Multiple sequence alignment - TraesCS5D01G134400

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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 TraesCS5D01G134400 chr5D 100.000 2954 0 0 1 2954 214361958 214359005 0.000000e+00 5456.0
1 TraesCS5D01G134400 chr5D 96.285 673 22 2 2285 2954 493585068 493584396 0.000000e+00 1101.0
2 TraesCS5D01G134400 chr5D 91.690 710 43 13 2255 2954 165243840 165243137 0.000000e+00 970.0
3 TraesCS5D01G134400 chr5D 89.801 402 30 7 2255 2648 323992 323594 3.400000e-139 505.0
4 TraesCS5D01G134400 chr5D 89.870 385 29 6 2271 2648 321710 321329 1.230000e-133 486.0
5 TraesCS5D01G134400 chr5A 95.077 1422 41 12 672 2075 280239325 280237915 0.000000e+00 2211.0
6 TraesCS5D01G134400 chr5A 92.793 444 28 2 46 489 280239972 280239533 8.930000e-180 640.0
7 TraesCS5D01G134400 chr5A 91.206 398 23 10 2255 2643 10718289 10717895 5.610000e-147 531.0
8 TraesCS5D01G134400 chr5A 89.055 402 34 4 2255 2648 10711108 10710709 9.510000e-135 490.0
9 TraesCS5D01G134400 chr5A 94.444 54 3 0 2104 2157 6498567 6498514 1.890000e-12 84.2
10 TraesCS5D01G134400 chr5B 93.198 1426 44 14 672 2075 229136259 229134865 0.000000e+00 2047.0
11 TraesCS5D01G134400 chr5B 93.607 438 24 2 52 489 229143724 229143291 0.000000e+00 651.0
12 TraesCS5D01G134400 chr5B 92.045 88 5 2 565 652 229141670 229141585 4.000000e-24 122.0
13 TraesCS5D01G134400 chr5B 100.000 28 0 0 648 675 229136342 229136315 5.000000e-03 52.8
14 TraesCS5D01G134400 chr6A 91.678 709 27 14 2254 2954 131953041 131952357 0.000000e+00 953.0
15 TraesCS5D01G134400 chr4D 91.325 634 34 14 2337 2954 462748097 462748725 0.000000e+00 846.0
16 TraesCS5D01G134400 chr4D 76.576 952 178 30 1039 1954 95876627 95877569 5.730000e-132 481.0
17 TraesCS5D01G134400 chr4D 86.408 103 9 4 2806 2905 439130274 439130174 1.120000e-19 108.0
18 TraesCS5D01G134400 chr4D 100.000 30 0 0 2254 2283 462748069 462748098 4.110000e-04 56.5
19 TraesCS5D01G134400 chr7A 95.143 350 14 3 2254 2601 735012092 735012440 1.550000e-152 549.0
20 TraesCS5D01G134400 chr7A 96.743 307 10 0 2648 2954 735012617 735012923 2.030000e-141 512.0
21 TraesCS5D01G134400 chr7A 83.168 101 14 2 2806 2905 158306829 158306731 4.060000e-14 89.8
22 TraesCS5D01G134400 chr4A 76.552 934 168 31 1062 1954 483383434 483382511 5.770000e-127 464.0
23 TraesCS5D01G134400 chr4A 89.796 98 8 2 2254 2350 522977744 522977648 1.110000e-24 124.0
24 TraesCS5D01G134400 chr1D 92.355 327 20 5 2254 2579 90582771 90583093 7.460000e-126 460.0
25 TraesCS5D01G134400 chr1D 95.057 263 9 3 2693 2951 90583426 90583688 7.620000e-111 411.0
26 TraesCS5D01G134400 chr3D 98.571 70 0 1 2190 2259 306007048 306007116 4.000000e-24 122.0


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 TraesCS5D01G134400 chr5D 214359005 214361958 2953 True 5456.00 5456 100.0000 1 2954 1 chr5D.!!$R2 2953
1 TraesCS5D01G134400 chr5D 493584396 493585068 672 True 1101.00 1101 96.2850 2285 2954 1 chr5D.!!$R3 669
2 TraesCS5D01G134400 chr5D 165243137 165243840 703 True 970.00 970 91.6900 2255 2954 1 chr5D.!!$R1 699
3 TraesCS5D01G134400 chr5D 321329 323992 2663 True 495.50 505 89.8355 2255 2648 2 chr5D.!!$R4 393
4 TraesCS5D01G134400 chr5A 280237915 280239972 2057 True 1425.50 2211 93.9350 46 2075 2 chr5A.!!$R4 2029
5 TraesCS5D01G134400 chr5B 229134865 229136342 1477 True 1049.90 2047 96.5990 648 2075 2 chr5B.!!$R1 1427
6 TraesCS5D01G134400 chr5B 229141585 229143724 2139 True 386.50 651 92.8260 52 652 2 chr5B.!!$R2 600
7 TraesCS5D01G134400 chr6A 131952357 131953041 684 True 953.00 953 91.6780 2254 2954 1 chr6A.!!$R1 700
8 TraesCS5D01G134400 chr4D 95876627 95877569 942 False 481.00 481 76.5760 1039 1954 1 chr4D.!!$F1 915
9 TraesCS5D01G134400 chr4D 462748069 462748725 656 False 451.25 846 95.6625 2254 2954 2 chr4D.!!$F2 700
10 TraesCS5D01G134400 chr7A 735012092 735012923 831 False 530.50 549 95.9430 2254 2954 2 chr7A.!!$F1 700
11 TraesCS5D01G134400 chr4A 483382511 483383434 923 True 464.00 464 76.5520 1062 1954 1 chr4A.!!$R1 892
12 TraesCS5D01G134400 chr1D 90582771 90583688 917 False 435.50 460 93.7060 2254 2951 2 chr1D.!!$F1 697

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
179 180 0.034896 CCGCAGGTACAAAGACACCT 59.965 55.0 0.0 0.0 46.29 4.0 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2033 3762 0.674895 CCTCTTCCCAACGGCTGAAG 60.675 60.0 0.0 0.0 37.44 3.02 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
30 31 3.840124 AGCTATCTTCCCTTAAACGGG 57.160 47.619 0.00 0.00 46.13 5.28
43 44 6.724893 CCTTAAACGGGATCCCATAAAAAT 57.275 37.500 30.42 10.96 35.37 1.82
44 45 7.826918 CCTTAAACGGGATCCCATAAAAATA 57.173 36.000 30.42 10.00 35.37 1.40
90 91 2.065512 CCCATGCTTTTTGTAAACGGC 58.934 47.619 0.00 0.00 0.00 5.68
118 119 5.546526 TGTTTTTCGGGTTACGGTAACTAT 58.453 37.500 25.36 0.00 44.45 2.12
119 120 5.994668 TGTTTTTCGGGTTACGGTAACTATT 59.005 36.000 25.36 0.00 44.45 1.73
120 121 6.484977 TGTTTTTCGGGTTACGGTAACTATTT 59.515 34.615 25.36 0.00 44.45 1.40
161 162 1.002430 TCATCGGATGGAGCATTAGCC 59.998 52.381 17.42 0.00 43.56 3.93
179 180 0.034896 CCGCAGGTACAAAGACACCT 59.965 55.000 0.00 0.00 46.29 4.00
200 201 1.671328 GCGGTTAGCTCCCTCAAAATC 59.329 52.381 0.00 0.00 44.04 2.17
254 255 5.231779 CGCACATGTCAAACATTCTCAAAAA 59.768 36.000 0.00 0.00 36.53 1.94
318 319 2.124983 CAGGGAGACACGCCCATG 60.125 66.667 12.56 4.92 46.18 3.66
474 475 7.145187 CGAGAACGTGAAATAATACGATTGA 57.855 36.000 3.64 0.00 42.54 2.57
475 476 7.606131 CGAGAACGTGAAATAATACGATTGAA 58.394 34.615 3.64 0.00 42.54 2.69
476 477 8.105742 CGAGAACGTGAAATAATACGATTGAAA 58.894 33.333 3.64 0.00 42.54 2.69
477 478 9.916397 GAGAACGTGAAATAATACGATTGAAAT 57.084 29.630 3.64 0.00 42.54 2.17
481 482 8.794406 ACGTGAAATAATACGATTGAAATTTGC 58.206 29.630 0.00 0.00 42.54 3.68
482 483 7.985051 CGTGAAATAATACGATTGAAATTTGCG 59.015 33.333 0.00 0.00 42.54 4.85
483 484 9.005180 GTGAAATAATACGATTGAAATTTGCGA 57.995 29.630 0.00 0.00 0.00 5.10
484 485 9.220635 TGAAATAATACGATTGAAATTTGCGAG 57.779 29.630 0.00 0.00 0.00 5.03
485 486 8.560576 AAATAATACGATTGAAATTTGCGAGG 57.439 30.769 0.00 0.00 0.00 4.63
486 487 5.811399 AATACGATTGAAATTTGCGAGGA 57.189 34.783 0.00 0.00 0.00 3.71
487 488 3.471495 ACGATTGAAATTTGCGAGGAC 57.529 42.857 0.00 0.00 0.00 3.85
488 489 2.159707 ACGATTGAAATTTGCGAGGACG 60.160 45.455 0.00 0.00 42.93 4.79
500 501 4.589675 AGGACGCCCCCGCAAAAA 62.590 61.111 0.00 0.00 38.22 1.94
559 567 5.163437 CGTATAAGAAAGCTACCCTCCAACT 60.163 44.000 0.00 0.00 0.00 3.16
560 568 6.040166 CGTATAAGAAAGCTACCCTCCAACTA 59.960 42.308 0.00 0.00 0.00 2.24
562 570 5.780958 AAGAAAGCTACCCTCCAACTAAT 57.219 39.130 0.00 0.00 0.00 1.73
563 571 5.104259 AGAAAGCTACCCTCCAACTAATG 57.896 43.478 0.00 0.00 0.00 1.90
718 2368 0.663568 CAGAAACGAACGAGCCGACT 60.664 55.000 0.14 0.00 0.00 4.18
820 2470 2.550639 CCAATCAAACCCCCAAAAGCAG 60.551 50.000 0.00 0.00 0.00 4.24
822 2472 0.689080 TCAAACCCCCAAAAGCAGCA 60.689 50.000 0.00 0.00 0.00 4.41
824 2474 0.686789 AAACCCCCAAAAGCAGCATC 59.313 50.000 0.00 0.00 0.00 3.91
825 2475 1.194121 AACCCCCAAAAGCAGCATCC 61.194 55.000 0.00 0.00 0.00 3.51
826 2476 1.305549 CCCCCAAAAGCAGCATCCT 60.306 57.895 0.00 0.00 0.00 3.24
827 2477 1.610554 CCCCCAAAAGCAGCATCCTG 61.611 60.000 0.00 0.00 42.13 3.86
856 2511 6.461788 GGGATCTTATCTTAAGAAGCGTCAGT 60.462 42.308 9.71 0.00 0.00 3.41
871 2526 0.906756 TCAGTAGCTTGCTGGAGCCT 60.907 55.000 15.16 0.00 43.74 4.58
872 2527 0.461693 CAGTAGCTTGCTGGAGCCTC 60.462 60.000 5.26 0.00 43.74 4.70
892 2547 4.380531 CTCACATCACAACCTACACAAGT 58.619 43.478 0.00 0.00 0.00 3.16
994 2667 0.598680 CTCTGCGATCGATCAACCCC 60.599 60.000 24.40 7.90 0.00 4.95
1080 2754 2.009108 CGGCATTGAGACCGTCATG 58.991 57.895 0.40 0.00 44.46 3.07
1131 2805 3.432588 CTCCGCTGTCTCGACGGT 61.433 66.667 10.72 0.00 46.92 4.83
1373 3077 1.092921 GTTGACCTGCACCACAACGA 61.093 55.000 8.61 0.00 34.46 3.85
1862 3589 0.391263 CGGGAAAGGAAGGAACGGAG 60.391 60.000 0.00 0.00 0.00 4.63
2033 3762 6.691818 CGGTATATAATGTTATCTCGCTGACC 59.308 42.308 0.00 0.00 0.00 4.02
2037 3766 4.471904 AATGTTATCTCGCTGACCTTCA 57.528 40.909 0.00 0.00 0.00 3.02
2038 3767 3.510388 TGTTATCTCGCTGACCTTCAG 57.490 47.619 0.00 0.00 46.90 3.02
2075 3805 2.738135 CAAACGAACAGCCCGAAATTT 58.262 42.857 0.00 0.00 0.00 1.82
2076 3806 2.699251 AACGAACAGCCCGAAATTTC 57.301 45.000 8.20 8.20 0.00 2.17
2077 3807 1.600023 ACGAACAGCCCGAAATTTCA 58.400 45.000 17.99 0.00 0.00 2.69
2078 3808 1.950909 ACGAACAGCCCGAAATTTCAA 59.049 42.857 17.99 0.00 0.00 2.69
2079 3809 2.031157 ACGAACAGCCCGAAATTTCAAG 60.031 45.455 17.99 9.20 0.00 3.02
2080 3810 2.031157 CGAACAGCCCGAAATTTCAAGT 60.031 45.455 17.99 5.74 0.00 3.16
2081 3811 3.550030 CGAACAGCCCGAAATTTCAAGTT 60.550 43.478 17.99 12.89 0.00 2.66
2082 3812 4.368315 GAACAGCCCGAAATTTCAAGTTT 58.632 39.130 17.99 3.24 0.00 2.66
2083 3813 3.716601 ACAGCCCGAAATTTCAAGTTTG 58.283 40.909 17.99 10.89 0.00 2.93
2084 3814 3.383185 ACAGCCCGAAATTTCAAGTTTGA 59.617 39.130 17.99 0.00 34.92 2.69
2085 3815 4.039124 ACAGCCCGAAATTTCAAGTTTGAT 59.961 37.500 17.99 0.00 37.00 2.57
2086 3816 5.242838 ACAGCCCGAAATTTCAAGTTTGATA 59.757 36.000 17.99 0.00 37.00 2.15
2087 3817 6.155827 CAGCCCGAAATTTCAAGTTTGATAA 58.844 36.000 17.99 0.00 37.00 1.75
2088 3818 6.644592 CAGCCCGAAATTTCAAGTTTGATAAA 59.355 34.615 17.99 0.00 37.00 1.40
2089 3819 7.170658 CAGCCCGAAATTTCAAGTTTGATAAAA 59.829 33.333 17.99 0.00 37.00 1.52
2090 3820 7.713073 AGCCCGAAATTTCAAGTTTGATAAAAA 59.287 29.630 17.99 0.00 37.00 1.94
2113 3843 6.822667 AAAATTGCAGGGGAAAATCAATTC 57.177 33.333 0.00 0.00 36.64 2.17
2114 3844 5.502089 AATTGCAGGGGAAAATCAATTCA 57.498 34.783 0.00 0.00 33.58 2.57
2115 3845 5.703730 ATTGCAGGGGAAAATCAATTCAT 57.296 34.783 0.00 0.00 0.00 2.57
2116 3846 5.502089 TTGCAGGGGAAAATCAATTCATT 57.498 34.783 0.00 0.00 0.00 2.57
2117 3847 4.834534 TGCAGGGGAAAATCAATTCATTG 58.165 39.130 0.00 0.00 39.10 2.82
2155 3885 9.823647 ATGGTTTTACAGTCATCTAGAATAGTG 57.176 33.333 0.00 3.81 40.38 2.74
2156 3886 8.812972 TGGTTTTACAGTCATCTAGAATAGTGT 58.187 33.333 17.50 17.50 40.38 3.55
2157 3887 9.088512 GGTTTTACAGTCATCTAGAATAGTGTG 57.911 37.037 20.48 5.66 40.38 3.82
2158 3888 9.088512 GTTTTACAGTCATCTAGAATAGTGTGG 57.911 37.037 20.48 4.23 40.38 4.17
2159 3889 8.589701 TTTACAGTCATCTAGAATAGTGTGGA 57.410 34.615 20.48 11.17 40.38 4.02
2160 3890 8.589701 TTACAGTCATCTAGAATAGTGTGGAA 57.410 34.615 20.48 10.46 40.38 3.53
2161 3891 7.482169 ACAGTCATCTAGAATAGTGTGGAAA 57.518 36.000 14.28 0.00 40.38 3.13
2162 3892 7.551585 ACAGTCATCTAGAATAGTGTGGAAAG 58.448 38.462 14.28 0.00 40.38 2.62
2163 3893 7.397476 ACAGTCATCTAGAATAGTGTGGAAAGA 59.603 37.037 14.28 0.00 40.38 2.52
2164 3894 7.920151 CAGTCATCTAGAATAGTGTGGAAAGAG 59.080 40.741 0.00 0.00 40.38 2.85
2165 3895 7.836685 AGTCATCTAGAATAGTGTGGAAAGAGA 59.163 37.037 0.00 0.00 40.38 3.10
2166 3896 8.470805 GTCATCTAGAATAGTGTGGAAAGAGAA 58.529 37.037 0.00 0.00 40.38 2.87
2167 3897 8.470805 TCATCTAGAATAGTGTGGAAAGAGAAC 58.529 37.037 0.00 0.00 40.38 3.01
2168 3898 6.853720 TCTAGAATAGTGTGGAAAGAGAACG 58.146 40.000 0.00 0.00 40.38 3.95
2169 3899 5.723672 AGAATAGTGTGGAAAGAGAACGA 57.276 39.130 0.00 0.00 0.00 3.85
2170 3900 6.287589 AGAATAGTGTGGAAAGAGAACGAT 57.712 37.500 0.00 0.00 0.00 3.73
2171 3901 6.702329 AGAATAGTGTGGAAAGAGAACGATT 58.298 36.000 0.00 0.00 0.00 3.34
2172 3902 7.162082 AGAATAGTGTGGAAAGAGAACGATTT 58.838 34.615 0.00 0.00 0.00 2.17
2173 3903 6.969828 ATAGTGTGGAAAGAGAACGATTTC 57.030 37.500 0.00 0.00 35.19 2.17
2174 3904 4.703897 AGTGTGGAAAGAGAACGATTTCA 58.296 39.130 0.00 0.00 37.19 2.69
2175 3905 5.123227 AGTGTGGAAAGAGAACGATTTCAA 58.877 37.500 0.00 0.00 37.19 2.69
2176 3906 5.765182 AGTGTGGAAAGAGAACGATTTCAAT 59.235 36.000 0.00 0.00 37.19 2.57
2177 3907 6.073003 AGTGTGGAAAGAGAACGATTTCAATC 60.073 38.462 0.00 0.00 37.19 2.67
2178 3908 5.997746 TGTGGAAAGAGAACGATTTCAATCT 59.002 36.000 0.00 0.00 37.19 2.40
2179 3909 6.486657 TGTGGAAAGAGAACGATTTCAATCTT 59.513 34.615 0.00 0.00 37.19 2.40
2180 3910 7.013274 TGTGGAAAGAGAACGATTTCAATCTTT 59.987 33.333 0.00 0.00 38.23 2.52
2181 3911 7.862873 GTGGAAAGAGAACGATTTCAATCTTTT 59.137 33.333 0.00 0.00 36.82 2.27
2182 3912 8.076178 TGGAAAGAGAACGATTTCAATCTTTTC 58.924 33.333 0.00 0.00 36.82 2.29
2183 3913 7.539022 GGAAAGAGAACGATTTCAATCTTTTCC 59.461 37.037 0.00 0.00 36.82 3.13
2184 3914 7.751768 AAGAGAACGATTTCAATCTTTTCCT 57.248 32.000 0.00 0.00 33.72 3.36
2185 3915 8.848474 AAGAGAACGATTTCAATCTTTTCCTA 57.152 30.769 0.00 0.00 33.72 2.94
2186 3916 8.848474 AGAGAACGATTTCAATCTTTTCCTAA 57.152 30.769 0.00 0.00 33.72 2.69
2187 3917 8.940952 AGAGAACGATTTCAATCTTTTCCTAAG 58.059 33.333 0.00 0.00 33.72 2.18
2188 3918 8.848474 AGAACGATTTCAATCTTTTCCTAAGA 57.152 30.769 0.00 0.00 33.72 2.10
2189 3919 9.284968 AGAACGATTTCAATCTTTTCCTAAGAA 57.715 29.630 0.00 0.00 33.72 2.52
2191 3921 9.846248 AACGATTTCAATCTTTTCCTAAGAATG 57.154 29.630 0.00 0.00 33.24 2.67
2192 3922 7.970614 ACGATTTCAATCTTTTCCTAAGAATGC 59.029 33.333 0.00 0.00 33.24 3.56
2193 3923 8.186821 CGATTTCAATCTTTTCCTAAGAATGCT 58.813 33.333 0.00 0.00 33.24 3.79
2194 3924 9.866798 GATTTCAATCTTTTCCTAAGAATGCTT 57.133 29.630 0.00 0.00 34.08 3.91
2195 3925 9.649167 ATTTCAATCTTTTCCTAAGAATGCTTG 57.351 29.630 0.00 0.00 35.56 4.01
2196 3926 7.161773 TCAATCTTTTCCTAAGAATGCTTGG 57.838 36.000 0.00 0.00 35.56 3.61
2197 3927 6.947733 TCAATCTTTTCCTAAGAATGCTTGGA 59.052 34.615 0.00 0.00 34.82 3.53
2198 3928 6.765915 ATCTTTTCCTAAGAATGCTTGGAC 57.234 37.500 0.00 0.00 34.82 4.02
2199 3929 5.010282 TCTTTTCCTAAGAATGCTTGGACC 58.990 41.667 0.00 0.00 34.82 4.46
2200 3930 4.657814 TTTCCTAAGAATGCTTGGACCT 57.342 40.909 0.00 0.00 34.82 3.85
2201 3931 3.914426 TCCTAAGAATGCTTGGACCTC 57.086 47.619 0.00 0.00 34.82 3.85
2202 3932 3.454858 TCCTAAGAATGCTTGGACCTCT 58.545 45.455 0.00 0.00 34.82 3.69
2203 3933 4.620723 TCCTAAGAATGCTTGGACCTCTA 58.379 43.478 0.00 0.00 34.82 2.43
2204 3934 4.406003 TCCTAAGAATGCTTGGACCTCTAC 59.594 45.833 0.00 0.00 34.82 2.59
2205 3935 4.407296 CCTAAGAATGCTTGGACCTCTACT 59.593 45.833 0.00 0.00 34.82 2.57
2206 3936 5.598830 CCTAAGAATGCTTGGACCTCTACTA 59.401 44.000 0.00 0.00 34.82 1.82
2207 3937 5.346181 AAGAATGCTTGGACCTCTACTAC 57.654 43.478 0.00 0.00 31.83 2.73
2208 3938 4.353777 AGAATGCTTGGACCTCTACTACA 58.646 43.478 0.00 0.00 0.00 2.74
2209 3939 4.777896 AGAATGCTTGGACCTCTACTACAA 59.222 41.667 0.00 0.00 0.00 2.41
2210 3940 5.248477 AGAATGCTTGGACCTCTACTACAAA 59.752 40.000 0.00 0.00 0.00 2.83
2211 3941 4.267349 TGCTTGGACCTCTACTACAAAC 57.733 45.455 0.00 0.00 0.00 2.93
2212 3942 3.644265 TGCTTGGACCTCTACTACAAACA 59.356 43.478 0.00 0.00 0.00 2.83
2213 3943 4.246458 GCTTGGACCTCTACTACAAACAG 58.754 47.826 0.00 0.00 0.00 3.16
2214 3944 4.822026 CTTGGACCTCTACTACAAACAGG 58.178 47.826 0.00 0.00 0.00 4.00
2215 3945 4.122337 TGGACCTCTACTACAAACAGGA 57.878 45.455 0.00 0.00 0.00 3.86
2216 3946 4.485875 TGGACCTCTACTACAAACAGGAA 58.514 43.478 0.00 0.00 0.00 3.36
2217 3947 5.091552 TGGACCTCTACTACAAACAGGAAT 58.908 41.667 0.00 0.00 0.00 3.01
2218 3948 5.546499 TGGACCTCTACTACAAACAGGAATT 59.454 40.000 0.00 0.00 0.00 2.17
2219 3949 6.043938 TGGACCTCTACTACAAACAGGAATTT 59.956 38.462 0.00 0.00 0.00 1.82
2220 3950 6.940867 GGACCTCTACTACAAACAGGAATTTT 59.059 38.462 0.00 0.00 0.00 1.82
2221 3951 7.447545 GGACCTCTACTACAAACAGGAATTTTT 59.552 37.037 0.00 0.00 0.00 1.94
2222 3952 8.392372 ACCTCTACTACAAACAGGAATTTTTC 57.608 34.615 0.00 0.00 0.00 2.29
2223 3953 8.218488 ACCTCTACTACAAACAGGAATTTTTCT 58.782 33.333 0.00 0.00 0.00 2.52
2224 3954 8.507249 CCTCTACTACAAACAGGAATTTTTCTG 58.493 37.037 0.00 0.00 37.07 3.02
2225 3955 7.871853 TCTACTACAAACAGGAATTTTTCTGC 58.128 34.615 0.00 0.00 34.57 4.26
2226 3956 6.715347 ACTACAAACAGGAATTTTTCTGCT 57.285 33.333 0.00 0.00 34.57 4.24
2227 3957 6.507023 ACTACAAACAGGAATTTTTCTGCTG 58.493 36.000 0.00 0.18 34.57 4.41
2228 3958 5.343307 ACAAACAGGAATTTTTCTGCTGT 57.657 34.783 0.00 0.75 34.87 4.40
2229 3959 5.111293 ACAAACAGGAATTTTTCTGCTGTG 58.889 37.500 6.26 2.32 34.06 3.66
2230 3960 3.375782 ACAGGAATTTTTCTGCTGTGC 57.624 42.857 0.00 0.00 33.04 4.57
2231 3961 2.694628 ACAGGAATTTTTCTGCTGTGCA 59.305 40.909 0.00 0.00 33.04 4.57
2232 3962 3.132646 ACAGGAATTTTTCTGCTGTGCAA 59.867 39.130 0.00 0.00 38.41 4.08
2233 3963 4.121317 CAGGAATTTTTCTGCTGTGCAAA 58.879 39.130 0.00 0.00 38.41 3.68
2234 3964 4.571580 CAGGAATTTTTCTGCTGTGCAAAA 59.428 37.500 0.00 0.00 38.41 2.44
2235 3965 5.064962 CAGGAATTTTTCTGCTGTGCAAAAA 59.935 36.000 0.00 5.12 38.41 1.94
2236 3966 5.295045 AGGAATTTTTCTGCTGTGCAAAAAG 59.705 36.000 0.00 0.00 38.41 2.27
2237 3967 5.294060 GGAATTTTTCTGCTGTGCAAAAAGA 59.706 36.000 0.00 0.00 38.41 2.52
2238 3968 6.183360 GGAATTTTTCTGCTGTGCAAAAAGAA 60.183 34.615 0.00 0.00 38.41 2.52
2239 3969 5.783100 TTTTTCTGCTGTGCAAAAAGAAG 57.217 34.783 0.00 0.00 38.41 2.85
2240 3970 4.717233 TTTCTGCTGTGCAAAAAGAAGA 57.283 36.364 0.00 0.00 38.41 2.87
2241 3971 4.717233 TTCTGCTGTGCAAAAAGAAGAA 57.283 36.364 10.38 10.38 38.41 2.52
2242 3972 4.717233 TCTGCTGTGCAAAAAGAAGAAA 57.283 36.364 1.33 0.00 38.41 2.52
2243 3973 4.423732 TCTGCTGTGCAAAAAGAAGAAAC 58.576 39.130 1.33 0.00 38.41 2.78
2244 3974 3.178267 TGCTGTGCAAAAAGAAGAAACG 58.822 40.909 0.00 0.00 34.76 3.60
2245 3975 3.179048 GCTGTGCAAAAAGAAGAAACGT 58.821 40.909 0.00 0.00 0.00 3.99
2246 3976 3.240631 GCTGTGCAAAAAGAAGAAACGTC 59.759 43.478 0.00 0.00 0.00 4.34
2247 3977 4.662145 CTGTGCAAAAAGAAGAAACGTCT 58.338 39.130 0.00 0.00 34.72 4.18
2248 3978 5.729454 GCTGTGCAAAAAGAAGAAACGTCTA 60.729 40.000 0.00 0.00 32.16 2.59
2249 3979 5.565695 TGTGCAAAAAGAAGAAACGTCTAC 58.434 37.500 0.00 0.00 32.16 2.59
2250 3980 5.122554 TGTGCAAAAAGAAGAAACGTCTACA 59.877 36.000 0.00 0.00 32.16 2.74
2251 3981 6.025280 GTGCAAAAAGAAGAAACGTCTACAA 58.975 36.000 0.00 0.00 32.16 2.41
2252 3982 6.021704 GTGCAAAAAGAAGAAACGTCTACAAC 60.022 38.462 0.00 0.00 32.16 3.32
2545 6540 2.314071 TCGGAGGAACCCTACAGAAA 57.686 50.000 0.00 0.00 33.03 2.52
2548 6543 3.094572 CGGAGGAACCCTACAGAAACTA 58.905 50.000 0.00 0.00 33.03 2.24
2602 6598 3.330720 CCCCACACCACCTCCTCC 61.331 72.222 0.00 0.00 0.00 4.30
2677 6804 1.902508 TGAGGGACCTTACAGAAGCTG 59.097 52.381 0.00 0.00 37.52 4.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 6.724893 ATTTTTATGGGATCCCGTTTAAGG 57.275 37.500 30.65 0.00 39.42 2.69
21 22 8.688151 TGTTATTTTTATGGGATCCCGTTTAAG 58.312 33.333 30.65 0.00 39.42 1.85
22 23 8.591114 TGTTATTTTTATGGGATCCCGTTTAA 57.409 30.769 30.65 20.91 39.42 1.52
23 24 8.053963 TCTGTTATTTTTATGGGATCCCGTTTA 58.946 33.333 30.65 16.37 39.42 2.01
24 25 6.893005 TCTGTTATTTTTATGGGATCCCGTTT 59.107 34.615 30.65 17.41 39.42 3.60
25 26 6.428295 TCTGTTATTTTTATGGGATCCCGTT 58.572 36.000 30.65 19.99 39.42 4.44
26 27 6.008696 TCTGTTATTTTTATGGGATCCCGT 57.991 37.500 28.65 28.65 39.42 5.28
27 28 6.546034 ACTTCTGTTATTTTTATGGGATCCCG 59.454 38.462 26.03 6.72 39.42 5.14
28 29 7.898014 ACTTCTGTTATTTTTATGGGATCCC 57.102 36.000 25.22 25.22 0.00 3.85
29 30 8.749354 ACAACTTCTGTTATTTTTATGGGATCC 58.251 33.333 1.92 1.92 32.99 3.36
31 32 9.927668 CAACAACTTCTGTTATTTTTATGGGAT 57.072 29.630 0.00 0.00 46.91 3.85
32 33 8.364142 CCAACAACTTCTGTTATTTTTATGGGA 58.636 33.333 0.00 0.00 46.91 4.37
33 34 8.364142 TCCAACAACTTCTGTTATTTTTATGGG 58.636 33.333 0.00 0.00 46.91 4.00
34 35 9.410556 CTCCAACAACTTCTGTTATTTTTATGG 57.589 33.333 0.00 0.00 46.91 2.74
35 36 9.410556 CCTCCAACAACTTCTGTTATTTTTATG 57.589 33.333 0.00 0.00 46.91 1.90
36 37 9.143155 ACCTCCAACAACTTCTGTTATTTTTAT 57.857 29.630 0.00 0.00 46.91 1.40
37 38 8.528044 ACCTCCAACAACTTCTGTTATTTTTA 57.472 30.769 0.00 0.00 46.91 1.52
38 39 7.342026 AGACCTCCAACAACTTCTGTTATTTTT 59.658 33.333 0.00 0.00 46.91 1.94
39 40 6.833933 AGACCTCCAACAACTTCTGTTATTTT 59.166 34.615 0.00 0.00 46.91 1.82
40 41 6.365520 AGACCTCCAACAACTTCTGTTATTT 58.634 36.000 0.00 0.00 46.91 1.40
41 42 5.941788 AGACCTCCAACAACTTCTGTTATT 58.058 37.500 0.00 0.00 46.91 1.40
42 43 5.568620 AGACCTCCAACAACTTCTGTTAT 57.431 39.130 0.00 0.00 46.91 1.89
43 44 5.367945 AAGACCTCCAACAACTTCTGTTA 57.632 39.130 0.00 0.00 46.91 2.41
90 91 3.181498 ACCGTAACCCGAAAAACAAACTG 60.181 43.478 0.00 0.00 39.56 3.16
118 119 4.462483 ACAAAGACAGAGCAACTCCAAAAA 59.538 37.500 0.00 0.00 0.00 1.94
119 120 4.016444 ACAAAGACAGAGCAACTCCAAAA 58.984 39.130 0.00 0.00 0.00 2.44
120 121 3.620488 ACAAAGACAGAGCAACTCCAAA 58.380 40.909 0.00 0.00 0.00 3.28
161 162 3.606886 AGGTGTCTTTGTACCTGCG 57.393 52.632 0.00 0.00 45.30 5.18
179 180 0.398696 TTTTGAGGGAGCTAACCGCA 59.601 50.000 8.93 8.93 42.61 5.69
231 232 6.476380 TCTTTTTGAGAATGTTTGACATGTGC 59.524 34.615 1.15 0.00 37.97 4.57
254 255 4.042187 GGTATTTGACATGGGAGGCTATCT 59.958 45.833 0.00 0.00 0.00 1.98
318 319 6.080406 CCTAAACGCTCTGATTTCTTCAAAC 58.920 40.000 0.00 0.00 32.78 2.93
432 433 0.776451 CGTGTTCAGAGAAACGACGG 59.224 55.000 0.00 0.00 38.27 4.79
483 484 4.589675 TTTTTGCGGGGGCGTCCT 62.590 61.111 5.77 0.00 35.33 3.85
505 506 2.032799 TGTTCTCGTGCTCGCAATTTTT 59.967 40.909 2.69 0.00 36.96 1.94
506 507 1.601903 TGTTCTCGTGCTCGCAATTTT 59.398 42.857 2.69 0.00 36.96 1.82
509 510 1.225855 TTTGTTCTCGTGCTCGCAAT 58.774 45.000 2.69 0.00 36.96 3.56
513 514 2.061773 ACTGATTTGTTCTCGTGCTCG 58.938 47.619 0.81 0.81 38.55 5.03
559 567 3.146066 GGCAGCGAATGGGATTACATTA 58.854 45.455 0.00 0.00 40.92 1.90
560 568 1.956477 GGCAGCGAATGGGATTACATT 59.044 47.619 0.00 0.00 43.36 2.71
562 570 0.813610 CGGCAGCGAATGGGATTACA 60.814 55.000 0.00 0.00 0.00 2.41
563 571 1.941812 CGGCAGCGAATGGGATTAC 59.058 57.895 0.00 0.00 0.00 1.89
824 2474 2.918712 AAGATAAGATCCCGTGCAGG 57.081 50.000 0.00 0.00 40.63 4.85
825 2475 5.201713 TCTTAAGATAAGATCCCGTGCAG 57.798 43.478 0.00 0.00 0.00 4.41
826 2476 5.601662 CTTCTTAAGATAAGATCCCGTGCA 58.398 41.667 5.89 0.00 0.00 4.57
827 2477 4.449405 GCTTCTTAAGATAAGATCCCGTGC 59.551 45.833 5.89 0.00 0.00 5.34
856 2511 1.194121 TGTGAGGCTCCAGCAAGCTA 61.194 55.000 12.86 0.00 44.36 3.32
864 2519 0.036732 GGTTGTGATGTGAGGCTCCA 59.963 55.000 12.86 10.01 0.00 3.86
871 2526 4.415881 ACTTGTGTAGGTTGTGATGTGA 57.584 40.909 0.00 0.00 0.00 3.58
872 2527 5.499139 AAACTTGTGTAGGTTGTGATGTG 57.501 39.130 0.00 0.00 30.80 3.21
892 2547 0.305313 CGACCGGCGAAACTCAAAAA 59.695 50.000 9.30 0.00 44.57 1.94
917 2590 1.065109 AACTTTTGGTTGTCGCGCC 59.935 52.632 0.00 0.00 36.70 6.53
925 2598 1.226831 CGCGGTGCAACTTTTGGTT 60.227 52.632 0.00 0.00 38.93 3.67
927 2600 2.354539 CCGCGGTGCAACTTTTGG 60.355 61.111 19.50 0.00 36.74 3.28
958 2631 3.522731 GGTTGGCACGCAACACCA 61.523 61.111 6.65 0.00 34.47 4.17
963 2636 3.286751 GCAGAGGTTGGCACGCAA 61.287 61.111 0.00 0.00 0.00 4.85
1373 3077 1.132436 CGCGACATGATGCAAACGT 59.868 52.632 0.00 0.00 0.00 3.99
2013 3742 7.284919 TGAAGGTCAGCGAGATAACATTATA 57.715 36.000 0.00 0.00 0.00 0.98
2014 3743 6.161855 TGAAGGTCAGCGAGATAACATTAT 57.838 37.500 0.00 0.00 0.00 1.28
2015 3744 5.592054 CTGAAGGTCAGCGAGATAACATTA 58.408 41.667 0.00 0.00 37.72 1.90
2016 3745 4.437239 CTGAAGGTCAGCGAGATAACATT 58.563 43.478 0.00 0.00 37.72 2.71
2033 3762 0.674895 CCTCTTCCCAACGGCTGAAG 60.675 60.000 0.00 0.00 37.44 3.02
2037 3766 3.330720 CCCCTCTTCCCAACGGCT 61.331 66.667 0.00 0.00 0.00 5.52
2039 3768 2.706952 TTTGCCCCTCTTCCCAACGG 62.707 60.000 0.00 0.00 0.00 4.44
2040 3769 1.228429 TTTGCCCCTCTTCCCAACG 60.228 57.895 0.00 0.00 0.00 4.10
2089 3819 6.776603 TGAATTGATTTTCCCCTGCAATTTTT 59.223 30.769 0.00 0.00 38.75 1.94
2090 3820 6.305411 TGAATTGATTTTCCCCTGCAATTTT 58.695 32.000 0.00 0.00 38.75 1.82
2091 3821 5.878627 TGAATTGATTTTCCCCTGCAATTT 58.121 33.333 0.00 0.00 38.75 1.82
2092 3822 5.502089 TGAATTGATTTTCCCCTGCAATT 57.498 34.783 0.00 0.00 40.63 2.32
2093 3823 5.703730 ATGAATTGATTTTCCCCTGCAAT 57.296 34.783 0.00 0.00 0.00 3.56
2094 3824 5.012871 TCAATGAATTGATTTTCCCCTGCAA 59.987 36.000 1.55 0.00 41.51 4.08
2095 3825 4.531339 TCAATGAATTGATTTTCCCCTGCA 59.469 37.500 1.55 0.00 41.51 4.41
2096 3826 5.088680 TCAATGAATTGATTTTCCCCTGC 57.911 39.130 1.55 0.00 41.51 4.85
2129 3859 9.823647 CACTATTCTAGATGACTGTAAAACCAT 57.176 33.333 0.00 0.00 0.00 3.55
2130 3860 8.812972 ACACTATTCTAGATGACTGTAAAACCA 58.187 33.333 0.00 0.00 0.00 3.67
2131 3861 9.088512 CACACTATTCTAGATGACTGTAAAACC 57.911 37.037 0.00 0.00 0.00 3.27
2132 3862 9.088512 CCACACTATTCTAGATGACTGTAAAAC 57.911 37.037 0.00 0.00 0.00 2.43
2133 3863 9.031537 TCCACACTATTCTAGATGACTGTAAAA 57.968 33.333 0.00 0.00 0.00 1.52
2134 3864 8.589701 TCCACACTATTCTAGATGACTGTAAA 57.410 34.615 0.00 0.00 0.00 2.01
2135 3865 8.589701 TTCCACACTATTCTAGATGACTGTAA 57.410 34.615 0.00 0.00 0.00 2.41
2136 3866 8.589701 TTTCCACACTATTCTAGATGACTGTA 57.410 34.615 0.00 0.00 0.00 2.74
2137 3867 7.397476 TCTTTCCACACTATTCTAGATGACTGT 59.603 37.037 0.00 0.00 0.00 3.55
2138 3868 7.776107 TCTTTCCACACTATTCTAGATGACTG 58.224 38.462 0.00 0.00 0.00 3.51
2139 3869 7.836685 TCTCTTTCCACACTATTCTAGATGACT 59.163 37.037 0.00 0.00 0.00 3.41
2140 3870 8.001881 TCTCTTTCCACACTATTCTAGATGAC 57.998 38.462 0.00 0.00 0.00 3.06
2141 3871 8.470805 GTTCTCTTTCCACACTATTCTAGATGA 58.529 37.037 0.00 0.00 0.00 2.92
2142 3872 7.433719 CGTTCTCTTTCCACACTATTCTAGATG 59.566 40.741 0.00 0.00 0.00 2.90
2143 3873 7.339721 TCGTTCTCTTTCCACACTATTCTAGAT 59.660 37.037 0.00 0.00 0.00 1.98
2144 3874 6.657966 TCGTTCTCTTTCCACACTATTCTAGA 59.342 38.462 0.00 0.00 0.00 2.43
2145 3875 6.853720 TCGTTCTCTTTCCACACTATTCTAG 58.146 40.000 0.00 0.00 0.00 2.43
2146 3876 6.829229 TCGTTCTCTTTCCACACTATTCTA 57.171 37.500 0.00 0.00 0.00 2.10
2147 3877 5.723672 TCGTTCTCTTTCCACACTATTCT 57.276 39.130 0.00 0.00 0.00 2.40
2148 3878 6.969828 AATCGTTCTCTTTCCACACTATTC 57.030 37.500 0.00 0.00 0.00 1.75
2149 3879 6.934645 TGAAATCGTTCTCTTTCCACACTATT 59.065 34.615 0.00 0.00 34.60 1.73
2150 3880 6.464222 TGAAATCGTTCTCTTTCCACACTAT 58.536 36.000 0.00 0.00 34.60 2.12
2151 3881 5.849510 TGAAATCGTTCTCTTTCCACACTA 58.150 37.500 0.00 0.00 34.60 2.74
2152 3882 4.703897 TGAAATCGTTCTCTTTCCACACT 58.296 39.130 0.00 0.00 34.60 3.55
2153 3883 5.418310 TTGAAATCGTTCTCTTTCCACAC 57.582 39.130 0.00 0.00 34.60 3.82
2154 3884 5.997746 AGATTGAAATCGTTCTCTTTCCACA 59.002 36.000 0.00 0.00 40.35 4.17
2155 3885 6.487689 AGATTGAAATCGTTCTCTTTCCAC 57.512 37.500 0.00 0.00 40.35 4.02
2156 3886 7.510549 AAAGATTGAAATCGTTCTCTTTCCA 57.489 32.000 0.00 0.00 35.14 3.53
2157 3887 7.539022 GGAAAAGATTGAAATCGTTCTCTTTCC 59.461 37.037 15.82 13.79 37.31 3.13
2158 3888 8.293157 AGGAAAAGATTGAAATCGTTCTCTTTC 58.707 33.333 15.82 10.65 37.31 2.62
2159 3889 8.171164 AGGAAAAGATTGAAATCGTTCTCTTT 57.829 30.769 15.82 0.00 38.74 2.52
2160 3890 7.751768 AGGAAAAGATTGAAATCGTTCTCTT 57.248 32.000 15.82 7.18 40.35 2.85
2161 3891 8.848474 TTAGGAAAAGATTGAAATCGTTCTCT 57.152 30.769 15.82 12.70 40.35 3.10
2162 3892 8.936864 TCTTAGGAAAAGATTGAAATCGTTCTC 58.063 33.333 15.82 10.79 40.35 2.87
2163 3893 8.848474 TCTTAGGAAAAGATTGAAATCGTTCT 57.152 30.769 15.82 8.91 40.35 3.01
2165 3895 9.846248 CATTCTTAGGAAAAGATTGAAATCGTT 57.154 29.630 0.00 0.00 38.47 3.85
2166 3896 7.970614 GCATTCTTAGGAAAAGATTGAAATCGT 59.029 33.333 11.73 0.00 36.47 3.73
2167 3897 8.186821 AGCATTCTTAGGAAAAGATTGAAATCG 58.813 33.333 11.73 0.00 36.47 3.34
2168 3898 9.866798 AAGCATTCTTAGGAAAAGATTGAAATC 57.133 29.630 11.73 0.00 34.90 2.17
2169 3899 9.649167 CAAGCATTCTTAGGAAAAGATTGAAAT 57.351 29.630 12.82 0.00 38.24 2.17
2170 3900 8.090214 CCAAGCATTCTTAGGAAAAGATTGAAA 58.910 33.333 17.18 0.00 38.24 2.69
2171 3901 7.451255 TCCAAGCATTCTTAGGAAAAGATTGAA 59.549 33.333 17.18 1.23 38.24 2.69
2172 3902 6.947733 TCCAAGCATTCTTAGGAAAAGATTGA 59.052 34.615 17.18 6.35 38.24 2.57
2173 3903 7.031975 GTCCAAGCATTCTTAGGAAAAGATTG 58.968 38.462 11.76 11.76 37.04 2.67
2174 3904 6.153510 GGTCCAAGCATTCTTAGGAAAAGATT 59.846 38.462 0.00 0.00 34.02 2.40
2175 3905 5.654209 GGTCCAAGCATTCTTAGGAAAAGAT 59.346 40.000 0.00 0.00 34.02 2.40
2176 3906 5.010282 GGTCCAAGCATTCTTAGGAAAAGA 58.990 41.667 0.00 0.00 34.02 2.52
2177 3907 5.012893 AGGTCCAAGCATTCTTAGGAAAAG 58.987 41.667 0.00 0.00 34.02 2.27
2178 3908 4.998051 AGGTCCAAGCATTCTTAGGAAAA 58.002 39.130 0.00 0.00 34.02 2.29
2179 3909 4.289672 AGAGGTCCAAGCATTCTTAGGAAA 59.710 41.667 0.00 0.00 34.02 3.13
2180 3910 3.846588 AGAGGTCCAAGCATTCTTAGGAA 59.153 43.478 0.00 0.00 34.02 3.36
2181 3911 3.454858 AGAGGTCCAAGCATTCTTAGGA 58.545 45.455 0.00 0.00 31.59 2.94
2182 3912 3.922171 AGAGGTCCAAGCATTCTTAGG 57.078 47.619 0.00 0.00 0.00 2.69
2183 3913 5.606348 AGTAGAGGTCCAAGCATTCTTAG 57.394 43.478 0.00 0.00 0.00 2.18
2184 3914 5.955959 TGTAGTAGAGGTCCAAGCATTCTTA 59.044 40.000 0.00 0.00 0.00 2.10
2185 3915 4.777896 TGTAGTAGAGGTCCAAGCATTCTT 59.222 41.667 0.00 0.00 0.00 2.52
2186 3916 4.353777 TGTAGTAGAGGTCCAAGCATTCT 58.646 43.478 0.00 0.00 0.00 2.40
2187 3917 4.737855 TGTAGTAGAGGTCCAAGCATTC 57.262 45.455 0.00 0.00 0.00 2.67
2188 3918 5.221843 TGTTTGTAGTAGAGGTCCAAGCATT 60.222 40.000 0.00 0.00 0.00 3.56
2189 3919 4.286032 TGTTTGTAGTAGAGGTCCAAGCAT 59.714 41.667 0.00 0.00 0.00 3.79
2190 3920 3.644265 TGTTTGTAGTAGAGGTCCAAGCA 59.356 43.478 0.00 0.00 0.00 3.91
2191 3921 4.246458 CTGTTTGTAGTAGAGGTCCAAGC 58.754 47.826 0.00 0.00 0.00 4.01
2192 3922 4.527038 TCCTGTTTGTAGTAGAGGTCCAAG 59.473 45.833 0.00 0.00 0.00 3.61
2193 3923 4.485875 TCCTGTTTGTAGTAGAGGTCCAA 58.514 43.478 0.00 0.00 0.00 3.53
2194 3924 4.122337 TCCTGTTTGTAGTAGAGGTCCA 57.878 45.455 0.00 0.00 0.00 4.02
2195 3925 5.678955 ATTCCTGTTTGTAGTAGAGGTCC 57.321 43.478 0.00 0.00 0.00 4.46
2196 3926 7.981102 AAAATTCCTGTTTGTAGTAGAGGTC 57.019 36.000 0.00 0.00 0.00 3.85
2197 3927 8.218488 AGAAAAATTCCTGTTTGTAGTAGAGGT 58.782 33.333 0.00 0.00 0.00 3.85
2198 3928 8.507249 CAGAAAAATTCCTGTTTGTAGTAGAGG 58.493 37.037 0.00 0.00 0.00 3.69
2199 3929 8.017946 GCAGAAAAATTCCTGTTTGTAGTAGAG 58.982 37.037 0.00 0.00 33.19 2.43
2200 3930 7.719633 AGCAGAAAAATTCCTGTTTGTAGTAGA 59.280 33.333 0.00 0.00 33.19 2.59
2201 3931 7.805071 CAGCAGAAAAATTCCTGTTTGTAGTAG 59.195 37.037 0.00 0.00 33.19 2.57
2202 3932 7.284489 ACAGCAGAAAAATTCCTGTTTGTAGTA 59.716 33.333 0.00 0.00 33.29 1.82
2203 3933 6.096846 ACAGCAGAAAAATTCCTGTTTGTAGT 59.903 34.615 0.00 0.00 33.29 2.73
2204 3934 6.418819 CACAGCAGAAAAATTCCTGTTTGTAG 59.581 38.462 0.00 0.00 34.77 2.74
2205 3935 6.272318 CACAGCAGAAAAATTCCTGTTTGTA 58.728 36.000 0.00 0.00 34.77 2.41
2206 3936 5.111293 CACAGCAGAAAAATTCCTGTTTGT 58.889 37.500 0.00 0.00 34.77 2.83
2207 3937 4.025480 GCACAGCAGAAAAATTCCTGTTTG 60.025 41.667 0.00 0.00 34.77 2.93
2208 3938 4.122046 GCACAGCAGAAAAATTCCTGTTT 58.878 39.130 0.00 0.00 34.77 2.83
2209 3939 3.132646 TGCACAGCAGAAAAATTCCTGTT 59.867 39.130 0.00 0.00 34.77 3.16
2210 3940 2.694628 TGCACAGCAGAAAAATTCCTGT 59.305 40.909 0.00 0.00 37.24 4.00
2211 3941 3.374220 TGCACAGCAGAAAAATTCCTG 57.626 42.857 0.00 0.00 33.32 3.86
2212 3942 4.405116 TTTGCACAGCAGAAAAATTCCT 57.595 36.364 0.00 0.00 40.61 3.36
2213 3943 5.294060 TCTTTTTGCACAGCAGAAAAATTCC 59.706 36.000 8.67 0.00 40.95 3.01
2214 3944 6.348621 TCTTTTTGCACAGCAGAAAAATTC 57.651 33.333 8.67 0.00 40.95 2.17
2215 3945 6.594937 TCTTCTTTTTGCACAGCAGAAAAATT 59.405 30.769 8.67 0.00 40.95 1.82
2216 3946 6.108015 TCTTCTTTTTGCACAGCAGAAAAAT 58.892 32.000 8.67 0.00 40.95 1.82
2217 3947 5.477510 TCTTCTTTTTGCACAGCAGAAAAA 58.522 33.333 8.67 5.58 40.95 1.94
2218 3948 5.070770 TCTTCTTTTTGCACAGCAGAAAA 57.929 34.783 8.67 9.30 40.95 2.29
2219 3949 4.717233 TCTTCTTTTTGCACAGCAGAAA 57.283 36.364 7.36 7.36 39.65 2.52
2220 3950 4.717233 TTCTTCTTTTTGCACAGCAGAA 57.283 36.364 0.00 0.00 40.61 3.02
2221 3951 4.423732 GTTTCTTCTTTTTGCACAGCAGA 58.576 39.130 0.00 0.00 40.61 4.26
2222 3952 3.241322 CGTTTCTTCTTTTTGCACAGCAG 59.759 43.478 0.00 0.00 40.61 4.24
2223 3953 3.178267 CGTTTCTTCTTTTTGCACAGCA 58.822 40.909 0.00 0.00 36.47 4.41
2224 3954 3.179048 ACGTTTCTTCTTTTTGCACAGC 58.821 40.909 0.00 0.00 0.00 4.40
2225 3955 4.662145 AGACGTTTCTTCTTTTTGCACAG 58.338 39.130 0.00 0.00 0.00 3.66
2226 3956 4.695217 AGACGTTTCTTCTTTTTGCACA 57.305 36.364 0.00 0.00 0.00 4.57
2227 3957 5.565695 TGTAGACGTTTCTTCTTTTTGCAC 58.434 37.500 0.00 0.00 32.75 4.57
2228 3958 5.804692 TGTAGACGTTTCTTCTTTTTGCA 57.195 34.783 0.00 0.00 32.75 4.08
2229 3959 6.025280 TGTTGTAGACGTTTCTTCTTTTTGC 58.975 36.000 0.00 0.00 32.75 3.68
2230 3960 6.687105 CCTGTTGTAGACGTTTCTTCTTTTTG 59.313 38.462 0.00 0.00 32.75 2.44
2231 3961 6.596497 TCCTGTTGTAGACGTTTCTTCTTTTT 59.404 34.615 0.00 0.00 32.75 1.94
2232 3962 6.036844 GTCCTGTTGTAGACGTTTCTTCTTTT 59.963 38.462 0.00 0.00 32.75 2.27
2233 3963 5.522824 GTCCTGTTGTAGACGTTTCTTCTTT 59.477 40.000 0.00 0.00 32.75 2.52
2234 3964 5.048507 GTCCTGTTGTAGACGTTTCTTCTT 58.951 41.667 0.00 0.00 32.75 2.52
2235 3965 4.501058 GGTCCTGTTGTAGACGTTTCTTCT 60.501 45.833 0.00 0.00 33.66 2.85
2236 3966 3.739810 GGTCCTGTTGTAGACGTTTCTTC 59.260 47.826 0.00 0.00 33.66 2.87
2237 3967 3.493873 GGGTCCTGTTGTAGACGTTTCTT 60.494 47.826 0.00 0.00 33.66 2.52
2238 3968 2.036862 GGGTCCTGTTGTAGACGTTTCT 59.963 50.000 0.00 0.00 33.66 2.52
2239 3969 2.410939 GGGTCCTGTTGTAGACGTTTC 58.589 52.381 0.00 0.00 33.66 2.78
2240 3970 1.269936 CGGGTCCTGTTGTAGACGTTT 60.270 52.381 0.00 0.00 33.66 3.60
2241 3971 0.316204 CGGGTCCTGTTGTAGACGTT 59.684 55.000 0.00 0.00 33.66 3.99
2242 3972 0.538057 TCGGGTCCTGTTGTAGACGT 60.538 55.000 0.00 0.00 33.66 4.34
2243 3973 0.815734 ATCGGGTCCTGTTGTAGACG 59.184 55.000 0.00 0.00 33.66 4.18
2244 3974 3.733077 CGTTATCGGGTCCTGTTGTAGAC 60.733 52.174 0.00 0.00 0.00 2.59
2245 3975 2.424601 CGTTATCGGGTCCTGTTGTAGA 59.575 50.000 0.00 0.00 0.00 2.59
2246 3976 2.805845 CGTTATCGGGTCCTGTTGTAG 58.194 52.381 0.00 0.00 0.00 2.74
2247 3977 1.135024 GCGTTATCGGGTCCTGTTGTA 60.135 52.381 0.00 0.00 37.56 2.41
2248 3978 0.390735 GCGTTATCGGGTCCTGTTGT 60.391 55.000 0.00 0.00 37.56 3.32
2249 3979 1.418342 CGCGTTATCGGGTCCTGTTG 61.418 60.000 0.00 0.00 43.36 3.33
2250 3980 1.153706 CGCGTTATCGGGTCCTGTT 60.154 57.895 0.00 0.00 43.36 3.16
2251 3981 2.493030 CGCGTTATCGGGTCCTGT 59.507 61.111 0.00 0.00 43.36 4.00
2353 4084 2.271777 AGTTCGGGGGTTAAGGAATCA 58.728 47.619 0.00 0.00 0.00 2.57
2465 4197 0.623617 AGGGGAACTATGGTGGGGAC 60.624 60.000 0.00 0.00 0.00 4.46
2545 6540 6.876257 CCTGATTTCACTTCAAGTAGCTTAGT 59.124 38.462 0.00 0.00 0.00 2.24
2548 6543 5.471456 CACCTGATTTCACTTCAAGTAGCTT 59.529 40.000 0.00 0.00 0.00 3.74
2602 6598 0.772517 GGGGGAAATAGGAGGAGGGG 60.773 65.000 0.00 0.00 0.00 4.79
2622 6631 5.921004 GCAACAATGGCTAGATTAGAGAG 57.079 43.478 0.00 0.00 0.00 3.20
2677 6804 4.202284 TGGTACTTTCAGTGTAGGGTTCAC 60.202 45.833 0.00 0.00 36.22 3.18


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

AutoCloner maintained by Alex Coulton.