Multiple sequence alignment - TraesCS6B01G156600

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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 TraesCS6B01G156600 chr6B 100.000 3356 0 0 1 3356 159283745 159287100 0.000000e+00 6198.0
1 TraesCS6B01G156600 chr6B 85.567 2127 248 41 263 2370 158289821 158287735 0.000000e+00 2172.0
2 TraesCS6B01G156600 chr6B 88.088 1553 154 17 740 2268 159371656 159373201 0.000000e+00 1814.0
3 TraesCS6B01G156600 chr6B 82.424 495 45 25 3 473 159367821 159368297 8.730000e-106 394.0
4 TraesCS6B01G156600 chr6D 93.459 2385 136 14 2 2370 83488976 83491356 0.000000e+00 3522.0
5 TraesCS6B01G156600 chr6D 85.983 2126 242 39 263 2370 83225663 83223576 0.000000e+00 2224.0
6 TraesCS6B01G156600 chr6D 92.671 996 49 18 2366 3350 83491390 83492372 0.000000e+00 1413.0
7 TraesCS6B01G156600 chr6D 77.003 387 43 23 2369 2733 83223540 83223178 2.660000e-41 180.0
8 TraesCS6B01G156600 chr6A 88.251 1847 179 23 661 2474 100426726 100424885 0.000000e+00 2174.0
9 TraesCS6B01G156600 chr6A 86.671 1553 155 26 740 2268 100734175 100735699 0.000000e+00 1674.0
10 TraesCS6B01G156600 chr6A 85.455 385 46 5 548 924 100733292 100733674 3.140000e-105 392.0
11 TraesCS6B01G156600 chr6A 88.353 249 22 6 137 381 100733131 100733376 3.280000e-75 292.0
12 TraesCS6B01G156600 chr6A 89.855 69 2 2 2307 2370 100735709 100735777 2.150000e-12 84.2
13 TraesCS6B01G156600 chr4A 85.714 259 34 2 3068 3325 383497792 383498048 1.530000e-68 270.0
14 TraesCS6B01G156600 chr7B 83.398 259 39 3 3068 3325 289233767 289233512 1.560000e-58 237.0
15 TraesCS6B01G156600 chr3D 81.008 258 44 4 3070 3325 229119050 229118796 2.040000e-47 200.0
16 TraesCS6B01G156600 chr4D 80.620 258 44 5 3070 3325 320544612 320544359 9.500000e-46 195.0
17 TraesCS6B01G156600 chr4D 84.694 98 12 3 3229 3325 318611504 318611409 9.910000e-16 95.3
18 TraesCS6B01G156600 chr7D 86.826 167 19 3 761 926 45072463 45072299 2.060000e-42 183.0
19 TraesCS6B01G156600 chr5D 78.462 260 49 6 3068 3325 215858931 215859185 2.680000e-36 163.0
20 TraesCS6B01G156600 chr3B 81.667 180 29 4 3147 3325 500295848 500296024 2.700000e-31 147.0
21 TraesCS6B01G156600 chr2A 82.653 98 15 2 3225 3322 645961924 645962019 5.970000e-13 86.1


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 TraesCS6B01G156600 chr6B 159283745 159287100 3355 False 6198.00 6198 100.0000 1 3356 1 chr6B.!!$F1 3355
1 TraesCS6B01G156600 chr6B 158287735 158289821 2086 True 2172.00 2172 85.5670 263 2370 1 chr6B.!!$R1 2107
2 TraesCS6B01G156600 chr6B 159367821 159373201 5380 False 1104.00 1814 85.2560 3 2268 2 chr6B.!!$F2 2265
3 TraesCS6B01G156600 chr6D 83488976 83492372 3396 False 2467.50 3522 93.0650 2 3350 2 chr6D.!!$F1 3348
4 TraesCS6B01G156600 chr6D 83223178 83225663 2485 True 1202.00 2224 81.4930 263 2733 2 chr6D.!!$R1 2470
5 TraesCS6B01G156600 chr6A 100424885 100426726 1841 True 2174.00 2174 88.2510 661 2474 1 chr6A.!!$R1 1813
6 TraesCS6B01G156600 chr6A 100733131 100735777 2646 False 610.55 1674 87.5835 137 2370 4 chr6A.!!$F1 2233

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
682 2593 0.242017 GGATGTTGGCTGACTGTTGC 59.758 55.0 0.00 0.0 0.00 4.17 F
1049 4405 0.104855 AACTCAAGTGCGAGTGAGCA 59.895 50.0 9.53 0.0 45.56 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1614 4970 0.033366 ATACGTATGCCATGCGCTCA 59.967 50.0 15.2 1.31 42.26 4.26 R
2922 6346 0.676184 AGCAGAGACAAAGACGCTGA 59.324 50.0 0.0 0.00 37.36 4.26 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
232 235 2.505337 CGACGAACATTCCGCCGA 60.505 61.111 0.00 0.00 0.00 5.54
234 237 1.418342 CGACGAACATTCCGCCGAAT 61.418 55.000 0.00 0.00 39.39 3.34
286 305 3.878245 GCGTTAGCAAAATCTGATAGGC 58.122 45.455 0.00 0.00 44.35 3.93
310 331 6.092259 GCTACGGATGATGGGTAATATTTGTC 59.908 42.308 0.00 0.00 0.00 3.18
317 341 9.725019 GATGATGGGTAATATTTGTCTGTGATA 57.275 33.333 0.00 0.00 0.00 2.15
318 342 9.730705 ATGATGGGTAATATTTGTCTGTGATAG 57.269 33.333 0.00 0.00 0.00 2.08
319 343 7.661437 TGATGGGTAATATTTGTCTGTGATAGC 59.339 37.037 0.00 0.00 0.00 2.97
323 347 8.682710 GGGTAATATTTGTCTGTGATAGCAAAA 58.317 33.333 0.00 0.00 36.62 2.44
372 398 1.471676 GCTGTGTGCCGCTTATAGTCT 60.472 52.381 0.00 0.00 35.15 3.24
383 410 5.230942 CCGCTTATAGTCTTATTGTGGGAG 58.769 45.833 0.00 0.00 0.00 4.30
385 412 6.153067 CGCTTATAGTCTTATTGTGGGAGAG 58.847 44.000 0.00 0.00 0.00 3.20
389 416 4.457834 AGTCTTATTGTGGGAGAGTTCG 57.542 45.455 0.00 0.00 0.00 3.95
392 419 3.194968 TCTTATTGTGGGAGAGTTCGGAC 59.805 47.826 0.00 0.00 0.00 4.79
428 455 3.857052 TGTTTGTGTTGTCGAGAGAAGT 58.143 40.909 0.00 0.00 45.01 3.01
592 2144 8.212995 TGATAGCAAAATGTGATGGATTCTAGA 58.787 33.333 0.00 0.00 0.00 2.43
593 2145 9.228949 GATAGCAAAATGTGATGGATTCTAGAT 57.771 33.333 0.00 0.00 0.00 1.98
608 2160 9.502091 TGGATTCTAGATATTATTTTCCCGTTG 57.498 33.333 0.00 0.00 0.00 4.10
632 2345 4.398044 TGTTCTGCTCATAGTCGTATGTGA 59.602 41.667 0.73 0.00 37.81 3.58
663 2376 7.921786 TTAGATTGAATGTTTACTGGTGAGG 57.078 36.000 0.00 0.00 0.00 3.86
682 2593 0.242017 GGATGTTGGCTGACTGTTGC 59.758 55.000 0.00 0.00 0.00 4.17
683 2594 1.242076 GATGTTGGCTGACTGTTGCT 58.758 50.000 6.67 0.00 0.00 3.91
695 2606 4.713553 TGACTGTTGCTAAAATCTGACCA 58.286 39.130 0.00 0.00 0.00 4.02
704 2615 3.880047 AAAATCTGACCATGCATGTGG 57.120 42.857 24.58 15.19 45.04 4.17
705 2616 2.812836 AATCTGACCATGCATGTGGA 57.187 45.000 24.58 15.94 42.02 4.02
731 2642 1.408702 TGTTGTGCTTCTTTTGGCTCC 59.591 47.619 0.00 0.00 0.00 4.70
769 4099 3.452990 TGCAACTTCGGATAGGGTATGAA 59.547 43.478 0.00 0.00 0.00 2.57
814 4145 2.805099 CTCAAGTCTGTCAAAGTGCCTC 59.195 50.000 0.00 0.00 0.00 4.70
815 4146 2.170397 TCAAGTCTGTCAAAGTGCCTCA 59.830 45.455 0.00 0.00 0.00 3.86
838 4169 4.766375 ACTTAATGGTAGCGCTGTACATT 58.234 39.130 27.23 27.23 0.00 2.71
875 4206 0.889186 ACAAGTGACGGGTGGCATTC 60.889 55.000 0.00 0.00 0.00 2.67
930 4261 5.177696 GCAAGTTTGAGTTGTGACTAGTAGG 59.822 44.000 0.00 0.00 35.88 3.18
976 4308 5.321959 TCAGAACTCAGCTGATAAGTCTG 57.678 43.478 25.45 25.45 37.46 3.51
1039 4395 1.069906 GCGCAACCACTAACTCAAGTG 60.070 52.381 0.30 0.00 45.33 3.16
1046 4402 2.288213 CCACTAACTCAAGTGCGAGTGA 60.288 50.000 16.07 0.00 45.56 3.41
1049 4405 0.104855 AACTCAAGTGCGAGTGAGCA 59.895 50.000 9.53 0.00 45.56 4.26
1348 4704 1.079197 ATCTTCATCCGCGTGCACA 60.079 52.632 18.64 0.00 0.00 4.57
1372 4728 0.904865 ATGCTTCGAGGACCACTCCA 60.905 55.000 0.00 0.00 43.57 3.86
1404 4760 1.413662 CCTGATGGCCTCCTTCTCCTA 60.414 57.143 3.32 0.00 0.00 2.94
1421 4777 1.406069 CCTACAGCGCAAGAAGGATGT 60.406 52.381 11.47 4.86 43.02 3.06
1431 4787 4.393062 CGCAAGAAGGATGTTGTTATCTGT 59.607 41.667 0.00 0.00 43.02 3.41
1489 4845 2.759114 CCCTTGCTTCCCTCTGCA 59.241 61.111 0.00 0.00 37.42 4.41
1545 4901 4.765856 GGCCCTTATGATCTTCTACTACGA 59.234 45.833 0.00 0.00 0.00 3.43
1574 4930 2.512515 GGCTGTCTCCGTCCATGC 60.513 66.667 0.00 0.00 0.00 4.06
1593 4949 1.749286 GCGGGTGGCAGTATTACCATT 60.749 52.381 0.00 0.00 42.87 3.16
1614 4970 4.127040 CTCGCTCTCAGCCACGCT 62.127 66.667 0.00 0.00 38.18 5.07
1671 5027 2.234661 CTGGACTCACACAAGCTGGATA 59.765 50.000 0.00 0.00 0.00 2.59
1795 5151 0.900647 CTCCAGTTCCTCCTCGTGGT 60.901 60.000 2.99 0.00 34.23 4.16
1806 5162 1.239296 CCTCGTGGTCGTCTACACCA 61.239 60.000 0.00 0.00 41.91 4.17
1809 5165 3.357919 TGGTCGTCTACACCACCG 58.642 61.111 0.00 0.00 39.11 4.94
1889 5246 5.221126 GCAATTCTGAACTTCTTCTGGTTGT 60.221 40.000 0.00 0.00 31.57 3.32
2104 5461 1.196354 GACTGCGGCAATATGATCTGC 59.804 52.381 3.44 0.00 37.86 4.26
2108 5465 0.110509 CGGCAATATGATCTGCGCAC 60.111 55.000 5.66 0.00 39.55 5.34
2147 5504 4.532126 ACTGTGTGATGGATACTTCCTCAA 59.468 41.667 0.00 0.00 43.07 3.02
2243 5600 1.149101 AGTGGACACATTTGGACCCT 58.851 50.000 5.14 0.00 0.00 4.34
2270 5627 2.557317 TCGTTCTCAACCTTGTTGGAC 58.443 47.619 7.08 3.88 39.71 4.02
2301 5658 6.072728 TCGCTTTAGCACATAGAAATGTTTGT 60.073 34.615 2.29 0.00 44.70 2.83
2302 5659 6.032775 CGCTTTAGCACATAGAAATGTTTGTG 59.967 38.462 2.29 0.00 44.70 3.33
2370 5732 2.354510 TGTTTGAACGTCTCTGCTTTGG 59.645 45.455 0.00 0.00 0.00 3.28
2371 5733 0.944386 TTGAACGTCTCTGCTTTGGC 59.056 50.000 0.00 0.00 39.26 4.52
2372 5734 0.884704 TGAACGTCTCTGCTTTGGCC 60.885 55.000 0.00 0.00 37.74 5.36
2373 5735 0.884704 GAACGTCTCTGCTTTGGCCA 60.885 55.000 0.00 0.00 37.74 5.36
2374 5736 1.166531 AACGTCTCTGCTTTGGCCAC 61.167 55.000 3.88 0.00 37.74 5.01
2375 5737 1.597854 CGTCTCTGCTTTGGCCACA 60.598 57.895 3.88 0.00 37.74 4.17
2376 5738 0.957395 CGTCTCTGCTTTGGCCACAT 60.957 55.000 3.88 0.00 37.74 3.21
2437 5843 9.477484 CTACAGTGTGTCTACTTTTGTTAAGAT 57.523 33.333 5.88 0.00 0.00 2.40
2486 5892 7.461749 TCAGAAATATTCTCCCTTTGAACTGT 58.538 34.615 0.00 0.00 38.11 3.55
2520 5926 3.469008 TCATTCTGTCGTTCAACTGGT 57.531 42.857 0.00 0.00 0.00 4.00
2521 5927 3.130633 TCATTCTGTCGTTCAACTGGTG 58.869 45.455 0.00 0.00 0.00 4.17
2561 5967 3.323691 TGTAGCTTCTGCCTGTGACTTAA 59.676 43.478 0.00 0.00 40.80 1.85
2657 6075 6.255887 GCTCTAAATTGCGTATGTAGAGTTGT 59.744 38.462 19.37 0.00 46.57 3.32
2696 6114 1.531602 AAGCTGTTCAGGGCCAACC 60.532 57.895 6.18 0.00 40.67 3.77
2740 6162 7.652909 TCTGTTTTCTTCATTTTGGCAATAGTG 59.347 33.333 0.00 0.59 0.00 2.74
2744 6166 3.464720 TCATTTTGGCAATAGTGGGGA 57.535 42.857 0.00 0.00 0.00 4.81
2756 6178 2.950990 AGTGGGGAGTAGAATGACCT 57.049 50.000 0.00 0.00 0.00 3.85
2806 6228 0.178990 ACAGCTCAAAACAGGGACCC 60.179 55.000 0.59 0.59 0.00 4.46
2808 6230 0.111253 AGCTCAAAACAGGGACCCAG 59.889 55.000 14.60 7.48 0.00 4.45
2814 6236 5.264395 CTCAAAACAGGGACCCAGAATAAT 58.736 41.667 14.60 0.00 0.00 1.28
2843 6266 7.931275 ACTACAACTTTGTCCTTGAGATTTTC 58.069 34.615 0.00 0.00 42.35 2.29
2852 6275 5.163099 TGTCCTTGAGATTTTCAGGAAGGAA 60.163 40.000 0.00 0.00 40.39 3.36
2861 6284 5.640158 TTTTCAGGAAGGAACCTAGACAA 57.360 39.130 0.00 0.00 38.32 3.18
2885 6309 5.549742 AAAGATTGCATTTGGGTCTTTGA 57.450 34.783 0.00 0.00 37.64 2.69
2900 6324 4.049186 GTCTTTGACTGTCACGAAGCTTA 58.951 43.478 10.56 0.00 0.00 3.09
2901 6325 4.049186 TCTTTGACTGTCACGAAGCTTAC 58.951 43.478 10.56 0.00 0.00 2.34
2902 6326 3.446310 TTGACTGTCACGAAGCTTACA 57.554 42.857 10.56 0.00 0.00 2.41
2903 6327 3.660501 TGACTGTCACGAAGCTTACAT 57.339 42.857 6.36 0.00 0.00 2.29
2904 6328 3.317150 TGACTGTCACGAAGCTTACATG 58.683 45.455 6.36 0.00 0.00 3.21
2905 6329 2.069273 ACTGTCACGAAGCTTACATGC 58.931 47.619 0.00 0.00 0.00 4.06
2907 6331 1.798223 TGTCACGAAGCTTACATGCAC 59.202 47.619 0.00 0.31 34.99 4.57
2908 6332 1.128692 GTCACGAAGCTTACATGCACC 59.871 52.381 0.00 0.00 34.99 5.01
2910 6334 1.739466 CACGAAGCTTACATGCACCAT 59.261 47.619 0.00 0.00 34.99 3.55
2912 6336 1.331756 CGAAGCTTACATGCACCATCC 59.668 52.381 0.00 0.00 34.99 3.51
2913 6337 1.678101 GAAGCTTACATGCACCATCCC 59.322 52.381 0.00 0.00 34.99 3.85
2914 6338 0.106519 AGCTTACATGCACCATCCCC 60.107 55.000 0.00 0.00 34.99 4.81
2915 6339 1.447317 GCTTACATGCACCATCCCCG 61.447 60.000 0.00 0.00 0.00 5.73
2916 6340 1.447317 CTTACATGCACCATCCCCGC 61.447 60.000 0.00 0.00 0.00 6.13
2917 6341 2.203549 TTACATGCACCATCCCCGCA 62.204 55.000 0.00 0.00 40.50 5.69
2918 6342 1.993701 TACATGCACCATCCCCGCAT 61.994 55.000 0.00 0.00 46.98 4.73
2919 6343 2.129146 CATGCACCATCCCCGCATT 61.129 57.895 0.00 0.00 43.67 3.56
2920 6344 1.381599 ATGCACCATCCCCGCATTT 60.382 52.632 0.00 0.00 43.67 2.32
2921 6345 1.678598 ATGCACCATCCCCGCATTTG 61.679 55.000 0.00 0.00 43.67 2.32
2922 6346 2.350458 GCACCATCCCCGCATTTGT 61.350 57.895 0.00 0.00 0.00 2.83
2923 6347 1.809207 CACCATCCCCGCATTTGTC 59.191 57.895 0.00 0.00 0.00 3.18
2924 6348 0.964860 CACCATCCCCGCATTTGTCA 60.965 55.000 0.00 0.00 0.00 3.58
2925 6349 0.680921 ACCATCCCCGCATTTGTCAG 60.681 55.000 0.00 0.00 0.00 3.51
2926 6350 1.434696 CATCCCCGCATTTGTCAGC 59.565 57.895 0.00 0.00 0.00 4.26
3095 6526 9.391006 GTTGAAACAATCATGAACTAGGGTATA 57.609 33.333 0.00 0.00 38.03 1.47
3111 6542 8.702819 ACTAGGGTATAAAGTTGTTATCTGTCC 58.297 37.037 0.00 0.00 0.00 4.02
3112 6543 6.896883 AGGGTATAAAGTTGTTATCTGTCCC 58.103 40.000 0.00 0.00 0.00 4.46
3129 6560 7.328277 TCTGTCCCCGTAATAAAATTGATTG 57.672 36.000 0.00 0.00 0.00 2.67
3130 6561 7.113437 TCTGTCCCCGTAATAAAATTGATTGA 58.887 34.615 0.00 0.00 0.00 2.57
3135 6566 9.409918 TCCCCGTAATAAAATTGATTGACAATA 57.590 29.630 0.00 0.00 46.90 1.90
3309 6741 1.153823 CGGTACTTGCTCAGGGACG 60.154 63.158 0.00 0.00 0.00 4.79
3334 6766 4.249661 CAAGACTTAAGCTCCAGTTCCTC 58.750 47.826 1.29 0.00 0.00 3.71
3340 6772 0.968393 AGCTCCAGTTCCTCCTCGTC 60.968 60.000 0.00 0.00 0.00 4.20
3350 6782 5.232414 CAGTTCCTCCTCGTCGATTATTTTC 59.768 44.000 0.00 0.00 0.00 2.29
3351 6783 4.994907 TCCTCCTCGTCGATTATTTTCA 57.005 40.909 0.00 0.00 0.00 2.69
3352 6784 4.679662 TCCTCCTCGTCGATTATTTTCAC 58.320 43.478 0.00 0.00 0.00 3.18
3353 6785 3.802685 CCTCCTCGTCGATTATTTTCACC 59.197 47.826 0.00 0.00 0.00 4.02
3354 6786 3.788937 TCCTCGTCGATTATTTTCACCC 58.211 45.455 0.00 0.00 0.00 4.61
3355 6787 2.870411 CCTCGTCGATTATTTTCACCCC 59.130 50.000 0.00 0.00 0.00 4.95
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
100 101 2.541556 CTTTACTCGCTACAGGAAGGC 58.458 52.381 0.00 0.00 0.00 4.35
212 213 2.395690 GCGGAATGTTCGTCGCTG 59.604 61.111 8.47 0.00 44.10 5.18
230 233 1.488527 GAAGCGTACCTAGGCATTCG 58.511 55.000 9.30 9.69 39.38 3.34
232 235 1.139058 CAGGAAGCGTACCTAGGCATT 59.861 52.381 9.30 0.00 39.38 3.56
234 237 0.323999 TCAGGAAGCGTACCTAGGCA 60.324 55.000 9.30 0.00 39.38 4.75
286 305 7.331934 CAGACAAATATTACCCATCATCCGTAG 59.668 40.741 0.00 0.00 0.00 3.51
310 331 6.318144 AGAATCCATCAGTTTTGCTATCACAG 59.682 38.462 0.00 0.00 0.00 3.66
317 341 7.951347 AAATCTAGAATCCATCAGTTTTGCT 57.049 32.000 0.00 0.00 0.00 3.91
318 342 8.866956 CAAAAATCTAGAATCCATCAGTTTTGC 58.133 33.333 0.00 0.00 0.00 3.68
319 343 9.918630 ACAAAAATCTAGAATCCATCAGTTTTG 57.081 29.630 0.00 2.51 37.91 2.44
361 387 6.085555 TCTCCCACAATAAGACTATAAGCG 57.914 41.667 0.00 0.00 0.00 4.68
372 398 2.235402 GGTCCGAACTCTCCCACAATAA 59.765 50.000 0.00 0.00 0.00 1.40
383 410 4.208666 GCAGTAAATAATCGGTCCGAACTC 59.791 45.833 19.76 6.64 39.99 3.01
385 412 4.025979 CAGCAGTAAATAATCGGTCCGAAC 60.026 45.833 19.76 10.76 39.99 3.95
389 416 5.123344 ACAAACAGCAGTAAATAATCGGTCC 59.877 40.000 0.00 0.00 0.00 4.46
392 419 5.938322 ACACAAACAGCAGTAAATAATCGG 58.062 37.500 0.00 0.00 0.00 4.18
428 455 2.957680 TGAAAACAGAATCAGCCAGCAA 59.042 40.909 0.00 0.00 0.00 3.91
458 485 1.727511 AAGCACAAGCACACGCACAT 61.728 50.000 0.00 0.00 45.49 3.21
592 2144 6.377146 AGCAGAACACAACGGGAAAATAATAT 59.623 34.615 0.00 0.00 0.00 1.28
593 2145 5.708230 AGCAGAACACAACGGGAAAATAATA 59.292 36.000 0.00 0.00 0.00 0.98
597 2149 2.293399 GAGCAGAACACAACGGGAAAAT 59.707 45.455 0.00 0.00 0.00 1.82
601 2153 0.396435 ATGAGCAGAACACAACGGGA 59.604 50.000 0.00 0.00 0.00 5.14
608 2160 4.500837 CACATACGACTATGAGCAGAACAC 59.499 45.833 0.00 0.00 34.77 3.32
632 2345 9.643693 CCAGTAAACATTCAATCTAATTTTGCT 57.356 29.630 0.00 0.00 0.00 3.91
662 2375 0.883833 CAACAGTCAGCCAACATCCC 59.116 55.000 0.00 0.00 0.00 3.85
663 2376 0.242017 GCAACAGTCAGCCAACATCC 59.758 55.000 0.00 0.00 0.00 3.51
682 2593 4.641541 TCCACATGCATGGTCAGATTTTAG 59.358 41.667 29.41 0.88 40.95 1.85
683 2594 4.598022 TCCACATGCATGGTCAGATTTTA 58.402 39.130 29.41 1.45 40.95 1.52
695 2606 1.203758 CAACAGCACATCCACATGCAT 59.796 47.619 0.00 0.00 44.59 3.96
704 2615 3.360249 AAAGAAGCACAACAGCACATC 57.640 42.857 0.00 0.00 36.85 3.06
705 2616 3.450578 CAAAAGAAGCACAACAGCACAT 58.549 40.909 0.00 0.00 36.85 3.21
731 2642 1.169661 TGCAAAAGGGCACTACCGTG 61.170 55.000 0.00 0.00 44.07 4.94
814 4145 3.930229 TGTACAGCGCTACCATTAAGTTG 59.070 43.478 10.99 0.00 0.00 3.16
815 4146 4.196626 TGTACAGCGCTACCATTAAGTT 57.803 40.909 10.99 0.00 0.00 2.66
838 4169 8.868916 GTCACTTGTTTTTCTTCTAATTTTGCA 58.131 29.630 0.00 0.00 0.00 4.08
860 4191 0.392998 ATGAGAATGCCACCCGTCAC 60.393 55.000 0.00 0.00 0.00 3.67
875 4206 8.615211 TGACATTGCTTTAGTGCTATTTATGAG 58.385 33.333 0.00 0.00 0.00 2.90
976 4308 1.213182 GATTCCCCCTGAGAAGGAACC 59.787 57.143 5.47 0.00 42.27 3.62
1039 4395 2.435586 AGTGCCATGCTCACTCGC 60.436 61.111 11.59 0.00 40.47 5.03
1046 4402 1.530013 GGCTTGTTGAGTGCCATGCT 61.530 55.000 0.00 0.00 45.46 3.79
1348 4704 0.982852 TGGTCCTCGAAGCATGGGAT 60.983 55.000 0.00 0.00 0.00 3.85
1372 4728 1.145598 CATCAGGGCAGTCGAGCAT 59.854 57.895 0.00 0.00 35.83 3.79
1404 4760 0.877071 CAACATCCTTCTTGCGCTGT 59.123 50.000 9.73 0.00 0.00 4.40
1421 4777 2.838202 GGGTGGAGGAGACAGATAACAA 59.162 50.000 0.00 0.00 0.00 2.83
1431 4787 1.229529 GGTGAAGGGGTGGAGGAGA 60.230 63.158 0.00 0.00 0.00 3.71
1489 4845 7.200434 AGATCCCAAACTTACTCATGTACAT 57.800 36.000 1.41 1.41 0.00 2.29
1545 4901 1.302511 GACAGCCGTGTGGACCATT 60.303 57.895 0.00 0.00 36.88 3.16
1574 4930 2.341846 AATGGTAATACTGCCACCCG 57.658 50.000 0.00 0.00 40.51 5.28
1593 4949 1.439228 GTGGCTGAGAGCGAGCATA 59.561 57.895 0.00 0.00 43.62 3.14
1614 4970 0.033366 ATACGTATGCCATGCGCTCA 59.967 50.000 15.20 1.31 42.26 4.26
1671 5027 1.681166 GCTGTCCTCATGCCACTCATT 60.681 52.381 0.00 0.00 31.79 2.57
1795 5151 0.319083 ATTTGCGGTGGTGTAGACGA 59.681 50.000 0.00 0.00 0.00 4.20
1806 5162 1.031571 ATGTGGCGATCATTTGCGGT 61.032 50.000 0.00 0.00 32.51 5.68
1809 5165 1.534595 GGACATGTGGCGATCATTTGC 60.535 52.381 1.15 0.00 0.00 3.68
1844 5201 3.370527 GCACTCCACCAGATAAGGCTTAA 60.371 47.826 11.59 0.00 0.00 1.85
1889 5246 2.947652 CGGGACTTTCTGTCGGTATAGA 59.052 50.000 0.00 0.00 46.24 1.98
2104 5461 2.126071 CGACCAGGTACCTGTGCG 60.126 66.667 34.49 30.95 42.15 5.34
2147 5504 1.349542 TGGTATGGGGCCGTTAGCAT 61.350 55.000 10.96 5.07 46.50 3.79
2221 5578 2.154462 GGTCCAAATGTGTCCACTGAG 58.846 52.381 0.00 0.00 0.00 3.35
2243 5600 3.576982 ACAAGGTTGAGAACGATGGTAGA 59.423 43.478 0.00 0.00 0.00 2.59
2270 5627 8.642885 CATTTCTATGTGCTAAAGCGACTATAG 58.357 37.037 0.00 0.00 45.83 1.31
2302 5659 1.463831 CAACTGATCACTGCAGACTGC 59.536 52.381 23.35 20.86 45.29 4.40
2349 5711 2.354510 CCAAAGCAGAGACGTTCAAACA 59.645 45.455 0.00 0.00 0.00 2.83
2370 5732 2.456577 ACATCCCAAACCTTATGTGGC 58.543 47.619 0.00 0.00 31.56 5.01
2371 5733 6.406849 CCAAATACATCCCAAACCTTATGTGG 60.407 42.308 0.00 0.00 34.54 4.17
2372 5734 6.572519 CCAAATACATCCCAAACCTTATGTG 58.427 40.000 0.00 0.00 34.54 3.21
2373 5735 5.128663 GCCAAATACATCCCAAACCTTATGT 59.871 40.000 0.00 0.00 36.56 2.29
2374 5736 5.363580 AGCCAAATACATCCCAAACCTTATG 59.636 40.000 0.00 0.00 0.00 1.90
2375 5737 5.363580 CAGCCAAATACATCCCAAACCTTAT 59.636 40.000 0.00 0.00 0.00 1.73
2376 5738 4.709397 CAGCCAAATACATCCCAAACCTTA 59.291 41.667 0.00 0.00 0.00 2.69
2437 5843 8.474831 TGAATTCATCCGAGTTAGACTGAAATA 58.525 33.333 3.38 0.00 0.00 1.40
2486 5892 5.122239 CGACAGAATGATAAAAGGCTCAACA 59.878 40.000 0.00 0.00 39.69 3.33
2537 5943 3.099905 AGTCACAGGCAGAAGCTACATA 58.900 45.455 0.00 0.00 41.70 2.29
2538 5944 1.905215 AGTCACAGGCAGAAGCTACAT 59.095 47.619 0.00 0.00 41.70 2.29
2561 5967 7.770897 AGTCAATGTTCAGAGTACTTCAAGTTT 59.229 33.333 0.00 0.00 0.00 2.66
2657 6075 2.107378 TGAGCCTGGAACATGGTAAACA 59.893 45.455 0.00 0.00 38.20 2.83
2696 6114 5.065704 ACAGAGTGTAACATAGCAGTCAG 57.934 43.478 0.00 0.00 41.43 3.51
2740 6162 2.894765 GCTCTAGGTCATTCTACTCCCC 59.105 54.545 0.00 0.00 0.00 4.81
2744 6166 8.540507 TTAATGAAGCTCTAGGTCATTCTACT 57.459 34.615 12.67 0.00 33.68 2.57
2777 6199 7.769044 TCCCTGTTTTGAGCTGTATTATAACTC 59.231 37.037 0.00 0.00 0.00 3.01
2795 6217 5.269554 TCAATTATTCTGGGTCCCTGTTT 57.730 39.130 10.00 3.71 0.00 2.83
2806 6228 9.612620 GGACAAAGTTGTAGTTCAATTATTCTG 57.387 33.333 0.00 0.00 42.43 3.02
2814 6236 6.411376 TCTCAAGGACAAAGTTGTAGTTCAA 58.589 36.000 0.00 0.00 42.43 2.69
2834 6257 5.785423 TCTAGGTTCCTTCCTGAAAATCTCA 59.215 40.000 0.00 0.00 38.41 3.27
2843 6266 6.947464 TCTTTATTGTCTAGGTTCCTTCCTG 58.053 40.000 0.00 0.00 38.41 3.86
2852 6275 7.147846 CCCAAATGCAATCTTTATTGTCTAGGT 60.148 37.037 0.00 0.00 43.75 3.08
2861 6284 7.038799 AGTCAAAGACCCAAATGCAATCTTTAT 60.039 33.333 0.00 0.00 32.18 1.40
2885 6309 2.069273 GCATGTAAGCTTCGTGACAGT 58.931 47.619 0.00 0.00 0.00 3.55
2900 6324 3.363410 ATGCGGGGATGGTGCATGT 62.363 57.895 0.00 0.00 46.82 3.21
2901 6325 2.520020 ATGCGGGGATGGTGCATG 60.520 61.111 0.00 0.00 46.82 4.06
2903 6327 2.037049 AAATGCGGGGATGGTGCA 59.963 55.556 0.00 0.00 43.67 4.57
2904 6328 2.283472 GACAAATGCGGGGATGGTGC 62.283 60.000 0.00 0.00 0.00 5.01
2905 6329 0.964860 TGACAAATGCGGGGATGGTG 60.965 55.000 0.00 0.00 0.00 4.17
2907 6331 2.008268 GCTGACAAATGCGGGGATGG 62.008 60.000 0.00 0.00 0.00 3.51
2908 6332 1.434696 GCTGACAAATGCGGGGATG 59.565 57.895 0.00 0.00 0.00 3.51
2915 6339 2.031682 AGACAAAGACGCTGACAAATGC 60.032 45.455 0.00 0.00 0.00 3.56
2916 6340 3.496130 AGAGACAAAGACGCTGACAAATG 59.504 43.478 0.00 0.00 0.00 2.32
2917 6341 3.496130 CAGAGACAAAGACGCTGACAAAT 59.504 43.478 0.00 0.00 37.36 2.32
2918 6342 2.866156 CAGAGACAAAGACGCTGACAAA 59.134 45.455 0.00 0.00 37.36 2.83
2919 6343 2.473816 CAGAGACAAAGACGCTGACAA 58.526 47.619 0.00 0.00 37.36 3.18
2920 6344 1.869754 GCAGAGACAAAGACGCTGACA 60.870 52.381 0.00 0.00 37.36 3.58
2921 6345 0.787183 GCAGAGACAAAGACGCTGAC 59.213 55.000 0.00 0.00 37.36 3.51
2922 6346 0.676184 AGCAGAGACAAAGACGCTGA 59.324 50.000 0.00 0.00 37.36 4.26
2923 6347 0.788995 CAGCAGAGACAAAGACGCTG 59.211 55.000 0.00 0.00 40.68 5.18
2924 6348 0.948141 GCAGCAGAGACAAAGACGCT 60.948 55.000 0.00 0.00 0.00 5.07
2925 6349 1.224069 TGCAGCAGAGACAAAGACGC 61.224 55.000 0.00 0.00 0.00 5.19
2926 6350 1.220529 TTGCAGCAGAGACAAAGACG 58.779 50.000 0.00 0.00 0.00 4.18
3056 6481 3.275143 TGTTTCAACCGCAAAAGAGAGA 58.725 40.909 0.00 0.00 0.00 3.10
3064 6489 3.998099 TCATGATTGTTTCAACCGCAA 57.002 38.095 0.00 0.00 38.03 4.85
3095 6526 3.782656 ACGGGGACAGATAACAACTTT 57.217 42.857 0.00 0.00 0.00 2.66
3105 6536 7.066525 GTCAATCAATTTTATTACGGGGACAGA 59.933 37.037 0.00 0.00 0.00 3.41
3129 6560 2.368439 TGCAAGCCTCCACATATTGTC 58.632 47.619 0.00 0.00 0.00 3.18
3130 6561 2.512692 TGCAAGCCTCCACATATTGT 57.487 45.000 0.00 0.00 0.00 2.71
3135 6566 3.301794 TTATCATGCAAGCCTCCACAT 57.698 42.857 0.00 0.00 0.00 3.21
3207 6638 7.629157 TGAGTTCATCATTGGTTATAGGAACA 58.371 34.615 0.00 0.00 36.69 3.18
3334 6766 2.870411 GGGGTGAAAATAATCGACGAGG 59.130 50.000 3.01 0.00 0.00 4.63


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

AutoCloner maintained by Alex Coulton.