Multiple sequence alignment - TraesCS6A01G318700

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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 TraesCS6A01G318700 chr6A 100.000 3266 0 0 1 3266 554694184 554690919 0.000000e+00 6032.0
1 TraesCS6A01G318700 chr6A 91.579 190 15 1 2000 2188 554519279 554519090 8.990000e-66 261.0
2 TraesCS6A01G318700 chr6B 89.089 2612 134 63 1 2531 613575773 613573232 0.000000e+00 3105.0
3 TraesCS6A01G318700 chr6B 93.574 498 29 3 2771 3266 613572843 613572347 0.000000e+00 739.0
4 TraesCS6A01G318700 chr6B 92.857 196 11 3 2577 2772 613573237 613573045 6.900000e-72 281.0
5 TraesCS6A01G318700 chr6D 89.895 1425 62 31 505 1870 408896523 408895122 0.000000e+00 1759.0
6 TraesCS6A01G318700 chr6D 91.202 932 44 14 1886 2807 408894032 408893129 0.000000e+00 1232.0
7 TraesCS6A01G318700 chr6D 90.593 489 28 9 1 475 408897004 408896520 1.650000e-177 632.0
8 TraesCS6A01G318700 chr6D 82.955 440 54 14 2660 3085 408690382 408689950 8.550000e-101 377.0
9 TraesCS6A01G318700 chr6D 93.939 165 9 1 3102 3266 408892380 408892217 7.000000e-62 248.0
10 TraesCS6A01G318700 chr1D 87.640 712 54 12 1024 1723 491685282 491685971 0.000000e+00 797.0
11 TraesCS6A01G318700 chr7D 98.077 52 0 1 1664 1715 426824434 426824384 4.490000e-14 89.8


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 TraesCS6A01G318700 chr6A 554690919 554694184 3265 True 6032.00 6032 100.00000 1 3266 1 chr6A.!!$R2 3265
1 TraesCS6A01G318700 chr6B 613572347 613575773 3426 True 1375.00 3105 91.84000 1 3266 3 chr6B.!!$R1 3265
2 TraesCS6A01G318700 chr6D 408892217 408897004 4787 True 967.75 1759 91.40725 1 3266 4 chr6D.!!$R2 3265
3 TraesCS6A01G318700 chr1D 491685282 491685971 689 False 797.00 797 87.64000 1024 1723 1 chr1D.!!$F1 699

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
778 840 0.392595 GATCTCCCCCGTGGACAAAC 60.393 60.0 0.0 0.0 38.61 2.93 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2560 3754 0.030504 TTGTTCGGCGTCGTTACTCA 59.969 50.0 10.18 0.0 37.69 3.41 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
134 135 8.499162 GCATAGCTTATGTTTCTGTAATAGTGG 58.501 37.037 0.00 0.00 38.43 4.00
215 216 1.795170 GCTTTGGAGCCGCAGAACAA 61.795 55.000 0.00 0.00 43.29 2.83
255 256 4.137543 AGAAAAGGCTACAGAAACACCTG 58.862 43.478 0.00 0.00 39.93 4.00
316 317 7.657336 TGTCAAATTTTGGGATCAAACTAGTC 58.343 34.615 9.18 0.00 41.97 2.59
361 366 2.038426 TCCTTGAGAAGAATTGGTCGCA 59.962 45.455 0.00 0.00 0.00 5.10
378 383 3.006940 TCGCAAAGACACTGAACACTTT 58.993 40.909 0.00 0.00 33.69 2.66
393 408 4.137116 ACACTTTGCTTCTGTAGTGTCA 57.863 40.909 0.00 0.00 45.89 3.58
412 427 6.754209 AGTGTCATTGTTTGCGTTTCATAAAA 59.246 30.769 0.00 0.00 0.00 1.52
413 428 7.276658 AGTGTCATTGTTTGCGTTTCATAAAAA 59.723 29.630 0.00 0.00 0.00 1.94
440 457 4.359971 TGGCGTGAAATTCATGAAGATG 57.640 40.909 18.46 4.66 35.46 2.90
522 539 2.023673 TGTGGCAAGAAACACTCCAAG 58.976 47.619 0.00 0.00 38.39 3.61
524 541 2.427095 GTGGCAAGAAACACTCCAAGTT 59.573 45.455 0.00 0.00 34.84 2.66
547 570 8.528643 AGTTTTTGAGGCTGTAAAACTTTTACT 58.471 29.630 21.52 12.66 45.03 2.24
548 571 9.146984 GTTTTTGAGGCTGTAAAACTTTTACTT 57.853 29.630 20.20 7.90 38.24 2.24
549 572 8.696410 TTTTGAGGCTGTAAAACTTTTACTTG 57.304 30.769 20.20 15.09 0.00 3.16
550 573 6.385649 TGAGGCTGTAAAACTTTTACTTGG 57.614 37.500 20.20 13.28 0.00 3.61
551 574 5.889289 TGAGGCTGTAAAACTTTTACTTGGT 59.111 36.000 20.20 7.44 0.00 3.67
552 575 6.144078 AGGCTGTAAAACTTTTACTTGGTG 57.856 37.500 20.20 9.87 0.00 4.17
553 576 4.743151 GGCTGTAAAACTTTTACTTGGTGC 59.257 41.667 20.20 15.89 0.00 5.01
554 577 4.743151 GCTGTAAAACTTTTACTTGGTGCC 59.257 41.667 20.20 0.00 0.00 5.01
591 614 3.739300 CGTGTGATAACGGTTTCTCAACT 59.261 43.478 0.00 0.00 39.89 3.16
639 686 3.937814 ACGACTGGCAATTCAACTCATA 58.062 40.909 0.00 0.00 0.00 2.15
650 697 2.540383 TCAACTCATACCACTCTGCCT 58.460 47.619 0.00 0.00 0.00 4.75
719 766 2.359570 GATATCCACGGTTCGGCGGT 62.360 60.000 7.21 0.00 0.00 5.68
742 804 2.071778 AAACTGCCAGAAAAGAGCCA 57.928 45.000 0.00 0.00 0.00 4.75
774 836 2.758737 ACGATCTCCCCCGTGGAC 60.759 66.667 0.00 0.00 38.61 4.02
777 839 1.895020 CGATCTCCCCCGTGGACAAA 61.895 60.000 0.00 0.00 38.61 2.83
778 840 0.392595 GATCTCCCCCGTGGACAAAC 60.393 60.000 0.00 0.00 38.61 2.93
779 841 2.180159 ATCTCCCCCGTGGACAAACG 62.180 60.000 0.00 0.00 38.61 3.60
780 842 4.629523 TCCCCCGTGGACAAACGC 62.630 66.667 0.00 0.00 42.23 4.84
781 843 4.636435 CCCCCGTGGACAAACGCT 62.636 66.667 0.00 0.00 42.23 5.07
782 844 3.047877 CCCCGTGGACAAACGCTC 61.048 66.667 0.00 0.00 42.23 5.03
784 846 2.355363 CCGTGGACAAACGCTCGA 60.355 61.111 0.00 0.00 42.23 4.04
785 847 2.654912 CCGTGGACAAACGCTCGAC 61.655 63.158 0.00 0.00 42.23 4.20
819 886 2.030562 ACGCCAGTTGGTCGAAGG 59.969 61.111 17.51 0.00 37.85 3.46
870 937 1.850755 TCCAGTTTGTCCCCTCCCC 60.851 63.158 0.00 0.00 0.00 4.81
917 984 4.626081 GCGACCTGGGTGTGTGCT 62.626 66.667 0.00 0.00 0.00 4.40
918 985 2.666190 CGACCTGGGTGTGTGCTG 60.666 66.667 0.00 0.00 0.00 4.41
919 986 2.510906 GACCTGGGTGTGTGCTGT 59.489 61.111 0.00 0.00 0.00 4.40
920 987 1.152963 GACCTGGGTGTGTGCTGTT 60.153 57.895 0.00 0.00 0.00 3.16
921 988 1.152963 ACCTGGGTGTGTGCTGTTC 60.153 57.895 0.00 0.00 0.00 3.18
922 989 2.253758 CCTGGGTGTGTGCTGTTCG 61.254 63.158 0.00 0.00 0.00 3.95
923 990 2.203139 TGGGTGTGTGCTGTTCGG 60.203 61.111 0.00 0.00 0.00 4.30
934 1001 2.281484 TGTTCGGGCAGTGGCTTC 60.281 61.111 17.16 0.00 40.87 3.86
981 1048 2.936919 TGCACCTCACAGATCACTTT 57.063 45.000 0.00 0.00 0.00 2.66
982 1049 2.771089 TGCACCTCACAGATCACTTTC 58.229 47.619 0.00 0.00 0.00 2.62
984 1051 3.181451 TGCACCTCACAGATCACTTTCTT 60.181 43.478 0.00 0.00 0.00 2.52
985 1052 3.434984 GCACCTCACAGATCACTTTCTTC 59.565 47.826 0.00 0.00 0.00 2.87
986 1053 4.802248 GCACCTCACAGATCACTTTCTTCT 60.802 45.833 0.00 0.00 0.00 2.85
989 1073 4.020751 CCTCACAGATCACTTTCTTCTGGA 60.021 45.833 0.00 0.00 40.92 3.86
998 1082 2.498078 ACTTTCTTCTGGAGATCGGTCC 59.502 50.000 0.00 0.00 37.10 4.46
1077 1164 4.767255 CTCGCCGCCAGCTTCCTT 62.767 66.667 0.00 0.00 40.39 3.36
1101 1197 3.685214 CTTCTCGCCGTCGTCCAGG 62.685 68.421 0.00 0.00 36.96 4.45
1107 1203 3.461773 CCGTCGTCCAGGGAGCAT 61.462 66.667 0.00 0.00 30.71 3.79
1386 1485 4.662961 CACGTGCTCTGGGTCGCA 62.663 66.667 0.82 0.00 0.00 5.10
1832 1931 4.814294 CCGGCTGGCTGGTACGTC 62.814 72.222 11.97 0.00 37.68 4.34
1834 1933 2.412323 CGGCTGGCTGGTACGTCTA 61.412 63.158 0.00 0.00 0.00 2.59
1835 1934 1.141234 GGCTGGCTGGTACGTCTAC 59.859 63.158 0.00 0.00 0.00 2.59
1836 1935 1.226603 GCTGGCTGGTACGTCTACG 60.227 63.158 0.00 0.04 46.33 3.51
1856 1955 2.991190 CGTACTACGTGCAAACCATCTT 59.009 45.455 0.00 0.00 36.74 2.40
1864 1963 3.610114 CGTGCAAACCATCTTCTTCCTTG 60.610 47.826 0.00 0.00 0.00 3.61
1865 1964 3.569701 GTGCAAACCATCTTCTTCCTTGA 59.430 43.478 0.00 0.00 0.00 3.02
1866 1965 3.822735 TGCAAACCATCTTCTTCCTTGAG 59.177 43.478 0.00 0.00 0.00 3.02
1867 1966 4.074970 GCAAACCATCTTCTTCCTTGAGA 58.925 43.478 0.00 0.00 0.00 3.27
1868 1967 4.520492 GCAAACCATCTTCTTCCTTGAGAA 59.480 41.667 0.00 0.00 34.63 2.87
1869 1968 5.010012 GCAAACCATCTTCTTCCTTGAGAAA 59.990 40.000 0.00 0.00 35.38 2.52
1874 1973 8.940397 ACCATCTTCTTCCTTGAGAAATTAAA 57.060 30.769 0.00 0.00 35.38 1.52
1876 1975 9.631452 CCATCTTCTTCCTTGAGAAATTAAAAC 57.369 33.333 0.00 0.00 35.38 2.43
1944 3125 0.813610 TCGGTGCAGTGTTCCTGTTG 60.814 55.000 0.00 0.00 43.55 3.33
1957 3138 3.240606 CTGTTGAGGCACGCCAACG 62.241 63.158 11.35 0.71 44.84 4.10
2311 3492 2.669364 CACTTTTGCCTGATGCTCAAC 58.331 47.619 0.00 0.00 42.00 3.18
2320 3501 2.216046 CTGATGCTCAACTGTGTGTGT 58.784 47.619 0.00 0.00 0.00 3.72
2321 3502 1.941975 TGATGCTCAACTGTGTGTGTG 59.058 47.619 0.00 0.00 0.00 3.82
2322 3503 1.942657 GATGCTCAACTGTGTGTGTGT 59.057 47.619 0.00 0.00 0.00 3.72
2323 3504 1.085893 TGCTCAACTGTGTGTGTGTG 58.914 50.000 0.00 0.00 0.00 3.82
2324 3505 0.248215 GCTCAACTGTGTGTGTGTGC 60.248 55.000 0.00 0.00 0.00 4.57
2347 3528 4.029704 CACTCGATCGAGCAACTTACTAC 58.970 47.826 38.12 0.00 45.54 2.73
2348 3529 3.242349 ACTCGATCGAGCAACTTACTACG 60.242 47.826 38.12 16.26 45.54 3.51
2349 3530 2.674852 TCGATCGAGCAACTTACTACGT 59.325 45.455 15.15 0.00 0.00 3.57
2350 3531 3.865164 TCGATCGAGCAACTTACTACGTA 59.135 43.478 15.15 0.00 0.00 3.57
2351 3532 4.026228 TCGATCGAGCAACTTACTACGTAG 60.026 45.833 20.97 20.97 0.00 3.51
2352 3533 8.135531 CTCGATCGAGCAACTTACTACGTAGT 62.136 46.154 30.41 29.62 39.10 2.73
2353 3534 5.051441 CGATCGAGCAACTTACTACGTAGTA 60.051 44.000 27.51 27.51 45.11 1.82
2373 3554 8.454106 CGTAGTAGTACCTGTGTATGTAAGTTT 58.546 37.037 2.06 0.00 0.00 2.66
2427 3608 6.878923 ACAAGTTATGCTAGTGTAATCTGCAA 59.121 34.615 0.00 0.00 37.20 4.08
2457 3651 2.634453 TCTCTGGACTCTGTTCATGCAA 59.366 45.455 0.00 0.00 0.00 4.08
2508 3702 7.181569 TCTTCAGAAAACCCAACAGATTTTT 57.818 32.000 0.00 0.00 0.00 1.94
2509 3703 8.299990 TCTTCAGAAAACCCAACAGATTTTTA 57.700 30.769 0.00 0.00 0.00 1.52
2529 3723 3.971245 ACTCTTCCCTGAGCAGTAAAG 57.029 47.619 0.00 0.72 37.58 1.85
2534 3728 1.902508 TCCCTGAGCAGTAAAGTGGAG 59.097 52.381 0.00 0.00 0.00 3.86
2544 3738 3.253432 CAGTAAAGTGGAGCAAAAGGACC 59.747 47.826 0.00 0.00 0.00 4.46
2547 3741 0.035458 AGTGGAGCAAAAGGACCGAG 59.965 55.000 0.00 0.00 0.00 4.63
2566 3760 4.039703 CGAGGAAATCGCGTAATGAGTAA 58.960 43.478 5.77 0.00 45.98 2.24
2587 3781 1.722464 CGACGCCGAACAAGTTCATAA 59.278 47.619 12.86 0.00 39.46 1.90
2590 3784 4.141855 ACGCCGAACAAGTTCATAAAAG 57.858 40.909 12.86 1.42 39.46 2.27
2593 3787 4.319190 CGCCGAACAAGTTCATAAAAGTGA 60.319 41.667 12.86 0.00 39.46 3.41
2692 3886 2.615493 CCTAGTTCCAACATCCGCAACT 60.615 50.000 0.00 0.00 0.00 3.16
2716 3910 7.231317 ACTTTGGGAACATAGGCAATACATATG 59.769 37.037 0.00 0.00 42.89 1.78
2797 4196 4.097892 CAGGACAAGGTTATAATGGCAACC 59.902 45.833 0.00 0.00 43.82 3.77
2812 4211 1.735571 GCAACCATACTTGGGTACGTG 59.264 52.381 0.00 0.00 42.78 4.49
2825 4224 2.961062 GGGTACGTGGGAGCTTATTCTA 59.039 50.000 0.00 0.00 0.00 2.10
2896 4296 6.451393 GTGTTCATATCCTGATCACTCTACC 58.549 44.000 0.00 0.00 45.26 3.18
3053 4454 2.291741 GCCCTTCCTGCAAATTATCTCG 59.708 50.000 0.00 0.00 0.00 4.04
3061 4462 4.795278 CCTGCAAATTATCTCGCTTTGAAC 59.205 41.667 0.00 0.00 32.83 3.18
3070 4600 3.514645 TCTCGCTTTGAACGGTATAACC 58.485 45.455 0.00 0.00 34.05 2.85
3100 4630 0.535780 TTGTGGTGGAGCTTCAGCAG 60.536 55.000 27.04 0.00 44.37 4.24
3167 5065 1.819288 GCAAGAAGGGAAGGGTAAAGC 59.181 52.381 0.00 0.00 0.00 3.51
3181 5079 3.440522 GGGTAAAGCAACTGAGGATGAAC 59.559 47.826 0.00 0.00 0.00 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
215 216 1.152694 TCTGCTGCAAGGGCTGTTT 60.153 52.632 3.02 0.00 41.91 2.83
255 256 0.036388 TCCGCCAACAGAATCACCTC 60.036 55.000 0.00 0.00 0.00 3.85
265 266 2.281484 GTTCCAGCTCCGCCAACA 60.281 61.111 0.00 0.00 0.00 3.33
267 268 4.344865 GGGTTCCAGCTCCGCCAA 62.345 66.667 0.00 0.00 0.00 4.52
316 317 4.006319 CAGAAGGGCTCTTTCCTTTACAG 58.994 47.826 0.00 0.00 43.98 2.74
343 348 4.024048 GTCTTTGCGACCAATTCTTCTCAA 60.024 41.667 0.00 0.00 36.62 3.02
361 366 4.702131 AGAAGCAAAGTGTTCAGTGTCTTT 59.298 37.500 0.00 0.00 0.00 2.52
378 383 4.261155 GCAAACAATGACACTACAGAAGCA 60.261 41.667 0.00 0.00 0.00 3.91
413 428 6.705381 TCTTCATGAATTTCACGCCAATTTTT 59.295 30.769 8.96 0.00 0.00 1.94
414 429 6.222389 TCTTCATGAATTTCACGCCAATTTT 58.778 32.000 8.96 0.00 0.00 1.82
420 435 4.361451 ACATCTTCATGAATTTCACGCC 57.639 40.909 8.96 0.00 33.72 5.68
421 436 4.560035 CCAACATCTTCATGAATTTCACGC 59.440 41.667 8.96 0.00 33.72 5.34
422 437 4.560035 GCCAACATCTTCATGAATTTCACG 59.440 41.667 8.96 0.00 33.72 4.35
424 439 5.725325 TGCCAACATCTTCATGAATTTCA 57.275 34.783 8.96 0.75 33.72 2.69
440 457 1.467734 CTGCACTCAGAAGATGCCAAC 59.532 52.381 0.00 0.00 42.95 3.77
516 533 5.514274 TTTACAGCCTCAAAAACTTGGAG 57.486 39.130 0.00 0.00 0.00 3.86
522 539 8.697846 AGTAAAAGTTTTACAGCCTCAAAAAC 57.302 30.769 30.55 10.09 41.31 2.43
524 541 7.762159 CCAAGTAAAAGTTTTACAGCCTCAAAA 59.238 33.333 30.55 0.00 0.00 2.44
548 571 4.975132 CCGTATTGGATGGCACCA 57.025 55.556 4.93 4.93 42.00 4.17
639 686 0.251653 TTCTACGGAGGCAGAGTGGT 60.252 55.000 0.00 0.00 0.00 4.16
727 774 0.179032 TTCGTGGCTCTTTTCTGGCA 60.179 50.000 0.00 0.00 36.39 4.92
742 804 0.313043 ATCGTGGTTCAGTCGTTCGT 59.687 50.000 0.00 0.00 0.00 3.85
819 886 0.716108 CGACTCATCGGTGCAGTTTC 59.284 55.000 0.00 0.00 44.99 2.78
900 967 4.626081 AGCACACACCCAGGTCGC 62.626 66.667 0.00 0.00 0.00 5.19
916 983 2.281761 AAGCCACTGCCCGAACAG 60.282 61.111 3.43 3.43 43.59 3.16
917 984 2.281484 GAAGCCACTGCCCGAACA 60.281 61.111 0.00 0.00 38.69 3.18
918 985 3.423154 CGAAGCCACTGCCCGAAC 61.423 66.667 0.00 0.00 38.69 3.95
919 986 1.609635 TATCGAAGCCACTGCCCGAA 61.610 55.000 0.00 0.00 43.17 4.30
920 987 1.609635 TTATCGAAGCCACTGCCCGA 61.610 55.000 0.00 0.00 43.75 5.14
921 988 1.153449 TTATCGAAGCCACTGCCCG 60.153 57.895 0.00 0.00 38.69 6.13
922 989 2.695314 CTTATCGAAGCCACTGCCC 58.305 57.895 0.00 0.00 38.69 5.36
934 1001 0.807667 AGGCGTCTGCTTGCTTATCG 60.808 55.000 0.00 0.00 42.25 2.92
960 1027 2.936919 AGTGATCTGTGAGGTGCAAA 57.063 45.000 0.00 0.00 0.00 3.68
968 1035 4.835056 TCTCCAGAAGAAAGTGATCTGTGA 59.165 41.667 0.00 0.00 39.10 3.58
971 1038 5.042593 CGATCTCCAGAAGAAAGTGATCTG 58.957 45.833 0.00 0.00 40.17 2.90
981 1048 2.231716 TTGGACCGATCTCCAGAAGA 57.768 50.000 4.07 0.00 41.53 2.87
982 1049 2.484417 CCATTGGACCGATCTCCAGAAG 60.484 54.545 0.00 0.00 41.53 2.85
984 1051 1.123077 CCATTGGACCGATCTCCAGA 58.877 55.000 0.00 0.00 41.53 3.86
985 1052 1.069823 CTCCATTGGACCGATCTCCAG 59.930 57.143 0.00 0.00 41.53 3.86
986 1053 1.123077 CTCCATTGGACCGATCTCCA 58.877 55.000 0.00 0.00 38.66 3.86
989 1073 0.747255 CGTCTCCATTGGACCGATCT 59.253 55.000 12.53 0.00 0.00 2.75
998 1082 1.978712 CTGCTGCTGCGTCTCCATTG 61.979 60.000 11.21 0.00 43.34 2.82
1107 1203 3.884774 GTGGAGGTGGTGGTGCCA 61.885 66.667 0.00 0.00 46.95 4.92
1836 1935 4.243270 AGAAGATGGTTTGCACGTAGTAC 58.757 43.478 0.00 0.00 41.61 2.73
1874 1973 8.703743 AGAGTGCATCTTCTTCTCATAATAGTT 58.296 33.333 0.00 0.00 32.99 2.24
1876 1975 8.358895 TGAGAGTGCATCTTCTTCTCATAATAG 58.641 37.037 0.00 0.00 38.84 1.73
1877 1976 8.140628 GTGAGAGTGCATCTTCTTCTCATAATA 58.859 37.037 13.29 0.00 38.84 0.98
1878 1977 6.985645 GTGAGAGTGCATCTTCTTCTCATAAT 59.014 38.462 13.29 0.00 38.84 1.28
1881 1980 4.677514 CGTGAGAGTGCATCTTCTTCTCAT 60.678 45.833 13.29 0.00 38.84 2.90
1883 1982 3.178267 CGTGAGAGTGCATCTTCTTCTC 58.822 50.000 0.00 0.00 38.84 2.87
1921 3102 2.607892 GGAACACTGCACCGACAGC 61.608 63.158 0.00 0.00 41.60 4.40
2320 3501 2.153547 TTGCTCGATCGAGTGGCACA 62.154 55.000 37.59 26.53 43.70 4.57
2321 3502 1.446099 TTGCTCGATCGAGTGGCAC 60.446 57.895 37.59 24.57 43.70 5.01
2322 3503 1.446099 GTTGCTCGATCGAGTGGCA 60.446 57.895 37.59 29.97 43.70 4.92
2323 3504 0.737715 AAGTTGCTCGATCGAGTGGC 60.738 55.000 37.59 28.00 43.70 5.01
2324 3505 2.159366 AGTAAGTTGCTCGATCGAGTGG 60.159 50.000 37.59 20.37 43.70 4.00
2347 3528 7.545362 ACTTACATACACAGGTACTACTACG 57.455 40.000 0.00 0.00 36.02 3.51
2350 3531 9.525826 ACTAAACTTACATACACAGGTACTACT 57.474 33.333 0.00 0.00 36.02 2.57
2373 3554 8.488668 ACTTCCCACTCTTTTGTACTAAAACTA 58.511 33.333 4.11 0.00 0.00 2.24
2377 3558 7.281549 GTGAACTTCCCACTCTTTTGTACTAAA 59.718 37.037 2.54 2.54 0.00 1.85
2378 3559 6.764560 GTGAACTTCCCACTCTTTTGTACTAA 59.235 38.462 0.00 0.00 0.00 2.24
2381 3562 4.879545 TGTGAACTTCCCACTCTTTTGTAC 59.120 41.667 0.00 0.00 35.66 2.90
2382 3563 5.105567 TGTGAACTTCCCACTCTTTTGTA 57.894 39.130 0.00 0.00 35.66 2.41
2385 3566 4.600062 ACTTGTGAACTTCCCACTCTTTT 58.400 39.130 0.00 0.00 35.66 2.27
2386 3567 4.236527 ACTTGTGAACTTCCCACTCTTT 57.763 40.909 0.00 0.00 35.66 2.52
2387 3568 3.933861 ACTTGTGAACTTCCCACTCTT 57.066 42.857 0.00 0.00 35.66 2.85
2435 3616 2.233186 TGCATGAACAGAGTCCAGAGAG 59.767 50.000 0.00 0.00 0.00 3.20
2437 3618 2.756840 TGCATGAACAGAGTCCAGAG 57.243 50.000 0.00 0.00 0.00 3.35
2457 3651 2.544903 GGGTTACAAATTTGCACACGCT 60.545 45.455 18.12 0.00 39.64 5.07
2492 3686 6.041637 GGGAAGAGTAAAAATCTGTTGGGTTT 59.958 38.462 0.00 0.00 0.00 3.27
2508 3702 4.220821 CACTTTACTGCTCAGGGAAGAGTA 59.779 45.833 16.14 0.00 37.94 2.59
2509 3703 3.007398 CACTTTACTGCTCAGGGAAGAGT 59.993 47.826 16.14 4.83 37.94 3.24
2529 3723 0.955919 CCTCGGTCCTTTTGCTCCAC 60.956 60.000 0.00 0.00 0.00 4.02
2534 3728 1.130561 CGATTTCCTCGGTCCTTTTGC 59.869 52.381 0.00 0.00 43.82 3.68
2547 3741 3.792956 TCGTTACTCATTACGCGATTTCC 59.207 43.478 15.93 0.00 37.66 3.13
2555 3749 0.835740 CGGCGTCGTTACTCATTACG 59.164 55.000 0.00 0.00 39.03 3.18
2556 3750 2.178474 TCGGCGTCGTTACTCATTAC 57.822 50.000 10.18 0.00 37.69 1.89
2557 3751 2.095314 TGTTCGGCGTCGTTACTCATTA 60.095 45.455 10.18 0.00 37.69 1.90
2558 3752 1.336148 TGTTCGGCGTCGTTACTCATT 60.336 47.619 10.18 0.00 37.69 2.57
2559 3753 0.241749 TGTTCGGCGTCGTTACTCAT 59.758 50.000 10.18 0.00 37.69 2.90
2560 3754 0.030504 TTGTTCGGCGTCGTTACTCA 59.969 50.000 10.18 0.00 37.69 3.41
2561 3755 0.706729 CTTGTTCGGCGTCGTTACTC 59.293 55.000 10.18 0.00 37.69 2.59
2562 3756 0.031178 ACTTGTTCGGCGTCGTTACT 59.969 50.000 10.18 0.00 37.69 2.24
2566 3760 0.599204 ATGAACTTGTTCGGCGTCGT 60.599 50.000 10.18 0.00 37.69 4.34
2587 3781 5.263599 TCCTTTGTATCCATGCATCACTTT 58.736 37.500 0.00 0.00 0.00 2.66
2590 3784 5.581126 TTTCCTTTGTATCCATGCATCAC 57.419 39.130 0.00 0.00 0.00 3.06
2593 3787 6.625740 CGTTCTTTTCCTTTGTATCCATGCAT 60.626 38.462 0.00 0.00 0.00 3.96
2692 3886 6.015519 GCATATGTATTGCCTATGTTCCCAAA 60.016 38.462 4.29 0.00 33.95 3.28
2716 3910 2.870411 AGGTTTGACGTGTTAGAACTGC 59.130 45.455 0.00 0.00 0.00 4.40
2797 4196 1.472728 GCTCCCACGTACCCAAGTATG 60.473 57.143 0.00 0.00 40.70 2.39
2812 4211 9.998106 TGTAACTAATCATTAGAATAAGCTCCC 57.002 33.333 11.62 0.00 36.73 4.30
2967 4367 1.081892 CATCAGAGAACCAAGCACCG 58.918 55.000 0.00 0.00 0.00 4.94
3053 4454 6.913873 TCAATAGGTTATACCGTTCAAAGC 57.086 37.500 0.00 0.00 44.90 3.51
3081 4611 0.535780 CTGCTGAAGCTCCACCACAA 60.536 55.000 3.61 0.00 42.66 3.33
3087 4617 4.039092 GGCCCTGCTGAAGCTCCA 62.039 66.667 3.61 0.00 42.66 3.86
3117 5015 0.613012 AAACTTCATGAGCTGGGGGC 60.613 55.000 0.00 0.00 42.19 5.80
3145 5043 3.767711 CTTTACCCTTCCCTTCTTGCTT 58.232 45.455 0.00 0.00 0.00 3.91
3167 5065 6.433766 GTTTCTTCAAGTTCATCCTCAGTTG 58.566 40.000 0.00 0.00 0.00 3.16
3206 5104 5.833406 TTGAGCTTGAACAGACAATTTCA 57.167 34.783 0.00 0.00 0.00 2.69


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

AutoCloner maintained by Alex Coulton.