Multiple sequence alignment - TraesCS1D01G141600

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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 TraesCS1D01G141600 chr1D 100.000 2728 0 0 1 2728 195768507 195765780 0.000000e+00 5038.0
1 TraesCS1D01G141600 chr1D 100.000 2518 0 0 3048 5565 195765460 195762943 0.000000e+00 4650.0
2 TraesCS1D01G141600 chr1A 97.164 2010 41 7 688 2683 243866431 243864424 0.000000e+00 3382.0
3 TraesCS1D01G141600 chr1A 96.540 2023 46 7 3049 5051 243864105 243862087 0.000000e+00 3326.0
4 TraesCS1D01G141600 chr1A 94.669 544 25 3 5025 5565 243862063 243861521 0.000000e+00 841.0
5 TraesCS1D01G141600 chr1A 87.283 173 16 4 5316 5485 45892291 45892460 5.690000e-45 193.0
6 TraesCS1D01G141600 chr1A 83.168 101 10 6 5398 5494 45891759 45891856 9.930000e-13 86.1
7 TraesCS1D01G141600 chr1B 96.953 1838 35 10 3202 5024 269646943 269648774 0.000000e+00 3064.0
8 TraesCS1D01G141600 chr1B 98.486 1519 15 4 1167 2679 269645238 269646754 0.000000e+00 2671.0
9 TraesCS1D01G141600 chr1B 91.820 1088 54 19 4 1076 269643872 269644939 0.000000e+00 1483.0
10 TraesCS1D01G141600 chr1B 96.147 545 19 1 5008 5552 269648822 269649364 0.000000e+00 889.0
11 TraesCS1D01G141600 chr1B 95.690 116 5 0 3058 3173 269646831 269646946 2.650000e-43 187.0
12 TraesCS1D01G141600 chr1B 89.381 113 12 0 5318 5430 66142517 66142629 5.810000e-30 143.0
13 TraesCS1D01G141600 chr3A 83.229 477 66 5 206 682 97914164 97913702 5.150000e-115 425.0
14 TraesCS1D01G141600 chr3A 90.196 153 15 0 3129 3281 642715794 642715946 3.400000e-47 200.0
15 TraesCS1D01G141600 chr2B 87.363 182 21 1 5316 5495 91227054 91226873 2.030000e-49 207.0
16 TraesCS1D01G141600 chr2B 87.273 165 17 3 1080 1244 18154832 18154992 9.520000e-43 185.0
17 TraesCS1D01G141600 chr5B 94.697 132 7 0 3146 3277 202239363 202239232 7.310000e-49 206.0
18 TraesCS1D01G141600 chr5B 86.250 160 19 2 1085 1244 219096858 219096702 2.670000e-38 171.0
19 TraesCS1D01G141600 chr5B 84.397 141 20 2 5317 5456 226259784 226259645 2.700000e-28 137.0
20 TraesCS1D01G141600 chr4D 93.478 138 7 2 3145 3281 28238574 28238438 2.630000e-48 204.0
21 TraesCS1D01G141600 chr2D 96.000 125 5 0 3156 3280 62293418 62293294 2.630000e-48 204.0
22 TraesCS1D01G141600 chr7D 93.985 133 8 0 3149 3281 606120486 606120354 9.450000e-48 202.0
23 TraesCS1D01G141600 chr3D 92.701 137 10 0 3141 3277 496172746 496172882 1.220000e-46 198.0
24 TraesCS1D01G141600 chr4A 92.647 136 9 1 5316 5450 252715601 252715736 1.580000e-45 195.0
25 TraesCS1D01G141600 chr3B 90.132 152 11 4 3140 3288 76508239 76508389 1.580000e-45 195.0
26 TraesCS1D01G141600 chr3B 86.503 163 19 2 1082 1244 664839672 664839831 5.730000e-40 176.0
27 TraesCS1D01G141600 chr7B 88.000 150 15 2 1095 1244 167895364 167895218 2.060000e-39 174.0


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 TraesCS1D01G141600 chr1D 195762943 195768507 5564 True 4844.000000 5038 100.000000 1 5565 2 chr1D.!!$R1 5564
1 TraesCS1D01G141600 chr1A 243861521 243866431 4910 True 2516.333333 3382 96.124333 688 5565 3 chr1A.!!$R1 4877
2 TraesCS1D01G141600 chr1B 269643872 269649364 5492 False 1658.800000 3064 95.819200 4 5552 5 chr1B.!!$F2 5548

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
475 493 0.107214 TCAATCGCATCCTTCCACCC 60.107 55.000 0.00 0.0 0.00 4.61 F
594 612 0.599991 CGGCCCAAGAAAAACAAGGC 60.600 55.000 0.00 0.0 39.73 4.35 F
1164 1183 2.224843 TGGTTGTTGCAGGATGATGAGT 60.225 45.455 0.00 0.0 39.69 3.41 F
2550 2793 1.428912 TGAGGCATTTCCCCTTGTCTT 59.571 47.619 0.00 0.0 34.51 3.01 F
2685 2929 4.525100 TGCTAACCTAGTCACATACACACA 59.475 41.667 0.00 0.0 0.00 3.72 F
3641 3885 1.925285 TTCGCCTAGACGGGGTAGGA 61.925 60.000 10.33 0.0 45.51 2.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1835 2062 2.159627 GGGAGTGCTCGTACAAATTGTG 59.840 50.000 9.15 0.00 0.00 3.33 R
2342 2570 2.826488 AGAACAGCTAGGATGGAGTGT 58.174 47.619 0.00 0.00 0.00 3.55 R
3055 3299 3.817647 GGCAAATAAGATTCGAGCATCCT 59.182 43.478 0.00 0.00 0.00 3.24 R
3641 3885 0.474660 AGGACAGAAGCAGGAGGGTT 60.475 55.000 0.00 0.00 40.61 4.11 R
3674 3918 2.043801 ACTAGGAGGGAAGCAGAAGAGT 59.956 50.000 0.00 0.00 0.00 3.24 R
5054 5385 0.617249 GAATTGGCACCATGGGGGAA 60.617 55.000 17.80 3.08 41.15 3.97 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
25 26 6.512342 TTTGTAACCTCAAAGGAAAAACGA 57.488 33.333 0.00 0.00 37.67 3.85
26 27 5.744666 TGTAACCTCAAAGGAAAAACGAG 57.255 39.130 0.00 0.00 37.67 4.18
27 28 5.430007 TGTAACCTCAAAGGAAAAACGAGA 58.570 37.500 0.00 0.00 37.67 4.04
28 29 5.526111 TGTAACCTCAAAGGAAAAACGAGAG 59.474 40.000 0.00 0.00 37.67 3.20
29 30 4.417426 ACCTCAAAGGAAAAACGAGAGA 57.583 40.909 0.00 0.00 37.67 3.10
30 31 4.381411 ACCTCAAAGGAAAAACGAGAGAG 58.619 43.478 0.00 0.00 37.67 3.20
31 32 4.101119 ACCTCAAAGGAAAAACGAGAGAGA 59.899 41.667 0.00 0.00 37.67 3.10
55 56 2.018086 AGAGGGAGGGAGAGAGGGG 61.018 68.421 0.00 0.00 0.00 4.79
108 109 2.514824 GGAGGCCATGAAGACGCC 60.515 66.667 5.01 0.00 43.35 5.68
112 113 2.434185 GCCATGAAGACGCCGACA 60.434 61.111 0.00 0.00 0.00 4.35
117 118 1.929806 ATGAAGACGCCGACACGCTA 61.930 55.000 0.00 0.00 36.19 4.26
138 139 2.435410 TGCGAGCTCATGCACCAG 60.435 61.111 15.40 0.00 42.74 4.00
187 189 1.522806 GTCGTCCACTGCACCACAA 60.523 57.895 0.00 0.00 0.00 3.33
199 201 3.443045 CCACAACATGAGCCGCCC 61.443 66.667 0.00 0.00 0.00 6.13
218 220 1.271871 CCATGGCACTAGGGTTTGTCA 60.272 52.381 0.00 0.00 0.00 3.58
222 224 1.574702 GCACTAGGGTTTGTCACGGC 61.575 60.000 0.00 0.00 0.00 5.68
253 255 1.595382 GACGGTGTTGAGTGCAGCT 60.595 57.895 0.00 0.00 32.75 4.24
309 311 2.522198 ATCGAGGGCCTGGTGAGACT 62.522 60.000 12.95 0.00 0.00 3.24
353 355 1.203125 GGACATAGGAGGAGGAGGAGG 60.203 61.905 0.00 0.00 0.00 4.30
354 356 0.189822 ACATAGGAGGAGGAGGAGGC 59.810 60.000 0.00 0.00 0.00 4.70
405 423 2.282180 GGTGTGGCCGTTGTGGAT 60.282 61.111 0.00 0.00 42.00 3.41
464 482 1.135717 CGCAAGGAACAATCAATCGCA 60.136 47.619 0.00 0.00 0.00 5.10
465 483 2.478370 CGCAAGGAACAATCAATCGCAT 60.478 45.455 0.00 0.00 0.00 4.73
468 486 3.287867 AGGAACAATCAATCGCATCCT 57.712 42.857 0.00 0.00 0.00 3.24
469 487 3.624777 AGGAACAATCAATCGCATCCTT 58.375 40.909 0.00 0.00 31.99 3.36
470 488 3.629398 AGGAACAATCAATCGCATCCTTC 59.371 43.478 0.00 0.00 31.99 3.46
471 489 3.243201 GGAACAATCAATCGCATCCTTCC 60.243 47.826 0.00 0.00 0.00 3.46
472 490 3.003394 ACAATCAATCGCATCCTTCCA 57.997 42.857 0.00 0.00 0.00 3.53
473 491 2.684881 ACAATCAATCGCATCCTTCCAC 59.315 45.455 0.00 0.00 0.00 4.02
474 492 1.972872 ATCAATCGCATCCTTCCACC 58.027 50.000 0.00 0.00 0.00 4.61
475 493 0.107214 TCAATCGCATCCTTCCACCC 60.107 55.000 0.00 0.00 0.00 4.61
476 494 1.103398 CAATCGCATCCTTCCACCCC 61.103 60.000 0.00 0.00 0.00 4.95
477 495 2.608970 AATCGCATCCTTCCACCCCG 62.609 60.000 0.00 0.00 0.00 5.73
531 549 1.682849 TGGCCCACAGGTCATACAC 59.317 57.895 0.00 0.00 45.08 2.90
579 597 2.674796 ACAGTGAAGATCTAACGGCC 57.325 50.000 0.00 0.00 0.00 6.13
580 598 1.207329 ACAGTGAAGATCTAACGGCCC 59.793 52.381 0.00 0.00 0.00 5.80
582 600 1.906574 AGTGAAGATCTAACGGCCCAA 59.093 47.619 0.00 0.00 0.00 4.12
584 602 2.093658 GTGAAGATCTAACGGCCCAAGA 60.094 50.000 0.00 0.00 0.00 3.02
587 605 3.713826 AGATCTAACGGCCCAAGAAAA 57.286 42.857 0.00 0.00 0.00 2.29
594 612 0.599991 CGGCCCAAGAAAAACAAGGC 60.600 55.000 0.00 0.00 39.73 4.35
605 623 5.538118 AGAAAAACAAGGCGGGAAATTTAG 58.462 37.500 0.00 0.00 0.00 1.85
607 625 3.934457 AACAAGGCGGGAAATTTAGTG 57.066 42.857 0.00 0.00 0.00 2.74
710 728 9.750125 TGATGTGTAGCTATGATTACAAGTAAG 57.250 33.333 0.00 0.00 32.08 2.34
726 744 7.622502 ACAAGTAAGTAAAGAGGAGGGTTTA 57.377 36.000 0.00 0.00 0.00 2.01
1076 1094 8.839310 TCTTGGAAATTGTTTTTCTTTTGTGA 57.161 26.923 0.00 0.00 0.00 3.58
1164 1183 2.224843 TGGTTGTTGCAGGATGATGAGT 60.225 45.455 0.00 0.00 39.69 3.41
1877 2104 9.440761 ACTCCCTGATTATAGTTTCTGTATCTT 57.559 33.333 0.00 0.00 0.00 2.40
2316 2543 4.041723 CGAACAAGCCTTTGGTTTAACTG 58.958 43.478 0.00 0.00 38.66 3.16
2550 2793 1.428912 TGAGGCATTTCCCCTTGTCTT 59.571 47.619 0.00 0.00 34.51 3.01
2683 2927 5.245301 AGTTGCTAACCTAGTCACATACACA 59.755 40.000 0.00 0.00 0.00 3.72
2684 2928 5.068234 TGCTAACCTAGTCACATACACAC 57.932 43.478 0.00 0.00 0.00 3.82
2685 2929 4.525100 TGCTAACCTAGTCACATACACACA 59.475 41.667 0.00 0.00 0.00 3.72
2686 2930 5.011227 TGCTAACCTAGTCACATACACACAA 59.989 40.000 0.00 0.00 0.00 3.33
2689 2933 7.119262 GCTAACCTAGTCACATACACACAAAAT 59.881 37.037 0.00 0.00 0.00 1.82
2690 2934 6.801539 ACCTAGTCACATACACACAAAATG 57.198 37.500 0.00 0.00 0.00 2.32
2691 2935 6.530120 ACCTAGTCACATACACACAAAATGA 58.470 36.000 0.00 0.00 0.00 2.57
2692 2936 6.995686 ACCTAGTCACATACACACAAAATGAA 59.004 34.615 0.00 0.00 0.00 2.57
2693 2937 7.173218 ACCTAGTCACATACACACAAAATGAAG 59.827 37.037 0.00 0.00 0.00 3.02
2695 2939 7.333528 AGTCACATACACACAAAATGAAGTT 57.666 32.000 0.00 0.00 0.00 2.66
2697 2941 8.898761 AGTCACATACACACAAAATGAAGTTAA 58.101 29.630 0.00 0.00 0.00 2.01
3117 3361 8.057536 ACACACCTTTAGTTATTTGTTTGTCA 57.942 30.769 0.00 0.00 0.00 3.58
3160 3404 9.059260 GTTTGAACTAATTTTGTAGTACCTCCA 57.941 33.333 0.00 0.00 33.05 3.86
3198 3442 8.693120 TGTCTTAGATTTGTCTAGATACGGAT 57.307 34.615 0.00 0.00 0.00 4.18
3237 3481 4.852104 GCGTGACTAGATACATCCGTATTG 59.148 45.833 0.00 0.00 38.48 1.90
3641 3885 1.925285 TTCGCCTAGACGGGGTAGGA 61.925 60.000 10.33 0.00 45.51 2.94
3674 3918 5.631953 GCTTCTGTCCTAGGAGAGTTAGGTA 60.632 48.000 29.71 11.48 39.01 3.08
4460 4713 2.495366 TACATTCGCGCCTGTCCGTT 62.495 55.000 15.20 0.00 0.00 4.44
4484 4737 4.639135 TGTAGATCTGTGATCTGGTTCG 57.361 45.455 17.38 0.00 0.00 3.95
4494 4747 7.033791 TCTGTGATCTGGTTCGTAGAATAAAC 58.966 38.462 0.00 0.00 45.90 2.01
4495 4748 6.693466 TGTGATCTGGTTCGTAGAATAAACA 58.307 36.000 0.00 0.00 45.90 2.83
4526 4793 0.610232 AGGTCATGCTGTGGGCTTTC 60.610 55.000 0.00 0.00 42.39 2.62
4870 5138 5.006746 CGTAGCATGAAGACCTGTAAAATCC 59.993 44.000 0.00 0.00 0.00 3.01
4876 5144 6.373005 TGAAGACCTGTAAAATCCATCTGA 57.627 37.500 0.00 0.00 0.00 3.27
5054 5385 5.124645 CGAGTGTTCCCTACTACATAGTCT 58.875 45.833 0.00 0.00 37.73 3.24
5108 5439 8.402326 TCGTAACTAGCACACAGTAATAATTG 57.598 34.615 0.00 0.00 0.00 2.32
5178 5509 9.619316 TCAGTTACATATTTGTACAATTTGCAC 57.381 29.630 9.56 8.02 38.05 4.57
5434 5766 5.046878 CCATGTACTCTATATAAACCGCCCA 60.047 44.000 0.00 0.00 0.00 5.36
5537 5871 2.787473 TGCTCATCCACAACCTAAGG 57.213 50.000 0.00 0.00 0.00 2.69
5554 5888 3.594603 AAGGATGTGACTAACGACCTG 57.405 47.619 0.00 0.00 37.13 4.00
5557 5891 1.993370 GATGTGACTAACGACCTGCAC 59.007 52.381 0.00 0.00 0.00 4.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.548967 TCGTTTTTCCTTTGAGGTTACAAATT 58.451 30.769 0.00 0.00 38.73 1.82
1 2 7.067737 TCTCGTTTTTCCTTTGAGGTTACAAAT 59.932 33.333 0.00 0.00 38.73 2.32
2 3 6.374894 TCTCGTTTTTCCTTTGAGGTTACAAA 59.625 34.615 0.00 0.00 36.53 2.83
25 26 2.412591 CCTCCCTCTCTCTCTCTCTCT 58.587 57.143 0.00 0.00 0.00 3.10
26 27 1.421646 CCCTCCCTCTCTCTCTCTCTC 59.578 61.905 0.00 0.00 0.00 3.20
27 28 1.010793 TCCCTCCCTCTCTCTCTCTCT 59.989 57.143 0.00 0.00 0.00 3.10
28 29 1.421646 CTCCCTCCCTCTCTCTCTCTC 59.578 61.905 0.00 0.00 0.00 3.20
29 30 1.010793 TCTCCCTCCCTCTCTCTCTCT 59.989 57.143 0.00 0.00 0.00 3.10
30 31 1.421646 CTCTCCCTCCCTCTCTCTCTC 59.578 61.905 0.00 0.00 0.00 3.20
31 32 1.010793 TCTCTCCCTCCCTCTCTCTCT 59.989 57.143 0.00 0.00 0.00 3.10
63 64 2.586425 CAGGTGATCTCTCTCTCTCCC 58.414 57.143 0.00 0.00 0.00 4.30
66 67 1.679139 CGCAGGTGATCTCTCTCTCT 58.321 55.000 0.00 0.00 0.00 3.10
67 68 0.030638 GCGCAGGTGATCTCTCTCTC 59.969 60.000 0.30 0.00 0.00 3.20
68 69 0.682532 TGCGCAGGTGATCTCTCTCT 60.683 55.000 5.66 0.00 0.00 3.10
75 76 1.364626 CTCCAAGTGCGCAGGTGATC 61.365 60.000 12.22 0.00 0.00 2.92
117 118 3.709633 TGCATGAGCTCGCACCCT 61.710 61.111 11.70 0.00 42.74 4.34
199 201 1.812571 GTGACAAACCCTAGTGCCATG 59.187 52.381 0.00 0.00 0.00 3.66
205 207 1.373812 GGCCGTGACAAACCCTAGT 59.626 57.895 0.00 0.00 0.00 2.57
238 240 1.835483 CGACAGCTGCACTCAACACC 61.835 60.000 15.27 0.00 0.00 4.16
298 300 2.985456 GCCTCCAGTCTCACCAGG 59.015 66.667 0.00 0.00 0.00 4.45
327 329 1.457643 TCCTCCTATGTCCCTGCGG 60.458 63.158 0.00 0.00 0.00 5.69
340 342 2.445654 CCTGCCTCCTCCTCCTCC 60.446 72.222 0.00 0.00 0.00 4.30
341 343 2.445654 CCCTGCCTCCTCCTCCTC 60.446 72.222 0.00 0.00 0.00 3.71
342 344 2.955246 TCCCTGCCTCCTCCTCCT 60.955 66.667 0.00 0.00 0.00 3.69
343 345 2.445654 CTCCCTGCCTCCTCCTCC 60.446 72.222 0.00 0.00 0.00 4.30
368 370 3.827898 CCTCCCTCACTCGTCCGC 61.828 72.222 0.00 0.00 0.00 5.54
377 379 2.122729 CCACACCCTCCTCCCTCA 59.877 66.667 0.00 0.00 0.00 3.86
396 414 0.393808 CCCTACCCCAATCCACAACG 60.394 60.000 0.00 0.00 0.00 4.10
405 423 2.751688 GCACGAACCCTACCCCAA 59.248 61.111 0.00 0.00 0.00 4.12
447 465 3.624777 AGGATGCGATTGATTGTTCCTT 58.375 40.909 0.00 0.00 0.00 3.36
456 474 0.107214 GGGTGGAAGGATGCGATTGA 60.107 55.000 0.00 0.00 0.00 2.57
464 482 3.728373 GGTGCGGGGTGGAAGGAT 61.728 66.667 0.00 0.00 0.00 3.24
475 493 4.641645 TGTCTTGGCTGGGTGCGG 62.642 66.667 0.00 0.00 44.05 5.69
476 494 3.357079 GTGTCTTGGCTGGGTGCG 61.357 66.667 0.00 0.00 44.05 5.34
477 495 2.203337 TGTGTCTTGGCTGGGTGC 60.203 61.111 0.00 0.00 41.94 5.01
551 569 9.314321 CCGTTAGATCTTCACTGTATGTTTTAT 57.686 33.333 0.00 0.00 0.00 1.40
561 579 1.207089 TGGGCCGTTAGATCTTCACTG 59.793 52.381 0.00 0.00 0.00 3.66
579 597 1.036707 TCCCGCCTTGTTTTTCTTGG 58.963 50.000 0.00 0.00 0.00 3.61
580 598 2.880963 TTCCCGCCTTGTTTTTCTTG 57.119 45.000 0.00 0.00 0.00 3.02
582 600 4.415881 AAATTTCCCGCCTTGTTTTTCT 57.584 36.364 0.00 0.00 0.00 2.52
584 602 5.053811 CACTAAATTTCCCGCCTTGTTTTT 58.946 37.500 0.00 0.00 0.00 1.94
587 605 2.029380 GCACTAAATTTCCCGCCTTGTT 60.029 45.455 0.00 0.00 0.00 2.83
594 612 4.173256 GTTTGATGGCACTAAATTTCCCG 58.827 43.478 0.00 0.00 0.00 5.14
670 688 8.668510 AGCTACACATCATCTAAACCAATAAG 57.331 34.615 0.00 0.00 0.00 1.73
710 728 9.511272 TTCTTACAATTAAACCCTCCTCTTTAC 57.489 33.333 0.00 0.00 0.00 2.01
962 980 4.459330 GATGAAATCTTCCCTTCCTCCTG 58.541 47.826 0.00 0.00 41.17 3.86
1076 1094 4.080863 AGGAAGGAATCAATCGCTTGTACT 60.081 41.667 0.00 0.00 33.87 2.73
1164 1183 4.878968 TCACCATCTCCACCTTATAGTCA 58.121 43.478 0.00 0.00 0.00 3.41
1835 2062 2.159627 GGGAGTGCTCGTACAAATTGTG 59.840 50.000 9.15 0.00 0.00 3.33
2211 2438 3.268023 ACTCATAGTTGGCTGCCTTAC 57.732 47.619 21.03 17.04 0.00 2.34
2294 2521 4.041723 CAGTTAAACCAAAGGCTTGTTCG 58.958 43.478 0.00 0.00 0.00 3.95
2342 2570 2.826488 AGAACAGCTAGGATGGAGTGT 58.174 47.619 0.00 0.00 0.00 3.55
2572 2815 6.108015 ACATGTTCACAAAACAGCAAAGAAT 58.892 32.000 0.00 0.00 33.18 2.40
3047 3291 5.344743 AGATTCGAGCATCCTTTGACTAA 57.655 39.130 0.00 0.00 0.00 2.24
3055 3299 3.817647 GGCAAATAAGATTCGAGCATCCT 59.182 43.478 0.00 0.00 0.00 3.24
3117 3361 6.040842 AGTTCAAACTTCAAACTATGGCACAT 59.959 34.615 0.00 0.00 38.88 3.21
3194 3438 5.173312 CACGCTTTAGTGTTAGATACATCCG 59.827 44.000 0.00 0.00 39.39 4.18
3198 3442 6.263516 AGTCACGCTTTAGTGTTAGATACA 57.736 37.500 0.00 0.00 42.40 2.29
3237 3481 9.617975 CCAAAATTCTTGTCTTAGATTTGTCTC 57.382 33.333 0.00 0.00 28.79 3.36
3367 3611 2.799978 CGACTATGGCAATATCAACGCA 59.200 45.455 0.00 0.00 0.00 5.24
3641 3885 0.474660 AGGACAGAAGCAGGAGGGTT 60.475 55.000 0.00 0.00 40.61 4.11
3674 3918 2.043801 ACTAGGAGGGAAGCAGAAGAGT 59.956 50.000 0.00 0.00 0.00 3.24
4035 4288 8.737175 ACTGCTAGAATATGCATATTGAAATGG 58.263 33.333 31.58 19.70 38.59 3.16
4058 4311 5.499139 TTGAGCAACCAAAAGAAGTACTG 57.501 39.130 0.00 0.00 0.00 2.74
4460 4713 5.869344 CGAACCAGATCACAGATCTACAAAA 59.131 40.000 9.03 0.00 0.00 2.44
4494 4747 3.624861 AGCATGACCTTAAGCGAGAATTG 59.375 43.478 0.00 0.00 0.00 2.32
4495 4748 3.624861 CAGCATGACCTTAAGCGAGAATT 59.375 43.478 0.00 0.00 39.69 2.17
4526 4793 4.301628 GAAACAGAAGCAAATCACCCTTG 58.698 43.478 0.00 0.00 0.00 3.61
4857 5125 5.762218 CAGGATCAGATGGATTTTACAGGTC 59.238 44.000 0.00 0.00 36.00 3.85
4870 5138 2.685850 TCTGTGTGCAGGATCAGATG 57.314 50.000 0.00 0.00 42.78 2.90
4876 5144 2.936202 AGTTGTTTCTGTGTGCAGGAT 58.064 42.857 0.00 0.00 42.78 3.24
5054 5385 0.617249 GAATTGGCACCATGGGGGAA 60.617 55.000 17.80 3.08 41.15 3.97
5466 5798 7.673641 ACAATGATAGAGAGAGAAGGATTGT 57.326 36.000 0.00 0.00 0.00 2.71
5537 5871 1.993370 GTGCAGGTCGTTAGTCACATC 59.007 52.381 0.00 0.00 0.00 3.06


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

AutoCloner maintained by Alex Coulton.