Multiple sequence alignment - TraesCS6B01G023200

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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 TraesCS6B01G023200 chr6B 100.000 2222 0 0 961 3182 14330391 14332612 0.000000e+00 4104
1 TraesCS6B01G023200 chr6B 88.090 2099 190 32 1101 3149 14550129 14548041 0.000000e+00 2436
2 TraesCS6B01G023200 chr6B 100.000 687 0 0 1 687 14329431 14330117 0.000000e+00 1269
3 TraesCS6B01G023200 chr6B 88.099 605 37 16 4 579 14623502 14622904 0.000000e+00 686
4 TraesCS6B01G023200 chr6B 84.454 714 46 32 2489 3149 14621327 14620626 0.000000e+00 643
5 TraesCS6B01G023200 chr1B 90.627 1867 133 25 961 2804 27678169 27676322 0.000000e+00 2440
6 TraesCS6B01G023200 chr1B 85.019 1315 179 11 1101 2402 27752870 27751561 0.000000e+00 1321
7 TraesCS6B01G023200 chr1B 97.610 251 3 3 2933 3182 27676035 27675787 8.160000e-116 427
8 TraesCS6B01G023200 chr1B 85.049 408 28 18 2449 2830 27751545 27751145 4.980000e-103 385
9 TraesCS6B01G023200 chr1B 84.356 326 40 7 2862 3182 27751145 27750826 3.080000e-80 309
10 TraesCS6B01G023200 chr6D 85.568 2252 204 63 961 3149 7994325 7992132 0.000000e+00 2246
11 TraesCS6B01G023200 chr6D 84.704 1994 191 59 1203 3132 7715858 7717801 0.000000e+00 1888
12 TraesCS6B01G023200 chr6D 87.854 601 40 17 4 579 7715177 7715769 0.000000e+00 675
13 TraesCS6B01G023200 chr6D 85.445 584 53 17 1 579 7994970 7994414 2.130000e-161 579
14 TraesCS6B01G023200 chr6A 84.840 2256 210 60 961 3149 8202388 8200198 0.000000e+00 2150
15 TraesCS6B01G023200 chr6A 86.325 1755 179 40 961 2703 7986728 7988433 0.000000e+00 1855
16 TraesCS6B01G023200 chr6A 83.854 384 29 12 2709 3061 7988650 7989031 5.090000e-88 335
17 TraesCS6B01G023200 chr6A 90.588 255 12 5 336 580 7986351 7986603 8.510000e-86 327
18 TraesCS6B01G023200 chr5A 86.498 1459 170 17 961 2413 650824506 650825943 0.000000e+00 1578
19 TraesCS6B01G023200 chr5A 85.676 377 28 8 2735 3085 650826075 650826451 1.080000e-99 374
20 TraesCS6B01G023200 chr5D 86.464 1448 168 16 961 2402 524577480 524578905 0.000000e+00 1563
21 TraesCS6B01G023200 chr5D 85.372 376 30 7 2735 3085 524579050 524579425 1.800000e-97 366


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 TraesCS6B01G023200 chr6B 14329431 14332612 3181 False 2686.500000 4104 100.000000 1 3182 2 chr6B.!!$F1 3181
1 TraesCS6B01G023200 chr6B 14548041 14550129 2088 True 2436.000000 2436 88.090000 1101 3149 1 chr6B.!!$R1 2048
2 TraesCS6B01G023200 chr6B 14620626 14623502 2876 True 664.500000 686 86.276500 4 3149 2 chr6B.!!$R2 3145
3 TraesCS6B01G023200 chr1B 27675787 27678169 2382 True 1433.500000 2440 94.118500 961 3182 2 chr1B.!!$R1 2221
4 TraesCS6B01G023200 chr1B 27750826 27752870 2044 True 671.666667 1321 84.808000 1101 3182 3 chr1B.!!$R2 2081
5 TraesCS6B01G023200 chr6D 7992132 7994970 2838 True 1412.500000 2246 85.506500 1 3149 2 chr6D.!!$R1 3148
6 TraesCS6B01G023200 chr6D 7715177 7717801 2624 False 1281.500000 1888 86.279000 4 3132 2 chr6D.!!$F1 3128
7 TraesCS6B01G023200 chr6A 8200198 8202388 2190 True 2150.000000 2150 84.840000 961 3149 1 chr6A.!!$R1 2188
8 TraesCS6B01G023200 chr6A 7986351 7989031 2680 False 839.000000 1855 86.922333 336 3061 3 chr6A.!!$F1 2725
9 TraesCS6B01G023200 chr5A 650824506 650826451 1945 False 976.000000 1578 86.087000 961 3085 2 chr5A.!!$F1 2124
10 TraesCS6B01G023200 chr5D 524577480 524579425 1945 False 964.500000 1563 85.918000 961 3085 2 chr5D.!!$F1 2124

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
638 751 0.031111 TCCACGGATCCTCATTCCCT 60.031 55.0 10.75 0.0 0.0 4.20 F
676 789 0.036164 TCCTCATTCCCACACCAACG 59.964 55.0 0.00 0.0 0.0 4.10 F
1838 1963 0.037975 GAGGTGGGCATTGCTGTTTG 60.038 55.0 8.82 0.0 0.0 2.93 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1858 1983 0.036010 AGCGATTCCTTGGACCTGTG 60.036 55.000 0.00 0.0 0.0 3.66 R
1864 1989 0.107993 CTCTGCAGCGATTCCTTGGA 60.108 55.000 9.47 0.0 0.0 3.53 R
2713 3102 3.877508 GCATAAGACACCCAATAGACACC 59.122 47.826 0.00 0.0 0.0 4.16 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
37 39 6.089016 GCTACCTTAAATGCGTTTTCTTTTCC 59.911 38.462 9.61 0.00 0.00 3.13
103 106 7.678947 ATGTCAAAAGATAACAGGAGAACAG 57.321 36.000 0.00 0.00 0.00 3.16
110 113 7.971183 AAGATAACAGGAGAACAGAAAAGAC 57.029 36.000 0.00 0.00 0.00 3.01
131 134 1.178534 AATGGTTTGGTCACCGCCAG 61.179 55.000 9.96 0.00 40.09 4.85
143 146 2.114670 CCGCCAGAATCACGCCAAT 61.115 57.895 0.00 0.00 0.00 3.16
147 150 1.202222 GCCAGAATCACGCCAATCTTG 60.202 52.381 0.00 0.00 0.00 3.02
170 173 7.361457 TGTCTAGATACCCTAACCAAATGAG 57.639 40.000 0.00 0.00 0.00 2.90
194 197 1.806623 GCCGTAGATTGCCTCGACAAT 60.807 52.381 1.19 1.19 42.88 2.71
211 214 3.109151 ACAATGTGGGGAACGGTCTATA 58.891 45.455 0.00 0.00 0.00 1.31
250 253 0.674895 GCACAACCTCTTCCTCGCAT 60.675 55.000 0.00 0.00 0.00 4.73
269 280 3.792401 CATCGACACCACTAATAAGCCA 58.208 45.455 0.00 0.00 0.00 4.75
288 299 5.273208 AGCCATACCCTACCTGTATCTATG 58.727 45.833 0.00 0.00 0.00 2.23
292 311 2.455163 ACCCTACCTGTATCTATGGGCT 59.545 50.000 0.00 0.00 36.78 5.19
296 315 5.518546 CCCTACCTGTATCTATGGGCTAGAA 60.519 48.000 0.00 0.00 39.88 2.10
297 316 5.654650 CCTACCTGTATCTATGGGCTAGAAG 59.345 48.000 0.00 0.00 39.88 2.85
301 320 6.194235 CCTGTATCTATGGGCTAGAAGAGAT 58.806 44.000 0.00 0.00 39.88 2.75
358 377 4.233789 CAGACAGAAGAGAAGGAAACTCG 58.766 47.826 0.00 0.00 42.68 4.18
366 385 0.678048 GAAGGAAACTCGCATGCCCT 60.678 55.000 13.15 8.69 42.68 5.19
368 387 0.678048 AGGAAACTCGCATGCCCTTC 60.678 55.000 13.15 9.34 32.90 3.46
369 388 0.960364 GGAAACTCGCATGCCCTTCA 60.960 55.000 13.15 0.00 0.00 3.02
370 389 0.169009 GAAACTCGCATGCCCTTCAC 59.831 55.000 13.15 0.00 0.00 3.18
473 492 8.563123 TTAATATAGATGAGTGAGTACCCGAG 57.437 38.462 0.00 0.00 0.00 4.63
475 494 3.928005 AGATGAGTGAGTACCCGAGTA 57.072 47.619 0.00 0.00 0.00 2.59
476 495 4.440826 AGATGAGTGAGTACCCGAGTAT 57.559 45.455 0.00 0.00 0.00 2.12
477 496 4.794334 AGATGAGTGAGTACCCGAGTATT 58.206 43.478 0.00 0.00 0.00 1.89
478 497 5.202004 AGATGAGTGAGTACCCGAGTATTT 58.798 41.667 0.00 0.00 0.00 1.40
615 728 1.004277 CCCCCACGAAAATCTTCTCCA 59.996 52.381 0.00 0.00 0.00 3.86
616 729 2.084546 CCCCACGAAAATCTTCTCCAC 58.915 52.381 0.00 0.00 0.00 4.02
617 730 1.732259 CCCACGAAAATCTTCTCCACG 59.268 52.381 0.00 0.00 0.00 4.94
618 731 1.732259 CCACGAAAATCTTCTCCACGG 59.268 52.381 0.00 0.00 0.00 4.94
619 732 2.413837 CACGAAAATCTTCTCCACGGT 58.586 47.619 0.00 0.00 0.00 4.83
621 734 2.000447 CGAAAATCTTCTCCACGGTCC 59.000 52.381 0.00 0.00 0.00 4.46
633 746 3.538614 CGGTCCACGGATCCTCAT 58.461 61.111 10.75 0.00 39.42 2.90
634 747 1.823295 CGGTCCACGGATCCTCATT 59.177 57.895 10.75 0.00 39.42 2.57
635 748 0.249489 CGGTCCACGGATCCTCATTC 60.249 60.000 10.75 0.00 39.42 2.67
636 749 0.106894 GGTCCACGGATCCTCATTCC 59.893 60.000 10.75 3.42 0.00 3.01
637 750 0.106894 GTCCACGGATCCTCATTCCC 59.893 60.000 10.75 0.00 0.00 3.97
638 751 0.031111 TCCACGGATCCTCATTCCCT 60.031 55.000 10.75 0.00 0.00 4.20
639 752 0.839946 CCACGGATCCTCATTCCCTT 59.160 55.000 10.75 0.00 0.00 3.95
640 753 1.202698 CCACGGATCCTCATTCCCTTC 60.203 57.143 10.75 0.00 0.00 3.46
641 754 1.132500 ACGGATCCTCATTCCCTTCC 58.868 55.000 10.75 0.00 0.00 3.46
642 755 1.344496 ACGGATCCTCATTCCCTTCCT 60.344 52.381 10.75 0.00 0.00 3.36
643 756 1.346068 CGGATCCTCATTCCCTTCCTC 59.654 57.143 10.75 0.00 0.00 3.71
644 757 2.412591 GGATCCTCATTCCCTTCCTCA 58.587 52.381 3.84 0.00 0.00 3.86
645 758 2.780010 GGATCCTCATTCCCTTCCTCAA 59.220 50.000 3.84 0.00 0.00 3.02
646 759 3.203040 GGATCCTCATTCCCTTCCTCAAA 59.797 47.826 3.84 0.00 0.00 2.69
647 760 4.325344 GGATCCTCATTCCCTTCCTCAAAA 60.325 45.833 3.84 0.00 0.00 2.44
648 761 4.740154 TCCTCATTCCCTTCCTCAAAAA 57.260 40.909 0.00 0.00 0.00 1.94
670 783 2.978156 AAAAGCTCCTCATTCCCACA 57.022 45.000 0.00 0.00 0.00 4.17
671 784 2.206576 AAAGCTCCTCATTCCCACAC 57.793 50.000 0.00 0.00 0.00 3.82
672 785 0.329596 AAGCTCCTCATTCCCACACC 59.670 55.000 0.00 0.00 0.00 4.16
673 786 0.842030 AGCTCCTCATTCCCACACCA 60.842 55.000 0.00 0.00 0.00 4.17
674 787 0.038166 GCTCCTCATTCCCACACCAA 59.962 55.000 0.00 0.00 0.00 3.67
675 788 1.826385 CTCCTCATTCCCACACCAAC 58.174 55.000 0.00 0.00 0.00 3.77
676 789 0.036164 TCCTCATTCCCACACCAACG 59.964 55.000 0.00 0.00 0.00 4.10
677 790 1.586154 CCTCATTCCCACACCAACGC 61.586 60.000 0.00 0.00 0.00 4.84
678 791 1.911293 CTCATTCCCACACCAACGCG 61.911 60.000 3.53 3.53 0.00 6.01
679 792 2.112297 ATTCCCACACCAACGCGT 59.888 55.556 5.58 5.58 0.00 6.01
680 793 1.527380 ATTCCCACACCAACGCGTT 60.527 52.632 20.79 20.79 0.00 4.84
681 794 1.512156 ATTCCCACACCAACGCGTTC 61.512 55.000 23.92 0.00 0.00 3.95
682 795 3.656045 CCCACACCAACGCGTTCC 61.656 66.667 23.92 0.00 0.00 3.62
683 796 3.656045 CCACACCAACGCGTTCCC 61.656 66.667 23.92 0.00 0.00 3.97
684 797 3.656045 CACACCAACGCGTTCCCC 61.656 66.667 23.92 0.00 0.00 4.81
685 798 3.868985 ACACCAACGCGTTCCCCT 61.869 61.111 23.92 0.00 0.00 4.79
686 799 2.593436 CACCAACGCGTTCCCCTT 60.593 61.111 23.92 0.00 0.00 3.95
1053 1171 1.309347 CCTCTCCCAGCTCCTCTCA 59.691 63.158 0.00 0.00 0.00 3.27
1054 1172 0.105555 CCTCTCCCAGCTCCTCTCAT 60.106 60.000 0.00 0.00 0.00 2.90
1055 1173 1.331214 CTCTCCCAGCTCCTCTCATC 58.669 60.000 0.00 0.00 0.00 2.92
1083 1201 2.801631 CGCCTCTCCCATCTCCCAC 61.802 68.421 0.00 0.00 0.00 4.61
1485 1607 0.608130 TACAGTACTGCCTGTGCCTG 59.392 55.000 22.90 0.00 45.08 4.85
1630 1755 0.251297 TATTGCCAAGCTGTGTGCCT 60.251 50.000 0.00 0.00 44.23 4.75
1834 1959 2.707849 GCTGAGGTGGGCATTGCTG 61.708 63.158 8.82 0.00 0.00 4.41
1838 1963 0.037975 GAGGTGGGCATTGCTGTTTG 60.038 55.000 8.82 0.00 0.00 2.93
1849 1974 1.604604 TGCTGTTTGTAAGGCTCCAC 58.395 50.000 0.00 0.00 0.00 4.02
1854 1979 2.706723 TGTTTGTAAGGCTCCACAGGTA 59.293 45.455 0.00 0.00 0.00 3.08
1875 2000 0.321564 TGCACAGGTCCAAGGAATCG 60.322 55.000 0.00 0.00 0.00 3.34
1905 2030 2.745968 AGGTCAGAGTTCCTCATCTCC 58.254 52.381 0.00 0.00 32.06 3.71
1947 2072 2.507102 ATTGCTCGTCGCTCGGTG 60.507 61.111 0.00 0.00 40.11 4.94
1998 2123 3.446570 CCCCGGAGCTACGTCGTT 61.447 66.667 18.90 0.00 0.00 3.85
2159 2284 1.287146 AGCTTGCAGAGGGGAATTGAT 59.713 47.619 0.00 0.00 0.00 2.57
2189 2314 4.970662 TCAGATTTACATGAAGCAAGGC 57.029 40.909 0.00 0.00 0.00 4.35
2196 2323 0.971386 CATGAAGCAAGGCTGGGTTT 59.029 50.000 7.91 0.00 39.62 3.27
2197 2324 1.345415 CATGAAGCAAGGCTGGGTTTT 59.655 47.619 7.91 0.00 39.62 2.43
2201 2328 2.603075 AGCAAGGCTGGGTTTTATGA 57.397 45.000 0.00 0.00 37.57 2.15
2230 2360 3.701205 AACTGTGTATGGCATGACAGA 57.299 42.857 31.85 19.97 38.49 3.41
2231 2361 3.257469 ACTGTGTATGGCATGACAGAG 57.743 47.619 31.85 26.47 41.47 3.35
2403 2544 5.106752 CGTGGTGTTGATGTAATGATGTTGA 60.107 40.000 0.00 0.00 0.00 3.18
2956 3567 6.238484 GCCCTGATACTATGCTGTAAAGTTTG 60.238 42.308 0.00 0.00 0.00 2.93
3092 3733 4.708177 TGCAGAGGGAAATGCTATCTAAC 58.292 43.478 0.00 0.00 42.98 2.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
131 134 4.433615 TCTAGACAAGATTGGCGTGATTC 58.566 43.478 0.00 0.00 42.41 2.52
143 146 7.622081 TCATTTGGTTAGGGTATCTAGACAAGA 59.378 37.037 0.00 0.00 39.02 3.02
147 150 6.224584 GCTCATTTGGTTAGGGTATCTAGAC 58.775 44.000 0.00 0.00 0.00 2.59
194 197 2.498481 CTGTTATAGACCGTTCCCCACA 59.502 50.000 0.00 0.00 0.00 4.17
250 253 4.202182 GGTATGGCTTATTAGTGGTGTCGA 60.202 45.833 0.00 0.00 0.00 4.20
269 280 4.297935 AGCCCATAGATACAGGTAGGGTAT 59.702 45.833 0.00 0.00 37.16 2.73
288 299 0.396060 CCTGCCATCTCTTCTAGCCC 59.604 60.000 0.00 0.00 0.00 5.19
292 311 2.975489 GGGAATCCTGCCATCTCTTCTA 59.025 50.000 0.00 0.00 32.01 2.10
296 315 1.064824 GGGGGAATCCTGCCATCTCT 61.065 60.000 0.00 0.00 33.82 3.10
297 316 1.064824 AGGGGGAATCCTGCCATCTC 61.065 60.000 0.00 0.00 35.47 2.75
301 320 1.230281 AGAAGGGGGAATCCTGCCA 60.230 57.895 0.00 0.00 37.20 4.92
356 375 0.745486 CTCATGTGAAGGGCATGCGA 60.745 55.000 12.44 0.00 42.34 5.10
358 377 1.436336 GCTCATGTGAAGGGCATGC 59.564 57.895 9.90 9.90 42.34 4.06
366 385 1.026182 GTGATGCCCGCTCATGTGAA 61.026 55.000 0.00 0.00 0.00 3.18
368 387 1.307355 TTGTGATGCCCGCTCATGTG 61.307 55.000 0.00 0.00 0.00 3.21
369 388 1.002257 TTGTGATGCCCGCTCATGT 60.002 52.632 0.00 0.00 0.00 3.21
370 389 1.721664 CCTTGTGATGCCCGCTCATG 61.722 60.000 0.00 0.00 0.00 3.07
596 690 2.084546 GTGGAGAAGATTTTCGTGGGG 58.915 52.381 0.00 0.00 38.38 4.96
615 728 0.976073 AATGAGGATCCGTGGACCGT 60.976 55.000 5.98 0.00 33.66 4.83
616 729 0.249489 GAATGAGGATCCGTGGACCG 60.249 60.000 5.98 0.00 0.00 4.79
617 730 0.106894 GGAATGAGGATCCGTGGACC 59.893 60.000 5.98 5.38 0.00 4.46
618 731 0.106894 GGGAATGAGGATCCGTGGAC 59.893 60.000 5.98 0.00 37.87 4.02
619 732 0.031111 AGGGAATGAGGATCCGTGGA 60.031 55.000 5.98 0.00 37.87 4.02
621 734 1.202698 GGAAGGGAATGAGGATCCGTG 60.203 57.143 5.98 0.00 37.87 4.94
624 737 2.412591 TGAGGAAGGGAATGAGGATCC 58.587 52.381 2.48 2.48 36.16 3.36
625 738 4.510167 TTTGAGGAAGGGAATGAGGATC 57.490 45.455 0.00 0.00 0.00 3.36
626 739 4.953781 TTTTGAGGAAGGGAATGAGGAT 57.046 40.909 0.00 0.00 0.00 3.24
627 740 4.740154 TTTTTGAGGAAGGGAATGAGGA 57.260 40.909 0.00 0.00 0.00 3.71
650 763 2.893489 GTGTGGGAATGAGGAGCTTTTT 59.107 45.455 0.00 0.00 0.00 1.94
651 764 2.519013 GTGTGGGAATGAGGAGCTTTT 58.481 47.619 0.00 0.00 0.00 2.27
652 765 1.272147 GGTGTGGGAATGAGGAGCTTT 60.272 52.381 0.00 0.00 0.00 3.51
653 766 0.329596 GGTGTGGGAATGAGGAGCTT 59.670 55.000 0.00 0.00 0.00 3.74
654 767 0.842030 TGGTGTGGGAATGAGGAGCT 60.842 55.000 0.00 0.00 0.00 4.09
655 768 0.038166 TTGGTGTGGGAATGAGGAGC 59.962 55.000 0.00 0.00 0.00 4.70
656 769 1.826385 GTTGGTGTGGGAATGAGGAG 58.174 55.000 0.00 0.00 0.00 3.69
657 770 0.036164 CGTTGGTGTGGGAATGAGGA 59.964 55.000 0.00 0.00 0.00 3.71
658 771 1.586154 GCGTTGGTGTGGGAATGAGG 61.586 60.000 0.00 0.00 0.00 3.86
659 772 1.875963 GCGTTGGTGTGGGAATGAG 59.124 57.895 0.00 0.00 0.00 2.90
660 773 1.963855 CGCGTTGGTGTGGGAATGA 60.964 57.895 0.00 0.00 0.00 2.57
661 774 1.791103 AACGCGTTGGTGTGGGAATG 61.791 55.000 26.00 0.00 36.89 2.67
662 775 1.512156 GAACGCGTTGGTGTGGGAAT 61.512 55.000 31.89 0.00 36.89 3.01
663 776 2.124653 AACGCGTTGGTGTGGGAA 60.125 55.556 26.00 0.00 36.89 3.97
664 777 2.589442 GAACGCGTTGGTGTGGGA 60.589 61.111 31.89 0.00 36.89 4.37
665 778 3.656045 GGAACGCGTTGGTGTGGG 61.656 66.667 31.89 0.00 36.89 4.61
666 779 3.656045 GGGAACGCGTTGGTGTGG 61.656 66.667 31.89 0.00 36.89 4.17
667 780 3.656045 GGGGAACGCGTTGGTGTG 61.656 66.667 31.89 0.00 36.89 3.82
1083 1201 3.211288 CTGTGGTAGCCGAGGAGG 58.789 66.667 0.00 0.00 44.97 4.30
1201 1322 1.302511 GCTTGACGGAGGCCTTGAA 60.303 57.895 6.77 0.00 0.00 2.69
1214 1335 0.979665 CTTGAGGTGGGAGAGCTTGA 59.020 55.000 0.00 0.00 30.42 3.02
1318 1439 3.971702 GCAGAGCACCTGGGGGTT 61.972 66.667 0.44 0.00 44.73 4.11
1630 1755 0.321919 GTGAGCAACCATGGCTGAGA 60.322 55.000 19.49 0.00 42.78 3.27
1834 1959 2.271944 ACCTGTGGAGCCTTACAAAC 57.728 50.000 0.00 0.00 0.00 2.93
1838 1963 1.405661 GCAGTACCTGTGGAGCCTTAC 60.406 57.143 0.00 0.00 33.43 2.34
1849 1974 0.396435 TTGGACCTGTGCAGTACCTG 59.604 55.000 0.00 0.00 31.08 4.00
1854 1979 0.773644 ATTCCTTGGACCTGTGCAGT 59.226 50.000 0.00 0.00 31.08 4.40
1858 1983 0.036010 AGCGATTCCTTGGACCTGTG 60.036 55.000 0.00 0.00 0.00 3.66
1864 1989 0.107993 CTCTGCAGCGATTCCTTGGA 60.108 55.000 9.47 0.00 0.00 3.53
1866 1991 1.664659 CTTCTCTGCAGCGATTCCTTG 59.335 52.381 9.47 0.00 0.00 3.61
1875 2000 0.607620 ACTCTGACCTTCTCTGCAGC 59.392 55.000 9.47 0.00 0.00 5.25
1947 2072 1.208052 TCCAGGCTGTACAAGAGCATC 59.792 52.381 14.43 0.00 38.27 3.91
2159 2284 7.122501 TGCTTCATGTAAATCTGAAATTAGCCA 59.877 33.333 0.00 0.00 31.40 4.75
2189 2314 7.027161 CAGTTACCGATTTTCATAAAACCCAG 58.973 38.462 0.00 0.00 32.37 4.45
2196 2323 7.201661 GCCATACACAGTTACCGATTTTCATAA 60.202 37.037 0.00 0.00 0.00 1.90
2197 2324 6.259167 GCCATACACAGTTACCGATTTTCATA 59.741 38.462 0.00 0.00 0.00 2.15
2201 2328 4.328536 TGCCATACACAGTTACCGATTTT 58.671 39.130 0.00 0.00 0.00 1.82
2230 2360 6.879458 CCAACTTACTAGGAATGCTACAAACT 59.121 38.462 0.00 0.00 0.00 2.66
2231 2361 6.653740 ACCAACTTACTAGGAATGCTACAAAC 59.346 38.462 0.00 0.00 0.00 2.93
2434 2576 5.571454 CGATGCTTTCATATCTATTCCCCCA 60.571 44.000 0.00 0.00 31.96 4.96
2436 2578 4.333926 GCGATGCTTTCATATCTATTCCCC 59.666 45.833 0.00 0.00 31.96 4.81
2705 2881 7.766628 AGACACCCAATAGACACCTAGATATA 58.233 38.462 0.00 0.00 0.00 0.86
2707 3096 6.027025 AGACACCCAATAGACACCTAGATA 57.973 41.667 0.00 0.00 0.00 1.98
2710 3099 6.516718 CATAAGACACCCAATAGACACCTAG 58.483 44.000 0.00 0.00 0.00 3.02
2713 3102 3.877508 GCATAAGACACCCAATAGACACC 59.122 47.826 0.00 0.00 0.00 4.16
2716 3105 4.423625 AGGCATAAGACACCCAATAGAC 57.576 45.455 0.00 0.00 0.00 2.59
2781 3172 9.457436 GTAAAATCAGGTACAGGATTTAGGAAA 57.543 33.333 18.57 5.82 41.40 3.13
2897 3292 6.154363 GCCCTCTAGTTCTGATAAGCTATGAT 59.846 42.308 0.00 0.00 0.00 2.45
2956 3567 4.624452 GCTTGAGCAATCAATTTCCTTGAC 59.376 41.667 0.00 0.00 42.82 3.18


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

AutoCloner maintained by Alex Coulton.