Multiple sequence alignment - TraesCS2D01G164000

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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 TraesCS2D01G164000 chr2D 100.000 2702 0 0 1311 4012 108924346 108921645 0.000000e+00 4990.0
1 TraesCS2D01G164000 chr2D 100.000 1039 0 0 1 1039 108925656 108924618 0.000000e+00 1919.0
2 TraesCS2D01G164000 chr2A 95.304 1725 75 2 1311 3029 104872739 104871015 0.000000e+00 2732.0
3 TraesCS2D01G164000 chr2A 92.857 784 31 5 3028 3801 104870982 104870214 0.000000e+00 1114.0
4 TraesCS2D01G164000 chr2A 89.276 718 52 6 1 711 104873964 104873265 0.000000e+00 876.0
5 TraesCS2D01G164000 chr2A 96.682 211 7 0 3802 4012 104870057 104869847 6.380000e-93 351.0
6 TraesCS2D01G164000 chr2B 94.518 1733 86 4 1311 3037 158620968 158619239 0.000000e+00 2665.0
7 TraesCS2D01G164000 chr2B 92.024 1003 47 11 3038 4012 158619197 158618200 0.000000e+00 1378.0
8 TraesCS2D01G164000 chr2B 90.381 1050 78 10 7 1039 158622129 158621086 0.000000e+00 1358.0
9 TraesCS2D01G164000 chr5D 95.122 41 2 0 755 795 174829480 174829520 9.310000e-07 65.8
10 TraesCS2D01G164000 chr5B 97.368 38 1 0 758 795 173855736 173855699 9.310000e-07 65.8
11 TraesCS2D01G164000 chr5A 97.368 38 1 0 758 795 167115696 167115659 9.310000e-07 65.8


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 TraesCS2D01G164000 chr2D 108921645 108925656 4011 True 3454.500000 4990 100.000000 1 4012 2 chr2D.!!$R1 4011
1 TraesCS2D01G164000 chr2A 104869847 104873964 4117 True 1268.250000 2732 93.529750 1 4012 4 chr2A.!!$R1 4011
2 TraesCS2D01G164000 chr2B 158618200 158622129 3929 True 1800.333333 2665 92.307667 7 4012 3 chr2B.!!$R1 4005

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
947 957 0.039165 GCCGAGCTTTGGAACTTTGG 60.039 55.0 9.95 0.00 0.00 3.28 F
2836 2853 0.315382 GCTGTCGAACGCATATGCAC 60.315 55.0 26.52 16.77 42.21 4.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2877 2894 0.968405 TGACCATTTTCTGCCCTTGC 59.032 50.000 0.00 0.0 38.26 4.01 R
3941 4170 7.378995 GCAACTCTATTCAGCAATTTGATGATC 59.621 37.037 17.27 0.0 42.81 2.92 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
245 246 5.051816 CGTAAGACACTTGTAAGACCCAAA 58.948 41.667 0.00 0.00 43.02 3.28
248 249 5.830000 AGACACTTGTAAGACCCAAAAAC 57.170 39.130 0.00 0.00 0.00 2.43
281 284 4.291540 ACAACACAAGCACATAACAGTG 57.708 40.909 0.00 0.00 42.37 3.66
315 318 3.055891 GGAAATGGCATGGCTTAAACACT 60.056 43.478 21.08 0.00 0.00 3.55
318 321 4.989279 ATGGCATGGCTTAAACACTTAG 57.011 40.909 21.08 0.00 0.00 2.18
323 326 4.435651 GCATGGCTTAAACACTTAGACGTC 60.436 45.833 7.70 7.70 0.00 4.34
381 387 7.223582 ACTCGTGCTAATTATCTCACATCAAAG 59.776 37.037 10.98 0.00 0.00 2.77
382 388 7.264947 TCGTGCTAATTATCTCACATCAAAGA 58.735 34.615 10.98 0.00 0.00 2.52
395 401 7.701078 TCTCACATCAAAGACTAAACTATACGC 59.299 37.037 0.00 0.00 0.00 4.42
396 402 7.317390 TCACATCAAAGACTAAACTATACGCA 58.683 34.615 0.00 0.00 0.00 5.24
397 403 7.815549 TCACATCAAAGACTAAACTATACGCAA 59.184 33.333 0.00 0.00 0.00 4.85
413 419 0.595825 GCAATGGAAGCCGCATTAGC 60.596 55.000 0.00 0.00 37.42 3.09
418 424 1.230324 GGAAGCCGCATTAGCCTAAG 58.770 55.000 0.00 0.00 37.52 2.18
427 433 2.474816 CATTAGCCTAAGCCGAGTGAC 58.525 52.381 0.00 0.00 41.25 3.67
430 436 0.679002 AGCCTAAGCCGAGTGACGTA 60.679 55.000 0.00 0.00 41.25 3.57
434 440 2.287069 CCTAAGCCGAGTGACGTATCAG 60.287 54.545 0.00 0.00 40.78 2.90
449 455 9.731819 GTGACGTATCAGAAGATAACAGAAATA 57.268 33.333 0.00 0.00 38.41 1.40
512 518 4.915085 ACATAACCAAAATCGCTCGTTTTG 59.085 37.500 15.92 15.92 43.00 2.44
577 583 1.154016 CACAGGGTACAGAGCGTCG 60.154 63.158 0.00 0.00 0.00 5.12
597 603 2.029244 CGAGTTCATCCGATCAAAACCG 59.971 50.000 0.00 0.00 0.00 4.44
659 665 2.320587 CCAACAGACGCTGCCTCAC 61.321 63.158 6.74 0.00 34.37 3.51
679 685 5.212194 TCACGAAACTAGCAAAGCAAATTC 58.788 37.500 0.00 0.00 0.00 2.17
699 709 1.824329 GATCGGCCCAGAGAGACGA 60.824 63.158 0.00 0.00 38.00 4.20
714 724 1.068832 GACGACGTTCAGCATACGCA 61.069 55.000 0.13 0.00 42.49 5.24
719 729 2.434011 TTCAGCATACGCAGCGCA 60.434 55.556 16.61 0.87 42.27 6.09
749 759 1.298340 CATGGGTGGGTGCGTAGAA 59.702 57.895 0.00 0.00 0.00 2.10
750 760 0.744414 CATGGGTGGGTGCGTAGAAG 60.744 60.000 0.00 0.00 0.00 2.85
791 801 1.202639 AGAAGTTGACGTGCACCATGA 60.203 47.619 12.15 0.00 0.00 3.07
899 909 4.519730 AGGACGAGGCGATATTATATAGGC 59.480 45.833 10.07 10.07 0.00 3.93
914 924 2.163810 TAGGCGAGGGCTAAACCTAA 57.836 50.000 0.00 0.00 42.10 2.69
941 951 1.378514 GATGGGCCGAGCTTTGGAA 60.379 57.895 9.95 0.00 0.00 3.53
942 952 1.657751 GATGGGCCGAGCTTTGGAAC 61.658 60.000 9.95 2.50 0.00 3.62
945 955 1.179174 GGGCCGAGCTTTGGAACTTT 61.179 55.000 9.95 0.00 0.00 2.66
947 957 0.039165 GCCGAGCTTTGGAACTTTGG 60.039 55.000 9.95 0.00 0.00 3.28
948 958 1.318576 CCGAGCTTTGGAACTTTGGT 58.681 50.000 0.00 0.00 0.00 3.67
950 960 1.266989 CGAGCTTTGGAACTTTGGTCC 59.733 52.381 0.00 0.00 0.00 4.46
951 961 2.587522 GAGCTTTGGAACTTTGGTCCT 58.412 47.619 3.18 0.00 0.00 3.85
952 962 2.554462 GAGCTTTGGAACTTTGGTCCTC 59.446 50.000 3.18 0.00 0.00 3.71
967 984 1.222936 CCTCTGCAAGCCCTAGTGG 59.777 63.158 0.00 0.00 37.09 4.00
994 1011 4.451150 GGCGAGGCCGACACATGA 62.451 66.667 0.00 0.00 44.91 3.07
1026 1043 2.737679 GCGTAATAAGGCCGTGAACTCT 60.738 50.000 0.00 0.00 0.00 3.24
1350 1367 2.373707 GCACCTCCTCCAGCTCCAT 61.374 63.158 0.00 0.00 0.00 3.41
1701 1718 2.202570 CTGCCGTACGGGTTCTCG 60.203 66.667 33.98 8.73 38.44 4.04
1873 1890 2.885644 CGGCGGTGGAGATGTTCG 60.886 66.667 0.00 0.00 0.00 3.95
2027 2044 3.569491 CAGCAATGGAGGGGATGTATTT 58.431 45.455 0.00 0.00 0.00 1.40
2128 2145 2.045045 ATAGCTGCGCAAAGGCCA 60.045 55.556 13.05 0.02 36.38 5.36
2136 2153 2.491621 GCAAAGGCCAGGCGAATC 59.508 61.111 5.01 0.00 0.00 2.52
2364 2381 1.345415 CCAAAGGAGGCAATTGCAGTT 59.655 47.619 30.32 15.95 44.36 3.16
2454 2471 2.486918 CAGTCAGATGCCGCAATATCA 58.513 47.619 0.00 0.00 0.00 2.15
2511 2528 3.487120 AACGAGGTTACCTTTCTTGCT 57.513 42.857 4.99 0.00 31.76 3.91
2751 2768 2.743664 CAGAGTTCATGGCAATGTCGAA 59.256 45.455 0.00 0.00 35.15 3.71
2773 2790 4.329545 GGAGGACGGTGCAGGCAA 62.330 66.667 1.61 0.00 0.00 4.52
2836 2853 0.315382 GCTGTCGAACGCATATGCAC 60.315 55.000 26.52 16.77 42.21 4.57
2840 2857 0.809636 TCGAACGCATATGCACTGGG 60.810 55.000 26.52 12.64 42.21 4.45
2843 2860 0.541392 AACGCATATGCACTGGGAGA 59.459 50.000 26.52 0.00 42.21 3.71
2867 2884 2.057137 TGGGATGAAATAGCACAGGC 57.943 50.000 0.00 0.00 41.61 4.85
2877 2894 1.971505 TAGCACAGGCCAGGGATTCG 61.972 60.000 5.01 0.00 42.56 3.34
2916 2933 1.375326 GGACAGGAAAGAAGCGGGT 59.625 57.895 0.00 0.00 0.00 5.28
2931 2948 2.180017 GGTTGCAGCGCCATTGAG 59.820 61.111 2.29 0.00 0.00 3.02
2955 2972 5.278561 GGTGTCTTCCTCAGATATCTAACCG 60.279 48.000 4.54 0.00 32.60 4.44
2963 2980 5.279206 CCTCAGATATCTAACCGTGCTGAAT 60.279 44.000 4.54 0.00 31.40 2.57
2979 2996 2.549754 CTGAATTGAAGCAACGACCACT 59.450 45.455 0.00 0.00 0.00 4.00
3004 3027 0.179100 ATCTTGGACTGTCGATGCGG 60.179 55.000 1.07 0.00 0.00 5.69
3015 3038 4.982916 ACTGTCGATGCGGAAATATACTTC 59.017 41.667 0.00 0.00 0.00 3.01
3071 3134 6.476706 TGTGCAGTTATCAGATACAAGATTCG 59.523 38.462 0.00 0.00 0.00 3.34
3115 3178 8.947055 TTATCACCTATTTAACCCGTTAAGAC 57.053 34.615 0.71 0.00 36.52 3.01
3123 3186 6.563222 TTTAACCCGTTAAGACCAAGATTG 57.437 37.500 0.71 0.00 36.52 2.67
3146 3209 4.224370 GGGAGACAGGTTGGAGTTTACATA 59.776 45.833 0.00 0.00 0.00 2.29
3151 3214 5.305585 ACAGGTTGGAGTTTACATACACAG 58.694 41.667 0.00 0.00 0.00 3.66
3154 3217 5.247564 AGGTTGGAGTTTACATACACAGCTA 59.752 40.000 0.00 0.00 0.00 3.32
3173 3236 5.987953 CAGCTACATATGTATCTGTTGCAGT 59.012 40.000 27.45 7.98 43.50 4.40
3198 3268 5.817816 CACTCCACTCACACTAAGAAACTTT 59.182 40.000 0.00 0.00 0.00 2.66
3202 3272 6.538742 TCCACTCACACTAAGAAACTTTTCAG 59.461 38.462 4.58 0.00 39.61 3.02
3241 3311 5.470777 TGTGTTATGTACTTAAACCCTGTGC 59.529 40.000 2.99 0.00 0.00 4.57
3242 3312 5.470777 GTGTTATGTACTTAAACCCTGTGCA 59.529 40.000 2.99 0.00 0.00 4.57
3243 3313 5.470777 TGTTATGTACTTAAACCCTGTGCAC 59.529 40.000 10.75 10.75 0.00 4.57
3256 3326 2.022129 GTGCACACCGTCTTCCTCG 61.022 63.158 13.17 0.00 0.00 4.63
3286 3356 5.542779 CCACTACTATATTGTTGCTCCTCC 58.457 45.833 0.00 0.00 0.00 4.30
3368 3438 4.033776 CCTGGGGCCGTGTCACAT 62.034 66.667 3.42 0.00 0.00 3.21
3493 3563 3.668447 CTCAGTGATTACAGGTTGCAGT 58.332 45.455 0.00 0.00 0.00 4.40
3523 3593 1.135257 GTCGAGGTGATGACTGGTGAG 60.135 57.143 0.00 0.00 32.37 3.51
3535 3605 0.603707 CTGGTGAGTGTGGCGAATGT 60.604 55.000 0.00 0.00 0.00 2.71
3549 3619 2.747446 GCGAATGTTGTACTGGGAACAT 59.253 45.455 4.01 4.01 43.16 2.71
3801 3874 9.619316 GAGCAGTGATAATAGAGTACATTACTG 57.381 37.037 0.00 8.38 39.59 2.74
3972 4201 6.917217 AATTGCTGAATAGAGTTGCTCTAC 57.083 37.500 7.90 0.00 44.47 2.59
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
229 230 5.715070 TGTTGTTTTTGGGTCTTACAAGTG 58.285 37.500 0.00 0.00 30.16 3.16
237 238 6.549364 TGTATCTGATTGTTGTTTTTGGGTCT 59.451 34.615 0.00 0.00 0.00 3.85
238 239 6.744112 TGTATCTGATTGTTGTTTTTGGGTC 58.256 36.000 0.00 0.00 0.00 4.46
245 246 6.697019 GCTTGTGTTGTATCTGATTGTTGTTT 59.303 34.615 0.00 0.00 0.00 2.83
248 249 5.626543 GTGCTTGTGTTGTATCTGATTGTTG 59.373 40.000 0.00 0.00 0.00 3.33
281 284 5.455392 CATGCCATTTCCACTCGATATTTC 58.545 41.667 0.00 0.00 0.00 2.17
323 326 7.946655 TTAATACATATTCGTCTCCTGCTTG 57.053 36.000 0.00 0.00 0.00 4.01
381 387 5.050295 GGCTTCCATTGCGTATAGTTTAGTC 60.050 44.000 0.00 0.00 0.00 2.59
382 388 4.814771 GGCTTCCATTGCGTATAGTTTAGT 59.185 41.667 0.00 0.00 0.00 2.24
391 397 1.029408 AATGCGGCTTCCATTGCGTA 61.029 50.000 0.00 0.00 32.06 4.42
395 401 0.031178 GGCTAATGCGGCTTCCATTG 59.969 55.000 0.00 0.00 40.82 2.82
396 402 0.106519 AGGCTAATGCGGCTTCCATT 60.107 50.000 0.00 0.00 40.82 3.16
397 403 0.764890 TAGGCTAATGCGGCTTCCAT 59.235 50.000 0.00 0.00 40.59 3.41
413 419 1.674441 TGATACGTCACTCGGCTTAGG 59.326 52.381 0.00 0.00 44.69 2.69
418 424 1.400846 TCTTCTGATACGTCACTCGGC 59.599 52.381 0.00 0.00 44.69 5.54
480 486 8.687824 AGCGATTTTGGTTATGTTCTTATTTG 57.312 30.769 0.00 0.00 0.00 2.32
481 487 7.696453 CGAGCGATTTTGGTTATGTTCTTATTT 59.304 33.333 0.00 0.00 0.00 1.40
482 488 7.148306 ACGAGCGATTTTGGTTATGTTCTTATT 60.148 33.333 0.00 0.00 0.00 1.40
485 491 4.454504 ACGAGCGATTTTGGTTATGTTCTT 59.545 37.500 0.00 0.00 0.00 2.52
489 495 4.759516 AAACGAGCGATTTTGGTTATGT 57.240 36.364 0.00 0.00 0.00 2.29
503 509 3.308530 CAGATTTGGTTCCAAAACGAGC 58.691 45.455 18.85 1.74 39.05 5.03
512 518 2.934553 GGTACGTAGCAGATTTGGTTCC 59.065 50.000 19.43 0.00 36.27 3.62
577 583 3.658351 CGGTTTTGATCGGATGAACTC 57.342 47.619 0.00 0.00 0.00 3.01
597 603 2.096069 GCTTAGTTTCGTTCCCGTTTCC 60.096 50.000 0.00 0.00 35.01 3.13
634 640 1.069765 AGCGTCTGTTGGTGTCTGG 59.930 57.895 0.00 0.00 0.00 3.86
659 665 3.603770 CCGAATTTGCTTTGCTAGTTTCG 59.396 43.478 11.04 11.04 34.06 3.46
679 685 2.519541 TCTCTCTGGGCCGATCCG 60.520 66.667 0.00 0.00 34.94 4.18
699 709 2.444624 CGCTGCGTATGCTGAACGT 61.445 57.895 14.93 0.00 42.14 3.99
714 724 0.457853 ATGTCGTCGTAATGTGCGCT 60.458 50.000 9.73 0.00 0.00 5.92
719 729 1.404986 CCACCCATGTCGTCGTAATGT 60.405 52.381 8.41 0.00 0.00 2.71
756 766 2.685100 ACTTCTACCGCAACTGTAAGC 58.315 47.619 0.00 0.00 37.60 3.09
899 909 2.159000 ACCGAATTAGGTTTAGCCCTCG 60.159 50.000 4.13 0.00 43.00 4.63
932 942 2.175715 AGAGGACCAAAGTTCCAAAGCT 59.824 45.455 0.00 0.00 0.00 3.74
941 951 0.538287 GGCTTGCAGAGGACCAAAGT 60.538 55.000 0.00 0.00 0.00 2.66
942 952 1.246737 GGGCTTGCAGAGGACCAAAG 61.247 60.000 3.80 0.00 0.00 2.77
945 955 1.229496 TAGGGCTTGCAGAGGACCA 60.229 57.895 10.26 0.00 0.00 4.02
947 957 0.107945 CACTAGGGCTTGCAGAGGAC 60.108 60.000 0.00 0.00 0.00 3.85
948 958 1.267574 CCACTAGGGCTTGCAGAGGA 61.268 60.000 0.00 0.00 0.00 3.71
950 960 4.950479 CCACTAGGGCTTGCAGAG 57.050 61.111 0.00 0.00 0.00 3.35
985 1002 2.436646 GGTGGGCCTCATGTGTCG 60.437 66.667 4.53 0.00 0.00 4.35
1003 1020 0.173029 TTCACGGCCTTATTACGCGA 59.827 50.000 15.93 0.00 0.00 5.87
1515 1532 2.364448 GCCGAGGAGAAGGAGGGT 60.364 66.667 0.00 0.00 0.00 4.34
1688 1705 4.842091 CGCCCGAGAACCCGTACG 62.842 72.222 8.69 8.69 0.00 3.67
1827 1844 4.195334 CCGGCCCTGGCATAGCTT 62.195 66.667 10.86 0.00 44.11 3.74
1873 1890 1.645455 CACAGCACATCATAGCGCC 59.355 57.895 2.29 0.00 35.48 6.53
2027 2044 4.079787 CACATCCAATCTCCCCTTTCCTAA 60.080 45.833 0.00 0.00 0.00 2.69
2128 2145 1.690219 ATTGCCTCCTCGATTCGCCT 61.690 55.000 0.00 0.00 0.00 5.52
2132 2149 1.169034 GCCCATTGCCTCCTCGATTC 61.169 60.000 0.00 0.00 0.00 2.52
2136 2153 2.117156 CAAGCCCATTGCCTCCTCG 61.117 63.158 0.00 0.00 42.71 4.63
2278 2295 3.144506 CAGTGTCAAGCTCAAGACCAAT 58.855 45.455 10.32 0.00 33.89 3.16
2364 2381 2.249337 CTGTCGCGCATTGCATAAAAA 58.751 42.857 8.75 0.00 46.97 1.94
2448 2465 6.624423 GCTGCATTGAGTGAAACAGTGATATT 60.624 38.462 0.00 0.00 41.43 1.28
2454 2471 2.300433 TGCTGCATTGAGTGAAACAGT 58.700 42.857 0.00 0.00 41.43 3.55
2751 2768 4.954118 TGCACCGTCCTCCCCAGT 62.954 66.667 0.00 0.00 0.00 4.00
2836 2853 1.221840 CATCCCAACGGTCTCCCAG 59.778 63.158 0.00 0.00 0.00 4.45
2840 2857 2.872858 GCTATTTCATCCCAACGGTCTC 59.127 50.000 0.00 0.00 0.00 3.36
2843 2860 2.290641 TGTGCTATTTCATCCCAACGGT 60.291 45.455 0.00 0.00 0.00 4.83
2867 2884 2.830370 GCCCTTGCGAATCCCTGG 60.830 66.667 0.00 0.00 0.00 4.45
2877 2894 0.968405 TGACCATTTTCTGCCCTTGC 59.032 50.000 0.00 0.00 38.26 4.01
2916 2933 2.282391 ACCTCAATGGCGCTGCAA 60.282 55.556 7.64 0.00 40.22 4.08
2923 2940 3.965888 AGGAAGACACCTCAATGGC 57.034 52.632 0.00 0.00 40.22 4.40
2931 2948 5.278561 CGGTTAGATATCTGAGGAAGACACC 60.279 48.000 15.79 1.46 37.88 4.16
2942 2959 5.985530 TCAATTCAGCACGGTTAGATATCTG 59.014 40.000 15.79 0.79 0.00 2.90
2963 2980 2.869801 CAGTTAGTGGTCGTTGCTTCAA 59.130 45.455 0.00 0.00 0.00 2.69
2979 2996 4.678044 GCATCGACAGTCCAAGATCAGTTA 60.678 45.833 0.00 0.00 0.00 2.24
3004 3027 6.036517 CAGTCACCTGTGCAGAAGTATATTTC 59.963 42.308 0.02 0.00 33.80 2.17
3015 3038 1.793258 CTCTTCAGTCACCTGTGCAG 58.207 55.000 0.00 0.00 39.82 4.41
3071 3134 7.262772 GTGATAATAAAAACTGCTTTACCCCC 58.737 38.462 0.00 0.00 0.00 5.40
3123 3186 2.370849 TGTAAACTCCAACCTGTCTCCC 59.629 50.000 0.00 0.00 0.00 4.30
3132 3195 5.929992 TGTAGCTGTGTATGTAAACTCCAAC 59.070 40.000 0.00 0.00 0.00 3.77
3151 3214 5.985530 TGACTGCAACAGATACATATGTAGC 59.014 40.000 20.92 20.92 37.19 3.58
3154 3217 5.982356 AGTGACTGCAACAGATACATATGT 58.018 37.500 13.93 13.93 35.18 2.29
3173 3236 4.649674 AGTTTCTTAGTGTGAGTGGAGTGA 59.350 41.667 0.00 0.00 0.00 3.41
3198 3268 2.948979 ACAATTTGCTTCACCGTCTGAA 59.051 40.909 0.00 0.00 36.46 3.02
3202 3272 2.774439 ACACAATTTGCTTCACCGTC 57.226 45.000 0.00 0.00 0.00 4.79
3241 3311 0.179161 CTAGCGAGGAAGACGGTGTG 60.179 60.000 0.00 0.00 41.38 3.82
3242 3312 0.608582 ACTAGCGAGGAAGACGGTGT 60.609 55.000 0.00 0.00 41.38 4.16
3243 3313 0.179161 CACTAGCGAGGAAGACGGTG 60.179 60.000 0.00 0.00 41.38 4.94
3256 3326 5.177696 GCAACAATATAGTAGTGGCACTAGC 59.822 44.000 26.87 20.00 34.59 3.42
3368 3438 4.045334 ACAAGACCAGGGGATTTCCAATAA 59.955 41.667 0.00 0.00 37.91 1.40
3493 3563 1.300620 CACCTCGACGGCACTTTCA 60.301 57.895 0.00 0.00 35.61 2.69
3523 3593 1.196808 CCAGTACAACATTCGCCACAC 59.803 52.381 0.00 0.00 0.00 3.82
3535 3605 1.349688 AGCGGAATGTTCCCAGTACAA 59.650 47.619 6.22 0.00 44.67 2.41
3549 3619 0.988832 ACCTTATCCCACAAGCGGAA 59.011 50.000 0.00 0.00 31.75 4.30
3941 4170 7.378995 GCAACTCTATTCAGCAATTTGATGATC 59.621 37.037 17.27 0.00 42.81 2.92
3972 4201 9.092876 GAATCTCACTATGTAAGACCTTTTGAG 57.907 37.037 0.00 0.00 0.00 3.02


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

AutoCloner maintained by Alex Coulton.