Multiple sequence alignment - TraesCS7B01G365200

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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 TraesCS7B01G365200 chr7B 100.000 4145 0 0 1 4145 628727833 628731977 0.000000e+00 7655.0
1 TraesCS7B01G365200 chr7B 94.231 104 6 0 3717 3820 628731497 628731600 4.290000e-35 159.0
2 TraesCS7B01G365200 chr7B 94.231 104 6 0 3665 3768 628731549 628731652 4.290000e-35 159.0
3 TraesCS7B01G365200 chr7A 94.382 2955 117 18 820 3760 661273228 661276147 0.000000e+00 4492.0
4 TraesCS7B01G365200 chr7A 85.466 2016 278 13 998 3003 732470007 732467997 0.000000e+00 2085.0
5 TraesCS7B01G365200 chr7A 88.413 397 21 9 1 389 661271866 661272245 4.880000e-124 455.0
6 TraesCS7B01G365200 chr7A 84.536 388 28 11 3717 4084 661276051 661276426 5.100000e-94 355.0
7 TraesCS7B01G365200 chr7A 95.513 156 7 0 181 336 732470880 732470725 2.470000e-62 250.0
8 TraesCS7B01G365200 chr7A 93.651 63 4 0 4083 4145 661276588 661276650 1.230000e-15 95.3
9 TraesCS7B01G365200 chr7A 94.340 53 3 0 3769 3821 661276051 661276103 9.550000e-12 82.4
10 TraesCS7B01G365200 chr7D 96.528 2477 74 5 796 3270 571969365 571971831 0.000000e+00 4087.0
11 TraesCS7B01G365200 chr7D 95.724 421 10 5 396 812 571968930 571969346 0.000000e+00 671.0
12 TraesCS7B01G365200 chr7D 90.244 451 37 2 3665 4115 571972154 571972597 2.150000e-162 582.0
13 TraesCS7B01G365200 chr7D 92.640 394 15 5 1 389 571967705 571968089 4.680000e-154 555.0
14 TraesCS7B01G365200 chr7D 91.885 382 23 6 3444 3820 571971879 571972257 1.020000e-145 527.0
15 TraesCS7B01G365200 chr7D 94.231 104 6 0 3717 3820 571972102 571972205 4.290000e-35 159.0
16 TraesCS7B01G365200 chr7D 94.737 95 5 0 3665 3759 571972206 571972300 9.280000e-32 148.0
17 TraesCS7B01G365200 chr7D 94.231 52 3 0 3769 3820 571972102 571972153 3.430000e-11 80.5
18 TraesCS7B01G365200 chr5B 85.729 1990 275 8 1005 2988 596065439 596067425 0.000000e+00 2093.0
19 TraesCS7B01G365200 chr5B 91.667 156 13 0 181 336 596064552 596064707 2.510000e-52 217.0
20 TraesCS7B01G365200 chr6B 84.062 2014 301 13 1003 3003 25913052 25915058 0.000000e+00 1923.0
21 TraesCS7B01G365200 chr6B 83.664 2014 306 16 1003 3000 8386678 8388684 0.000000e+00 1875.0
22 TraesCS7B01G365200 chr6B 89.172 157 16 1 178 333 8385162 8385318 1.180000e-45 195.0
23 TraesCS7B01G365200 chr6B 91.304 138 12 0 178 315 25911506 25911643 5.470000e-44 189.0
24 TraesCS7B01G365200 chr3A 81.886 2015 324 31 984 2979 8326546 8324554 0.000000e+00 1661.0


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 TraesCS7B01G365200 chr7B 628727833 628731977 4144 False 2657.666667 7655 96.1540 1 4145 3 chr7B.!!$F1 4144
1 TraesCS7B01G365200 chr7A 732467997 732470880 2883 True 1167.500000 2085 90.4895 181 3003 2 chr7A.!!$R1 2822
2 TraesCS7B01G365200 chr7A 661271866 661276650 4784 False 1095.940000 4492 91.0644 1 4145 5 chr7A.!!$F1 4144
3 TraesCS7B01G365200 chr7D 571967705 571972597 4892 False 851.187500 4087 93.7775 1 4115 8 chr7D.!!$F1 4114
4 TraesCS7B01G365200 chr5B 596064552 596067425 2873 False 1155.000000 2093 88.6980 181 2988 2 chr5B.!!$F1 2807
5 TraesCS7B01G365200 chr6B 25911506 25915058 3552 False 1056.000000 1923 87.6830 178 3003 2 chr6B.!!$F2 2825
6 TraesCS7B01G365200 chr6B 8385162 8388684 3522 False 1035.000000 1875 86.4180 178 3000 2 chr6B.!!$F1 2822
7 TraesCS7B01G365200 chr3A 8324554 8326546 1992 True 1661.000000 1661 81.8860 984 2979 1 chr3A.!!$R1 1995

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
389 419 0.173481 GCTCCTCGCGCATATCCATA 59.827 55.0 8.75 0.0 0.00 2.74 F
1335 2500 0.826715 TGCTAGGCGAGAATGAGCTT 59.173 50.0 0.00 0.0 34.19 3.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2115 3289 0.603065 GCAACCCAATGACTTCCACC 59.397 55.0 0.0 0.0 0.00 4.61 R
3190 4373 0.324943 ATTTCACCACGGAGTCCCAG 59.675 55.0 2.8 0.0 41.61 4.45 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
20 21 2.926242 ACGGCGAGGAAGGGGAAA 60.926 61.111 16.62 0.00 0.00 3.13
32 33 0.695347 AGGGGAAAGTGAGGAAGCAG 59.305 55.000 0.00 0.00 0.00 4.24
143 149 4.063967 CCACTGCTACGGTCGCCA 62.064 66.667 1.95 0.00 0.00 5.69
146 152 2.279517 CTGCTACGGTCGCCATCC 60.280 66.667 1.95 0.00 0.00 3.51
147 153 3.792053 CTGCTACGGTCGCCATCCC 62.792 68.421 1.95 0.00 0.00 3.85
148 154 4.603946 GCTACGGTCGCCATCCCC 62.604 72.222 0.00 0.00 0.00 4.81
339 345 2.044650 CCAGGGACAGCCACATGG 60.045 66.667 0.00 0.00 35.15 3.66
389 419 0.173481 GCTCCTCGCGCATATCCATA 59.827 55.000 8.75 0.00 0.00 2.74
390 420 1.202463 GCTCCTCGCGCATATCCATAT 60.202 52.381 8.75 0.00 0.00 1.78
393 423 3.551846 TCCTCGCGCATATCCATATAGA 58.448 45.455 8.75 0.00 0.00 1.98
394 424 3.565902 TCCTCGCGCATATCCATATAGAG 59.434 47.826 8.75 0.47 0.00 2.43
488 1526 4.454678 TGAATCTTACTCCATGGACATGC 58.545 43.478 11.44 0.00 37.49 4.06
490 1528 3.266510 TCTTACTCCATGGACATGCAC 57.733 47.619 11.44 0.00 37.49 4.57
637 1679 4.517453 TGTATGGCAAGTTTAGTTGGACAC 59.483 41.667 0.00 0.00 0.00 3.67
735 1782 5.179045 GATTACTACAATCGAAGACCCGA 57.821 43.478 0.00 0.00 42.51 5.14
736 1783 4.627611 TTACTACAATCGAAGACCCGAG 57.372 45.455 0.00 0.00 42.51 4.63
840 1930 5.186996 TCAAAAACTGTTGCATTCCTCTC 57.813 39.130 0.00 0.00 0.00 3.20
948 2077 4.497006 GCTAATGTAGGTTTGCTCTGCATG 60.497 45.833 0.00 0.00 38.76 4.06
1213 2378 6.068010 TCCAAGGTTTTGCTAATGAAGAAGA 58.932 36.000 0.00 0.00 32.79 2.87
1335 2500 0.826715 TGCTAGGCGAGAATGAGCTT 59.173 50.000 0.00 0.00 34.19 3.74
1746 2911 6.762187 ACTTCATCACATCTCTTCATGATCAC 59.238 38.462 0.00 0.00 29.25 3.06
1761 2926 7.864108 TCATGATCACAATCGGAGTAATTTT 57.136 32.000 0.00 0.00 34.39 1.82
1809 2974 2.033141 GGCAGCACCTTGAGCTCA 59.967 61.111 13.74 13.74 41.14 4.26
2115 3289 6.367422 GGAAGACAAAGATAGAGATATTGCCG 59.633 42.308 0.00 0.00 0.00 5.69
2145 3319 2.137177 TTGGGTTGCCTCACCTAGCC 62.137 60.000 0.00 0.00 36.97 3.93
2359 3542 1.302033 AACAGAGGCTTGCCTCACG 60.302 57.895 34.40 27.68 39.13 4.35
2693 3876 2.436109 GGACTTCCCAAGCCTGCA 59.564 61.111 0.00 0.00 34.14 4.41
2767 3950 1.202582 CCCTGACGTACCTTGTCTCAG 59.797 57.143 0.00 0.00 37.26 3.35
2782 3965 0.390078 CTCAGTCCAGCTGCTCTGTG 60.390 60.000 24.88 21.08 44.66 3.66
2785 3968 0.761187 AGTCCAGCTGCTCTGTGAAA 59.239 50.000 8.66 0.00 41.25 2.69
2832 4015 4.895889 AGGATCGAGTTCCATGATTGTCTA 59.104 41.667 7.77 0.00 38.32 2.59
2956 4139 0.105039 GATTGATCCGAGCGAACCCT 59.895 55.000 0.00 0.00 0.00 4.34
3033 4216 0.976641 ATTCGCCTCAGTCAGGTTCA 59.023 50.000 0.00 0.00 45.61 3.18
3035 4218 0.033504 TCGCCTCAGTCAGGTTCAAC 59.966 55.000 0.00 0.00 45.61 3.18
3051 4234 2.205911 TCAACGAGCAAACACGATTCA 58.794 42.857 0.00 0.00 33.76 2.57
3071 4254 4.956085 TCATTTCTGAAGAAGACGGTTGA 58.044 39.130 0.00 0.00 33.46 3.18
3190 4373 8.520835 TGTCTGCAGATTATATCGTTGTATTC 57.479 34.615 21.47 0.69 0.00 1.75
3191 4374 8.360390 TGTCTGCAGATTATATCGTTGTATTCT 58.640 33.333 21.47 0.00 0.00 2.40
3200 4383 1.475280 TCGTTGTATTCTGGGACTCCG 59.525 52.381 0.00 0.00 35.24 4.63
3210 4394 0.768622 TGGGACTCCGTGGTGAAATT 59.231 50.000 0.00 0.00 35.24 1.82
3266 4450 0.865769 GAAGACGACGCCATTGTTGT 59.134 50.000 0.00 0.00 39.19 3.32
3270 4454 0.796312 ACGACGCCATTGTTGTGATC 59.204 50.000 0.00 0.00 35.15 2.92
3271 4455 0.247262 CGACGCCATTGTTGTGATCG 60.247 55.000 0.00 0.00 0.00 3.69
3272 4456 1.075542 GACGCCATTGTTGTGATCGA 58.924 50.000 0.00 0.00 0.00 3.59
3273 4457 1.665679 GACGCCATTGTTGTGATCGAT 59.334 47.619 0.00 0.00 0.00 3.59
3356 4540 1.618837 ACGACTTGTGCATGGAGTACT 59.381 47.619 0.00 0.00 33.54 2.73
3401 4585 1.531578 GTGTTTTCTCGGGCAGAAGTC 59.468 52.381 0.00 0.00 42.37 3.01
3431 4615 1.186267 TTCACCATGCAATGCAGGCA 61.186 50.000 14.98 16.95 44.97 4.75
3433 4617 1.304630 ACCATGCAATGCAGGCAGA 60.305 52.632 14.98 0.00 44.97 4.26
3435 4619 1.141019 CATGCAATGCAGGCAGACC 59.859 57.895 14.98 0.00 45.68 3.85
3436 4620 1.304630 ATGCAATGCAGGCAGACCA 60.305 52.632 14.98 0.00 45.68 4.02
3437 4621 0.686441 ATGCAATGCAGGCAGACCAT 60.686 50.000 14.98 1.86 45.68 3.55
3438 4622 0.901114 TGCAATGCAGGCAGACCATT 60.901 50.000 2.72 0.00 39.06 3.16
3439 4623 0.459585 GCAATGCAGGCAGACCATTG 60.460 55.000 0.00 11.76 45.22 2.82
3440 4624 0.892755 CAATGCAGGCAGACCATTGT 59.107 50.000 0.00 0.00 40.36 2.71
3441 4625 2.093890 CAATGCAGGCAGACCATTGTA 58.906 47.619 0.00 0.00 40.36 2.41
3450 4643 3.763897 GGCAGACCATTGTAGAAAACCAT 59.236 43.478 0.00 0.00 35.26 3.55
3454 4647 6.180472 CAGACCATTGTAGAAAACCATACCT 58.820 40.000 0.00 0.00 0.00 3.08
3457 4650 6.731467 ACCATTGTAGAAAACCATACCTGAT 58.269 36.000 0.00 0.00 0.00 2.90
3487 4680 0.869730 ACCGGAAAAATCGTGAACCG 59.130 50.000 9.46 0.00 40.03 4.44
3495 4688 2.355363 TCGTGAACCGACGCCTTG 60.355 61.111 0.00 0.00 41.60 3.61
3496 4689 2.660552 CGTGAACCGACGCCTTGT 60.661 61.111 0.00 0.00 39.56 3.16
3497 4690 2.654912 CGTGAACCGACGCCTTGTC 61.655 63.158 0.00 0.00 44.53 3.18
3498 4691 1.300697 GTGAACCGACGCCTTGTCT 60.301 57.895 0.00 0.00 45.87 3.41
3499 4692 1.300620 TGAACCGACGCCTTGTCTG 60.301 57.895 0.00 0.00 45.87 3.51
3500 4693 1.300697 GAACCGACGCCTTGTCTGT 60.301 57.895 0.00 0.00 45.61 3.41
3501 4694 1.145377 AACCGACGCCTTGTCTGTT 59.855 52.632 0.00 0.00 46.29 3.16
3502 4695 1.145377 ACCGACGCCTTGTCTGTTT 59.855 52.632 0.00 0.00 41.61 2.83
3503 4696 0.463116 ACCGACGCCTTGTCTGTTTT 60.463 50.000 0.00 0.00 41.61 2.43
3504 4697 0.661020 CCGACGCCTTGTCTGTTTTT 59.339 50.000 0.00 0.00 45.87 1.94
3536 4753 8.831550 TGCATTGGTCTTTTATAAAAACCAAAC 58.168 29.630 32.73 29.23 43.55 2.93
3598 4815 3.940209 TGACCTTGCATGGATTTTGTC 57.060 42.857 24.48 11.01 0.00 3.18
3616 4833 3.731547 CCCCCTGCATCTCTGTGA 58.268 61.111 0.00 0.00 0.00 3.58
3618 4835 0.108207 CCCCCTGCATCTCTGTGATC 59.892 60.000 0.00 0.00 32.05 2.92
3619 4836 1.129917 CCCCTGCATCTCTGTGATCT 58.870 55.000 0.00 0.00 32.05 2.75
3640 4857 0.670162 GCCATGTTCTGCACTGTGTT 59.330 50.000 9.86 0.00 0.00 3.32
3643 4860 3.374745 CCATGTTCTGCACTGTGTTTTC 58.625 45.455 9.86 0.00 0.00 2.29
3688 4905 2.425578 TTCCGCGTTTTGGGATTTTC 57.574 45.000 4.92 0.00 31.11 2.29
3740 4957 4.274705 GCATTTCCGTGTTTTGGGATTTTT 59.725 37.500 0.00 0.00 31.11 1.94
3745 4962 4.160626 TCCGTGTTTTGGGATTTTTGTCTT 59.839 37.500 0.00 0.00 0.00 3.01
3761 4978 0.882927 TCTTGGTTGAAGCGGTTCGG 60.883 55.000 21.28 8.03 35.17 4.30
3783 5000 1.070038 GCCATGCATTTCCGTGTTTG 58.930 50.000 0.00 0.00 0.00 2.93
3827 5095 1.001745 GTTCGGTTGCCAACATTCGC 61.002 55.000 10.18 0.00 0.00 4.70
3867 5143 4.215109 ACCTTAATGTGGTGAGCTTGTTT 58.785 39.130 0.00 0.00 36.30 2.83
3872 5148 1.946768 TGTGGTGAGCTTGTTTGCTAC 59.053 47.619 0.00 0.00 44.17 3.58
3880 5156 1.000274 GCTTGTTTGCTACCACCCTTG 60.000 52.381 0.00 0.00 0.00 3.61
3904 5180 2.426024 ACTGCTGCCATTTCATGTCATC 59.574 45.455 0.00 0.00 0.00 2.92
3906 5182 2.425668 TGCTGCCATTTCATGTCATCTG 59.574 45.455 0.00 0.00 0.00 2.90
3930 5213 5.501715 CGATCACATGTTAACAGCAATACC 58.498 41.667 14.65 0.29 0.00 2.73
3999 5282 8.244802 CCACTTAACCCGATATAATCTCTACTG 58.755 40.741 0.00 0.00 0.00 2.74
4030 5313 5.409826 ACTTTACGATTGCTCTTCTCTTTGG 59.590 40.000 0.00 0.00 0.00 3.28
4056 5339 9.232473 GTCTTTAACCTGGAGTAATCATCTTTT 57.768 33.333 0.00 0.00 0.00 2.27
4064 5347 7.366011 CCTGGAGTAATCATCTTTTACCTCCTT 60.366 40.741 0.00 0.00 33.16 3.36
4075 5358 9.810545 CATCTTTTACCTCCTTCTTAGTCTTAG 57.189 37.037 0.00 0.00 0.00 2.18
4077 5360 9.771140 TCTTTTACCTCCTTCTTAGTCTTAGAT 57.229 33.333 0.00 0.00 0.00 1.98
4084 5367 9.807921 CCTCCTTCTTAGTCTTAGATCTTCTAT 57.192 37.037 0.00 0.00 0.00 1.98
4116 5562 5.146482 TCTTTTAACCGTTCACTTGTTCG 57.854 39.130 0.00 0.00 0.00 3.95
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 0.962855 GCCTGCTTCCTCACTTTCCC 60.963 60.000 0.00 0.00 0.00 3.97
20 21 2.350514 GCTGCCTGCTTCCTCACT 59.649 61.111 0.00 0.00 38.95 3.41
60 62 1.303799 GGACAGGAGTACGACGAGCA 61.304 60.000 0.00 0.00 0.00 4.26
61 63 1.025647 AGGACAGGAGTACGACGAGC 61.026 60.000 0.00 0.00 32.20 5.03
62 64 0.727970 CAGGACAGGAGTACGACGAG 59.272 60.000 0.00 0.00 32.20 4.18
63 65 0.035881 ACAGGACAGGAGTACGACGA 59.964 55.000 0.00 0.00 32.20 4.20
147 153 4.135153 CTCCTGCTCCCACGACGG 62.135 72.222 0.00 0.00 0.00 4.79
148 154 4.135153 CCTCCTGCTCCCACGACG 62.135 72.222 0.00 0.00 0.00 5.12
150 156 3.965026 CTCCCTCCTGCTCCCACGA 62.965 68.421 0.00 0.00 0.00 4.35
151 157 3.465403 CTCCCTCCTGCTCCCACG 61.465 72.222 0.00 0.00 0.00 4.94
159 165 2.285180 CTCCCTCCCTCCCTCCTG 59.715 72.222 0.00 0.00 0.00 3.86
160 166 3.039526 CCTCCCTCCCTCCCTCCT 61.040 72.222 0.00 0.00 0.00 3.69
463 1501 6.686378 GCATGTCCATGGAGTAAGATTCAGTA 60.686 42.308 16.81 0.00 39.16 2.74
507 1549 5.128499 TCCAAACTGTCCATGTTCATGTTTT 59.872 36.000 11.13 1.73 0.00 2.43
726 1773 6.258068 CCATTGTTTAAGATACTCGGGTCTTC 59.742 42.308 0.00 0.00 36.23 2.87
840 1930 5.753438 GGGTTTAAGTCTTGCTTTTGGAAAG 59.247 40.000 0.00 0.00 38.57 2.62
948 2077 3.146066 TGCCAATTCACTGGTTCACTAC 58.854 45.455 0.00 0.00 38.86 2.73
1213 2378 5.244626 CAGGTGAACATCCTTGGAAGAAAAT 59.755 40.000 0.00 0.00 32.37 1.82
1246 2411 1.411977 CACAATTGCTGTTGAACCCCA 59.588 47.619 5.05 0.00 35.47 4.96
1335 2500 1.287815 CGCACAGTGACTTCCCGTA 59.712 57.895 4.15 0.00 0.00 4.02
1746 2911 4.630069 AGGTGACGAAAATTACTCCGATTG 59.370 41.667 0.00 0.00 0.00 2.67
1761 2926 2.875933 GTTTTGGATGAACAGGTGACGA 59.124 45.455 0.00 0.00 0.00 4.20
1809 2974 1.878953 CTGGACTTGTACGCTGGTTT 58.121 50.000 0.00 0.00 0.00 3.27
2115 3289 0.603065 GCAACCCAATGACTTCCACC 59.397 55.000 0.00 0.00 0.00 4.61
2145 3319 7.704899 CCAAACTTAAACTTTCCAAACAGGTAG 59.295 37.037 0.00 0.00 39.02 3.18
2359 3542 4.639135 ACTTCTGAACTGCCTTTGAAAC 57.361 40.909 0.00 0.00 0.00 2.78
2645 3828 0.329596 GGTGAAGCTCCCAAGGTCAT 59.670 55.000 0.00 0.00 31.34 3.06
2752 3935 1.887198 CTGGACTGAGACAAGGTACGT 59.113 52.381 0.00 0.00 0.00 3.57
2782 3965 5.010012 TGCCTGAAAGATCAAAGAGGTTTTC 59.990 40.000 0.00 0.00 34.49 2.29
2785 3968 4.104383 TGCCTGAAAGATCAAAGAGGTT 57.896 40.909 0.00 0.00 34.49 3.50
2832 4015 1.208293 GAATCGAGGGCAACTTCCTCT 59.792 52.381 8.28 0.00 46.43 3.69
2956 4139 2.476686 CGACGTATTTCACAGCGGACTA 60.477 50.000 0.00 0.00 0.00 2.59
3033 4216 3.896648 AATGAATCGTGTTTGCTCGTT 57.103 38.095 0.00 0.00 33.82 3.85
3035 4218 3.842428 CAGAAATGAATCGTGTTTGCTCG 59.158 43.478 0.00 0.00 0.00 5.03
3051 4234 5.997746 TGAATCAACCGTCTTCTTCAGAAAT 59.002 36.000 0.00 0.00 31.28 2.17
3121 4304 0.392193 CTTGCAGAAGGAGGCATCGT 60.392 55.000 0.00 0.00 40.17 3.73
3162 4345 7.792374 ACAACGATATAATCTGCAGACAAAT 57.208 32.000 20.97 14.76 0.00 2.32
3181 4364 1.203994 ACGGAGTCCCAGAATACAACG 59.796 52.381 2.80 0.00 29.74 4.10
3190 4373 0.324943 ATTTCACCACGGAGTCCCAG 59.675 55.000 2.80 0.00 41.61 4.45
3191 4374 0.768622 AATTTCACCACGGAGTCCCA 59.231 50.000 2.80 0.00 41.61 4.37
3200 4383 5.782047 TCATCAAATCACCAATTTCACCAC 58.218 37.500 0.00 0.00 35.32 4.16
3210 4394 1.817447 TGCGCAATCATCAAATCACCA 59.183 42.857 8.16 0.00 0.00 4.17
3244 4428 1.078709 ACAATGGCGTCGTCTTCATG 58.921 50.000 0.00 0.00 0.00 3.07
3266 4450 0.911769 ACCTTTGGGAGCATCGATCA 59.088 50.000 0.00 0.00 34.37 2.92
3270 4454 3.190878 GCACCTTTGGGAGCATCG 58.809 61.111 0.00 0.00 46.21 3.84
3338 4522 3.557595 GCATAGTACTCCATGCACAAGTC 59.442 47.826 20.82 0.00 45.51 3.01
3374 4558 2.755655 TGCCCGAGAAAACACAAGAAAA 59.244 40.909 0.00 0.00 0.00 2.29
3431 4615 6.012858 TCAGGTATGGTTTTCTACAATGGTCT 60.013 38.462 0.00 0.00 0.00 3.85
3433 4617 6.134535 TCAGGTATGGTTTTCTACAATGGT 57.865 37.500 0.00 0.00 0.00 3.55
3435 4619 6.017934 CCGATCAGGTATGGTTTTCTACAATG 60.018 42.308 0.00 0.00 34.51 2.82
3436 4620 6.055588 CCGATCAGGTATGGTTTTCTACAAT 58.944 40.000 0.00 0.00 34.51 2.71
3437 4621 5.424757 CCGATCAGGTATGGTTTTCTACAA 58.575 41.667 0.00 0.00 34.51 2.41
3438 4622 4.682320 GCCGATCAGGTATGGTTTTCTACA 60.682 45.833 0.00 0.00 43.70 2.74
3439 4623 3.808174 GCCGATCAGGTATGGTTTTCTAC 59.192 47.826 0.00 0.00 43.70 2.59
3440 4624 3.491964 CGCCGATCAGGTATGGTTTTCTA 60.492 47.826 0.00 0.00 43.70 2.10
3441 4625 2.741878 CGCCGATCAGGTATGGTTTTCT 60.742 50.000 0.00 0.00 43.70 2.52
3507 4700 8.592809 TGGTTTTTATAAAAGACCAATGCATCT 58.407 29.630 25.97 0.00 36.77 2.90
3611 4828 2.014857 CAGAACATGGCCAGATCACAG 58.985 52.381 13.05 0.28 0.00 3.66
3614 4831 0.328926 TGCAGAACATGGCCAGATCA 59.671 50.000 13.05 0.00 0.00 2.92
3615 4832 0.737219 GTGCAGAACATGGCCAGATC 59.263 55.000 13.05 9.42 0.00 2.75
3616 4833 0.330604 AGTGCAGAACATGGCCAGAT 59.669 50.000 13.05 0.00 0.00 2.90
3618 4835 0.892358 ACAGTGCAGAACATGGCCAG 60.892 55.000 13.05 6.08 0.00 4.85
3619 4836 1.151221 ACAGTGCAGAACATGGCCA 59.849 52.632 8.56 8.56 0.00 5.36
3640 4857 5.815581 ACCTGCTATTATGTGGACAAGAAA 58.184 37.500 0.00 0.00 0.00 2.52
3643 4860 4.201950 GCAACCTGCTATTATGTGGACAAG 60.202 45.833 0.00 0.00 40.96 3.16
3688 4905 1.566018 GAACCGCTTCAACCCAGACG 61.566 60.000 0.00 0.00 0.00 4.18
3740 4957 1.305201 GAACCGCTTCAACCAAGACA 58.695 50.000 0.00 0.00 33.29 3.41
3745 4962 1.153127 AACCGAACCGCTTCAACCA 60.153 52.632 0.00 0.00 0.00 3.67
3761 4978 0.038343 ACACGGAAATGCATGGCAAC 60.038 50.000 0.00 0.00 43.62 4.17
3783 5000 1.203125 TCAACCCAGACCAAAATCCCC 60.203 52.381 0.00 0.00 0.00 4.81
3827 5095 3.084039 AGGTGCAACATAACCACATCAG 58.916 45.455 3.64 0.00 39.98 2.90
3864 5140 1.607148 GTCACAAGGGTGGTAGCAAAC 59.393 52.381 0.00 0.00 45.32 2.93
3867 5143 0.396435 CAGTCACAAGGGTGGTAGCA 59.604 55.000 0.00 0.00 45.32 3.49
3872 5148 2.263741 GCAGCAGTCACAAGGGTGG 61.264 63.158 0.00 0.00 45.32 4.61
3880 5156 2.273370 CATGAAATGGCAGCAGTCAC 57.727 50.000 0.00 0.00 41.79 3.67
3904 5180 2.416202 TGCTGTTAACATGTGATCGCAG 59.584 45.455 15.24 9.26 0.00 5.18
3906 5182 3.469899 TTGCTGTTAACATGTGATCGC 57.530 42.857 9.13 7.72 0.00 4.58
3930 5213 1.654105 GTCCAATTAGTCGTCACTGCG 59.346 52.381 0.00 0.00 33.62 5.18
3967 5250 0.988832 ATCGGGTTAAGTGGGCTGAA 59.011 50.000 0.00 0.00 0.00 3.02
3999 5282 2.608090 GAGCAATCGTAAAGTAGGCACC 59.392 50.000 0.00 0.00 0.00 5.01
4030 5313 8.794335 AAAGATGATTACTCCAGGTTAAAGAC 57.206 34.615 0.00 0.00 0.00 3.01
4056 5339 8.783903 AGAAGATCTAAGACTAAGAAGGAGGTA 58.216 37.037 0.00 0.00 0.00 3.08
4057 5340 7.648770 AGAAGATCTAAGACTAAGAAGGAGGT 58.351 38.462 0.00 0.00 0.00 3.85
4084 5367 6.421801 GTGAACGGTTAAAAGAACAGCTACTA 59.578 38.462 0.00 0.00 0.00 1.82
4087 5533 5.362263 AGTGAACGGTTAAAAGAACAGCTA 58.638 37.500 0.00 0.00 0.00 3.32
4098 5544 3.519579 TCACGAACAAGTGAACGGTTAA 58.480 40.909 0.00 0.00 46.81 2.01


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

AutoCloner maintained by Alex Coulton.