 6.185511 ACAGAGTAGTTACTACCACAGCATA 58.814 40.000 17.78 0.00 37.65 3.14
6774 7731 6.319152 AGAGTAGTTACTACCACAGCATACAG 59.681 42.308 17.78 0.00 37.65 2.74
6802 7766 6.645003 CGTGTCGATATGATTTCCTGGAATTA 59.355 38.462 10.45 0.00 0.00 1.40
6803 7767 7.148738 CGTGTCGATATGATTTCCTGGAATTAG 60.149 40.741 10.45 0.00 0.00 1.73
6822 7786 7.337942 GGAATTAGGAAATATACAGCCATGAGG 59.662 40.741 0.00 0.00 38.23 3.86
6828 7792 6.716628 GGAAATATACAGCCATGAGGAATCAA 59.283 38.462 0.00 0.00 36.89 2.57
6843 7807 6.829811 TGAGGAATCAATTGATCTGCATACAA 59.170 34.615 20.95 0.00 32.75 2.41
6847 7811 8.761497 GGAATCAATTGATCTGCATACAAATTG 58.239 33.333 20.95 14.29 32.75 2.32
6855 7819 4.912214 TCTGCATACAAATTGATCGCTTG 58.088 39.130 0.00 0.00 0.00 4.01
6857 7821 3.693578 TGCATACAAATTGATCGCTTGGA 59.306 39.130 0.00 0.00 0.00 3.53
6860 7824 5.750067 GCATACAAATTGATCGCTTGGAAAT 59.250 36.000 0.00 0.00 0.00 2.17
6862 7826 7.515684 GCATACAAATTGATCGCTTGGAAATTC 60.516 37.037 0.00 0.00 0.00 2.17
6863 7827 5.782047 ACAAATTGATCGCTTGGAAATTCA 58.218 33.333 0.00 0.00 0.00 2.57
6864 7828 5.865552 ACAAATTGATCGCTTGGAAATTCAG 59.134 36.000 0.00 0.00 0.00 3.02
6865 7829 3.492421 TTGATCGCTTGGAAATTCAGC 57.508 42.857 0.00 0.00 0.00 4.26
6866 7830 2.435422 TGATCGCTTGGAAATTCAGCA 58.565 42.857 6.21 0.00 0.00 4.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
261 262 6.214191 TGCTCTTGATTACTTCGATCTTCT 57.786 37.500 0.00 0.00 0.00 2.85
457 460 6.183360 GGCTAACCACAATATGAGCTTCATTT 60.183 38.462 4.35 0.00 35.61 2.32
465 468 1.873591 GCCGGCTAACCACAATATGAG 59.126 52.381 22.15 0.00 34.57 2.90
497 500 8.503458 TCTTCTAGTCTTTACTGTATTACGCT 57.497 34.615 0.00 0.00 36.36 5.07
498 501 9.384682 GATCTTCTAGTCTTTACTGTATTACGC 57.615 37.037 0.00 0.00 36.36 4.42
538 544 6.528423 TGTTTGTTGTGGTGAAATTTTACTCG 59.472 34.615 12.29 0.00 0.00 4.18
625 631 4.271049 ACAGTCAAGTCAGAACATGAAACG 59.729 41.667 0.00 0.00 40.43 3.60
697 766 4.386867 TTTAGAGAACGCTAGACCCATG 57.613 45.455 0.00 0.00 0.00 3.66
827 909 7.498900 TGAGTTCTGCAGAAAGTTCAGATAAAA 59.501 33.333 29.99 8.30 36.81 1.52
830 912 6.101650 TGAGTTCTGCAGAAAGTTCAGATA 57.898 37.500 29.99 9.84 36.81 1.98
1067 1159 3.075134 GGAAATGGAGATTGGGAGCCTAT 59.925 47.826 0.00 0.00 0.00 2.57
1070 1162 1.216427 AGGAAATGGAGATTGGGAGCC 59.784 52.381 0.00 0.00 0.00 4.70
1217 1311 5.240623 TGCACTTCAAGAATTTACCGAATGT 59.759 36.000 0.00 0.00 0.00 2.71
1223 1317 7.702348 GGACATTATGCACTTCAAGAATTTACC 59.298 37.037 0.00 0.00 0.00 2.85
1286 1380 9.349713 ACAAACAATACCTAAAGTTTCTCATCA 57.650 29.630 0.00 0.00 32.34 3.07
1369 1463 7.884354 TGCATATATCATGGCTTACAGAATTGA 59.116 33.333 0.00 0.00 0.00 2.57
1602 1742 5.156355 GTGCAAGACTTCACCAATACAATG 58.844 41.667 0.00 0.00 0.00 2.82
1637 1777 5.812286 TCTCCTCCGCTTTTAATAAAGGTT 58.188 37.500 0.00 0.00 40.90 3.50
1653 1793 3.990959 ACAAACTCCATCTTCTCCTCC 57.009 47.619 0.00 0.00 0.00 4.30
2560 2707 1.519898 CATCATTGCTTTGCGGCCC 60.520 57.895 0.00 0.00 0.00 5.80
2733 3108 4.164221 GGGTCATCTATTTGGAACAGAGGA 59.836 45.833 0.00 0.00 42.39 3.71
2738 3113 5.255397 AGTTGGGTCATCTATTTGGAACA 57.745 39.130 0.00 0.00 0.00 3.18
2889 3322 8.702438 CACAAATATTCCTTGTGCAACTTTAAG 58.298 33.333 5.96 0.00 45.07 1.85
3138 3745 8.943594 TTTGGTCCAATTTAGTATGTTAGGTT 57.056 30.769 4.80 0.00 0.00 3.50
3340 3997 0.041400 CGATGCACGCTTTTGTGACA 60.041 50.000 0.00 0.00 42.55 3.58
3342 3999 0.940833 TTCGATGCACGCTTTTGTGA 59.059 45.000 0.00 0.00 42.55 3.58
3365 4022 8.331742 GCTTTTGCTTAACTGCTCTTACTATAG 58.668 37.037 0.00 0.00 43.35 1.31
3395 4052 0.681564 TGGTTGTTCGCCCTTTGTGT 60.682 50.000 0.00 0.00 0.00 3.72
3428 4085 1.571919 GTGGCAGGCGATTGTACTAG 58.428 55.000 0.00 0.00 0.00 2.57
3506 4194 1.206132 TGGTGTAACGGGCTAGACATG 59.794 52.381 0.00 0.00 38.12 3.21
3628 4320 7.690454 TCACCTAGATCTTCCCAATTTGATA 57.310 36.000 0.00 0.00 0.00 2.15
3861 4624 7.686438 ACATTAACAGTGTGCAGATAATCAA 57.314 32.000 0.00 0.00 0.00 2.57
3938 4701 4.883585 TCTTTCTCTTTCTTTGCTGCTTGA 59.116 37.500 0.00 0.00 0.00 3.02
4335 5112 6.471146 GGGAATATGCTCAGATACAATGAGT 58.529 40.000 5.00 0.00 44.92 3.41
4690 5476 4.036734 TGAGACAAGTTCATGCCTTTTGTC 59.963 41.667 17.16 17.16 44.81 3.18
5156 5942 5.700373 TGAGCTTGTAAATGGCAAATTTTCC 59.300 36.000 0.00 0.00 0.00 3.13
5162 5948 8.196771 CCTTATATTGAGCTTGTAAATGGCAAA 58.803 33.333 0.00 0.00 0.00 3.68
5317 6109 1.160137 GGCCGATGATGTATCTTGGC 58.840 55.000 11.52 11.52 35.51 4.52
5418 6210 6.829229 TGAAAGTATCAGTCCGAAGAACTA 57.171 37.500 0.00 0.00 33.04 2.24
5616 6408 4.711949 AGCTCAGCCTTGGCACCG 62.712 66.667 14.54 2.12 0.00 4.94
5691 6483 2.683362 CCGTAAATCCCTTCAAAGGCTC 59.317 50.000 3.09 0.00 45.10 4.70
5917 6709 6.822676 CCCCCACTTAATTATACAACACGTAA 59.177 38.462 0.00 0.00 32.59 3.18
6025 6819 0.598562 ACAGAGTCAGCAGTACCACG 59.401 55.000 0.00 0.00 0.00 4.94
6039 6833 8.037382 ACAAATTACATGAATGAGTGACAGAG 57.963 34.615 0.00 0.00 0.00 3.35
6295 7105 7.631007 AGGAGTTCCTGGTAAAATAGGTTAAG 58.369 38.462 0.00 0.00 46.55 1.85
6583 7529 4.262292 GGATCTACTCTCGTGAGCTCTCTA 60.262 50.000 16.19 2.30 43.85 2.43
6594 7540 4.619973 ACTACGTGTAGGATCTACTCTCG 58.380 47.826 11.45 9.92 37.49 4.04
6612 7560 8.072567 GCATCCATTTCTGTGATAAATGACTAC 58.927 37.037 9.50 0.00 43.79 2.73
6672 7620 3.118629 GCTGAGATGAGGTACCATGTTCA 60.119 47.826 15.94 9.44 0.00 3.18
6766 7723 0.741326 ATCGACACGCTCTGTATGCT 59.259 50.000 0.00 0.00 31.03 3.79
6771 7728 3.717400 AATCATATCGACACGCTCTGT 57.283 42.857 0.00 0.00 34.96 3.41
6774 7731 3.426859 CAGGAAATCATATCGACACGCTC 59.573 47.826 0.00 0.00 0.00 5.03
6802 7766 5.912149 TTCCTCATGGCTGTATATTTCCT 57.088 39.130 0.00 0.00 0.00 3.36
6803 7767 6.240894 TGATTCCTCATGGCTGTATATTTCC 58.759 40.000 0.00 0.00 0.00 3.13
6806 7770 7.946219 TCAATTGATTCCTCATGGCTGTATATT 59.054 33.333 3.38 0.00 0.00 1.28
6822 7786 9.524106 TCAATTTGTATGCAGATCAATTGATTC 57.476 29.630 21.57 14.27 34.37 2.52
6828 7792 6.016527 AGCGATCAATTTGTATGCAGATCAAT 60.017 34.615 10.08 0.00 33.33 2.57
6843 7807 4.082081 TGCTGAATTTCCAAGCGATCAATT 60.082 37.500 0.00 0.00 0.00 2.32


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

AutoCloner maintained by Alex Coulton.