Multiple sequence alignment - TraesCS3A01G327900

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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 TraesCS3A01G327900 chr3A 100.000 8199 0 0 1 8199 572737754 572729556 0.000000e+00 15141.0
1 TraesCS3A01G327900 chr3A 81.154 589 41 27 916 1494 572746266 572745738 7.660000e-110 409.0
2 TraesCS3A01G327900 chr3A 87.500 72 7 2 385 456 165287929 165287860 1.900000e-11 82.4
3 TraesCS3A01G327900 chr3A 88.710 62 7 0 395 456 683188319 683188258 8.820000e-10 76.8
4 TraesCS3A01G327900 chr3D 97.542 3133 53 10 4731 7857 434049258 434046144 0.000000e+00 5337.0
5 TraesCS3A01G327900 chr3D 91.988 2259 71 43 2515 4726 434051508 434049313 0.000000e+00 3068.0
6 TraesCS3A01G327900 chr3D 90.221 2035 79 43 476 2466 434053538 434051580 0.000000e+00 2545.0
7 TraesCS3A01G327900 chr3D 90.405 469 32 4 1 460 434054074 434053610 9.100000e-169 604.0
8 TraesCS3A01G327900 chr3D 78.004 1032 116 53 916 1923 434067628 434066684 5.600000e-151 545.0
9 TraesCS3A01G327900 chr3D 91.765 340 16 7 7860 8199 434045745 434045418 5.800000e-126 462.0
10 TraesCS3A01G327900 chr3B 96.905 2940 78 9 4791 7724 567261565 567258633 0.000000e+00 4913.0
11 TraesCS3A01G327900 chr3B 92.312 2003 93 25 476 2466 567266001 567264048 0.000000e+00 2789.0
12 TraesCS3A01G327900 chr3B 88.279 2295 105 71 2519 4737 567263915 567261709 0.000000e+00 2597.0
13 TraesCS3A01G327900 chr3B 77.675 869 84 45 916 1759 567281119 567280336 5.880000e-116 429.0
14 TraesCS3A01G327900 chr3B 85.388 219 20 4 246 456 567266397 567266183 4.980000e-52 217.0
15 TraesCS3A01G327900 chr3B 95.536 112 5 0 7721 7832 567258582 567258471 6.540000e-41 180.0
16 TraesCS3A01G327900 chrUn 90.909 66 4 1 391 456 154694874 154694937 4.080000e-13 87.9
17 TraesCS3A01G327900 chr2A 88.000 75 6 3 384 458 550866146 550866075 1.470000e-12 86.1
18 TraesCS3A01G327900 chr2A 90.769 65 5 1 392 456 690525475 690525538 1.470000e-12 86.1
19 TraesCS3A01G327900 chr1D 89.394 66 5 1 391 456 398337798 398337861 1.900000e-11 82.4
20 TraesCS3A01G327900 chr6B 87.500 72 6 3 385 456 415874739 415874807 6.820000e-11 80.5


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 TraesCS3A01G327900 chr3A 572729556 572737754 8198 True 15141.0 15141 100.0000 1 8199 1 chr3A.!!$R2 8198
1 TraesCS3A01G327900 chr3A 572745738 572746266 528 True 409.0 409 81.1540 916 1494 1 chr3A.!!$R3 578
2 TraesCS3A01G327900 chr3D 434045418 434054074 8656 True 2403.2 5337 92.3842 1 8199 5 chr3D.!!$R2 8198
3 TraesCS3A01G327900 chr3D 434066684 434067628 944 True 545.0 545 78.0040 916 1923 1 chr3D.!!$R1 1007
4 TraesCS3A01G327900 chr3B 567258471 567266397 7926 True 2139.2 4913 91.6840 246 7832 5 chr3B.!!$R2 7586
5 TraesCS3A01G327900 chr3B 567280336 567281119 783 True 429.0 429 77.6750 916 1759 1 chr3B.!!$R1 843

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
355 364 0.867746 TGAAGCATTGTGTCGAGTGC 59.132 50.000 0.00 0.0 37.84 4.40 F
585 763 1.119635 CACAAATTGTCAACCGTGCG 58.880 50.000 0.00 0.0 0.00 5.34 F
604 782 1.135460 CGTCGAAGTACAGAACTCCCC 60.135 57.143 0.00 0.0 37.50 4.81 F
1460 1699 2.207501 CTCCTCTGCTGGGCCATGTT 62.208 60.000 6.72 0.0 0.00 2.71 F
2258 2556 0.040514 TCACTTGTCGCGCATTTTGG 60.041 50.000 8.75 0.0 0.00 3.28 F
3308 3747 0.035056 CCCCAGGCCAAACTAGTCAG 60.035 60.000 5.01 0.0 0.00 3.51 F
3375 3832 0.174845 GCCACACGCAGTATACCTCA 59.825 55.000 0.00 0.0 41.61 3.86 F
3462 3923 0.684805 TCTCTCTTTCTCCGCCCTCC 60.685 60.000 0.00 0.0 0.00 4.30 F
4575 5063 0.319383 CTGCTCTGCTTGTCTCGTGT 60.319 55.000 0.00 0.0 0.00 4.49 F
5091 5680 0.610232 AAGTCCAGTGCCCAATCTGC 60.610 55.000 0.00 0.0 0.00 4.26 F
6083 6675 0.521735 GGTAGAAAAAGGCCTGCACG 59.478 55.000 5.69 0.0 0.00 5.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1392 1619 0.100861 GGAAGGCTTACTCCTCGTCG 59.899 60.000 1.05 0.0 34.82 5.12 R
1474 1715 0.173708 GAGTTCGGATCGCCTTGAGT 59.826 55.000 0.00 0.0 0.00 3.41 R
1475 1716 0.528684 GGAGTTCGGATCGCCTTGAG 60.529 60.000 2.04 0.0 0.00 3.02 R
2673 3070 0.530744 CGCCACAGTTAGCTACAGGA 59.469 55.000 0.00 0.0 0.00 3.86 R
4196 4677 0.250124 AACGTCAAGATTCACCGGCA 60.250 50.000 0.00 0.0 0.00 5.69 R
4253 4735 1.330779 CGATATTCGCCGCTCTGACG 61.331 60.000 0.00 0.0 31.14 4.35 R
4329 4811 1.443802 TGACAAACATATTCGCCGCA 58.556 45.000 0.00 0.0 0.00 5.69 R
5447 6036 0.599991 TTGCACAGTGAGTACGGCAG 60.600 55.000 4.15 0.0 35.68 4.85 R
5459 6048 1.209128 AAGAACGTCGACTTGCACAG 58.791 50.000 14.70 0.0 0.00 3.66 R
6704 7296 1.146982 AGGGCTTTTCCAAGTTAGGCA 59.853 47.619 0.00 0.0 36.21 4.75 R
7857 8509 0.032813 ATGGGGCAGAACTTGATGGG 60.033 55.000 0.00 0.0 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
35 36 1.394917 GACGATGAGGACACATGTTGC 59.605 52.381 0.00 0.00 0.00 4.17
44 45 2.297033 GGACACATGTTGCTTTGGTGAT 59.703 45.455 0.00 0.00 33.82 3.06
54 55 6.155827 TGTTGCTTTGGTGATAAGTATTTGC 58.844 36.000 0.00 0.00 0.00 3.68
61 62 5.250200 TGGTGATAAGTATTTGCTTCCGTT 58.750 37.500 0.00 0.00 0.00 4.44
75 76 3.181500 GCTTCCGTTTCCATATTTTCGCT 60.181 43.478 0.00 0.00 0.00 4.93
85 86 7.548196 TTCCATATTTTCGCTCGTATTTTCT 57.452 32.000 0.00 0.00 0.00 2.52
93 94 2.222729 CGCTCGTATTTTCTGGAAACGG 60.223 50.000 6.31 0.89 38.41 4.44
125 126 1.559682 AGCTCCGCTTTCATCCCTAAA 59.440 47.619 0.00 0.00 33.89 1.85
133 134 5.588648 CCGCTTTCATCCCTAAATTTAGTGA 59.411 40.000 20.99 16.67 0.00 3.41
243 244 8.098286 TCAAAGTACGGGATCTGATAAGAAAAA 58.902 33.333 0.00 0.00 0.00 1.94
266 267 3.430218 CGATATCCTCGCCAATCTTCAAC 59.570 47.826 0.00 0.00 41.14 3.18
276 277 4.201851 CGCCAATCTTCAACAGACATAAGG 60.202 45.833 0.00 0.00 32.83 2.69
303 304 2.250921 TACCCCGTCCCATTGTAGAA 57.749 50.000 0.00 0.00 0.00 2.10
355 364 0.867746 TGAAGCATTGTGTCGAGTGC 59.132 50.000 0.00 0.00 37.84 4.40
424 433 9.066892 TCTGTAAAGAAACACAAGAGCATTTAT 57.933 29.630 0.00 0.00 0.00 1.40
461 470 3.550678 GTGATCTAAACGCTCTTTACGGG 59.449 47.826 0.00 0.00 34.00 5.28
462 471 3.194116 TGATCTAAACGCTCTTTACGGGT 59.806 43.478 0.00 0.00 34.00 5.28
464 473 2.297033 TCTAAACGCTCTTTACGGGTGT 59.703 45.455 0.00 0.00 34.00 4.16
466 475 3.323751 AAACGCTCTTTACGGGTGTAT 57.676 42.857 0.00 0.00 34.00 2.29
467 476 4.454728 AAACGCTCTTTACGGGTGTATA 57.545 40.909 0.00 0.00 34.00 1.47
469 478 5.772825 AACGCTCTTTACGGGTGTATATA 57.227 39.130 0.00 0.00 34.00 0.86
470 479 5.113502 ACGCTCTTTACGGGTGTATATAC 57.886 43.478 5.89 5.89 34.00 1.47
471 480 4.022849 ACGCTCTTTACGGGTGTATATACC 60.023 45.833 10.09 10.09 40.10 2.73
474 645 6.094603 CGCTCTTTACGGGTGTATATACCTAT 59.905 42.308 17.21 8.99 40.66 2.57
509 680 1.944709 ACGCAAATTATCGGTTAGGCC 59.055 47.619 0.00 0.00 0.00 5.19
571 749 5.045215 CCGTTGAGAACTACACTACACAAA 58.955 41.667 0.00 0.00 0.00 2.83
574 752 7.063456 CGTTGAGAACTACACTACACAAATTG 58.937 38.462 0.00 0.00 0.00 2.32
585 763 1.119635 CACAAATTGTCAACCGTGCG 58.880 50.000 0.00 0.00 0.00 5.34
603 781 1.731750 GCGTCGAAGTACAGAACTCCC 60.732 57.143 0.00 0.00 37.50 4.30
604 782 1.135460 CGTCGAAGTACAGAACTCCCC 60.135 57.143 0.00 0.00 37.50 4.81
627 805 4.227134 CGAGGTGATGCCCGAGGG 62.227 72.222 3.22 3.22 38.26 4.30
1460 1699 2.207501 CTCCTCTGCTGGGCCATGTT 62.208 60.000 6.72 0.00 0.00 2.71
1472 1713 4.101790 CATGTTGGCGTGCCCGTC 62.102 66.667 8.69 0.00 39.72 4.79
1521 1769 3.260483 CATCTCTCGTGCAGCCGC 61.260 66.667 0.00 0.00 39.24 6.53
1547 1795 2.569134 CGCTAGCTATCTCCCGCC 59.431 66.667 13.93 0.00 0.00 6.13
1550 1798 2.989824 TAGCTATCTCCCGCCGCC 60.990 66.667 0.00 0.00 0.00 6.13
1621 1873 2.352032 GGCCGTCTAGCTGGTCAGT 61.352 63.158 0.00 0.00 0.00 3.41
1661 1913 2.363788 TTATACATCCGCGATGCTCC 57.636 50.000 8.23 0.00 43.15 4.70
1763 2027 1.340017 TGCATAAACAGTGAGGCCTCC 60.340 52.381 29.95 20.23 0.00 4.30
1799 2078 1.741401 CATGCTTTCGCCACGAGGA 60.741 57.895 1.86 0.00 37.14 3.71
1800 2079 1.741770 ATGCTTTCGCCACGAGGAC 60.742 57.895 1.86 0.00 37.14 3.85
1801 2080 2.357034 GCTTTCGCCACGAGGACA 60.357 61.111 1.86 0.00 37.14 4.02
1802 2081 2.383527 GCTTTCGCCACGAGGACAG 61.384 63.158 1.86 0.00 37.14 3.51
1803 2082 1.738099 CTTTCGCCACGAGGACAGG 60.738 63.158 1.86 0.00 37.14 4.00
1853 2139 1.798735 CAGCATTGCTCCTTGACCG 59.201 57.895 8.54 0.00 36.40 4.79
1919 2208 1.082756 CTGCTTGTCGTTGGCGTTC 60.083 57.895 0.00 0.00 39.49 3.95
1920 2209 2.251371 GCTTGTCGTTGGCGTTCC 59.749 61.111 0.00 0.00 39.49 3.62
1921 2210 2.251642 GCTTGTCGTTGGCGTTCCT 61.252 57.895 0.00 0.00 39.49 3.36
1922 2211 1.569493 CTTGTCGTTGGCGTTCCTG 59.431 57.895 0.00 0.00 39.49 3.86
1923 2212 0.878523 CTTGTCGTTGGCGTTCCTGA 60.879 55.000 0.00 0.00 39.49 3.86
1924 2213 1.155424 TTGTCGTTGGCGTTCCTGAC 61.155 55.000 0.00 0.00 39.49 3.51
1941 2230 1.168714 GACCCTGAATGCAAGACCAC 58.831 55.000 0.00 0.00 0.00 4.16
1952 2241 1.581934 CAAGACCACTTCTCGTTGCA 58.418 50.000 0.00 0.00 33.70 4.08
2019 2309 2.957402 TTTGAGCTCCCAGTTCATGT 57.043 45.000 12.15 0.00 35.39 3.21
2044 2341 7.279090 GTCTTCTGCTAGGAATAGTTTCTTTCC 59.721 40.741 0.00 0.00 41.46 3.13
2076 2373 9.595823 TCCATAACTTATTCTCTTTTCTTACGG 57.404 33.333 0.00 0.00 0.00 4.02
2258 2556 0.040514 TCACTTGTCGCGCATTTTGG 60.041 50.000 8.75 0.00 0.00 3.28
2278 2576 1.098050 CACCAGCTTAATGGCCTGAC 58.902 55.000 3.32 0.00 44.80 3.51
2326 2624 4.909696 AATCTCTGACCTCACTATCACG 57.090 45.455 0.00 0.00 0.00 4.35
2328 2626 4.157849 TCTCTGACCTCACTATCACGAT 57.842 45.455 0.00 0.00 0.00 3.73
2418 2716 1.067212 CAGTGTAGGATGACCCGCTAC 59.933 57.143 0.00 0.00 40.87 3.58
2475 2810 3.555168 CGTGTTTCTTCCAAGCTAGGAGT 60.555 47.826 0.00 0.00 39.25 3.85
2488 2823 4.062991 AGCTAGGAGTAAACGTTTTGTGG 58.937 43.478 20.19 4.99 0.00 4.17
2502 2837 4.142902 CGTTTTGTGGCTCCAGTGTTATAG 60.143 45.833 0.00 0.00 0.00 1.31
2503 2838 2.691409 TGTGGCTCCAGTGTTATAGC 57.309 50.000 0.00 0.00 0.00 2.97
2504 2839 1.905894 TGTGGCTCCAGTGTTATAGCA 59.094 47.619 0.00 0.00 36.68 3.49
2510 2845 5.130311 TGGCTCCAGTGTTATAGCATTTCTA 59.870 40.000 0.00 0.00 36.68 2.10
2515 2850 8.833231 TCCAGTGTTATAGCATTTCTATAAGC 57.167 34.615 5.03 0.00 45.78 3.09
2517 2852 9.224267 CCAGTGTTATAGCATTTCTATAAGCAT 57.776 33.333 5.03 0.00 45.78 3.79
2596 2993 2.464157 AGTGCTGAACTAGAAGCCAC 57.536 50.000 0.00 4.48 37.36 5.01
2608 3005 0.109412 GAAGCCACACTGCATCTTGC 60.109 55.000 0.00 0.00 45.29 4.01
2614 3011 0.879765 ACACTGCATCTTGCTCTTGC 59.120 50.000 0.75 0.00 45.31 4.01
2636 3033 5.756347 TGCTATTTCACCGCGTAGATTTATT 59.244 36.000 4.92 0.00 0.00 1.40
2637 3034 6.924612 TGCTATTTCACCGCGTAGATTTATTA 59.075 34.615 4.92 0.00 0.00 0.98
2638 3035 7.601130 TGCTATTTCACCGCGTAGATTTATTAT 59.399 33.333 4.92 0.00 0.00 1.28
2639 3036 9.079833 GCTATTTCACCGCGTAGATTTATTATA 57.920 33.333 4.92 0.00 0.00 0.98
2647 3044 6.475727 CCGCGTAGATTTATTATATCCACTGG 59.524 42.308 4.92 0.00 0.00 4.00
2661 3058 0.593518 CACTGGCTAGTGCTCGATCG 60.594 60.000 17.85 9.36 46.93 3.69
2662 3059 1.659954 CTGGCTAGTGCTCGATCGC 60.660 63.158 11.09 0.00 39.59 4.58
2663 3060 2.069465 CTGGCTAGTGCTCGATCGCT 62.069 60.000 11.09 7.56 39.59 4.93
2666 3063 0.869068 GCTAGTGCTCGATCGCTCTA 59.131 55.000 11.09 6.90 35.57 2.43
2667 3064 1.264557 GCTAGTGCTCGATCGCTCTAA 59.735 52.381 11.09 0.00 36.09 2.10
2669 3066 1.384525 AGTGCTCGATCGCTCTAACT 58.615 50.000 11.09 6.59 32.51 2.24
2671 3068 1.095600 TGCTCGATCGCTCTAACTGT 58.904 50.000 11.09 0.00 0.00 3.55
2672 3069 1.064208 TGCTCGATCGCTCTAACTGTC 59.936 52.381 11.09 0.00 0.00 3.51
2673 3070 1.332375 GCTCGATCGCTCTAACTGTCT 59.668 52.381 11.09 0.00 0.00 3.41
2685 3082 5.449451 GCTCTAACTGTCTCCTGTAGCTAAC 60.449 48.000 0.00 0.00 0.00 2.34
2751 3148 1.685224 CCTGTTGCCTAGGCTTCCA 59.315 57.895 33.07 23.56 42.51 3.53
2759 3156 2.576191 TGCCTAGGCTTCCAAGTTATGT 59.424 45.455 33.07 0.00 42.51 2.29
2786 3192 2.749441 GCTTGCTCTGTCCCCTGC 60.749 66.667 0.00 0.00 0.00 4.85
2817 3225 6.627395 TTTTTCTCCATTTGCTCTACGAAA 57.373 33.333 0.00 0.00 0.00 3.46
2820 3228 5.084818 TCTCCATTTGCTCTACGAAATGA 57.915 39.130 0.00 0.00 40.53 2.57
3038 3471 1.674611 GCACAAGATCGACGACGGTG 61.675 60.000 7.55 7.61 40.21 4.94
3151 3584 1.308998 CATGGAATGGAAGTACGGCC 58.691 55.000 0.00 0.00 41.79 6.13
3177 3610 3.365265 CTTTGTCCCCACGCAGGC 61.365 66.667 0.00 0.00 35.39 4.85
3302 3741 1.153756 CAGTTCCCCAGGCCAAACT 59.846 57.895 5.01 3.54 32.34 2.66
3303 3742 0.404040 CAGTTCCCCAGGCCAAACTA 59.596 55.000 5.01 0.00 31.06 2.24
3304 3743 0.698818 AGTTCCCCAGGCCAAACTAG 59.301 55.000 5.01 0.00 30.47 2.57
3305 3744 0.404426 GTTCCCCAGGCCAAACTAGT 59.596 55.000 5.01 0.00 0.00 2.57
3306 3745 0.696501 TTCCCCAGGCCAAACTAGTC 59.303 55.000 5.01 0.00 0.00 2.59
3307 3746 0.474854 TCCCCAGGCCAAACTAGTCA 60.475 55.000 5.01 0.00 0.00 3.41
3308 3747 0.035056 CCCCAGGCCAAACTAGTCAG 60.035 60.000 5.01 0.00 0.00 3.51
3309 3748 0.984230 CCCAGGCCAAACTAGTCAGA 59.016 55.000 5.01 0.00 0.00 3.27
3310 3749 1.339151 CCCAGGCCAAACTAGTCAGAC 60.339 57.143 5.01 0.00 0.00 3.51
3372 3829 3.700961 CGCCACACGCAGTATACC 58.299 61.111 0.00 0.00 41.61 2.73
3373 3830 1.141019 CGCCACACGCAGTATACCT 59.859 57.895 0.00 0.00 41.61 3.08
3374 3831 0.870307 CGCCACACGCAGTATACCTC 60.870 60.000 0.00 0.00 41.61 3.85
3375 3832 0.174845 GCCACACGCAGTATACCTCA 59.825 55.000 0.00 0.00 41.61 3.86
3376 3833 1.802880 GCCACACGCAGTATACCTCAG 60.803 57.143 0.00 0.00 41.61 3.35
3460 3921 0.686112 CCTCTCTCTTTCTCCGCCCT 60.686 60.000 0.00 0.00 0.00 5.19
3461 3922 0.744281 CTCTCTCTTTCTCCGCCCTC 59.256 60.000 0.00 0.00 0.00 4.30
3462 3923 0.684805 TCTCTCTTTCTCCGCCCTCC 60.685 60.000 0.00 0.00 0.00 4.30
3463 3924 1.681486 CTCTCTTTCTCCGCCCTCCC 61.681 65.000 0.00 0.00 0.00 4.30
3464 3925 3.075005 TCTTTCTCCGCCCTCCCG 61.075 66.667 0.00 0.00 0.00 5.14
3508 3969 4.748798 CCTGGCCACCTCCCTCCT 62.749 72.222 0.00 0.00 0.00 3.69
3509 3970 3.086600 CTGGCCACCTCCCTCCTC 61.087 72.222 0.00 0.00 0.00 3.71
3510 3971 3.615811 TGGCCACCTCCCTCCTCT 61.616 66.667 0.00 0.00 0.00 3.69
3511 3972 2.766229 GGCCACCTCCCTCCTCTC 60.766 72.222 0.00 0.00 0.00 3.20
3512 3973 2.366570 GCCACCTCCCTCCTCTCT 59.633 66.667 0.00 0.00 0.00 3.10
3937 4415 1.730176 CGTGCGTGTTCTGTTTCTTG 58.270 50.000 0.00 0.00 0.00 3.02
4068 4549 3.414193 TCTCTCCGGCCGGTCCTA 61.414 66.667 41.57 23.38 36.47 2.94
4196 4677 2.547595 CCTGTTCCCACCCACCCAT 61.548 63.158 0.00 0.00 0.00 4.00
4209 4690 1.691219 ACCCATGCCGGTGAATCTT 59.309 52.632 1.90 0.00 33.77 2.40
4218 4700 1.463444 CCGGTGAATCTTGACGTTTCC 59.537 52.381 0.00 0.00 0.00 3.13
4320 4802 1.978542 CGTGTATCGCTACCCTATGC 58.021 55.000 0.00 0.00 0.00 3.14
4323 4805 3.128068 CGTGTATCGCTACCCTATGCATA 59.872 47.826 6.20 6.20 0.00 3.14
4325 4807 2.941453 ATCGCTACCCTATGCATACG 57.059 50.000 1.16 4.07 0.00 3.06
4327 4809 1.538512 TCGCTACCCTATGCATACGAC 59.461 52.381 1.16 0.00 0.00 4.34
4329 4811 1.893801 GCTACCCTATGCATACGACCT 59.106 52.381 1.16 0.00 0.00 3.85
4330 4812 2.352814 GCTACCCTATGCATACGACCTG 60.353 54.545 1.16 0.00 0.00 4.00
4331 4813 0.393077 ACCCTATGCATACGACCTGC 59.607 55.000 1.16 0.00 40.10 4.85
4332 4814 0.667487 CCCTATGCATACGACCTGCG 60.667 60.000 1.16 0.00 42.62 5.18
4333 4815 0.667487 CCTATGCATACGACCTGCGG 60.667 60.000 1.16 0.00 46.49 5.69
4334 4816 1.284982 CTATGCATACGACCTGCGGC 61.285 60.000 1.16 0.00 46.49 6.53
4336 4818 4.865761 GCATACGACCTGCGGCGA 62.866 66.667 12.98 0.00 46.49 5.54
4479 4962 5.639931 GGAGATTCCTTGGAATAGTATTCGC 59.360 44.000 14.17 9.68 32.53 4.70
4575 5063 0.319383 CTGCTCTGCTTGTCTCGTGT 60.319 55.000 0.00 0.00 0.00 4.49
4769 5310 2.810852 GTGCAGACTCCTCTTTTCCTTG 59.189 50.000 0.00 0.00 0.00 3.61
4770 5311 2.439507 TGCAGACTCCTCTTTTCCTTGT 59.560 45.455 0.00 0.00 0.00 3.16
4771 5312 2.810852 GCAGACTCCTCTTTTCCTTGTG 59.189 50.000 0.00 0.00 0.00 3.33
4854 5443 2.857152 GAGCAGCGTTGTAGATCAGAAG 59.143 50.000 0.00 0.00 0.00 2.85
5091 5680 0.610232 AAGTCCAGTGCCCAATCTGC 60.610 55.000 0.00 0.00 0.00 4.26
5447 6036 3.065925 GCAGAAATAATGAGTGTCCAGCC 59.934 47.826 0.00 0.00 0.00 4.85
5459 6048 2.125512 CCAGCCTGCCGTACTCAC 60.126 66.667 0.00 0.00 0.00 3.51
5531 6120 8.621532 TTATTGCAACCTTGTATCCAGATATC 57.378 34.615 0.00 0.00 0.00 1.63
5888 6480 2.730550 GCAAAAGCTACTGCCAATGT 57.269 45.000 8.44 0.00 40.80 2.71
6083 6675 0.521735 GGTAGAAAAAGGCCTGCACG 59.478 55.000 5.69 0.00 0.00 5.34
6341 6933 7.824289 TGATGAAAACAAGGAGGTACAATAGAG 59.176 37.037 0.00 0.00 0.00 2.43
6432 7024 7.346751 AGAAATTACTGAAAAACTGGAAGCA 57.653 32.000 0.00 0.00 37.60 3.91
6704 7296 5.634118 TCTTCCTCTTGATGGACAAACAAT 58.366 37.500 0.00 0.00 38.08 2.71
6779 7371 6.811665 CGACATCTTCTACAGGTGATTGTTTA 59.188 38.462 0.00 0.00 35.26 2.01
6791 7383 4.762251 GGTGATTGTTTACAAGCCTCTCTT 59.238 41.667 8.23 0.00 41.19 2.85
6886 7479 5.008415 CAGTTCATTGCTCTTCAGTTGTCTT 59.992 40.000 0.00 0.00 0.00 3.01
7015 7608 3.334583 TGGAAAGATTGAGGGAAGACG 57.665 47.619 0.00 0.00 0.00 4.18
7434 8028 9.959749 GTGAATTGAATTGGAAGTGTTAGTTTA 57.040 29.630 0.00 0.00 0.00 2.01
7529 8123 8.184848 GGAGCTAAAGTGGTCAAGAAATTATTC 58.815 37.037 0.00 0.00 36.30 1.75
7732 8384 9.760660 GATGATTTTTCACAAGTAGTATGTGTC 57.239 33.333 6.56 0.00 46.42 3.67
7809 8461 8.599774 CCTGTTACTTTGTTTTATTGTTGTTGG 58.400 33.333 0.00 0.00 0.00 3.77
7841 8493 2.437281 CTCCTTGTGCTCCAGGATGTAT 59.563 50.000 8.88 0.00 0.00 2.29
7846 8498 3.384168 TGTGCTCCAGGATGTATACCTT 58.616 45.455 0.00 0.00 35.35 3.50
7857 8509 5.045578 AGGATGTATACCTTCATGCATACCC 60.046 44.000 0.00 0.00 33.58 3.69
7858 8510 4.634012 TGTATACCTTCATGCATACCCC 57.366 45.455 0.00 0.00 0.00 4.95
7883 8931 0.333993 AGTTCTGCCCCATGCTCAAT 59.666 50.000 0.00 0.00 42.00 2.57
7889 8937 1.895707 CCCCATGCTCAATCTCGCC 60.896 63.158 0.00 0.00 0.00 5.54
7913 8961 2.358737 GCAGCCCGCTGTTGTAGT 60.359 61.111 17.51 0.00 45.24 2.73
7915 8963 1.868997 CAGCCCGCTGTTGTAGTTG 59.131 57.895 8.57 0.00 39.10 3.16
7916 8964 0.884704 CAGCCCGCTGTTGTAGTTGT 60.885 55.000 8.57 0.00 39.10 3.32
7917 8965 0.602905 AGCCCGCTGTTGTAGTTGTC 60.603 55.000 0.00 0.00 0.00 3.18
7931 8979 5.758924 TGTAGTTGTCGATTCTATCATCGG 58.241 41.667 3.42 0.00 45.16 4.18
7976 9024 7.099120 GGCAACAATAACAAGAGGAATCAATT 58.901 34.615 0.00 0.00 0.00 2.32
7977 9025 8.250332 GGCAACAATAACAAGAGGAATCAATTA 58.750 33.333 0.00 0.00 0.00 1.40
7978 9026 9.638239 GCAACAATAACAAGAGGAATCAATTAA 57.362 29.630 0.00 0.00 0.00 1.40
8009 9057 3.255642 GCAAAAGATAAGGTGGTGCAGAA 59.744 43.478 0.00 0.00 0.00 3.02
8118 9166 9.342308 GGATGGTAAGATTAAGTTCATCATGAA 57.658 33.333 0.00 0.00 33.32 2.57
8147 9195 3.355378 TCTAAGACGACCACGGGAATAA 58.645 45.455 0.00 0.00 44.46 1.40
8163 9211 6.071784 ACGGGAATAAAGAAATAACACAACCC 60.072 38.462 0.00 0.00 0.00 4.11
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
35 36 6.128007 ACGGAAGCAAATACTTATCACCAAAG 60.128 38.462 0.00 0.00 0.00 2.77
44 45 8.514330 AATATGGAAACGGAAGCAAATACTTA 57.486 30.769 0.00 0.00 0.00 2.24
54 55 4.588278 GAGCGAAAATATGGAAACGGAAG 58.412 43.478 0.00 0.00 0.00 3.46
61 62 7.406553 CAGAAAATACGAGCGAAAATATGGAA 58.593 34.615 0.00 0.00 0.00 3.53
75 76 3.936453 CCATCCGTTTCCAGAAAATACGA 59.064 43.478 5.01 0.00 31.33 3.43
85 86 3.609853 CTGAATTCTCCATCCGTTTCCA 58.390 45.455 7.05 0.00 0.00 3.53
110 111 6.677781 TCACTAAATTTAGGGATGAAAGCG 57.322 37.500 23.43 0.00 38.23 4.68
209 210 5.817816 CAGATCCCGTACTTTGAAGCTTAAT 59.182 40.000 0.00 0.00 0.00 1.40
210 211 5.046878 TCAGATCCCGTACTTTGAAGCTTAA 60.047 40.000 0.00 0.00 0.00 1.85
212 213 3.260884 TCAGATCCCGTACTTTGAAGCTT 59.739 43.478 0.00 0.00 0.00 3.74
213 214 2.832129 TCAGATCCCGTACTTTGAAGCT 59.168 45.455 0.00 0.00 0.00 3.74
225 226 7.063544 GGATATCGTTTTTCTTATCAGATCCCG 59.936 40.741 0.00 0.00 0.00 5.14
226 227 8.097662 AGGATATCGTTTTTCTTATCAGATCCC 58.902 37.037 0.00 0.00 0.00 3.85
266 267 5.065988 CGGGGTATTGTTTTCCTTATGTCTG 59.934 44.000 0.00 0.00 0.00 3.51
276 277 2.203470 TGGGACGGGGTATTGTTTTC 57.797 50.000 0.00 0.00 0.00 2.29
331 332 3.496130 ACTCGACACAATGCTTCAAGAAG 59.504 43.478 5.46 5.46 41.24 2.85
355 364 6.259167 TGCTTACATAAGTTTATAAGCACCCG 59.741 38.462 17.51 0.00 38.66 5.28
436 445 6.207213 CCGTAAAGAGCGTTTAGATCACTAT 58.793 40.000 0.00 0.00 37.82 2.12
466 475 9.927668 GCGTAGGGTTTTAAATACATAGGTATA 57.072 33.333 0.00 0.00 39.28 1.47
467 476 8.431222 TGCGTAGGGTTTTAAATACATAGGTAT 58.569 33.333 0.00 0.00 41.98 2.73
469 478 6.652053 TGCGTAGGGTTTTAAATACATAGGT 58.348 36.000 0.00 0.00 0.00 3.08
470 479 7.556733 TTGCGTAGGGTTTTAAATACATAGG 57.443 36.000 0.00 0.00 0.00 2.57
509 680 1.275291 TCTTCTAGGGTTTCAGGTGCG 59.725 52.381 0.00 0.00 0.00 5.34
571 749 0.876777 TTCGACGCACGGTTGACAAT 60.877 50.000 0.00 0.00 38.80 2.71
574 752 0.661187 TACTTCGACGCACGGTTGAC 60.661 55.000 3.02 0.00 38.80 3.18
585 763 1.891150 TGGGGAGTTCTGTACTTCGAC 59.109 52.381 0.00 0.00 37.17 4.20
771 969 4.226761 GTGCTGTGTTTTATTAGTGTGCC 58.773 43.478 0.00 0.00 0.00 5.01
1249 1468 1.341531 CCCCTTAGAGATACGCACAGG 59.658 57.143 0.00 0.00 0.00 4.00
1388 1615 2.278013 CTTACTCCTCGTCGCCGC 60.278 66.667 0.00 0.00 0.00 6.53
1389 1616 2.278013 GCTTACTCCTCGTCGCCG 60.278 66.667 0.00 0.00 0.00 6.46
1390 1617 1.946475 AAGGCTTACTCCTCGTCGCC 61.946 60.000 0.00 0.00 40.63 5.54
1391 1618 0.525882 GAAGGCTTACTCCTCGTCGC 60.526 60.000 0.00 0.00 34.82 5.19
1392 1619 0.100861 GGAAGGCTTACTCCTCGTCG 59.899 60.000 1.05 0.00 34.82 5.12
1393 1620 0.460722 GGGAAGGCTTACTCCTCGTC 59.539 60.000 9.79 0.00 34.82 4.20
1426 1665 3.803162 GAGAAGGGAGCAGGGGGC 61.803 72.222 0.00 0.00 45.30 5.80
1427 1666 3.093172 GGAGAAGGGAGCAGGGGG 61.093 72.222 0.00 0.00 0.00 5.40
1428 1667 2.041928 AGGAGAAGGGAGCAGGGG 59.958 66.667 0.00 0.00 0.00 4.79
1429 1668 1.002792 AGAGGAGAAGGGAGCAGGG 59.997 63.158 0.00 0.00 0.00 4.45
1430 1669 1.970352 GCAGAGGAGAAGGGAGCAGG 61.970 65.000 0.00 0.00 0.00 4.85
1460 1699 4.980805 GAGTTGACGGGCACGCCA 62.981 66.667 9.12 0.00 46.04 5.69
1471 1712 0.606096 TTCGGATCGCCTTGAGTTGA 59.394 50.000 0.00 0.00 0.00 3.18
1472 1713 0.721718 GTTCGGATCGCCTTGAGTTG 59.278 55.000 0.00 0.00 0.00 3.16
1473 1714 0.608640 AGTTCGGATCGCCTTGAGTT 59.391 50.000 0.00 0.00 0.00 3.01
1474 1715 0.173708 GAGTTCGGATCGCCTTGAGT 59.826 55.000 0.00 0.00 0.00 3.41
1475 1716 0.528684 GGAGTTCGGATCGCCTTGAG 60.529 60.000 2.04 0.00 0.00 3.02
1621 1873 5.957842 AAAATACCATCACTTTCGCTGAA 57.042 34.783 0.00 0.00 0.00 3.02
1678 1934 1.071605 AGAGCGAAACACGAGCAATC 58.928 50.000 0.00 0.00 45.77 2.67
1763 2027 1.007734 GCAAGCCATCATGATGCCG 60.008 57.895 27.24 16.92 37.49 5.69
1799 2078 2.584608 GCCGCTATGGTGTCCTGT 59.415 61.111 0.00 0.00 41.21 4.00
1800 2079 2.586079 CGCCGCTATGGTGTCCTG 60.586 66.667 0.00 0.00 43.63 3.86
1919 2208 1.457346 GTCTTGCATTCAGGGTCAGG 58.543 55.000 0.00 0.00 0.00 3.86
1920 2209 1.271543 TGGTCTTGCATTCAGGGTCAG 60.272 52.381 0.00 0.00 0.00 3.51
1921 2210 0.770499 TGGTCTTGCATTCAGGGTCA 59.230 50.000 0.00 0.00 0.00 4.02
1922 2211 1.168714 GTGGTCTTGCATTCAGGGTC 58.831 55.000 0.00 0.00 0.00 4.46
1923 2212 0.773644 AGTGGTCTTGCATTCAGGGT 59.226 50.000 0.00 0.00 0.00 4.34
1924 2213 1.815003 GAAGTGGTCTTGCATTCAGGG 59.185 52.381 0.00 0.00 33.64 4.45
1941 2230 3.856521 CAGTGACTCTATGCAACGAGAAG 59.143 47.826 18.96 6.95 0.00 2.85
1952 2241 8.251026 TCGTAATCAACAAATCAGTGACTCTAT 58.749 33.333 0.00 0.00 0.00 1.98
1991 2281 6.599244 TGAACTGGGAGCTCAAAATAATACTG 59.401 38.462 17.19 1.00 0.00 2.74
2019 2309 7.331791 GGAAAGAAACTATTCCTAGCAGAAGA 58.668 38.462 0.00 0.00 41.54 2.87
2258 2556 0.680921 TCAGGCCATTAAGCTGGTGC 60.681 55.000 5.01 0.00 38.63 5.01
2278 2576 1.534595 GCTCAAGAAGACTGCAACCTG 59.465 52.381 0.00 0.00 0.00 4.00
2326 2624 8.184304 AGTTATCTATCCTGTGGTGAACTATC 57.816 38.462 0.00 0.00 0.00 2.08
2328 2626 6.262496 CGAGTTATCTATCCTGTGGTGAACTA 59.738 42.308 0.00 0.00 0.00 2.24
2418 2716 3.710209 AAGAGGACCATGAAAGACAGG 57.290 47.619 0.00 0.00 0.00 4.00
2475 2810 2.356382 CACTGGAGCCACAAAACGTTTA 59.644 45.455 15.03 0.00 0.00 2.01
2488 2823 8.833231 TTATAGAAATGCTATAACACTGGAGC 57.167 34.615 0.00 0.00 43.65 4.70
2502 2837 8.786937 TCGAAAAATCATGCTTATAGAAATGC 57.213 30.769 0.00 0.00 0.00 3.56
2510 2845 9.941664 CAACTTCTATCGAAAAATCATGCTTAT 57.058 29.630 0.00 0.00 0.00 1.73
2515 2850 7.253552 GCAAGCAACTTCTATCGAAAAATCATG 60.254 37.037 0.00 0.00 0.00 3.07
2517 2852 6.072508 AGCAAGCAACTTCTATCGAAAAATCA 60.073 34.615 0.00 0.00 0.00 2.57
2524 2859 3.262420 GGAAGCAAGCAACTTCTATCGA 58.738 45.455 11.61 0.00 42.58 3.59
2608 3005 1.359848 ACGCGGTGAAATAGCAAGAG 58.640 50.000 12.47 0.00 0.00 2.85
2647 3044 0.869068 TAGAGCGATCGAGCACTAGC 59.131 55.000 21.57 0.00 38.84 3.42
2658 3055 2.729194 ACAGGAGACAGTTAGAGCGAT 58.271 47.619 0.00 0.00 0.00 4.58
2661 3058 3.020984 AGCTACAGGAGACAGTTAGAGC 58.979 50.000 0.00 0.00 31.31 4.09
2662 3059 5.883673 AGTTAGCTACAGGAGACAGTTAGAG 59.116 44.000 0.00 0.00 0.00 2.43
2663 3060 5.648526 CAGTTAGCTACAGGAGACAGTTAGA 59.351 44.000 0.00 0.00 0.00 2.10
2666 3063 4.021894 CACAGTTAGCTACAGGAGACAGTT 60.022 45.833 0.00 0.00 0.00 3.16
2667 3064 3.508012 CACAGTTAGCTACAGGAGACAGT 59.492 47.826 0.00 0.00 0.00 3.55
2669 3066 2.826128 CCACAGTTAGCTACAGGAGACA 59.174 50.000 0.00 0.00 0.00 3.41
2671 3068 1.825474 GCCACAGTTAGCTACAGGAGA 59.175 52.381 0.00 0.00 0.00 3.71
2672 3069 1.469940 CGCCACAGTTAGCTACAGGAG 60.470 57.143 0.00 0.00 0.00 3.69
2673 3070 0.530744 CGCCACAGTTAGCTACAGGA 59.469 55.000 0.00 0.00 0.00 3.86
2685 3082 0.868406 GAGGAAACAAGTCGCCACAG 59.132 55.000 0.00 0.00 0.00 3.66
2751 3148 7.175641 AGAGCAAGCTTATGTTTGACATAACTT 59.824 33.333 0.00 12.72 43.77 2.66
2759 3156 3.753272 GGACAGAGCAAGCTTATGTTTGA 59.247 43.478 12.97 0.00 36.66 2.69
2786 3192 3.930848 GCAAATGGAGAAAAAGCATCCAG 59.069 43.478 0.00 0.00 45.89 3.86
2817 3225 5.942826 GGAAAACTCATCTCTGTCCTTTCAT 59.057 40.000 0.00 0.00 0.00 2.57
2820 3228 4.657013 GGGAAAACTCATCTCTGTCCTTT 58.343 43.478 0.00 0.00 0.00 3.11
2914 3326 1.141881 CGTACTGCCTCATCGCCTT 59.858 57.895 0.00 0.00 0.00 4.35
3038 3471 1.623811 ACCACCCATCGTAGCCATATC 59.376 52.381 0.00 0.00 0.00 1.63
3120 3553 1.066002 CATTCCATGCCGCTCGATTTT 59.934 47.619 0.00 0.00 0.00 1.82
3177 3610 1.517257 CCTCCGACTGTAGCAAGCG 60.517 63.158 0.00 0.00 0.00 4.68
3302 3741 1.025113 CCGCGGTCTGAGTCTGACTA 61.025 60.000 24.20 0.00 33.75 2.59
3303 3742 2.336478 CCGCGGTCTGAGTCTGACT 61.336 63.158 24.20 10.66 33.75 3.41
3304 3743 2.179517 CCGCGGTCTGAGTCTGAC 59.820 66.667 19.50 19.02 0.00 3.51
3305 3744 2.282251 ACCGCGGTCTGAGTCTGA 60.282 61.111 28.70 0.00 0.00 3.27
3306 3745 2.126307 CACCGCGGTCTGAGTCTG 60.126 66.667 31.80 11.27 0.00 3.51
3307 3746 3.374402 CCACCGCGGTCTGAGTCT 61.374 66.667 31.80 0.00 0.00 3.24
3308 3747 3.343788 CTCCACCGCGGTCTGAGTC 62.344 68.421 32.01 0.00 35.57 3.36
3309 3748 3.374402 CTCCACCGCGGTCTGAGT 61.374 66.667 32.01 11.45 35.57 3.41
3310 3749 4.135153 CCTCCACCGCGGTCTGAG 62.135 72.222 32.85 32.85 35.57 3.35
3372 3829 1.004277 GTTGTGCTCGGTCGTCTGAG 61.004 60.000 13.38 13.38 46.60 3.35
3373 3830 1.007734 GTTGTGCTCGGTCGTCTGA 60.008 57.895 0.00 0.00 0.00 3.27
3374 3831 2.365068 CGTTGTGCTCGGTCGTCTG 61.365 63.158 0.00 0.00 0.00 3.51
3375 3832 2.050351 CGTTGTGCTCGGTCGTCT 60.050 61.111 0.00 0.00 0.00 4.18
3376 3833 3.764049 GCGTTGTGCTCGGTCGTC 61.764 66.667 0.00 0.00 41.73 4.20
3507 3968 1.340600 ACGACTGGAAGGGAGAGAGAG 60.341 57.143 0.00 0.00 39.30 3.20
3508 3969 0.699399 ACGACTGGAAGGGAGAGAGA 59.301 55.000 0.00 0.00 39.30 3.10
3509 3970 1.099689 GACGACTGGAAGGGAGAGAG 58.900 60.000 0.00 0.00 39.30 3.20
3510 3971 0.323542 GGACGACTGGAAGGGAGAGA 60.324 60.000 0.00 0.00 39.30 3.10
3511 3972 1.324005 GGGACGACTGGAAGGGAGAG 61.324 65.000 0.00 0.00 39.30 3.20
3512 3973 1.305046 GGGACGACTGGAAGGGAGA 60.305 63.158 0.00 0.00 39.30 3.71
3653 4123 2.423898 GGAGGAGGACGATGGCGAA 61.424 63.158 0.00 0.00 41.64 4.70
3937 4415 1.450312 CCGAATCTGCCAGACCCAC 60.450 63.158 0.00 0.00 0.00 4.61
4196 4677 0.250124 AACGTCAAGATTCACCGGCA 60.250 50.000 0.00 0.00 0.00 5.69
4218 4700 3.934391 GAGACCACCAGTTCCGGCG 62.934 68.421 0.00 0.00 0.00 6.46
4253 4735 1.330779 CGATATTCGCCGCTCTGACG 61.331 60.000 0.00 0.00 31.14 4.35
4329 4811 1.443802 TGACAAACATATTCGCCGCA 58.556 45.000 0.00 0.00 0.00 5.69
4330 4812 2.159572 AGTTGACAAACATATTCGCCGC 60.160 45.455 0.00 0.00 38.88 6.53
4331 4813 3.740044 AGTTGACAAACATATTCGCCG 57.260 42.857 0.00 0.00 38.88 6.46
4332 4814 5.933790 TGTTAGTTGACAAACATATTCGCC 58.066 37.500 0.00 0.00 38.88 5.54
4333 4815 6.599437 ACTGTTAGTTGACAAACATATTCGC 58.401 36.000 0.00 0.00 38.88 4.70
4334 4816 8.018677 AGACTGTTAGTTGACAAACATATTCG 57.981 34.615 0.00 0.00 38.88 3.34
4335 4817 9.813080 GAAGACTGTTAGTTGACAAACATATTC 57.187 33.333 0.00 0.00 38.88 1.75
4336 4818 8.784043 GGAAGACTGTTAGTTGACAAACATATT 58.216 33.333 0.00 0.00 38.88 1.28
4479 4962 3.367910 GCTTAGACAAGTGGGACTGAGAG 60.368 52.174 0.00 0.00 34.00 3.20
4723 5212 9.463443 ACATGAAACAAAATTAGAACAGCTAAC 57.537 29.630 0.00 0.00 41.64 2.34
4726 5215 6.421801 GCACATGAAACAAAATTAGAACAGCT 59.578 34.615 0.00 0.00 0.00 4.24
4727 5216 6.200665 TGCACATGAAACAAAATTAGAACAGC 59.799 34.615 0.00 0.00 0.00 4.40
4728 5217 7.648908 TCTGCACATGAAACAAAATTAGAACAG 59.351 33.333 0.00 0.00 0.00 3.16
4729 5218 7.434897 GTCTGCACATGAAACAAAATTAGAACA 59.565 33.333 0.00 0.00 0.00 3.18
4769 5310 5.811100 GCTGTACTAGTAGGGAAAATCACAC 59.189 44.000 1.87 0.00 0.00 3.82
4770 5311 5.482526 TGCTGTACTAGTAGGGAAAATCACA 59.517 40.000 1.87 0.00 0.00 3.58
4771 5312 5.974108 TGCTGTACTAGTAGGGAAAATCAC 58.026 41.667 1.87 0.00 0.00 3.06
4904 5493 8.737168 ACATAAAGCAGTAGCAATAGATCAAA 57.263 30.769 0.00 0.00 45.49 2.69
5447 6036 0.599991 TTGCACAGTGAGTACGGCAG 60.600 55.000 4.15 0.00 35.68 4.85
5459 6048 1.209128 AAGAACGTCGACTTGCACAG 58.791 50.000 14.70 0.00 0.00 3.66
5531 6120 3.875727 TCACCTCTTCCTCGTACTTATCG 59.124 47.826 0.00 0.00 0.00 2.92
5582 6171 7.530435 AGAGCTAAATGGGCCTAAATAAGAAT 58.470 34.615 4.53 0.00 0.00 2.40
5888 6480 4.787551 TCTCCTGTACTTCCTTGCAAAAA 58.212 39.130 0.00 0.00 0.00 1.94
6083 6675 3.591023 GTTCTAGCAGGAGAAGGTGTTC 58.409 50.000 0.00 0.00 36.13 3.18
6432 7024 2.733956 TGAAGTGTCCCTTTTGCAACT 58.266 42.857 0.00 0.00 32.03 3.16
6704 7296 1.146982 AGGGCTTTTCCAAGTTAGGCA 59.853 47.619 0.00 0.00 36.21 4.75
6779 7371 6.122964 AGTTTAAAACTGAAGAGAGGCTTGT 58.877 36.000 0.00 0.00 41.01 3.16
6791 7383 4.161377 AGCTGCCCAAAAGTTTAAAACTGA 59.839 37.500 0.00 0.00 41.91 3.41
7015 7608 2.147150 GTGAAGGTCCAACAGAAGCTC 58.853 52.381 0.00 0.00 0.00 4.09
7529 8123 4.539870 AGAGCATGAACATGAAAACAACG 58.460 39.130 17.40 0.00 41.20 4.10
7608 8203 5.389778 CAATTGTAATTGCGTGTAGAAGCA 58.610 37.500 0.00 0.00 39.29 3.91
7638 8233 5.870978 GTGCTGCATGGTCTTTTTATTTGAT 59.129 36.000 5.27 0.00 0.00 2.57
7673 8269 4.564372 CCTCTCACAGATTTACATCACGTG 59.436 45.833 9.94 9.94 36.83 4.49
7674 8270 4.748892 CCTCTCACAGATTTACATCACGT 58.251 43.478 0.00 0.00 0.00 4.49
7677 8273 4.467438 TGAGCCTCTCACAGATTTACATCA 59.533 41.667 0.00 0.00 35.39 3.07
7687 8283 5.608449 TCATCAATAATGAGCCTCTCACAG 58.392 41.667 0.00 0.00 43.63 3.66
7732 8384 6.463049 CCAATAGTTGAGGTACCTACTCCATG 60.463 46.154 18.73 15.26 34.06 3.66
7841 8493 1.900254 TGGGGGTATGCATGAAGGTA 58.100 50.000 10.16 0.00 0.00 3.08
7846 8498 1.852309 ACTTGATGGGGGTATGCATGA 59.148 47.619 10.16 0.00 0.00 3.07
7857 8509 0.032813 ATGGGGCAGAACTTGATGGG 60.033 55.000 0.00 0.00 0.00 4.00
7858 8510 1.108776 CATGGGGCAGAACTTGATGG 58.891 55.000 0.00 0.00 0.00 3.51
7883 8931 4.704833 GCTGCTTGTGGGGCGAGA 62.705 66.667 0.00 0.00 0.00 4.04
7917 8965 5.596268 TTTCATTGCCGATGATAGAATCG 57.404 39.130 0.00 0.00 44.01 3.34
7931 8979 3.120442 GCCAAACTTCAGCATTTCATTGC 60.120 43.478 0.00 0.00 43.09 3.56
7933 8981 4.339872 TGCCAAACTTCAGCATTTCATT 57.660 36.364 0.00 0.00 0.00 2.57
7935 8983 3.118847 TGTTGCCAAACTTCAGCATTTCA 60.119 39.130 0.00 0.00 37.19 2.69
7937 8985 3.540314 TGTTGCCAAACTTCAGCATTT 57.460 38.095 0.00 0.00 37.19 2.32
7943 8991 6.214191 TCTTGTTATTGTTGCCAAACTTCA 57.786 33.333 0.00 0.00 37.19 3.02
7977 9025 9.646522 ACCACCTTATCTTTTGCATCTATTATT 57.353 29.630 0.00 0.00 0.00 1.40
7978 9026 9.071276 CACCACCTTATCTTTTGCATCTATTAT 57.929 33.333 0.00 0.00 0.00 1.28
8118 9166 4.499865 CCGTGGTCGTCTTAGATCATGAAT 60.500 45.833 0.00 0.00 39.89 2.57
8119 9167 3.181490 CCGTGGTCGTCTTAGATCATGAA 60.181 47.826 0.00 0.00 39.89 2.57
8120 9168 2.357952 CCGTGGTCGTCTTAGATCATGA 59.642 50.000 0.00 0.00 39.89 3.07
8121 9169 2.543861 CCCGTGGTCGTCTTAGATCATG 60.544 54.545 0.00 0.00 37.85 3.07
8122 9170 1.681793 CCCGTGGTCGTCTTAGATCAT 59.318 52.381 0.00 0.00 33.38 2.45
8123 9171 1.100510 CCCGTGGTCGTCTTAGATCA 58.899 55.000 0.00 0.00 35.01 2.92
8124 9172 1.386533 TCCCGTGGTCGTCTTAGATC 58.613 55.000 0.00 0.00 35.01 2.75
8125 9173 1.843368 TTCCCGTGGTCGTCTTAGAT 58.157 50.000 0.00 0.00 35.01 1.98
8133 9181 5.352016 TGTTATTTCTTTATTCCCGTGGTCG 59.648 40.000 0.00 0.00 0.00 4.79
8136 9184 6.503589 TGTGTTATTTCTTTATTCCCGTGG 57.496 37.500 0.00 0.00 0.00 4.94
8137 9185 6.804783 GGTTGTGTTATTTCTTTATTCCCGTG 59.195 38.462 0.00 0.00 0.00 4.94
8147 9195 7.216494 CCATTTGAAGGGTTGTGTTATTTCTT 58.784 34.615 0.00 0.00 0.00 2.52
8163 9211 4.463891 AGCTGTTCAATACCCCATTTGAAG 59.536 41.667 0.00 0.00 41.20 3.02


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

AutoCloner maintained by Alex Coulton.