Multiple sequence alignment - TraesCS1B01G151800

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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 TraesCS1B01G151800 chr1B 100.000 4167 0 0 1 4167 238676370 238672204 0.000000e+00 7696
1 TraesCS1B01G151800 chr1A 96.949 3146 84 9 795 3929 230471717 230468573 0.000000e+00 5267
2 TraesCS1B01G151800 chr1A 93.570 762 28 7 42 797 230472739 230471993 0.000000e+00 1116
3 TraesCS1B01G151800 chr1A 92.373 118 9 0 3923 4040 230467809 230467692 7.160000e-38 169
4 TraesCS1B01G151800 chr1D 97.044 2639 60 7 795 3428 165475974 165473349 0.000000e+00 4425
5 TraesCS1B01G151800 chr1D 93.725 765 23 8 42 797 165476931 165476183 0.000000e+00 1123
6 TraesCS1B01G151800 chr1D 94.487 526 20 3 3410 3927 165473332 165472808 0.000000e+00 802
7 TraesCS1B01G151800 chr1D 87.879 132 13 1 4039 4167 165471054 165470923 7.220000e-33 152


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 TraesCS1B01G151800 chr1B 238672204 238676370 4166 True 7696.0 7696 100.000000 1 4167 1 chr1B.!!$R1 4166
1 TraesCS1B01G151800 chr1A 230467692 230472739 5047 True 2184.0 5267 94.297333 42 4040 3 chr1A.!!$R1 3998
2 TraesCS1B01G151800 chr1D 165470923 165476931 6008 True 1625.5 4425 93.283750 42 4167 4 chr1D.!!$R1 4125

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
704 714 0.670239 CCACCGGCAATTGCTTTTCC 60.670 55.0 28.42 11.58 41.7 3.13 F
1315 1603 0.807496 GCACTGCAAGGATCCAGAAC 59.193 55.0 15.82 0.53 39.3 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1824 2112 0.987294 AGTACTGCCCTCATGCTTGT 59.013 50.0 0.00 0.00 0.00 3.16 R
3175 3468 0.321653 AACCGAACCTGATCTGGTGC 60.322 55.0 23.46 20.61 40.73 5.01 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
17 18 3.231298 AGGAATACAGCCGGCCTC 58.769 61.111 26.15 12.07 0.00 4.70
18 19 1.383248 AGGAATACAGCCGGCCTCT 60.383 57.895 26.15 8.24 0.00 3.69
19 20 1.227674 GGAATACAGCCGGCCTCTG 60.228 63.158 26.15 18.39 37.56 3.35
20 21 1.889573 GAATACAGCCGGCCTCTGC 60.890 63.158 26.15 10.59 35.04 4.26
21 22 2.593468 GAATACAGCCGGCCTCTGCA 62.593 60.000 26.15 6.11 40.13 4.41
22 23 1.987807 AATACAGCCGGCCTCTGCAT 61.988 55.000 26.15 8.61 40.13 3.96
23 24 2.388890 ATACAGCCGGCCTCTGCATC 62.389 60.000 26.15 0.00 40.13 3.91
24 25 4.478371 CAGCCGGCCTCTGCATCA 62.478 66.667 26.15 0.00 40.13 3.07
25 26 3.720601 AGCCGGCCTCTGCATCAA 61.721 61.111 26.15 0.00 40.13 2.57
26 27 2.517875 GCCGGCCTCTGCATCAAT 60.518 61.111 18.11 0.00 40.13 2.57
27 28 2.550101 GCCGGCCTCTGCATCAATC 61.550 63.158 18.11 0.00 40.13 2.67
28 29 1.153107 CCGGCCTCTGCATCAATCA 60.153 57.895 0.00 0.00 40.13 2.57
29 30 0.749091 CCGGCCTCTGCATCAATCAA 60.749 55.000 0.00 0.00 40.13 2.57
30 31 1.315690 CGGCCTCTGCATCAATCAAT 58.684 50.000 0.00 0.00 40.13 2.57
31 32 1.266175 CGGCCTCTGCATCAATCAATC 59.734 52.381 0.00 0.00 40.13 2.67
32 33 1.266175 GGCCTCTGCATCAATCAATCG 59.734 52.381 0.00 0.00 40.13 3.34
33 34 2.216046 GCCTCTGCATCAATCAATCGA 58.784 47.619 0.00 0.00 37.47 3.59
34 35 2.812591 GCCTCTGCATCAATCAATCGAT 59.187 45.455 0.00 0.00 37.47 3.59
35 36 3.365064 GCCTCTGCATCAATCAATCGATG 60.365 47.826 0.00 0.00 41.62 3.84
54 55 3.650950 ATGCAGAGTTGGCGGGGT 61.651 61.111 0.00 0.00 0.00 4.95
87 90 0.681175 GGCCAGATGCTTGTTTTGGT 59.319 50.000 0.00 0.00 40.92 3.67
308 317 3.423154 GGCAGCGTCGGTGGAAAG 61.423 66.667 24.44 0.40 0.00 2.62
344 353 1.002087 GGGAGATCTCACCAACGTTGT 59.998 52.381 25.63 11.94 0.00 3.32
356 365 4.796231 CGTTGTCGGCGGGAGGAG 62.796 72.222 7.21 0.00 0.00 3.69
481 490 6.072397 GCATGTAGAGACGTATCCTAGATGTT 60.072 42.308 19.78 1.62 34.87 2.71
669 678 8.680001 ACAGGTACCCGATTATTTTATGTTTTC 58.320 33.333 8.74 0.00 0.00 2.29
687 697 4.377839 TTTCACGAAATTTTCTGTGCCA 57.622 36.364 19.88 11.73 35.60 4.92
688 698 3.347958 TCACGAAATTTTCTGTGCCAC 57.652 42.857 19.88 0.00 35.60 5.01
689 699 2.034053 TCACGAAATTTTCTGTGCCACC 59.966 45.455 19.88 0.00 35.60 4.61
690 700 1.001815 ACGAAATTTTCTGTGCCACCG 60.002 47.619 7.50 0.00 0.00 4.94
691 701 1.665735 CGAAATTTTCTGTGCCACCGG 60.666 52.381 0.00 0.00 0.00 5.28
703 713 2.826277 CCACCGGCAATTGCTTTTC 58.174 52.632 28.42 11.95 41.70 2.29
704 714 0.670239 CCACCGGCAATTGCTTTTCC 60.670 55.000 28.42 11.58 41.70 3.13
705 715 0.670239 CACCGGCAATTGCTTTTCCC 60.670 55.000 28.42 10.87 41.70 3.97
706 716 0.831711 ACCGGCAATTGCTTTTCCCT 60.832 50.000 28.42 3.32 41.70 4.20
707 717 1.181786 CCGGCAATTGCTTTTCCCTA 58.818 50.000 28.42 0.00 41.70 3.53
782 792 7.274904 CACATATTTGGTTCATCTGCTTTTCTG 59.725 37.037 0.00 0.00 0.00 3.02
939 1227 1.867363 AGGAGAATGTTAGTCGCCCT 58.133 50.000 0.00 0.00 35.71 5.19
949 1237 1.192146 TAGTCGCCCTTCTGTGCCTT 61.192 55.000 0.00 0.00 0.00 4.35
950 1238 1.600916 GTCGCCCTTCTGTGCCTTT 60.601 57.895 0.00 0.00 0.00 3.11
1315 1603 0.807496 GCACTGCAAGGATCCAGAAC 59.193 55.000 15.82 0.53 39.30 3.01
1347 1635 6.449635 ACTCTTGCTTGTGACATTTACAAA 57.550 33.333 0.00 0.00 37.56 2.83
1407 1695 7.443272 TCATATGGAACTTCTAATGTCTGCATG 59.557 37.037 2.13 0.00 35.15 4.06
1499 1787 4.689071 AGATGTCACTTCGTTGTGTGTAA 58.311 39.130 9.52 0.00 38.90 2.41
1677 1965 3.449377 ACAATGCATTGCTTCATCATCCA 59.551 39.130 33.94 0.00 41.38 3.41
1744 2032 6.481976 CCGCCTGTCTATATCTATCTCTACTG 59.518 46.154 0.00 0.00 0.00 2.74
1824 2112 5.762179 AACCACTCAGAAGGATATTGACA 57.238 39.130 0.00 0.00 0.00 3.58
2062 2350 5.661458 GAGATAAGCTGCAGTTACTTGGTA 58.339 41.667 16.64 0.00 0.00 3.25
2367 2660 3.686691 GCTTCTATCCTGGGTTGCTTGAT 60.687 47.826 0.00 0.00 0.00 2.57
2509 2802 2.163815 AGATTTCTGCATGCTGCTCAAC 59.836 45.455 20.33 9.32 45.31 3.18
2768 3061 7.526041 ACAAAGAATCCTTGGGTATATATGCA 58.474 34.615 3.10 0.00 31.91 3.96
2780 3073 7.526041 TGGGTATATATGCATTCAACCTTCTT 58.474 34.615 3.54 0.00 0.00 2.52
2806 3099 9.137459 TGGTTCTTGTGGATCTTATTTGTTAAA 57.863 29.630 0.00 0.00 0.00 1.52
2842 3135 1.202177 GGGCTGCACATGTAACATTCG 60.202 52.381 0.00 0.00 0.00 3.34
3062 3355 8.650143 AATTCCCTTTCTACTTTGATGCTAAA 57.350 30.769 0.00 0.00 0.00 1.85
3123 3416 1.135489 TGTAGCGAAGAAGTACTGCCG 60.135 52.381 0.00 0.00 0.00 5.69
3175 3468 4.193826 TGCTAGCAGTTAGAACTTGGAG 57.806 45.455 14.93 0.00 37.08 3.86
3275 3568 3.173540 TGTGCATGCAGGACATACC 57.826 52.632 23.41 7.21 44.19 2.73
3379 3673 1.068333 GGCAATGTTCGTGATGCTGTT 60.068 47.619 0.00 0.00 38.79 3.16
3445 3775 4.970662 TCTTGGGTATGTAGTGTACGTC 57.029 45.455 0.00 0.00 0.00 4.34
3727 4065 2.547855 GGCATGTCCCCTTTTCAAACAC 60.548 50.000 0.00 0.00 0.00 3.32
3740 4078 3.357166 TCAAACACGCCAAAATGTACC 57.643 42.857 0.00 0.00 0.00 3.34
3890 4229 3.666345 AGTATGGGAGTCGTCTTAGGT 57.334 47.619 0.00 0.00 0.00 3.08
3903 4242 2.094130 GTCTTAGGTGGAACTTCCCGAG 60.094 54.545 5.30 0.00 35.03 4.63
3904 4243 0.611714 TTAGGTGGAACTTCCCGAGC 59.388 55.000 5.30 0.00 35.03 5.03
3955 5103 8.425577 CTCGGAATTTAGAGAGCTTTATTCAA 57.574 34.615 5.49 0.00 36.65 2.69
3963 5111 8.994429 TTAGAGAGCTTTATTCAACAAGAGAG 57.006 34.615 0.00 0.00 0.00 3.20
3995 5143 0.036952 TCAGCTAGCAGGCTTGTGAC 60.037 55.000 18.83 0.00 41.00 3.67
4015 5163 0.321671 CAGGGTGGTGACGAGTTCAT 59.678 55.000 0.00 0.00 36.32 2.57
4053 6055 1.006813 TCCATGGGTGCCCTGTTTAT 58.993 50.000 13.02 0.00 36.94 1.40
4055 6057 2.583101 TCCATGGGTGCCCTGTTTATAA 59.417 45.455 13.02 0.00 36.94 0.98
4066 6068 8.308207 GGTGCCCTGTTTATAAGTTGATTTTTA 58.692 33.333 0.00 0.00 0.00 1.52
4085 6090 9.659830 GATTTTTATTGTTGAAACTGTACGTCT 57.340 29.630 0.00 0.00 0.00 4.18
4095 6100 4.367386 AACTGTACGTCTGTAGGCATAC 57.633 45.455 0.53 0.53 0.00 2.39
4150 6155 4.495422 ACAGATAACCTAGAAAGCACACG 58.505 43.478 0.00 0.00 0.00 4.49
4154 6159 3.738830 AACCTAGAAAGCACACGTACA 57.261 42.857 0.00 0.00 0.00 2.90
4159 6164 5.636543 ACCTAGAAAGCACACGTACAAATAC 59.363 40.000 0.00 0.00 0.00 1.89
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 1.889573 GCAGAGGCCGGCTGTATTC 60.890 63.158 28.56 15.71 35.81 1.75
3 4 1.987807 ATGCAGAGGCCGGCTGTATT 61.988 55.000 28.56 7.04 35.58 1.89
4 5 2.388890 GATGCAGAGGCCGGCTGTAT 62.389 60.000 28.56 24.41 40.62 2.29
6 7 4.479993 GATGCAGAGGCCGGCTGT 62.480 66.667 28.56 14.72 40.13 4.40
7 8 3.982316 TTGATGCAGAGGCCGGCTG 62.982 63.158 28.56 18.50 40.13 4.85
8 9 2.955022 GATTGATGCAGAGGCCGGCT 62.955 60.000 28.56 12.77 40.13 5.52
9 10 2.517875 ATTGATGCAGAGGCCGGC 60.518 61.111 21.18 21.18 40.13 6.13
10 11 0.749091 TTGATTGATGCAGAGGCCGG 60.749 55.000 0.00 0.00 40.13 6.13
11 12 1.266175 GATTGATTGATGCAGAGGCCG 59.734 52.381 0.00 0.00 40.13 6.13
12 13 1.266175 CGATTGATTGATGCAGAGGCC 59.734 52.381 0.00 0.00 40.13 5.19
13 14 2.216046 TCGATTGATTGATGCAGAGGC 58.784 47.619 0.00 0.00 41.68 4.70
14 15 4.406001 CATCGATTGATTGATGCAGAGG 57.594 45.455 7.98 0.00 40.65 3.69
20 21 3.896122 TGCATGCATCGATTGATTGATG 58.104 40.909 18.46 14.31 46.71 3.07
21 22 3.818773 TCTGCATGCATCGATTGATTGAT 59.181 39.130 22.97 0.00 30.49 2.57
22 23 3.207778 TCTGCATGCATCGATTGATTGA 58.792 40.909 22.97 7.88 30.49 2.57
23 24 3.003378 ACTCTGCATGCATCGATTGATTG 59.997 43.478 22.97 5.31 30.49 2.67
24 25 3.211865 ACTCTGCATGCATCGATTGATT 58.788 40.909 22.97 5.10 30.49 2.57
25 26 2.847441 ACTCTGCATGCATCGATTGAT 58.153 42.857 22.97 1.68 34.28 2.57
26 27 2.320745 ACTCTGCATGCATCGATTGA 57.679 45.000 22.97 12.76 0.00 2.57
27 28 2.540973 CCAACTCTGCATGCATCGATTG 60.541 50.000 22.97 20.69 0.00 2.67
28 29 1.674441 CCAACTCTGCATGCATCGATT 59.326 47.619 22.97 10.61 0.00 3.34
29 30 1.306148 CCAACTCTGCATGCATCGAT 58.694 50.000 22.97 7.07 0.00 3.59
30 31 1.371337 GCCAACTCTGCATGCATCGA 61.371 55.000 22.97 15.08 0.00 3.59
31 32 1.063649 GCCAACTCTGCATGCATCG 59.936 57.895 22.97 17.11 0.00 3.84
32 33 1.063649 CGCCAACTCTGCATGCATC 59.936 57.895 22.97 3.86 0.00 3.91
33 34 2.412323 CCGCCAACTCTGCATGCAT 61.412 57.895 22.97 3.04 0.00 3.96
34 35 3.057548 CCGCCAACTCTGCATGCA 61.058 61.111 21.29 21.29 0.00 3.96
35 36 3.818787 CCCGCCAACTCTGCATGC 61.819 66.667 11.82 11.82 0.00 4.06
36 37 2.535485 TACCCCGCCAACTCTGCATG 62.535 60.000 0.00 0.00 0.00 4.06
37 38 2.297895 TACCCCGCCAACTCTGCAT 61.298 57.895 0.00 0.00 0.00 3.96
38 39 2.925706 TACCCCGCCAACTCTGCA 60.926 61.111 0.00 0.00 0.00 4.41
39 40 2.436115 GTACCCCGCCAACTCTGC 60.436 66.667 0.00 0.00 0.00 4.26
40 41 2.125673 CGTACCCCGCCAACTCTG 60.126 66.667 0.00 0.00 0.00 3.35
87 90 3.449737 ACGAACTAGGGTTTGCTGCTATA 59.550 43.478 0.00 0.00 39.73 1.31
322 331 1.348064 ACGTTGGTGAGATCTCCCAA 58.652 50.000 28.08 28.08 37.49 4.12
328 337 1.068474 CCGACAACGTTGGTGAGATC 58.932 55.000 30.34 16.97 37.88 2.75
393 402 2.127383 CGCGAAAGGAACAACGCC 60.127 61.111 0.00 0.00 46.69 5.68
395 404 2.127383 GCCGCGAAAGGAACAACG 60.127 61.111 8.23 0.00 0.00 4.10
481 490 4.116961 GCTCAACAAGTGCGGTATGTATA 58.883 43.478 0.00 0.00 0.00 1.47
589 598 7.875338 TGTACAGGGGCCAGTAATAAATATA 57.125 36.000 4.39 0.00 0.00 0.86
590 599 6.773583 TGTACAGGGGCCAGTAATAAATAT 57.226 37.500 4.39 0.00 0.00 1.28
669 678 2.393764 GGTGGCACAGAAAATTTCGTG 58.606 47.619 20.82 18.91 41.80 4.35
687 697 0.831711 AGGGAAAAGCAATTGCCGGT 60.832 50.000 26.45 11.78 44.73 5.28
688 698 1.181786 TAGGGAAAAGCAATTGCCGG 58.818 50.000 26.45 0.00 44.73 6.13
689 699 2.166254 ACATAGGGAAAAGCAATTGCCG 59.834 45.455 26.45 5.36 44.73 5.69
690 700 3.893326 ACATAGGGAAAAGCAATTGCC 57.107 42.857 26.45 11.17 43.38 4.52
691 701 6.340522 ACATTACATAGGGAAAAGCAATTGC 58.659 36.000 23.05 23.05 42.49 3.56
692 702 7.775120 AGACATTACATAGGGAAAAGCAATTG 58.225 34.615 0.00 0.00 0.00 2.32
693 703 7.961326 AGACATTACATAGGGAAAAGCAATT 57.039 32.000 0.00 0.00 0.00 2.32
694 704 7.961326 AAGACATTACATAGGGAAAAGCAAT 57.039 32.000 0.00 0.00 0.00 3.56
695 705 7.775053 AAAGACATTACATAGGGAAAAGCAA 57.225 32.000 0.00 0.00 0.00 3.91
696 706 7.601856 CAAAAGACATTACATAGGGAAAAGCA 58.398 34.615 0.00 0.00 0.00 3.91
697 707 6.531594 GCAAAAGACATTACATAGGGAAAAGC 59.468 38.462 0.00 0.00 0.00 3.51
698 708 7.830739 AGCAAAAGACATTACATAGGGAAAAG 58.169 34.615 0.00 0.00 0.00 2.27
699 709 7.775053 AGCAAAAGACATTACATAGGGAAAA 57.225 32.000 0.00 0.00 0.00 2.29
700 710 7.232534 ACAAGCAAAAGACATTACATAGGGAAA 59.767 33.333 0.00 0.00 0.00 3.13
701 711 6.719370 ACAAGCAAAAGACATTACATAGGGAA 59.281 34.615 0.00 0.00 0.00 3.97
702 712 6.245408 ACAAGCAAAAGACATTACATAGGGA 58.755 36.000 0.00 0.00 0.00 4.20
703 713 6.515272 ACAAGCAAAAGACATTACATAGGG 57.485 37.500 0.00 0.00 0.00 3.53
704 714 7.029563 GGAACAAGCAAAAGACATTACATAGG 58.970 38.462 0.00 0.00 0.00 2.57
705 715 7.538678 GTGGAACAAGCAAAAGACATTACATAG 59.461 37.037 0.00 0.00 44.16 2.23
706 716 7.367285 GTGGAACAAGCAAAAGACATTACATA 58.633 34.615 0.00 0.00 44.16 2.29
707 717 6.215845 GTGGAACAAGCAAAAGACATTACAT 58.784 36.000 0.00 0.00 44.16 2.29
782 792 8.198109 TCTTCACATAGGCTAACTTACAAGATC 58.802 37.037 0.00 0.00 0.00 2.75
916 1204 3.369576 GGGCGACTAACATTCTCCTTCTT 60.370 47.826 0.00 0.00 0.00 2.52
931 1219 2.056906 AAAGGCACAGAAGGGCGACT 62.057 55.000 0.00 0.00 35.71 4.18
972 1260 1.274703 AATCATGAGACAGGCCGGGT 61.275 55.000 8.08 5.15 0.00 5.28
1223 1511 9.871238 GTTTTCTCCATCTAGATACTGTAACAA 57.129 33.333 4.54 0.00 0.00 2.83
1315 1603 3.374988 TCACAAGCAAGAGTTGAACACAG 59.625 43.478 0.00 0.00 0.00 3.66
1407 1695 5.556947 GCAGAAATTACTTGTTGCACAAAGC 60.557 40.000 7.35 0.00 37.69 3.51
1499 1787 3.036091 CTCCCAATTGATGCATCCCTTT 58.964 45.455 23.67 11.49 0.00 3.11
1627 1915 7.932491 CCATAGAGATGTGAGTGAATGAGAAAT 59.068 37.037 0.00 0.00 0.00 2.17
1677 1965 4.586001 AGAAAGCAAAGACATGGACAACAT 59.414 37.500 0.00 0.00 41.57 2.71
1808 2096 5.164620 TGCTTGTGTCAATATCCTTCTGA 57.835 39.130 0.00 0.00 0.00 3.27
1824 2112 0.987294 AGTACTGCCCTCATGCTTGT 59.013 50.000 0.00 0.00 0.00 3.16
1935 2223 3.248024 TGTGACCTGAATTGAGTAGGGT 58.752 45.455 0.00 0.00 35.89 4.34
2062 2350 1.071385 AGCTATAAGCAAGCAGGCGAT 59.929 47.619 1.22 0.00 45.56 4.58
2309 2602 5.676552 AACCTGTGTTATCTGTGTGTAACA 58.323 37.500 0.00 0.00 37.46 2.41
2312 2605 5.538118 CAGAACCTGTGTTATCTGTGTGTA 58.462 41.667 0.00 0.00 33.97 2.90
2367 2660 2.936919 AGGTGCAGTCATCTCAAACA 57.063 45.000 0.00 0.00 0.00 2.83
2509 2802 7.215789 AGAGAAGCAATTACCTCATGACATAG 58.784 38.462 0.00 0.00 0.00 2.23
2780 3073 8.698973 TTAACAAATAAGATCCACAAGAACCA 57.301 30.769 0.00 0.00 0.00 3.67
2842 3135 7.426929 TTCTGCTTCAGTTTCAAAGAGATAC 57.573 36.000 0.00 0.00 32.61 2.24
3062 3355 1.289160 TGGAGAAGGCCAATAGCAGT 58.711 50.000 5.01 0.00 46.50 4.40
3123 3416 2.974698 CGGCTGGAATCGATGGCC 60.975 66.667 16.78 16.78 39.43 5.36
3175 3468 0.321653 AACCGAACCTGATCTGGTGC 60.322 55.000 23.46 20.61 40.73 5.01
3275 3568 4.804608 TCAACTAACAACAATGGTGTCG 57.195 40.909 3.67 1.52 36.80 4.35
3379 3673 4.463050 AAATGTGGGGGAGAAACTACAA 57.537 40.909 0.00 0.00 0.00 2.41
3445 3775 5.239525 TGTGACGAGATATGACTGGACTATG 59.760 44.000 0.00 0.00 0.00 2.23
3697 4029 0.975887 GGGGACATGCCAAACAACAT 59.024 50.000 8.20 0.00 38.95 2.71
3727 4065 4.036380 GGGAGAAATAGGTACATTTTGGCG 59.964 45.833 0.00 0.00 0.00 5.69
3762 4100 3.303135 AACCGTCAGGAGCGCTGA 61.303 61.111 18.48 3.49 41.02 4.26
3839 4177 5.419471 GTGAGTGAGACCAGTTATAGGAACT 59.581 44.000 0.00 0.00 46.37 3.01
3890 4229 2.654877 GTCGCTCGGGAAGTTCCA 59.345 61.111 23.33 2.92 38.64 3.53
3903 4242 2.019948 AAAATCCTCGGTAAGGTCGC 57.980 50.000 0.00 0.00 46.32 5.19
3929 5077 6.480320 TGAATAAAGCTCTCTAAATTCCGAGC 59.520 38.462 0.00 0.00 46.89 5.03
3932 5080 7.974675 TGTTGAATAAAGCTCTCTAAATTCCG 58.025 34.615 0.00 0.00 0.00 4.30
3941 5089 7.224557 GGATCTCTCTTGTTGAATAAAGCTCTC 59.775 40.741 0.00 0.00 0.00 3.20
3955 5103 5.584913 TGACTTTCCTAGGATCTCTCTTGT 58.415 41.667 13.57 3.06 0.00 3.16
3963 5111 3.639094 TGCTAGCTGACTTTCCTAGGATC 59.361 47.826 13.57 8.17 31.46 3.36
3995 5143 1.004918 GAACTCGTCACCACCCTGG 60.005 63.158 0.00 0.00 45.02 4.45
4015 5163 6.768861 CCATGGATGGTTACCGAAAGTAAATA 59.231 38.462 5.56 0.00 42.56 1.40
4041 6043 9.869757 ATAAAAATCAACTTATAAACAGGGCAC 57.130 29.630 0.00 0.00 0.00 5.01
4066 6068 5.694910 CCTACAGACGTACAGTTTCAACAAT 59.305 40.000 0.00 0.00 0.00 2.71
4112 6117 7.942341 AGGTTATCTGTAATGTTTTCCAACTCA 59.058 33.333 0.00 0.00 33.58 3.41
4113 6118 8.336801 AGGTTATCTGTAATGTTTTCCAACTC 57.663 34.615 0.00 0.00 33.58 3.01


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

AutoCloner maintained by Alex Coulton.