Multiple sequence alignment - TraesCS7B01G310700

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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 TraesCS7B01G310700 chr7B 100.000 3491 0 0 1 3491 555710810 555707320 0.000000e+00 6447.0
1 TraesCS7B01G310700 chr7D 92.308 2587 92 33 490 3000 521895805 521893250 0.000000e+00 3576.0
2 TraesCS7B01G310700 chr7D 92.308 403 20 2 1 392 521899892 521899490 2.350000e-156 562.0
3 TraesCS7B01G310700 chr7D 81.674 442 26 25 3057 3451 521893240 521892807 2.020000e-82 316.0
4 TraesCS7B01G310700 chr7D 77.830 424 76 16 2012 2426 198501913 198502327 2.690000e-61 246.0
5 TraesCS7B01G310700 chr7D 90.278 72 6 1 387 458 521895975 521895905 3.710000e-15 93.5
6 TraesCS7B01G310700 chr7A 91.979 2431 102 49 613 2996 602231183 602233567 0.000000e+00 3323.0
7 TraesCS7B01G310700 chr7A 80.332 361 30 20 27 352 602230522 602230876 5.830000e-58 235.0
8 TraesCS7B01G310700 chr7A 86.957 115 5 3 3054 3158 602233571 602233685 1.700000e-23 121.0
9 TraesCS7B01G310700 chr2D 95.228 482 23 0 1520 2001 80653612 80654093 0.000000e+00 763.0
10 TraesCS7B01G310700 chr6A 78.764 1149 203 29 1346 2478 71066744 71067867 0.000000e+00 732.0
11 TraesCS7B01G310700 chr6D 78.360 1146 213 27 1346 2478 56551986 56553109 0.000000e+00 710.0
12 TraesCS7B01G310700 chr6B 78.272 1146 214 26 1346 2478 127039793 127040916 0.000000e+00 704.0
13 TraesCS7B01G310700 chr6B 90.566 53 4 1 2130 2181 68388652 68388600 6.250000e-08 69.4
14 TraesCS7B01G310700 chr1D 92.464 491 24 5 1520 2010 344130544 344130067 0.000000e+00 689.0
15 TraesCS7B01G310700 chr3A 83.929 112 16 2 2120 2230 12440807 12440917 4.770000e-19 106.0
16 TraesCS7B01G310700 chr3A 78.916 166 26 9 2104 2266 12960953 12961112 1.710000e-18 104.0
17 TraesCS7B01G310700 chr4D 94.545 55 3 0 98 152 37269284 37269338 6.210000e-13 86.1


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 TraesCS7B01G310700 chr7B 555707320 555710810 3490 True 6447.000000 6447 100.000000 1 3491 1 chr7B.!!$R1 3490
1 TraesCS7B01G310700 chr7D 521892807 521899892 7085 True 1136.875000 3576 89.142000 1 3451 4 chr7D.!!$R1 3450
2 TraesCS7B01G310700 chr7A 602230522 602233685 3163 False 1226.333333 3323 86.422667 27 3158 3 chr7A.!!$F1 3131
3 TraesCS7B01G310700 chr6A 71066744 71067867 1123 False 732.000000 732 78.764000 1346 2478 1 chr6A.!!$F1 1132
4 TraesCS7B01G310700 chr6D 56551986 56553109 1123 False 710.000000 710 78.360000 1346 2478 1 chr6D.!!$F1 1132
5 TraesCS7B01G310700 chr6B 127039793 127040916 1123 False 704.000000 704 78.272000 1346 2478 1 chr6B.!!$F1 1132

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
605 4260 0.039346 GGGATCCTAACGAGTAGCGC 60.039 60.0 12.58 0.0 46.04 5.92 F
1161 4848 0.177604 CTCGCTCAATTCCCTCAGCT 59.822 55.0 0.00 0.0 0.00 4.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1977 5672 0.397675 TGCGGGAGATGATGAGGAGT 60.398 55.0 0.00 0.0 0.0 3.85 R
3038 6784 0.037697 TCCAATGCTCGCGTACAAGT 60.038 50.0 5.77 0.0 0.0 3.16 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
200 231 0.744771 GTCAATCCCTTCTGGTCGCC 60.745 60.000 0.00 0.00 34.77 5.54
392 443 3.314635 ACGAACACACTTCTCGTCTTAGT 59.685 43.478 0.00 0.00 41.76 2.24
393 444 4.201990 ACGAACACACTTCTCGTCTTAGTT 60.202 41.667 0.00 0.00 41.76 2.24
394 445 4.738740 CGAACACACTTCTCGTCTTAGTTT 59.261 41.667 0.00 0.00 0.00 2.66
395 446 5.331607 CGAACACACTTCTCGTCTTAGTTTG 60.332 44.000 0.00 0.00 0.00 2.93
396 447 4.369182 ACACACTTCTCGTCTTAGTTTGG 58.631 43.478 0.00 0.00 0.00 3.28
397 448 4.098960 ACACACTTCTCGTCTTAGTTTGGA 59.901 41.667 0.00 0.00 0.00 3.53
398 449 5.047847 CACACTTCTCGTCTTAGTTTGGAA 58.952 41.667 0.00 0.00 0.00 3.53
399 450 5.048507 ACACTTCTCGTCTTAGTTTGGAAC 58.951 41.667 0.00 0.00 0.00 3.62
400 451 5.047847 CACTTCTCGTCTTAGTTTGGAACA 58.952 41.667 0.00 0.00 0.00 3.18
401 452 5.048507 ACTTCTCGTCTTAGTTTGGAACAC 58.951 41.667 0.00 0.00 39.29 3.32
402 453 4.931661 TCTCGTCTTAGTTTGGAACACT 57.068 40.909 0.00 0.00 39.29 3.55
404 455 3.986277 TCGTCTTAGTTTGGAACACTCC 58.014 45.455 0.00 0.00 39.29 3.85
405 456 2.729882 CGTCTTAGTTTGGAACACTCCG 59.270 50.000 0.00 0.00 45.85 4.63
472 4114 0.249531 TAACCGCGTCACTTGCAAGA 60.250 50.000 32.50 9.03 0.00 3.02
474 4116 2.671177 CCGCGTCACTTGCAAGAGG 61.671 63.158 32.50 22.19 0.00 3.69
490 4132 4.134623 GGCAACTGTCGGTGTGAA 57.865 55.556 0.00 0.00 0.00 3.18
495 4137 2.276201 CAACTGTCGGTGTGAAGTGAA 58.724 47.619 0.00 0.00 0.00 3.18
496 4138 2.225068 ACTGTCGGTGTGAAGTGAAG 57.775 50.000 0.00 0.00 0.00 3.02
497 4139 1.754803 ACTGTCGGTGTGAAGTGAAGA 59.245 47.619 0.00 0.00 0.00 2.87
498 4140 2.223829 ACTGTCGGTGTGAAGTGAAGAG 60.224 50.000 0.00 0.00 0.00 2.85
501 4143 3.118920 TGTCGGTGTGAAGTGAAGAGAAA 60.119 43.478 0.00 0.00 0.00 2.52
545 4200 1.187567 GGCCTTGGAAGTTGCCATGT 61.188 55.000 0.00 0.00 43.46 3.21
564 4219 1.831389 TTGTTTCAGAGCGCGAGTGC 61.831 55.000 12.10 0.00 37.91 4.40
576 4231 1.878373 GCGAGTGCGAAATAAACACC 58.122 50.000 0.00 0.00 40.82 4.16
577 4232 1.463444 GCGAGTGCGAAATAAACACCT 59.537 47.619 0.00 0.00 40.82 4.00
578 4233 2.669434 GCGAGTGCGAAATAAACACCTA 59.331 45.455 0.00 0.00 40.82 3.08
580 4235 3.676172 CGAGTGCGAAATAAACACCTACA 59.324 43.478 0.00 0.00 40.82 2.74
581 4236 4.201589 CGAGTGCGAAATAAACACCTACAG 60.202 45.833 0.00 0.00 40.82 2.74
582 4237 4.890088 AGTGCGAAATAAACACCTACAGA 58.110 39.130 0.00 0.00 34.83 3.41
583 4238 4.689345 AGTGCGAAATAAACACCTACAGAC 59.311 41.667 0.00 0.00 34.83 3.51
584 4239 3.676172 TGCGAAATAAACACCTACAGACG 59.324 43.478 0.00 0.00 0.00 4.18
585 4240 3.922240 GCGAAATAAACACCTACAGACGA 59.078 43.478 0.00 0.00 0.00 4.20
586 4241 4.031426 GCGAAATAAACACCTACAGACGAG 59.969 45.833 0.00 0.00 0.00 4.18
588 4243 4.467198 AATAAACACCTACAGACGAGGG 57.533 45.455 0.00 0.00 38.52 4.30
591 4246 1.765230 ACACCTACAGACGAGGGATC 58.235 55.000 0.00 0.00 38.52 3.36
592 4247 1.033574 CACCTACAGACGAGGGATCC 58.966 60.000 1.92 1.92 38.52 3.36
593 4248 0.927767 ACCTACAGACGAGGGATCCT 59.072 55.000 12.58 0.00 38.52 3.24
595 4250 2.512896 ACCTACAGACGAGGGATCCTAA 59.487 50.000 12.58 0.00 38.52 2.69
596 4251 2.885894 CCTACAGACGAGGGATCCTAAC 59.114 54.545 12.58 2.63 31.76 2.34
597 4252 1.390565 ACAGACGAGGGATCCTAACG 58.609 55.000 12.58 16.31 31.76 3.18
598 4253 1.064906 ACAGACGAGGGATCCTAACGA 60.065 52.381 23.81 0.00 31.76 3.85
599 4254 1.604755 CAGACGAGGGATCCTAACGAG 59.395 57.143 23.81 13.59 31.76 4.18
600 4255 1.212441 AGACGAGGGATCCTAACGAGT 59.788 52.381 23.81 12.08 31.76 4.18
601 4256 2.437281 AGACGAGGGATCCTAACGAGTA 59.563 50.000 23.81 0.00 31.76 2.59
602 4257 2.807392 GACGAGGGATCCTAACGAGTAG 59.193 54.545 23.81 6.26 31.76 2.57
603 4258 1.536331 CGAGGGATCCTAACGAGTAGC 59.464 57.143 12.58 0.00 31.76 3.58
604 4259 1.536331 GAGGGATCCTAACGAGTAGCG 59.464 57.143 12.58 0.00 39.25 4.26
605 4260 0.039346 GGGATCCTAACGAGTAGCGC 60.039 60.000 12.58 0.00 46.04 5.92
608 4263 1.793134 ATCCTAACGAGTAGCGCGGG 61.793 60.000 8.83 0.00 46.04 6.13
628 4283 0.179000 AGCTTTATCTGAGTGGGCGG 59.821 55.000 0.00 0.00 0.00 6.13
776 4458 3.284449 GAACCACACCCACCACGC 61.284 66.667 0.00 0.00 0.00 5.34
815 4497 2.203280 CGAGCCCACCAACCAACA 60.203 61.111 0.00 0.00 0.00 3.33
931 4613 3.420606 CTGTCGCTGCTGTGGCTG 61.421 66.667 10.19 5.81 39.59 4.85
932 4614 4.240103 TGTCGCTGCTGTGGCTGT 62.240 61.111 10.19 0.00 39.19 4.40
933 4615 3.720193 GTCGCTGCTGTGGCTGTG 61.720 66.667 1.02 0.00 45.15 3.66
982 4669 3.402681 CACCTCCGCCTCCACCAT 61.403 66.667 0.00 0.00 0.00 3.55
1143 4830 1.129058 GTACGTCCATCCCCATTCCT 58.871 55.000 0.00 0.00 0.00 3.36
1159 4846 0.826715 TCCTCGCTCAATTCCCTCAG 59.173 55.000 0.00 0.00 0.00 3.35
1161 4848 0.177604 CTCGCTCAATTCCCTCAGCT 59.822 55.000 0.00 0.00 0.00 4.24
1174 4861 4.598894 CAGCTGCCGATCCCTCCG 62.599 72.222 0.00 0.00 0.00 4.63
1581 5276 0.764369 TCTGCACCAGGAACCACTCT 60.764 55.000 0.00 0.00 31.51 3.24
1743 5438 2.617274 GCTGGACAAGTTCACGCCC 61.617 63.158 0.00 0.00 0.00 6.13
2019 5714 3.006728 TCCCGGCGGTTCCTGAAT 61.007 61.111 26.32 0.00 0.00 2.57
2442 6137 2.507992 CTCGACCTCGCCAAGCTG 60.508 66.667 0.00 0.00 39.60 4.24
2484 6191 4.016790 AGCCTCCTGCCCTCCTCA 62.017 66.667 0.00 0.00 42.71 3.86
2486 6193 3.465403 CCTCCTGCCCTCCTCACG 61.465 72.222 0.00 0.00 0.00 4.35
2502 6209 0.523519 CACGCTGACACTGAGCTCTA 59.476 55.000 16.19 0.24 34.03 2.43
2837 6568 4.737855 TCCATCACTTTACTGCTCTACC 57.262 45.455 0.00 0.00 0.00 3.18
2891 6622 2.225091 TGTGATGCTTTTCTGGTCCCAT 60.225 45.455 0.00 0.00 0.00 4.00
2897 6628 3.181434 TGCTTTTCTGGTCCCATACTTGT 60.181 43.478 0.00 0.00 0.00 3.16
2902 6633 2.107378 TCTGGTCCCATACTTGTTGCAA 59.893 45.455 0.00 0.00 0.00 4.08
2928 6659 0.776810 TGCCCCCTCATTCTCAACAA 59.223 50.000 0.00 0.00 0.00 2.83
2933 6664 3.009033 CCCCCTCATTCTCAACAACACTA 59.991 47.826 0.00 0.00 0.00 2.74
2976 6721 2.618709 AGTTTCGGAGGCTTCAACTTTG 59.381 45.455 0.00 0.00 0.00 2.77
2979 6724 1.946768 TCGGAGGCTTCAACTTTGTTG 59.053 47.619 0.00 4.25 0.00 3.33
2996 6742 4.647424 TGTTGATGTTTTGGACCAGTTC 57.353 40.909 0.00 0.00 0.00 3.01
3000 6746 2.818751 TGTTTTGGACCAGTTCAGGT 57.181 45.000 0.00 0.00 46.82 4.00
3001 6747 3.935818 TGTTTTGGACCAGTTCAGGTA 57.064 42.857 0.00 0.00 43.38 3.08
3003 6749 3.146847 GTTTTGGACCAGTTCAGGTAGG 58.853 50.000 0.00 0.00 43.38 3.18
3004 6750 1.358152 TTGGACCAGTTCAGGTAGGG 58.642 55.000 0.00 0.00 43.38 3.53
3006 6752 1.602771 GACCAGTTCAGGTAGGGGC 59.397 63.158 0.00 0.00 43.38 5.80
3007 6753 0.910088 GACCAGTTCAGGTAGGGGCT 60.910 60.000 0.00 0.00 43.38 5.19
3008 6754 0.910088 ACCAGTTCAGGTAGGGGCTC 60.910 60.000 0.00 0.00 40.98 4.70
3009 6755 0.909610 CCAGTTCAGGTAGGGGCTCA 60.910 60.000 0.00 0.00 0.00 4.26
3010 6756 0.984230 CAGTTCAGGTAGGGGCTCAA 59.016 55.000 0.00 0.00 0.00 3.02
3011 6757 0.984995 AGTTCAGGTAGGGGCTCAAC 59.015 55.000 0.00 0.00 0.00 3.18
3012 6758 0.984995 GTTCAGGTAGGGGCTCAACT 59.015 55.000 0.00 0.00 0.00 3.16
3013 6759 2.185387 GTTCAGGTAGGGGCTCAACTA 58.815 52.381 0.00 0.00 0.00 2.24
3014 6760 2.570302 GTTCAGGTAGGGGCTCAACTAA 59.430 50.000 0.00 0.00 0.00 2.24
3015 6761 3.130734 TCAGGTAGGGGCTCAACTAAT 57.869 47.619 0.00 0.00 0.00 1.73
3016 6762 2.771943 TCAGGTAGGGGCTCAACTAATG 59.228 50.000 0.00 0.00 0.00 1.90
3017 6763 2.771943 CAGGTAGGGGCTCAACTAATGA 59.228 50.000 0.00 0.00 36.38 2.57
3018 6764 3.392616 CAGGTAGGGGCTCAACTAATGAT 59.607 47.826 0.00 0.00 37.44 2.45
3019 6765 4.047883 AGGTAGGGGCTCAACTAATGATT 58.952 43.478 0.00 0.00 37.44 2.57
3020 6766 4.478686 AGGTAGGGGCTCAACTAATGATTT 59.521 41.667 0.00 0.00 37.44 2.17
3021 6767 4.822350 GGTAGGGGCTCAACTAATGATTTC 59.178 45.833 0.00 0.00 37.44 2.17
3022 6768 3.545703 AGGGGCTCAACTAATGATTTCG 58.454 45.455 0.00 0.00 37.44 3.46
3023 6769 2.618709 GGGGCTCAACTAATGATTTCGG 59.381 50.000 0.00 0.00 37.44 4.30
3024 6770 3.541632 GGGCTCAACTAATGATTTCGGA 58.458 45.455 0.00 0.00 37.44 4.55
3025 6771 3.312697 GGGCTCAACTAATGATTTCGGAC 59.687 47.826 0.00 0.00 37.44 4.79
3026 6772 3.312697 GGCTCAACTAATGATTTCGGACC 59.687 47.826 0.00 0.00 37.44 4.46
3027 6773 3.938963 GCTCAACTAATGATTTCGGACCA 59.061 43.478 0.00 0.00 37.44 4.02
3028 6774 4.034510 GCTCAACTAATGATTTCGGACCAG 59.965 45.833 0.00 0.00 37.44 4.00
3029 6775 5.160607 TCAACTAATGATTTCGGACCAGT 57.839 39.130 0.00 0.00 31.50 4.00
3030 6776 5.556915 TCAACTAATGATTTCGGACCAGTT 58.443 37.500 0.00 0.00 31.50 3.16
3031 6777 5.411361 TCAACTAATGATTTCGGACCAGTTG 59.589 40.000 7.91 7.91 41.74 3.16
3032 6778 5.160607 ACTAATGATTTCGGACCAGTTGA 57.839 39.130 0.00 0.00 0.00 3.18
3033 6779 5.178797 ACTAATGATTTCGGACCAGTTGAG 58.821 41.667 0.00 0.00 0.00 3.02
3034 6780 2.472695 TGATTTCGGACCAGTTGAGG 57.527 50.000 0.00 0.00 0.00 3.86
3035 6781 1.974957 TGATTTCGGACCAGTTGAGGA 59.025 47.619 0.00 0.00 0.00 3.71
3036 6782 2.028112 TGATTTCGGACCAGTTGAGGAG 60.028 50.000 0.00 0.00 0.00 3.69
3037 6783 0.685097 TTTCGGACCAGTTGAGGAGG 59.315 55.000 0.00 0.00 0.00 4.30
3038 6784 0.178944 TTCGGACCAGTTGAGGAGGA 60.179 55.000 0.00 0.00 0.00 3.71
3039 6785 0.898789 TCGGACCAGTTGAGGAGGAC 60.899 60.000 0.00 0.00 0.00 3.85
3040 6786 0.900647 CGGACCAGTTGAGGAGGACT 60.901 60.000 0.00 0.00 0.00 3.85
3041 6787 1.353091 GGACCAGTTGAGGAGGACTT 58.647 55.000 0.00 0.00 0.00 3.01
3042 6788 1.002544 GGACCAGTTGAGGAGGACTTG 59.997 57.143 0.00 0.00 0.00 3.16
3043 6789 1.694696 GACCAGTTGAGGAGGACTTGT 59.305 52.381 0.00 0.00 0.00 3.16
3044 6790 2.897969 GACCAGTTGAGGAGGACTTGTA 59.102 50.000 0.00 0.00 0.00 2.41
3045 6791 2.633481 ACCAGTTGAGGAGGACTTGTAC 59.367 50.000 0.00 0.00 0.00 2.90
3046 6792 2.352814 CCAGTTGAGGAGGACTTGTACG 60.353 54.545 0.00 0.00 0.00 3.67
3047 6793 1.272769 AGTTGAGGAGGACTTGTACGC 59.727 52.381 0.00 0.00 0.00 4.42
3048 6794 0.242825 TTGAGGAGGACTTGTACGCG 59.757 55.000 3.53 3.53 0.00 6.01
3049 6795 0.607217 TGAGGAGGACTTGTACGCGA 60.607 55.000 15.93 0.00 0.00 5.87
3050 6796 0.099082 GAGGAGGACTTGTACGCGAG 59.901 60.000 15.93 0.84 0.00 5.03
3051 6797 1.516603 GGAGGACTTGTACGCGAGC 60.517 63.158 15.93 5.26 0.00 5.03
3052 6798 1.211969 GAGGACTTGTACGCGAGCA 59.788 57.895 15.93 8.38 0.00 4.26
3143 6902 8.090831 GGTTATCTGAAGAATGAAAAGGCTTTT 58.909 33.333 24.33 24.33 35.12 2.27
3159 6918 6.655078 AGGCTTTTACAACATTTCAGACAT 57.345 33.333 0.00 0.00 0.00 3.06
3162 6921 8.246180 AGGCTTTTACAACATTTCAGACATATG 58.754 33.333 0.00 0.00 0.00 1.78
3165 6924 9.630098 CTTTTACAACATTTCAGACATATGCTT 57.370 29.630 1.58 0.00 0.00 3.91
3172 6931 8.697846 ACATTTCAGACATATGCTTTCATTTG 57.302 30.769 1.58 0.00 37.56 2.32
3178 6937 4.352009 ACATATGCTTTCATTTGGGACCA 58.648 39.130 1.58 0.00 36.40 4.02
3197 6964 2.502295 CAGTTTCAGAGGCTTCAGCTT 58.498 47.619 0.00 0.00 41.70 3.74
3198 6965 2.483491 CAGTTTCAGAGGCTTCAGCTTC 59.517 50.000 2.74 2.74 46.07 3.86
3203 6970 3.052181 GAGGCTTCAGCTTCGTACC 57.948 57.895 0.00 0.00 37.41 3.34
3204 6971 0.246635 GAGGCTTCAGCTTCGTACCA 59.753 55.000 0.00 0.00 37.41 3.25
3205 6972 0.247736 AGGCTTCAGCTTCGTACCAG 59.752 55.000 0.00 0.00 41.70 4.00
3206 6973 0.037232 GGCTTCAGCTTCGTACCAGT 60.037 55.000 0.00 0.00 41.70 4.00
3207 6974 1.203994 GGCTTCAGCTTCGTACCAGTA 59.796 52.381 0.00 0.00 41.70 2.74
3208 6975 2.159085 GGCTTCAGCTTCGTACCAGTAT 60.159 50.000 0.00 0.00 41.70 2.12
3209 6976 3.522553 GCTTCAGCTTCGTACCAGTATT 58.477 45.455 0.00 0.00 38.21 1.89
3211 6978 4.033014 GCTTCAGCTTCGTACCAGTATTTC 59.967 45.833 0.00 0.00 38.21 2.17
3212 6979 5.401531 TTCAGCTTCGTACCAGTATTTCT 57.598 39.130 0.00 0.00 0.00 2.52
3213 6980 4.744570 TCAGCTTCGTACCAGTATTTCTG 58.255 43.478 0.00 0.00 43.27 3.02
3216 6983 3.864003 GCTTCGTACCAGTATTTCTGACC 59.136 47.826 0.00 0.00 46.27 4.02
3230 7001 1.541368 TGACCAGCTTAGGGGCCTT 60.541 57.895 0.84 0.00 29.81 4.35
3232 7003 2.190578 CCAGCTTAGGGGCCTTCG 59.809 66.667 0.84 0.00 0.00 3.79
3250 7023 5.065988 GCCTTCGGCTTTATATTTCAGACAA 59.934 40.000 0.00 0.00 46.69 3.18
3265 7038 8.635765 ATTTCAGACAAGTTTAATTAGGAGCA 57.364 30.769 0.00 0.00 0.00 4.26
3291 7065 8.340618 TCAGCTTTATATTTCAGACAAGCTTT 57.659 30.769 0.00 0.00 43.45 3.51
3292 7066 8.454106 TCAGCTTTATATTTCAGACAAGCTTTC 58.546 33.333 0.00 0.00 43.45 2.62
3293 7067 8.239314 CAGCTTTATATTTCAGACAAGCTTTCA 58.761 33.333 0.00 0.00 43.45 2.69
3341 7132 3.264450 ACCTTAGCTCAAAGCACCTATGT 59.736 43.478 0.00 0.00 45.56 2.29
3353 7144 5.950544 AGCACCTATGTTCATAAGTGGTA 57.049 39.130 18.48 0.00 34.48 3.25
3358 7149 7.417570 GCACCTATGTTCATAAGTGGTAGTAGT 60.418 40.741 17.63 0.00 0.00 2.73
3359 7150 9.128404 CACCTATGTTCATAAGTGGTAGTAGTA 57.872 37.037 11.54 0.00 0.00 1.82
3360 7151 9.129532 ACCTATGTTCATAAGTGGTAGTAGTAC 57.870 37.037 0.00 0.00 0.00 2.73
3361 7152 9.352191 CCTATGTTCATAAGTGGTAGTAGTACT 57.648 37.037 8.14 8.14 0.00 2.73
3399 7190 6.554334 TGTCGTTAGAGCAGCTTAATTTTT 57.446 33.333 0.00 0.00 0.00 1.94
3440 7231 8.113173 AGTAGCTTCATTATAGGCTGTACTAC 57.887 38.462 0.00 2.06 36.40 2.73
3441 7232 7.945664 AGTAGCTTCATTATAGGCTGTACTACT 59.054 37.037 0.00 4.39 36.40 2.57
3442 7233 9.228949 GTAGCTTCATTATAGGCTGTACTACTA 57.771 37.037 0.00 0.00 36.40 1.82
3443 7234 8.113173 AGCTTCATTATAGGCTGTACTACTAC 57.887 38.462 0.00 0.00 33.50 2.73
3444 7235 7.022384 GCTTCATTATAGGCTGTACTACTACG 58.978 42.308 0.00 0.00 0.00 3.51
3445 7236 7.094890 GCTTCATTATAGGCTGTACTACTACGA 60.095 40.741 0.00 0.00 0.00 3.43
3446 7237 8.859236 TTCATTATAGGCTGTACTACTACGAT 57.141 34.615 0.00 0.00 0.00 3.73
3447 7238 9.948964 TTCATTATAGGCTGTACTACTACGATA 57.051 33.333 0.00 0.00 0.00 2.92
3453 7244 6.955364 AGGCTGTACTACTACGATATATCCA 58.045 40.000 7.15 0.00 0.00 3.41
3454 7245 7.400439 AGGCTGTACTACTACGATATATCCAA 58.600 38.462 7.15 0.00 0.00 3.53
3455 7246 7.553402 AGGCTGTACTACTACGATATATCCAAG 59.447 40.741 7.15 7.19 0.00 3.61
3456 7247 7.188157 GCTGTACTACTACGATATATCCAAGC 58.812 42.308 7.15 0.00 0.00 4.01
3457 7248 7.621428 TGTACTACTACGATATATCCAAGCC 57.379 40.000 7.15 0.00 0.00 4.35
3458 7249 6.600822 TGTACTACTACGATATATCCAAGCCC 59.399 42.308 7.15 0.00 0.00 5.19
3459 7250 5.828871 ACTACTACGATATATCCAAGCCCT 58.171 41.667 7.15 0.00 0.00 5.19
3460 7251 6.254522 ACTACTACGATATATCCAAGCCCTT 58.745 40.000 7.15 0.00 0.00 3.95
3461 7252 5.662674 ACTACGATATATCCAAGCCCTTC 57.337 43.478 7.15 0.00 0.00 3.46
3462 7253 5.084519 ACTACGATATATCCAAGCCCTTCA 58.915 41.667 7.15 0.00 0.00 3.02
3463 7254 4.543590 ACGATATATCCAAGCCCTTCAG 57.456 45.455 7.15 0.00 0.00 3.02
3464 7255 3.265791 CGATATATCCAAGCCCTTCAGC 58.734 50.000 7.15 0.00 0.00 4.26
3465 7256 3.615155 GATATATCCAAGCCCTTCAGCC 58.385 50.000 0.81 0.00 0.00 4.85
3466 7257 0.480252 ATATCCAAGCCCTTCAGCCC 59.520 55.000 0.00 0.00 0.00 5.19
3467 7258 0.624500 TATCCAAGCCCTTCAGCCCT 60.625 55.000 0.00 0.00 0.00 5.19
3468 7259 0.624500 ATCCAAGCCCTTCAGCCCTA 60.625 55.000 0.00 0.00 0.00 3.53
3469 7260 0.624500 TCCAAGCCCTTCAGCCCTAT 60.625 55.000 0.00 0.00 0.00 2.57
3470 7261 1.140312 CCAAGCCCTTCAGCCCTATA 58.860 55.000 0.00 0.00 0.00 1.31
3471 7262 1.072965 CCAAGCCCTTCAGCCCTATAG 59.927 57.143 0.00 0.00 0.00 1.31
3472 7263 1.771255 CAAGCCCTTCAGCCCTATAGT 59.229 52.381 0.00 0.00 0.00 2.12
3473 7264 2.173569 CAAGCCCTTCAGCCCTATAGTT 59.826 50.000 0.00 0.00 0.00 2.24
3474 7265 2.493091 AGCCCTTCAGCCCTATAGTTT 58.507 47.619 0.00 0.00 0.00 2.66
3475 7266 2.853077 AGCCCTTCAGCCCTATAGTTTT 59.147 45.455 0.00 0.00 0.00 2.43
3476 7267 4.045022 AGCCCTTCAGCCCTATAGTTTTA 58.955 43.478 0.00 0.00 0.00 1.52
3477 7268 4.665483 AGCCCTTCAGCCCTATAGTTTTAT 59.335 41.667 0.00 0.00 0.00 1.40
3478 7269 5.004448 GCCCTTCAGCCCTATAGTTTTATC 58.996 45.833 0.00 0.00 0.00 1.75
3479 7270 5.456186 GCCCTTCAGCCCTATAGTTTTATCA 60.456 44.000 0.00 0.00 0.00 2.15
3480 7271 6.234177 CCCTTCAGCCCTATAGTTTTATCAG 58.766 44.000 0.00 0.00 0.00 2.90
3481 7272 6.043243 CCCTTCAGCCCTATAGTTTTATCAGA 59.957 42.308 0.00 0.00 0.00 3.27
3482 7273 7.420214 CCCTTCAGCCCTATAGTTTTATCAGAA 60.420 40.741 0.00 0.00 0.00 3.02
3483 7274 7.659390 CCTTCAGCCCTATAGTTTTATCAGAAG 59.341 40.741 0.00 0.00 0.00 2.85
3484 7275 7.914427 TCAGCCCTATAGTTTTATCAGAAGA 57.086 36.000 0.00 0.00 0.00 2.87
3485 7276 8.319057 TCAGCCCTATAGTTTTATCAGAAGAA 57.681 34.615 0.00 0.00 0.00 2.52
3486 7277 8.768397 TCAGCCCTATAGTTTTATCAGAAGAAA 58.232 33.333 0.00 0.00 0.00 2.52
3487 7278 9.396022 CAGCCCTATAGTTTTATCAGAAGAAAA 57.604 33.333 0.00 0.00 0.00 2.29
3488 7279 9.975218 AGCCCTATAGTTTTATCAGAAGAAAAA 57.025 29.630 0.00 0.00 28.09 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 3.263261 CTGTACTGACTCGAGTAGCTGA 58.737 50.000 20.09 0.00 0.00 4.26
365 416 0.503117 GAGAAGTGTGTTCGTCGTGC 59.497 55.000 0.00 0.00 0.00 5.34
387 438 1.804748 GCCGGAGTGTTCCAAACTAAG 59.195 52.381 5.05 0.00 44.26 2.18
392 443 2.281208 CGGCCGGAGTGTTCCAAA 60.281 61.111 20.10 0.00 44.26 3.28
393 444 2.809307 TTCGGCCGGAGTGTTCCAA 61.809 57.895 27.83 5.54 44.26 3.53
394 445 3.235481 TTCGGCCGGAGTGTTCCA 61.235 61.111 27.83 0.00 44.26 3.53
395 446 2.741211 GTTCGGCCGGAGTGTTCC 60.741 66.667 27.83 0.00 40.33 3.62
396 447 1.737008 GAGTTCGGCCGGAGTGTTC 60.737 63.158 27.83 8.40 0.00 3.18
397 448 2.342648 GAGTTCGGCCGGAGTGTT 59.657 61.111 27.83 1.66 0.00 3.32
398 449 4.052229 CGAGTTCGGCCGGAGTGT 62.052 66.667 27.83 3.38 35.37 3.55
453 4024 0.249531 TCTTGCAAGTGACGCGGTTA 60.250 50.000 25.19 0.00 0.00 2.85
455 4026 1.956170 CTCTTGCAAGTGACGCGGT 60.956 57.895 25.19 0.00 0.00 5.68
458 4029 2.558313 GCCTCTTGCAAGTGACGC 59.442 61.111 26.02 18.59 40.77 5.19
472 4114 0.532862 CTTCACACCGACAGTTGCCT 60.533 55.000 0.00 0.00 0.00 4.75
474 4116 0.304705 CACTTCACACCGACAGTTGC 59.695 55.000 0.00 0.00 0.00 4.17
477 4119 1.754803 TCTTCACTTCACACCGACAGT 59.245 47.619 0.00 0.00 0.00 3.55
479 4121 2.028876 TCTCTTCACTTCACACCGACA 58.971 47.619 0.00 0.00 0.00 4.35
480 4122 2.795175 TCTCTTCACTTCACACCGAC 57.205 50.000 0.00 0.00 0.00 4.79
481 4123 3.812156 TTTCTCTTCACTTCACACCGA 57.188 42.857 0.00 0.00 0.00 4.69
484 4126 5.741388 ACACATTTCTCTTCACTTCACAC 57.259 39.130 0.00 0.00 0.00 3.82
485 4127 6.374053 TGAAACACATTTCTCTTCACTTCACA 59.626 34.615 1.82 0.00 44.02 3.58
489 4131 6.599244 TGTCTGAAACACATTTCTCTTCACTT 59.401 34.615 1.82 0.00 44.02 3.16
490 4132 6.115446 TGTCTGAAACACATTTCTCTTCACT 58.885 36.000 1.82 0.00 44.02 3.41
495 4137 5.674525 TGTCTGTCTGAAACACATTTCTCT 58.325 37.500 1.82 0.00 44.02 3.10
496 4138 5.991328 TGTCTGTCTGAAACACATTTCTC 57.009 39.130 1.82 0.00 44.02 2.87
497 4139 5.178252 CGATGTCTGTCTGAAACACATTTCT 59.822 40.000 1.82 0.00 44.02 2.52
498 4140 5.177511 TCGATGTCTGTCTGAAACACATTTC 59.822 40.000 0.00 0.00 43.96 2.17
501 4143 3.990469 GTCGATGTCTGTCTGAAACACAT 59.010 43.478 0.00 0.00 33.24 3.21
545 4200 1.831389 GCACTCGCGCTCTGAAACAA 61.831 55.000 5.56 0.00 0.00 2.83
564 4219 4.561606 CCTCGTCTGTAGGTGTTTATTTCG 59.438 45.833 0.00 0.00 0.00 3.46
570 4225 2.005370 TCCCTCGTCTGTAGGTGTTT 57.995 50.000 0.00 0.00 31.70 2.83
572 4227 1.685491 GGATCCCTCGTCTGTAGGTGT 60.685 57.143 0.00 0.00 31.70 4.16
573 4228 1.033574 GGATCCCTCGTCTGTAGGTG 58.966 60.000 0.00 0.00 31.70 4.00
575 4230 2.885894 GTTAGGATCCCTCGTCTGTAGG 59.114 54.545 8.55 0.00 34.61 3.18
576 4231 2.548904 CGTTAGGATCCCTCGTCTGTAG 59.451 54.545 8.55 0.00 34.61 2.74
577 4232 2.171237 TCGTTAGGATCCCTCGTCTGTA 59.829 50.000 8.55 0.00 34.61 2.74
578 4233 1.064906 TCGTTAGGATCCCTCGTCTGT 60.065 52.381 8.55 0.00 34.61 3.41
580 4235 1.212441 ACTCGTTAGGATCCCTCGTCT 59.788 52.381 8.55 0.00 34.61 4.18
581 4236 1.677942 ACTCGTTAGGATCCCTCGTC 58.322 55.000 8.55 0.00 34.61 4.20
582 4237 2.848691 CTACTCGTTAGGATCCCTCGT 58.151 52.381 8.55 0.13 34.61 4.18
583 4238 1.536331 GCTACTCGTTAGGATCCCTCG 59.464 57.143 8.55 11.09 34.61 4.63
584 4239 1.536331 CGCTACTCGTTAGGATCCCTC 59.464 57.143 8.55 0.00 34.61 4.30
585 4240 1.606903 CGCTACTCGTTAGGATCCCT 58.393 55.000 8.55 0.00 37.71 4.20
586 4241 0.039346 GCGCTACTCGTTAGGATCCC 60.039 60.000 8.55 0.00 41.07 3.85
588 4243 0.385723 CCGCGCTACTCGTTAGGATC 60.386 60.000 5.56 0.00 41.07 3.36
591 4246 2.025727 CCCGCGCTACTCGTTAGG 59.974 66.667 5.56 0.00 41.07 2.69
592 4247 1.009900 CTCCCGCGCTACTCGTTAG 60.010 63.158 5.56 0.00 41.07 2.34
593 4248 3.104766 CTCCCGCGCTACTCGTTA 58.895 61.111 5.56 0.00 41.07 3.18
596 4251 2.332362 TAAAGCTCCCGCGCTACTCG 62.332 60.000 5.56 0.00 39.86 4.18
597 4252 0.032267 ATAAAGCTCCCGCGCTACTC 59.968 55.000 5.56 0.00 39.86 2.59
598 4253 0.032267 GATAAAGCTCCCGCGCTACT 59.968 55.000 5.56 0.00 39.86 2.57
599 4254 0.032267 AGATAAAGCTCCCGCGCTAC 59.968 55.000 5.56 0.00 39.86 3.58
600 4255 0.032130 CAGATAAAGCTCCCGCGCTA 59.968 55.000 5.56 0.00 39.86 4.26
601 4256 1.227380 CAGATAAAGCTCCCGCGCT 60.227 57.895 5.56 0.00 43.31 5.92
602 4257 1.218230 CTCAGATAAAGCTCCCGCGC 61.218 60.000 0.00 0.00 42.32 6.86
603 4258 0.103208 ACTCAGATAAAGCTCCCGCG 59.897 55.000 0.00 0.00 42.32 6.46
604 4259 1.576356 CACTCAGATAAAGCTCCCGC 58.424 55.000 0.00 0.00 0.00 6.13
605 4260 1.202580 CCCACTCAGATAAAGCTCCCG 60.203 57.143 0.00 0.00 0.00 5.14
608 4263 1.576356 CGCCCACTCAGATAAAGCTC 58.424 55.000 0.00 0.00 0.00 4.09
748 4425 0.319641 GTGTGGTTCGACCTGACCTC 60.320 60.000 5.64 2.80 39.58 3.85
815 4497 1.002274 AGGAGGTTCGGGCTCAGAT 59.998 57.895 0.00 0.00 0.00 2.90
931 4613 4.814294 ATCGACCGGAAGCGGCAC 62.814 66.667 9.46 0.00 0.00 5.01
932 4614 4.508128 GATCGACCGGAAGCGGCA 62.508 66.667 9.46 0.00 0.00 5.69
934 4616 4.587189 GGGATCGACCGGAAGCGG 62.587 72.222 9.46 0.00 40.11 5.52
935 4617 4.587189 GGGGATCGACCGGAAGCG 62.587 72.222 9.46 9.33 40.11 4.68
967 4654 2.765807 AGATGGTGGAGGCGGAGG 60.766 66.667 0.00 0.00 0.00 4.30
972 4659 2.592308 GGTGGAGATGGTGGAGGC 59.408 66.667 0.00 0.00 0.00 4.70
1132 4819 1.143813 ATTGAGCGAGGAATGGGGAT 58.856 50.000 0.00 0.00 0.00 3.85
1143 4830 0.107993 CAGCTGAGGGAATTGAGCGA 60.108 55.000 8.42 0.00 36.52 4.93
1176 4863 4.233635 CATCAGCCGAGCAAGCGC 62.234 66.667 0.00 0.00 38.99 5.92
1581 5276 2.203938 AAGAGGAAGGCCGGGACA 60.204 61.111 0.92 0.00 39.96 4.02
1743 5438 2.498726 GAGAGCTGGCGGAAGAGG 59.501 66.667 0.00 0.00 0.00 3.69
1782 5477 1.372997 CACCTCCTGGTCGTTGTCG 60.373 63.158 0.00 0.00 46.60 4.35
1977 5672 0.397675 TGCGGGAGATGATGAGGAGT 60.398 55.000 0.00 0.00 0.00 3.85
2047 5742 3.767230 CACGTCGAACTGCGCCAG 61.767 66.667 4.18 4.99 40.61 4.85
2484 6191 0.523966 GTAGAGCTCAGTGTCAGCGT 59.476 55.000 17.77 0.00 42.14 5.07
2486 6193 2.605030 CAAGTAGAGCTCAGTGTCAGC 58.395 52.381 17.77 0.00 37.12 4.26
2827 6555 2.106566 CTCTGATGGTGGTAGAGCAGT 58.893 52.381 0.00 0.00 34.93 4.40
2830 6561 2.100584 CTGTCTCTGATGGTGGTAGAGC 59.899 54.545 0.00 0.00 38.22 4.09
2837 6568 0.545171 ATGCCCTGTCTCTGATGGTG 59.455 55.000 0.00 0.00 0.00 4.17
2891 6622 1.599171 GCACGCATGTTGCAACAAGTA 60.599 47.619 34.06 13.09 45.36 2.24
2897 6628 3.988525 GGGGCACGCATGTTGCAA 61.989 61.111 19.24 0.00 45.36 4.08
2902 6633 3.286694 AATGAGGGGGCACGCATGT 62.287 57.895 5.55 0.00 45.96 3.21
2928 6659 6.148480 GTCAGAATTGAAAGCATGACTAGTGT 59.852 38.462 0.00 0.00 35.36 3.55
2933 6664 4.401022 TGGTCAGAATTGAAAGCATGACT 58.599 39.130 0.00 0.00 37.71 3.41
2976 6721 4.499696 CCTGAACTGGTCCAAAACATCAAC 60.500 45.833 0.00 0.00 0.00 3.18
2979 6724 3.222603 ACCTGAACTGGTCCAAAACATC 58.777 45.455 0.00 0.00 34.86 3.06
2996 6742 2.771943 TCATTAGTTGAGCCCCTACCTG 59.228 50.000 0.00 0.00 0.00 4.00
3000 6746 4.444306 CCGAAATCATTAGTTGAGCCCCTA 60.444 45.833 0.00 0.00 37.89 3.53
3001 6747 3.545703 CGAAATCATTAGTTGAGCCCCT 58.454 45.455 0.00 0.00 37.89 4.79
3003 6749 3.312697 GTCCGAAATCATTAGTTGAGCCC 59.687 47.826 0.00 0.00 37.89 5.19
3004 6750 3.312697 GGTCCGAAATCATTAGTTGAGCC 59.687 47.826 0.00 0.00 37.89 4.70
3006 6752 5.178797 ACTGGTCCGAAATCATTAGTTGAG 58.821 41.667 0.00 0.00 37.89 3.02
3007 6753 5.160607 ACTGGTCCGAAATCATTAGTTGA 57.839 39.130 0.00 0.00 39.12 3.18
3008 6754 5.411361 TCAACTGGTCCGAAATCATTAGTTG 59.589 40.000 0.00 0.00 42.92 3.16
3009 6755 5.556915 TCAACTGGTCCGAAATCATTAGTT 58.443 37.500 0.00 0.00 0.00 2.24
3010 6756 5.160607 TCAACTGGTCCGAAATCATTAGT 57.839 39.130 0.00 0.00 0.00 2.24
3011 6757 4.572389 CCTCAACTGGTCCGAAATCATTAG 59.428 45.833 0.00 0.00 0.00 1.73
3012 6758 4.224147 TCCTCAACTGGTCCGAAATCATTA 59.776 41.667 0.00 0.00 0.00 1.90
3013 6759 3.009033 TCCTCAACTGGTCCGAAATCATT 59.991 43.478 0.00 0.00 0.00 2.57
3014 6760 2.571653 TCCTCAACTGGTCCGAAATCAT 59.428 45.455 0.00 0.00 0.00 2.45
3015 6761 1.974957 TCCTCAACTGGTCCGAAATCA 59.025 47.619 0.00 0.00 0.00 2.57
3016 6762 2.622436 CTCCTCAACTGGTCCGAAATC 58.378 52.381 0.00 0.00 0.00 2.17
3017 6763 1.279271 CCTCCTCAACTGGTCCGAAAT 59.721 52.381 0.00 0.00 0.00 2.17
3018 6764 0.685097 CCTCCTCAACTGGTCCGAAA 59.315 55.000 0.00 0.00 0.00 3.46
3019 6765 0.178944 TCCTCCTCAACTGGTCCGAA 60.179 55.000 0.00 0.00 0.00 4.30
3020 6766 0.898789 GTCCTCCTCAACTGGTCCGA 60.899 60.000 0.00 0.00 0.00 4.55
3021 6767 0.900647 AGTCCTCCTCAACTGGTCCG 60.901 60.000 0.00 0.00 0.00 4.79
3022 6768 1.002544 CAAGTCCTCCTCAACTGGTCC 59.997 57.143 0.00 0.00 0.00 4.46
3023 6769 1.694696 ACAAGTCCTCCTCAACTGGTC 59.305 52.381 0.00 0.00 0.00 4.02
3024 6770 1.807814 ACAAGTCCTCCTCAACTGGT 58.192 50.000 0.00 0.00 0.00 4.00
3025 6771 2.352814 CGTACAAGTCCTCCTCAACTGG 60.353 54.545 0.00 0.00 0.00 4.00
3026 6772 2.927014 GCGTACAAGTCCTCCTCAACTG 60.927 54.545 0.00 0.00 0.00 3.16
3027 6773 1.272769 GCGTACAAGTCCTCCTCAACT 59.727 52.381 0.00 0.00 0.00 3.16
3028 6774 1.711206 GCGTACAAGTCCTCCTCAAC 58.289 55.000 0.00 0.00 0.00 3.18
3029 6775 0.242825 CGCGTACAAGTCCTCCTCAA 59.757 55.000 0.00 0.00 0.00 3.02
3030 6776 0.607217 TCGCGTACAAGTCCTCCTCA 60.607 55.000 5.77 0.00 0.00 3.86
3031 6777 0.099082 CTCGCGTACAAGTCCTCCTC 59.901 60.000 5.77 0.00 0.00 3.71
3032 6778 1.935327 GCTCGCGTACAAGTCCTCCT 61.935 60.000 5.77 0.00 0.00 3.69
3033 6779 1.516603 GCTCGCGTACAAGTCCTCC 60.517 63.158 5.77 0.00 0.00 4.30
3034 6780 0.179134 ATGCTCGCGTACAAGTCCTC 60.179 55.000 5.77 0.00 0.00 3.71
3035 6781 0.246635 AATGCTCGCGTACAAGTCCT 59.753 50.000 5.77 0.00 0.00 3.85
3036 6782 0.370273 CAATGCTCGCGTACAAGTCC 59.630 55.000 5.77 0.00 0.00 3.85
3037 6783 0.370273 CCAATGCTCGCGTACAAGTC 59.630 55.000 5.77 0.00 0.00 3.01
3038 6784 0.037697 TCCAATGCTCGCGTACAAGT 60.038 50.000 5.77 0.00 0.00 3.16
3039 6785 0.647410 CTCCAATGCTCGCGTACAAG 59.353 55.000 5.77 0.00 0.00 3.16
3040 6786 0.037697 ACTCCAATGCTCGCGTACAA 60.038 50.000 5.77 0.00 0.00 2.41
3041 6787 0.812549 TACTCCAATGCTCGCGTACA 59.187 50.000 5.77 6.09 0.00 2.90
3042 6788 1.478137 CTACTCCAATGCTCGCGTAC 58.522 55.000 5.77 0.00 0.00 3.67
3043 6789 0.248907 GCTACTCCAATGCTCGCGTA 60.249 55.000 5.77 0.00 0.00 4.42
3044 6790 1.519455 GCTACTCCAATGCTCGCGT 60.519 57.895 5.77 0.00 0.00 6.01
3045 6791 0.807667 AAGCTACTCCAATGCTCGCG 60.808 55.000 0.00 0.00 35.85 5.87
3046 6792 0.654683 CAAGCTACTCCAATGCTCGC 59.345 55.000 0.00 0.00 35.85 5.03
3047 6793 2.015736 ACAAGCTACTCCAATGCTCG 57.984 50.000 0.00 0.00 35.85 5.03
3048 6794 2.869192 GCTACAAGCTACTCCAATGCTC 59.131 50.000 0.00 0.00 38.45 4.26
3049 6795 2.420687 GGCTACAAGCTACTCCAATGCT 60.421 50.000 0.00 0.00 41.99 3.79
3050 6796 1.943340 GGCTACAAGCTACTCCAATGC 59.057 52.381 0.00 0.00 41.99 3.56
3051 6797 3.550437 AGGCTACAAGCTACTCCAATG 57.450 47.619 0.00 0.00 41.99 2.82
3052 6798 3.643792 CCTAGGCTACAAGCTACTCCAAT 59.356 47.826 0.00 0.00 41.99 3.16
3143 6902 8.334263 TGAAAGCATATGTCTGAAATGTTGTA 57.666 30.769 4.29 0.00 0.00 2.41
3144 6903 7.218228 TGAAAGCATATGTCTGAAATGTTGT 57.782 32.000 4.29 0.00 0.00 3.32
3159 6918 4.046286 ACTGGTCCCAAATGAAAGCATA 57.954 40.909 0.00 0.00 33.44 3.14
3162 6921 3.069443 TGAAACTGGTCCCAAATGAAAGC 59.931 43.478 0.00 0.00 0.00 3.51
3165 6924 4.144297 CTCTGAAACTGGTCCCAAATGAA 58.856 43.478 0.00 0.00 0.00 2.57
3172 6931 0.402121 AAGCCTCTGAAACTGGTCCC 59.598 55.000 0.00 0.00 0.00 4.46
3178 6937 2.777094 GAAGCTGAAGCCTCTGAAACT 58.223 47.619 0.00 0.00 43.38 2.66
3197 6964 3.119245 GCTGGTCAGAAATACTGGTACGA 60.119 47.826 1.65 0.00 45.76 3.43
3198 6965 3.119101 AGCTGGTCAGAAATACTGGTACG 60.119 47.826 1.65 0.00 45.76 3.67
3202 6969 4.446371 CCTAAGCTGGTCAGAAATACTGG 58.554 47.826 1.65 0.00 45.76 4.00
3203 6970 4.446371 CCCTAAGCTGGTCAGAAATACTG 58.554 47.826 1.65 0.00 46.97 2.74
3204 6971 3.456277 CCCCTAAGCTGGTCAGAAATACT 59.544 47.826 1.65 0.00 0.00 2.12
3205 6972 3.809905 CCCCTAAGCTGGTCAGAAATAC 58.190 50.000 1.65 0.00 0.00 1.89
3206 6973 2.172717 GCCCCTAAGCTGGTCAGAAATA 59.827 50.000 1.65 0.00 0.00 1.40
3207 6974 1.064389 GCCCCTAAGCTGGTCAGAAAT 60.064 52.381 1.65 0.00 0.00 2.17
3208 6975 0.328258 GCCCCTAAGCTGGTCAGAAA 59.672 55.000 1.65 0.00 0.00 2.52
3209 6976 1.562672 GGCCCCTAAGCTGGTCAGAA 61.563 60.000 1.65 0.00 0.00 3.02
3211 6978 1.566298 AAGGCCCCTAAGCTGGTCAG 61.566 60.000 0.00 0.00 0.00 3.51
3212 6979 1.541368 AAGGCCCCTAAGCTGGTCA 60.541 57.895 0.00 0.00 0.00 4.02
3213 6980 1.224870 GAAGGCCCCTAAGCTGGTC 59.775 63.158 0.00 0.00 0.00 4.02
3216 6983 2.190578 CCGAAGGCCCCTAAGCTG 59.809 66.667 0.00 0.00 46.14 4.24
3230 7001 7.681939 AAACTTGTCTGAAATATAAAGCCGA 57.318 32.000 0.00 0.00 0.00 5.54
3291 7065 1.623311 TCCTCAACTGCTCCGAAATGA 59.377 47.619 0.00 0.00 0.00 2.57
3292 7066 2.005451 CTCCTCAACTGCTCCGAAATG 58.995 52.381 0.00 0.00 0.00 2.32
3293 7067 1.065854 CCTCCTCAACTGCTCCGAAAT 60.066 52.381 0.00 0.00 0.00 2.17
3358 7149 2.031870 ACATGATGCTGGCGAGTAGTA 58.968 47.619 0.00 0.00 0.00 1.82
3359 7150 0.826715 ACATGATGCTGGCGAGTAGT 59.173 50.000 0.00 0.00 0.00 2.73
3360 7151 1.495878 GACATGATGCTGGCGAGTAG 58.504 55.000 0.00 0.00 0.00 2.57
3361 7152 3.667448 GACATGATGCTGGCGAGTA 57.333 52.632 0.00 0.00 0.00 2.59
3408 7199 9.184523 CAGCCTATAATGAAGCTACTCTATAGT 57.815 37.037 0.00 0.00 39.91 2.12
3409 7200 9.184523 ACAGCCTATAATGAAGCTACTCTATAG 57.815 37.037 0.00 0.00 33.33 1.31
3415 7206 7.945664 AGTAGTACAGCCTATAATGAAGCTACT 59.054 37.037 2.52 0.00 33.33 2.57
3433 7224 6.600822 GGGCTTGGATATATCGTAGTAGTACA 59.399 42.308 8.43 0.00 0.00 2.90
3440 7231 5.655488 CTGAAGGGCTTGGATATATCGTAG 58.345 45.833 6.64 7.35 0.00 3.51
3441 7232 4.081642 GCTGAAGGGCTTGGATATATCGTA 60.082 45.833 6.64 0.00 0.00 3.43
3442 7233 3.307059 GCTGAAGGGCTTGGATATATCGT 60.307 47.826 6.64 0.00 0.00 3.73
3443 7234 3.265791 GCTGAAGGGCTTGGATATATCG 58.734 50.000 6.64 0.00 0.00 2.92
3444 7235 3.615155 GGCTGAAGGGCTTGGATATATC 58.385 50.000 3.96 3.96 37.53 1.63
3445 7236 2.310052 GGGCTGAAGGGCTTGGATATAT 59.690 50.000 0.00 0.00 40.65 0.86
3446 7237 1.705186 GGGCTGAAGGGCTTGGATATA 59.295 52.381 0.00 0.00 40.65 0.86
3447 7238 0.480252 GGGCTGAAGGGCTTGGATAT 59.520 55.000 0.00 0.00 40.65 1.63
3451 7242 1.072965 CTATAGGGCTGAAGGGCTTGG 59.927 57.143 0.00 0.00 40.65 3.61
3452 7243 1.771255 ACTATAGGGCTGAAGGGCTTG 59.229 52.381 4.43 0.00 40.65 4.01
3453 7244 2.198334 ACTATAGGGCTGAAGGGCTT 57.802 50.000 4.43 0.00 40.65 4.35
3454 7245 2.198334 AACTATAGGGCTGAAGGGCT 57.802 50.000 4.43 0.00 40.65 5.19
3455 7246 3.298686 AAAACTATAGGGCTGAAGGGC 57.701 47.619 4.43 0.00 40.05 5.19
3456 7247 6.043243 TCTGATAAAACTATAGGGCTGAAGGG 59.957 42.308 4.43 0.00 0.00 3.95
3457 7248 7.067496 TCTGATAAAACTATAGGGCTGAAGG 57.933 40.000 4.43 0.00 0.00 3.46
3458 7249 8.424918 TCTTCTGATAAAACTATAGGGCTGAAG 58.575 37.037 4.43 10.36 33.90 3.02
3459 7250 8.319057 TCTTCTGATAAAACTATAGGGCTGAA 57.681 34.615 4.43 2.50 0.00 3.02
3460 7251 7.914427 TCTTCTGATAAAACTATAGGGCTGA 57.086 36.000 4.43 0.00 0.00 4.26
3461 7252 8.964476 TTTCTTCTGATAAAACTATAGGGCTG 57.036 34.615 4.43 0.00 0.00 4.85
3462 7253 9.975218 TTTTTCTTCTGATAAAACTATAGGGCT 57.025 29.630 4.43 0.00 0.00 5.19


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

AutoCloner maintained by Alex Coulton.