Multiple sequence alignment - TraesCS3A01G342600

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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 TraesCS3A01G342600 chr3A 100.000 3519 0 0 1 3519 589547073 589550591 0.000000e+00 6499
1 TraesCS3A01G342600 chr3A 93.848 829 29 6 2691 3519 731322448 731323254 0.000000e+00 1229
2 TraesCS3A01G342600 chr3A 84.324 740 89 18 2795 3519 98488288 98487561 0.000000e+00 699
3 TraesCS3A01G342600 chr3A 83.448 435 52 13 2697 3117 150063777 150063349 1.530000e-103 387
4 TraesCS3A01G342600 chr3D 97.158 1654 39 4 986 2639 448293340 448294985 0.000000e+00 2787
5 TraesCS3A01G342600 chr3D 88.079 1015 49 19 1 989 448292311 448293279 0.000000e+00 1138
6 TraesCS3A01G342600 chr3B 95.325 1647 64 7 993 2637 588156932 588158567 0.000000e+00 2603
7 TraesCS3A01G342600 chr3B 91.080 639 29 15 338 959 588156215 588156842 0.000000e+00 839
8 TraesCS3A01G342600 chr7A 96.372 827 28 1 2693 3519 487261542 487260718 0.000000e+00 1360
9 TraesCS3A01G342600 chr7A 97.194 499 14 0 3021 3519 88938088 88937590 0.000000e+00 845
10 TraesCS3A01G342600 chr4A 92.112 824 61 4 2696 3519 701932782 701931963 0.000000e+00 1158
11 TraesCS3A01G342600 chr1A 89.915 823 77 2 2697 3519 9231771 9230955 0.000000e+00 1055
12 TraesCS3A01G342600 chr7D 88.623 835 70 10 2692 3519 593973050 593973866 0.000000e+00 992
13 TraesCS3A01G342600 chr1B 86.141 837 95 15 2697 3519 7605291 7604462 0.000000e+00 883
14 TraesCS3A01G342600 chrUn 97.194 499 14 0 3021 3519 314890901 314890403 0.000000e+00 845
15 TraesCS3A01G342600 chr2D 86.514 786 81 18 2697 3468 453639588 453640362 0.000000e+00 841
16 TraesCS3A01G342600 chr4D 88.822 331 23 4 2761 3091 12502753 12502437 9.160000e-106 394


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 TraesCS3A01G342600 chr3A 589547073 589550591 3518 False 6499.0 6499 100.0000 1 3519 1 chr3A.!!$F1 3518
1 TraesCS3A01G342600 chr3A 731322448 731323254 806 False 1229.0 1229 93.8480 2691 3519 1 chr3A.!!$F2 828
2 TraesCS3A01G342600 chr3A 98487561 98488288 727 True 699.0 699 84.3240 2795 3519 1 chr3A.!!$R1 724
3 TraesCS3A01G342600 chr3D 448292311 448294985 2674 False 1962.5 2787 92.6185 1 2639 2 chr3D.!!$F1 2638
4 TraesCS3A01G342600 chr3B 588156215 588158567 2352 False 1721.0 2603 93.2025 338 2637 2 chr3B.!!$F1 2299
5 TraesCS3A01G342600 chr7A 487260718 487261542 824 True 1360.0 1360 96.3720 2693 3519 1 chr7A.!!$R2 826
6 TraesCS3A01G342600 chr4A 701931963 701932782 819 True 1158.0 1158 92.1120 2696 3519 1 chr4A.!!$R1 823
7 TraesCS3A01G342600 chr1A 9230955 9231771 816 True 1055.0 1055 89.9150 2697 3519 1 chr1A.!!$R1 822
8 TraesCS3A01G342600 chr7D 593973050 593973866 816 False 992.0 992 88.6230 2692 3519 1 chr7D.!!$F1 827
9 TraesCS3A01G342600 chr1B 7604462 7605291 829 True 883.0 883 86.1410 2697 3519 1 chr1B.!!$R1 822
10 TraesCS3A01G342600 chr2D 453639588 453640362 774 False 841.0 841 86.5140 2697 3468 1 chr2D.!!$F1 771

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
526 540 0.306533 CTAAACGTGTGGTGTGGTGC 59.693 55.0 0.0 0.0 0.0 5.01 F
942 982 0.329261 CGATGCATATGGGGGATGGT 59.671 55.0 0.0 0.0 0.0 3.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1918 2021 0.959553 AGACAATGACGACGAGGTGT 59.040 50.0 0.00 0.0 0.00 4.16 R
2662 2767 0.036306 CTAGGACCTGGCGTTGGTTT 59.964 55.0 3.53 0.0 38.03 3.27 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
19 20 2.056223 GCGGAGGGGTAGTACAGCA 61.056 63.158 2.06 0.00 0.00 4.41
35 42 1.444383 GCAGCGACGACTGATCACA 60.444 57.895 19.06 0.00 40.25 3.58
55 62 2.094597 CACCGGTATACAACAAGGACGA 60.095 50.000 6.87 0.00 33.22 4.20
62 69 1.963172 ACAACAAGGACGAAGGAACC 58.037 50.000 0.00 0.00 0.00 3.62
120 127 2.584391 GGCAAGGGTGTCGGAGTCT 61.584 63.158 0.00 0.00 0.00 3.24
137 144 3.071837 TGACGTGGCGGCTATCCA 61.072 61.111 11.43 0.31 35.04 3.41
192 200 5.452777 AGCGTTCAAATTTGCTTCTAGTTC 58.547 37.500 13.54 0.00 32.89 3.01
197 205 5.451908 TCAAATTTGCTTCTAGTTCGCAAG 58.548 37.500 13.54 1.29 43.56 4.01
218 226 3.619929 AGAATTCAAACATACGTACGGGC 59.380 43.478 21.06 0.00 0.00 6.13
258 266 2.041891 TCCGGACATTTATGGGTGGTTT 59.958 45.455 0.00 0.00 0.00 3.27
259 267 2.165437 CCGGACATTTATGGGTGGTTTG 59.835 50.000 0.00 0.00 0.00 2.93
272 280 1.604755 GTGGTTTGATGCACGTGGTTA 59.395 47.619 18.88 0.00 0.00 2.85
419 433 4.063967 CGCCAGTGCACCTACCGA 62.064 66.667 14.63 0.00 37.32 4.69
519 533 0.399075 CCCCTTCCTAAACGTGTGGT 59.601 55.000 0.00 0.00 0.00 4.16
524 538 0.831966 TCCTAAACGTGTGGTGTGGT 59.168 50.000 0.00 0.00 0.00 4.16
525 539 0.941542 CCTAAACGTGTGGTGTGGTG 59.058 55.000 0.00 0.00 0.00 4.17
526 540 0.306533 CTAAACGTGTGGTGTGGTGC 59.693 55.000 0.00 0.00 0.00 5.01
527 541 1.096386 TAAACGTGTGGTGTGGTGCC 61.096 55.000 0.00 0.00 0.00 5.01
528 542 2.830186 AAACGTGTGGTGTGGTGCCT 62.830 55.000 0.00 0.00 0.00 4.75
537 551 1.282157 GGTGTGGTGCCTTCCTCTTAT 59.718 52.381 0.00 0.00 0.00 1.73
543 557 1.751351 GTGCCTTCCTCTTATTTGGCC 59.249 52.381 0.00 0.00 39.60 5.36
648 662 3.191539 CTGCTTCGCTTCCTCGCC 61.192 66.667 0.00 0.00 0.00 5.54
731 753 9.587461 GAAAATACGCAGAGCTATTTTATCTTC 57.413 33.333 13.73 0.00 34.92 2.87
732 754 8.894768 AAATACGCAGAGCTATTTTATCTTCT 57.105 30.769 0.00 0.00 0.00 2.85
733 755 8.894768 AATACGCAGAGCTATTTTATCTTCTT 57.105 30.769 0.00 0.00 0.00 2.52
734 756 6.836577 ACGCAGAGCTATTTTATCTTCTTC 57.163 37.500 0.00 0.00 0.00 2.87
735 757 5.460419 ACGCAGAGCTATTTTATCTTCTTCG 59.540 40.000 0.00 0.00 0.00 3.79
736 758 5.611412 CGCAGAGCTATTTTATCTTCTTCGC 60.611 44.000 0.00 0.00 0.00 4.70
737 759 5.465056 GCAGAGCTATTTTATCTTCTTCGCT 59.535 40.000 0.00 0.00 0.00 4.93
738 760 6.346518 GCAGAGCTATTTTATCTTCTTCGCTC 60.347 42.308 0.00 0.00 41.05 5.03
739 761 7.049799 AGAGCTATTTTATCTTCTTCGCTCT 57.950 36.000 0.00 0.00 44.68 4.09
740 762 6.922957 AGAGCTATTTTATCTTCTTCGCTCTG 59.077 38.462 8.91 0.00 46.79 3.35
741 763 5.465056 AGCTATTTTATCTTCTTCGCTCTGC 59.535 40.000 0.00 0.00 0.00 4.26
778 800 2.143612 CTGCGAATGATCAGCGAGCG 62.144 60.000 20.81 11.53 0.00 5.03
919 952 2.688446 AGAGGACGCGATCATGTAGAAA 59.312 45.455 15.93 0.00 0.00 2.52
935 975 5.482006 TGTAGAAATCTCGATGCATATGGG 58.518 41.667 0.00 0.00 0.00 4.00
936 976 3.947868 AGAAATCTCGATGCATATGGGG 58.052 45.455 0.00 0.00 0.00 4.96
937 977 2.795231 AATCTCGATGCATATGGGGG 57.205 50.000 0.00 0.00 0.00 5.40
938 978 1.956869 ATCTCGATGCATATGGGGGA 58.043 50.000 0.00 0.00 0.00 4.81
939 979 1.956869 TCTCGATGCATATGGGGGAT 58.043 50.000 0.00 0.00 0.00 3.85
940 980 1.556451 TCTCGATGCATATGGGGGATG 59.444 52.381 0.00 0.00 0.00 3.51
941 981 0.620030 TCGATGCATATGGGGGATGG 59.380 55.000 0.00 0.00 0.00 3.51
942 982 0.329261 CGATGCATATGGGGGATGGT 59.671 55.000 0.00 0.00 0.00 3.55
943 983 1.843368 GATGCATATGGGGGATGGTG 58.157 55.000 0.00 0.00 0.00 4.17
944 984 0.410663 ATGCATATGGGGGATGGTGG 59.589 55.000 0.00 0.00 0.00 4.61
974 1014 0.531532 CCTAGCTGCCCACTGATTCG 60.532 60.000 0.00 0.00 0.00 3.34
989 1029 2.102925 TGATTCGACATGCCAGATGCTA 59.897 45.455 0.00 0.00 42.00 3.49
992 1032 1.688197 TCGACATGCCAGATGCTATGA 59.312 47.619 0.00 0.00 42.00 2.15
996 1099 2.557056 ACATGCCAGATGCTATGATTGC 59.443 45.455 0.00 0.00 42.00 3.56
1925 2028 3.365265 GGCAAGCCCAACACCTCG 61.365 66.667 0.00 0.00 0.00 4.63
1949 2052 2.673368 GTCATTGTCTTCGTGGATGTCC 59.327 50.000 0.00 0.00 0.00 4.02
2045 2148 2.280186 CTAATCTGCCGCCCGGTC 60.280 66.667 8.66 1.70 37.65 4.79
2526 2631 6.881065 TGTGTAAGAGATCTGATTCTTTTGGG 59.119 38.462 0.00 0.00 35.42 4.12
2640 2745 9.871238 AGTGTACATACTACTAAATCAAACTGG 57.129 33.333 0.00 0.00 0.00 4.00
2641 2746 9.095065 GTGTACATACTACTAAATCAAACTGGG 57.905 37.037 0.00 0.00 0.00 4.45
2642 2747 8.262227 TGTACATACTACTAAATCAAACTGGGG 58.738 37.037 0.00 0.00 0.00 4.96
2643 2748 6.659824 ACATACTACTAAATCAAACTGGGGG 58.340 40.000 0.00 0.00 0.00 5.40
2658 2763 1.221566 GGGGGTTCCATTGCATTGC 59.778 57.895 0.46 0.46 35.00 3.56
2659 2764 1.551908 GGGGGTTCCATTGCATTGCA 61.552 55.000 7.38 7.38 33.91 4.08
2660 2765 0.391528 GGGGTTCCATTGCATTGCAC 60.392 55.000 11.66 0.00 38.71 4.57
2661 2766 0.391528 GGGTTCCATTGCATTGCACC 60.392 55.000 11.66 7.98 38.71 5.01
2662 2767 0.321021 GGTTCCATTGCATTGCACCA 59.679 50.000 11.66 0.00 38.71 4.17
2663 2768 1.270732 GGTTCCATTGCATTGCACCAA 60.271 47.619 11.66 0.00 38.71 3.67
2664 2769 2.492012 GTTCCATTGCATTGCACCAAA 58.508 42.857 11.66 0.00 38.71 3.28
2665 2770 2.166821 TCCATTGCATTGCACCAAAC 57.833 45.000 11.66 0.00 38.71 2.93
2666 2771 1.158434 CCATTGCATTGCACCAAACC 58.842 50.000 11.66 0.00 38.71 3.27
2667 2772 1.542767 CCATTGCATTGCACCAAACCA 60.543 47.619 11.66 0.00 38.71 3.67
2668 2773 2.219458 CATTGCATTGCACCAAACCAA 58.781 42.857 11.66 0.00 38.71 3.67
2669 2774 1.661341 TTGCATTGCACCAAACCAAC 58.339 45.000 11.66 0.00 38.71 3.77
2670 2775 0.529337 TGCATTGCACCAAACCAACG 60.529 50.000 7.38 0.00 31.71 4.10
2671 2776 1.830368 GCATTGCACCAAACCAACGC 61.830 55.000 3.15 0.00 0.00 4.84
2672 2777 1.068921 ATTGCACCAAACCAACGCC 59.931 52.632 0.00 0.00 0.00 5.68
2673 2778 1.680522 ATTGCACCAAACCAACGCCA 61.681 50.000 0.00 0.00 0.00 5.69
2674 2779 2.027460 GCACCAAACCAACGCCAG 59.973 61.111 0.00 0.00 0.00 4.85
2675 2780 2.727544 CACCAAACCAACGCCAGG 59.272 61.111 0.00 0.00 0.00 4.45
2676 2781 2.124693 CACCAAACCAACGCCAGGT 61.125 57.895 0.00 0.00 42.34 4.00
2677 2782 1.826487 ACCAAACCAACGCCAGGTC 60.826 57.895 0.00 0.00 38.76 3.85
2678 2783 2.561037 CCAAACCAACGCCAGGTCC 61.561 63.158 0.00 0.00 38.76 4.46
2679 2784 1.528309 CAAACCAACGCCAGGTCCT 60.528 57.895 0.00 0.00 38.76 3.85
2680 2785 0.250553 CAAACCAACGCCAGGTCCTA 60.251 55.000 0.00 0.00 38.76 2.94
2681 2786 0.036306 AAACCAACGCCAGGTCCTAG 59.964 55.000 0.00 0.00 38.76 3.02
2682 2787 1.838073 AACCAACGCCAGGTCCTAGG 61.838 60.000 0.82 0.82 38.76 3.02
2683 2788 1.987855 CCAACGCCAGGTCCTAGGA 60.988 63.158 7.62 7.62 0.00 2.94
2684 2789 1.517832 CAACGCCAGGTCCTAGGAG 59.482 63.158 13.15 0.85 0.00 3.69
2685 2790 1.686110 AACGCCAGGTCCTAGGAGG 60.686 63.158 13.15 11.63 36.46 4.30
2686 2791 3.541713 CGCCAGGTCCTAGGAGGC 61.542 72.222 24.39 24.39 41.86 4.70
2687 2792 3.541713 GCCAGGTCCTAGGAGGCG 61.542 72.222 21.25 9.08 34.61 5.52
2688 2793 3.541713 CCAGGTCCTAGGAGGCGC 61.542 72.222 13.15 0.00 34.61 6.53
2689 2794 3.905678 CAGGTCCTAGGAGGCGCG 61.906 72.222 13.15 0.00 34.61 6.86
3037 3149 0.179100 CACGTACATCTGGCCCAGAG 60.179 60.000 19.98 13.25 44.08 3.35
3105 3227 3.242291 CCTACCTCCCGCCATCCC 61.242 72.222 0.00 0.00 0.00 3.85
3322 3470 1.523154 GGCATTCGTGTTTGGCTCCA 61.523 55.000 0.00 0.00 35.67 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 1.141234 GTCGCTGCTGTACTACCCC 59.859 63.158 0.00 0.00 0.00 4.95
19 20 1.213013 GGTGTGATCAGTCGTCGCT 59.787 57.895 0.00 0.00 0.00 4.93
35 42 2.170166 TCGTCCTTGTTGTATACCGGT 58.830 47.619 13.98 13.98 0.00 5.28
55 62 1.818131 GCTTTTCTCACCCGGTTCCTT 60.818 52.381 0.00 0.00 0.00 3.36
62 69 2.033194 GTCCCGCTTTTCTCACCCG 61.033 63.158 0.00 0.00 0.00 5.28
104 111 0.038159 GTCAGACTCCGACACCCTTG 60.038 60.000 0.00 0.00 33.43 3.61
105 112 1.524863 CGTCAGACTCCGACACCCTT 61.525 60.000 0.00 0.00 32.72 3.95
106 113 1.972223 CGTCAGACTCCGACACCCT 60.972 63.158 0.00 0.00 32.72 4.34
120 127 3.071837 TGGATAGCCGCCACGTCA 61.072 61.111 0.00 0.00 36.79 4.35
137 144 1.668151 GAGAAGGTTTGCGGCGTCT 60.668 57.895 9.37 0.29 0.00 4.18
192 200 4.717299 CGTACGTATGTTTGAATTCTTGCG 59.283 41.667 7.22 4.81 0.00 4.85
197 205 3.542680 CGCCCGTACGTATGTTTGAATTC 60.543 47.826 15.21 0.00 0.00 2.17
212 220 1.543065 TAAGCCCTTCAACGCCCGTA 61.543 55.000 0.00 0.00 0.00 4.02
218 226 2.225727 GGACACTTTAAGCCCTTCAACG 59.774 50.000 0.00 0.00 0.00 4.10
258 266 1.368641 GCATCTAACCACGTGCATCA 58.631 50.000 10.91 0.00 37.52 3.07
259 267 0.657840 GGCATCTAACCACGTGCATC 59.342 55.000 10.91 0.00 39.27 3.91
272 280 2.609046 GGTACAGACCAGGGCATCT 58.391 57.895 0.00 0.00 46.12 2.90
388 399 0.586319 CTGGCGTTGAAAGCGAAGAA 59.414 50.000 0.00 0.00 35.00 2.52
419 433 6.170675 GTTAGAGCAACGAGTGAATTCATT 57.829 37.500 12.12 7.39 0.00 2.57
456 470 3.373565 GCTGCTTCCAAACCCCCG 61.374 66.667 0.00 0.00 0.00 5.73
457 471 3.373565 CGCTGCTTCCAAACCCCC 61.374 66.667 0.00 0.00 0.00 5.40
458 472 1.657751 GATCGCTGCTTCCAAACCCC 61.658 60.000 0.00 0.00 0.00 4.95
495 509 2.662070 CGTTTAGGAAGGGGCCGGA 61.662 63.158 5.05 0.00 0.00 5.14
497 511 1.743995 CACGTTTAGGAAGGGGCCG 60.744 63.158 0.00 0.00 0.00 6.13
498 512 0.958876 CACACGTTTAGGAAGGGGCC 60.959 60.000 0.00 0.00 0.00 5.80
499 513 0.958876 CCACACGTTTAGGAAGGGGC 60.959 60.000 0.00 0.00 0.00 5.80
500 514 0.399075 ACCACACGTTTAGGAAGGGG 59.601 55.000 4.81 0.00 0.00 4.79
503 517 1.871039 CCACACCACACGTTTAGGAAG 59.129 52.381 4.81 0.50 0.00 3.46
519 533 3.420893 CAAATAAGAGGAAGGCACCACA 58.579 45.455 3.78 0.00 0.00 4.17
524 538 1.640670 AGGCCAAATAAGAGGAAGGCA 59.359 47.619 5.01 0.00 43.72 4.75
525 539 2.302260 GAGGCCAAATAAGAGGAAGGC 58.698 52.381 5.01 0.00 41.29 4.35
526 540 2.092914 ACGAGGCCAAATAAGAGGAAGG 60.093 50.000 5.01 0.00 0.00 3.46
527 541 3.198872 GACGAGGCCAAATAAGAGGAAG 58.801 50.000 5.01 0.00 0.00 3.46
528 542 2.418197 CGACGAGGCCAAATAAGAGGAA 60.418 50.000 5.01 0.00 0.00 3.36
537 551 1.270625 ACAATTCTCGACGAGGCCAAA 60.271 47.619 23.92 11.66 0.00 3.28
543 557 3.181496 TGAGGATGACAATTCTCGACGAG 60.181 47.826 18.91 18.91 40.92 4.18
648 662 2.439701 TAGGAGCAGGACGACCGG 60.440 66.667 0.00 0.00 41.83 5.28
738 760 4.899239 GATCTCCCACGGGCGCAG 62.899 72.222 10.83 4.90 34.68 5.18
778 800 0.959372 TCCTCGTCTCTTCGTCCACC 60.959 60.000 0.00 0.00 0.00 4.61
919 952 1.956869 TCCCCCATATGCATCGAGAT 58.043 50.000 0.19 0.00 0.00 2.75
935 975 4.480480 TGGAGAGACCACCATCCC 57.520 61.111 0.00 0.00 44.64 3.85
943 983 0.827368 CAGCTAGGGTTGGAGAGACC 59.173 60.000 0.00 0.00 39.54 3.85
944 984 0.176910 GCAGCTAGGGTTGGAGAGAC 59.823 60.000 0.00 0.00 0.00 3.36
989 1029 3.350219 ACGAGTTGGGTTAGCAATCAT 57.650 42.857 0.00 0.00 0.00 2.45
992 1032 2.817844 GGAAACGAGTTGGGTTAGCAAT 59.182 45.455 0.00 0.00 0.00 3.56
996 1099 1.804748 GCAGGAAACGAGTTGGGTTAG 59.195 52.381 0.00 0.00 0.00 2.34
1217 1320 3.839642 GAGGATCTCGAGCTGCGCC 62.840 68.421 7.81 4.25 40.61 6.53
1586 1689 2.730626 CTCGAGTTCCTGCGAGTTG 58.269 57.895 3.62 0.00 46.43 3.16
1772 1875 3.160585 CTCTTGGGAGGCACACCA 58.839 61.111 0.00 0.00 42.29 4.17
1775 1878 4.704833 GCGCTCTTGGGAGGCACA 62.705 66.667 0.00 0.00 39.80 4.57
1918 2021 0.959553 AGACAATGACGACGAGGTGT 59.040 50.000 0.00 0.00 0.00 4.16
1925 2028 2.060326 TCCACGAAGACAATGACGAC 57.940 50.000 0.00 0.00 0.00 4.34
2526 2631 1.543802 CTACTCATCCTCCTCATCGCC 59.456 57.143 0.00 0.00 0.00 5.54
2640 2745 1.221566 GCAATGCAATGGAACCCCC 59.778 57.895 3.49 0.00 0.00 5.40
2641 2746 0.391528 GTGCAATGCAATGGAACCCC 60.392 55.000 10.44 0.00 41.47 4.95
2642 2747 0.391528 GGTGCAATGCAATGGAACCC 60.392 55.000 10.44 0.49 41.47 4.11
2643 2748 0.321021 TGGTGCAATGCAATGGAACC 59.679 50.000 10.44 6.41 41.47 3.62
2644 2749 2.166821 TTGGTGCAATGCAATGGAAC 57.833 45.000 10.44 4.06 41.47 3.62
2645 2750 2.492012 GTTTGGTGCAATGCAATGGAA 58.508 42.857 10.44 0.00 41.47 3.53
2646 2751 1.270732 GGTTTGGTGCAATGCAATGGA 60.271 47.619 10.44 0.00 41.47 3.41
2647 2752 1.158434 GGTTTGGTGCAATGCAATGG 58.842 50.000 10.44 0.00 41.47 3.16
2648 2753 1.880271 TGGTTTGGTGCAATGCAATG 58.120 45.000 10.44 0.00 41.47 2.82
2649 2754 2.220313 GTTGGTTTGGTGCAATGCAAT 58.780 42.857 10.44 0.00 41.47 3.56
2650 2755 1.661341 GTTGGTTTGGTGCAATGCAA 58.339 45.000 10.44 0.00 41.47 4.08
2651 2756 0.529337 CGTTGGTTTGGTGCAATGCA 60.529 50.000 2.72 2.72 35.60 3.96
2652 2757 1.830368 GCGTTGGTTTGGTGCAATGC 61.830 55.000 0.00 0.00 33.34 3.56
2653 2758 1.220817 GGCGTTGGTTTGGTGCAATG 61.221 55.000 0.00 0.00 0.00 2.82
2654 2759 1.068921 GGCGTTGGTTTGGTGCAAT 59.931 52.632 0.00 0.00 0.00 3.56
2655 2760 2.290122 CTGGCGTTGGTTTGGTGCAA 62.290 55.000 0.00 0.00 0.00 4.08
2656 2761 2.755876 TGGCGTTGGTTTGGTGCA 60.756 55.556 0.00 0.00 0.00 4.57
2657 2762 2.027460 CTGGCGTTGGTTTGGTGC 59.973 61.111 0.00 0.00 0.00 5.01
2658 2763 2.070654 GACCTGGCGTTGGTTTGGTG 62.071 60.000 0.00 0.00 38.03 4.17
2659 2764 1.826487 GACCTGGCGTTGGTTTGGT 60.826 57.895 0.00 0.00 38.03 3.67
2660 2765 2.561037 GGACCTGGCGTTGGTTTGG 61.561 63.158 0.00 0.00 38.03 3.28
2661 2766 0.250553 TAGGACCTGGCGTTGGTTTG 60.251 55.000 3.53 0.00 38.03 2.93
2662 2767 0.036306 CTAGGACCTGGCGTTGGTTT 59.964 55.000 3.53 0.00 38.03 3.27
2663 2768 1.677552 CTAGGACCTGGCGTTGGTT 59.322 57.895 3.53 0.00 38.03 3.67
2664 2769 2.291043 CCTAGGACCTGGCGTTGGT 61.291 63.158 1.05 0.00 41.07 3.67
2665 2770 1.961180 CTCCTAGGACCTGGCGTTGG 61.961 65.000 7.62 0.00 0.00 3.77
2666 2771 1.517832 CTCCTAGGACCTGGCGTTG 59.482 63.158 7.62 0.00 0.00 4.10
2667 2772 1.686110 CCTCCTAGGACCTGGCGTT 60.686 63.158 7.62 0.00 37.67 4.84
2668 2773 2.042843 CCTCCTAGGACCTGGCGT 60.043 66.667 7.62 0.00 37.67 5.68
2669 2774 3.541713 GCCTCCTAGGACCTGGCG 61.542 72.222 21.25 5.72 37.67 5.69
2670 2775 3.541713 CGCCTCCTAGGACCTGGC 61.542 72.222 24.39 24.39 37.67 4.85
2671 2776 3.541713 GCGCCTCCTAGGACCTGG 61.542 72.222 7.62 9.40 37.67 4.45
2672 2777 3.905678 CGCGCCTCCTAGGACCTG 61.906 72.222 7.62 0.00 37.67 4.00
2675 2780 4.874977 GTGCGCGCCTCCTAGGAC 62.875 72.222 30.77 13.79 37.67 3.85
2677 2782 4.577246 GAGTGCGCGCCTCCTAGG 62.577 72.222 30.77 0.82 38.80 3.02
2678 2783 4.914420 CGAGTGCGCGCCTCCTAG 62.914 72.222 30.64 20.36 0.00 3.02
2924 3036 4.742201 GCCGCAACTCGAGAGCCA 62.742 66.667 21.68 0.00 41.67 4.75
3019 3131 0.614979 ACTCTGGGCCAGATGTACGT 60.615 55.000 35.03 25.35 39.92 3.57
3037 3149 4.639171 CCACGCAAACCCGCCAAC 62.639 66.667 0.00 0.00 0.00 3.77


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

AutoCloner maintained by Alex Coulton.