Multiple sequence alignment - TraesCS2B01G173500

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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 TraesCS2B01G173500 chr2B 100.000 3620 0 0 1 3620 147489875 147493494 0.000000e+00 6685.0
1 TraesCS2B01G173500 chr2B 94.697 132 6 1 2833 2964 738686295 738686425 1.700000e-48 204.0
2 TraesCS2B01G173500 chr2B 92.754 138 10 0 2833 2970 281514154 281514291 2.200000e-47 200.0
3 TraesCS2B01G173500 chr2B 88.820 161 14 4 2813 2971 281881624 281881466 1.030000e-45 195.0
4 TraesCS2B01G173500 chr2B 71.134 679 160 24 1945 2599 146992926 146993592 6.300000e-28 135.0
5 TraesCS2B01G173500 chr2D 91.136 2730 165 41 149 2838 95771181 95773873 0.000000e+00 3629.0
6 TraesCS2B01G173500 chr2D 91.045 670 31 13 2960 3620 95773870 95774519 0.000000e+00 878.0
7 TraesCS2B01G173500 chr2D 79.726 365 69 3 1939 2302 96775485 96775845 3.590000e-65 259.0
8 TraesCS2B01G173500 chr2D 91.892 148 9 3 2819 2966 619720687 619720543 1.700000e-48 204.0
9 TraesCS2B01G173500 chr2A 88.964 2809 177 71 114 2838 94289445 94292204 0.000000e+00 3347.0
10 TraesCS2B01G173500 chr2A 87.874 635 57 15 2993 3620 94292214 94292835 0.000000e+00 728.0
11 TraesCS2B01G173500 chr2A 80.548 365 66 3 1939 2302 95259853 95260213 3.560000e-70 276.0
12 TraesCS2B01G173500 chr2A 96.491 57 2 0 1712 1768 90030228 90030172 1.070000e-15 95.3
13 TraesCS2B01G173500 chr2A 90.323 62 3 3 1724 1782 94317898 94317959 1.080000e-10 78.7
14 TraesCS2B01G173500 chrUn 79.292 367 67 6 1939 2302 17365205 17365565 7.760000e-62 248.0
15 TraesCS2B01G173500 chr7A 94.697 132 7 0 2834 2965 504961060 504961191 4.740000e-49 206.0
16 TraesCS2B01G173500 chr3B 95.385 130 4 2 2837 2965 91030348 91030476 4.740000e-49 206.0
17 TraesCS2B01G173500 chr3B 83.333 102 11 2 1673 1768 545384316 545384417 4.980000e-14 89.8
18 TraesCS2B01G173500 chr1A 94.030 134 8 0 2835 2968 486045771 486045904 1.700000e-48 204.0
19 TraesCS2B01G173500 chr5D 90.385 156 11 4 2810 2963 135659489 135659642 6.130000e-48 202.0
20 TraesCS2B01G173500 chr5A 93.077 130 9 0 2834 2963 504767962 504767833 1.330000e-44 191.0
21 TraesCS2B01G173500 chr3D 73.300 603 120 32 1666 2254 418875916 418876491 2.220000e-42 183.0
22 TraesCS2B01G173500 chr3D 73.300 603 120 32 1666 2254 418891215 418891790 2.220000e-42 183.0
23 TraesCS2B01G173500 chr3A 72.757 613 122 35 1673 2272 531702359 531701779 8.040000e-37 165.0
24 TraesCS2B01G173500 chr7B 94.444 54 3 0 1715 1768 641141672 641141725 2.320000e-12 84.2


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 TraesCS2B01G173500 chr2B 147489875 147493494 3619 False 6685.0 6685 100.0000 1 3620 1 chr2B.!!$F2 3619
1 TraesCS2B01G173500 chr2D 95771181 95774519 3338 False 2253.5 3629 91.0905 149 3620 2 chr2D.!!$F2 3471
2 TraesCS2B01G173500 chr2A 94289445 94292835 3390 False 2037.5 3347 88.4190 114 3620 2 chr2A.!!$F3 3506

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
85 86 0.391263 GGTAGTCCCGTTTCCTGCTG 60.391 60.0 0.00 0.0 0.00 4.41 F
1275 1329 0.949105 CGCCGGTATATCCACCAAGC 60.949 60.0 1.90 0.0 38.61 4.01 F
1431 1494 0.461961 CTTCTCCTAGTCCAAGCCCG 59.538 60.0 0.00 0.0 0.00 6.13 F
2482 2587 0.179171 GAACGAGACGGCGAAGATGA 60.179 55.0 16.62 0.0 34.83 2.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1415 1469 0.108138 CAACGGGCTTGGACTAGGAG 60.108 60.000 0.00 0.0 0.00 3.69 R
2358 2463 0.737367 TCTTGAAGTCCTGCATCGCG 60.737 55.000 0.00 0.0 0.00 5.87 R
2560 2665 1.154016 CGTCGACGCTGGTCTTGAT 60.154 57.895 26.59 0.0 41.16 2.57 R
3367 3478 3.201290 GCTGACCATTCTACTCATGTGG 58.799 50.000 0.00 0.0 36.06 4.17 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
72 73 9.232473 AGAATCAGAAAATAAAACTGGGTAGTC 57.768 33.333 0.00 0.00 35.69 2.59
73 74 7.939784 ATCAGAAAATAAAACTGGGTAGTCC 57.060 36.000 0.00 0.00 35.69 3.85
83 84 1.078637 GGGTAGTCCCGTTTCCTGC 60.079 63.158 0.00 0.00 44.74 4.85
84 85 1.551019 GGGTAGTCCCGTTTCCTGCT 61.551 60.000 0.00 0.00 44.74 4.24
85 86 0.391263 GGTAGTCCCGTTTCCTGCTG 60.391 60.000 0.00 0.00 0.00 4.41
86 87 1.019805 GTAGTCCCGTTTCCTGCTGC 61.020 60.000 0.00 0.00 0.00 5.25
87 88 2.501223 TAGTCCCGTTTCCTGCTGCG 62.501 60.000 0.00 0.00 0.00 5.18
90 91 3.793144 CCGTTTCCTGCTGCGCTC 61.793 66.667 9.73 0.28 0.00 5.03
91 92 3.793144 CGTTTCCTGCTGCGCTCC 61.793 66.667 9.73 0.00 0.00 4.70
92 93 2.669569 GTTTCCTGCTGCGCTCCA 60.670 61.111 9.73 4.51 0.00 3.86
93 94 2.669569 TTTCCTGCTGCGCTCCAC 60.670 61.111 9.73 0.00 0.00 4.02
94 95 4.704833 TTCCTGCTGCGCTCCACC 62.705 66.667 9.73 0.00 0.00 4.61
97 98 4.694233 CTGCTGCGCTCCACCAGT 62.694 66.667 9.73 0.00 0.00 4.00
98 99 4.254709 TGCTGCGCTCCACCAGTT 62.255 61.111 9.73 0.00 0.00 3.16
99 100 3.730761 GCTGCGCTCCACCAGTTG 61.731 66.667 9.73 0.00 0.00 3.16
101 102 4.641645 TGCGCTCCACCAGTTGGG 62.642 66.667 9.73 0.00 46.92 4.12
102 103 4.329545 GCGCTCCACCAGTTGGGA 62.330 66.667 0.00 0.00 46.92 4.37
103 104 2.358737 CGCTCCACCAGTTGGGAC 60.359 66.667 2.79 0.00 46.92 4.46
104 105 2.034221 GCTCCACCAGTTGGGACC 59.966 66.667 2.79 0.00 46.92 4.46
105 106 2.529744 GCTCCACCAGTTGGGACCT 61.530 63.158 2.79 0.00 46.92 3.85
106 107 1.376466 CTCCACCAGTTGGGACCTG 59.624 63.158 2.79 0.00 46.92 4.00
107 108 2.282462 CCACCAGTTGGGACCTGC 60.282 66.667 2.79 0.00 42.54 4.85
108 109 2.282462 CACCAGTTGGGACCTGCC 60.282 66.667 2.79 0.00 41.15 4.85
109 110 3.953775 ACCAGTTGGGACCTGCCG 61.954 66.667 2.79 0.00 41.15 5.69
110 111 3.636231 CCAGTTGGGACCTGCCGA 61.636 66.667 0.00 0.00 40.01 5.54
111 112 2.429930 CAGTTGGGACCTGCCGAA 59.570 61.111 0.00 0.00 37.63 4.30
121 122 2.811317 CTGCCGAACCTGCGTCTC 60.811 66.667 0.00 0.00 0.00 3.36
130 131 4.662961 CTGCGTCTCGTGGGTGCA 62.663 66.667 0.00 0.00 0.00 4.57
131 132 4.228567 TGCGTCTCGTGGGTGCAA 62.229 61.111 0.00 0.00 31.69 4.08
132 133 2.970324 GCGTCTCGTGGGTGCAAA 60.970 61.111 0.00 0.00 0.00 3.68
133 134 2.935955 CGTCTCGTGGGTGCAAAC 59.064 61.111 0.00 0.00 0.00 2.93
134 135 2.935955 GTCTCGTGGGTGCAAACG 59.064 61.111 10.64 10.64 41.11 3.60
135 136 1.885850 GTCTCGTGGGTGCAAACGT 60.886 57.895 15.01 0.00 40.61 3.99
162 166 3.057596 TGCAGCTTGGTTTTATTTCTCCG 60.058 43.478 0.00 0.00 0.00 4.63
172 176 6.097129 TGGTTTTATTTCTCCGTTCCTTTGTT 59.903 34.615 0.00 0.00 0.00 2.83
287 291 2.834549 TGAAAACAGGGGCAAGAAACAA 59.165 40.909 0.00 0.00 0.00 2.83
291 295 2.310538 ACAGGGGCAAGAAACAAAGAG 58.689 47.619 0.00 0.00 0.00 2.85
302 306 2.751837 CAAAGAGGAAGGCGGGCC 60.752 66.667 0.18 0.18 0.00 5.80
320 324 3.349006 GCACCACCAGCACTGTCG 61.349 66.667 0.00 0.00 0.00 4.35
331 335 3.695606 ACTGTCGCCATCGCAGGT 61.696 61.111 11.46 0.00 41.07 4.00
410 425 2.162408 GGACATTTGGAGCTGCTACAAC 59.838 50.000 26.21 14.67 33.60 3.32
448 464 3.997681 CCCACCGAAAAACAACAAAAACT 59.002 39.130 0.00 0.00 0.00 2.66
457 473 7.358848 CGAAAAACAACAAAAACTACAACAGCT 60.359 33.333 0.00 0.00 0.00 4.24
464 480 5.588648 ACAAAAACTACAACAGCTAGCTTGA 59.411 36.000 20.69 6.06 0.00 3.02
466 482 6.884280 AAAACTACAACAGCTAGCTTGATT 57.116 33.333 20.69 10.89 0.00 2.57
507 529 3.968568 CACCGACACCGACACCGA 61.969 66.667 0.00 0.00 38.22 4.69
508 530 3.969802 ACCGACACCGACACCGAC 61.970 66.667 0.00 0.00 38.22 4.79
509 531 3.968568 CCGACACCGACACCGACA 61.969 66.667 0.00 0.00 38.22 4.35
510 532 2.728383 CGACACCGACACCGACAC 60.728 66.667 0.00 0.00 38.22 3.67
511 533 2.355481 GACACCGACACCGACACC 60.355 66.667 0.00 0.00 38.22 4.16
512 534 4.274700 ACACCGACACCGACACCG 62.275 66.667 0.00 0.00 38.22 4.94
542 564 7.561021 TGCATCCATTTTAGTAGCGAATTTA 57.439 32.000 0.00 0.00 0.00 1.40
601 623 4.036852 TGTCATCAACCAATTTTGTACGCA 59.963 37.500 0.00 0.00 0.00 5.24
630 652 4.894784 ACTACACACTTACAACCATCCTG 58.105 43.478 0.00 0.00 0.00 3.86
660 682 2.486504 CGTCCCGCGTTACAGCTA 59.513 61.111 4.92 0.00 35.54 3.32
785 810 3.445008 TGATTGAGCTGGGAACTACTCT 58.555 45.455 0.00 0.00 35.05 3.24
786 811 4.610333 TGATTGAGCTGGGAACTACTCTA 58.390 43.478 0.00 0.00 35.05 2.43
787 812 4.402793 TGATTGAGCTGGGAACTACTCTAC 59.597 45.833 0.00 0.00 35.05 2.59
788 813 3.741245 TGAGCTGGGAACTACTCTACT 57.259 47.619 0.00 0.00 35.05 2.57
789 814 3.622630 TGAGCTGGGAACTACTCTACTC 58.377 50.000 0.00 0.00 35.05 2.59
800 825 2.675423 TCTACTCGGTGCCGCTGT 60.675 61.111 5.64 9.55 39.59 4.40
824 849 2.725203 TTCCGGCCCTTGACTTCACG 62.725 60.000 0.00 0.00 0.00 4.35
825 850 3.423154 CGGCCCTTGACTTCACGC 61.423 66.667 0.00 0.00 0.00 5.34
828 853 2.742372 CCCTTGACTTCACGCCCG 60.742 66.667 0.00 0.00 0.00 6.13
829 854 2.742372 CCTTGACTTCACGCCCGG 60.742 66.667 0.00 0.00 0.00 5.73
831 856 4.243008 TTGACTTCACGCCCGGCA 62.243 61.111 10.77 0.00 0.00 5.69
885 910 1.588139 CCGCGTACATTCCTCGTCC 60.588 63.158 4.92 0.00 0.00 4.79
887 912 1.588139 GCGTACATTCCTCGTCCCG 60.588 63.158 0.00 0.00 0.00 5.14
951 976 2.726821 CCATTAGTCCAGCCACACAAT 58.273 47.619 0.00 0.00 0.00 2.71
952 977 3.884895 CCATTAGTCCAGCCACACAATA 58.115 45.455 0.00 0.00 0.00 1.90
1068 1104 1.172180 CGTGCCAAGGTGACAATGGT 61.172 55.000 7.56 0.00 40.58 3.55
1080 1116 2.359478 AATGGTTCACCCGCGGAC 60.359 61.111 30.73 17.23 35.15 4.79
1108 1144 3.520862 CGTACCCGCCTAGCCGAA 61.521 66.667 0.00 0.00 0.00 4.30
1109 1145 2.416260 GTACCCGCCTAGCCGAAG 59.584 66.667 0.00 0.00 0.00 3.79
1110 1146 3.534056 TACCCGCCTAGCCGAAGC 61.534 66.667 0.00 0.00 40.32 3.86
1128 1164 4.400961 GTGCCTCCAAGCTCGGCT 62.401 66.667 14.72 0.00 44.09 5.52
1191 1239 3.039202 GCCGAGCCCGATTGTGTTG 62.039 63.158 0.00 0.00 38.22 3.33
1192 1240 1.375396 CCGAGCCCGATTGTGTTGA 60.375 57.895 0.00 0.00 38.22 3.18
1193 1241 1.361668 CCGAGCCCGATTGTGTTGAG 61.362 60.000 0.00 0.00 38.22 3.02
1194 1242 1.796796 GAGCCCGATTGTGTTGAGC 59.203 57.895 0.00 0.00 0.00 4.26
1195 1243 1.648467 GAGCCCGATTGTGTTGAGCC 61.648 60.000 0.00 0.00 0.00 4.70
1196 1244 2.700773 GCCCGATTGTGTTGAGCCC 61.701 63.158 0.00 0.00 0.00 5.19
1227 1275 2.727544 CTCGCTCAGCCTCCTAGC 59.272 66.667 0.00 0.00 0.00 3.42
1229 1277 4.277593 CGCTCAGCCTCCTAGCCG 62.278 72.222 0.00 0.00 32.50 5.52
1230 1278 4.600576 GCTCAGCCTCCTAGCCGC 62.601 72.222 0.00 0.00 0.00 6.53
1231 1279 4.277593 CTCAGCCTCCTAGCCGCG 62.278 72.222 0.00 0.00 0.00 6.46
1272 1326 2.211410 CCCGCCGGTATATCCACCA 61.211 63.158 1.90 0.00 38.61 4.17
1275 1329 0.949105 CGCCGGTATATCCACCAAGC 60.949 60.000 1.90 0.00 38.61 4.01
1377 1431 2.364324 TCCAAGCGTGTCTAGTCAAACT 59.636 45.455 0.00 0.00 0.00 2.66
1414 1468 1.978580 CTGACCCAAGTCCACCTACTT 59.021 52.381 0.00 0.00 42.81 2.24
1415 1469 1.975680 TGACCCAAGTCCACCTACTTC 59.024 52.381 0.00 0.00 42.81 3.01
1431 1494 0.461961 CTTCTCCTAGTCCAAGCCCG 59.538 60.000 0.00 0.00 0.00 6.13
1445 1508 4.697756 CCCGTTGAGCCCGAGCAA 62.698 66.667 0.00 0.00 43.56 3.91
1506 1572 2.567769 ATCCTCCTAGCCCAAGCCCA 62.568 60.000 0.00 0.00 41.25 5.36
1595 1685 3.665971 CCCTGCTCCAGCCCCTTT 61.666 66.667 0.00 0.00 41.18 3.11
1653 1758 2.082231 GTCGGTCACTACAGCTACTCA 58.918 52.381 0.00 0.00 0.00 3.41
1665 1770 1.105457 GCTACTCATGCCCAAATGCA 58.895 50.000 0.00 0.00 46.94 3.96
1668 1773 1.927487 ACTCATGCCCAAATGCAGAA 58.073 45.000 0.00 0.00 45.93 3.02
1674 1779 2.026641 TGCCCAAATGCAGAAGCTATC 58.973 47.619 0.00 0.00 42.74 2.08
1796 1901 3.243035 CCAGACGCTCACATCTCTTCTAG 60.243 52.174 0.00 0.00 0.00 2.43
1855 1960 1.212455 CTTACGTGCTGTGCGTGACA 61.212 55.000 0.00 0.00 42.87 3.58
1923 2028 1.290955 CGGCGAACCCACAGAGTTA 59.709 57.895 0.00 0.00 0.00 2.24
1931 2036 0.698818 CCCACAGAGTTAAAGGGCCT 59.301 55.000 0.00 0.00 31.81 5.19
1950 2055 3.771160 CCGAACCTGACCCTCCGG 61.771 72.222 0.00 0.00 0.00 5.14
2037 2142 4.117661 GACGTCCTCGCCTTCGCT 62.118 66.667 3.51 0.00 41.18 4.93
2182 2287 3.123620 GCCTCCAGCAGCTCAACG 61.124 66.667 0.00 0.00 42.97 4.10
2311 2416 3.480133 CCTCCGACATGGACCCCC 61.480 72.222 0.00 0.00 43.74 5.40
2477 2582 2.127118 GTCGAACGAGACGGCGAA 60.127 61.111 16.62 0.00 38.79 4.70
2482 2587 0.179171 GAACGAGACGGCGAAGATGA 60.179 55.000 16.62 0.00 34.83 2.92
2573 2678 1.982395 TCGGGATCAAGACCAGCGT 60.982 57.895 0.00 0.00 0.00 5.07
2635 2740 1.181001 GTGACGTGTCGATCGATCAC 58.819 55.000 25.33 25.33 34.88 3.06
2652 2757 5.022939 CGATCACGTGGTTCATCGTAAGAT 61.023 45.833 22.27 3.71 46.24 2.40
2667 2772 6.220726 TCGTAAGATGGTCTCATGAATTGA 57.779 37.500 0.00 0.00 45.01 2.57
2711 2816 3.181397 CATGCCGTTTGGTGATGATTTC 58.819 45.455 0.00 0.00 37.67 2.17
2716 2821 4.749598 GCCGTTTGGTGATGATTTCTTTTT 59.250 37.500 0.00 0.00 37.67 1.94
2764 2869 6.578944 AGGACGACATGCAAAATATAGTACA 58.421 36.000 0.00 0.00 0.00 2.90
2765 2870 6.479001 AGGACGACATGCAAAATATAGTACAC 59.521 38.462 0.00 0.00 0.00 2.90
2773 2878 9.708222 CATGCAAAATATAGTACACTTCTGTTC 57.292 33.333 0.00 0.00 0.00 3.18
2786 2891 5.588648 ACACTTCTGTTCGGAATTCTTTTGA 59.411 36.000 5.23 0.00 0.00 2.69
2842 2948 8.724229 ACAAAATATTTTACACGAAGTACTCCC 58.276 33.333 12.98 0.00 41.61 4.30
2843 2949 8.943002 CAAAATATTTTACACGAAGTACTCCCT 58.057 33.333 12.98 0.00 41.61 4.20
2844 2950 8.713737 AAATATTTTACACGAAGTACTCCCTC 57.286 34.615 0.00 0.00 41.61 4.30
2845 2951 4.525912 TTTTACACGAAGTACTCCCTCC 57.474 45.455 0.00 0.00 41.61 4.30
2846 2952 1.742761 TACACGAAGTACTCCCTCCG 58.257 55.000 0.00 0.00 41.61 4.63
2847 2953 0.251077 ACACGAAGTACTCCCTCCGT 60.251 55.000 0.00 0.00 41.61 4.69
2848 2954 0.450983 CACGAAGTACTCCCTCCGTC 59.549 60.000 0.00 0.00 41.61 4.79
2849 2955 0.679321 ACGAAGTACTCCCTCCGTCC 60.679 60.000 0.00 0.00 41.94 4.79
2850 2956 1.712977 CGAAGTACTCCCTCCGTCCG 61.713 65.000 0.00 0.00 0.00 4.79
2851 2957 1.379576 AAGTACTCCCTCCGTCCGG 60.380 63.158 0.00 0.00 0.00 5.14
2852 2958 1.856539 AAGTACTCCCTCCGTCCGGA 61.857 60.000 0.00 0.00 42.90 5.14
2853 2959 1.379044 GTACTCCCTCCGTCCGGAA 60.379 63.158 5.23 0.00 44.66 4.30
2854 2960 0.967380 GTACTCCCTCCGTCCGGAAA 60.967 60.000 5.23 0.00 44.66 3.13
2855 2961 0.032813 TACTCCCTCCGTCCGGAAAT 60.033 55.000 5.23 0.00 44.66 2.17
2856 2962 0.032813 ACTCCCTCCGTCCGGAAATA 60.033 55.000 5.23 0.00 44.66 1.40
2857 2963 1.339097 CTCCCTCCGTCCGGAAATAT 58.661 55.000 5.23 0.00 44.66 1.28
2858 2964 1.692519 CTCCCTCCGTCCGGAAATATT 59.307 52.381 5.23 0.00 44.66 1.28
2859 2965 2.104281 CTCCCTCCGTCCGGAAATATTT 59.896 50.000 5.23 0.00 44.66 1.40
2860 2966 3.307506 TCCCTCCGTCCGGAAATATTTA 58.692 45.455 5.23 0.00 44.66 1.40
2861 2967 3.905591 TCCCTCCGTCCGGAAATATTTAT 59.094 43.478 5.23 0.00 44.66 1.40
2862 2968 4.020839 TCCCTCCGTCCGGAAATATTTATC 60.021 45.833 5.23 0.00 44.66 1.75
2863 2969 4.262721 CCCTCCGTCCGGAAATATTTATCA 60.263 45.833 5.23 0.00 44.66 2.15
2864 2970 5.488341 CCTCCGTCCGGAAATATTTATCAT 58.512 41.667 5.23 0.00 44.66 2.45
2865 2971 5.581085 CCTCCGTCCGGAAATATTTATCATC 59.419 44.000 5.23 0.00 44.66 2.92
2866 2972 6.104146 TCCGTCCGGAAATATTTATCATCA 57.896 37.500 5.23 0.00 42.05 3.07
2867 2973 6.526526 TCCGTCCGGAAATATTTATCATCAA 58.473 36.000 5.23 0.00 42.05 2.57
2868 2974 6.993308 TCCGTCCGGAAATATTTATCATCAAA 59.007 34.615 5.23 0.00 42.05 2.69
2869 2975 7.499563 TCCGTCCGGAAATATTTATCATCAAAA 59.500 33.333 5.23 0.00 42.05 2.44
2870 2976 8.296713 CCGTCCGGAAATATTTATCATCAAAAT 58.703 33.333 5.23 0.00 37.50 1.82
2871 2977 9.117145 CGTCCGGAAATATTTATCATCAAAATG 57.883 33.333 5.23 0.00 0.00 2.32
2872 2978 9.410556 GTCCGGAAATATTTATCATCAAAATGG 57.589 33.333 5.23 0.00 33.42 3.16
2873 2979 9.360901 TCCGGAAATATTTATCATCAAAATGGA 57.639 29.630 0.00 0.00 33.42 3.41
2907 3013 9.406113 AGGTGTATCTAGACGTATTTTAGTTCT 57.594 33.333 0.00 0.00 0.00 3.01
2941 3047 9.912634 TCTCTTTTTATCCATTTTGATGACAAC 57.087 29.630 0.00 0.00 35.63 3.32
2942 3048 9.918630 CTCTTTTTATCCATTTTGATGACAACT 57.081 29.630 0.00 0.00 35.63 3.16
2949 3055 8.915871 ATCCATTTTGATGACAACTATTTTCG 57.084 30.769 0.00 0.00 35.63 3.46
2950 3056 7.312154 TCCATTTTGATGACAACTATTTTCGG 58.688 34.615 0.00 0.00 35.63 4.30
2951 3057 7.175816 TCCATTTTGATGACAACTATTTTCGGA 59.824 33.333 0.00 0.00 35.63 4.55
2952 3058 7.273381 CCATTTTGATGACAACTATTTTCGGAC 59.727 37.037 0.00 0.00 35.63 4.79
2953 3059 5.524511 TTGATGACAACTATTTTCGGACG 57.475 39.130 0.00 0.00 0.00 4.79
2954 3060 3.930229 TGATGACAACTATTTTCGGACGG 59.070 43.478 0.00 0.00 0.00 4.79
2955 3061 3.663995 TGACAACTATTTTCGGACGGA 57.336 42.857 0.00 0.00 0.00 4.69
2956 3062 3.581755 TGACAACTATTTTCGGACGGAG 58.418 45.455 0.00 0.00 0.00 4.63
2957 3063 2.928116 GACAACTATTTTCGGACGGAGG 59.072 50.000 0.00 0.00 0.00 4.30
2958 3064 2.277084 CAACTATTTTCGGACGGAGGG 58.723 52.381 0.00 0.00 0.00 4.30
2959 3065 1.856629 ACTATTTTCGGACGGAGGGA 58.143 50.000 0.00 0.00 0.00 4.20
2960 3066 1.755380 ACTATTTTCGGACGGAGGGAG 59.245 52.381 0.00 0.00 0.00 4.30
2961 3067 1.755380 CTATTTTCGGACGGAGGGAGT 59.245 52.381 0.00 0.00 0.00 3.85
2962 3068 1.856629 ATTTTCGGACGGAGGGAGTA 58.143 50.000 0.00 0.00 0.00 2.59
2963 3069 1.856629 TTTTCGGACGGAGGGAGTAT 58.143 50.000 0.00 0.00 0.00 2.12
2964 3070 2.734755 TTTCGGACGGAGGGAGTATA 57.265 50.000 0.00 0.00 0.00 1.47
3014 3120 1.533625 TTGTTCTAGCGGCAAAGCAT 58.466 45.000 1.45 0.00 40.15 3.79
3070 3176 9.941664 GTGAATATGGAGTATCATTTTGAACAG 57.058 33.333 0.00 0.00 36.25 3.16
3076 3182 6.374333 TGGAGTATCATTTTGAACAGTTAGGC 59.626 38.462 0.00 0.00 36.25 3.93
3084 3190 5.801531 TTTGAACAGTTAGGCAGAGACTA 57.198 39.130 0.00 0.00 0.00 2.59
3098 3204 2.295349 AGAGACTAAAACTTGGACGCGA 59.705 45.455 15.93 0.00 0.00 5.87
3099 3205 2.401351 AGACTAAAACTTGGACGCGAC 58.599 47.619 15.93 6.56 0.00 5.19
3124 3230 1.950909 TGGAACATGGTTTCACCGAAC 59.049 47.619 0.00 0.00 42.58 3.95
3128 3234 0.251165 CATGGTTTCACCGAACCCCT 60.251 55.000 4.49 0.00 46.85 4.79
3367 3478 6.350194 GGGTGTCATTCCTTAATCAAACTTCC 60.350 42.308 0.00 0.00 0.00 3.46
3371 3482 6.208599 GTCATTCCTTAATCAAACTTCCCACA 59.791 38.462 0.00 0.00 0.00 4.17
3395 3506 4.402793 TGAGTAGAATGGTCAGCCTAGTTC 59.597 45.833 0.00 0.00 35.27 3.01
3396 3507 4.353777 AGTAGAATGGTCAGCCTAGTTCA 58.646 43.478 0.00 0.00 35.27 3.18
3405 3516 2.771943 TCAGCCTAGTTCAATACCCCAG 59.228 50.000 0.00 0.00 0.00 4.45
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
46 47 9.232473 GACTACCCAGTTTTATTTTCTGATTCT 57.768 33.333 0.00 0.00 34.21 2.40
47 48 8.459635 GGACTACCCAGTTTTATTTTCTGATTC 58.540 37.037 0.00 0.00 34.21 2.52
48 49 8.349568 GGACTACCCAGTTTTATTTTCTGATT 57.650 34.615 0.00 0.00 34.21 2.57
49 50 7.939784 GGACTACCCAGTTTTATTTTCTGAT 57.060 36.000 0.00 0.00 34.21 2.90
66 67 0.391263 CAGCAGGAAACGGGACTACC 60.391 60.000 0.00 0.00 0.00 3.18
67 68 1.019805 GCAGCAGGAAACGGGACTAC 61.020 60.000 0.00 0.00 0.00 2.73
68 69 1.295423 GCAGCAGGAAACGGGACTA 59.705 57.895 0.00 0.00 0.00 2.59
69 70 2.032681 GCAGCAGGAAACGGGACT 59.967 61.111 0.00 0.00 0.00 3.85
70 71 3.423154 CGCAGCAGGAAACGGGAC 61.423 66.667 0.00 0.00 0.00 4.46
91 92 2.282462 GGCAGGTCCCAACTGGTG 60.282 66.667 0.00 0.00 36.48 4.17
92 93 3.953775 CGGCAGGTCCCAACTGGT 61.954 66.667 0.00 0.00 36.48 4.00
93 94 3.190738 TTCGGCAGGTCCCAACTGG 62.191 63.158 0.00 0.00 36.48 4.00
94 95 1.966451 GTTCGGCAGGTCCCAACTG 60.966 63.158 0.00 0.00 38.95 3.16
95 96 2.430367 GTTCGGCAGGTCCCAACT 59.570 61.111 0.00 0.00 0.00 3.16
96 97 2.671963 GGTTCGGCAGGTCCCAAC 60.672 66.667 0.00 0.00 0.00 3.77
97 98 2.852075 AGGTTCGGCAGGTCCCAA 60.852 61.111 0.00 0.00 0.00 4.12
98 99 3.636231 CAGGTTCGGCAGGTCCCA 61.636 66.667 0.00 0.00 0.00 4.37
101 102 4.681978 ACGCAGGTTCGGCAGGTC 62.682 66.667 0.00 0.00 0.00 3.85
102 103 4.681978 GACGCAGGTTCGGCAGGT 62.682 66.667 0.00 0.00 37.45 4.00
103 104 4.379243 AGACGCAGGTTCGGCAGG 62.379 66.667 0.00 0.00 40.62 4.85
104 105 2.811317 GAGACGCAGGTTCGGCAG 60.811 66.667 0.00 0.00 40.62 4.85
105 106 4.717629 CGAGACGCAGGTTCGGCA 62.718 66.667 0.00 0.00 40.62 5.69
106 107 4.719369 ACGAGACGCAGGTTCGGC 62.719 66.667 0.00 0.00 38.58 5.54
107 108 2.805353 CACGAGACGCAGGTTCGG 60.805 66.667 0.00 0.00 38.58 4.30
108 109 2.805353 CCACGAGACGCAGGTTCG 60.805 66.667 0.00 0.00 40.02 3.95
109 110 2.432628 CCCACGAGACGCAGGTTC 60.433 66.667 0.00 0.00 0.00 3.62
110 111 3.231736 ACCCACGAGACGCAGGTT 61.232 61.111 0.00 0.00 32.87 3.50
111 112 3.991051 CACCCACGAGACGCAGGT 61.991 66.667 0.00 0.00 36.28 4.00
130 131 1.064621 CAAGCTGCAGTGCACGTTT 59.935 52.632 15.37 11.73 33.79 3.60
131 132 2.717485 CAAGCTGCAGTGCACGTT 59.283 55.556 15.37 7.57 33.79 3.99
132 133 3.282157 CCAAGCTGCAGTGCACGT 61.282 61.111 15.37 7.00 33.79 4.49
133 134 2.340453 AAACCAAGCTGCAGTGCACG 62.340 55.000 15.37 11.72 33.79 5.34
134 135 0.179103 AAAACCAAGCTGCAGTGCAC 60.179 50.000 15.37 9.40 33.79 4.57
135 136 1.397672 TAAAACCAAGCTGCAGTGCA 58.602 45.000 18.58 18.58 36.92 4.57
162 166 3.068024 TGTGATGCCAGAAACAAAGGAAC 59.932 43.478 0.00 0.00 0.00 3.62
236 240 1.203994 ACTACCACACTCGTGTATGCC 59.796 52.381 1.90 0.00 42.83 4.40
302 306 3.349006 GACAGTGCTGGTGGTGCG 61.349 66.667 4.11 0.00 34.19 5.34
320 324 1.130561 GTAGTTTTGACCTGCGATGGC 59.869 52.381 0.00 0.00 40.52 4.40
331 335 4.562082 TGCTTAGCTTAGCGTAGTTTTGA 58.438 39.130 19.00 0.00 44.18 2.69
374 389 7.466804 TCCAAATGTCCTAGTATGGTTTTCTT 58.533 34.615 0.00 0.00 0.00 2.52
376 391 6.183360 GCTCCAAATGTCCTAGTATGGTTTTC 60.183 42.308 0.00 0.00 0.00 2.29
379 394 4.475016 AGCTCCAAATGTCCTAGTATGGTT 59.525 41.667 0.00 0.00 0.00 3.67
380 395 4.040755 AGCTCCAAATGTCCTAGTATGGT 58.959 43.478 0.00 0.00 0.00 3.55
382 397 3.812053 GCAGCTCCAAATGTCCTAGTATG 59.188 47.826 0.00 0.00 0.00 2.39
389 404 2.113860 TGTAGCAGCTCCAAATGTCC 57.886 50.000 0.00 0.00 0.00 4.02
432 448 7.792925 AGCTGTTGTAGTTTTTGTTGTTTTTC 58.207 30.769 0.00 0.00 0.00 2.29
448 464 3.686241 CAGCAATCAAGCTAGCTGTTGTA 59.314 43.478 25.80 12.33 46.92 2.41
457 473 4.009002 TGCATTGTACAGCAATCAAGCTA 58.991 39.130 7.29 0.00 45.33 3.32
507 529 2.353357 ATGGATGCATTGATCGGTGT 57.647 45.000 0.00 0.00 0.00 4.16
508 530 3.720949 AAATGGATGCATTGATCGGTG 57.279 42.857 13.66 0.00 0.00 4.94
509 531 4.889409 ACTAAAATGGATGCATTGATCGGT 59.111 37.500 13.66 5.96 0.00 4.69
510 532 5.443185 ACTAAAATGGATGCATTGATCGG 57.557 39.130 13.66 5.39 0.00 4.18
511 533 6.082338 GCTACTAAAATGGATGCATTGATCG 58.918 40.000 13.66 4.85 0.00 3.69
512 534 6.073058 TCGCTACTAAAATGGATGCATTGATC 60.073 38.462 13.66 0.00 0.00 2.92
542 564 7.391833 GGTTTCTTCCTCATTGATTCAAGTAGT 59.608 37.037 5.21 0.00 0.00 2.73
660 682 6.360618 GGGAATAATCATCCTTCTGTTCTGT 58.639 40.000 0.00 0.00 37.14 3.41
785 810 2.348104 ATGACAGCGGCACCGAGTA 61.348 57.895 14.43 0.94 42.83 2.59
786 811 3.695606 ATGACAGCGGCACCGAGT 61.696 61.111 14.43 10.31 42.83 4.18
787 812 3.190849 CATGACAGCGGCACCGAG 61.191 66.667 14.43 6.84 42.83 4.63
788 813 3.529341 AACATGACAGCGGCACCGA 62.529 57.895 14.43 0.00 42.83 4.69
789 814 3.027170 GAACATGACAGCGGCACCG 62.027 63.158 4.30 4.30 43.09 4.94
800 825 1.002624 GTCAAGGGCCGGAACATGA 60.003 57.895 5.05 2.06 0.00 3.07
906 931 5.359716 AAGAGCTACGACCGTCTTATATG 57.640 43.478 0.00 0.00 0.00 1.78
912 937 1.979831 GCGAAGAGCTACGACCGTCT 61.980 60.000 10.77 0.00 44.04 4.18
951 976 5.656480 TGTATTCGCTATCTGCAACAACTA 58.344 37.500 0.00 0.00 43.06 2.24
952 977 4.503910 TGTATTCGCTATCTGCAACAACT 58.496 39.130 0.00 0.00 43.06 3.16
975 1000 1.446792 CTCTGCCGCTGTTCGTGAT 60.447 57.895 0.00 0.00 36.19 3.06
977 1002 0.179137 TATCTCTGCCGCTGTTCGTG 60.179 55.000 0.00 0.00 36.19 4.35
987 1012 3.554752 GCTTGACCATCTCTATCTCTGCC 60.555 52.174 0.00 0.00 0.00 4.85
1068 1104 3.998672 GGTGAGTCCGCGGGTGAA 61.999 66.667 27.83 1.61 0.00 3.18
1091 1127 3.480225 CTTCGGCTAGGCGGGTACG 62.480 68.421 34.63 16.57 44.63 3.67
1092 1128 2.416260 CTTCGGCTAGGCGGGTAC 59.584 66.667 34.63 0.00 0.00 3.34
1099 1135 4.148825 AGGCACGCTTCGGCTAGG 62.149 66.667 0.00 0.00 37.53 3.02
1100 1136 2.583593 GAGGCACGCTTCGGCTAG 60.584 66.667 0.00 0.00 39.76 3.42
1101 1137 4.143333 GGAGGCACGCTTCGGCTA 62.143 66.667 0.00 0.00 39.76 3.93
1104 1140 3.121030 CTTGGAGGCACGCTTCGG 61.121 66.667 0.00 0.00 0.00 4.30
1105 1141 3.793144 GCTTGGAGGCACGCTTCG 61.793 66.667 0.00 0.00 0.00 3.79
1106 1142 2.359230 AGCTTGGAGGCACGCTTC 60.359 61.111 0.00 0.00 34.17 3.86
1107 1143 2.359230 GAGCTTGGAGGCACGCTT 60.359 61.111 0.00 0.00 31.96 4.68
1108 1144 4.749310 CGAGCTTGGAGGCACGCT 62.749 66.667 0.00 0.00 39.08 5.07
1114 1150 4.521062 CGGAGCCGAGCTTGGAGG 62.521 72.222 25.25 9.08 39.88 4.30
1139 1175 4.426112 TCGCAGCTGGAGTGCTCG 62.426 66.667 17.12 8.60 41.98 5.03
1290 1344 2.613223 GGAAGAACCAGACGGAGGAAAG 60.613 54.545 0.00 0.00 38.79 2.62
1291 1345 1.346722 GGAAGAACCAGACGGAGGAAA 59.653 52.381 0.00 0.00 38.79 3.13
1377 1431 2.238646 GTCAGGTGAATATGTGGGTGGA 59.761 50.000 0.00 0.00 0.00 4.02
1414 1468 0.252103 AACGGGCTTGGACTAGGAGA 60.252 55.000 0.00 0.00 0.00 3.71
1415 1469 0.108138 CAACGGGCTTGGACTAGGAG 60.108 60.000 0.00 0.00 0.00 3.69
1431 1494 1.701704 CAATTTTGCTCGGGCTCAAC 58.298 50.000 9.62 0.00 39.59 3.18
1445 1508 2.110578 GGCTTGGTGGATAGGCAATTT 58.889 47.619 0.00 0.00 36.96 1.82
1452 1518 0.753111 GGCTTGGGCTTGGTGGATAG 60.753 60.000 0.00 0.00 38.73 2.08
1461 1527 2.547595 TTGGCTAGGGCTTGGGCTT 61.548 57.895 8.11 0.00 38.73 4.35
1506 1572 3.075882 TGGGAGGTTGTCTTGGATTGATT 59.924 43.478 0.00 0.00 0.00 2.57
1595 1685 3.775316 GGGTGAGTTTGAGATAGGAGGAA 59.225 47.826 0.00 0.00 0.00 3.36
1653 1758 2.148446 TAGCTTCTGCATTTGGGCAT 57.852 45.000 0.00 0.00 43.97 4.40
1665 1770 1.698506 CCTCCCTGACGATAGCTTCT 58.301 55.000 0.00 0.00 42.67 2.85
1668 1773 1.834822 GGCCTCCCTGACGATAGCT 60.835 63.158 0.00 0.00 42.67 3.32
1674 1779 3.649277 CTTCACGGCCTCCCTGACG 62.649 68.421 0.00 0.00 0.00 4.35
1815 1920 9.003658 CGTAAGAATGGAGGAATGCTAATTAAT 57.996 33.333 0.00 0.00 43.02 1.40
1855 1960 1.153369 CGCACCCCTGAACGATCAT 60.153 57.895 0.00 0.00 34.37 2.45
1923 2028 3.580319 AGGTTCGGCAGGCCCTTT 61.580 61.111 0.00 0.00 0.00 3.11
1931 2036 3.319198 GGAGGGTCAGGTTCGGCA 61.319 66.667 0.00 0.00 0.00 5.69
2076 2181 2.195956 GGCATGGGGAAGTAGGCC 59.804 66.667 0.00 0.00 0.00 5.19
2125 2230 0.761323 TTGAGGGTGGTCTCGTTGGA 60.761 55.000 0.00 0.00 36.61 3.53
2182 2287 0.955919 CCCTTGGCGTGGAAACTCTC 60.956 60.000 0.00 0.00 0.00 3.20
2256 2361 1.890894 GTGGAAGGACGAGCAGCTA 59.109 57.895 0.00 0.00 0.00 3.32
2311 2416 2.507992 CAGGGAGCTCGCGAACTG 60.508 66.667 18.12 12.60 0.00 3.16
2358 2463 0.737367 TCTTGAAGTCCTGCATCGCG 60.737 55.000 0.00 0.00 0.00 5.87
2431 2536 2.355363 CGCGTCGGAGGTGAACAA 60.355 61.111 5.36 0.00 0.00 2.83
2477 2582 1.691127 CGCGTTATCGAGCATCATCT 58.309 50.000 0.00 0.00 39.71 2.90
2560 2665 1.154016 CGTCGACGCTGGTCTTGAT 60.154 57.895 26.59 0.00 41.16 2.57
2573 2678 1.715862 CTTCCTGATCTCGCCGTCGA 61.716 60.000 0.00 0.00 43.28 4.20
2652 2757 3.811497 GCATCGATCAATTCATGAGACCA 59.189 43.478 0.00 0.00 42.53 4.02
2745 2850 8.883731 ACAGAAGTGTACTATATTTTGCATGTC 58.116 33.333 0.00 0.00 34.05 3.06
2746 2851 8.792830 ACAGAAGTGTACTATATTTTGCATGT 57.207 30.769 0.00 0.00 34.05 3.21
2747 2852 9.708222 GAACAGAAGTGTACTATATTTTGCATG 57.292 33.333 0.00 0.00 35.08 4.06
2764 2869 5.277345 CGTCAAAAGAATTCCGAACAGAAGT 60.277 40.000 0.65 0.00 0.00 3.01
2765 2870 5.140177 CGTCAAAAGAATTCCGAACAGAAG 58.860 41.667 0.65 0.00 0.00 2.85
2773 2878 8.528917 TCCATATATACGTCAAAAGAATTCCG 57.471 34.615 0.65 0.00 0.00 4.30
2786 2891 7.287005 TCCAAGTTTCTCACTCCATATATACGT 59.713 37.037 0.00 0.00 32.94 3.57
2838 2944 1.339097 ATATTTCCGGACGGAGGGAG 58.661 55.000 13.64 0.00 46.06 4.30
2839 2945 1.797320 AATATTTCCGGACGGAGGGA 58.203 50.000 13.64 4.95 46.06 4.20
2840 2946 2.632987 AAATATTTCCGGACGGAGGG 57.367 50.000 13.64 0.00 46.06 4.30
2841 2947 4.890088 TGATAAATATTTCCGGACGGAGG 58.110 43.478 13.64 0.00 46.06 4.30
2842 2948 6.163476 TGATGATAAATATTTCCGGACGGAG 58.837 40.000 13.64 0.00 46.06 4.63
2843 2949 6.104146 TGATGATAAATATTTCCGGACGGA 57.896 37.500 1.83 9.76 43.52 4.69
2844 2950 6.795098 TTGATGATAAATATTTCCGGACGG 57.205 37.500 1.83 3.96 0.00 4.79
2845 2951 9.117145 CATTTTGATGATAAATATTTCCGGACG 57.883 33.333 1.83 0.00 0.00 4.79
2846 2952 9.410556 CCATTTTGATGATAAATATTTCCGGAC 57.589 33.333 1.83 0.00 0.00 4.79
2847 2953 9.360901 TCCATTTTGATGATAAATATTTCCGGA 57.639 29.630 0.00 0.00 0.00 5.14
2881 2987 9.406113 AGAACTAAAATACGTCTAGATACACCT 57.594 33.333 0.00 0.00 0.00 4.00
2915 3021 9.912634 GTTGTCATCAAAATGGATAAAAAGAGA 57.087 29.630 0.00 0.00 35.20 3.10
2916 3022 9.918630 AGTTGTCATCAAAATGGATAAAAAGAG 57.081 29.630 0.00 0.00 35.20 2.85
2924 3030 7.975616 CCGAAAATAGTTGTCATCAAAATGGAT 59.024 33.333 0.00 0.00 35.20 3.41
2925 3031 7.175816 TCCGAAAATAGTTGTCATCAAAATGGA 59.824 33.333 0.00 0.00 35.20 3.41
2926 3032 7.273381 GTCCGAAAATAGTTGTCATCAAAATGG 59.727 37.037 0.00 0.00 35.20 3.16
2927 3033 7.007367 CGTCCGAAAATAGTTGTCATCAAAATG 59.993 37.037 0.00 0.00 35.20 2.32
2928 3034 7.021196 CGTCCGAAAATAGTTGTCATCAAAAT 58.979 34.615 0.00 0.00 35.20 1.82
2929 3035 6.367421 CGTCCGAAAATAGTTGTCATCAAAA 58.633 36.000 0.00 0.00 35.20 2.44
2930 3036 5.106869 CCGTCCGAAAATAGTTGTCATCAAA 60.107 40.000 0.00 0.00 35.20 2.69
2931 3037 4.390603 CCGTCCGAAAATAGTTGTCATCAA 59.609 41.667 0.00 0.00 0.00 2.57
2932 3038 3.930229 CCGTCCGAAAATAGTTGTCATCA 59.070 43.478 0.00 0.00 0.00 3.07
2933 3039 4.178540 TCCGTCCGAAAATAGTTGTCATC 58.821 43.478 0.00 0.00 0.00 2.92
2934 3040 4.181578 CTCCGTCCGAAAATAGTTGTCAT 58.818 43.478 0.00 0.00 0.00 3.06
2935 3041 3.581755 CTCCGTCCGAAAATAGTTGTCA 58.418 45.455 0.00 0.00 0.00 3.58
2936 3042 2.928116 CCTCCGTCCGAAAATAGTTGTC 59.072 50.000 0.00 0.00 0.00 3.18
2937 3043 2.354403 CCCTCCGTCCGAAAATAGTTGT 60.354 50.000 0.00 0.00 0.00 3.32
2938 3044 2.093869 TCCCTCCGTCCGAAAATAGTTG 60.094 50.000 0.00 0.00 0.00 3.16
2939 3045 2.167900 CTCCCTCCGTCCGAAAATAGTT 59.832 50.000 0.00 0.00 0.00 2.24
2940 3046 1.755380 CTCCCTCCGTCCGAAAATAGT 59.245 52.381 0.00 0.00 0.00 2.12
2941 3047 1.755380 ACTCCCTCCGTCCGAAAATAG 59.245 52.381 0.00 0.00 0.00 1.73
2942 3048 1.856629 ACTCCCTCCGTCCGAAAATA 58.143 50.000 0.00 0.00 0.00 1.40
2943 3049 1.856629 TACTCCCTCCGTCCGAAAAT 58.143 50.000 0.00 0.00 0.00 1.82
2944 3050 1.856629 ATACTCCCTCCGTCCGAAAA 58.143 50.000 0.00 0.00 0.00 2.29
2945 3051 2.734755 TATACTCCCTCCGTCCGAAA 57.265 50.000 0.00 0.00 0.00 3.46
2946 3052 2.889045 CAATATACTCCCTCCGTCCGAA 59.111 50.000 0.00 0.00 0.00 4.30
2947 3053 2.511659 CAATATACTCCCTCCGTCCGA 58.488 52.381 0.00 0.00 0.00 4.55
2948 3054 1.544691 CCAATATACTCCCTCCGTCCG 59.455 57.143 0.00 0.00 0.00 4.79
2949 3055 2.606378 ACCAATATACTCCCTCCGTCC 58.394 52.381 0.00 0.00 0.00 4.79
2950 3056 3.896272 AGAACCAATATACTCCCTCCGTC 59.104 47.826 0.00 0.00 0.00 4.79
2951 3057 3.924922 AGAACCAATATACTCCCTCCGT 58.075 45.455 0.00 0.00 0.00 4.69
2952 3058 6.351117 GGAATAGAACCAATATACTCCCTCCG 60.351 46.154 0.00 0.00 0.00 4.63
2953 3059 6.070136 GGGAATAGAACCAATATACTCCCTCC 60.070 46.154 0.00 0.00 37.57 4.30
2954 3060 6.351117 CGGGAATAGAACCAATATACTCCCTC 60.351 46.154 0.00 0.00 38.28 4.30
2955 3061 5.484290 CGGGAATAGAACCAATATACTCCCT 59.516 44.000 0.00 0.00 38.28 4.20
2956 3062 5.731591 CGGGAATAGAACCAATATACTCCC 58.268 45.833 0.00 0.00 37.26 4.30
2957 3063 5.176592 GCGGGAATAGAACCAATATACTCC 58.823 45.833 0.00 0.00 0.00 3.85
2958 3064 5.790593 TGCGGGAATAGAACCAATATACTC 58.209 41.667 0.00 0.00 0.00 2.59
2959 3065 5.818678 TGCGGGAATAGAACCAATATACT 57.181 39.130 0.00 0.00 0.00 2.12
2960 3066 6.870971 TTTGCGGGAATAGAACCAATATAC 57.129 37.500 0.00 0.00 0.00 1.47
2961 3067 7.883391 TTTTTGCGGGAATAGAACCAATATA 57.117 32.000 0.00 0.00 0.00 0.86
2962 3068 6.783708 TTTTTGCGGGAATAGAACCAATAT 57.216 33.333 0.00 0.00 0.00 1.28
2988 3094 5.007724 GCTTTGCCGCTAGAACAAATATACT 59.992 40.000 0.00 0.00 33.19 2.12
2996 3102 2.006888 GTATGCTTTGCCGCTAGAACA 58.993 47.619 0.00 0.00 0.00 3.18
3014 3120 8.887264 ACAAACAAGGTTGGAATATTATGGTA 57.113 30.769 2.59 0.00 32.50 3.25
3070 3176 5.408909 GTCCAAGTTTTAGTCTCTGCCTAAC 59.591 44.000 0.00 0.00 0.00 2.34
3076 3182 2.408704 CGCGTCCAAGTTTTAGTCTCTG 59.591 50.000 0.00 0.00 0.00 3.35
3084 3190 1.385528 AAAGGTCGCGTCCAAGTTTT 58.614 45.000 24.00 12.53 0.00 2.43
3098 3204 4.400529 GTGAAACCATGTTCCAAAAGGT 57.599 40.909 0.00 0.00 0.00 3.50
3190 3301 9.842775 CAGGAGTATACCGGTCAACTATATATA 57.157 37.037 12.40 0.00 34.73 0.86
3200 3311 4.442401 TCATACAGGAGTATACCGGTCA 57.558 45.455 12.40 0.00 38.88 4.02
3341 3452 4.700213 AGTTTGATTAAGGAATGACACCCG 59.300 41.667 0.00 0.00 0.00 5.28
3367 3478 3.201290 GCTGACCATTCTACTCATGTGG 58.799 50.000 0.00 0.00 36.06 4.17
3371 3482 4.551671 ACTAGGCTGACCATTCTACTCAT 58.448 43.478 0.00 0.00 39.06 2.90
3543 3660 6.012745 AGCTCTCCTACATGGTTGAATTTTT 58.987 36.000 0.00 0.00 37.07 1.94
3544 3661 5.416952 CAGCTCTCCTACATGGTTGAATTTT 59.583 40.000 0.00 0.00 37.07 1.82
3545 3662 4.946157 CAGCTCTCCTACATGGTTGAATTT 59.054 41.667 0.00 0.00 37.07 1.82
3546 3663 4.521146 CAGCTCTCCTACATGGTTGAATT 58.479 43.478 0.00 0.00 37.07 2.17
3547 3664 3.683847 GCAGCTCTCCTACATGGTTGAAT 60.684 47.826 0.00 0.00 37.07 2.57


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

AutoCloner maintained by Alex Coulton.