Multiple sequence alignment - TraesCS5B01G390100

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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 TraesCS5B01G390100 chr5B 100.000 7488 0 0 1 7488 569243368 569250855 0.000000e+00 13828.0
1 TraesCS5B01G390100 chr5B 96.752 7512 173 23 1 7488 569142191 569149655 0.000000e+00 12454.0
2 TraesCS5B01G390100 chr5B 85.145 5123 707 42 1219 6308 454865651 454870752 0.000000e+00 5195.0
3 TraesCS5B01G390100 chrUn 87.062 5109 626 25 1219 6308 111007462 111002370 0.000000e+00 5740.0
4 TraesCS5B01G390100 chrUn 86.204 2102 280 6 3769 5860 354151508 354153609 0.000000e+00 2266.0
5 TraesCS5B01G390100 chrUn 87.709 838 57 34 6309 7131 67087726 67086920 0.000000e+00 935.0
6 TraesCS5B01G390100 chrUn 87.709 838 57 34 6309 7131 307431908 307432714 0.000000e+00 935.0
7 TraesCS5B01G390100 chrUn 91.882 271 22 0 948 1218 67087992 67087722 5.480000e-101 379.0
8 TraesCS5B01G390100 chrUn 91.882 271 22 0 948 1218 307431642 307431912 5.480000e-101 379.0
9 TraesCS5B01G390100 chr4D 87.108 5104 615 20 1219 6308 418527977 418522903 0.000000e+00 5740.0
10 TraesCS5B01G390100 chr4D 86.687 5025 625 31 1219 6220 435204070 435199067 0.000000e+00 5533.0
11 TraesCS5B01G390100 chr1A 85.695 5117 672 41 1215 6308 3915032 3920111 0.000000e+00 5339.0
12 TraesCS5B01G390100 chr1A 93.370 920 60 1 1 919 527021979 527022898 0.000000e+00 1360.0
13 TraesCS5B01G390100 chr1A 86.019 844 63 22 6309 7131 559979070 559978261 0.000000e+00 854.0
14 TraesCS5B01G390100 chr1A 84.279 846 57 36 6309 7131 559886660 559885868 0.000000e+00 756.0
15 TraesCS5B01G390100 chr1A 91.447 456 29 4 6309 6757 559941626 559941174 1.070000e-172 617.0
16 TraesCS5B01G390100 chr1A 89.342 319 29 3 6813 7131 559941177 559940864 5.440000e-106 396.0
17 TraesCS5B01G390100 chr1A 91.450 269 23 0 948 1216 559886926 559886658 3.300000e-98 370.0
18 TraesCS5B01G390100 chr1A 90.406 271 26 0 948 1218 559941892 559941622 2.570000e-94 357.0
19 TraesCS5B01G390100 chr4A 84.741 5125 710 43 1219 6308 634259665 634264752 0.000000e+00 5066.0
20 TraesCS5B01G390100 chr4A 84.465 5124 743 44 1219 6308 664327763 664332867 0.000000e+00 5003.0
21 TraesCS5B01G390100 chr4B 84.015 5111 767 31 1219 6309 83843442 83848522 0.000000e+00 4867.0
22 TraesCS5B01G390100 chr5D 86.156 2846 341 19 3479 6308 431886465 431889273 0.000000e+00 3024.0
23 TraesCS5B01G390100 chr5D 86.434 2123 272 15 1216 3329 431883938 431886053 0.000000e+00 2311.0
24 TraesCS5B01G390100 chr5D 90.821 719 30 14 6441 7131 462670009 462670719 0.000000e+00 929.0
25 TraesCS5B01G390100 chr5D 86.078 747 57 27 6309 7048 462746636 462747342 0.000000e+00 760.0
26 TraesCS5B01G390100 chr5D 92.620 271 20 0 948 1218 462669709 462669979 2.530000e-104 390.0
27 TraesCS5B01G390100 chr5D 92.620 271 20 0 948 1218 462746370 462746640 2.530000e-104 390.0
28 TraesCS5B01G390100 chr5D 84.646 254 35 4 7235 7485 462670848 462671100 4.490000e-62 250.0
29 TraesCS5B01G390100 chr5D 83.704 135 16 2 6997 7131 462896901 462897029 1.020000e-23 122.0
30 TraesCS5B01G390100 chr5D 82.653 98 11 3 7140 7233 487170806 487170901 1.730000e-11 82.4
31 TraesCS5B01G390100 chr3D 87.658 1977 236 8 1219 3193 445870713 445868743 0.000000e+00 2292.0
32 TraesCS5B01G390100 chr3D 85.057 87 10 2 7148 7233 551242501 551242417 1.340000e-12 86.1
33 TraesCS5B01G390100 chr1B 94.771 918 47 1 1 918 340425077 340424161 0.000000e+00 1428.0
34 TraesCS5B01G390100 chr1B 72.434 867 206 26 65 919 255514875 255515720 5.800000e-61 246.0
35 TraesCS5B01G390100 chr1B 85.393 89 10 2 7147 7234 415738388 415738302 1.030000e-13 89.8
36 TraesCS5B01G390100 chr1B 83.908 87 11 2 7148 7233 415738303 415738387 6.230000e-11 80.5
37 TraesCS5B01G390100 chr1D 94.583 923 48 2 1 922 223389188 223388267 0.000000e+00 1426.0
38 TraesCS5B01G390100 chr1D 93.182 704 45 3 222 924 223349175 223348474 0.000000e+00 1031.0
39 TraesCS5B01G390100 chr7D 94.559 919 48 2 2 919 88213688 88214605 0.000000e+00 1419.0
40 TraesCS5B01G390100 chr2D 95.407 762 34 1 1 761 467114236 467113475 0.000000e+00 1212.0
41 TraesCS5B01G390100 chr5A 85.565 956 76 26 6589 7488 582654403 582655352 0.000000e+00 944.0
42 TraesCS5B01G390100 chr5A 91.403 221 17 2 6309 6528 582653196 582653415 1.220000e-77 302.0
43 TraesCS5B01G390100 chr5A 87.132 272 22 6 948 1218 582652941 582653200 5.680000e-76 296.0
44 TraesCS5B01G390100 chr3B 81.061 396 45 18 5920 6308 467415845 467416217 9.510000e-74 289.0
45 TraesCS5B01G390100 chr2B 85.714 91 9 3 7148 7237 161464992 161464905 8.000000e-15 93.5
46 TraesCS5B01G390100 chr2B 91.304 69 5 1 854 921 364137670 364137738 8.000000e-15 93.5
47 TraesCS5B01G390100 chr2B 84.043 94 12 2 7148 7240 740308682 740308591 3.720000e-13 87.9
48 TraesCS5B01G390100 chr6A 96.000 50 2 0 871 920 51945167 51945216 1.730000e-11 82.4
49 TraesCS5B01G390100 chr6B 83.908 87 11 2 7148 7233 718384572 718384656 6.230000e-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 TraesCS5B01G390100 chr5B 569243368 569250855 7487 False 13828.000000 13828 100.000000 1 7488 1 chr5B.!!$F3 7487
1 TraesCS5B01G390100 chr5B 569142191 569149655 7464 False 12454.000000 12454 96.752000 1 7488 1 chr5B.!!$F2 7487
2 TraesCS5B01G390100 chr5B 454865651 454870752 5101 False 5195.000000 5195 85.145000 1219 6308 1 chr5B.!!$F1 5089
3 TraesCS5B01G390100 chrUn 111002370 111007462 5092 True 5740.000000 5740 87.062000 1219 6308 1 chrUn.!!$R1 5089
4 TraesCS5B01G390100 chrUn 354151508 354153609 2101 False 2266.000000 2266 86.204000 3769 5860 1 chrUn.!!$F1 2091
5 TraesCS5B01G390100 chrUn 67086920 67087992 1072 True 657.000000 935 89.795500 948 7131 2 chrUn.!!$R2 6183
6 TraesCS5B01G390100 chrUn 307431642 307432714 1072 False 657.000000 935 89.795500 948 7131 2 chrUn.!!$F2 6183
7 TraesCS5B01G390100 chr4D 418522903 418527977 5074 True 5740.000000 5740 87.108000 1219 6308 1 chr4D.!!$R1 5089
8 TraesCS5B01G390100 chr4D 435199067 435204070 5003 True 5533.000000 5533 86.687000 1219 6220 1 chr4D.!!$R2 5001
9 TraesCS5B01G390100 chr1A 3915032 3920111 5079 False 5339.000000 5339 85.695000 1215 6308 1 chr1A.!!$F1 5093
10 TraesCS5B01G390100 chr1A 527021979 527022898 919 False 1360.000000 1360 93.370000 1 919 1 chr1A.!!$F2 918
11 TraesCS5B01G390100 chr1A 559978261 559979070 809 True 854.000000 854 86.019000 6309 7131 1 chr1A.!!$R1 822
12 TraesCS5B01G390100 chr1A 559885868 559886926 1058 True 563.000000 756 87.864500 948 7131 2 chr1A.!!$R2 6183
13 TraesCS5B01G390100 chr1A 559940864 559941892 1028 True 456.666667 617 90.398333 948 7131 3 chr1A.!!$R3 6183
14 TraesCS5B01G390100 chr4A 634259665 634264752 5087 False 5066.000000 5066 84.741000 1219 6308 1 chr4A.!!$F1 5089
15 TraesCS5B01G390100 chr4A 664327763 664332867 5104 False 5003.000000 5003 84.465000 1219 6308 1 chr4A.!!$F2 5089
16 TraesCS5B01G390100 chr4B 83843442 83848522 5080 False 4867.000000 4867 84.015000 1219 6309 1 chr4B.!!$F1 5090
17 TraesCS5B01G390100 chr5D 431883938 431889273 5335 False 2667.500000 3024 86.295000 1216 6308 2 chr5D.!!$F3 5092
18 TraesCS5B01G390100 chr5D 462746370 462747342 972 False 575.000000 760 89.349000 948 7048 2 chr5D.!!$F5 6100
19 TraesCS5B01G390100 chr5D 462669709 462671100 1391 False 523.000000 929 89.362333 948 7485 3 chr5D.!!$F4 6537
20 TraesCS5B01G390100 chr3D 445868743 445870713 1970 True 2292.000000 2292 87.658000 1219 3193 1 chr3D.!!$R1 1974
21 TraesCS5B01G390100 chr1B 340424161 340425077 916 True 1428.000000 1428 94.771000 1 918 1 chr1B.!!$R1 917
22 TraesCS5B01G390100 chr1B 255514875 255515720 845 False 246.000000 246 72.434000 65 919 1 chr1B.!!$F1 854
23 TraesCS5B01G390100 chr1D 223388267 223389188 921 True 1426.000000 1426 94.583000 1 922 1 chr1D.!!$R2 921
24 TraesCS5B01G390100 chr1D 223348474 223349175 701 True 1031.000000 1031 93.182000 222 924 1 chr1D.!!$R1 702
25 TraesCS5B01G390100 chr7D 88213688 88214605 917 False 1419.000000 1419 94.559000 2 919 1 chr7D.!!$F1 917
26 TraesCS5B01G390100 chr2D 467113475 467114236 761 True 1212.000000 1212 95.407000 1 761 1 chr2D.!!$R1 760
27 TraesCS5B01G390100 chr5A 582652941 582655352 2411 False 514.000000 944 88.033333 948 7488 3 chr5A.!!$F1 6540

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
937 942 2.057137 AATTGTCTGCACACACCACT 57.943 45.000 0.00 0.00 29.76 4.00 F
1770 1811 1.003839 TTCGCCTCCACGCAATCTT 60.004 52.632 0.00 0.00 0.00 2.40 F
3009 3050 0.179111 CATCCGAGCGTGCTTCCTTA 60.179 55.000 0.00 0.00 0.00 2.69 F
3193 3234 0.249405 CAGAAGATGGAGCTCCTCGC 60.249 60.000 32.28 20.62 36.82 5.03 F
4316 4648 0.038455 ACTAGTCCACCTGCTCGAGT 59.962 55.000 15.13 0.00 0.00 4.18 F
4907 5239 0.728466 CGTCGGAGTTGAGGTCGAAC 60.728 60.000 0.00 0.00 33.33 3.95 F
5179 5513 0.762418 TCTCCTTCCCGCAGTTTCAA 59.238 50.000 0.00 0.00 0.00 2.69 F
5895 6236 0.602638 GCCATCTTCACACGTGACCA 60.603 55.000 25.01 1.72 39.66 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2225 2266 0.263765 TGACCTTCTAGGCCGGGTAT 59.736 55.000 2.18 0.00 39.63 2.73 R
3200 3241 0.035820 GGATTTCGGCCCGGCATATA 60.036 55.000 12.58 0.00 0.00 0.86 R
4297 4629 0.038455 ACTCGAGCAGGTGGACTAGT 59.962 55.000 13.61 0.00 0.00 2.57 R
4425 4757 0.956633 CAGCCAGTGTGTCTTGCAAT 59.043 50.000 0.00 0.00 37.29 3.56 R
5246 5583 0.831307 GGGAAAGGTACGAGCTGGAT 59.169 55.000 1.44 0.00 0.00 3.41 R
5895 6236 1.023513 GCATCAGAGCTGGTTCGCTT 61.024 55.000 0.00 0.00 41.08 4.68 R
6213 6568 1.269569 CGTCATATAACCCGAGCTGCA 60.270 52.381 1.02 0.00 0.00 4.41 R
6978 8378 1.682702 CCATGGGTGAGCATGCACTAA 60.683 52.381 21.98 3.32 38.78 2.24 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
937 942 2.057137 AATTGTCTGCACACACCACT 57.943 45.000 0.00 0.00 29.76 4.00
1041 1047 2.029666 GTGGTGAGCTGCGAGTGT 59.970 61.111 0.00 0.00 0.00 3.55
1270 1276 2.616960 CGATCACCGGAGATGAAAACA 58.383 47.619 19.75 0.00 33.91 2.83
1275 1281 4.456535 TCACCGGAGATGAAAACAAAAGA 58.543 39.130 9.46 0.00 0.00 2.52
1285 1291 2.341846 AAACAAAAGAGGGTGCGAGA 57.658 45.000 0.00 0.00 0.00 4.04
1286 1292 1.884235 AACAAAAGAGGGTGCGAGAG 58.116 50.000 0.00 0.00 0.00 3.20
1487 1518 2.125106 GATCGGGTCAGGGCACAC 60.125 66.667 0.00 0.00 0.00 3.82
1595 1636 5.838531 AAACCCTAAACATGAACGTGAAA 57.161 34.783 0.00 0.00 0.00 2.69
1770 1811 1.003839 TTCGCCTCCACGCAATCTT 60.004 52.632 0.00 0.00 0.00 2.40
1810 1851 5.126222 TGAGCTCGATGTTCTTCTATCTGTT 59.874 40.000 9.64 0.00 0.00 3.16
2024 2065 1.490910 CAGGTTATCACCCCTCCTTCC 59.509 57.143 0.00 0.00 45.63 3.46
2225 2266 1.606668 GCCTCCATGAAACGTGAAACA 59.393 47.619 0.00 0.00 35.74 2.83
2235 2276 1.078708 CGTGAAACATACCCGGCCT 60.079 57.895 0.00 0.00 35.74 5.19
2552 2593 2.125512 GGTGATCTCCGCTGCGTT 60.126 61.111 21.59 2.43 0.00 4.84
2610 2651 1.374252 GATGAGGCGTGTGGTCGTT 60.374 57.895 0.00 0.00 0.00 3.85
2660 2701 3.372730 GCAGCGCATGAACCCCAA 61.373 61.111 11.47 0.00 0.00 4.12
2717 2758 2.556114 CCCTGGGAGTTTGCTTCAGAAT 60.556 50.000 7.01 0.00 32.11 2.40
2723 2764 5.880332 TGGGAGTTTGCTTCAGAATGTATAC 59.120 40.000 0.00 0.00 37.40 1.47
2725 2766 6.374333 GGGAGTTTGCTTCAGAATGTATACAA 59.626 38.462 10.14 0.00 37.40 2.41
2759 2800 1.004440 GGACGAGGTGCTTCTTGCT 60.004 57.895 0.00 0.00 43.37 3.91
2760 2801 1.016653 GGACGAGGTGCTTCTTGCTC 61.017 60.000 0.00 0.00 43.37 4.26
3009 3050 0.179111 CATCCGAGCGTGCTTCCTTA 60.179 55.000 0.00 0.00 0.00 2.69
3100 3141 0.309302 ATTGTCCTCGATCGAGCTCG 59.691 55.000 34.54 30.03 40.69 5.03
3193 3234 0.249405 CAGAAGATGGAGCTCCTCGC 60.249 60.000 32.28 20.62 36.82 5.03
3200 3241 2.439104 GGAGCTCCTCGCCTGGATT 61.439 63.158 26.25 0.00 40.39 3.01
3288 3329 1.732259 ACCGCATCGAGAACATTGTTC 59.268 47.619 19.64 19.64 0.00 3.18
3329 3370 1.609501 CGAGTTCCACCCCTCCTGA 60.610 63.158 0.00 0.00 0.00 3.86
3331 3372 0.545548 GAGTTCCACCCCTCCTGAGT 60.546 60.000 0.00 0.00 0.00 3.41
3355 3396 3.315142 GACGCTGGAGTGGATGGCA 62.315 63.158 0.00 0.00 0.00 4.92
3373 3414 0.946221 CACTGGAGTTGACGGTGCTC 60.946 60.000 0.00 0.00 38.27 4.26
3705 4009 1.069022 CCCTTCACATGCACGAAACAG 60.069 52.381 0.00 0.00 0.00 3.16
3874 4178 0.971447 GGCCTTCAGTAGACTCCGGT 60.971 60.000 0.00 0.00 0.00 5.28
4297 4629 3.725459 CAGGCATGCGTCGCACAA 61.725 61.111 24.34 0.00 43.04 3.33
4316 4648 0.038455 ACTAGTCCACCTGCTCGAGT 59.962 55.000 15.13 0.00 0.00 4.18
4425 4757 4.678499 TGTCGCCATCGCTGTGCA 62.678 61.111 0.00 0.00 35.26 4.57
4489 4821 1.218316 GACGATTCGGTGCTCCCTT 59.782 57.895 11.29 0.00 0.00 3.95
4549 4881 2.107041 AACACGCCGTCCTGGATCAA 62.107 55.000 0.00 0.00 42.00 2.57
4604 4936 3.665675 GATTCTGTGGGAGCGCGGT 62.666 63.158 12.23 12.23 0.00 5.68
4701 5033 2.537792 GATGTTGACGACGGAGCCGA 62.538 60.000 16.83 0.00 42.83 5.54
4739 5071 2.338620 CTGACGGCCGTGTTGAGA 59.661 61.111 39.65 10.95 0.00 3.27
4907 5239 0.728466 CGTCGGAGTTGAGGTCGAAC 60.728 60.000 0.00 0.00 33.33 3.95
5035 5368 2.476051 CGCCTGTTTGCAGTAGCG 59.524 61.111 4.68 4.68 46.23 4.26
5179 5513 0.762418 TCTCCTTCCCGCAGTTTCAA 59.238 50.000 0.00 0.00 0.00 2.69
5189 5523 1.789739 CAGTTTCAAGCGCGCGAAG 60.790 57.895 37.18 21.81 0.00 3.79
5895 6236 0.602638 GCCATCTTCACACGTGACCA 60.603 55.000 25.01 1.72 39.66 4.02
6213 6568 6.648310 GCTAAAACCTCTAACTAAACCGAGTT 59.352 38.462 0.00 0.00 42.35 3.01
6978 8378 6.169094 CAGAAACATGAGAGGTTGATACTGT 58.831 40.000 0.00 0.00 0.00 3.55
7279 8726 4.554960 AAGTACTCCACTTAGCTTTCCC 57.445 45.455 0.00 0.00 45.93 3.97
7396 8843 4.461431 CCCCTCTAATTTTTGTTAGCCGTT 59.539 41.667 0.00 0.00 32.85 4.44
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
926 931 0.663153 GTCCTTTGAGTGGTGTGTGC 59.337 55.000 0.00 0.00 0.00 4.57
937 942 1.609208 GGCTCTGCTTTGTCCTTTGA 58.391 50.000 0.00 0.00 0.00 2.69
1050 1056 2.681778 CCGGTGCACTCCTCCTCT 60.682 66.667 17.98 0.00 0.00 3.69
1081 1087 1.296715 CAAAGTAGGCCCTCACGCT 59.703 57.895 0.00 0.00 0.00 5.07
1270 1276 1.548269 CTCTCTCTCGCACCCTCTTTT 59.452 52.381 0.00 0.00 0.00 2.27
1275 1281 0.107214 CTCTCTCTCTCTCGCACCCT 60.107 60.000 0.00 0.00 0.00 4.34
1285 1291 1.067213 GCGCAAAAGGTCTCTCTCTCT 60.067 52.381 0.30 0.00 0.00 3.10
1286 1292 1.067213 AGCGCAAAAGGTCTCTCTCTC 60.067 52.381 11.47 0.00 0.00 3.20
1487 1518 6.695429 ACTCGGTTTAGTTAGAGGTTTTAGG 58.305 40.000 0.00 0.00 35.22 2.69
1595 1636 2.385417 AGGGGGTGATTGTTGGGTAAAT 59.615 45.455 0.00 0.00 0.00 1.40
1770 1811 4.517285 GAGCTCAGGTACCATTTCATCAA 58.483 43.478 15.94 0.00 0.00 2.57
1810 1851 2.229543 GCAAAGAATCCTGTGATGCACA 59.770 45.455 0.00 0.00 42.45 4.57
2024 2065 2.620112 CGGCACCCTGTTCTTGCTG 61.620 63.158 0.00 0.00 36.46 4.41
2225 2266 0.263765 TGACCTTCTAGGCCGGGTAT 59.736 55.000 2.18 0.00 39.63 2.73
2235 2276 0.970937 CGCCCTGACCTGACCTTCTA 60.971 60.000 0.00 0.00 0.00 2.10
2552 2593 4.081142 ACGACCTGGTGATCATTGTATCAA 60.081 41.667 2.82 0.00 37.61 2.57
2610 2651 4.973055 GTGTACGCACGGGGCACA 62.973 66.667 1.92 0.00 45.17 4.57
2650 2691 2.242043 CTTGAGCAAGTTGGGGTTCAT 58.758 47.619 4.75 0.00 33.87 2.57
2759 2800 1.890041 CCAGGGTTTGTCGTTGCGA 60.890 57.895 0.00 0.00 0.00 5.10
2760 2801 2.637025 CCAGGGTTTGTCGTTGCG 59.363 61.111 0.00 0.00 0.00 4.85
2995 3036 3.532542 AGGTAAATAAGGAAGCACGCTC 58.467 45.455 0.00 0.00 0.00 5.03
3003 3044 6.502863 AGTGGGTCTACAAGGTAAATAAGGAA 59.497 38.462 0.00 0.00 0.00 3.36
3009 3050 5.280521 CCTGAAGTGGGTCTACAAGGTAAAT 60.281 44.000 0.00 0.00 0.00 1.40
3100 3141 1.587547 GGAGCCATGATCGAAGAACC 58.412 55.000 0.00 0.00 43.58 3.62
3193 3234 0.394352 GGCCCGGCATATAATCCAGG 60.394 60.000 12.58 0.00 0.00 4.45
3200 3241 0.035820 GGATTTCGGCCCGGCATATA 60.036 55.000 12.58 0.00 0.00 0.86
3288 3329 1.361668 CTCCACCGACGCCATTCAAG 61.362 60.000 0.00 0.00 0.00 3.02
3329 3370 2.345244 CTCCAGCGTCTGCCAACT 59.655 61.111 1.84 0.00 44.31 3.16
3331 3372 2.031012 CACTCCAGCGTCTGCCAA 59.969 61.111 1.84 0.00 44.31 4.52
3355 3396 1.367840 GAGCACCGTCAACTCCAGT 59.632 57.895 0.00 0.00 0.00 4.00
3373 3414 1.734477 CTCCAGCGTCGTTGTCTGG 60.734 63.158 8.32 9.03 46.60 3.86
3558 3861 1.717348 CGTGCACATCACATGCGAT 59.283 52.632 18.64 0.00 46.49 4.58
3705 4009 2.158561 ATTTCCTGCGCACCTTTGGC 62.159 55.000 5.66 0.00 0.00 4.52
3754 4058 1.003839 ACGGCATGACACCATTCGT 60.004 52.632 0.00 0.00 36.18 3.85
3874 4178 1.227102 GCATAGTGGTGGGCATGGA 59.773 57.895 0.00 0.00 0.00 3.41
4297 4629 0.038455 ACTCGAGCAGGTGGACTAGT 59.962 55.000 13.61 0.00 0.00 2.57
4425 4757 0.956633 CAGCCAGTGTGTCTTGCAAT 59.043 50.000 0.00 0.00 37.29 3.56
4489 4821 1.068055 GTCGTCTTCTCGCCAAGGTAA 60.068 52.381 0.00 0.00 0.00 2.85
4531 4863 2.579657 TTGATCCAGGACGGCGTGT 61.580 57.895 21.19 0.02 33.14 4.49
4532 4864 2.100631 GTTGATCCAGGACGGCGTG 61.101 63.158 21.19 3.34 33.14 5.34
4549 4881 2.203907 AGAGAGGCTGCCAGGTGT 60.204 61.111 22.65 0.00 0.00 4.16
4604 4936 1.332144 GGGTGTACTACATCCCGCCA 61.332 60.000 7.22 0.00 43.62 5.69
5035 5368 5.309638 GGGAAAAGTCTAAGGATATCTGCC 58.690 45.833 2.05 0.00 0.00 4.85
5189 5523 1.251527 TTCTCACGGAGGAGGAGTGC 61.252 60.000 1.76 0.00 35.97 4.40
5246 5583 0.831307 GGGAAAGGTACGAGCTGGAT 59.169 55.000 1.44 0.00 0.00 3.41
5279 5616 3.532155 GAGGAGCTCATCGGGCGT 61.532 66.667 17.19 0.00 34.52 5.68
5748 6086 1.728074 CTGACGCGCACGAACTACA 60.728 57.895 5.73 0.00 43.93 2.74
5895 6236 1.023513 GCATCAGAGCTGGTTCGCTT 61.024 55.000 0.00 0.00 41.08 4.68
6213 6568 1.269569 CGTCATATAACCCGAGCTGCA 60.270 52.381 1.02 0.00 0.00 4.41
6978 8378 1.682702 CCATGGGTGAGCATGCACTAA 60.683 52.381 21.98 3.32 38.78 2.24


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

AutoCloner maintained by Alex Coulton.