Multiple sequence alignment - TraesCS7B01G150400

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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 TraesCS7B01G150400 chr7B 100.000 4933 0 0 1 4933 199494247 199499179 0.000000e+00 9110.0
1 TraesCS7B01G150400 chr7D 95.167 4304 153 21 672 4933 228009954 228014244 0.000000e+00 6745.0
2 TraesCS7B01G150400 chr7D 91.720 628 36 10 1 625 228007813 228008427 0.000000e+00 857.0
3 TraesCS7B01G150400 chr7D 77.895 190 20 10 4495 4662 625726095 625726284 1.130000e-16 99.0
4 TraesCS7B01G150400 chr7A 93.979 2674 104 29 1 2658 240084688 240087320 0.000000e+00 3993.0
5 TraesCS7B01G150400 chr7A 95.463 2116 83 10 2650 4754 240087773 240089886 0.000000e+00 3363.0
6 TraesCS7B01G150400 chr7A 89.811 265 27 0 4668 4932 240089890 240090154 1.700000e-89 340.0
7 TraesCS7B01G150400 chr6B 77.295 207 28 6 4286 4474 169103685 169103890 2.430000e-18 104.0
8 TraesCS7B01G150400 chr3D 83.621 116 14 4 4291 4403 188813157 188813270 2.430000e-18 104.0
9 TraesCS7B01G150400 chr2B 86.667 90 9 1 4295 4381 373294829 373294918 4.060000e-16 97.1
10 TraesCS7B01G150400 chr2B 100.000 29 0 0 4495 4523 549502517 549502545 2.000000e-03 54.7


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 TraesCS7B01G150400 chr7B 199494247 199499179 4932 False 9110.000000 9110 100.000000 1 4933 1 chr7B.!!$F1 4932
1 TraesCS7B01G150400 chr7D 228007813 228014244 6431 False 3801.000000 6745 93.443500 1 4933 2 chr7D.!!$F2 4932
2 TraesCS7B01G150400 chr7A 240084688 240090154 5466 False 2565.333333 3993 93.084333 1 4932 3 chr7A.!!$F1 4931

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
52 53 0.032678 ACGACAGTGCAAGAGTGGAG 59.967 55.000 0.00 0.00 0.00 3.86 F
930 2439 0.388520 TCCTGCAGATTCGACACGTG 60.389 55.000 17.39 15.48 0.00 4.49 F
1047 2557 0.606673 GTGTGCCCCTCCTTTCTGTC 60.607 60.000 0.00 0.00 0.00 3.51 F
1048 2558 1.002011 GTGCCCCTCCTTTCTGTCC 60.002 63.158 0.00 0.00 0.00 4.02 F
1054 2564 1.199615 CCTCCTTTCTGTCCCTCTCC 58.800 60.000 0.00 0.00 0.00 3.71 F
2824 4829 2.158430 GGTTGGGTTTTGGTCTTCCCTA 60.158 50.000 0.00 0.00 40.48 3.53 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1257 2767 1.039068 TTGTTACCTTGACGACGGGA 58.961 50.000 0.00 0.00 0.00 5.14 R
2725 4730 3.486383 GTTTTCACACAATGGGAGGAGA 58.514 45.455 0.00 0.00 27.75 3.71 R
2984 4990 4.067896 CCATTCCTGGCAGATACATGTAC 58.932 47.826 17.94 2.64 35.23 2.90 R
3165 5171 3.118334 AGAAGGGAGAAGAGATGTGCATG 60.118 47.826 0.00 0.00 0.00 4.06 R
3187 5193 7.611770 AGTTACACAAGCATCTATGAGTAACA 58.388 34.615 20.26 0.00 46.64 2.41 R
4858 6965 0.247736 GACTCTGTAGGTGCCAGGTG 59.752 60.000 0.00 0.00 0.00 4.00 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
52 53 0.032678 ACGACAGTGCAAGAGTGGAG 59.967 55.000 0.00 0.00 0.00 3.86
60 61 1.490490 TGCAAGAGTGGAGTTGAAGGT 59.510 47.619 0.00 0.00 0.00 3.50
65 66 1.887198 GAGTGGAGTTGAAGGTCGAGA 59.113 52.381 0.00 0.00 0.00 4.04
93 94 4.034394 TGAAGCAGACAAATGATCGCATAC 59.966 41.667 0.00 0.00 33.44 2.39
228 230 4.521146 AGGATGTTGCTTCTTCGATCATT 58.479 39.130 0.00 0.00 0.00 2.57
247 249 9.188588 CGATCATTGAATTTGGAATAGAAATGG 57.811 33.333 0.00 0.00 0.00 3.16
253 255 8.592529 TGAATTTGGAATAGAAATGGATGTGA 57.407 30.769 0.00 0.00 0.00 3.58
261 263 7.922811 GGAATAGAAATGGATGTGATGTTTTCC 59.077 37.037 0.00 0.00 0.00 3.13
404 406 1.835531 GGGACGGGAAAGTATCTTGGA 59.164 52.381 0.00 0.00 0.00 3.53
407 410 4.524053 GGACGGGAAAGTATCTTGGAAAT 58.476 43.478 0.00 0.00 0.00 2.17
559 565 9.803315 GAGAAACTTGAACTTTTTAGGATTGTT 57.197 29.630 0.00 0.00 0.00 2.83
595 601 2.592102 ACATTCACAATGCTCCCTGT 57.408 45.000 0.00 0.00 42.69 4.00
596 602 2.880443 ACATTCACAATGCTCCCTGTT 58.120 42.857 0.00 0.00 42.69 3.16
597 603 3.233507 ACATTCACAATGCTCCCTGTTT 58.766 40.909 0.00 0.00 42.69 2.83
598 604 3.642848 ACATTCACAATGCTCCCTGTTTT 59.357 39.130 0.00 0.00 42.69 2.43
599 605 4.101430 ACATTCACAATGCTCCCTGTTTTT 59.899 37.500 0.00 0.00 42.69 1.94
627 633 6.676237 TTTTTGAAACTTCTGAATTTGGCC 57.324 33.333 0.00 0.00 0.00 5.36
628 634 5.350504 TTTGAAACTTCTGAATTTGGCCA 57.649 34.783 0.00 0.00 0.00 5.36
631 637 5.927819 TGAAACTTCTGAATTTGGCCATTT 58.072 33.333 6.09 3.13 0.00 2.32
633 639 7.504403 TGAAACTTCTGAATTTGGCCATTTTA 58.496 30.769 6.09 0.00 0.00 1.52
634 640 7.656948 TGAAACTTCTGAATTTGGCCATTTTAG 59.343 33.333 6.09 10.23 0.00 1.85
635 641 6.041423 ACTTCTGAATTTGGCCATTTTAGG 57.959 37.500 6.09 1.36 0.00 2.69
636 642 5.779771 ACTTCTGAATTTGGCCATTTTAGGA 59.220 36.000 6.09 3.87 0.00 2.94
637 643 6.269769 ACTTCTGAATTTGGCCATTTTAGGAA 59.730 34.615 6.09 7.34 0.00 3.36
638 644 6.872585 TCTGAATTTGGCCATTTTAGGAAT 57.127 33.333 6.09 0.00 0.00 3.01
639 645 7.256494 TCTGAATTTGGCCATTTTAGGAATT 57.744 32.000 6.09 7.74 0.00 2.17
640 646 7.104939 TCTGAATTTGGCCATTTTAGGAATTG 58.895 34.615 6.09 0.00 0.00 2.32
641 647 6.777782 TGAATTTGGCCATTTTAGGAATTGT 58.222 32.000 6.09 0.00 0.00 2.71
642 648 7.230027 TGAATTTGGCCATTTTAGGAATTGTT 58.770 30.769 6.09 0.00 0.00 2.83
643 649 7.174599 TGAATTTGGCCATTTTAGGAATTGTTG 59.825 33.333 6.09 0.00 0.00 3.33
644 650 5.815233 TTGGCCATTTTAGGAATTGTTGA 57.185 34.783 6.09 0.00 0.00 3.18
645 651 5.146010 TGGCCATTTTAGGAATTGTTGAC 57.854 39.130 0.00 0.00 0.00 3.18
646 652 4.590647 TGGCCATTTTAGGAATTGTTGACA 59.409 37.500 0.00 0.00 0.00 3.58
647 653 4.929211 GGCCATTTTAGGAATTGTTGACAC 59.071 41.667 0.00 0.00 0.00 3.67
648 654 5.510520 GGCCATTTTAGGAATTGTTGACACA 60.511 40.000 0.00 0.00 0.00 3.72
649 655 6.165577 GCCATTTTAGGAATTGTTGACACAT 58.834 36.000 0.00 0.00 31.06 3.21
650 656 7.319646 GCCATTTTAGGAATTGTTGACACATA 58.680 34.615 0.00 0.00 31.06 2.29
651 657 7.981225 GCCATTTTAGGAATTGTTGACACATAT 59.019 33.333 0.00 0.00 31.06 1.78
668 674 4.456911 CACATATGTTGGGAGCATGGTATC 59.543 45.833 5.37 0.00 0.00 2.24
709 2213 1.490910 GGATACTTTCCACTCCTGGGG 59.509 57.143 0.00 0.00 44.74 4.96
710 2214 0.919710 ATACTTTCCACTCCTGGGGC 59.080 55.000 0.00 0.00 38.25 5.80
763 2267 9.097257 CCGTATGCAATTTTCCTTTATTTTCAT 57.903 29.630 0.00 0.00 0.00 2.57
878 2387 4.270834 GGGAAAGTGGAAGAATCCCTTAC 58.729 47.826 1.89 0.00 45.95 2.34
890 2399 2.241281 TCCCTTACTGGAACGGATCA 57.759 50.000 0.00 0.00 38.67 2.92
911 2420 3.703001 ACGTCCATCTTCAATCCAACT 57.297 42.857 0.00 0.00 0.00 3.16
915 2424 3.944015 GTCCATCTTCAATCCAACTCCTG 59.056 47.826 0.00 0.00 0.00 3.86
930 2439 0.388520 TCCTGCAGATTCGACACGTG 60.389 55.000 17.39 15.48 0.00 4.49
934 2443 1.352156 GCAGATTCGACACGTGTCCC 61.352 60.000 36.01 23.93 41.86 4.46
1047 2557 0.606673 GTGTGCCCCTCCTTTCTGTC 60.607 60.000 0.00 0.00 0.00 3.51
1048 2558 1.002011 GTGCCCCTCCTTTCTGTCC 60.002 63.158 0.00 0.00 0.00 4.02
1054 2564 1.199615 CCTCCTTTCTGTCCCTCTCC 58.800 60.000 0.00 0.00 0.00 3.71
1450 2960 8.687242 TGTGTTGTTCCATTGTGTTCTTATTAA 58.313 29.630 0.00 0.00 0.00 1.40
1458 2968 8.328758 TCCATTGTGTTCTTATTAAGAGGTGAT 58.671 33.333 6.26 0.00 39.03 3.06
1494 3004 5.006746 GCTTGATATCTTTGAAATCGGTCGT 59.993 40.000 3.98 0.00 0.00 4.34
1517 3027 5.916883 GTGAAGTTTTGTGGATGTCATGAAG 59.083 40.000 0.00 0.00 0.00 3.02
1691 3206 7.288621 AGGAGTGAATCAGGTCATTTTCTTTTT 59.711 33.333 0.00 0.00 0.00 1.94
1705 3220 9.040939 TCATTTTCTTTTTAGTTTGCCTTTAGC 57.959 29.630 0.00 0.00 44.14 3.09
2085 3628 2.250485 GGCATGCATCATCGACGC 59.750 61.111 21.36 0.00 0.00 5.19
2599 4143 9.220767 GAAACTTCAACAGTATGAATAGGAACT 57.779 33.333 0.00 0.00 39.69 3.01
2618 4162 7.110155 AGGAACTTAAAATACACGTCCATGAT 58.890 34.615 0.00 0.00 27.25 2.45
2725 4730 7.613585 TGGCATGTCAATCATTAAGAATTTGT 58.386 30.769 0.00 0.00 34.09 2.83
2809 4814 7.722363 AGTTAGTAATTTTTGTTGAGGTTGGG 58.278 34.615 0.00 0.00 0.00 4.12
2824 4829 2.158430 GGTTGGGTTTTGGTCTTCCCTA 60.158 50.000 0.00 0.00 40.48 3.53
2984 4990 4.248859 AGATTTCATGAACTGACGGTGAG 58.751 43.478 7.89 0.00 32.17 3.51
2995 5001 4.270834 ACTGACGGTGAGTACATGTATCT 58.729 43.478 9.18 8.14 0.00 1.98
3111 5117 5.947228 TCAGGTCTGTGATTTGATTTGAC 57.053 39.130 0.00 0.00 0.00 3.18
3165 5171 8.394877 TGATGAATCCATTTATCGTTTACACAC 58.605 33.333 1.00 0.00 36.05 3.82
3187 5193 2.544721 TGCACATCTCTTCTCCCTTCT 58.455 47.619 0.00 0.00 0.00 2.85
3225 5231 7.935520 TGCTTGTGTAACTTATGATTTGTGAA 58.064 30.769 0.00 0.00 38.04 3.18
3368 5374 6.304882 CGAGCAAAGCTTAAAGGTAAACTAC 58.695 40.000 0.00 0.00 39.88 2.73
3454 5460 4.581824 TGTGAGTACAGTAAAACCTCGACT 59.418 41.667 0.00 0.00 31.91 4.18
3473 5479 3.428532 ACTGCTTTTGATGGATGCTCTT 58.571 40.909 0.00 0.00 0.00 2.85
3489 5495 5.426689 TGCTCTTCATGTAGGAGTTGAAT 57.573 39.130 0.00 0.00 0.00 2.57
3631 5637 4.965119 AACTTTATTCAGATTGCCGTCC 57.035 40.909 0.00 0.00 0.00 4.79
4272 6278 1.135546 TGTGGACGTGCAGTGTTTTTG 60.136 47.619 11.09 0.00 0.00 2.44
4273 6279 0.179150 TGGACGTGCAGTGTTTTTGC 60.179 50.000 5.33 0.00 41.86 3.68
4285 6291 4.928615 CAGTGTTTTTGCTTTGGAAACTCA 59.071 37.500 0.00 0.00 35.04 3.41
4291 6297 0.540597 GCTTTGGAAACTCAGCCCCT 60.541 55.000 0.00 0.00 31.95 4.79
4357 6366 9.626045 AGAAATAAATCAGGTTTTTCTTAAGCG 57.374 29.630 0.00 0.00 27.52 4.68
4359 6368 5.453567 AAATCAGGTTTTTCTTAAGCGCT 57.546 34.783 2.64 2.64 0.00 5.92
4361 6370 2.552315 TCAGGTTTTTCTTAAGCGCTGG 59.448 45.455 12.58 4.61 0.00 4.85
4375 6384 2.355756 AGCGCTGGTGCTTATTTGTATG 59.644 45.455 10.39 0.00 44.46 2.39
4383 6392 7.090319 TGGTGCTTATTTGTATGGGATAGAT 57.910 36.000 0.00 0.00 0.00 1.98
4385 6394 6.375455 GGTGCTTATTTGTATGGGATAGATGG 59.625 42.308 0.00 0.00 0.00 3.51
4445 6455 5.243060 ACCGCTTTATTTTTCTAAGCACCTT 59.757 36.000 0.00 0.00 43.34 3.50
4455 6466 6.435292 TTTCTAAGCACCTTCCTAAGAACT 57.565 37.500 0.00 0.00 0.00 3.01
4525 6536 2.750712 GAGTTGCCCGGTTAATTAGCAA 59.249 45.455 7.79 7.79 40.89 3.91
4528 6539 3.579335 TGCCCGGTTAATTAGCAAAAC 57.421 42.857 0.00 0.00 0.00 2.43
4556 6573 1.202200 TGTTACAACACGCCTGCAAAC 60.202 47.619 0.00 0.00 33.17 2.93
4607 6624 2.604174 CCCAAACACACCGTCGAGC 61.604 63.158 0.00 0.00 0.00 5.03
4685 6792 2.181021 CCGACCCTTCCGAACGAG 59.819 66.667 0.00 0.00 0.00 4.18
4718 6825 1.545428 CCACCTTTACTCCAGCAAGCA 60.545 52.381 0.00 0.00 0.00 3.91
4730 6837 0.106708 AGCAAGCAACTCCGACTTCA 59.893 50.000 0.00 0.00 0.00 3.02
4731 6838 0.514691 GCAAGCAACTCCGACTTCAG 59.485 55.000 0.00 0.00 0.00 3.02
4754 6861 1.866925 GCCAACCCTTTCGAACGAG 59.133 57.895 2.75 0.00 0.00 4.18
4808 6915 1.287815 TCGTTTGGCGATGTCGAGT 59.712 52.632 6.60 0.00 45.68 4.18
4858 6965 2.421619 CTCACAGGAGAAAAGGAGCAC 58.578 52.381 0.00 0.00 44.26 4.40
4859 6966 1.768275 TCACAGGAGAAAAGGAGCACA 59.232 47.619 0.00 0.00 0.00 4.57
4880 6987 0.976641 CTGGCACCTACAGAGTCCAA 59.023 55.000 0.00 0.00 38.20 3.53
4906 7013 0.960364 AATCGCCTGGCATCGTTGTT 60.960 50.000 20.29 0.00 0.00 2.83
4909 7016 2.629656 GCCTGGCATCGTTGTTGCT 61.630 57.895 15.17 0.00 40.03 3.91
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
52 53 4.201763 GCTTCATTGATCTCGACCTTCAAC 60.202 45.833 0.00 0.00 32.61 3.18
60 61 3.874392 TGTCTGCTTCATTGATCTCGA 57.126 42.857 0.00 0.00 0.00 4.04
65 66 5.732528 GCGATCATTTGTCTGCTTCATTGAT 60.733 40.000 0.00 0.00 0.00 2.57
93 94 7.553881 ACACGATGATCCAAAAAGGTTATAG 57.446 36.000 0.00 0.00 39.02 1.31
164 165 1.169577 TGCCAACAACGACACAAGTT 58.830 45.000 0.00 0.00 0.00 2.66
228 230 8.592529 TCACATCCATTTCTATTCCAAATTCA 57.407 30.769 0.00 0.00 0.00 2.57
247 249 5.179368 TCGAAAGACAGGAAAACATCACATC 59.821 40.000 0.00 0.00 33.31 3.06
253 255 6.697019 CACAAAATCGAAAGACAGGAAAACAT 59.303 34.615 0.00 0.00 46.97 2.71
306 308 2.439883 ACTCCGAGCGGGTCCTAC 60.440 66.667 9.29 0.00 37.00 3.18
625 631 5.537188 TGTGTCAACAATTCCTAAAATGGC 58.463 37.500 0.00 0.00 31.82 4.40
627 633 9.859427 ACATATGTGTCAACAATTCCTAAAATG 57.141 29.630 7.78 0.00 40.46 2.32
631 637 7.093988 CCCAACATATGTGTCAACAATTCCTAA 60.094 37.037 9.63 0.00 40.46 2.69
633 639 5.185635 CCCAACATATGTGTCAACAATTCCT 59.814 40.000 9.63 0.00 40.46 3.36
634 640 5.184864 TCCCAACATATGTGTCAACAATTCC 59.815 40.000 9.63 0.00 40.46 3.01
635 641 6.266168 TCCCAACATATGTGTCAACAATTC 57.734 37.500 9.63 0.00 40.46 2.17
636 642 5.336690 GCTCCCAACATATGTGTCAACAATT 60.337 40.000 9.63 0.00 40.46 2.32
637 643 4.158394 GCTCCCAACATATGTGTCAACAAT 59.842 41.667 9.63 0.00 40.46 2.71
638 644 3.505680 GCTCCCAACATATGTGTCAACAA 59.494 43.478 9.63 0.00 40.46 2.83
639 645 3.081061 GCTCCCAACATATGTGTCAACA 58.919 45.455 9.63 0.00 37.67 3.33
640 646 3.081061 TGCTCCCAACATATGTGTCAAC 58.919 45.455 9.63 0.00 37.67 3.18
641 647 3.431673 TGCTCCCAACATATGTGTCAA 57.568 42.857 9.63 0.00 37.67 3.18
642 648 3.281158 CATGCTCCCAACATATGTGTCA 58.719 45.455 9.63 2.23 37.67 3.58
643 649 2.620115 CCATGCTCCCAACATATGTGTC 59.380 50.000 9.63 0.00 37.67 3.67
644 650 2.025037 ACCATGCTCCCAACATATGTGT 60.025 45.455 9.63 0.00 41.28 3.72
645 651 2.658285 ACCATGCTCCCAACATATGTG 58.342 47.619 9.63 3.84 0.00 3.21
646 652 4.655963 GATACCATGCTCCCAACATATGT 58.344 43.478 1.41 1.41 0.00 2.29
647 653 3.686241 CGATACCATGCTCCCAACATATG 59.314 47.826 0.00 0.00 0.00 1.78
648 654 3.327757 ACGATACCATGCTCCCAACATAT 59.672 43.478 0.00 0.00 0.00 1.78
649 655 2.703536 ACGATACCATGCTCCCAACATA 59.296 45.455 0.00 0.00 0.00 2.29
650 656 1.490490 ACGATACCATGCTCCCAACAT 59.510 47.619 0.00 0.00 0.00 2.71
651 657 0.908910 ACGATACCATGCTCCCAACA 59.091 50.000 0.00 0.00 0.00 3.33
668 674 2.408704 CGGTGCTTTCAAGACTTAGACG 59.591 50.000 0.00 0.00 0.00 4.18
730 2234 1.459450 AAATTGCATACGGGTTCGCT 58.541 45.000 0.00 0.00 40.63 4.93
878 2387 0.037697 TGGACGTTGATCCGTTCCAG 60.038 55.000 0.00 0.00 41.98 3.86
890 2399 4.003648 GAGTTGGATTGAAGATGGACGTT 58.996 43.478 0.00 0.00 0.00 3.99
911 2420 0.388520 CACGTGTCGAATCTGCAGGA 60.389 55.000 15.13 0.00 0.00 3.86
915 2424 1.352156 GGGACACGTGTCGAATCTGC 61.352 60.000 35.21 22.27 45.65 4.26
930 2439 0.906066 GAGGTGGGAAAGAGAGGGAC 59.094 60.000 0.00 0.00 0.00 4.46
934 2443 1.199615 GGAGGAGGTGGGAAAGAGAG 58.800 60.000 0.00 0.00 0.00 3.20
1005 2514 1.384525 CGACGGTGAGGAGAGAGAAT 58.615 55.000 0.00 0.00 0.00 2.40
1242 2752 2.125633 GGAGTCCCGTTCGGCTTC 60.126 66.667 5.66 3.09 0.00 3.86
1257 2767 1.039068 TTGTTACCTTGACGACGGGA 58.961 50.000 0.00 0.00 0.00 5.14
1302 2812 4.695217 ATCTTCGTCACTTCTCACTCTC 57.305 45.455 0.00 0.00 0.00 3.20
1450 2960 3.515901 AGCTTCGAAACCTAATCACCTCT 59.484 43.478 0.00 0.00 0.00 3.69
1458 2968 7.822334 TCAAAGATATCAAGCTTCGAAACCTAA 59.178 33.333 5.32 0.00 29.07 2.69
1494 3004 5.827267 TCTTCATGACATCCACAAAACTTCA 59.173 36.000 0.00 0.00 0.00 3.02
1650 3165 9.958180 TGATTCACTCCTGAGTTTCAAAATATA 57.042 29.630 0.00 0.00 40.20 0.86
1691 3206 2.063266 CGACACGCTAAAGGCAAACTA 58.937 47.619 0.00 0.00 41.91 2.24
1705 3220 3.120338 ACAAACCAAAGATATGCGACACG 60.120 43.478 0.00 0.00 0.00 4.49
1707 3222 5.242434 AGTACAAACCAAAGATATGCGACA 58.758 37.500 0.00 0.00 0.00 4.35
1711 3226 8.807581 GCAATTTAGTACAAACCAAAGATATGC 58.192 33.333 0.00 0.00 0.00 3.14
2599 4143 7.915293 AAGTCATCATGGACGTGTATTTTAA 57.085 32.000 0.00 0.00 42.62 1.52
2618 4162 6.969043 AGGATGTACAATCCCATTTAAGTCA 58.031 36.000 16.22 0.00 38.98 3.41
2725 4730 3.486383 GTTTTCACACAATGGGAGGAGA 58.514 45.455 0.00 0.00 27.75 3.71
2984 4990 4.067896 CCATTCCTGGCAGATACATGTAC 58.932 47.826 17.94 2.64 35.23 2.90
3165 5171 3.118334 AGAAGGGAGAAGAGATGTGCATG 60.118 47.826 0.00 0.00 0.00 4.06
3187 5193 7.611770 AGTTACACAAGCATCTATGAGTAACA 58.388 34.615 20.26 0.00 46.64 2.41
3225 5231 5.965334 CGCTGTGATTATCGCAAATAGTTTT 59.035 36.000 9.81 0.00 36.34 2.43
3347 5353 6.232139 TCGTAGTTTACCTTTAAGCTTTGC 57.768 37.500 3.20 0.00 31.70 3.68
3368 5374 4.761235 AATCTGCTGATAATGGCATTCG 57.239 40.909 17.41 5.28 37.83 3.34
3454 5460 3.423749 TGAAGAGCATCCATCAAAAGCA 58.576 40.909 0.00 0.00 33.66 3.91
3473 5479 8.049117 AGAAAATAGCATTCAACTCCTACATGA 58.951 33.333 0.00 0.00 0.00 3.07
3674 5680 2.159327 AATTGCAAACTGAAGGCAGC 57.841 45.000 1.71 0.00 46.26 5.25
4051 6057 4.576463 CAGAAACCAACAACTAGCTTGTCT 59.424 41.667 0.07 0.00 42.70 3.41
4272 6278 0.540597 AGGGGCTGAGTTTCCAAAGC 60.541 55.000 0.00 0.00 34.86 3.51
4273 6279 1.615392 CAAGGGGCTGAGTTTCCAAAG 59.385 52.381 0.00 0.00 0.00 2.77
4291 6297 0.323302 TGCATTGTACGAGGCCTCAA 59.677 50.000 31.67 19.36 0.00 3.02
4357 6366 3.287222 TCCCATACAAATAAGCACCAGC 58.713 45.455 0.00 0.00 42.56 4.85
4359 6368 6.508030 TCTATCCCATACAAATAAGCACCA 57.492 37.500 0.00 0.00 0.00 4.17
4361 6370 6.942576 ACCATCTATCCCATACAAATAAGCAC 59.057 38.462 0.00 0.00 0.00 4.40
4375 6384 6.963322 AGATGCCTAATTAACCATCTATCCC 58.037 40.000 18.75 1.04 41.74 3.85
4383 6392 3.133901 TGCGAGAGATGCCTAATTAACCA 59.866 43.478 0.00 0.00 0.00 3.67
4385 6394 3.495001 GGTGCGAGAGATGCCTAATTAAC 59.505 47.826 0.00 0.00 0.00 2.01
4445 6455 7.103641 CCTTGTACAATGCTAAGTTCTTAGGA 58.896 38.462 9.13 15.99 0.00 2.94
4455 6466 3.081061 CACAGGCCTTGTACAATGCTAA 58.919 45.455 27.69 0.00 38.16 3.09
4556 6573 2.511600 GTCGGTCGGAATGCCCTG 60.512 66.667 0.00 0.00 0.00 4.45
4588 6605 2.589442 TCGACGGTGTGTTTGGGC 60.589 61.111 0.00 0.00 0.00 5.36
4607 6624 5.807011 TGATGACGATGACATTGTAGACAAG 59.193 40.000 8.36 0.00 39.47 3.16
4677 6694 3.257561 CATGGCTCGCTCGTTCGG 61.258 66.667 0.00 0.00 0.00 4.30
4685 6792 3.134127 GGTGGTTCCATGGCTCGC 61.134 66.667 6.96 5.38 35.97 5.03
4718 6825 2.048127 GGCGCTGAAGTCGGAGTT 60.048 61.111 7.64 0.00 0.00 3.01
4739 6846 0.666577 CTCGCTCGTTCGAAAGGGTT 60.667 55.000 12.62 0.00 38.08 4.11
4801 6908 2.366533 GGAGATGTCTGGTACTCGACA 58.633 52.381 16.27 16.27 43.51 4.35
4808 6915 3.427573 TCAAAGTCGGAGATGTCTGGTA 58.572 45.455 0.00 0.00 40.67 3.25
4858 6965 0.247736 GACTCTGTAGGTGCCAGGTG 59.752 60.000 0.00 0.00 0.00 4.00
4859 6966 0.905337 GGACTCTGTAGGTGCCAGGT 60.905 60.000 0.00 0.00 0.00 4.00


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

AutoCloner maintained by Alex Coulton.