Multiple sequence alignment - TraesCS7B01G102000

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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 TraesCS7B01G102000 chr7B 100.000 6255 0 0 1 6255 116384223 116390477 0.000000e+00 11551.0
1 TraesCS7B01G102000 chr7B 90.152 132 11 2 2195 2325 70430052 70429922 3.000000e-38 171.0
2 TraesCS7B01G102000 chr7B 90.351 114 11 0 2077 2190 709475542 709475655 3.910000e-32 150.0
3 TraesCS7B01G102000 chr7B 91.026 78 6 1 5989 6066 57588583 57588659 3.080000e-18 104.0
4 TraesCS7B01G102000 chr7D 96.075 2930 91 12 2849 5774 154186065 154188974 0.000000e+00 4752.0
5 TraesCS7B01G102000 chr7D 93.948 1388 52 19 720 2084 154183870 154185248 0.000000e+00 2069.0
6 TraesCS7B01G102000 chr7D 96.391 665 20 4 2189 2852 154185247 154185908 0.000000e+00 1092.0
7 TraesCS7B01G102000 chr7D 92.664 259 11 3 5774 6029 154189098 154189351 3.560000e-97 366.0
8 TraesCS7B01G102000 chr7D 84.375 352 38 8 1744 2084 154185367 154185712 4.670000e-86 329.0
9 TraesCS7B01G102000 chr7D 90.171 234 18 3 6023 6255 154189504 154189733 3.670000e-77 300.0
10 TraesCS7B01G102000 chr7D 90.647 139 11 1 2189 2325 445904003 445903865 3.850000e-42 183.0
11 TraesCS7B01G102000 chr7D 96.296 108 4 0 2083 2190 497596669 497596562 1.790000e-40 178.0
12 TraesCS7B01G102000 chr7D 91.935 124 8 2 2189 2311 154185711 154185833 8.340000e-39 172.0
13 TraesCS7B01G102000 chr7A 95.957 2300 65 8 2849 5126 156113545 156115838 0.000000e+00 3707.0
14 TraesCS7B01G102000 chr7A 92.662 1390 52 23 720 2084 156111827 156113191 0.000000e+00 1956.0
15 TraesCS7B01G102000 chr7A 96.610 649 20 1 5128 5774 156116004 156116652 0.000000e+00 1075.0
16 TraesCS7B01G102000 chr7A 90.876 548 36 6 2310 2852 156112849 156113387 0.000000e+00 723.0
17 TraesCS7B01G102000 chr7A 96.380 221 6 1 5774 5992 156116787 156117007 4.610000e-96 363.0
18 TraesCS7B01G102000 chr7A 94.886 176 9 0 6080 6255 156117028 156117203 6.180000e-70 276.0
19 TraesCS7B01G102000 chr7A 91.129 124 9 2 2189 2311 156113190 156113312 3.880000e-37 167.0
20 TraesCS7B01G102000 chr5B 100.000 723 0 0 1 723 530690785 530691507 0.000000e+00 1336.0
21 TraesCS7B01G102000 chr5B 89.937 159 14 2 2620 2777 512581640 512581483 2.960000e-48 204.0
22 TraesCS7B01G102000 chr5B 92.701 137 10 0 2189 2325 512581605 512581469 1.380000e-46 198.0
23 TraesCS7B01G102000 chr5B 91.781 73 5 1 5989 6061 702514342 702514413 3.990000e-17 100.0
24 TraesCS7B01G102000 chr5B 94.737 38 2 0 2043 2080 328852691 328852654 6.770000e-05 60.2
25 TraesCS7B01G102000 chr4D 86.078 747 81 15 1001 1746 502533205 502533929 0.000000e+00 782.0
26 TraesCS7B01G102000 chr4D 84.317 593 72 12 3067 3639 502534468 502535059 1.520000e-155 560.0
27 TraesCS7B01G102000 chr4D 91.818 110 9 0 2081 2190 65128009 65128118 3.020000e-33 154.0
28 TraesCS7B01G102000 chr4D 93.103 87 6 0 5157 5243 502536031 502536117 1.830000e-25 128.0
29 TraesCS7B01G102000 chr5A 85.146 754 91 18 1001 1746 685865747 685866487 0.000000e+00 752.0
30 TraesCS7B01G102000 chr5A 82.562 648 77 23 3001 3639 685866823 685867443 7.130000e-149 538.0
31 TraesCS7B01G102000 chr5A 82.988 482 58 11 3789 4250 685867458 685867935 1.250000e-111 414.0
32 TraesCS7B01G102000 chr5A 95.370 108 5 0 2083 2190 528280530 528280423 8.340000e-39 172.0
33 TraesCS7B01G102000 chr5A 90.179 112 11 0 2079 2190 64655938 64655827 5.050000e-31 147.0
34 TraesCS7B01G102000 chr2D 88.338 343 39 1 1 342 66117464 66117122 1.620000e-110 411.0
35 TraesCS7B01G102000 chr2D 94.298 228 13 0 497 724 66116477 66116250 3.590000e-92 350.0
36 TraesCS7B01G102000 chr2D 89.899 99 9 1 603 701 66117940 66118037 6.580000e-25 126.0
37 TraesCS7B01G102000 chr2D 92.105 76 5 1 5989 6064 451974403 451974329 8.580000e-19 106.0
38 TraesCS7B01G102000 chr4B 94.860 214 8 3 4019 4230 211583904 211584116 1.300000e-86 331.0
39 TraesCS7B01G102000 chr4B 91.071 112 10 0 3605 3716 211583785 211583896 1.090000e-32 152.0
40 TraesCS7B01G102000 chr3D 85.135 222 26 7 4014 4233 421608280 421608064 2.940000e-53 220.0
41 TraesCS7B01G102000 chr3D 89.831 118 11 1 2074 2190 402776237 402776354 3.910000e-32 150.0
42 TraesCS7B01G102000 chr3D 94.737 38 2 0 2043 2080 380290768 380290731 6.770000e-05 60.2
43 TraesCS7B01G102000 chr1D 91.720 157 11 2 2622 2777 21822472 21822317 3.800000e-52 217.0
44 TraesCS7B01G102000 chr1D 94.891 137 7 0 2189 2325 21822439 21822303 1.370000e-51 215.0
45 TraesCS7B01G102000 chr1D 90.265 113 11 0 2078 2190 85196229 85196117 1.400000e-31 148.0
46 TraesCS7B01G102000 chr1D 89.873 79 7 1 5987 6065 28961001 28960924 3.990000e-17 100.0
47 TraesCS7B01G102000 chr2B 91.216 148 11 2 2620 2766 357884359 357884505 3.820000e-47 200.0
48 TraesCS7B01G102000 chr2B 92.537 134 10 0 2189 2322 357884394 357884527 6.400000e-45 193.0
49 TraesCS7B01G102000 chr2B 90.789 76 6 1 5989 6064 532093902 532093828 3.990000e-17 100.0
50 TraesCS7B01G102000 chr3B 92.537 134 9 1 2622 2754 324234831 324234698 2.300000e-44 191.0
51 TraesCS7B01G102000 chr3B 91.241 137 11 1 2189 2325 324234798 324234663 1.070000e-42 185.0
52 TraesCS7B01G102000 chr3B 92.308 130 7 2 592 721 28297433 28297559 1.390000e-41 182.0
53 TraesCS7B01G102000 chr3B 92.500 40 3 0 2043 2082 47609315 47609354 2.440000e-04 58.4
54 TraesCS7B01G102000 chr4A 90.517 116 10 1 2083 2198 539752683 539752569 1.090000e-32 152.0
55 TraesCS7B01G102000 chr4A 97.368 38 1 0 2043 2080 740034254 740034291 1.460000e-06 65.8
56 TraesCS7B01G102000 chrUn 90.351 114 11 0 2077 2190 288604696 288604583 3.910000e-32 150.0
57 TraesCS7B01G102000 chr2A 91.026 78 5 2 5988 6065 569190859 569190784 3.080000e-18 104.0
58 TraesCS7B01G102000 chr1A 90.789 76 6 1 5989 6064 152464105 152464179 3.990000e-17 100.0
59 TraesCS7B01G102000 chr6B 97.368 38 1 0 2043 2080 14233068 14233031 1.460000e-06 65.8
60 TraesCS7B01G102000 chr6B 100.000 29 0 0 2052 2080 622902608 622902580 3.000000e-03 54.7


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 TraesCS7B01G102000 chr7B 116384223 116390477 6254 False 11551.000000 11551 100.000000 1 6255 1 chr7B.!!$F2 6254
1 TraesCS7B01G102000 chr7D 154183870 154189733 5863 False 1297.142857 4752 92.222714 720 6255 7 chr7D.!!$F1 5535
2 TraesCS7B01G102000 chr7A 156111827 156117203 5376 False 1181.000000 3707 94.071429 720 6255 7 chr7A.!!$F1 5535
3 TraesCS7B01G102000 chr5B 530690785 530691507 722 False 1336.000000 1336 100.000000 1 723 1 chr5B.!!$F1 722
4 TraesCS7B01G102000 chr4D 502533205 502536117 2912 False 490.000000 782 87.832667 1001 5243 3 chr4D.!!$F2 4242
5 TraesCS7B01G102000 chr5A 685865747 685867935 2188 False 568.000000 752 83.565333 1001 4250 3 chr5A.!!$F1 3249
6 TraesCS7B01G102000 chr2D 66116250 66117464 1214 True 380.500000 411 91.318000 1 724 2 chr2D.!!$R2 723

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
915 1515 1.070914 GGCGGAGGGAGAGGAAATAAG 59.929 57.143 0.00 0.00 0.00 1.73 F
2072 2760 0.698238 TGCCCTATGGACTGCAGTTT 59.302 50.000 22.65 11.68 0.00 2.66 F
2581 3270 0.035056 ACCTGCTCTGTATGGTTGGC 60.035 55.000 0.00 0.00 0.00 4.52 F
2817 3506 0.681175 AGGTGCCTGATTGTTTTGGC 59.319 50.000 0.00 0.00 45.10 4.52 F
4555 5529 0.039256 TCTTGGCACATTGCGCTTTC 60.039 50.000 9.73 0.00 46.21 2.62 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2173 2861 0.408700 ACCTACTCCCTCCGTTCACT 59.591 55.000 0.00 0.00 0.00 3.41 R
3196 4115 3.559238 ACCGAAGATGTCAATTTGCAC 57.441 42.857 0.00 0.00 0.00 4.57 R
4555 5529 0.103208 CTGTAGGAGTTAGCCGGCTG 59.897 60.000 38.98 14.19 0.00 4.85 R
4715 5689 9.847224 TTTGTATCCTTACCCTTAATCTCATTC 57.153 33.333 0.00 0.00 0.00 2.67 R
5985 7395 0.631753 TGGGGACAGAGGGAGTAGAG 59.368 60.000 0.00 0.00 35.01 2.43 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
753 1347 7.179927 TGTACGAATTTCGAAGAATTGACAA 57.820 32.000 24.50 0.00 45.90 3.18
806 1404 2.941428 ACTTTGGGCGAAATTTAAGCG 58.059 42.857 10.72 3.31 0.00 4.68
893 1493 8.313292 CCAGGTTGAAATCCTATTGAATTTCAA 58.687 33.333 13.88 13.88 45.22 2.69
911 1511 2.687566 GGGCGGAGGGAGAGGAAA 60.688 66.667 0.00 0.00 0.00 3.13
912 1512 2.073101 GGGCGGAGGGAGAGGAAAT 61.073 63.158 0.00 0.00 0.00 2.17
915 1515 1.070914 GGCGGAGGGAGAGGAAATAAG 59.929 57.143 0.00 0.00 0.00 1.73
917 1517 2.434702 GCGGAGGGAGAGGAAATAAGAA 59.565 50.000 0.00 0.00 0.00 2.52
919 1519 3.070302 CGGAGGGAGAGGAAATAAGAAGG 59.930 52.174 0.00 0.00 0.00 3.46
969 1576 1.080974 CGAAGCCGTCCGTACACTT 60.081 57.895 0.00 0.00 0.00 3.16
1473 2080 1.377856 GAGCCCCTTCAAGCAGGTC 60.378 63.158 0.00 0.00 30.96 3.85
1474 2081 2.747855 GCCCCTTCAAGCAGGTCG 60.748 66.667 0.00 0.00 30.96 4.79
1476 2083 2.750350 CCCTTCAAGCAGGTCGGT 59.250 61.111 0.00 0.00 30.96 4.69
1506 2131 4.078639 ACACCTTCTCTTTGTTCCTCAG 57.921 45.455 0.00 0.00 0.00 3.35
1521 2146 2.448961 TCCTCAGTTCCCCAAAATTCCA 59.551 45.455 0.00 0.00 0.00 3.53
1526 2151 3.509967 CAGTTCCCCAAAATTCCACCTAC 59.490 47.826 0.00 0.00 0.00 3.18
1529 2154 2.042433 TCCCCAAAATTCCACCTACCAG 59.958 50.000 0.00 0.00 0.00 4.00
1531 2156 3.010808 CCCCAAAATTCCACCTACCAGTA 59.989 47.826 0.00 0.00 0.00 2.74
1534 2159 5.340027 CCCAAAATTCCACCTACCAGTAGAT 60.340 44.000 6.39 0.00 35.21 1.98
1786 2417 2.185004 ATCACCGTTTCCTTGGTCAG 57.815 50.000 0.00 0.00 35.96 3.51
1793 2425 3.138304 CGTTTCCTTGGTCAGACATTGA 58.862 45.455 2.17 0.00 0.00 2.57
1846 2481 3.728076 TCAGTTCGCTGTCTTGTTACT 57.272 42.857 0.00 0.00 45.19 2.24
1850 2485 3.002348 AGTTCGCTGTCTTGTTACTTTGC 59.998 43.478 0.00 0.00 0.00 3.68
2028 2716 8.915036 TGTGTGGTTGGTATTTTTATGTACTTT 58.085 29.630 0.00 0.00 0.00 2.66
2032 2720 9.584008 TGGTTGGTATTTTTATGTACTTTGGTA 57.416 29.630 0.00 0.00 0.00 3.25
2072 2760 0.698238 TGCCCTATGGACTGCAGTTT 59.302 50.000 22.65 11.68 0.00 2.66
2079 2767 5.047092 CCCTATGGACTGCAGTTTCATTTTT 60.047 40.000 28.99 16.12 0.00 1.94
2082 2770 8.253113 CCTATGGACTGCAGTTTCATTTTTATT 58.747 33.333 28.99 14.83 0.00 1.40
2084 2772 8.986477 ATGGACTGCAGTTTCATTTTTATTAC 57.014 30.769 22.65 2.14 0.00 1.89
2085 2773 8.177119 TGGACTGCAGTTTCATTTTTATTACT 57.823 30.769 22.65 0.00 0.00 2.24
2086 2774 8.637986 TGGACTGCAGTTTCATTTTTATTACTT 58.362 29.630 22.65 0.00 0.00 2.24
2087 2775 9.129209 GGACTGCAGTTTCATTTTTATTACTTC 57.871 33.333 22.65 0.65 0.00 3.01
2088 2776 9.129209 GACTGCAGTTTCATTTTTATTACTTCC 57.871 33.333 22.65 0.00 0.00 3.46
2089 2777 8.860088 ACTGCAGTTTCATTTTTATTACTTCCT 58.140 29.630 15.25 0.00 0.00 3.36
2090 2778 9.346725 CTGCAGTTTCATTTTTATTACTTCCTC 57.653 33.333 5.25 0.00 0.00 3.71
2091 2779 9.077885 TGCAGTTTCATTTTTATTACTTCCTCT 57.922 29.630 0.00 0.00 0.00 3.69
2092 2780 9.346725 GCAGTTTCATTTTTATTACTTCCTCTG 57.653 33.333 0.00 0.00 0.00 3.35
2098 2786 9.793259 TCATTTTTATTACTTCCTCTGTTCACT 57.207 29.630 0.00 0.00 0.00 3.41
2107 2795 9.720769 TTACTTCCTCTGTTCACTTTTATAAGG 57.279 33.333 0.00 0.00 35.61 2.69
2108 2796 6.655425 ACTTCCTCTGTTCACTTTTATAAGGC 59.345 38.462 0.00 0.00 35.61 4.35
2109 2797 5.175859 TCCTCTGTTCACTTTTATAAGGCG 58.824 41.667 0.00 0.00 35.61 5.52
2110 2798 4.201822 CCTCTGTTCACTTTTATAAGGCGC 60.202 45.833 0.00 0.00 35.61 6.53
2111 2799 4.575885 TCTGTTCACTTTTATAAGGCGCT 58.424 39.130 7.64 0.00 35.61 5.92
2112 2800 4.391830 TCTGTTCACTTTTATAAGGCGCTG 59.608 41.667 7.64 0.00 35.61 5.18
2113 2801 4.069304 TGTTCACTTTTATAAGGCGCTGT 58.931 39.130 7.64 0.00 35.61 4.40
2114 2802 5.239351 TGTTCACTTTTATAAGGCGCTGTA 58.761 37.500 7.64 0.00 35.61 2.74
2115 2803 5.350365 TGTTCACTTTTATAAGGCGCTGTAG 59.650 40.000 7.64 0.00 35.61 2.74
2116 2804 5.333299 TCACTTTTATAAGGCGCTGTAGA 57.667 39.130 7.64 0.00 35.61 2.59
2117 2805 5.348986 TCACTTTTATAAGGCGCTGTAGAG 58.651 41.667 7.64 0.00 35.61 2.43
2118 2806 5.126545 TCACTTTTATAAGGCGCTGTAGAGA 59.873 40.000 7.64 0.00 35.61 3.10
2119 2807 5.986135 CACTTTTATAAGGCGCTGTAGAGAT 59.014 40.000 7.64 0.00 35.61 2.75
2120 2808 6.480320 CACTTTTATAAGGCGCTGTAGAGATT 59.520 38.462 7.64 0.00 35.61 2.40
2121 2809 7.011482 CACTTTTATAAGGCGCTGTAGAGATTT 59.989 37.037 7.64 0.00 35.61 2.17
2122 2810 8.202137 ACTTTTATAAGGCGCTGTAGAGATTTA 58.798 33.333 7.64 0.00 35.61 1.40
2123 2811 8.951787 TTTTATAAGGCGCTGTAGAGATTTAA 57.048 30.769 7.64 0.00 0.00 1.52
2124 2812 8.589335 TTTATAAGGCGCTGTAGAGATTTAAG 57.411 34.615 7.64 0.00 0.00 1.85
2125 2813 4.737855 AAGGCGCTGTAGAGATTTAAGA 57.262 40.909 7.64 0.00 0.00 2.10
2126 2814 4.048241 AGGCGCTGTAGAGATTTAAGAC 57.952 45.455 7.64 0.00 0.00 3.01
2127 2815 3.447586 AGGCGCTGTAGAGATTTAAGACA 59.552 43.478 7.64 0.00 0.00 3.41
2128 2816 3.799420 GGCGCTGTAGAGATTTAAGACAG 59.201 47.826 7.64 0.00 40.39 3.51
2133 2821 6.284475 CTGTAGAGATTTAAGACAGCATGC 57.716 41.667 10.51 10.51 42.53 4.06
2134 2822 5.733676 TGTAGAGATTTAAGACAGCATGCA 58.266 37.500 21.98 0.00 42.53 3.96
2135 2823 6.172630 TGTAGAGATTTAAGACAGCATGCAA 58.827 36.000 21.98 3.36 42.53 4.08
2136 2824 6.654582 TGTAGAGATTTAAGACAGCATGCAAA 59.345 34.615 21.98 10.74 42.53 3.68
2137 2825 6.579666 AGAGATTTAAGACAGCATGCAAAA 57.420 33.333 21.98 10.13 42.53 2.44
2138 2826 6.385033 AGAGATTTAAGACAGCATGCAAAAC 58.615 36.000 21.98 9.07 42.53 2.43
2139 2827 6.016024 AGAGATTTAAGACAGCATGCAAAACA 60.016 34.615 21.98 0.00 42.53 2.83
2140 2828 6.154445 AGATTTAAGACAGCATGCAAAACAG 58.846 36.000 21.98 4.67 42.53 3.16
2141 2829 4.916983 TTAAGACAGCATGCAAAACAGT 57.083 36.364 21.98 7.99 42.53 3.55
2142 2830 3.806625 AAGACAGCATGCAAAACAGTT 57.193 38.095 21.98 0.60 42.53 3.16
2143 2831 3.806625 AGACAGCATGCAAAACAGTTT 57.193 38.095 21.98 0.00 42.53 2.66
2144 2832 4.916983 AGACAGCATGCAAAACAGTTTA 57.083 36.364 21.98 0.00 42.53 2.01
2145 2833 5.261209 AGACAGCATGCAAAACAGTTTAA 57.739 34.783 21.98 0.00 42.53 1.52
2146 2834 5.846203 AGACAGCATGCAAAACAGTTTAAT 58.154 33.333 21.98 0.00 42.53 1.40
2147 2835 6.282930 AGACAGCATGCAAAACAGTTTAATT 58.717 32.000 21.98 0.00 42.53 1.40
2148 2836 6.762661 AGACAGCATGCAAAACAGTTTAATTT 59.237 30.769 21.98 0.00 42.53 1.82
2149 2837 6.947258 ACAGCATGCAAAACAGTTTAATTTC 58.053 32.000 21.98 0.00 42.53 2.17
2150 2838 6.538021 ACAGCATGCAAAACAGTTTAATTTCA 59.462 30.769 21.98 0.00 42.53 2.69
2151 2839 7.067116 CAGCATGCAAAACAGTTTAATTTCAG 58.933 34.615 21.98 0.00 0.00 3.02
2152 2840 6.762661 AGCATGCAAAACAGTTTAATTTCAGT 59.237 30.769 21.98 0.00 0.00 3.41
2153 2841 7.280652 AGCATGCAAAACAGTTTAATTTCAGTT 59.719 29.630 21.98 0.00 0.00 3.16
2154 2842 7.373966 GCATGCAAAACAGTTTAATTTCAGTTG 59.626 33.333 14.21 0.00 0.00 3.16
2155 2843 7.897575 TGCAAAACAGTTTAATTTCAGTTGT 57.102 28.000 0.00 0.00 0.00 3.32
2156 2844 7.958674 TGCAAAACAGTTTAATTTCAGTTGTC 58.041 30.769 0.00 0.00 0.00 3.18
2157 2845 7.816995 TGCAAAACAGTTTAATTTCAGTTGTCT 59.183 29.630 0.00 0.00 0.00 3.41
2158 2846 9.296400 GCAAAACAGTTTAATTTCAGTTGTCTA 57.704 29.630 0.00 0.00 0.00 2.59
2163 2851 9.498307 ACAGTTTAATTTCAGTTGTCTAAAACG 57.502 29.630 0.00 0.00 35.13 3.60
2164 2852 9.710979 CAGTTTAATTTCAGTTGTCTAAAACGA 57.289 29.630 0.00 0.00 35.13 3.85
2165 2853 9.712359 AGTTTAATTTCAGTTGTCTAAAACGAC 57.288 29.630 0.00 0.00 41.93 4.34
2180 2868 9.508495 GTCTAAAACGACTTATAAAAGTGAACG 57.492 33.333 0.00 0.00 46.09 3.95
2181 2869 8.702438 TCTAAAACGACTTATAAAAGTGAACGG 58.298 33.333 0.00 0.00 46.09 4.44
2182 2870 7.481275 AAAACGACTTATAAAAGTGAACGGA 57.519 32.000 0.00 0.00 46.09 4.69
2183 2871 6.701432 AACGACTTATAAAAGTGAACGGAG 57.299 37.500 0.00 0.00 46.09 4.63
2184 2872 5.166398 ACGACTTATAAAAGTGAACGGAGG 58.834 41.667 0.00 0.00 46.09 4.30
2185 2873 4.565564 CGACTTATAAAAGTGAACGGAGGG 59.434 45.833 0.00 0.00 46.09 4.30
2186 2874 5.622914 CGACTTATAAAAGTGAACGGAGGGA 60.623 44.000 0.00 0.00 46.09 4.20
2187 2875 5.731591 ACTTATAAAAGTGAACGGAGGGAG 58.268 41.667 0.00 0.00 44.40 4.30
2197 2885 1.558233 ACGGAGGGAGTAGGTTCTTG 58.442 55.000 0.00 0.00 0.00 3.02
2242 2930 5.867716 GCATCTTGATTTCTTCAGTTGCAAT 59.132 36.000 0.59 0.00 35.27 3.56
2249 2937 8.351495 TGATTTCTTCAGTTGCAATTGTTTAC 57.649 30.769 19.91 0.00 0.00 2.01
2250 2938 8.196771 TGATTTCTTCAGTTGCAATTGTTTACT 58.803 29.630 19.91 0.29 0.00 2.24
2330 3018 8.816894 AGTGTTTATCCATCTTTCTGTCTCTTA 58.183 33.333 0.00 0.00 0.00 2.10
2375 3064 7.837689 ACATGTACTCCTGTAGTCCTGTATAAA 59.162 37.037 0.00 0.00 39.80 1.40
2392 3081 8.554528 CCTGTATAAAGATGCTGTTGAATGTAG 58.445 37.037 0.00 0.00 0.00 2.74
2427 3116 7.040961 GCTGTCTTGTTACCTTGTAACCAAATA 60.041 37.037 13.01 0.00 0.00 1.40
2437 3126 6.264518 ACCTTGTAACCAAATAGGACAGTTTG 59.735 38.462 0.00 0.00 41.22 2.93
2450 3139 5.640147 AGGACAGTTTGGGATTAATCAACA 58.360 37.500 17.07 12.01 0.00 3.33
2492 3181 5.728637 ATCAGTGATTATCAGGATACGCA 57.271 39.130 0.00 0.00 46.39 5.24
2495 3184 6.524734 TCAGTGATTATCAGGATACGCATTT 58.475 36.000 0.00 0.00 46.39 2.32
2581 3270 0.035056 ACCTGCTCTGTATGGTTGGC 60.035 55.000 0.00 0.00 0.00 4.52
2701 3390 3.066481 GGGAGCATCTTGATTTCTTCAGC 59.934 47.826 0.00 0.00 35.27 4.26
2817 3506 0.681175 AGGTGCCTGATTGTTTTGGC 59.319 50.000 0.00 0.00 45.10 4.52
2852 3541 7.154435 TGCTACTCCAGTTGTAGTTTAGTAG 57.846 40.000 0.00 0.00 39.47 2.57
3091 4008 1.818060 TGTTGCATGCCACCTTATGAC 59.182 47.619 18.39 3.14 0.00 3.06
3092 4009 1.818060 GTTGCATGCCACCTTATGACA 59.182 47.619 16.68 0.00 0.00 3.58
3196 4115 3.566742 TGCCATTGCTATGCTGTATCAAG 59.433 43.478 2.27 0.00 38.71 3.02
3508 4437 3.585862 CTTTTGCTTTGCTGATGCTGAT 58.414 40.909 0.00 0.00 40.48 2.90
3723 4658 1.093159 GTCAAGGAGCTGCATTCCTG 58.907 55.000 17.84 12.78 44.24 3.86
3893 4849 5.382618 ACATCCTCATCAAAAACAAGCTC 57.617 39.130 0.00 0.00 0.00 4.09
3966 4922 6.095580 CAGATGTTCTAACTGTCCTACTGCTA 59.904 42.308 0.00 0.00 0.00 3.49
4287 5261 9.252962 CAAATAGAAAGCACAACTGAATCTTTT 57.747 29.630 0.00 0.00 0.00 2.27
4357 5331 1.147191 AGTGTGGTAGTCTGGGACTCA 59.853 52.381 3.32 0.00 42.40 3.41
4369 5343 4.223923 GTCTGGGACTCAGGGATATATTGG 59.776 50.000 1.57 0.00 43.53 3.16
4390 5364 5.708948 TGGAAGTTTTGACTTTCTGTTGTG 58.291 37.500 0.00 0.00 0.00 3.33
4399 5373 3.949113 GACTTTCTGTTGTGTTTGGGGTA 59.051 43.478 0.00 0.00 0.00 3.69
4469 5443 5.230182 GCTTGCACAGCCTATTAAAACTTT 58.770 37.500 9.03 0.00 43.65 2.66
4470 5444 5.346011 GCTTGCACAGCCTATTAAAACTTTC 59.654 40.000 9.03 0.00 43.65 2.62
4500 5474 7.710475 TGTTTTCCTGAAATGGATTTTGTTCTC 59.290 33.333 0.00 0.00 35.83 2.87
4555 5529 0.039256 TCTTGGCACATTGCGCTTTC 60.039 50.000 9.73 0.00 46.21 2.62
4715 5689 5.526010 AAAAACGTAAGCGAATAGGTGAG 57.474 39.130 0.00 0.00 45.62 3.51
4869 5950 4.868171 CCTTTGGTGATTCATGAGCATTTG 59.132 41.667 0.00 0.00 0.00 2.32
4871 5952 2.826725 TGGTGATTCATGAGCATTTGCA 59.173 40.909 5.20 0.00 45.16 4.08
4876 5957 5.177881 GTGATTCATGAGCATTTGCAACAAA 59.822 36.000 0.00 0.00 45.16 2.83
4988 6089 3.990959 TCTCTCTCTGACAGCAGACTA 57.009 47.619 0.00 0.00 45.88 2.59
4989 6090 4.293662 TCTCTCTCTGACAGCAGACTAA 57.706 45.455 0.00 0.00 45.88 2.24
5255 6520 0.766288 AGAGCCTCCATCCCCTTAGC 60.766 60.000 0.00 0.00 0.00 3.09
5267 6532 3.558411 CTTAGCGACGCTGCTGCC 61.558 66.667 31.69 0.00 46.70 4.85
5325 6590 3.511934 GGAGATCCCACGAGCATACTATT 59.488 47.826 0.00 0.00 34.14 1.73
5386 6651 5.071370 CGTGAGGTAGGAGGACATACTAAT 58.929 45.833 0.00 0.00 34.31 1.73
5398 6664 9.429359 GGAGGACATACTAATGATCAAGTAATG 57.571 37.037 10.54 11.10 36.54 1.90
5464 6732 2.027469 GGTTACCGGTCTCTTGGTTCAT 60.027 50.000 12.40 0.00 39.70 2.57
5470 6738 5.611374 ACCGGTCTCTTGGTTCATTATATG 58.389 41.667 0.00 0.00 33.81 1.78
5548 6816 6.152661 TCCATTAACCATGAACACCAAGATTC 59.847 38.462 0.00 0.00 34.31 2.52
5628 6896 6.053632 TGTGTGGAACTGATAGATTCACAT 57.946 37.500 3.92 0.00 38.04 3.21
5656 6924 6.293626 GCAAAATTATACAGATGCCAGATCGT 60.294 38.462 0.00 0.00 0.00 3.73
5697 6965 7.069950 TGGTATTCACAACAGATATGCTACTCT 59.930 37.037 0.00 0.00 0.00 3.24
5720 6988 6.155221 TCTGTATCCAATTGTCAGACTAAGCT 59.845 38.462 4.43 0.00 31.51 3.74
5821 7224 6.625740 GCACATAGCTCACATTTTGTTGGTAT 60.626 38.462 0.00 0.00 41.15 2.73
5951 7361 2.210013 TTCCTCTGCGCTGACCTGT 61.210 57.895 13.46 0.00 0.00 4.00
5952 7362 0.898326 TTCCTCTGCGCTGACCTGTA 60.898 55.000 13.46 0.00 0.00 2.74
5953 7363 1.140589 CCTCTGCGCTGACCTGTAG 59.859 63.158 13.46 2.52 0.00 2.74
5954 7364 1.599606 CCTCTGCGCTGACCTGTAGT 61.600 60.000 13.46 0.00 0.00 2.73
5955 7365 0.457509 CTCTGCGCTGACCTGTAGTG 60.458 60.000 13.46 0.00 0.00 2.74
5985 7395 4.966366 GCTCAGCATTTGATATGTTTCGTC 59.034 41.667 0.00 0.00 34.68 4.20
5990 7400 7.222805 TCAGCATTTGATATGTTTCGTCTCTAC 59.777 37.037 0.00 0.00 0.00 2.59
5997 7407 3.436577 TGTTTCGTCTCTACTCCCTCT 57.563 47.619 0.00 0.00 0.00 3.69
5998 7408 3.082548 TGTTTCGTCTCTACTCCCTCTG 58.917 50.000 0.00 0.00 0.00 3.35
6003 7413 0.927767 TCTCTACTCCCTCTGTCCCC 59.072 60.000 0.00 0.00 0.00 4.81
6020 7431 6.713450 TCTGTCCCCAAAATAAGTGTCTTAAC 59.287 38.462 0.00 0.00 0.00 2.01
6021 7432 5.771165 TGTCCCCAAAATAAGTGTCTTAACC 59.229 40.000 0.00 0.00 0.00 2.85
6054 7624 9.370126 CAAAGTTGAGACACTTATTTTAAGACG 57.630 33.333 1.47 0.00 35.87 4.18
6059 7629 6.872020 TGAGACACTTATTTTAAGACGGAAGG 59.128 38.462 1.47 0.00 0.00 3.46
6066 7636 8.033626 ACTTATTTTAAGACGGAAGGAGTACTG 58.966 37.037 0.00 0.00 0.00 2.74
6175 7752 6.780457 ATCCTTGTGATAAGAAATGTTGGG 57.220 37.500 0.00 0.00 0.00 4.12
6206 7783 1.946768 TGCTGACTACTGTGGCAAAAC 59.053 47.619 0.00 0.00 31.83 2.43
6240 7817 1.216990 AGGCAGAGAAATCGGGGAAT 58.783 50.000 0.00 0.00 0.00 3.01
6242 7819 2.024941 AGGCAGAGAAATCGGGGAATTT 60.025 45.455 0.00 0.00 0.00 1.82
6250 7827 2.058593 ATCGGGGAATTTCTGCCTTC 57.941 50.000 0.00 0.00 35.37 3.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
739 1333 6.208007 TCTGGTAGTAGTTGTCAATTCTTCGA 59.792 38.462 0.00 0.00 0.00 3.71
753 1347 7.395489 TCTTTCCGTATTTCTTCTGGTAGTAGT 59.605 37.037 0.00 0.00 0.00 2.73
893 1493 2.553438 ATTTCCTCTCCCTCCGCCCT 62.553 60.000 0.00 0.00 0.00 5.19
911 1511 1.415200 GTCGGCTCTCCCCTTCTTAT 58.585 55.000 0.00 0.00 0.00 1.73
912 1512 0.686769 GGTCGGCTCTCCCCTTCTTA 60.687 60.000 0.00 0.00 0.00 2.10
915 1515 3.839432 CGGTCGGCTCTCCCCTTC 61.839 72.222 0.00 0.00 0.00 3.46
919 1519 3.827898 CTGTCGGTCGGCTCTCCC 61.828 72.222 0.00 0.00 0.00 4.30
944 1551 3.793888 GGACGGCTTCGGGGGATT 61.794 66.667 0.00 0.00 38.38 3.01
1101 1708 2.204291 AAGCCCTCCATGGTCCCA 60.204 61.111 12.58 0.00 0.00 4.37
1473 2080 1.202722 AGAAGGTGTACCAACCAACCG 60.203 52.381 3.56 0.00 43.20 4.44
1474 2081 2.105993 AGAGAAGGTGTACCAACCAACC 59.894 50.000 3.56 0.00 43.20 3.77
1476 2083 4.204012 CAAAGAGAAGGTGTACCAACCAA 58.796 43.478 3.56 0.00 43.20 3.67
1478 2085 3.816994 ACAAAGAGAAGGTGTACCAACC 58.183 45.455 3.56 0.00 40.85 3.77
1479 2086 4.275196 GGAACAAAGAGAAGGTGTACCAAC 59.725 45.833 3.56 0.00 38.89 3.77
1480 2087 4.165372 AGGAACAAAGAGAAGGTGTACCAA 59.835 41.667 3.56 0.00 38.89 3.67
1506 2131 2.829720 GGTAGGTGGAATTTTGGGGAAC 59.170 50.000 0.00 0.00 0.00 3.62
1521 2146 4.777896 ACATTGTGTGATCTACTGGTAGGT 59.222 41.667 7.76 0.69 34.06 3.08
1526 2151 5.077134 TCAGACATTGTGTGATCTACTGG 57.923 43.478 12.24 0.00 30.93 4.00
1529 2154 4.026228 CGCATCAGACATTGTGTGATCTAC 60.026 45.833 22.58 15.21 43.15 2.59
1531 2156 2.934553 CGCATCAGACATTGTGTGATCT 59.065 45.455 22.58 5.49 43.15 2.75
1534 2159 1.441738 CCGCATCAGACATTGTGTGA 58.558 50.000 17.78 17.78 40.01 3.58
1574 2205 0.400213 TCGGTGAGAAATGGCCAGTT 59.600 50.000 20.19 20.19 0.00 3.16
1786 2417 9.429359 CCATCTTATATACAGGAGTTCAATGTC 57.571 37.037 0.00 0.00 0.00 3.06
1793 2425 8.319057 TCAACACCATCTTATATACAGGAGTT 57.681 34.615 0.00 0.00 31.64 3.01
1846 2481 4.202141 CCAAATCTCCTGTTTGACTGCAAA 60.202 41.667 0.52 0.00 41.47 3.68
1850 2485 3.754965 TCCCAAATCTCCTGTTTGACTG 58.245 45.455 0.52 0.00 38.51 3.51
1987 2637 4.020543 ACCACACAAAGCAGGTTTTCTTA 58.979 39.130 0.00 0.00 0.00 2.10
2028 2716 7.120579 CAGGTTGCAAAGTTTACTATGATACCA 59.879 37.037 0.00 0.00 0.00 3.25
2032 2720 5.954335 GCAGGTTGCAAAGTTTACTATGAT 58.046 37.500 0.00 0.00 44.26 2.45
2072 2760 9.793259 AGTGAACAGAGGAAGTAATAAAAATGA 57.207 29.630 0.00 0.00 0.00 2.57
2082 2770 7.822822 GCCTTATAAAAGTGAACAGAGGAAGTA 59.177 37.037 0.00 0.00 0.00 2.24
2083 2771 6.655425 GCCTTATAAAAGTGAACAGAGGAAGT 59.345 38.462 0.00 0.00 0.00 3.01
2084 2772 6.183360 CGCCTTATAAAAGTGAACAGAGGAAG 60.183 42.308 0.00 0.00 0.00 3.46
2085 2773 5.642063 CGCCTTATAAAAGTGAACAGAGGAA 59.358 40.000 0.00 0.00 0.00 3.36
2086 2774 5.175859 CGCCTTATAAAAGTGAACAGAGGA 58.824 41.667 0.00 0.00 0.00 3.71
2087 2775 4.201822 GCGCCTTATAAAAGTGAACAGAGG 60.202 45.833 0.00 0.00 0.00 3.69
2088 2776 4.631813 AGCGCCTTATAAAAGTGAACAGAG 59.368 41.667 2.29 0.00 0.00 3.35
2089 2777 4.391830 CAGCGCCTTATAAAAGTGAACAGA 59.608 41.667 2.29 0.00 0.00 3.41
2090 2778 4.154195 ACAGCGCCTTATAAAAGTGAACAG 59.846 41.667 2.29 0.00 0.00 3.16
2091 2779 4.069304 ACAGCGCCTTATAAAAGTGAACA 58.931 39.130 2.29 0.00 0.00 3.18
2092 2780 4.680171 ACAGCGCCTTATAAAAGTGAAC 57.320 40.909 2.29 0.00 0.00 3.18
2093 2781 5.726397 TCTACAGCGCCTTATAAAAGTGAA 58.274 37.500 2.29 0.00 0.00 3.18
2094 2782 5.126545 TCTCTACAGCGCCTTATAAAAGTGA 59.873 40.000 2.29 0.00 0.00 3.41
2095 2783 5.348986 TCTCTACAGCGCCTTATAAAAGTG 58.651 41.667 2.29 0.00 0.00 3.16
2096 2784 5.593679 TCTCTACAGCGCCTTATAAAAGT 57.406 39.130 2.29 0.00 0.00 2.66
2097 2785 7.484035 AAATCTCTACAGCGCCTTATAAAAG 57.516 36.000 2.29 0.00 0.00 2.27
2098 2786 8.951787 TTAAATCTCTACAGCGCCTTATAAAA 57.048 30.769 2.29 0.00 0.00 1.52
2099 2787 8.418662 TCTTAAATCTCTACAGCGCCTTATAAA 58.581 33.333 2.29 0.00 0.00 1.40
2100 2788 7.866393 GTCTTAAATCTCTACAGCGCCTTATAA 59.134 37.037 2.29 0.00 0.00 0.98
2101 2789 7.013942 TGTCTTAAATCTCTACAGCGCCTTATA 59.986 37.037 2.29 0.00 0.00 0.98
2102 2790 6.183360 TGTCTTAAATCTCTACAGCGCCTTAT 60.183 38.462 2.29 0.00 0.00 1.73
2103 2791 5.126545 TGTCTTAAATCTCTACAGCGCCTTA 59.873 40.000 2.29 0.00 0.00 2.69
2104 2792 4.081642 TGTCTTAAATCTCTACAGCGCCTT 60.082 41.667 2.29 0.00 0.00 4.35
2105 2793 3.447586 TGTCTTAAATCTCTACAGCGCCT 59.552 43.478 2.29 0.00 0.00 5.52
2106 2794 3.782046 TGTCTTAAATCTCTACAGCGCC 58.218 45.455 2.29 0.00 0.00 6.53
2110 2798 5.814188 TGCATGCTGTCTTAAATCTCTACAG 59.186 40.000 20.33 0.00 40.38 2.74
2111 2799 5.733676 TGCATGCTGTCTTAAATCTCTACA 58.266 37.500 20.33 0.00 0.00 2.74
2112 2800 6.668541 TTGCATGCTGTCTTAAATCTCTAC 57.331 37.500 20.33 0.00 0.00 2.59
2113 2801 7.174772 TGTTTTGCATGCTGTCTTAAATCTCTA 59.825 33.333 20.33 0.00 0.00 2.43
2114 2802 6.016024 TGTTTTGCATGCTGTCTTAAATCTCT 60.016 34.615 20.33 0.00 0.00 3.10
2115 2803 6.151691 TGTTTTGCATGCTGTCTTAAATCTC 58.848 36.000 20.33 4.75 0.00 2.75
2116 2804 6.088016 TGTTTTGCATGCTGTCTTAAATCT 57.912 33.333 20.33 0.00 0.00 2.40
2117 2805 5.922544 ACTGTTTTGCATGCTGTCTTAAATC 59.077 36.000 20.33 9.23 0.00 2.17
2118 2806 5.846203 ACTGTTTTGCATGCTGTCTTAAAT 58.154 33.333 20.33 0.00 0.00 1.40
2119 2807 5.261209 ACTGTTTTGCATGCTGTCTTAAA 57.739 34.783 20.33 6.89 0.00 1.52
2120 2808 4.916983 ACTGTTTTGCATGCTGTCTTAA 57.083 36.364 20.33 0.00 0.00 1.85
2121 2809 4.916983 AACTGTTTTGCATGCTGTCTTA 57.083 36.364 20.33 0.00 0.00 2.10
2122 2810 3.806625 AACTGTTTTGCATGCTGTCTT 57.193 38.095 20.33 0.00 0.00 3.01
2123 2811 3.806625 AAACTGTTTTGCATGCTGTCT 57.193 38.095 20.33 0.00 0.00 3.41
2124 2812 6.529463 AATTAAACTGTTTTGCATGCTGTC 57.471 33.333 20.33 7.45 0.00 3.51
2125 2813 6.538021 TGAAATTAAACTGTTTTGCATGCTGT 59.462 30.769 20.33 5.35 0.00 4.40
2126 2814 6.946165 TGAAATTAAACTGTTTTGCATGCTG 58.054 32.000 20.33 4.73 0.00 4.41
2127 2815 6.762661 ACTGAAATTAAACTGTTTTGCATGCT 59.237 30.769 20.33 0.00 0.00 3.79
2128 2816 6.947258 ACTGAAATTAAACTGTTTTGCATGC 58.053 32.000 11.82 11.82 0.00 4.06
2129 2817 8.389603 ACAACTGAAATTAAACTGTTTTGCATG 58.610 29.630 11.48 0.00 0.00 4.06
2130 2818 8.491331 ACAACTGAAATTAAACTGTTTTGCAT 57.509 26.923 11.48 0.00 0.00 3.96
2131 2819 7.816995 AGACAACTGAAATTAAACTGTTTTGCA 59.183 29.630 11.48 0.00 0.00 4.08
2132 2820 8.185003 AGACAACTGAAATTAAACTGTTTTGC 57.815 30.769 11.48 0.00 0.00 3.68
2137 2825 9.498307 CGTTTTAGACAACTGAAATTAAACTGT 57.502 29.630 0.00 0.00 34.91 3.55
2138 2826 9.710979 TCGTTTTAGACAACTGAAATTAAACTG 57.289 29.630 0.00 0.00 34.91 3.16
2139 2827 9.712359 GTCGTTTTAGACAACTGAAATTAAACT 57.288 29.630 0.00 0.00 40.65 2.66
2140 2828 9.712359 AGTCGTTTTAGACAACTGAAATTAAAC 57.288 29.630 0.00 0.00 43.24 2.01
2154 2842 9.508495 CGTTCACTTTTATAAGTCGTTTTAGAC 57.492 33.333 0.00 0.00 42.67 2.59
2155 2843 8.702438 CCGTTCACTTTTATAAGTCGTTTTAGA 58.298 33.333 0.00 0.00 42.67 2.10
2156 2844 8.702438 TCCGTTCACTTTTATAAGTCGTTTTAG 58.298 33.333 0.00 0.00 42.67 1.85
2157 2845 8.586570 TCCGTTCACTTTTATAAGTCGTTTTA 57.413 30.769 0.00 0.00 42.67 1.52
2158 2846 7.307573 CCTCCGTTCACTTTTATAAGTCGTTTT 60.308 37.037 0.00 0.00 42.67 2.43
2159 2847 6.146673 CCTCCGTTCACTTTTATAAGTCGTTT 59.853 38.462 0.00 0.00 42.67 3.60
2160 2848 5.636543 CCTCCGTTCACTTTTATAAGTCGTT 59.363 40.000 0.00 0.00 42.67 3.85
2161 2849 5.166398 CCTCCGTTCACTTTTATAAGTCGT 58.834 41.667 0.00 0.00 42.67 4.34
2162 2850 4.565564 CCCTCCGTTCACTTTTATAAGTCG 59.434 45.833 0.00 0.00 42.67 4.18
2163 2851 5.727434 TCCCTCCGTTCACTTTTATAAGTC 58.273 41.667 0.00 0.00 42.67 3.01
2164 2852 5.247792 ACTCCCTCCGTTCACTTTTATAAGT 59.752 40.000 0.00 0.00 45.40 2.24
2165 2853 5.731591 ACTCCCTCCGTTCACTTTTATAAG 58.268 41.667 0.00 0.00 37.40 1.73
2166 2854 5.750352 ACTCCCTCCGTTCACTTTTATAA 57.250 39.130 0.00 0.00 0.00 0.98
2167 2855 5.361857 CCTACTCCCTCCGTTCACTTTTATA 59.638 44.000 0.00 0.00 0.00 0.98
2168 2856 4.161754 CCTACTCCCTCCGTTCACTTTTAT 59.838 45.833 0.00 0.00 0.00 1.40
2169 2857 3.512724 CCTACTCCCTCCGTTCACTTTTA 59.487 47.826 0.00 0.00 0.00 1.52
2170 2858 2.302157 CCTACTCCCTCCGTTCACTTTT 59.698 50.000 0.00 0.00 0.00 2.27
2171 2859 1.900486 CCTACTCCCTCCGTTCACTTT 59.100 52.381 0.00 0.00 0.00 2.66
2172 2860 1.203149 ACCTACTCCCTCCGTTCACTT 60.203 52.381 0.00 0.00 0.00 3.16
2173 2861 0.408700 ACCTACTCCCTCCGTTCACT 59.591 55.000 0.00 0.00 0.00 3.41
2174 2862 1.204231 GAACCTACTCCCTCCGTTCAC 59.796 57.143 0.00 0.00 34.36 3.18
2175 2863 1.076677 AGAACCTACTCCCTCCGTTCA 59.923 52.381 0.00 0.00 36.20 3.18
2176 2864 1.849977 AGAACCTACTCCCTCCGTTC 58.150 55.000 0.00 0.00 34.40 3.95
2177 2865 1.900486 CAAGAACCTACTCCCTCCGTT 59.100 52.381 0.00 0.00 0.00 4.44
2178 2866 1.076677 TCAAGAACCTACTCCCTCCGT 59.923 52.381 0.00 0.00 0.00 4.69
2179 2867 1.751924 CTCAAGAACCTACTCCCTCCG 59.248 57.143 0.00 0.00 0.00 4.63
2180 2868 3.103080 TCTCAAGAACCTACTCCCTCC 57.897 52.381 0.00 0.00 0.00 4.30
2181 2869 5.836358 ACATATCTCAAGAACCTACTCCCTC 59.164 44.000 0.00 0.00 0.00 4.30
2182 2870 5.782925 ACATATCTCAAGAACCTACTCCCT 58.217 41.667 0.00 0.00 0.00 4.20
2183 2871 6.487299 AACATATCTCAAGAACCTACTCCC 57.513 41.667 0.00 0.00 0.00 4.30
2197 2885 7.882271 AGATGCTCCCTTCAAATAACATATCTC 59.118 37.037 0.00 0.00 0.00 2.75
2211 2899 4.946157 TGAAGAAATCAAGATGCTCCCTTC 59.054 41.667 0.00 0.00 34.30 3.46
2212 2900 4.927049 TGAAGAAATCAAGATGCTCCCTT 58.073 39.130 0.00 0.00 34.30 3.95
2242 2930 7.334858 AGGCAAAAAGGAAATGAAGTAAACAA 58.665 30.769 0.00 0.00 0.00 2.83
2249 2937 6.282930 TCAAGAAGGCAAAAAGGAAATGAAG 58.717 36.000 0.00 0.00 0.00 3.02
2250 2938 6.232581 TCAAGAAGGCAAAAAGGAAATGAA 57.767 33.333 0.00 0.00 0.00 2.57
2330 3018 4.497291 TGTTGACTAAGGAAACAGTGGT 57.503 40.909 0.00 0.00 30.62 4.16
2375 3064 7.986085 AACTAAACTACATTCAACAGCATCT 57.014 32.000 0.00 0.00 0.00 2.90
2392 3081 6.373186 AGGTAACAAGACAGCAAACTAAAC 57.627 37.500 0.00 0.00 41.41 2.01
2427 3116 5.640147 TGTTGATTAATCCCAAACTGTCCT 58.360 37.500 12.90 0.00 0.00 3.85
2437 3126 4.696455 CCCAAATGCTGTTGATTAATCCC 58.304 43.478 12.90 4.37 0.00 3.85
2450 3139 4.408921 TGATAGTAGTGTAGCCCAAATGCT 59.591 41.667 0.00 0.00 45.38 3.79
2495 3184 6.128553 GCGTGTCAATACAAGATCAAAGAAGA 60.129 38.462 0.00 0.00 37.28 2.87
2701 3390 7.951530 AAGGAAATGAACTAAACAATTGCAG 57.048 32.000 5.05 3.10 0.00 4.41
2817 3506 5.528043 ACTGGAGTAGCATTACATCAGAG 57.472 43.478 10.48 0.00 36.47 3.35
2852 3541 3.363341 CTAGCCAGCTAGCTGTAAGAC 57.637 52.381 36.14 22.11 44.67 3.01
2941 3793 7.283329 GGTTACCTGGAAAGATCTGAATGTAT 58.717 38.462 0.00 0.00 0.00 2.29
3091 4008 6.590292 ACCTATCAAATACGAAGACAACACTG 59.410 38.462 0.00 0.00 0.00 3.66
3092 4009 6.698380 ACCTATCAAATACGAAGACAACACT 58.302 36.000 0.00 0.00 0.00 3.55
3196 4115 3.559238 ACCGAAGATGTCAATTTGCAC 57.441 42.857 0.00 0.00 0.00 4.57
3508 4437 5.294734 AGGGAGAAACAGTAACGGTAAAA 57.705 39.130 0.00 0.00 0.00 1.52
3723 4658 7.255660 CCATCTCTAGATACAAGGTTACCAGAC 60.256 44.444 3.51 0.00 32.63 3.51
3893 4849 3.924686 GCTCCTCAAGTTTGAATTGCATG 59.075 43.478 0.00 0.00 36.64 4.06
4357 5331 9.190317 GAAAGTCAAAACTTCCAATATATCCCT 57.810 33.333 0.00 0.00 45.07 4.20
4369 5343 7.359181 CCAAACACAACAGAAAGTCAAAACTTC 60.359 37.037 0.00 0.00 45.07 3.01
4390 5364 3.279434 CACTGCCTAAGATACCCCAAAC 58.721 50.000 0.00 0.00 0.00 2.93
4463 5437 8.729756 CCATTTCAGGAAAACAAAAGAAAGTTT 58.270 29.630 0.00 0.00 39.46 2.66
4469 5443 8.891720 CAAAATCCATTTCAGGAAAACAAAAGA 58.108 29.630 0.00 0.00 41.92 2.52
4470 5444 8.676401 ACAAAATCCATTTCAGGAAAACAAAAG 58.324 29.630 0.00 0.00 41.92 2.27
4555 5529 0.103208 CTGTAGGAGTTAGCCGGCTG 59.897 60.000 38.98 14.19 0.00 4.85
4715 5689 9.847224 TTTGTATCCTTACCCTTAATCTCATTC 57.153 33.333 0.00 0.00 0.00 2.67
4824 5905 1.728971 GCACAGACATTGAGGACGAAG 59.271 52.381 0.00 0.00 0.00 3.79
4989 6090 9.693739 TGTGGGTACAATGATGATTAAAAGTAT 57.306 29.630 0.00 0.00 32.88 2.12
5152 6417 9.041354 AGTATCTGTTAACAGGAAAGAGAATCT 57.959 33.333 30.35 12.87 46.32 2.40
5255 6520 3.372676 GATTGTGGCAGCAGCGTCG 62.373 63.158 0.00 0.00 43.41 5.12
5267 6532 3.438087 CCTAACCAAGTGAGCAGATTGTG 59.562 47.826 0.00 0.00 0.00 3.33
5386 6651 7.632861 TCTCTCAAAATCCCATTACTTGATCA 58.367 34.615 0.00 0.00 0.00 2.92
5398 6664 4.819088 GCTCCAATACTCTCTCAAAATCCC 59.181 45.833 0.00 0.00 0.00 3.85
5548 6816 5.365619 ACAGGTGTTTTACTAGTTCAGTGG 58.634 41.667 0.00 0.00 38.24 4.00
5628 6896 6.121590 TCTGGCATCTGTATAATTTTGCTCA 58.878 36.000 0.00 0.00 0.00 4.26
5720 6988 1.885887 GGCCGGCTATTATTCATGCAA 59.114 47.619 28.56 0.00 0.00 4.08
5951 7361 4.220602 TCAAATGCTGAGCTACTGTCACTA 59.779 41.667 5.83 0.00 0.00 2.74
5952 7362 3.007290 TCAAATGCTGAGCTACTGTCACT 59.993 43.478 5.83 0.00 0.00 3.41
5953 7363 3.329386 TCAAATGCTGAGCTACTGTCAC 58.671 45.455 5.83 0.00 0.00 3.67
5954 7364 3.683365 TCAAATGCTGAGCTACTGTCA 57.317 42.857 5.83 0.00 0.00 3.58
5955 7365 5.757320 ACATATCAAATGCTGAGCTACTGTC 59.243 40.000 5.83 0.00 37.52 3.51
5985 7395 0.631753 TGGGGACAGAGGGAGTAGAG 59.368 60.000 0.00 0.00 35.01 2.43
5990 7400 3.267031 ACTTATTTTGGGGACAGAGGGAG 59.733 47.826 0.00 0.00 44.54 4.30
5997 7407 5.771165 GGTTAAGACACTTATTTTGGGGACA 59.229 40.000 0.00 0.00 39.83 4.02
5998 7408 6.008331 AGGTTAAGACACTTATTTTGGGGAC 58.992 40.000 0.00 0.00 0.00 4.46
6020 7431 9.490379 AATAAGTGTCTCAACTTTGTACTAAGG 57.510 33.333 19.08 4.85 40.77 2.69
6050 7620 2.581216 TGACAGTACTCCTTCCGTCT 57.419 50.000 9.42 0.00 0.00 4.18
6054 7624 4.616373 CGTCTCTTTGACAGTACTCCTTCC 60.616 50.000 0.00 0.00 45.60 3.46
6059 7629 2.597520 GCCGTCTCTTTGACAGTACTC 58.402 52.381 0.00 0.00 45.60 2.59
6066 7636 2.218603 TGAAAAGGCCGTCTCTTTGAC 58.781 47.619 0.00 0.00 42.06 3.18
6194 7771 0.738389 CAAGTCCGTTTTGCCACAGT 59.262 50.000 0.00 0.00 0.00 3.55
6195 7772 0.738389 ACAAGTCCGTTTTGCCACAG 59.262 50.000 0.00 0.00 0.00 3.66


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

AutoCloner maintained by Alex Coulton.