Multiple sequence alignment - TraesCS6B01G393700

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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 TraesCS6B01G393700 chr6B 100.000 3335 0 0 1 3335 668771533 668774867 0.000000e+00 6159.0
1 TraesCS6B01G393700 chr6D 88.614 2301 157 51 6 2259 444131250 444133492 0.000000e+00 2700.0
2 TraesCS6B01G393700 chr6D 84.649 456 41 20 2259 2699 444133524 444133965 8.550000e-116 427.0
3 TraesCS6B01G393700 chr6D 78.967 542 49 25 2813 3324 444134064 444134570 3.230000e-80 309.0
4 TraesCS6B01G393700 chr6D 85.484 62 6 3 1608 1668 444132682 444132741 9.990000e-06 62.1
5 TraesCS6B01G393700 chr6A 87.425 1495 106 37 818 2259 591727965 591729430 0.000000e+00 1644.0
6 TraesCS6B01G393700 chr6A 85.017 594 35 28 151 707 591727334 591727910 3.760000e-154 555.0
7 TraesCS6B01G393700 chr6A 78.166 458 40 29 2259 2699 591729462 591729876 1.550000e-58 237.0
8 TraesCS6B01G393700 chr6A 86.139 101 9 3 23 118 591727236 591727336 1.640000e-18 104.0
9 TraesCS6B01G393700 chr5A 79.968 619 47 41 2132 2699 278172708 278173300 5.220000e-103 385.0
10 TraesCS6B01G393700 chr5A 84.000 225 17 11 2867 3088 278173410 278173618 7.300000e-47 198.0
11 TraesCS6B01G393700 chr3A 82.167 443 31 18 2278 2699 193126825 193126410 1.480000e-88 337.0
12 TraesCS6B01G393700 chr3A 85.816 141 6 7 2130 2259 193127009 193126872 1.610000e-28 137.0
13 TraesCS6B01G393700 chr1D 89.744 156 14 2 1473 1627 163675162 163675008 7.300000e-47 198.0
14 TraesCS6B01G393700 chr3D 93.617 94 5 1 1535 1627 16901522 16901615 4.490000e-29 139.0


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 TraesCS6B01G393700 chr6B 668771533 668774867 3334 False 6159.000 6159 100.00000 1 3335 1 chr6B.!!$F1 3334
1 TraesCS6B01G393700 chr6D 444131250 444134570 3320 False 874.525 2700 84.42850 6 3324 4 chr6D.!!$F1 3318
2 TraesCS6B01G393700 chr6A 591727236 591729876 2640 False 635.000 1644 84.18675 23 2699 4 chr6A.!!$F1 2676
3 TraesCS6B01G393700 chr5A 278172708 278173618 910 False 291.500 385 81.98400 2132 3088 2 chr5A.!!$F1 956
4 TraesCS6B01G393700 chr3A 193126410 193127009 599 True 237.000 337 83.99150 2130 2699 2 chr3A.!!$R1 569

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
665 747 0.035176 TTTACCCCCAGAAACGTCCG 59.965 55.0 0.0 0.0 0.0 4.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2340 2549 0.250727 ATCTTCAACCCCCACACACG 60.251 55.0 0.0 0.0 0.0 4.49 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
39 40 1.871039 GGCGAGCCGAAAATATGCTTA 59.129 47.619 0.00 0.00 34.99 3.09
41 42 3.242936 GGCGAGCCGAAAATATGCTTAAA 60.243 43.478 0.00 0.00 34.99 1.52
42 43 4.347813 GCGAGCCGAAAATATGCTTAAAA 58.652 39.130 0.00 0.00 34.99 1.52
43 44 4.796312 GCGAGCCGAAAATATGCTTAAAAA 59.204 37.500 0.00 0.00 34.99 1.94
62 63 4.655762 AAAAGAAAAGAAAAGGCGAGCT 57.344 36.364 0.00 0.00 0.00 4.09
63 64 3.632855 AAGAAAAGAAAAGGCGAGCTG 57.367 42.857 0.00 0.00 0.00 4.24
64 65 2.851195 AGAAAAGAAAAGGCGAGCTGA 58.149 42.857 0.00 0.00 0.00 4.26
246 265 7.010091 CACACAGCATAATCCGCGAATAATATA 59.990 37.037 8.23 0.00 0.00 0.86
247 266 7.710907 ACACAGCATAATCCGCGAATAATATAT 59.289 33.333 8.23 0.00 0.00 0.86
258 281 8.938906 TCCGCGAATAATATATTTTTCTAACCC 58.061 33.333 19.81 7.79 0.00 4.11
279 302 4.159879 CCCAAGAAAGATACCACTCGTACT 59.840 45.833 0.00 0.00 0.00 2.73
280 303 5.359009 CCCAAGAAAGATACCACTCGTACTA 59.641 44.000 0.00 0.00 0.00 1.82
281 304 6.040616 CCCAAGAAAGATACCACTCGTACTAT 59.959 42.308 0.00 0.00 0.00 2.12
288 311 6.471146 AGATACCACTCGTACTATACCGAAT 58.529 40.000 0.00 0.00 31.92 3.34
297 320 5.239963 TCGTACTATACCGAATGATGCTTCA 59.760 40.000 4.57 4.57 36.00 3.02
302 325 6.767902 ACTATACCGAATGATGCTTCACATTT 59.232 34.615 4.14 0.00 39.84 2.32
304 327 5.895636 ACCGAATGATGCTTCACATTTTA 57.104 34.783 4.14 0.00 39.84 1.52
349 381 9.096160 GAGCGATTATCACTCATCATCAATTAT 57.904 33.333 5.47 0.00 0.00 1.28
524 567 2.594962 CCACGTCGTCAACTGTGCC 61.595 63.158 0.00 0.00 33.73 5.01
531 574 2.661537 TCAACTGTGCCGCGTCTG 60.662 61.111 4.92 2.04 0.00 3.51
533 576 1.663388 CAACTGTGCCGCGTCTGTA 60.663 57.895 4.92 0.00 0.00 2.74
534 577 1.068417 AACTGTGCCGCGTCTGTAA 59.932 52.632 4.92 0.00 0.00 2.41
539 582 0.942410 GTGCCGCGTCTGTAACTCAA 60.942 55.000 4.92 0.00 0.00 3.02
540 583 0.249531 TGCCGCGTCTGTAACTCAAA 60.250 50.000 4.92 0.00 0.00 2.69
541 584 0.863144 GCCGCGTCTGTAACTCAAAA 59.137 50.000 4.92 0.00 0.00 2.44
542 585 1.262151 GCCGCGTCTGTAACTCAAAAA 59.738 47.619 4.92 0.00 0.00 1.94
543 586 2.095919 GCCGCGTCTGTAACTCAAAAAT 60.096 45.455 4.92 0.00 0.00 1.82
544 587 3.479006 CCGCGTCTGTAACTCAAAAATG 58.521 45.455 4.92 0.00 0.00 2.32
579 661 2.435693 GCGTCTGTGCCTATCCCCT 61.436 63.158 0.00 0.00 0.00 4.79
581 663 0.105039 CGTCTGTGCCTATCCCCTTC 59.895 60.000 0.00 0.00 0.00 3.46
607 689 4.454504 CCGATATTTACCCCTCAATTTCCG 59.545 45.833 0.00 0.00 0.00 4.30
649 731 4.349636 TCTCTCCATTTCACCACACCTTTA 59.650 41.667 0.00 0.00 0.00 1.85
665 747 0.035176 TTTACCCCCAGAAACGTCCG 59.965 55.000 0.00 0.00 0.00 4.79
666 748 1.120795 TTACCCCCAGAAACGTCCGT 61.121 55.000 0.00 0.00 0.00 4.69
675 757 3.122948 CCAGAAACGTCCGTTATTCACAG 59.877 47.826 5.40 0.00 37.35 3.66
695 777 4.641645 CAACTGCCACCCCGCTCA 62.642 66.667 0.00 0.00 0.00 4.26
712 794 4.634703 ACACCAACCGCGATGGCA 62.635 61.111 24.92 0.00 43.94 4.92
733 815 0.775861 GCCACGAAATTTCACGCAAC 59.224 50.000 17.99 0.00 0.00 4.17
737 819 0.727793 CGAAATTTCACGCAACCCCG 60.728 55.000 17.99 0.00 0.00 5.73
738 820 0.594110 GAAATTTCACGCAACCCCGA 59.406 50.000 13.40 0.00 0.00 5.14
768 850 3.726859 ACCCTATCCAGGCCAATAATTCA 59.273 43.478 5.01 0.00 41.08 2.57
844 927 6.071334 ACGTCAGACCAATAAAGATCTCTTCA 60.071 38.462 0.00 0.00 34.61 3.02
1012 1107 5.458595 GGATATCTCCCCCATTGTTTTCTT 58.541 41.667 2.05 0.00 35.28 2.52
1013 1108 5.536538 GGATATCTCCCCCATTGTTTTCTTC 59.463 44.000 2.05 0.00 35.28 2.87
1019 1114 1.818674 CCCATTGTTTTCTTCCTCCCG 59.181 52.381 0.00 0.00 0.00 5.14
1025 1120 2.224769 TGTTTTCTTCCTCCCGCAGATT 60.225 45.455 0.00 0.00 0.00 2.40
1038 1136 0.463620 GCAGATTCCCTCTTCTCGCT 59.536 55.000 0.00 0.00 29.16 4.93
1039 1137 1.537990 GCAGATTCCCTCTTCTCGCTC 60.538 57.143 0.00 0.00 29.16 5.03
1040 1138 1.028905 AGATTCCCTCTTCTCGCTCG 58.971 55.000 0.00 0.00 0.00 5.03
1041 1139 0.741915 GATTCCCTCTTCTCGCTCGT 59.258 55.000 0.00 0.00 0.00 4.18
1197 1307 2.020131 CCAACAGGATGCATCTCGC 58.980 57.895 25.28 9.83 42.53 5.03
1285 1395 2.520741 CCCAAGGTGGCCGTTGTT 60.521 61.111 0.00 0.00 35.79 2.83
1917 2045 2.365635 GCTCCCCCTCCAGTAGCA 60.366 66.667 0.00 0.00 33.38 3.49
1918 2046 2.439104 GCTCCCCCTCCAGTAGCAG 61.439 68.421 0.00 0.00 33.38 4.24
1956 2084 3.184683 CTGCGCCGTTCTGCTCTC 61.185 66.667 4.18 0.00 0.00 3.20
1991 2119 0.817634 CGTCTCGCCTCATCTCCTCT 60.818 60.000 0.00 0.00 0.00 3.69
2014 2142 5.192927 TGGAAGCAACAAGAAGAAGAAGAA 58.807 37.500 0.00 0.00 0.00 2.52
2016 2144 5.529060 GGAAGCAACAAGAAGAAGAAGAAGA 59.471 40.000 0.00 0.00 0.00 2.87
2063 2197 3.809905 AGGACGGAAGGATTTTATCTGC 58.190 45.455 0.00 0.00 0.00 4.26
2078 2212 1.600636 CTGCGGATGGTTGGTGTGT 60.601 57.895 0.00 0.00 0.00 3.72
2081 2215 1.228124 CGGATGGTTGGTGTGTGGT 60.228 57.895 0.00 0.00 0.00 4.16
2083 2217 0.958822 GGATGGTTGGTGTGTGGTTC 59.041 55.000 0.00 0.00 0.00 3.62
2265 2458 6.091713 CGTTAGGTAGGTTGTTAATCTTGGTG 59.908 42.308 0.00 0.00 0.00 4.17
2274 2471 4.562082 TGTTAATCTTGGTGTAGGTGACG 58.438 43.478 0.00 0.00 0.00 4.35
2275 2472 4.281435 TGTTAATCTTGGTGTAGGTGACGA 59.719 41.667 0.00 0.00 0.00 4.20
2332 2541 9.869757 AGGTTTGGTAATAATTGAAGTTTATGC 57.130 29.630 0.00 0.00 0.00 3.14
2339 2548 7.795431 AATAATTGAAGTTTATGCGTGTGTG 57.205 32.000 0.00 0.00 0.00 3.82
2340 2549 2.679355 TGAAGTTTATGCGTGTGTGC 57.321 45.000 0.00 0.00 0.00 4.57
2341 2550 1.070242 TGAAGTTTATGCGTGTGTGCG 60.070 47.619 0.00 0.00 37.81 5.34
2342 2551 0.941542 AAGTTTATGCGTGTGTGCGT 59.058 45.000 0.00 0.00 37.81 5.24
2348 2557 4.589700 GCGTGTGTGCGTGTGTGG 62.590 66.667 0.00 0.00 0.00 4.17
2423 2638 9.751542 CTGAGAGGTAAGTAAATTAGTATGGTG 57.248 37.037 0.00 0.00 0.00 4.17
2467 2685 0.947244 GTTGGTGTGGCAACTGAGAG 59.053 55.000 0.00 0.00 37.61 3.20
2523 2741 6.917217 AGTTGATTTAGCAGCTGAGTTATC 57.083 37.500 20.43 14.10 0.00 1.75
2530 2749 7.655521 TTTAGCAGCTGAGTTATCTTAGGTA 57.344 36.000 20.43 0.00 36.19 3.08
2531 2750 7.841282 TTAGCAGCTGAGTTATCTTAGGTAT 57.159 36.000 20.43 0.00 36.19 2.73
2532 2751 6.739331 AGCAGCTGAGTTATCTTAGGTATT 57.261 37.500 20.43 0.00 36.19 1.89
2533 2752 7.130681 AGCAGCTGAGTTATCTTAGGTATTT 57.869 36.000 20.43 0.00 36.19 1.40
2565 2784 9.391006 GTTGTTCATGGTCCTTTGTAAGATATA 57.609 33.333 0.00 0.00 0.00 0.86
2567 2786 9.778741 TGTTCATGGTCCTTTGTAAGATATATC 57.221 33.333 4.42 4.42 0.00 1.63
2598 2817 4.451435 GTGTCTGTATCGGTCGATCATAGA 59.549 45.833 9.25 8.98 36.17 1.98
2600 2819 3.685272 TCTGTATCGGTCGATCATAGAGC 59.315 47.826 9.25 0.00 36.17 4.09
2647 2867 7.175816 TGTCAGTGGTAGATTATATGAGCTCTC 59.824 40.741 16.19 2.56 0.00 3.20
2648 2868 6.661377 TCAGTGGTAGATTATATGAGCTCTCC 59.339 42.308 16.19 0.00 0.00 3.71
2651 2871 6.889722 GTGGTAGATTATATGAGCTCTCCTCT 59.110 42.308 16.19 10.38 41.35 3.69
2660 2887 2.909006 TGAGCTCTCCTCTTTCATGGTT 59.091 45.455 16.19 0.00 41.35 3.67
2675 2905 5.632244 TCATGGTTTGTGATCATCTGTTG 57.368 39.130 0.00 0.00 0.00 3.33
2686 2916 5.798934 GTGATCATCTGTTGTTGATTCTTGC 59.201 40.000 0.00 0.00 34.00 4.01
2693 2923 6.902341 TCTGTTGTTGATTCTTGCTCATAAC 58.098 36.000 0.00 0.00 0.00 1.89
2699 2929 7.243487 TGTTGATTCTTGCTCATAACGATTTC 58.757 34.615 0.00 0.00 0.00 2.17
2701 2931 7.008440 TGATTCTTGCTCATAACGATTTCTG 57.992 36.000 0.00 0.00 0.00 3.02
2703 2933 4.832248 TCTTGCTCATAACGATTTCTGGT 58.168 39.130 0.00 0.00 0.00 4.00
2704 2934 4.870426 TCTTGCTCATAACGATTTCTGGTC 59.130 41.667 0.00 0.00 0.00 4.02
2705 2935 4.471904 TGCTCATAACGATTTCTGGTCT 57.528 40.909 0.00 0.00 0.00 3.85
2706 2936 4.183865 TGCTCATAACGATTTCTGGTCTG 58.816 43.478 0.00 0.00 0.00 3.51
2707 2937 3.557595 GCTCATAACGATTTCTGGTCTGG 59.442 47.826 0.00 0.00 0.00 3.86
2708 2938 4.759782 CTCATAACGATTTCTGGTCTGGT 58.240 43.478 0.00 0.00 0.00 4.00
2712 2942 1.002087 ACGATTTCTGGTCTGGTCACC 59.998 52.381 0.00 0.00 36.90 4.02
2713 2943 1.276421 CGATTTCTGGTCTGGTCACCT 59.724 52.381 0.00 0.00 37.34 4.00
2714 2944 2.704572 GATTTCTGGTCTGGTCACCTG 58.295 52.381 0.00 0.00 37.34 4.00
2715 2945 1.801242 TTTCTGGTCTGGTCACCTGA 58.199 50.000 0.00 0.00 41.34 3.86
2716 2946 2.030027 TTCTGGTCTGGTCACCTGAT 57.970 50.000 6.70 0.00 42.26 2.90
2717 2947 1.269958 TCTGGTCTGGTCACCTGATG 58.730 55.000 6.70 1.40 38.96 3.07
2718 2948 1.203174 TCTGGTCTGGTCACCTGATGA 60.203 52.381 6.70 3.69 38.96 2.92
2726 2956 2.777536 TCACCTGATGACTTGGCCT 58.222 52.632 3.32 0.00 29.99 5.19
2727 2957 1.067295 TCACCTGATGACTTGGCCTT 58.933 50.000 3.32 0.00 29.99 4.35
2728 2958 1.171308 CACCTGATGACTTGGCCTTG 58.829 55.000 3.32 0.00 0.00 3.61
2729 2959 0.610232 ACCTGATGACTTGGCCTTGC 60.610 55.000 3.32 0.00 0.00 4.01
2730 2960 0.323178 CCTGATGACTTGGCCTTGCT 60.323 55.000 3.32 0.00 0.00 3.91
2731 2961 0.809385 CTGATGACTTGGCCTTGCTG 59.191 55.000 3.32 0.00 0.00 4.41
2732 2962 0.111061 TGATGACTTGGCCTTGCTGT 59.889 50.000 3.32 0.00 0.00 4.40
2733 2963 0.807496 GATGACTTGGCCTTGCTGTC 59.193 55.000 3.32 5.80 0.00 3.51
2734 2964 0.610232 ATGACTTGGCCTTGCTGTCC 60.610 55.000 3.32 0.00 0.00 4.02
2735 2965 2.281761 ACTTGGCCTTGCTGTCCG 60.282 61.111 3.32 0.00 0.00 4.79
2736 2966 2.281761 CTTGGCCTTGCTGTCCGT 60.282 61.111 3.32 0.00 0.00 4.69
2737 2967 1.898574 CTTGGCCTTGCTGTCCGTT 60.899 57.895 3.32 0.00 0.00 4.44
2738 2968 2.133742 CTTGGCCTTGCTGTCCGTTG 62.134 60.000 3.32 0.00 0.00 4.10
2739 2969 2.281484 GGCCTTGCTGTCCGTTGA 60.281 61.111 0.00 0.00 0.00 3.18
2740 2970 1.896660 GGCCTTGCTGTCCGTTGAA 60.897 57.895 0.00 0.00 0.00 2.69
2741 2971 1.282875 GCCTTGCTGTCCGTTGAAC 59.717 57.895 0.00 0.00 0.00 3.18
2742 2972 1.949257 CCTTGCTGTCCGTTGAACC 59.051 57.895 0.00 0.00 0.00 3.62
2743 2973 1.515521 CCTTGCTGTCCGTTGAACCC 61.516 60.000 0.00 0.00 0.00 4.11
2744 2974 1.841663 CTTGCTGTCCGTTGAACCCG 61.842 60.000 0.00 0.00 0.00 5.28
2750 2980 1.068417 TCCGTTGAACCCGACAGTG 59.932 57.895 0.00 0.00 0.00 3.66
2755 2985 1.531149 GTTGAACCCGACAGTGTGATG 59.469 52.381 0.00 0.00 0.00 3.07
2779 3011 5.033589 AGAATTCACTGAGCTATCCCTTG 57.966 43.478 8.44 0.00 0.00 3.61
2786 3018 5.131642 TCACTGAGCTATCCCTTGATGAATT 59.868 40.000 0.00 0.00 32.18 2.17
2791 3023 7.982252 TGAGCTATCCCTTGATGAATTTATCT 58.018 34.615 11.13 0.00 32.18 1.98
2792 3024 8.099537 TGAGCTATCCCTTGATGAATTTATCTC 58.900 37.037 11.13 0.00 32.18 2.75
2793 3025 7.102346 AGCTATCCCTTGATGAATTTATCTCG 58.898 38.462 11.13 2.94 32.18 4.04
2794 3026 7.038729 AGCTATCCCTTGATGAATTTATCTCGA 60.039 37.037 11.13 2.76 32.18 4.04
2817 3082 8.726068 TCGAAATATTTCAGTGATTAGTTTGCA 58.274 29.630 24.23 0.00 37.01 4.08
2839 3104 1.134159 AGATTGCTCTCCTCATGGTGC 60.134 52.381 0.00 0.00 34.23 5.01
2844 3109 2.124983 CTCCTCATGGTGCGTGGG 60.125 66.667 0.00 0.00 34.23 4.61
2883 3148 5.188327 TGACAATAATTTGCAAACCACGA 57.812 34.783 15.41 0.00 36.22 4.35
2885 3150 5.632764 TGACAATAATTTGCAAACCACGATG 59.367 36.000 15.41 11.28 36.22 3.84
2886 3151 5.537188 ACAATAATTTGCAAACCACGATGT 58.463 33.333 15.41 11.89 36.22 3.06
2887 3152 5.633182 ACAATAATTTGCAAACCACGATGTC 59.367 36.000 15.41 0.00 36.22 3.06
2932 3197 3.054503 GGCTGCTGTGGAGTGCTG 61.055 66.667 0.00 0.00 0.00 4.41
2937 3202 1.743252 GCTGTGGAGTGCTGGCTAC 60.743 63.158 0.00 0.00 0.00 3.58
2950 3215 2.740714 GGCTACTTTGCGTGCTCCG 61.741 63.158 0.00 0.00 40.40 4.63
2968 3233 4.504858 CTCCGTAGATAGCCTTGTGTTTT 58.495 43.478 0.00 0.00 0.00 2.43
2970 3235 3.374058 CCGTAGATAGCCTTGTGTTTTGG 59.626 47.826 0.00 0.00 0.00 3.28
2971 3236 3.181510 CGTAGATAGCCTTGTGTTTTGGC 60.182 47.826 0.00 0.00 46.42 4.52
2974 3239 4.756630 GCCTTGTGTTTTGGCAGG 57.243 55.556 0.00 0.00 45.46 4.85
2976 3241 1.300080 CCTTGTGTTTTGGCAGGCG 60.300 57.895 0.00 0.00 0.00 5.52
3001 3266 1.721093 TACTTTGGGGGTGGTGGTGG 61.721 60.000 0.00 0.00 0.00 4.61
3002 3267 3.030611 TTTGGGGGTGGTGGTGGT 61.031 61.111 0.00 0.00 0.00 4.16
3003 3268 3.381509 TTTGGGGGTGGTGGTGGTG 62.382 63.158 0.00 0.00 0.00 4.17
3019 3284 2.095853 GTGGTGATTGAATGCCACTACG 59.904 50.000 16.52 0.00 45.64 3.51
3021 3286 2.351726 GGTGATTGAATGCCACTACGAC 59.648 50.000 0.00 0.00 0.00 4.34
3034 3299 1.805345 ACTACGACCACTTGTCTCTCG 59.195 52.381 0.00 0.00 42.13 4.04
3054 3319 0.101219 GGCTAAGCAAGGCCAAATCG 59.899 55.000 5.01 0.00 46.84 3.34
3078 3348 1.377202 CACCAGCCAGCCGTGTTAT 60.377 57.895 0.47 0.00 0.00 1.89
3086 3356 2.032178 GCCAGCCGTGTTATCTGATTTC 59.968 50.000 0.00 0.00 0.00 2.17
3091 3361 2.607635 CCGTGTTATCTGATTTCCCACG 59.392 50.000 16.86 16.86 42.60 4.94
3098 3368 1.626321 TCTGATTTCCCACGCCTAACA 59.374 47.619 0.00 0.00 0.00 2.41
3100 3370 2.614057 CTGATTTCCCACGCCTAACATC 59.386 50.000 0.00 0.00 0.00 3.06
3101 3371 1.597663 GATTTCCCACGCCTAACATCG 59.402 52.381 0.00 0.00 0.00 3.84
3107 3377 2.511373 CGCCTAACATCGCTGGCA 60.511 61.111 0.00 0.00 45.13 4.92
3114 3384 0.806868 AACATCGCTGGCAGTTGATG 59.193 50.000 31.96 31.96 42.95 3.07
3131 3402 0.604578 ATGCATCAGCCAACAACCAC 59.395 50.000 0.00 0.00 41.13 4.16
3132 3403 0.754587 TGCATCAGCCAACAACCACA 60.755 50.000 0.00 0.00 41.13 4.17
3134 3405 0.314935 CATCAGCCAACAACCACACC 59.685 55.000 0.00 0.00 0.00 4.16
3137 3408 1.077357 AGCCAACAACCACACCGAA 60.077 52.632 0.00 0.00 0.00 4.30
3158 3429 7.133891 CGAAGGAGAGAGCAAAGAAAATTAA 57.866 36.000 0.00 0.00 0.00 1.40
3159 3430 7.239972 CGAAGGAGAGAGCAAAGAAAATTAAG 58.760 38.462 0.00 0.00 0.00 1.85
3160 3431 7.095017 CGAAGGAGAGAGCAAAGAAAATTAAGT 60.095 37.037 0.00 0.00 0.00 2.24
3161 3432 9.220767 GAAGGAGAGAGCAAAGAAAATTAAGTA 57.779 33.333 0.00 0.00 0.00 2.24
3162 3433 9.746457 AAGGAGAGAGCAAAGAAAATTAAGTAT 57.254 29.630 0.00 0.00 0.00 2.12
3163 3434 9.171877 AGGAGAGAGCAAAGAAAATTAAGTATG 57.828 33.333 0.00 0.00 0.00 2.39
3164 3435 9.167311 GGAGAGAGCAAAGAAAATTAAGTATGA 57.833 33.333 0.00 0.00 0.00 2.15
3167 3459 8.340618 AGAGCAAAGAAAATTAAGTATGAGCA 57.659 30.769 0.00 0.00 0.00 4.26
3170 3462 7.538678 AGCAAAGAAAATTAAGTATGAGCAACG 59.461 33.333 0.00 0.00 0.00 4.10
3189 3482 1.196808 CGATTCAGTTTGGTTGACCCG 59.803 52.381 0.00 0.00 35.15 5.28
3203 3496 2.311463 TGACCCGGAAATTTGCTGAAA 58.689 42.857 0.73 0.00 0.00 2.69
3204 3497 2.295909 TGACCCGGAAATTTGCTGAAAG 59.704 45.455 0.73 0.00 0.00 2.62
3218 3511 2.280592 AAAGGTGGTGACGCGTCC 60.281 61.111 34.34 24.62 43.50 4.79
3265 3558 1.149148 GCCACTTGAACCTTCGAGAC 58.851 55.000 8.98 0.00 40.46 3.36
3272 3565 2.467946 GAACCTTCGAGACGTCGGCA 62.468 60.000 10.46 0.00 46.80 5.69
3273 3566 2.079020 AACCTTCGAGACGTCGGCAA 62.079 55.000 10.46 3.02 46.80 4.52
3274 3567 1.372499 CCTTCGAGACGTCGGCAAA 60.372 57.895 10.46 2.94 46.80 3.68
3275 3568 0.942410 CCTTCGAGACGTCGGCAAAA 60.942 55.000 10.46 3.51 46.80 2.44
3276 3569 0.435008 CTTCGAGACGTCGGCAAAAG 59.565 55.000 10.46 9.01 46.80 2.27
3277 3570 1.554042 TTCGAGACGTCGGCAAAAGC 61.554 55.000 10.46 0.00 46.80 3.51
3278 3571 2.022129 CGAGACGTCGGCAAAAGCT 61.022 57.895 10.46 0.00 42.87 3.74
3279 3572 1.557443 CGAGACGTCGGCAAAAGCTT 61.557 55.000 10.46 0.00 42.87 3.74
3280 3573 0.586802 GAGACGTCGGCAAAAGCTTT 59.413 50.000 10.46 5.69 0.00 3.51
3281 3574 0.307760 AGACGTCGGCAAAAGCTTTG 59.692 50.000 13.54 8.26 0.00 2.77
3282 3575 0.660300 GACGTCGGCAAAAGCTTTGG 60.660 55.000 13.54 11.36 0.00 3.28
3283 3576 2.016165 CGTCGGCAAAAGCTTTGGC 61.016 57.895 27.47 27.47 41.00 4.52
3324 3617 2.029844 GTGGTTGCCGTCTCTCAGC 61.030 63.158 0.00 0.00 0.00 4.26
3325 3618 2.811317 GGTTGCCGTCTCTCAGCG 60.811 66.667 0.00 0.00 0.00 5.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 1.372499 CTTTCGCGTCCAACTCGGA 60.372 57.895 5.77 0.00 43.61 4.55
3 4 3.011760 GCCTTTCGCGTCCAACTCG 62.012 63.158 5.77 0.00 0.00 4.18
4 5 2.861006 GCCTTTCGCGTCCAACTC 59.139 61.111 5.77 0.00 0.00 3.01
41 42 4.097892 TCAGCTCGCCTTTTCTTTTCTTTT 59.902 37.500 0.00 0.00 0.00 2.27
42 43 3.632145 TCAGCTCGCCTTTTCTTTTCTTT 59.368 39.130 0.00 0.00 0.00 2.52
43 44 3.214328 TCAGCTCGCCTTTTCTTTTCTT 58.786 40.909 0.00 0.00 0.00 2.52
44 45 2.851195 TCAGCTCGCCTTTTCTTTTCT 58.149 42.857 0.00 0.00 0.00 2.52
45 46 3.626028 TTCAGCTCGCCTTTTCTTTTC 57.374 42.857 0.00 0.00 0.00 2.29
46 47 4.385358 TTTTCAGCTCGCCTTTTCTTTT 57.615 36.364 0.00 0.00 0.00 2.27
60 61 3.555518 GTCGTGGTCAATCTTTTTCAGC 58.444 45.455 0.00 0.00 0.00 4.26
61 62 3.247648 ACGTCGTGGTCAATCTTTTTCAG 59.752 43.478 0.00 0.00 0.00 3.02
62 63 3.001838 CACGTCGTGGTCAATCTTTTTCA 59.998 43.478 17.75 0.00 0.00 2.69
63 64 3.541711 CACGTCGTGGTCAATCTTTTTC 58.458 45.455 17.75 0.00 0.00 2.29
64 65 2.286772 GCACGTCGTGGTCAATCTTTTT 60.287 45.455 25.70 0.00 33.64 1.94
246 265 8.803235 GTGGTATCTTTCTTGGGTTAGAAAAAT 58.197 33.333 0.00 0.00 42.01 1.82
247 266 8.002459 AGTGGTATCTTTCTTGGGTTAGAAAAA 58.998 33.333 0.00 0.00 42.01 1.94
252 271 5.109903 CGAGTGGTATCTTTCTTGGGTTAG 58.890 45.833 0.00 0.00 0.00 2.34
258 281 8.074972 GGTATAGTACGAGTGGTATCTTTCTTG 58.925 40.741 0.00 0.00 32.74 3.02
279 302 7.566760 AAAATGTGAAGCATCATTCGGTATA 57.433 32.000 0.00 0.00 38.01 1.47
280 303 6.455360 AAAATGTGAAGCATCATTCGGTAT 57.545 33.333 0.00 0.00 38.01 2.73
281 304 5.895636 AAAATGTGAAGCATCATTCGGTA 57.104 34.783 0.00 0.00 38.01 4.02
349 381 3.004002 CGCACCTACCGTGATTGATAGTA 59.996 47.826 0.00 0.00 46.20 1.82
350 382 2.223735 CGCACCTACCGTGATTGATAGT 60.224 50.000 0.00 0.00 46.20 2.12
351 383 2.394708 CGCACCTACCGTGATTGATAG 58.605 52.381 0.00 0.00 46.20 2.08
357 389 4.508128 CGCCGCACCTACCGTGAT 62.508 66.667 0.00 0.00 46.20 3.06
524 567 4.383774 TCATTTTTGAGTTACAGACGCG 57.616 40.909 3.53 3.53 0.00 6.01
560 603 2.279517 GGGATAGGCACAGACGCG 60.280 66.667 3.53 3.53 0.00 6.01
579 661 2.341695 GAGGGGTAAATATCGGGGGAA 58.658 52.381 0.00 0.00 0.00 3.97
581 663 1.737199 TGAGGGGTAAATATCGGGGG 58.263 55.000 0.00 0.00 0.00 5.40
649 731 1.120795 TAACGGACGTTTCTGGGGGT 61.121 55.000 15.64 0.00 39.31 4.95
665 747 1.202348 GGCAGTTGGGCTGTGAATAAC 59.798 52.381 0.00 0.00 46.64 1.89
666 748 1.202989 TGGCAGTTGGGCTGTGAATAA 60.203 47.619 0.00 0.00 46.64 1.40
693 775 2.358125 CCATCGCGGTTGGTGTGA 60.358 61.111 17.61 0.00 0.00 3.58
694 776 4.101790 GCCATCGCGGTTGGTGTG 62.102 66.667 23.78 0.00 36.57 3.82
695 777 4.634703 TGCCATCGCGGTTGGTGT 62.635 61.111 23.78 0.00 38.08 4.16
712 794 1.082366 GCGTGAAATTTCGTGGCGT 60.082 52.632 13.34 0.00 0.00 5.68
745 827 4.202567 TGAATTATTGGCCTGGATAGGGTC 60.203 45.833 3.32 0.46 44.75 4.46
750 832 3.766545 GGCTGAATTATTGGCCTGGATA 58.233 45.455 3.32 0.00 41.20 2.59
752 834 1.750332 CGGCTGAATTATTGGCCTGGA 60.750 52.381 3.32 0.00 42.13 3.86
755 837 1.109323 GGCGGCTGAATTATTGGCCT 61.109 55.000 3.32 0.00 42.13 5.19
756 838 1.363807 GGCGGCTGAATTATTGGCC 59.636 57.895 0.00 0.00 41.02 5.36
867 950 7.052565 TCGCAGTAATAGAAAACTAAAACCG 57.947 36.000 0.00 0.00 0.00 4.44
868 951 8.026341 ACTCGCAGTAATAGAAAACTAAAACC 57.974 34.615 0.00 0.00 0.00 3.27
875 967 4.418392 TCCGACTCGCAGTAATAGAAAAC 58.582 43.478 0.00 0.00 0.00 2.43
885 977 2.194388 TACCCTCTCCGACTCGCAGT 62.194 60.000 0.00 0.00 0.00 4.40
886 978 1.030488 TTACCCTCTCCGACTCGCAG 61.030 60.000 0.00 0.00 0.00 5.18
887 979 1.001764 TTACCCTCTCCGACTCGCA 60.002 57.895 0.00 0.00 0.00 5.10
888 980 1.728672 CTTACCCTCTCCGACTCGC 59.271 63.158 0.00 0.00 0.00 5.03
947 1039 6.455246 CGTTTTATAGAAGAGGAAGAAACCGC 60.455 42.308 0.00 0.00 34.73 5.68
958 1050 1.865340 GGGCCGCGTTTTATAGAAGAG 59.135 52.381 4.92 0.00 0.00 2.85
1006 1101 2.618045 GGAATCTGCGGGAGGAAGAAAA 60.618 50.000 0.00 0.00 0.00 2.29
1007 1102 1.065418 GGAATCTGCGGGAGGAAGAAA 60.065 52.381 0.00 0.00 0.00 2.52
1012 1107 1.762460 GAGGGAATCTGCGGGAGGA 60.762 63.158 0.00 0.00 0.00 3.71
1013 1108 1.341156 AAGAGGGAATCTGCGGGAGG 61.341 60.000 0.00 0.00 38.67 4.30
1019 1114 0.463620 AGCGAGAAGAGGGAATCTGC 59.536 55.000 0.00 0.00 38.67 4.26
1025 1120 1.380524 CTAACGAGCGAGAAGAGGGA 58.619 55.000 0.00 0.00 0.00 4.20
1114 1224 2.051166 GCGCGGGACTAGATCGAC 60.051 66.667 8.83 0.00 0.00 4.20
1280 1390 1.370051 GCGAAGAACCGGCAACAAC 60.370 57.895 0.00 0.00 0.00 3.32
1281 1391 3.027292 GCGAAGAACCGGCAACAA 58.973 55.556 0.00 0.00 0.00 2.83
1291 1410 3.361977 GGCTTTGGCGGCGAAGAA 61.362 61.111 35.90 9.28 39.81 2.52
1717 1845 1.452108 CATCTTCTTGGTCGGGGCC 60.452 63.158 0.00 0.00 0.00 5.80
1719 1847 4.963878 CCATCTTCTTGGTCGGGG 57.036 61.111 0.00 0.00 31.74 5.73
1813 1941 4.126524 CGGAAGAAGAATCCCGGC 57.873 61.111 0.00 0.00 38.42 6.13
1816 1944 2.180862 GCGCCGGAAGAAGAATCCC 61.181 63.158 5.05 0.00 33.13 3.85
1819 1947 3.195698 GCGCGCCGGAAGAAGAAT 61.196 61.111 23.24 0.00 0.00 2.40
1940 2068 4.742201 GGAGAGCAGAACGGCGCA 62.742 66.667 10.83 0.00 39.27 6.09
1956 2084 4.548513 CGAGGGGGAGGAGGGAGG 62.549 77.778 0.00 0.00 0.00 4.30
1991 2119 4.780815 TCTTCTTCTTCTTGTTGCTTCCA 58.219 39.130 0.00 0.00 0.00 3.53
2014 2142 4.016479 TCAGGGAGAGTTATTACCACCTCT 60.016 45.833 0.00 0.00 37.01 3.69
2016 2144 4.031611 GTCAGGGAGAGTTATTACCACCT 58.968 47.826 0.00 0.00 0.00 4.00
2063 2197 0.821711 AACCACACACCAACCATCCG 60.822 55.000 0.00 0.00 0.00 4.18
2078 2212 3.151710 ATCCGCCGGATCGAACCA 61.152 61.111 14.09 0.00 38.09 3.67
2265 2458 3.319405 ACCAGATCATCATCGTCACCTAC 59.681 47.826 0.00 0.00 33.75 3.18
2274 2471 4.348486 TCCCTAGCTACCAGATCATCATC 58.652 47.826 0.00 0.00 0.00 2.92
2275 2472 4.202770 ACTCCCTAGCTACCAGATCATCAT 60.203 45.833 0.00 0.00 0.00 2.45
2332 2541 3.935872 CCCACACACGCACACACG 61.936 66.667 0.00 0.00 39.50 4.49
2339 2548 2.517402 TTCAACCCCCACACACGC 60.517 61.111 0.00 0.00 0.00 5.34
2340 2549 0.250727 ATCTTCAACCCCCACACACG 60.251 55.000 0.00 0.00 0.00 4.49
2341 2550 1.995376 AATCTTCAACCCCCACACAC 58.005 50.000 0.00 0.00 0.00 3.82
2342 2551 3.499563 CCTTAATCTTCAACCCCCACACA 60.500 47.826 0.00 0.00 0.00 3.72
2348 2557 5.577100 ACCTTAACCTTAATCTTCAACCCC 58.423 41.667 0.00 0.00 0.00 4.95
2411 2626 4.339247 GCTGATGCAACCACCATACTAATT 59.661 41.667 0.00 0.00 39.41 1.40
2412 2627 3.885297 GCTGATGCAACCACCATACTAAT 59.115 43.478 0.00 0.00 39.41 1.73
2413 2628 3.054434 AGCTGATGCAACCACCATACTAA 60.054 43.478 0.00 0.00 42.74 2.24
2414 2629 2.505407 AGCTGATGCAACCACCATACTA 59.495 45.455 0.00 0.00 42.74 1.82
2423 2638 1.602851 CATAGCTCAGCTGATGCAACC 59.397 52.381 28.21 11.61 40.10 3.77
2467 2685 1.734465 GCTGATGCAACTAGACACACC 59.266 52.381 0.00 0.00 39.41 4.16
2523 2741 8.454106 CCATGAACAACTCTTGAAATACCTAAG 58.546 37.037 0.00 0.00 32.16 2.18
2530 2749 5.388654 AGGACCATGAACAACTCTTGAAAT 58.611 37.500 0.00 0.00 32.16 2.17
2531 2750 4.792068 AGGACCATGAACAACTCTTGAAA 58.208 39.130 0.00 0.00 32.16 2.69
2532 2751 4.437682 AGGACCATGAACAACTCTTGAA 57.562 40.909 0.00 0.00 32.16 2.69
2533 2752 4.437682 AAGGACCATGAACAACTCTTGA 57.562 40.909 0.00 0.00 32.16 3.02
2565 2784 5.194432 ACCGATACAGACACAGACTTAGAT 58.806 41.667 0.00 0.00 0.00 1.98
2566 2785 4.586884 ACCGATACAGACACAGACTTAGA 58.413 43.478 0.00 0.00 0.00 2.10
2567 2786 4.494362 CGACCGATACAGACACAGACTTAG 60.494 50.000 0.00 0.00 0.00 2.18
2568 2787 3.373130 CGACCGATACAGACACAGACTTA 59.627 47.826 0.00 0.00 0.00 2.24
2647 2867 5.651139 AGATGATCACAAACCATGAAAGAGG 59.349 40.000 0.00 0.00 0.00 3.69
2648 2868 6.150641 ACAGATGATCACAAACCATGAAAGAG 59.849 38.462 0.00 0.00 0.00 2.85
2651 2871 6.040729 ACAACAGATGATCACAAACCATGAAA 59.959 34.615 0.00 0.00 0.00 2.69
2660 2887 7.364970 CAAGAATCAACAACAGATGATCACAA 58.635 34.615 0.00 0.00 35.29 3.33
2675 2905 7.427606 CAGAAATCGTTATGAGCAAGAATCAAC 59.572 37.037 0.00 0.00 0.00 3.18
2686 2916 4.759782 ACCAGACCAGAAATCGTTATGAG 58.240 43.478 0.00 0.00 0.00 2.90
2693 2923 1.276421 AGGTGACCAGACCAGAAATCG 59.724 52.381 3.63 0.00 38.63 3.34
2699 2929 1.269958 TCATCAGGTGACCAGACCAG 58.730 55.000 3.63 0.00 38.63 4.00
2708 2938 1.067295 AAGGCCAAGTCATCAGGTGA 58.933 50.000 5.01 0.00 0.00 4.02
2712 2942 0.809385 CAGCAAGGCCAAGTCATCAG 59.191 55.000 5.01 0.00 0.00 2.90
2713 2943 0.111061 ACAGCAAGGCCAAGTCATCA 59.889 50.000 5.01 0.00 0.00 3.07
2714 2944 0.807496 GACAGCAAGGCCAAGTCATC 59.193 55.000 5.01 0.00 0.00 2.92
2715 2945 2.952714 GACAGCAAGGCCAAGTCAT 58.047 52.632 5.01 0.00 0.00 3.06
2716 2946 4.481195 GACAGCAAGGCCAAGTCA 57.519 55.556 5.01 0.00 0.00 3.41
2722 2952 1.896660 TTCAACGGACAGCAAGGCC 60.897 57.895 0.00 0.00 44.64 5.19
2723 2953 1.282875 GTTCAACGGACAGCAAGGC 59.717 57.895 0.00 0.00 0.00 4.35
2724 2954 1.515521 GGGTTCAACGGACAGCAAGG 61.516 60.000 0.00 0.00 0.00 3.61
2725 2955 1.841663 CGGGTTCAACGGACAGCAAG 61.842 60.000 0.00 0.00 0.00 4.01
2726 2956 1.890041 CGGGTTCAACGGACAGCAA 60.890 57.895 0.00 0.00 0.00 3.91
2727 2957 2.280524 CGGGTTCAACGGACAGCA 60.281 61.111 0.00 0.00 0.00 4.41
2728 2958 2.029964 TCGGGTTCAACGGACAGC 59.970 61.111 0.00 0.00 0.00 4.40
2729 2959 1.068417 TGTCGGGTTCAACGGACAG 59.932 57.895 8.53 0.00 43.08 3.51
2730 2960 1.068417 CTGTCGGGTTCAACGGACA 59.932 57.895 11.32 11.32 44.87 4.02
2731 2961 1.068585 ACTGTCGGGTTCAACGGAC 59.931 57.895 3.94 3.94 40.06 4.79
2732 2962 1.068417 CACTGTCGGGTTCAACGGA 59.932 57.895 0.00 0.00 0.00 4.69
2733 2963 1.227438 ACACTGTCGGGTTCAACGG 60.227 57.895 0.00 0.00 0.00 4.44
2734 2964 0.528901 TCACACTGTCGGGTTCAACG 60.529 55.000 0.00 0.00 0.00 4.10
2735 2965 1.531149 CATCACACTGTCGGGTTCAAC 59.469 52.381 0.00 0.00 0.00 3.18
2736 2966 1.414550 TCATCACACTGTCGGGTTCAA 59.585 47.619 0.00 0.00 0.00 2.69
2737 2967 1.044611 TCATCACACTGTCGGGTTCA 58.955 50.000 0.00 0.00 0.00 3.18
2738 2968 2.069273 CTTCATCACACTGTCGGGTTC 58.931 52.381 0.00 0.00 0.00 3.62
2739 2969 1.691976 TCTTCATCACACTGTCGGGTT 59.308 47.619 0.00 0.00 0.00 4.11
2740 2970 1.338107 TCTTCATCACACTGTCGGGT 58.662 50.000 0.00 0.00 0.00 5.28
2741 2971 2.455674 TTCTTCATCACACTGTCGGG 57.544 50.000 0.00 0.00 0.00 5.14
2742 2972 3.996363 TGAATTCTTCATCACACTGTCGG 59.004 43.478 7.05 0.00 34.08 4.79
2743 2973 4.687948 AGTGAATTCTTCATCACACTGTCG 59.312 41.667 7.05 0.00 46.55 4.35
2744 2974 5.924786 CAGTGAATTCTTCATCACACTGTC 58.075 41.667 0.41 0.00 46.55 3.51
2750 2980 6.202570 GGATAGCTCAGTGAATTCTTCATCAC 59.797 42.308 7.05 0.00 44.92 3.06
2755 2985 5.289083 AGGGATAGCTCAGTGAATTCTTC 57.711 43.478 7.05 0.25 0.00 2.87
2772 3004 8.930846 ATTTCGAGATAAATTCATCAAGGGAT 57.069 30.769 0.00 0.00 0.00 3.85
2791 3023 8.726068 TGCAAACTAATCACTGAAATATTTCGA 58.274 29.630 20.45 13.35 40.01 3.71
2792 3024 8.788813 GTGCAAACTAATCACTGAAATATTTCG 58.211 33.333 20.45 17.13 40.01 3.46
2793 3025 9.624697 TGTGCAAACTAATCACTGAAATATTTC 57.375 29.630 19.37 19.37 37.69 2.17
2794 3026 9.630098 CTGTGCAAACTAATCACTGAAATATTT 57.370 29.630 0.00 0.00 33.37 1.40
2800 3064 6.671190 CAATCTGTGCAAACTAATCACTGAA 58.329 36.000 0.00 0.00 40.35 3.02
2815 3080 3.321933 CCATGAGGAGAGCAATCTGTGC 61.322 54.545 0.00 0.00 46.24 4.57
2817 3082 2.093075 CACCATGAGGAGAGCAATCTGT 60.093 50.000 0.00 0.00 38.69 3.41
2825 3090 1.153489 CCACGCACCATGAGGAGAG 60.153 63.158 0.00 0.00 38.69 3.20
2827 3092 1.976132 ATCCCACGCACCATGAGGAG 61.976 60.000 0.00 0.00 38.69 3.69
2839 3104 3.282021 ACAAAATCCTGATGATCCCACG 58.718 45.455 0.00 0.00 31.61 4.94
2883 3148 1.732259 GAATTGCCAACGACGAGACAT 59.268 47.619 0.00 0.00 0.00 3.06
2885 3150 0.093026 CGAATTGCCAACGACGAGAC 59.907 55.000 0.00 0.00 0.00 3.36
2886 3151 0.319211 ACGAATTGCCAACGACGAGA 60.319 50.000 0.00 0.00 0.00 4.04
2887 3152 0.511221 AACGAATTGCCAACGACGAG 59.489 50.000 0.00 0.00 0.00 4.18
2893 3158 3.242576 CCAAAACCAAACGAATTGCCAAC 60.243 43.478 0.00 0.00 37.73 3.77
2932 3197 2.740714 CGGAGCACGCAAAGTAGCC 61.741 63.158 0.00 0.00 34.82 3.93
2950 3215 4.357018 GCCAAAACACAAGGCTATCTAC 57.643 45.455 0.00 0.00 44.92 2.59
2971 3236 0.240945 CCCAAAGTAAGCAACGCCTG 59.759 55.000 0.00 0.00 0.00 4.85
2972 3237 0.893727 CCCCAAAGTAAGCAACGCCT 60.894 55.000 0.00 0.00 0.00 5.52
2974 3239 1.176619 ACCCCCAAAGTAAGCAACGC 61.177 55.000 0.00 0.00 0.00 4.84
2976 3241 0.966179 CCACCCCCAAAGTAAGCAAC 59.034 55.000 0.00 0.00 0.00 4.17
3001 3266 2.351726 GGTCGTAGTGGCATTCAATCAC 59.648 50.000 0.00 0.00 0.00 3.06
3002 3267 2.027653 TGGTCGTAGTGGCATTCAATCA 60.028 45.455 0.00 0.00 0.00 2.57
3003 3268 2.351726 GTGGTCGTAGTGGCATTCAATC 59.648 50.000 0.00 0.00 0.00 2.67
3021 3286 0.895530 TTAGCCCGAGAGACAAGTGG 59.104 55.000 0.00 0.00 0.00 4.00
3054 3319 2.269241 GGCTGGCTGGTGGAGTAC 59.731 66.667 0.00 0.00 0.00 2.73
3078 3348 1.626321 TGTTAGGCGTGGGAAATCAGA 59.374 47.619 0.00 0.00 0.00 3.27
3086 3356 2.173669 CAGCGATGTTAGGCGTGGG 61.174 63.158 0.00 0.00 0.00 4.61
3098 3368 3.506108 GCATCAACTGCCAGCGAT 58.494 55.556 0.00 0.00 45.66 4.58
3107 3377 1.913778 TGTTGGCTGATGCATCAACT 58.086 45.000 28.39 0.00 39.98 3.16
3114 3384 0.318955 GTGTGGTTGTTGGCTGATGC 60.319 55.000 0.00 0.00 38.76 3.91
3115 3385 0.314935 GGTGTGGTTGTTGGCTGATG 59.685 55.000 0.00 0.00 0.00 3.07
3120 3390 1.358759 CTTCGGTGTGGTTGTTGGC 59.641 57.895 0.00 0.00 0.00 4.52
3131 3402 1.273606 TCTTTGCTCTCTCCTTCGGTG 59.726 52.381 0.00 0.00 0.00 4.94
3132 3403 1.633774 TCTTTGCTCTCTCCTTCGGT 58.366 50.000 0.00 0.00 0.00 4.69
3134 3405 5.619625 AATTTTCTTTGCTCTCTCCTTCG 57.380 39.130 0.00 0.00 0.00 3.79
3137 3408 9.171877 CATACTTAATTTTCTTTGCTCTCTCCT 57.828 33.333 0.00 0.00 0.00 3.69
3140 3411 8.672815 GCTCATACTTAATTTTCTTTGCTCTCT 58.327 33.333 0.00 0.00 0.00 3.10
3141 3412 8.454106 TGCTCATACTTAATTTTCTTTGCTCTC 58.546 33.333 0.00 0.00 0.00 3.20
3142 3413 8.340618 TGCTCATACTTAATTTTCTTTGCTCT 57.659 30.769 0.00 0.00 0.00 4.09
3146 3417 8.948853 TCGTTGCTCATACTTAATTTTCTTTG 57.051 30.769 0.00 0.00 0.00 2.77
3155 3426 7.360861 CCAAACTGAATCGTTGCTCATACTTAA 60.361 37.037 0.00 0.00 0.00 1.85
3158 3429 4.393062 CCAAACTGAATCGTTGCTCATACT 59.607 41.667 0.00 0.00 0.00 2.12
3159 3430 4.154195 ACCAAACTGAATCGTTGCTCATAC 59.846 41.667 0.00 0.00 0.00 2.39
3160 3431 4.323417 ACCAAACTGAATCGTTGCTCATA 58.677 39.130 0.00 0.00 0.00 2.15
3161 3432 3.149196 ACCAAACTGAATCGTTGCTCAT 58.851 40.909 0.00 0.00 0.00 2.90
3162 3433 2.571212 ACCAAACTGAATCGTTGCTCA 58.429 42.857 0.00 0.00 0.00 4.26
3163 3434 3.003275 TCAACCAAACTGAATCGTTGCTC 59.997 43.478 0.00 0.00 35.03 4.26
3164 3435 2.948979 TCAACCAAACTGAATCGTTGCT 59.051 40.909 0.00 0.00 35.03 3.91
3165 3436 3.042887 GTCAACCAAACTGAATCGTTGC 58.957 45.455 0.00 0.00 35.03 4.17
3167 3459 2.621526 GGGTCAACCAAACTGAATCGTT 59.378 45.455 0.89 0.00 39.85 3.85
3170 3462 1.539827 CCGGGTCAACCAAACTGAATC 59.460 52.381 0.00 0.00 40.22 2.52
3189 3482 3.069443 TCACCACCTTTCAGCAAATTTCC 59.931 43.478 0.00 0.00 0.00 3.13
3276 3569 3.105659 GCTGATCGGAGCCAAAGC 58.894 61.111 5.48 0.00 40.32 3.51
3297 3590 3.670377 GGCAACCACGCAAGACCC 61.670 66.667 0.00 0.00 43.62 4.46
3299 3592 3.236618 GACGGCAACCACGCAAGAC 62.237 63.158 0.00 0.00 43.62 3.01
3300 3593 2.970324 GACGGCAACCACGCAAGA 60.970 61.111 0.00 0.00 43.62 3.02


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

AutoCloner maintained by Alex Coulton.