Multiple sequence alignment - TraesCS5D01G269300

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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 TraesCS5D01G269300 chr5D 100.000 2795 0 0 1 2795 372326324 372323530 0.000000e+00 5162.0
1 TraesCS5D01G269300 chr5A 91.160 2138 102 49 24 2104 475526881 475524774 0.000000e+00 2820.0
2 TraesCS5D01G269300 chr5A 89.686 669 42 4 2151 2795 475524030 475523365 0.000000e+00 828.0
3 TraesCS5D01G269300 chr5B 90.587 2114 98 43 1 2074 442779372 442777320 0.000000e+00 2708.0
4 TraesCS5D01G269300 chr5B 88.469 503 40 8 2070 2557 442775742 442775243 2.400000e-165 592.0
5 TraesCS5D01G269300 chr5B 81.780 472 48 24 361 826 554672927 554673366 7.360000e-96 361.0
6 TraesCS5D01G269300 chr5B 84.848 264 16 3 2553 2793 442765246 442764984 7.730000e-61 244.0
7 TraesCS5D01G269300 chr3B 83.263 472 42 21 361 826 118816671 118816231 1.560000e-107 399.0
8 TraesCS5D01G269300 chr3B 84.286 70 9 1 238 307 118816813 118816746 1.800000e-07 67.6
9 TraesCS5D01G269300 chr1B 82.839 472 44 22 361 826 635184712 635185152 3.380000e-104 388.0
10 TraesCS5D01G269300 chr1B 84.286 70 9 1 238 307 635184570 635184637 1.800000e-07 67.6
11 TraesCS5D01G269300 chrUn 82.627 472 45 22 361 826 3176092 3175652 1.570000e-102 383.0
12 TraesCS5D01G269300 chrUn 82.857 70 10 1 238 307 3176234 3176167 8.360000e-06 62.1
13 TraesCS5D01G269300 chr4A 82.415 472 45 24 361 826 651139283 651139722 7.310000e-101 377.0
14 TraesCS5D01G269300 chr4A 87.143 70 7 1 238 307 651139141 651139208 8.300000e-11 78.7
15 TraesCS5D01G269300 chr7B 81.992 472 48 23 361 826 725331001 725330561 1.580000e-97 366.0
16 TraesCS5D01G269300 chr2B 81.992 472 48 22 361 826 591286177 591286617 1.580000e-97 366.0
17 TraesCS5D01G269300 chr2B 84.848 66 8 1 238 303 591286034 591286097 6.460000e-07 65.8
18 TraesCS5D01G269300 chr2A 76.364 275 59 6 1124 1395 562681459 562681730 2.900000e-30 143.0


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 TraesCS5D01G269300 chr5D 372323530 372326324 2794 True 5162.00 5162 100.0000 1 2795 1 chr5D.!!$R1 2794
1 TraesCS5D01G269300 chr5A 475523365 475526881 3516 True 1824.00 2820 90.4230 24 2795 2 chr5A.!!$R1 2771
2 TraesCS5D01G269300 chr5B 442775243 442779372 4129 True 1650.00 2708 89.5280 1 2557 2 chr5B.!!$R2 2556
3 TraesCS5D01G269300 chr3B 118816231 118816813 582 True 233.30 399 83.7745 238 826 2 chr3B.!!$R1 588
4 TraesCS5D01G269300 chr1B 635184570 635185152 582 False 227.80 388 83.5625 238 826 2 chr1B.!!$F1 588
5 TraesCS5D01G269300 chrUn 3175652 3176234 582 True 222.55 383 82.7420 238 826 2 chrUn.!!$R1 588
6 TraesCS5D01G269300 chr4A 651139141 651139722 581 False 227.85 377 84.7790 238 826 2 chr4A.!!$F1 588
7 TraesCS5D01G269300 chr2B 591286034 591286617 583 False 215.90 366 83.4200 238 826 2 chr2B.!!$F1 588

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
455 503 0.321475 TGTCGAACATGATGGCTGCA 60.321 50.0 0.0 0.0 0.0 4.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2396 4786 0.256177 GTTCCCCCACCCTCTCATTC 59.744 60.0 0.0 0.0 0.0 2.67 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
128 129 7.397476 TGAATTATTGTTATTTAGCCACCACCA 59.603 33.333 0.00 0.00 0.00 4.17
131 132 2.108425 TGTTATTTAGCCACCACCACCA 59.892 45.455 0.00 0.00 0.00 4.17
134 135 1.646367 TTTAGCCACCACCACCACCA 61.646 55.000 0.00 0.00 0.00 4.17
175 179 2.530497 GCACGAGCACGAACACCAA 61.530 57.895 11.40 0.00 42.66 3.67
223 227 4.357279 GCACCCTTGCCAGCCTCT 62.357 66.667 0.00 0.00 43.66 3.69
224 228 2.045536 CACCCTTGCCAGCCTCTC 60.046 66.667 0.00 0.00 0.00 3.20
312 326 2.233355 CGTTTGCAATGTGATGTCGTC 58.767 47.619 0.00 0.00 0.00 4.20
346 378 7.333528 TGTAATTTCAAAGTTCTGCAAGTCT 57.666 32.000 0.00 0.00 33.76 3.24
359 405 2.677836 TGCAAGTCTATGCCATTTCGTC 59.322 45.455 0.00 0.00 45.83 4.20
379 425 4.425520 GTCAGTAGGATGCTTGTGTAGTC 58.574 47.826 0.00 0.00 0.00 2.59
396 442 5.923684 GTGTAGTCTTTCCAGAGTTCTTCAG 59.076 44.000 0.00 0.00 34.28 3.02
403 449 0.676151 CAGAGTTCTTCAGCCCTGGC 60.676 60.000 0.00 0.00 42.33 4.85
413 459 3.492353 GCCCTGGCTAGCCCATGA 61.492 66.667 30.81 11.45 44.33 3.07
414 460 2.834688 CCCTGGCTAGCCCATGAG 59.165 66.667 30.81 20.30 44.33 2.90
415 461 1.767672 CCCTGGCTAGCCCATGAGA 60.768 63.158 30.81 10.25 44.33 3.27
416 462 1.132554 CCCTGGCTAGCCCATGAGAT 61.133 60.000 30.81 0.00 44.33 2.75
417 463 0.769873 CCTGGCTAGCCCATGAGATT 59.230 55.000 30.81 0.00 44.33 2.40
418 464 1.144503 CCTGGCTAGCCCATGAGATTT 59.855 52.381 30.81 0.00 44.33 2.17
419 465 2.373169 CCTGGCTAGCCCATGAGATTTA 59.627 50.000 30.81 7.12 44.33 1.40
420 466 3.558746 CCTGGCTAGCCCATGAGATTTAG 60.559 52.174 30.81 16.32 44.33 1.85
421 467 3.048600 TGGCTAGCCCATGAGATTTAGT 58.951 45.455 30.81 0.00 39.18 2.24
422 468 3.071602 TGGCTAGCCCATGAGATTTAGTC 59.928 47.826 30.81 0.22 39.18 2.59
423 469 3.326297 GGCTAGCCCATGAGATTTAGTCT 59.674 47.826 24.19 0.00 40.81 3.24
455 503 0.321475 TGTCGAACATGATGGCTGCA 60.321 50.000 0.00 0.00 0.00 4.41
458 506 2.093890 TCGAACATGATGGCTGCATTT 58.906 42.857 0.00 0.00 0.00 2.32
588 638 3.186119 CGGCTTTCTTTTTGTTCAAGCA 58.814 40.909 4.71 0.00 41.42 3.91
589 639 3.616379 CGGCTTTCTTTTTGTTCAAGCAA 59.384 39.130 4.71 0.00 41.42 3.91
651 705 7.795482 ACAACTAATTTACTATAATGCGGCA 57.205 32.000 4.58 4.58 0.00 5.69
653 707 6.796705 ACTAATTTACTATAATGCGGCACC 57.203 37.500 4.03 0.00 0.00 5.01
654 708 6.531021 ACTAATTTACTATAATGCGGCACCT 58.469 36.000 4.03 0.00 0.00 4.00
655 709 7.673180 ACTAATTTACTATAATGCGGCACCTA 58.327 34.615 4.03 0.00 0.00 3.08
656 710 8.319146 ACTAATTTACTATAATGCGGCACCTAT 58.681 33.333 4.03 8.19 0.00 2.57
657 711 9.811995 CTAATTTACTATAATGCGGCACCTATA 57.188 33.333 4.03 8.93 0.00 1.31
659 713 4.467198 ACTATAATGCGGCACCTATACC 57.533 45.455 4.03 0.00 0.00 2.73
683 737 1.137872 GGTCCTACTGCACTGGATCTG 59.862 57.143 0.00 0.00 32.03 2.90
726 785 3.549423 GGTTCTTTTGCGTGTAGTTTCCC 60.549 47.826 0.00 0.00 0.00 3.97
741 800 1.672854 TTCCCTGTCGGCGATAGTGG 61.673 60.000 27.89 26.06 39.35 4.00
744 803 1.226974 CTGTCGGCGATAGTGGGTG 60.227 63.158 23.34 0.00 39.35 4.61
776 835 6.254157 GGATCGATCACCAAATGTTGAAATTG 59.746 38.462 25.93 0.00 0.00 2.32
798 857 5.705902 TGTTGATCTGAATGCTGAAACATG 58.294 37.500 0.00 0.00 0.00 3.21
837 920 5.113502 AGATCTTGCCGTTTTTCTTCTTG 57.886 39.130 0.00 0.00 0.00 3.02
838 921 3.708563 TCTTGCCGTTTTTCTTCTTGG 57.291 42.857 0.00 0.00 0.00 3.61
840 923 4.200874 TCTTGCCGTTTTTCTTCTTGGTA 58.799 39.130 0.00 0.00 0.00 3.25
847 930 6.128715 GCCGTTTTTCTTCTTGGTAGTAGTAC 60.129 42.308 0.00 0.00 0.00 2.73
892 979 4.074259 TCATTCAGATCAAACCACCACAG 58.926 43.478 0.00 0.00 0.00 3.66
957 1045 1.406065 CCTGCGTGATCTCAGGGGAT 61.406 60.000 16.50 0.00 44.64 3.85
969 1057 1.225373 CAGGGGATTTGGATCAGGGA 58.775 55.000 0.00 0.00 33.77 4.20
1019 1107 4.103103 GGAGTTCAAAGCGGCCGC 62.103 66.667 42.34 42.34 42.33 6.53
1035 1123 3.660111 GCTTTCACCGCAGCCGTT 61.660 61.111 0.00 0.00 0.00 4.44
1053 1141 0.178921 TTCTGGCAGTCCTCCTCTGT 60.179 55.000 15.27 0.00 35.60 3.41
1059 1147 0.545309 CAGTCCTCCTCTGTTCCCCA 60.545 60.000 0.00 0.00 0.00 4.96
1065 1153 0.547471 TCCTCTGTTCCCCAGCATCA 60.547 55.000 0.00 0.00 41.25 3.07
1572 1660 2.000447 GCCGTCTACTCCATCAACAAC 59.000 52.381 0.00 0.00 0.00 3.32
1971 2065 8.365399 TGATCATTACTCATAAATTGACGGAC 57.635 34.615 0.00 0.00 0.00 4.79
1972 2066 6.822073 TCATTACTCATAAATTGACGGACG 57.178 37.500 0.00 0.00 0.00 4.79
1973 2067 5.751509 TCATTACTCATAAATTGACGGACGG 59.248 40.000 0.00 0.00 0.00 4.79
1974 2068 3.880047 ACTCATAAATTGACGGACGGA 57.120 42.857 0.00 0.00 0.00 4.69
1986 2080 3.235195 GACGGACGGATGAATATCGAAG 58.765 50.000 0.00 0.00 33.98 3.79
2031 2125 0.995728 GACTACTGCTTCGCTTGCTC 59.004 55.000 0.00 0.00 0.00 4.26
2078 3755 5.009410 GCAGATTGCCAAGTGATATAAAGCT 59.991 40.000 0.00 0.00 37.42 3.74
2098 3775 1.173043 CCATGCTAAAGCCGTTGGAA 58.827 50.000 9.05 0.00 41.18 3.53
2124 4069 1.370587 TTAGGCATAACGCGCAACCC 61.371 55.000 5.73 0.00 43.84 4.11
2233 4609 1.227946 GCCCTAGTCGTCTCTCCCT 59.772 63.158 0.00 0.00 0.00 4.20
2234 4610 0.396001 GCCCTAGTCGTCTCTCCCTT 60.396 60.000 0.00 0.00 0.00 3.95
2250 4640 1.153745 CTTTCTCTCCTCCACGCGG 60.154 63.158 12.47 0.00 0.00 6.46
2365 4755 3.031736 GTCTCACCACTAGAAGGCCATA 58.968 50.000 5.01 0.00 0.00 2.74
2388 4778 0.962489 CCTATCTTGCTCCGTCGGAT 59.038 55.000 15.81 0.65 0.00 4.18
2396 4786 1.953017 CTCCGTCGGATGCTCTAGG 59.047 63.158 15.81 0.00 0.00 3.02
2436 4826 1.266718 CCCGGATATGTGATTTTGGCG 59.733 52.381 0.73 0.00 0.00 5.69
2467 4857 0.179097 GGTTTCGGTTTTGCTTGGCA 60.179 50.000 0.00 0.00 36.47 4.92
2580 4970 2.168521 TGAGCTAGTAGCATTGTGTCCC 59.831 50.000 23.77 2.63 45.56 4.46
2583 4973 2.093447 GCTAGTAGCATTGTGTCCCAGT 60.093 50.000 17.47 0.00 41.89 4.00
2596 4986 3.104512 TGTCCCAGTCGGTTCTTCATAT 58.895 45.455 0.00 0.00 0.00 1.78
2609 4999 7.118825 TCGGTTCTTCATATCGACGATATTAGT 59.881 37.037 24.30 5.35 33.52 2.24
2615 5005 9.181805 CTTCATATCGACGATATTAGTGTTTGT 57.818 33.333 24.30 1.53 33.52 2.83
2626 5016 1.523758 AGTGTTTGTTCCTCGGCATC 58.476 50.000 0.00 0.00 0.00 3.91
2629 5019 0.872388 GTTTGTTCCTCGGCATCGTT 59.128 50.000 0.00 0.00 37.69 3.85
2672 5062 1.358152 TGGGATGACCTTTCGGTTCT 58.642 50.000 0.00 0.00 45.73 3.01
2677 5067 0.685097 TGACCTTTCGGTTCTCCAGG 59.315 55.000 0.00 0.00 45.73 4.45
2686 5076 0.903236 GGTTCTCCAGGTACACCTCC 59.097 60.000 0.00 0.00 46.65 4.30
2730 5141 4.788521 GCTTTACGAACTTGTGTTTCCTGG 60.789 45.833 0.00 0.00 36.39 4.45
2742 5153 3.024547 TGTTTCCTGGATCTAGGAGTCG 58.975 50.000 25.04 0.66 46.94 4.18
2745 5156 3.664551 TCCTGGATCTAGGAGTCGAAA 57.335 47.619 23.04 0.00 41.85 3.46
2746 5157 4.186077 TCCTGGATCTAGGAGTCGAAAT 57.814 45.455 23.04 0.00 41.85 2.17
2747 5158 4.145807 TCCTGGATCTAGGAGTCGAAATC 58.854 47.826 23.04 0.00 41.85 2.17
2748 5159 4.141135 TCCTGGATCTAGGAGTCGAAATCT 60.141 45.833 23.04 0.00 41.85 2.40
2749 5160 4.022416 CCTGGATCTAGGAGTCGAAATCTG 60.022 50.000 20.10 0.00 40.42 2.90
2782 5196 6.348498 TGTGGTGACATTCATCTTCGAATAT 58.652 36.000 0.00 0.00 46.14 1.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
128 129 2.122954 GGAGGAGGAGGTGGTGGT 59.877 66.667 0.00 0.00 0.00 4.16
131 132 1.864559 AGGAGGAGGAGGAGGTGGT 60.865 63.158 0.00 0.00 0.00 4.16
134 135 1.230819 AGGAGGAGGAGGAGGAGGT 60.231 63.158 0.00 0.00 0.00 3.85
175 179 3.305881 GGAGGCGACGCTATATAAAAGGT 60.306 47.826 20.77 0.00 0.00 3.50
222 226 1.107945 GGACGGGAGAAGAAGAGGAG 58.892 60.000 0.00 0.00 0.00 3.69
223 227 0.705253 AGGACGGGAGAAGAAGAGGA 59.295 55.000 0.00 0.00 0.00 3.71
224 228 1.107945 GAGGACGGGAGAAGAAGAGG 58.892 60.000 0.00 0.00 0.00 3.69
312 326 9.878599 AGAACTTTGAAATTACATAACGAGTTG 57.121 29.630 0.00 0.00 0.00 3.16
346 378 4.631131 CATCCTACTGACGAAATGGCATA 58.369 43.478 0.00 0.00 0.00 3.14
359 405 4.727507 AGACTACACAAGCATCCTACTG 57.272 45.455 0.00 0.00 0.00 2.74
379 425 2.039613 AGGGCTGAAGAACTCTGGAAAG 59.960 50.000 0.00 0.00 0.00 2.62
396 442 3.488467 CTCATGGGCTAGCCAGGGC 62.488 68.421 34.09 17.75 42.33 5.19
403 449 7.226325 CAGAAAAGACTAAATCTCATGGGCTAG 59.774 40.741 0.00 0.00 36.27 3.42
404 450 7.050377 CAGAAAAGACTAAATCTCATGGGCTA 58.950 38.462 0.00 0.00 36.27 3.93
406 452 5.649831 ACAGAAAAGACTAAATCTCATGGGC 59.350 40.000 0.00 0.00 36.27 5.36
407 453 6.656693 ACACAGAAAAGACTAAATCTCATGGG 59.343 38.462 0.00 0.00 36.27 4.00
408 454 7.678947 ACACAGAAAAGACTAAATCTCATGG 57.321 36.000 0.00 0.00 36.27 3.66
409 455 9.390795 CAAACACAGAAAAGACTAAATCTCATG 57.609 33.333 0.00 0.00 36.27 3.07
410 456 9.125026 ACAAACACAGAAAAGACTAAATCTCAT 57.875 29.630 0.00 0.00 36.27 2.90
411 457 8.397906 CACAAACACAGAAAAGACTAAATCTCA 58.602 33.333 0.00 0.00 36.27 3.27
412 458 8.398665 ACACAAACACAGAAAAGACTAAATCTC 58.601 33.333 0.00 0.00 36.27 2.75
413 459 8.281212 ACACAAACACAGAAAAGACTAAATCT 57.719 30.769 0.00 0.00 40.46 2.40
414 460 7.373441 CGACACAAACACAGAAAAGACTAAATC 59.627 37.037 0.00 0.00 0.00 2.17
415 461 7.065324 TCGACACAAACACAGAAAAGACTAAAT 59.935 33.333 0.00 0.00 0.00 1.40
416 462 6.369340 TCGACACAAACACAGAAAAGACTAAA 59.631 34.615 0.00 0.00 0.00 1.85
417 463 5.870433 TCGACACAAACACAGAAAAGACTAA 59.130 36.000 0.00 0.00 0.00 2.24
418 464 5.412640 TCGACACAAACACAGAAAAGACTA 58.587 37.500 0.00 0.00 0.00 2.59
419 465 4.250464 TCGACACAAACACAGAAAAGACT 58.750 39.130 0.00 0.00 0.00 3.24
420 466 4.593597 TCGACACAAACACAGAAAAGAC 57.406 40.909 0.00 0.00 0.00 3.01
421 467 4.452795 TGTTCGACACAAACACAGAAAAGA 59.547 37.500 0.00 0.00 31.90 2.52
422 468 4.717991 TGTTCGACACAAACACAGAAAAG 58.282 39.130 0.00 0.00 31.90 2.27
423 469 4.750952 TGTTCGACACAAACACAGAAAA 57.249 36.364 0.00 0.00 31.90 2.29
479 527 1.995484 CTACACCAAGCGATCACACAG 59.005 52.381 0.00 0.00 0.00 3.66
588 638 8.500753 TCACGATTGCCATATAAAGTAGTTTT 57.499 30.769 0.00 0.00 0.00 2.43
589 639 8.677148 ATCACGATTGCCATATAAAGTAGTTT 57.323 30.769 0.37 0.37 0.00 2.66
653 707 3.501445 GTGCAGTAGGACCTACGGTATAG 59.499 52.174 26.37 14.70 41.37 1.31
654 708 3.137176 AGTGCAGTAGGACCTACGGTATA 59.863 47.826 26.37 14.44 41.37 1.47
655 709 2.091994 AGTGCAGTAGGACCTACGGTAT 60.092 50.000 26.37 13.92 41.37 2.73
656 710 1.283029 AGTGCAGTAGGACCTACGGTA 59.717 52.381 26.37 21.73 41.37 4.02
657 711 0.039326 AGTGCAGTAGGACCTACGGT 59.961 55.000 26.37 10.05 41.37 4.83
659 713 0.456221 CCAGTGCAGTAGGACCTACG 59.544 60.000 23.12 18.70 41.37 3.51
660 714 1.848652 TCCAGTGCAGTAGGACCTAC 58.151 55.000 22.19 22.19 36.65 3.18
661 715 2.245028 AGATCCAGTGCAGTAGGACCTA 59.755 50.000 12.97 0.00 36.65 3.08
662 716 1.007721 AGATCCAGTGCAGTAGGACCT 59.992 52.381 12.97 0.00 36.65 3.85
663 717 1.137872 CAGATCCAGTGCAGTAGGACC 59.862 57.143 12.97 5.76 36.65 4.46
664 718 1.137872 CCAGATCCAGTGCAGTAGGAC 59.862 57.143 12.97 8.65 33.57 3.85
665 719 1.273267 ACCAGATCCAGTGCAGTAGGA 60.273 52.381 13.05 13.05 35.59 2.94
666 720 1.134580 CACCAGATCCAGTGCAGTAGG 60.135 57.143 0.00 0.00 0.00 3.18
667 721 1.827344 TCACCAGATCCAGTGCAGTAG 59.173 52.381 7.66 0.00 33.90 2.57
668 722 1.937191 TCACCAGATCCAGTGCAGTA 58.063 50.000 7.66 0.00 33.90 2.74
669 723 1.209019 GATCACCAGATCCAGTGCAGT 59.791 52.381 7.66 0.00 43.97 4.40
683 737 2.425143 TTTCAGGCATCAGGATCACC 57.575 50.000 0.00 0.00 0.00 4.02
726 785 1.226974 CACCCACTATCGCCGACAG 60.227 63.158 0.00 0.00 0.00 3.51
741 800 0.824109 TGATCGATCCACTCACCACC 59.176 55.000 22.31 0.00 0.00 4.61
776 835 4.561606 GCATGTTTCAGCATTCAGATCAAC 59.438 41.667 0.00 0.00 0.00 3.18
798 857 4.626042 AGATCTATCATCCGTTTGAGTGC 58.374 43.478 0.00 0.00 0.00 4.40
837 920 4.036027 TGCTGCTTGATACGTACTACTACC 59.964 45.833 0.00 0.00 0.00 3.18
838 921 5.165911 TGCTGCTTGATACGTACTACTAC 57.834 43.478 0.00 0.00 0.00 2.73
840 923 4.082408 TGTTGCTGCTTGATACGTACTACT 60.082 41.667 0.00 0.00 0.00 2.57
847 930 3.120234 TCAACATGTTGCTGCTTGATACG 60.120 43.478 29.84 5.63 40.24 3.06
892 979 6.931840 ACTTTCAACTCAGAACCTGAATACTC 59.068 38.462 0.00 0.00 40.18 2.59
957 1045 4.018960 CCTTCTCTTCTTCCCTGATCCAAA 60.019 45.833 0.00 0.00 0.00 3.28
969 1057 1.885233 GCTTGCTTGCCTTCTCTTCTT 59.115 47.619 0.00 0.00 0.00 2.52
1019 1107 1.961277 AGAACGGCTGCGGTGAAAG 60.961 57.895 13.78 0.00 0.00 2.62
1035 1123 0.178921 AACAGAGGAGGACTGCCAGA 60.179 55.000 0.00 0.00 38.74 3.86
1041 1129 1.868810 TGGGGAACAGAGGAGGACT 59.131 57.895 0.00 0.00 0.00 3.85
1053 1141 2.940467 TGGGCTGATGCTGGGGAA 60.940 61.111 0.00 0.00 39.59 3.97
1059 1147 0.540923 GACTCTTCTGGGCTGATGCT 59.459 55.000 0.00 0.00 39.59 3.79
1065 1153 2.286523 CGGTGGACTCTTCTGGGCT 61.287 63.158 0.00 0.00 0.00 5.19
1971 2065 3.944055 ACCTCCTTCGATATTCATCCG 57.056 47.619 0.00 0.00 0.00 4.18
2031 2125 6.972901 TGCATAGAGATAAACAGAGTAACACG 59.027 38.462 0.00 0.00 0.00 4.49
2078 3755 0.326595 TCCAACGGCTTTAGCATGGA 59.673 50.000 15.04 15.04 43.02 3.41
2091 3768 2.471255 CCTAAGGCAGCTTCCAACG 58.529 57.895 4.85 0.00 0.00 4.10
2124 4069 1.421646 AGGGGTGAGTGGAAAACAGAG 59.578 52.381 0.00 0.00 0.00 3.35
2155 4530 4.722700 GGGAGGGTGCATGTGCGT 62.723 66.667 0.00 0.00 45.83 5.24
2233 4609 2.970639 CCGCGTGGAGGAGAGAAA 59.029 61.111 10.20 0.00 37.49 2.52
2234 4610 3.760035 GCCGCGTGGAGGAGAGAA 61.760 66.667 21.76 0.00 37.49 2.87
2250 4640 2.703007 AGATGGTGGTGGATCTAAGAGC 59.297 50.000 0.00 0.00 0.00 4.09
2365 4755 1.404843 GACGGAGCAAGATAGGACCT 58.595 55.000 0.00 0.00 0.00 3.85
2388 4778 2.392662 CACCCTCTCATTCCTAGAGCA 58.607 52.381 0.00 0.00 39.36 4.26
2396 4786 0.256177 GTTCCCCCACCCTCTCATTC 59.744 60.000 0.00 0.00 0.00 2.67
2436 4826 6.368213 CAAAACCGAAACCTACAATCTACAC 58.632 40.000 0.00 0.00 0.00 2.90
2580 4970 3.036633 CGTCGATATGAAGAACCGACTG 58.963 50.000 0.00 0.00 44.95 3.51
2583 4973 5.874895 ATATCGTCGATATGAAGAACCGA 57.125 39.130 23.61 0.00 38.60 4.69
2596 4986 5.957798 AGGAACAAACACTAATATCGTCGA 58.042 37.500 0.00 0.00 0.00 4.20
2609 4999 0.250124 ACGATGCCGAGGAACAAACA 60.250 50.000 0.00 0.00 39.50 2.83
2626 5016 2.268076 CCACCTCCCCAAAGCAACG 61.268 63.158 0.00 0.00 0.00 4.10
2629 5019 4.299796 GGCCACCTCCCCAAAGCA 62.300 66.667 0.00 0.00 0.00 3.91
2638 5028 3.763671 CCAAGTTGTGGCCACCTC 58.236 61.111 32.62 23.65 41.72 3.85
2677 5067 0.739561 CTCGCTGGTAGGAGGTGTAC 59.260 60.000 0.00 0.00 0.00 2.90
2730 5141 3.257127 CCCCAGATTTCGACTCCTAGATC 59.743 52.174 0.00 0.00 0.00 2.75
2742 5153 3.005791 CACCACAAAACTCCCCAGATTTC 59.994 47.826 0.00 0.00 0.00 2.17
2745 5156 1.780309 TCACCACAAAACTCCCCAGAT 59.220 47.619 0.00 0.00 0.00 2.90
2746 5157 1.133915 GTCACCACAAAACTCCCCAGA 60.134 52.381 0.00 0.00 0.00 3.86
2747 5158 1.318576 GTCACCACAAAACTCCCCAG 58.681 55.000 0.00 0.00 0.00 4.45
2748 5159 0.626382 TGTCACCACAAAACTCCCCA 59.374 50.000 0.00 0.00 0.00 4.96
2749 5160 1.995376 ATGTCACCACAAAACTCCCC 58.005 50.000 0.00 0.00 35.64 4.81


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

AutoCloner maintained by Alex Coulton.