Multiple sequence alignment - TraesCS3D01G233900

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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 TraesCS3D01G233900 chr3D 100.000 7784 0 0 1 7784 322432886 322440669 0.000000e+00 14375.0
1 TraesCS3D01G233900 chr3B 97.863 6457 105 16 715 7161 396270187 396276620 0.000000e+00 11129.0
2 TraesCS3D01G233900 chr3B 81.774 620 71 18 34 621 396269487 396270096 1.520000e-131 481.0
3 TraesCS3D01G233900 chr3B 95.618 251 5 3 7152 7396 396276687 396276937 1.570000e-106 398.0
4 TraesCS3D01G233900 chr3B 92.251 271 8 3 7348 7613 396276953 396277215 9.540000e-99 372.0
5 TraesCS3D01G233900 chr3B 89.674 184 18 1 7602 7784 625167385 625167202 4.700000e-57 233.0
6 TraesCS3D01G233900 chr3B 97.917 48 1 0 639 686 396270145 396270192 5.010000e-12 84.2
7 TraesCS3D01G233900 chr3A 94.993 4733 161 31 1870 6573 401027275 401022590 0.000000e+00 7358.0
8 TraesCS3D01G233900 chr3A 95.908 1173 39 2 715 1878 401028976 401027804 0.000000e+00 1892.0
9 TraesCS3D01G233900 chr3A 95.977 348 14 0 6579 6926 401020345 401019998 4.080000e-157 566.0
10 TraesCS3D01G233900 chr3A 83.422 561 66 16 34 572 401029681 401029126 5.430000e-136 496.0
11 TraesCS3D01G233900 chr3A 91.935 248 18 1 7155 7400 401019650 401019403 5.780000e-91 346.0
12 TraesCS3D01G233900 chr3A 96.117 206 7 1 6937 7141 401019947 401019742 1.250000e-87 335.0
13 TraesCS3D01G233900 chr3A 95.425 153 7 0 2407 2559 582283215 582283367 2.170000e-60 244.0
14 TraesCS3D01G233900 chr3A 88.889 162 12 3 7400 7557 401018313 401018154 2.220000e-45 195.0
15 TraesCS3D01G233900 chr3A 84.000 175 28 0 7610 7784 706250810 706250984 1.340000e-37 169.0
16 TraesCS3D01G233900 chr3A 96.053 76 3 0 7538 7613 401018034 401017959 2.950000e-24 124.0
17 TraesCS3D01G233900 chr3A 97.297 37 1 0 1842 1878 401027804 401027768 6.520000e-06 63.9
18 TraesCS3D01G233900 chr2D 94.545 165 9 0 2403 2567 79056163 79056327 1.000000e-63 255.0
19 TraesCS3D01G233900 chr2A 93.491 169 10 1 2400 2567 79315997 79316165 4.660000e-62 250.0
20 TraesCS3D01G233900 chr5D 92.442 172 13 0 7608 7779 43943595 43943424 6.030000e-61 246.0
21 TraesCS3D01G233900 chr4D 93.939 165 7 3 2404 2566 74079348 74079511 6.030000e-61 246.0
22 TraesCS3D01G233900 chr7B 91.429 175 15 0 7610 7784 468292004 468291830 2.810000e-59 241.0
23 TraesCS3D01G233900 chr7B 92.216 167 13 0 2407 2573 505937314 505937480 3.630000e-58 237.0
24 TraesCS3D01G233900 chr4B 93.293 164 9 2 2400 2562 106227403 106227565 2.810000e-59 241.0
25 TraesCS3D01G233900 chr4B 91.329 173 15 0 7612 7784 314427800 314427972 3.630000e-58 237.0
26 TraesCS3D01G233900 chr4A 92.353 170 11 2 7612 7780 446627876 446627708 2.810000e-59 241.0
27 TraesCS3D01G233900 chr5A 92.308 169 10 2 2397 2565 321920791 321920626 3.630000e-58 237.0
28 TraesCS3D01G233900 chr1D 92.500 160 11 1 7621 7780 77779676 77779518 2.190000e-55 228.0
29 TraesCS3D01G233900 chr1D 93.103 145 10 0 7636 7780 77780223 77780367 6.120000e-51 213.0
30 TraesCS3D01G233900 chr6D 84.971 173 26 0 7612 7784 452309149 452309321 8.030000e-40 176.0


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 TraesCS3D01G233900 chr3D 322432886 322440669 7783 False 14375.000000 14375 100.0000 1 7784 1 chr3D.!!$F1 7783
1 TraesCS3D01G233900 chr3B 396269487 396277215 7728 False 2492.840000 11129 93.0846 34 7613 5 chr3B.!!$F1 7579
2 TraesCS3D01G233900 chr3A 401017959 401029681 11722 True 1263.988889 7358 93.3990 34 7613 9 chr3A.!!$R1 7579

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
315 327 0.318614 GATCTCAGAGCGCAGGTAGC 60.319 60.000 11.47 0.00 39.88 3.58 F
697 773 0.320508 AGGGAAGCGAGTCCGTTTTC 60.321 55.000 0.00 0.00 39.29 2.29 F
699 775 1.069255 GGAAGCGAGTCCGTTTTCTC 58.931 55.000 0.00 0.00 39.29 2.87 F
700 776 1.604693 GGAAGCGAGTCCGTTTTCTCA 60.605 52.381 0.00 0.00 39.29 3.27 F
2401 3045 1.896220 TGTCCATGGAAGTCAGCAAC 58.104 50.000 18.20 1.27 0.00 4.17 F
3191 3840 1.331756 CGGGATAATGTTGCACAGCTC 59.668 52.381 0.00 0.00 0.00 4.09 F
4151 4803 1.227823 TGTGGGGACTTCAACGCTG 60.228 57.895 0.00 0.00 0.00 5.18 F
4623 5278 2.225491 CCTTTACACACGACCAATGGTG 59.775 50.000 10.84 4.90 40.21 4.17 F
5070 5725 3.327757 TGGCAGACACCTACTTTCATCTT 59.672 43.478 0.00 0.00 0.00 2.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1561 1646 1.801332 CAGACTTGGATGCAGCTGC 59.199 57.895 31.89 31.89 42.50 5.25 R
2401 3045 3.087031 TGTGAACGGAGGGAGTACTTAG 58.913 50.000 0.00 0.00 0.00 2.18 R
2642 3286 9.186837 CTACCTCCTACAAGTACAAAGAAGATA 57.813 37.037 0.00 0.00 0.00 1.98 R
2871 3520 4.023792 GTGCAAATCACAGTCATGAACTCA 60.024 41.667 0.00 0.00 44.98 3.41 R
3938 4590 0.972471 GAGGGGAAAGGCACAATGGG 60.972 60.000 0.00 0.00 0.00 4.00 R
5014 5669 0.250234 TGAATCTGACTGGAAGGCCG 59.750 55.000 0.00 0.00 46.74 6.13 R
5296 5951 1.762957 GGGATGATTCTGACTCGGGAA 59.237 52.381 0.00 0.00 0.00 3.97 R
6753 9649 2.034879 CGCCAGTTCGCAGACCAAT 61.035 57.895 0.00 0.00 34.32 3.16 R
6803 9699 2.449464 TCAATGGCACTGAAATCCCTG 58.551 47.619 0.00 0.00 0.00 4.45 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
28 29 4.168291 GGAGCAAGAGGGGGCGAG 62.168 72.222 0.00 0.00 34.54 5.03
29 30 4.168291 GAGCAAGAGGGGGCGAGG 62.168 72.222 0.00 0.00 34.54 4.63
32 33 4.101448 CAAGAGGGGGCGAGGGTG 62.101 72.222 0.00 0.00 0.00 4.61
102 103 3.047877 CGGGCCTTGTGGTCGAAC 61.048 66.667 0.84 0.00 39.29 3.95
108 109 4.838046 TTGTGGTCGAACAAGCGA 57.162 50.000 3.77 0.00 35.16 4.93
109 110 3.299050 TTGTGGTCGAACAAGCGAT 57.701 47.368 3.77 0.00 42.82 4.58
110 111 2.442212 TTGTGGTCGAACAAGCGATA 57.558 45.000 3.77 0.00 42.82 2.92
111 112 2.442212 TGTGGTCGAACAAGCGATAA 57.558 45.000 3.77 0.00 42.82 1.75
112 113 2.063266 TGTGGTCGAACAAGCGATAAC 58.937 47.619 3.77 0.00 42.82 1.89
113 114 1.058695 GTGGTCGAACAAGCGATAACG 59.941 52.381 3.77 0.00 42.82 3.18
114 115 1.068402 TGGTCGAACAAGCGATAACGA 60.068 47.619 0.00 0.00 42.82 3.85
115 116 1.319669 GGTCGAACAAGCGATAACGAC 59.680 52.381 15.93 15.93 45.64 4.34
116 117 1.008745 GTCGAACAAGCGATAACGACG 60.009 52.381 0.00 0.00 42.82 5.12
120 121 1.076533 ACAAGCGATAACGACGGCAG 61.077 55.000 0.00 0.00 42.66 4.85
145 155 3.736100 CGCGCTGGCATTCAACCA 61.736 61.111 5.56 0.00 39.92 3.67
183 193 4.506255 CACCGGGGGCATTCTCCC 62.506 72.222 6.32 0.00 45.80 4.30
264 276 2.747855 GCTCCTTGGCCAACTCCG 60.748 66.667 16.05 4.55 0.00 4.63
311 323 0.319727 GATGGATCTCAGAGCGCAGG 60.320 60.000 11.47 0.00 0.00 4.85
312 324 1.047596 ATGGATCTCAGAGCGCAGGT 61.048 55.000 11.47 0.00 46.54 4.00
315 327 0.318614 GATCTCAGAGCGCAGGTAGC 60.319 60.000 11.47 0.00 39.88 3.58
390 417 3.450115 GCCTCGCGGTAGGACTGT 61.450 66.667 17.43 0.00 39.15 3.55
392 419 2.202623 CTCGCGGTAGGACTGTGC 60.203 66.667 6.13 0.00 35.07 4.57
405 432 1.323271 ACTGTGCGACCTCGATGGAT 61.323 55.000 7.76 0.00 43.02 3.41
406 433 0.668535 CTGTGCGACCTCGATGGATA 59.331 55.000 7.76 0.00 43.02 2.59
410 437 0.522180 GCGACCTCGATGGATACGAT 59.478 55.000 7.76 0.00 43.02 3.73
600 645 3.596214 ACAGAAAATTAGCGATGGACGT 58.404 40.909 0.00 0.00 44.60 4.34
604 649 1.953559 AATTAGCGATGGACGTGCAT 58.046 45.000 23.41 23.41 44.60 3.96
628 684 6.509418 AAGCACTGAAGACTTTTTGTTACA 57.491 33.333 0.00 0.00 0.00 2.41
636 692 8.731275 TGAAGACTTTTTGTTACATGAAGAGA 57.269 30.769 0.00 0.00 0.00 3.10
637 693 8.612619 TGAAGACTTTTTGTTACATGAAGAGAC 58.387 33.333 0.00 0.37 0.00 3.36
679 755 8.068893 GCAATTGGCAATATATGTTCTTTCAG 57.931 34.615 14.05 0.00 43.97 3.02
680 756 7.170320 GCAATTGGCAATATATGTTCTTTCAGG 59.830 37.037 14.05 0.00 43.97 3.86
681 757 6.713762 TTGGCAATATATGTTCTTTCAGGG 57.286 37.500 0.00 0.00 0.00 4.45
682 758 6.012337 TGGCAATATATGTTCTTTCAGGGA 57.988 37.500 0.00 0.00 0.00 4.20
683 759 6.430864 TGGCAATATATGTTCTTTCAGGGAA 58.569 36.000 0.00 0.00 0.00 3.97
684 760 6.547141 TGGCAATATATGTTCTTTCAGGGAAG 59.453 38.462 0.00 0.00 0.00 3.46
685 761 6.442112 GCAATATATGTTCTTTCAGGGAAGC 58.558 40.000 0.00 0.00 0.00 3.86
686 762 6.662616 CAATATATGTTCTTTCAGGGAAGCG 58.337 40.000 0.00 0.00 0.00 4.68
687 763 2.859165 ATGTTCTTTCAGGGAAGCGA 57.141 45.000 0.00 0.00 0.00 4.93
688 764 2.169832 TGTTCTTTCAGGGAAGCGAG 57.830 50.000 0.00 0.00 0.00 5.03
689 765 1.416401 TGTTCTTTCAGGGAAGCGAGT 59.584 47.619 0.00 0.00 0.00 4.18
690 766 2.070028 GTTCTTTCAGGGAAGCGAGTC 58.930 52.381 0.00 0.00 0.00 3.36
691 767 0.608640 TCTTTCAGGGAAGCGAGTCC 59.391 55.000 0.00 0.00 36.90 3.85
692 768 0.737715 CTTTCAGGGAAGCGAGTCCG 60.738 60.000 0.00 0.00 38.72 4.79
693 769 1.469335 TTTCAGGGAAGCGAGTCCGT 61.469 55.000 0.00 0.00 38.72 4.69
694 770 1.469335 TTCAGGGAAGCGAGTCCGTT 61.469 55.000 0.00 0.00 38.72 4.44
695 771 1.004918 CAGGGAAGCGAGTCCGTTT 60.005 57.895 0.00 0.00 41.82 3.60
696 772 0.602905 CAGGGAAGCGAGTCCGTTTT 60.603 55.000 0.00 0.00 39.29 2.43
697 773 0.320508 AGGGAAGCGAGTCCGTTTTC 60.321 55.000 0.00 0.00 39.29 2.29
698 774 0.320508 GGGAAGCGAGTCCGTTTTCT 60.321 55.000 0.00 0.00 39.29 2.52
699 775 1.069255 GGAAGCGAGTCCGTTTTCTC 58.931 55.000 0.00 0.00 39.29 2.87
700 776 1.604693 GGAAGCGAGTCCGTTTTCTCA 60.605 52.381 0.00 0.00 39.29 3.27
701 777 2.132762 GAAGCGAGTCCGTTTTCTCAA 58.867 47.619 0.00 0.00 39.29 3.02
702 778 2.234300 AGCGAGTCCGTTTTCTCAAA 57.766 45.000 0.00 0.00 38.24 2.69
703 779 2.557317 AGCGAGTCCGTTTTCTCAAAA 58.443 42.857 0.00 0.00 38.24 2.44
704 780 2.940410 AGCGAGTCCGTTTTCTCAAAAA 59.060 40.909 0.00 0.00 38.24 1.94
734 810 5.485662 AAGGAAGCGAATCCGAAAAATAG 57.514 39.130 1.76 0.00 44.60 1.73
950 1026 2.202623 GACTCGTCGAATGCGGCT 60.203 61.111 0.00 0.00 40.67 5.52
1111 1187 6.043706 CCCTATCAATCCCTGACATCTAAACT 59.956 42.308 0.00 0.00 36.69 2.66
1682 1767 2.269172 TGTTTGCAGCAATGTGTTGTG 58.731 42.857 9.12 0.00 37.65 3.33
1687 1772 2.166050 TGCAGCAATGTGTTGTGAAACT 59.834 40.909 0.00 0.00 38.04 2.66
1713 1798 3.791973 AGGAGCATTACTCTCAAGTCG 57.208 47.619 0.00 0.00 45.48 4.18
1770 1855 8.910351 ATTATTCCTAGCTCTGTTTCATAACC 57.090 34.615 0.00 0.00 33.15 2.85
2401 3045 1.896220 TGTCCATGGAAGTCAGCAAC 58.104 50.000 18.20 1.27 0.00 4.17
2568 3212 5.245301 TGAACGGAGGGAGTACAATATATGG 59.755 44.000 0.00 0.00 0.00 2.74
2642 3286 9.974980 TTTGAACTTTTGTTTCTTCTTGTAACT 57.025 25.926 0.00 0.00 43.66 2.24
2812 3456 6.460781 ACGGAAGTGACTGAAATATGTGTAA 58.539 36.000 0.00 0.00 46.97 2.41
3008 3657 4.695217 TCTTGTTTGTCTTTGTGTGGTC 57.305 40.909 0.00 0.00 0.00 4.02
3013 3662 4.156922 TGTTTGTCTTTGTGTGGTCGAAAT 59.843 37.500 0.00 0.00 0.00 2.17
3014 3663 4.545823 TTGTCTTTGTGTGGTCGAAATC 57.454 40.909 0.00 0.00 0.00 2.17
3191 3840 1.331756 CGGGATAATGTTGCACAGCTC 59.668 52.381 0.00 0.00 0.00 4.09
3248 3899 6.959639 TTAGATGAACACTTGAGCCTTTTT 57.040 33.333 0.00 0.00 0.00 1.94
3264 3915 4.371786 CCTTTTTCTTTTGGGTGCTTCTC 58.628 43.478 0.00 0.00 0.00 2.87
3278 3929 3.868077 GTGCTTCTCCTATGCTTACAGTG 59.132 47.826 0.00 0.00 0.00 3.66
3546 4197 4.199310 TGACTTACCCATGCTTATGCTTC 58.801 43.478 1.96 0.00 40.48 3.86
3639 4290 6.323737 TCTTTATAATCCGAAGAGAGGGGAT 58.676 40.000 0.00 0.00 42.25 3.85
3938 4590 7.656707 TTCTTGGCATCTTTTAAAGATTTGC 57.343 32.000 19.30 19.30 45.75 3.68
4151 4803 1.227823 TGTGGGGACTTCAACGCTG 60.228 57.895 0.00 0.00 0.00 5.18
4623 5278 2.225491 CCTTTACACACGACCAATGGTG 59.775 50.000 10.84 4.90 40.21 4.17
5014 5669 5.550232 TCACAAACTGATGTATGTGATGC 57.450 39.130 3.52 0.00 45.14 3.91
5049 5704 6.527023 GTCAGATTCAAGTGAAGCAATTGATG 59.473 38.462 10.34 7.10 45.43 3.07
5070 5725 3.327757 TGGCAGACACCTACTTTCATCTT 59.672 43.478 0.00 0.00 0.00 2.40
5119 5774 6.380274 TCTGTCCGAGAATTAAGAGGTGTTAT 59.620 38.462 0.00 0.00 0.00 1.89
5121 5776 5.984323 GTCCGAGAATTAAGAGGTGTTATCC 59.016 44.000 0.00 0.00 0.00 2.59
6056 6711 4.370364 TTTCAGGCTTTTGTGAGAACAC 57.630 40.909 0.00 0.00 46.09 3.32
6367 7024 8.985894 GGATTCCCCACAAAGGTACTACCTTG 62.986 50.000 19.44 15.33 45.72 3.61
6753 9649 2.046292 TGGGGAAGTGATCATATCGCA 58.954 47.619 21.26 13.50 42.11 5.10
6803 9699 7.010923 GGAATGATGTTCATGAGACTGTAAGAC 59.989 40.741 0.00 0.00 37.15 3.01
6889 9786 6.950842 TCAGGCGAAATAATCATATCCAGAT 58.049 36.000 0.00 0.00 0.00 2.90
6895 9792 8.886719 GCGAAATAATCATATCCAGATCAATCA 58.113 33.333 0.00 0.00 0.00 2.57
7336 10357 9.826574 TCGAAATAAGCAGGTGTAGTTAATATT 57.173 29.630 0.00 0.00 0.00 1.28
7376 10397 8.029782 TGCTACATACACCCTTTATTCACTAT 57.970 34.615 0.00 0.00 0.00 2.12
7378 10400 9.338622 GCTACATACACCCTTTATTCACTATTT 57.661 33.333 0.00 0.00 0.00 1.40
7503 11619 3.047796 GCACACTTGCTTCATTCAACAG 58.952 45.455 0.00 0.00 46.17 3.16
7613 11866 5.748630 GCCCGAGAATTAAAATTGCTTTAGG 59.251 40.000 0.00 0.00 31.12 2.69
7614 11867 5.748630 CCCGAGAATTAAAATTGCTTTAGGC 59.251 40.000 0.00 0.00 42.22 3.93
7615 11868 6.405842 CCCGAGAATTAAAATTGCTTTAGGCT 60.406 38.462 0.00 0.00 42.39 4.58
7616 11869 7.201785 CCCGAGAATTAAAATTGCTTTAGGCTA 60.202 37.037 0.00 0.00 42.39 3.93
7617 11870 8.352942 CCGAGAATTAAAATTGCTTTAGGCTAT 58.647 33.333 0.00 0.00 42.39 2.97
7618 11871 9.173939 CGAGAATTAAAATTGCTTTAGGCTATG 57.826 33.333 0.00 0.00 42.39 2.23
7622 11875 8.856490 ATTAAAATTGCTTTAGGCTATGTTCG 57.144 30.769 0.00 0.00 42.39 3.95
7623 11876 4.900635 AATTGCTTTAGGCTATGTTCGG 57.099 40.909 0.00 0.00 42.39 4.30
7624 11877 3.343941 TTGCTTTAGGCTATGTTCGGT 57.656 42.857 0.00 0.00 42.39 4.69
7625 11878 3.343941 TGCTTTAGGCTATGTTCGGTT 57.656 42.857 0.00 0.00 42.39 4.44
7626 11879 4.475051 TGCTTTAGGCTATGTTCGGTTA 57.525 40.909 0.00 0.00 42.39 2.85
7627 11880 5.031066 TGCTTTAGGCTATGTTCGGTTAT 57.969 39.130 0.00 0.00 42.39 1.89
7628 11881 5.054477 TGCTTTAGGCTATGTTCGGTTATC 58.946 41.667 0.00 0.00 42.39 1.75
7629 11882 4.451435 GCTTTAGGCTATGTTCGGTTATCC 59.549 45.833 0.00 0.00 38.06 2.59
7630 11883 4.612264 TTAGGCTATGTTCGGTTATCCC 57.388 45.455 0.00 0.00 0.00 3.85
7631 11884 1.697982 AGGCTATGTTCGGTTATCCCC 59.302 52.381 0.00 0.00 0.00 4.81
7632 11885 1.418637 GGCTATGTTCGGTTATCCCCA 59.581 52.381 0.00 0.00 0.00 4.96
7633 11886 2.490991 GCTATGTTCGGTTATCCCCAC 58.509 52.381 0.00 0.00 0.00 4.61
7634 11887 2.809299 GCTATGTTCGGTTATCCCCACC 60.809 54.545 0.00 0.00 0.00 4.61
7635 11888 0.549469 ATGTTCGGTTATCCCCACCC 59.451 55.000 0.00 0.00 0.00 4.61
7636 11889 1.225426 GTTCGGTTATCCCCACCCC 59.775 63.158 0.00 0.00 0.00 4.95
7637 11890 2.002407 TTCGGTTATCCCCACCCCC 61.002 63.158 0.00 0.00 0.00 5.40
7638 11891 3.868985 CGGTTATCCCCACCCCCG 61.869 72.222 0.00 0.00 0.00 5.73
7639 11892 4.199672 GGTTATCCCCACCCCCGC 62.200 72.222 0.00 0.00 0.00 6.13
7640 11893 4.199672 GTTATCCCCACCCCCGCC 62.200 72.222 0.00 0.00 0.00 6.13
7657 11910 2.202837 CGGGATCGGGTCGAAACC 60.203 66.667 0.00 0.00 45.65 3.27
7665 11918 4.462280 GGTCGAAACCCCGCCGAT 62.462 66.667 0.00 0.00 39.93 4.18
7666 11919 2.889018 GTCGAAACCCCGCCGATC 60.889 66.667 0.00 0.00 34.71 3.69
7667 11920 4.151582 TCGAAACCCCGCCGATCC 62.152 66.667 0.00 0.00 0.00 3.36
7669 11922 4.870012 GAAACCCCGCCGATCCCC 62.870 72.222 0.00 0.00 0.00 4.81
7677 11930 4.419921 GCCGATCCCCGTGGGTTT 62.420 66.667 3.83 0.00 44.74 3.27
7678 11931 2.124860 CCGATCCCCGTGGGTTTC 60.125 66.667 3.83 0.00 44.74 2.78
7679 11932 2.666098 CCGATCCCCGTGGGTTTCT 61.666 63.158 3.83 0.00 44.74 2.52
7680 11933 1.153429 CGATCCCCGTGGGTTTCTC 60.153 63.158 3.83 0.00 44.74 2.87
7681 11934 1.223763 GATCCCCGTGGGTTTCTCC 59.776 63.158 3.83 0.00 44.74 3.71
7710 11963 2.995574 CGGGTCCCGGTCTGTCTT 60.996 66.667 23.59 0.00 44.15 3.01
7711 11964 1.679977 CGGGTCCCGGTCTGTCTTA 60.680 63.158 23.59 0.00 44.15 2.10
7712 11965 1.041447 CGGGTCCCGGTCTGTCTTAT 61.041 60.000 23.59 0.00 44.15 1.73
7713 11966 1.751733 CGGGTCCCGGTCTGTCTTATA 60.752 57.143 23.59 0.00 44.15 0.98
7714 11967 2.391678 GGGTCCCGGTCTGTCTTATAA 58.608 52.381 0.00 0.00 0.00 0.98
7715 11968 2.102084 GGGTCCCGGTCTGTCTTATAAC 59.898 54.545 0.00 0.00 0.00 1.89
7716 11969 2.762327 GGTCCCGGTCTGTCTTATAACA 59.238 50.000 0.00 0.00 0.00 2.41
7717 11970 3.181478 GGTCCCGGTCTGTCTTATAACAG 60.181 52.174 0.00 0.00 46.54 3.16
7718 11971 2.429610 TCCCGGTCTGTCTTATAACAGC 59.570 50.000 0.00 0.00 45.12 4.40
7719 11972 2.431057 CCCGGTCTGTCTTATAACAGCT 59.569 50.000 0.00 0.00 45.12 4.24
7720 11973 3.118738 CCCGGTCTGTCTTATAACAGCTT 60.119 47.826 0.00 0.00 45.12 3.74
7721 11974 4.113354 CCGGTCTGTCTTATAACAGCTTC 58.887 47.826 0.00 0.00 45.12 3.86
7722 11975 4.113354 CGGTCTGTCTTATAACAGCTTCC 58.887 47.826 0.39 2.92 45.12 3.46
7723 11976 4.113354 GGTCTGTCTTATAACAGCTTCCG 58.887 47.826 0.39 0.00 45.12 4.30
7724 11977 4.113354 GTCTGTCTTATAACAGCTTCCGG 58.887 47.826 0.00 0.00 45.12 5.14
7725 11978 3.767673 TCTGTCTTATAACAGCTTCCGGT 59.232 43.478 0.00 0.00 45.12 5.28
7726 11979 4.222145 TCTGTCTTATAACAGCTTCCGGTT 59.778 41.667 0.00 0.00 45.12 4.44
7727 11980 5.419788 TCTGTCTTATAACAGCTTCCGGTTA 59.580 40.000 0.00 0.00 45.12 2.85
7728 11981 6.040209 TGTCTTATAACAGCTTCCGGTTAA 57.960 37.500 0.00 0.00 35.72 2.01
7729 11982 6.465948 TGTCTTATAACAGCTTCCGGTTAAA 58.534 36.000 0.00 0.00 35.72 1.52
7730 11983 6.369615 TGTCTTATAACAGCTTCCGGTTAAAC 59.630 38.462 0.00 0.00 35.72 2.01
7731 11984 5.876460 TCTTATAACAGCTTCCGGTTAAACC 59.124 40.000 0.00 0.00 35.72 3.27
7732 11985 1.612676 AACAGCTTCCGGTTAAACCC 58.387 50.000 0.00 0.00 33.75 4.11
7746 11999 4.055178 ACCCGGCCGGTATTAGTT 57.945 55.556 40.52 14.12 45.97 2.24
7747 12000 1.825341 ACCCGGCCGGTATTAGTTC 59.175 57.895 40.52 0.00 45.97 3.01
7748 12001 0.688749 ACCCGGCCGGTATTAGTTCT 60.689 55.000 40.52 8.28 45.97 3.01
7749 12002 0.033090 CCCGGCCGGTATTAGTTCTC 59.967 60.000 40.52 0.00 0.00 2.87
7750 12003 1.038280 CCGGCCGGTATTAGTTCTCT 58.962 55.000 36.64 0.00 0.00 3.10
7751 12004 1.000496 CCGGCCGGTATTAGTTCTCTC 60.000 57.143 36.64 0.00 0.00 3.20
7752 12005 1.000496 CGGCCGGTATTAGTTCTCTCC 60.000 57.143 20.10 0.00 0.00 3.71
7753 12006 1.343789 GGCCGGTATTAGTTCTCTCCC 59.656 57.143 1.90 0.00 0.00 4.30
7754 12007 2.037144 GCCGGTATTAGTTCTCTCCCA 58.963 52.381 1.90 0.00 0.00 4.37
7755 12008 2.433239 GCCGGTATTAGTTCTCTCCCAA 59.567 50.000 1.90 0.00 0.00 4.12
7756 12009 3.118519 GCCGGTATTAGTTCTCTCCCAAA 60.119 47.826 1.90 0.00 0.00 3.28
7757 12010 4.439968 CCGGTATTAGTTCTCTCCCAAAC 58.560 47.826 0.00 0.00 0.00 2.93
7758 12011 4.439968 CGGTATTAGTTCTCTCCCAAACC 58.560 47.826 0.00 0.00 0.00 3.27
7759 12012 4.682589 CGGTATTAGTTCTCTCCCAAACCC 60.683 50.000 0.00 0.00 0.00 4.11
7760 12013 4.384978 GGTATTAGTTCTCTCCCAAACCCC 60.385 50.000 0.00 0.00 0.00 4.95
7761 12014 1.272807 TAGTTCTCTCCCAAACCCCG 58.727 55.000 0.00 0.00 0.00 5.73
7762 12015 0.767060 AGTTCTCTCCCAAACCCCGT 60.767 55.000 0.00 0.00 0.00 5.28
7763 12016 0.605589 GTTCTCTCCCAAACCCCGTG 60.606 60.000 0.00 0.00 0.00 4.94
7764 12017 1.774894 TTCTCTCCCAAACCCCGTGG 61.775 60.000 0.00 0.00 35.77 4.94
7765 12018 2.122324 TCTCCCAAACCCCGTGGA 60.122 61.111 0.00 0.00 38.54 4.02
7766 12019 1.770927 TCTCCCAAACCCCGTGGAA 60.771 57.895 0.00 0.00 38.54 3.53
7767 12020 1.151908 CTCCCAAACCCCGTGGAAA 59.848 57.895 0.00 0.00 38.54 3.13
7768 12021 0.251608 CTCCCAAACCCCGTGGAAAT 60.252 55.000 0.00 0.00 38.54 2.17
7769 12022 0.251430 TCCCAAACCCCGTGGAAATC 60.251 55.000 0.00 0.00 38.54 2.17
7770 12023 0.540830 CCCAAACCCCGTGGAAATCA 60.541 55.000 0.00 0.00 38.54 2.57
7771 12024 0.601057 CCAAACCCCGTGGAAATCAC 59.399 55.000 0.00 0.00 42.74 3.06
7772 12025 1.323412 CAAACCCCGTGGAAATCACA 58.677 50.000 0.00 0.00 46.36 3.58
7773 12026 1.269448 CAAACCCCGTGGAAATCACAG 59.731 52.381 0.00 0.00 46.36 3.66
7774 12027 0.251165 AACCCCGTGGAAATCACAGG 60.251 55.000 0.00 0.00 46.36 4.00
7775 12028 4.319133 CCCGTGGAAATCACAGGG 57.681 61.111 10.05 10.05 46.36 4.45
7777 12030 3.642938 CCGTGGAAATCACAGGGAA 57.357 52.632 0.00 0.00 46.36 3.97
7778 12031 1.904287 CCGTGGAAATCACAGGGAAA 58.096 50.000 0.00 0.00 46.36 3.13
7779 12032 1.539827 CCGTGGAAATCACAGGGAAAC 59.460 52.381 0.00 0.00 46.36 2.78
7780 12033 2.226330 CGTGGAAATCACAGGGAAACA 58.774 47.619 0.00 0.00 46.36 2.83
7781 12034 2.621055 CGTGGAAATCACAGGGAAACAA 59.379 45.455 0.00 0.00 46.36 2.83
7782 12035 3.550030 CGTGGAAATCACAGGGAAACAAC 60.550 47.826 0.00 0.00 46.36 3.32
7783 12036 2.962421 TGGAAATCACAGGGAAACAACC 59.038 45.455 0.00 0.00 0.00 3.77
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.320771 TCTTGCTCCGCTTCCTCAAC 60.321 55.000 0.00 0.00 0.00 3.18
1 2 0.036952 CTCTTGCTCCGCTTCCTCAA 60.037 55.000 0.00 0.00 0.00 3.02
2 3 1.593787 CTCTTGCTCCGCTTCCTCA 59.406 57.895 0.00 0.00 0.00 3.86
3 4 1.153469 CCTCTTGCTCCGCTTCCTC 60.153 63.158 0.00 0.00 0.00 3.71
4 5 2.664081 CCCTCTTGCTCCGCTTCCT 61.664 63.158 0.00 0.00 0.00 3.36
5 6 2.124942 CCCTCTTGCTCCGCTTCC 60.125 66.667 0.00 0.00 0.00 3.46
6 7 2.124942 CCCCTCTTGCTCCGCTTC 60.125 66.667 0.00 0.00 0.00 3.86
7 8 3.721706 CCCCCTCTTGCTCCGCTT 61.722 66.667 0.00 0.00 0.00 4.68
11 12 4.168291 CTCGCCCCCTCTTGCTCC 62.168 72.222 0.00 0.00 0.00 4.70
12 13 4.168291 CCTCGCCCCCTCTTGCTC 62.168 72.222 0.00 0.00 0.00 4.26
15 16 4.101448 CACCCTCGCCCCCTCTTG 62.101 72.222 0.00 0.00 0.00 3.02
93 94 1.058695 CGTTATCGCTTGTTCGACCAC 59.941 52.381 0.00 0.00 41.62 4.16
97 98 1.253116 CGTCGTTATCGCTTGTTCGA 58.747 50.000 0.00 0.00 43.09 3.71
102 103 1.631072 CTGCCGTCGTTATCGCTTG 59.369 57.895 0.00 0.00 36.96 4.01
108 109 0.175760 ACATCTGCTGCCGTCGTTAT 59.824 50.000 0.00 0.00 0.00 1.89
109 110 0.457853 GACATCTGCTGCCGTCGTTA 60.458 55.000 0.00 0.00 0.00 3.18
110 111 1.738099 GACATCTGCTGCCGTCGTT 60.738 57.895 0.00 0.00 0.00 3.85
111 112 2.125912 GACATCTGCTGCCGTCGT 60.126 61.111 0.00 0.00 0.00 4.34
112 113 3.250323 CGACATCTGCTGCCGTCG 61.250 66.667 16.00 16.00 44.34 5.12
113 114 3.558411 GCGACATCTGCTGCCGTC 61.558 66.667 0.00 0.00 0.00 4.79
145 155 1.770110 TTGGCTCTGGTCACCCACT 60.770 57.895 0.00 0.00 35.17 4.00
157 167 4.410400 CCCCCGGTGTCTTGGCTC 62.410 72.222 0.00 0.00 0.00 4.70
165 175 3.728373 GGAGAATGCCCCCGGTGT 61.728 66.667 0.00 0.00 0.00 4.16
236 248 2.124570 AAGGAGCATCGCCGCAAT 60.125 55.556 0.00 0.00 34.37 3.56
245 257 1.000396 GGAGTTGGCCAAGGAGCAT 60.000 57.895 21.21 0.22 0.00 3.79
272 284 4.116328 CTCGAGCCGCGTCCTGAA 62.116 66.667 4.92 0.00 41.80 3.02
283 295 0.672889 TGAGATCCATCTGCTCGAGC 59.327 55.000 30.42 30.42 37.25 5.03
324 336 4.394078 TCGTCGTCGCCTCCAACG 62.394 66.667 0.00 0.00 40.17 4.10
327 339 2.981909 AAGTCGTCGTCGCCTCCA 60.982 61.111 0.00 0.00 36.96 3.86
329 341 2.504244 CCAAGTCGTCGTCGCCTC 60.504 66.667 0.00 0.00 36.96 4.70
330 342 2.979197 CTCCAAGTCGTCGTCGCCT 61.979 63.158 0.00 0.00 36.96 5.52
334 360 1.512310 CGCTCTCCAAGTCGTCGTC 60.512 63.158 0.00 0.00 0.00 4.20
343 369 4.778415 GACGCTCGCGCTCTCCAA 62.778 66.667 11.65 0.00 44.19 3.53
379 406 2.181021 GGTCGCACAGTCCTACCG 59.819 66.667 0.00 0.00 0.00 4.02
388 415 0.384309 GTATCCATCGAGGTCGCACA 59.616 55.000 0.00 0.00 39.60 4.57
390 417 0.816421 TCGTATCCATCGAGGTCGCA 60.816 55.000 0.00 0.00 39.60 5.10
392 419 1.201932 CGATCGTATCCATCGAGGTCG 60.202 57.143 7.03 0.00 44.95 4.79
394 421 2.180432 TCGATCGTATCCATCGAGGT 57.820 50.000 15.94 0.00 45.56 3.85
405 432 1.454976 CCTCCCCTCCTCGATCGTA 59.545 63.158 15.94 0.90 0.00 3.43
406 433 2.196229 CCTCCCCTCCTCGATCGT 59.804 66.667 15.94 0.00 0.00 3.73
410 437 4.507916 CTCGCCTCCCCTCCTCGA 62.508 72.222 0.00 0.00 0.00 4.04
470 501 2.833913 CCCTAGCCCGGGCATGAAT 61.834 63.158 45.13 27.91 44.88 2.57
556 587 4.408396 TCCCCTAGCCCTCGCCAA 62.408 66.667 0.00 0.00 34.57 4.52
557 588 4.860881 CTCCCCTAGCCCTCGCCA 62.861 72.222 0.00 0.00 34.57 5.69
604 649 7.618502 TGTAACAAAAAGTCTTCAGTGCTTA 57.381 32.000 0.00 0.00 0.00 3.09
614 659 9.482627 CTAGTCTCTTCATGTAACAAAAAGTCT 57.517 33.333 0.00 0.00 0.00 3.24
623 679 7.627298 TCTGTACCTAGTCTCTTCATGTAAC 57.373 40.000 0.00 0.00 0.00 2.50
628 684 6.097554 CACCAATCTGTACCTAGTCTCTTCAT 59.902 42.308 0.00 0.00 0.00 2.57
636 692 2.546899 TGCCACCAATCTGTACCTAGT 58.453 47.619 0.00 0.00 0.00 2.57
637 693 3.627395 TTGCCACCAATCTGTACCTAG 57.373 47.619 0.00 0.00 0.00 3.02
679 755 0.320508 AGAAAACGGACTCGCTTCCC 60.321 55.000 0.00 0.00 40.63 3.97
680 756 1.069255 GAGAAAACGGACTCGCTTCC 58.931 55.000 0.00 0.00 40.63 3.46
681 757 1.779569 TGAGAAAACGGACTCGCTTC 58.220 50.000 0.00 0.00 40.63 3.86
682 758 2.234300 TTGAGAAAACGGACTCGCTT 57.766 45.000 0.00 0.00 40.63 4.68
683 759 2.234300 TTTGAGAAAACGGACTCGCT 57.766 45.000 0.00 0.00 40.63 4.93
684 760 3.328237 TTTTTGAGAAAACGGACTCGC 57.672 42.857 0.00 0.00 40.63 5.03
709 785 4.577834 TTTTCGGATTCGCTTCCTTTTT 57.422 36.364 0.00 0.00 36.13 1.94
710 786 4.577834 TTTTTCGGATTCGCTTCCTTTT 57.422 36.364 0.00 0.00 36.13 2.27
711 787 4.783764 ATTTTTCGGATTCGCTTCCTTT 57.216 36.364 0.00 0.00 36.13 3.11
712 788 4.941873 ACTATTTTTCGGATTCGCTTCCTT 59.058 37.500 0.00 0.00 36.13 3.36
713 789 4.332819 CACTATTTTTCGGATTCGCTTCCT 59.667 41.667 0.00 0.00 36.13 3.36
720 796 4.094887 TCTGCAGCACTATTTTTCGGATTC 59.905 41.667 9.47 0.00 0.00 2.52
721 797 4.009675 TCTGCAGCACTATTTTTCGGATT 58.990 39.130 9.47 0.00 0.00 3.01
729 805 3.629398 GCCTTGTATCTGCAGCACTATTT 59.371 43.478 9.47 0.00 0.00 1.40
734 810 1.386533 ATGCCTTGTATCTGCAGCAC 58.613 50.000 9.47 10.05 38.58 4.40
1111 1187 3.496331 CAAAAGGGCAGAAGGGTAAAGA 58.504 45.455 0.00 0.00 0.00 2.52
1561 1646 1.801332 CAGACTTGGATGCAGCTGC 59.199 57.895 31.89 31.89 42.50 5.25
1682 1767 8.580720 TGAGAGTAATGCTCCTATGATAGTTTC 58.419 37.037 0.00 0.00 45.21 2.78
1687 1772 7.094592 CGACTTGAGAGTAATGCTCCTATGATA 60.095 40.741 0.00 0.00 45.21 2.15
2013 2635 5.595885 AGAATAATGAGGATCTCACACACG 58.404 41.667 0.00 0.00 43.63 4.49
2361 2983 9.590828 TGGACAACATATATTCATCAATTGGAT 57.409 29.630 5.42 0.00 36.39 3.41
2401 3045 3.087031 TGTGAACGGAGGGAGTACTTAG 58.913 50.000 0.00 0.00 0.00 2.18
2642 3286 9.186837 CTACCTCCTACAAGTACAAAGAAGATA 57.813 37.037 0.00 0.00 0.00 1.98
2871 3520 4.023792 GTGCAAATCACAGTCATGAACTCA 60.024 41.667 0.00 0.00 44.98 3.41
3248 3899 3.873801 GCATAGGAGAAGCACCCAAAAGA 60.874 47.826 0.00 0.00 0.00 2.52
3264 3915 5.409643 GCATACAACACTGTAAGCATAGG 57.590 43.478 7.43 0.00 46.92 2.57
3278 3929 3.382546 AGCAGATTTGGATGGCATACAAC 59.617 43.478 24.44 14.12 31.51 3.32
3546 4197 4.926140 AGGGCTTTGAGACAAAAAGAAG 57.074 40.909 0.25 0.00 36.88 2.85
3639 4290 9.482175 AAACAATATACCTGGCCAAGTTTTATA 57.518 29.630 13.35 5.12 0.00 0.98
3938 4590 0.972471 GAGGGGAAAGGCACAATGGG 60.972 60.000 0.00 0.00 0.00 4.00
4151 4803 6.979465 AGTACTAGAATATTACCTTCGGTGC 58.021 40.000 0.00 0.00 36.19 5.01
4623 5278 6.490721 TCTCGAGTAATTATTCTTCCCTCTCC 59.509 42.308 13.13 0.00 0.00 3.71
5014 5669 0.250234 TGAATCTGACTGGAAGGCCG 59.750 55.000 0.00 0.00 46.74 6.13
5049 5704 3.618690 AGATGAAAGTAGGTGTCTGCC 57.381 47.619 0.00 0.00 0.00 4.85
5070 5725 7.834681 AGAATCTATACGCCCAGATAGTTCATA 59.165 37.037 0.00 0.00 31.25 2.15
5119 5774 4.523083 CTGGGAATTTGAATCCTTACGGA 58.477 43.478 0.00 0.00 45.16 4.69
5121 5776 3.632145 CCCTGGGAATTTGAATCCTTACG 59.368 47.826 7.01 0.00 37.14 3.18
5296 5951 1.762957 GGGATGATTCTGACTCGGGAA 59.237 52.381 0.00 0.00 0.00 3.97
6056 6711 5.700832 TGAAGTTATCAGTAAGCACCAACTG 59.299 40.000 0.00 0.00 43.63 3.16
6753 9649 2.034879 CGCCAGTTCGCAGACCAAT 61.035 57.895 0.00 0.00 34.32 3.16
6803 9699 2.449464 TCAATGGCACTGAAATCCCTG 58.551 47.619 0.00 0.00 0.00 4.45
6832 9728 2.993899 GGTAGTCGTTGTCTTGTCATGG 59.006 50.000 0.00 0.00 0.00 3.66
6889 9786 4.641396 ACGGAGAAATGTTCAGTGATTGA 58.359 39.130 0.00 0.00 0.00 2.57
6895 9792 4.641396 TGATTGACGGAGAAATGTTCAGT 58.359 39.130 0.00 0.00 0.00 3.41
7153 10093 9.559732 CAACTATTCCAGATTTACATCATGGTA 57.440 33.333 0.00 0.00 33.07 3.25
7163 10181 8.325787 TCAAAGCTACCAACTATTCCAGATTTA 58.674 33.333 0.00 0.00 0.00 1.40
7376 10397 9.926158 TGTATGTAGGACGTTTTGATAGTAAAA 57.074 29.630 0.00 0.00 0.00 1.52
7503 11619 7.749126 AGCTTCTTTTGCAATTATACAACGTAC 59.251 33.333 0.00 0.00 0.00 3.67
7613 11866 2.490991 GTGGGGATAACCGAACATAGC 58.509 52.381 0.00 0.00 41.60 2.97
7614 11867 2.224450 GGGTGGGGATAACCGAACATAG 60.224 54.545 0.00 0.00 36.16 2.23
7615 11868 1.770061 GGGTGGGGATAACCGAACATA 59.230 52.381 0.00 0.00 36.16 2.29
7616 11869 0.549469 GGGTGGGGATAACCGAACAT 59.451 55.000 0.00 0.00 36.16 2.71
7617 11870 1.564483 GGGGTGGGGATAACCGAACA 61.564 60.000 0.00 0.00 36.16 3.18
7618 11871 1.225426 GGGGTGGGGATAACCGAAC 59.775 63.158 0.00 0.00 41.60 3.95
7619 11872 2.002407 GGGGGTGGGGATAACCGAA 61.002 63.158 0.00 0.00 41.60 4.30
7620 11873 2.367242 GGGGGTGGGGATAACCGA 60.367 66.667 0.00 0.00 41.60 4.69
7621 11874 3.868985 CGGGGGTGGGGATAACCG 61.869 72.222 0.00 0.00 41.60 4.44
7622 11875 4.199672 GCGGGGGTGGGGATAACC 62.200 72.222 0.00 0.00 36.94 2.85
7623 11876 4.199672 GGCGGGGGTGGGGATAAC 62.200 72.222 0.00 0.00 0.00 1.89
7640 11893 2.202837 GGTTTCGACCCGATCCCG 60.203 66.667 0.00 0.00 35.23 5.14
7641 11894 2.188731 GGGTTTCGACCCGATCCC 59.811 66.667 11.89 11.89 40.59 3.85
7648 11901 4.462280 ATCGGCGGGGTTTCGACC 62.462 66.667 7.21 0.00 35.70 4.79
7649 11902 2.889018 GATCGGCGGGGTTTCGAC 60.889 66.667 7.21 0.00 35.70 4.20
7650 11903 4.151582 GGATCGGCGGGGTTTCGA 62.152 66.667 7.21 0.00 37.33 3.71
7652 11905 4.870012 GGGGATCGGCGGGGTTTC 62.870 72.222 7.21 0.00 0.00 2.78
7694 11947 2.077687 TATAAGACAGACCGGGACCC 57.922 55.000 6.32 0.00 0.00 4.46
7695 11948 2.762327 TGTTATAAGACAGACCGGGACC 59.238 50.000 6.32 0.00 0.00 4.46
7705 11958 4.546829 AACCGGAAGCTGTTATAAGACA 57.453 40.909 9.46 0.00 0.00 3.41
7706 11959 6.183360 GGTTTAACCGGAAGCTGTTATAAGAC 60.183 42.308 9.46 0.00 0.00 3.01
7707 11960 5.876460 GGTTTAACCGGAAGCTGTTATAAGA 59.124 40.000 9.46 0.00 0.00 2.10
7708 11961 5.065602 GGGTTTAACCGGAAGCTGTTATAAG 59.934 44.000 9.46 0.00 39.83 1.73
7709 11962 4.943093 GGGTTTAACCGGAAGCTGTTATAA 59.057 41.667 9.46 0.00 39.83 0.98
7710 11963 4.516323 GGGTTTAACCGGAAGCTGTTATA 58.484 43.478 9.46 0.00 39.83 0.98
7711 11964 3.349927 GGGTTTAACCGGAAGCTGTTAT 58.650 45.455 9.46 0.00 39.83 1.89
7712 11965 2.781923 GGGTTTAACCGGAAGCTGTTA 58.218 47.619 9.46 0.00 39.83 2.41
7713 11966 1.612676 GGGTTTAACCGGAAGCTGTT 58.387 50.000 9.46 0.00 39.83 3.16
7714 11967 3.334413 GGGTTTAACCGGAAGCTGT 57.666 52.632 9.46 0.00 39.83 4.40
7730 11983 0.033090 GAGAACTAATACCGGCCGGG 59.967 60.000 44.99 29.95 43.62 5.73
7731 11984 1.000496 GAGAGAACTAATACCGGCCGG 60.000 57.143 42.17 42.17 42.03 6.13
7732 11985 1.000496 GGAGAGAACTAATACCGGCCG 60.000 57.143 21.04 21.04 0.00 6.13
7733 11986 1.343789 GGGAGAGAACTAATACCGGCC 59.656 57.143 0.00 0.00 0.00 6.13
7734 11987 2.037144 TGGGAGAGAACTAATACCGGC 58.963 52.381 0.00 0.00 0.00 6.13
7735 11988 4.439968 GTTTGGGAGAGAACTAATACCGG 58.560 47.826 0.00 0.00 0.00 5.28
7736 11989 4.439968 GGTTTGGGAGAGAACTAATACCG 58.560 47.826 0.00 0.00 0.00 4.02
7737 11990 4.384978 GGGGTTTGGGAGAGAACTAATACC 60.385 50.000 0.00 0.00 0.00 2.73
7738 11991 4.682589 CGGGGTTTGGGAGAGAACTAATAC 60.683 50.000 0.00 0.00 0.00 1.89
7739 11992 3.453353 CGGGGTTTGGGAGAGAACTAATA 59.547 47.826 0.00 0.00 0.00 0.98
7740 11993 2.238898 CGGGGTTTGGGAGAGAACTAAT 59.761 50.000 0.00 0.00 0.00 1.73
7741 11994 1.626825 CGGGGTTTGGGAGAGAACTAA 59.373 52.381 0.00 0.00 0.00 2.24
7742 11995 1.272807 CGGGGTTTGGGAGAGAACTA 58.727 55.000 0.00 0.00 0.00 2.24
7743 11996 0.767060 ACGGGGTTTGGGAGAGAACT 60.767 55.000 0.00 0.00 0.00 3.01
7744 11997 0.605589 CACGGGGTTTGGGAGAGAAC 60.606 60.000 0.00 0.00 0.00 3.01
7745 11998 1.758592 CACGGGGTTTGGGAGAGAA 59.241 57.895 0.00 0.00 0.00 2.87
7746 11999 2.221299 CCACGGGGTTTGGGAGAGA 61.221 63.158 0.00 0.00 0.00 3.10
7747 12000 1.774894 TTCCACGGGGTTTGGGAGAG 61.775 60.000 2.12 0.00 34.56 3.20
7748 12001 1.354168 TTTCCACGGGGTTTGGGAGA 61.354 55.000 2.12 0.00 34.56 3.71
7749 12002 0.251608 ATTTCCACGGGGTTTGGGAG 60.252 55.000 2.12 0.00 34.56 4.30
7750 12003 0.251430 GATTTCCACGGGGTTTGGGA 60.251 55.000 2.12 0.00 34.56 4.37
7751 12004 0.540830 TGATTTCCACGGGGTTTGGG 60.541 55.000 2.12 0.00 34.56 4.12
7752 12005 0.601057 GTGATTTCCACGGGGTTTGG 59.399 55.000 2.12 0.00 35.86 3.28
7761 12014 3.243737 GGTTGTTTCCCTGTGATTTCCAC 60.244 47.826 0.00 0.00 45.88 4.02
7762 12015 2.962421 GGTTGTTTCCCTGTGATTTCCA 59.038 45.455 0.00 0.00 0.00 3.53
7763 12016 3.660501 GGTTGTTTCCCTGTGATTTCC 57.339 47.619 0.00 0.00 0.00 3.13


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

AutoCloner maintained by Alex Coulton.