Multiple sequence alignment - TraesCS7B01G032500

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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 TraesCS7B01G032500 chr7B 100.000 4784 0 0 1 4784 32469968 32474751 0.000000e+00 8835.0
1 TraesCS7B01G032500 chr7B 100.000 1953 0 0 5069 7021 32475036 32476988 0.000000e+00 3607.0
2 TraesCS7B01G032500 chr7B 95.238 105 5 0 3541 3645 508189482 508189378 4.360000e-37 167.0
3 TraesCS7B01G032500 chr7B 90.164 122 9 3 3524 3643 588874897 588875017 9.430000e-34 156.0
4 TraesCS7B01G032500 chr7D 93.402 2607 98 17 968 3543 83095473 83098036 0.000000e+00 3794.0
5 TraesCS7B01G032500 chr7D 95.709 1305 41 2 5217 6506 83099429 83100733 0.000000e+00 2085.0
6 TraesCS7B01G032500 chr7D 96.949 1147 31 4 3640 4784 83098035 83099179 0.000000e+00 1921.0
7 TraesCS7B01G032500 chr7D 94.776 804 27 7 6230 7021 83348545 83349345 0.000000e+00 1238.0
8 TraesCS7B01G032500 chr7D 95.618 753 27 4 5282 6028 83346645 83347397 0.000000e+00 1203.0
9 TraesCS7B01G032500 chr7D 88.248 953 60 18 8 952 83094580 83095488 0.000000e+00 1092.0
10 TraesCS7B01G032500 chr7D 96.250 160 6 0 6030 6189 83347561 83347720 5.400000e-66 263.0
11 TraesCS7B01G032500 chr7D 95.556 135 6 0 5069 5203 83099240 83099374 4.260000e-52 217.0
12 TraesCS7B01G032500 chr7D 82.439 205 28 6 6702 6901 102597709 102597910 9.360000e-39 172.0
13 TraesCS7B01G032500 chr7D 81.951 205 30 5 6702 6901 579618371 579618573 4.360000e-37 167.0
14 TraesCS7B01G032500 chr7D 100.000 36 0 0 5177 5212 610762794 610762759 4.550000e-07 67.6
15 TraesCS7B01G032500 chr7D 93.023 43 0 3 5180 5221 448350966 448351006 7.610000e-05 60.2
16 TraesCS7B01G032500 chr7A 92.693 2614 106 37 969 3551 85077806 85080365 0.000000e+00 3690.0
17 TraesCS7B01G032500 chr7A 95.085 1831 51 11 5217 7021 85081824 85083641 0.000000e+00 2846.0
18 TraesCS7B01G032500 chr7A 96.161 1146 26 4 3640 4784 85080419 85081547 0.000000e+00 1857.0
19 TraesCS7B01G032500 chr7A 86.777 968 64 17 8 952 85076894 85077820 0.000000e+00 1020.0
20 TraesCS7B01G032500 chr7A 94.194 155 8 1 5069 5223 85081608 85081761 1.180000e-57 235.0
21 TraesCS7B01G032500 chr3B 88.713 443 36 10 246 681 433936951 433937386 4.820000e-146 529.0
22 TraesCS7B01G032500 chr3B 82.090 536 67 15 5665 6189 240805139 240804622 1.400000e-116 431.0
23 TraesCS7B01G032500 chr3B 91.935 62 5 0 6453 6514 240804588 240804527 3.490000e-13 87.9
24 TraesCS7B01G032500 chr3B 95.000 40 1 1 5181 5220 450376652 450376690 2.110000e-05 62.1
25 TraesCS7B01G032500 chr3A 79.701 803 105 31 5422 6189 203414614 203413835 1.730000e-145 527.0
26 TraesCS7B01G032500 chr3A 93.443 61 4 0 6454 6514 203413800 203413740 2.700000e-14 91.6
27 TraesCS7B01G032500 chr3D 84.008 519 63 12 5676 6189 165588448 165587945 1.370000e-131 481.0
28 TraesCS7B01G032500 chr3D 82.500 200 31 3 6706 6901 569916590 569916391 9.360000e-39 172.0
29 TraesCS7B01G032500 chr3D 93.548 62 4 0 6453 6514 165587911 165587850 7.500000e-15 93.5
30 TraesCS7B01G032500 chr3D 95.349 43 1 1 5181 5223 352110712 352110753 4.550000e-07 67.6
31 TraesCS7B01G032500 chr4D 83.094 278 36 6 6610 6877 254681130 254681406 7.040000e-60 243.0
32 TraesCS7B01G032500 chr4D 88.430 121 12 1 6903 7021 136152563 136152443 2.040000e-30 145.0
33 TraesCS7B01G032500 chr4D 88.235 119 13 1 6904 7021 45723621 45723739 2.640000e-29 141.0
34 TraesCS7B01G032500 chr1D 82.266 203 29 7 6702 6901 8488757 8488955 1.210000e-37 169.0
35 TraesCS7B01G032500 chr1D 82.266 203 29 7 6702 6901 8525727 8525925 1.210000e-37 169.0
36 TraesCS7B01G032500 chr5D 95.192 104 5 0 3536 3639 228446956 228447059 1.570000e-36 165.0
37 TraesCS7B01G032500 chr5D 95.050 101 5 0 3538 3638 202429431 202429531 7.290000e-35 159.0
38 TraesCS7B01G032500 chr5D 91.489 47 2 2 5178 5223 262660512 262660557 5.880000e-06 63.9
39 TraesCS7B01G032500 chr5A 91.667 120 9 1 6903 7021 411991999 411991880 1.570000e-36 165.0
40 TraesCS7B01G032500 chr6D 81.773 203 30 7 6702 6901 49546701 49546503 5.640000e-36 163.0
41 TraesCS7B01G032500 chr6A 92.174 115 5 3 3533 3646 131446784 131446673 7.290000e-35 159.0
42 TraesCS7B01G032500 chr4B 92.727 110 8 0 3536 3645 426876355 426876246 7.290000e-35 159.0
43 TraesCS7B01G032500 chr2A 90.323 124 9 2 6900 7021 124273929 124273807 7.290000e-35 159.0
44 TraesCS7B01G032500 chr1A 92.661 109 8 0 3533 3641 351606753 351606861 2.620000e-34 158.0
45 TraesCS7B01G032500 chr6B 89.431 123 10 3 3540 3659 424084090 424084212 1.220000e-32 152.0
46 TraesCS7B01G032500 chr6B 89.431 123 10 3 3540 3659 424306788 424306910 1.220000e-32 152.0
47 TraesCS7B01G032500 chr6B 95.000 40 0 2 5185 5223 4312867 4312905 2.110000e-05 62.1
48 TraesCS7B01G032500 chr4A 87.200 125 15 1 6894 7017 565037503 565037379 2.640000e-29 141.0
49 TraesCS7B01G032500 chr4A 93.333 45 2 1 5179 5223 441758911 441758954 1.630000e-06 65.8
50 TraesCS7B01G032500 chr2B 88.333 120 9 5 6904 7021 392713367 392713251 9.500000e-29 139.0
51 TraesCS7B01G032500 chr2B 87.805 123 10 5 6903 7021 439560688 439560567 9.500000e-29 139.0
52 TraesCS7B01G032500 chr2D 92.683 41 3 0 5183 5223 128455601 128455561 7.610000e-05 60.2


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 TraesCS7B01G032500 chr7B 32469968 32476988 7020 False 6221.000000 8835 100.0000 1 7021 2 chr7B.!!$F2 7020
1 TraesCS7B01G032500 chr7D 83094580 83100733 6153 False 1821.800000 3794 93.9728 8 6506 5 chr7D.!!$F4 6498
2 TraesCS7B01G032500 chr7D 83346645 83349345 2700 False 901.333333 1238 95.5480 5282 7021 3 chr7D.!!$F5 1739
3 TraesCS7B01G032500 chr7A 85076894 85083641 6747 False 1929.600000 3690 92.9820 8 7021 5 chr7A.!!$F1 7013
4 TraesCS7B01G032500 chr3B 240804527 240805139 612 True 259.450000 431 87.0125 5665 6514 2 chr3B.!!$R1 849
5 TraesCS7B01G032500 chr3A 203413740 203414614 874 True 309.300000 527 86.5720 5422 6514 2 chr3A.!!$R1 1092
6 TraesCS7B01G032500 chr3D 165587850 165588448 598 True 287.250000 481 88.7780 5676 6514 2 chr3D.!!$R2 838

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
951 984 0.179001 AGTTTGTTTAGCGGCCCACT 60.179 50.000 0.00 0.00 0.00 4.00 F
961 994 0.393808 GCGGCCCACTTAATCCTCAA 60.394 55.000 0.00 0.00 0.00 3.02 F
1375 1414 0.673022 GCTCAACTCTGTCCCTGCTG 60.673 60.000 0.00 0.00 0.00 4.41 F
1533 1572 0.698238 TGTTGGTAATGCTCCTGCCT 59.302 50.000 0.00 0.00 38.71 4.75 F
3385 3453 0.518636 GAATGCTGCTCTTTGACGCA 59.481 50.000 0.00 0.00 34.83 5.24 F
4269 4339 0.873743 GATTCGAGGAAGCTCGCCTG 60.874 60.000 12.44 5.94 45.45 4.85 F
5170 5240 1.000171 CCCTGAAAACAAAGGAGCAGC 60.000 52.381 0.00 0.00 35.40 5.25 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2246 2310 0.738389 CACAACCTCCAAAGCGTTGT 59.262 50.000 11.48 5.03 42.54 3.32 R
2915 2983 2.287788 GCTGCAGTGTGCTGTTGTTATT 60.288 45.455 16.64 0.00 45.31 1.40 R
3340 3408 3.679980 CACTTAGAGGTTCACCAACATCG 59.320 47.826 0.00 0.00 46.01 3.84 R
3496 3564 4.569564 GGAACGGGTATTACAAGTAGCAAG 59.430 45.833 0.00 0.00 0.00 4.01 R
5295 5434 0.036875 GGGCACTTTCTGGTAGCAGT 59.963 55.000 20.76 0.06 0.00 4.40 R
5441 5580 0.326427 AGGCAGCTTCTCCTCCAGAT 60.326 55.000 0.00 0.00 0.00 2.90 R
6598 7731 0.923358 ACAAGTTTGTGGAGGACCCA 59.077 50.000 0.00 0.00 44.25 4.51 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
40 43 8.872845 AGTTCATAGAAACAACAAAAAGCTTTG 58.127 29.630 13.54 4.32 46.26 2.77
42 45 9.598517 TTCATAGAAACAACAAAAAGCTTTGAT 57.401 25.926 13.54 1.86 44.03 2.57
56 59 4.232221 AGCTTTGATTGCAGATGTTTTCG 58.768 39.130 0.00 0.00 0.00 3.46
63 66 2.093890 TGCAGATGTTTTCGCATCCAT 58.906 42.857 2.84 0.00 44.58 3.41
85 88 5.398603 TTGCATGTTAAATTGTACCCCTG 57.601 39.130 0.00 0.00 0.00 4.45
118 121 5.443185 TTGATGCCTTCTTCTTCTGTTTG 57.557 39.130 0.00 0.00 0.00 2.93
120 123 1.956477 TGCCTTCTTCTTCTGTTTGGC 59.044 47.619 0.00 0.00 39.53 4.52
121 124 2.234143 GCCTTCTTCTTCTGTTTGGCT 58.766 47.619 0.00 0.00 36.52 4.75
122 125 3.181445 TGCCTTCTTCTTCTGTTTGGCTA 60.181 43.478 0.00 0.00 39.77 3.93
123 126 4.013050 GCCTTCTTCTTCTGTTTGGCTAT 58.987 43.478 0.00 0.00 36.52 2.97
135 141 9.871238 CTTCTGTTTGGCTATCTAGTTAACTTA 57.129 33.333 14.49 3.02 0.00 2.24
209 215 1.129251 CGCACATGTAACCAAGCAGAG 59.871 52.381 0.00 0.00 0.00 3.35
210 216 2.154462 GCACATGTAACCAAGCAGAGT 58.846 47.619 0.00 0.00 0.00 3.24
237 244 1.475403 CCCGAGCTACCGATGGATAT 58.525 55.000 0.00 0.00 0.00 1.63
248 255 7.724061 AGCTACCGATGGATATTTGGTAAAAAT 59.276 33.333 0.00 0.00 34.94 1.82
273 280 1.668751 ACAACGTGGCAACTACAACAG 59.331 47.619 0.00 0.00 37.61 3.16
351 362 5.694231 AGGTAAAAATTCTAAAACGCGGT 57.306 34.783 12.47 0.00 0.00 5.68
361 372 3.983344 TCTAAAACGCGGTGAAGTTCTAC 59.017 43.478 12.47 1.04 0.00 2.59
425 436 1.611519 GACTCCGATCTACTCCCCAG 58.388 60.000 0.00 0.00 0.00 4.45
430 441 0.592148 CGATCTACTCCCCAGCGTAC 59.408 60.000 0.00 0.00 0.00 3.67
439 451 0.670546 CCCCAGCGTACAGACAACAG 60.671 60.000 0.00 0.00 0.00 3.16
790 823 2.088423 GGCTCTCTCTTTCTCGTCTGA 58.912 52.381 0.00 0.00 0.00 3.27
833 866 2.893489 CCTGCCTCTATTTAAATGGGCC 59.107 50.000 25.02 0.00 38.89 5.80
866 899 0.462047 CCTTAGTCGGCTTCGGCAAT 60.462 55.000 0.00 0.00 41.59 3.56
869 902 0.739462 TAGTCGGCTTCGGCAATGTG 60.739 55.000 0.00 0.00 41.59 3.21
919 952 3.519510 GGCCCAGATATAGTCAGCCAATA 59.480 47.826 0.00 0.00 38.76 1.90
920 953 4.383552 GGCCCAGATATAGTCAGCCAATAG 60.384 50.000 0.00 0.00 38.76 1.73
921 954 4.383552 GCCCAGATATAGTCAGCCAATAGG 60.384 50.000 0.00 0.00 38.23 2.57
922 955 4.163078 CCCAGATATAGTCAGCCAATAGGG 59.837 50.000 0.00 0.00 40.85 3.53
923 956 4.163078 CCAGATATAGTCAGCCAATAGGGG 59.837 50.000 0.00 0.00 37.04 4.79
924 957 4.163078 CAGATATAGTCAGCCAATAGGGGG 59.837 50.000 0.00 0.00 37.04 5.40
936 969 4.536295 CAATAGGGGGATTGGGTAGTTT 57.464 45.455 0.00 0.00 33.86 2.66
947 980 0.806868 GGGTAGTTTGTTTAGCGGCC 59.193 55.000 0.00 0.00 0.00 6.13
948 981 0.806868 GGTAGTTTGTTTAGCGGCCC 59.193 55.000 0.00 0.00 0.00 5.80
949 982 1.525941 GTAGTTTGTTTAGCGGCCCA 58.474 50.000 0.00 0.00 0.00 5.36
950 983 1.198408 GTAGTTTGTTTAGCGGCCCAC 59.802 52.381 0.00 0.00 0.00 4.61
951 984 0.179001 AGTTTGTTTAGCGGCCCACT 60.179 50.000 0.00 0.00 0.00 4.00
952 985 0.671796 GTTTGTTTAGCGGCCCACTT 59.328 50.000 0.00 0.00 0.00 3.16
953 986 1.881324 GTTTGTTTAGCGGCCCACTTA 59.119 47.619 0.00 0.00 0.00 2.24
954 987 2.273538 TTGTTTAGCGGCCCACTTAA 57.726 45.000 0.00 0.00 0.00 1.85
955 988 2.500392 TGTTTAGCGGCCCACTTAAT 57.500 45.000 0.00 0.00 0.00 1.40
956 989 2.361789 TGTTTAGCGGCCCACTTAATC 58.638 47.619 0.00 0.00 0.00 1.75
957 990 1.674441 GTTTAGCGGCCCACTTAATCC 59.326 52.381 0.00 0.00 0.00 3.01
958 991 1.209621 TTAGCGGCCCACTTAATCCT 58.790 50.000 0.00 0.00 0.00 3.24
959 992 0.756903 TAGCGGCCCACTTAATCCTC 59.243 55.000 0.00 0.00 0.00 3.71
960 993 1.223487 GCGGCCCACTTAATCCTCA 59.777 57.895 0.00 0.00 0.00 3.86
961 994 0.393808 GCGGCCCACTTAATCCTCAA 60.394 55.000 0.00 0.00 0.00 3.02
962 995 1.953311 GCGGCCCACTTAATCCTCAAA 60.953 52.381 0.00 0.00 0.00 2.69
963 996 2.442413 CGGCCCACTTAATCCTCAAAA 58.558 47.619 0.00 0.00 0.00 2.44
964 997 2.823154 CGGCCCACTTAATCCTCAAAAA 59.177 45.455 0.00 0.00 0.00 1.94
1094 1133 1.229464 AAGGAGCTGGAGAGGCTGT 60.229 57.895 0.00 0.00 40.40 4.40
1114 1153 4.200283 GCGGAGAGGGACGAGCTG 62.200 72.222 0.00 0.00 0.00 4.24
1162 1201 3.199190 CTCGAGACGAGCTCCGCT 61.199 66.667 6.58 5.33 46.75 5.52
1368 1407 1.994916 GCTCTCAGCTCAACTCTGTC 58.005 55.000 0.00 0.00 38.45 3.51
1375 1414 0.673022 GCTCAACTCTGTCCCTGCTG 60.673 60.000 0.00 0.00 0.00 4.41
1413 1452 2.119655 GCCCTCTGATGCCTTGCTG 61.120 63.158 0.00 0.00 0.00 4.41
1416 1455 1.088340 CCTCTGATGCCTTGCTGACG 61.088 60.000 0.00 0.00 0.00 4.35
1417 1456 1.078918 TCTGATGCCTTGCTGACGG 60.079 57.895 0.00 0.00 0.00 4.79
1502 1541 2.461110 GCCCGTGGCGTTGTATCTG 61.461 63.158 0.00 0.00 39.62 2.90
1533 1572 0.698238 TGTTGGTAATGCTCCTGCCT 59.302 50.000 0.00 0.00 38.71 4.75
1688 1727 5.670792 AACAACCTTCATCGACAGGTATA 57.329 39.130 12.11 0.00 43.05 1.47
1760 1820 1.882912 TGTTGGCGATCATGCTATCC 58.117 50.000 0.00 0.00 34.52 2.59
1780 1840 7.439655 GCTATCCGTCTATCTGAGAAACAAATT 59.560 37.037 0.00 0.00 35.37 1.82
1889 1950 5.106555 ACCTTTTGAACATAACTGCTCATCG 60.107 40.000 0.00 0.00 28.09 3.84
1895 1956 7.841915 TGAACATAACTGCTCATCGAAAATA 57.158 32.000 0.00 0.00 0.00 1.40
1951 2012 7.280205 CGGGGCATACTATTCCTCATATTAAAC 59.720 40.741 0.00 0.00 0.00 2.01
2112 2174 5.237048 CAAATGTGGTTGTATCCCCTTTTG 58.763 41.667 0.00 0.00 0.00 2.44
2114 2176 3.761897 TGTGGTTGTATCCCCTTTTGAG 58.238 45.455 0.00 0.00 0.00 3.02
2132 2194 9.573133 CCTTTTGAGTAGTATTTATGGCAAAAG 57.427 33.333 3.21 3.21 44.94 2.27
2181 2245 6.725246 ACTGTGTAACTAATTTCAGTTGTGC 58.275 36.000 4.21 0.00 39.12 4.57
2235 2299 6.560003 AAGGTGGTAGAACATCATCATACA 57.440 37.500 0.00 0.00 0.00 2.29
2246 2310 6.778834 ACATCATCATACATTGAAGCCAAA 57.221 33.333 0.00 0.00 38.03 3.28
2436 2500 5.361135 TCAGTGATTGTTGTGTATTGCTG 57.639 39.130 0.00 0.00 0.00 4.41
2475 2539 8.848528 CATTTTGTTTTTGGCTTTTGTTAACAG 58.151 29.630 8.56 0.00 0.00 3.16
2481 2546 3.093057 TGGCTTTTGTTAACAGTGGTGT 58.907 40.909 8.56 0.00 39.19 4.16
2512 2577 8.321353 AGTACTTCACAATGTAATCCTGATTGA 58.679 33.333 2.66 0.00 32.47 2.57
2631 2696 5.976534 CACTGGTTTTCGTTGATCAAATTCA 59.023 36.000 10.35 1.87 0.00 2.57
2640 2705 7.026631 TCGTTGATCAAATTCAGAACTGTTT 57.973 32.000 10.35 0.00 0.00 2.83
2915 2983 7.129457 ACTCTAGTAAATCATGCTTCATGGA 57.871 36.000 6.92 0.00 41.66 3.41
2928 2996 4.168760 GCTTCATGGAATAACAACAGCAC 58.831 43.478 0.00 0.00 0.00 4.40
2990 3058 2.171659 ACATTGTCCGGGTATGTATGCA 59.828 45.455 13.11 0.00 31.11 3.96
3194 3262 1.779221 TTGGCAGCAAATAGGATGGG 58.221 50.000 0.00 0.00 0.00 4.00
3197 3265 1.202927 GGCAGCAAATAGGATGGGCTA 60.203 52.381 0.00 0.00 32.71 3.93
3227 3295 9.723601 TGTGCTAATCATATGCAATATTGACTA 57.276 29.630 19.73 9.37 37.44 2.59
3340 3408 3.282885 AGAGGCTATAAAGGTTGCAAGC 58.717 45.455 20.81 20.81 0.00 4.01
3385 3453 0.518636 GAATGCTGCTCTTTGACGCA 59.481 50.000 0.00 0.00 34.83 5.24
3496 3564 2.673368 GCTGCATACAGTGAGGTGTTAC 59.327 50.000 0.00 0.00 46.30 2.50
3551 3619 5.416271 GAGTGTAACAAATACTCCCTCCA 57.584 43.478 0.00 0.00 39.71 3.86
3553 3621 5.990668 AGTGTAACAAATACTCCCTCCATC 58.009 41.667 0.00 0.00 41.43 3.51
3554 3622 5.104485 AGTGTAACAAATACTCCCTCCATCC 60.104 44.000 0.00 0.00 41.43 3.51
3555 3623 3.953542 AACAAATACTCCCTCCATCCC 57.046 47.619 0.00 0.00 0.00 3.85
3556 3624 2.858644 ACAAATACTCCCTCCATCCCA 58.141 47.619 0.00 0.00 0.00 4.37
3559 3627 4.232820 ACAAATACTCCCTCCATCCCAAAT 59.767 41.667 0.00 0.00 0.00 2.32
3562 3630 6.606241 AATACTCCCTCCATCCCAAATTAA 57.394 37.500 0.00 0.00 0.00 1.40
3563 3631 4.526438 ACTCCCTCCATCCCAAATTAAG 57.474 45.455 0.00 0.00 0.00 1.85
3564 3632 3.858638 ACTCCCTCCATCCCAAATTAAGT 59.141 43.478 0.00 0.00 0.00 2.24
3566 3634 3.596046 TCCCTCCATCCCAAATTAAGTGT 59.404 43.478 0.00 0.00 0.00 3.55
3567 3635 3.954258 CCCTCCATCCCAAATTAAGTGTC 59.046 47.826 0.00 0.00 0.00 3.67
3568 3636 4.325344 CCCTCCATCCCAAATTAAGTGTCT 60.325 45.833 0.00 0.00 0.00 3.41
3569 3637 4.884164 CCTCCATCCCAAATTAAGTGTCTC 59.116 45.833 0.00 0.00 0.00 3.36
3570 3638 5.500234 CTCCATCCCAAATTAAGTGTCTCA 58.500 41.667 0.00 0.00 0.00 3.27
3571 3639 5.886609 TCCATCCCAAATTAAGTGTCTCAA 58.113 37.500 0.00 0.00 0.00 3.02
3572 3640 5.710099 TCCATCCCAAATTAAGTGTCTCAAC 59.290 40.000 0.00 0.00 0.00 3.18
3573 3641 5.105756 CCATCCCAAATTAAGTGTCTCAACC 60.106 44.000 0.00 0.00 0.00 3.77
3574 3642 5.319043 TCCCAAATTAAGTGTCTCAACCT 57.681 39.130 0.00 0.00 0.00 3.50
3575 3643 5.701224 TCCCAAATTAAGTGTCTCAACCTT 58.299 37.500 0.00 0.00 0.00 3.50
3576 3644 6.843752 TCCCAAATTAAGTGTCTCAACCTTA 58.156 36.000 0.00 0.00 0.00 2.69
3577 3645 6.940298 TCCCAAATTAAGTGTCTCAACCTTAG 59.060 38.462 0.00 0.00 0.00 2.18
3579 3647 7.881232 CCCAAATTAAGTGTCTCAACCTTAGTA 59.119 37.037 0.00 0.00 0.00 1.82
3580 3648 8.718734 CCAAATTAAGTGTCTCAACCTTAGTAC 58.281 37.037 0.00 0.00 0.00 2.73
3581 3649 9.268268 CAAATTAAGTGTCTCAACCTTAGTACA 57.732 33.333 0.00 0.00 0.00 2.90
3583 3651 8.828688 ATTAAGTGTCTCAACCTTAGTACAAC 57.171 34.615 0.00 0.00 0.00 3.32
3584 3652 6.481434 AAGTGTCTCAACCTTAGTACAACT 57.519 37.500 0.00 0.00 0.00 3.16
3586 3654 6.885922 AGTGTCTCAACCTTAGTACAACTTT 58.114 36.000 0.00 0.00 0.00 2.66
3587 3655 8.015185 AGTGTCTCAACCTTAGTACAACTTTA 57.985 34.615 0.00 0.00 0.00 1.85
3589 3657 9.918630 GTGTCTCAACCTTAGTACAACTTTATA 57.081 33.333 0.00 0.00 0.00 0.98
3615 3683 7.766219 TCAAGTTAGTACAAAGTTGAGACAC 57.234 36.000 0.00 0.00 41.57 3.67
3616 3684 7.553334 TCAAGTTAGTACAAAGTTGAGACACT 58.447 34.615 0.00 0.00 41.57 3.55
3617 3685 8.038944 TCAAGTTAGTACAAAGTTGAGACACTT 58.961 33.333 0.00 0.98 41.57 3.16
3618 3686 9.309516 CAAGTTAGTACAAAGTTGAGACACTTA 57.690 33.333 0.00 0.00 40.66 2.24
3624 3692 8.621286 AGTACAAAGTTGAGACACTTATTTTGG 58.379 33.333 0.00 0.00 35.87 3.28
3625 3693 6.805713 ACAAAGTTGAGACACTTATTTTGGG 58.194 36.000 0.00 0.00 35.87 4.12
3626 3694 6.605594 ACAAAGTTGAGACACTTATTTTGGGA 59.394 34.615 0.00 0.00 35.87 4.37
3627 3695 6.635030 AAGTTGAGACACTTATTTTGGGAC 57.365 37.500 0.00 0.00 35.10 4.46
3628 3696 4.755123 AGTTGAGACACTTATTTTGGGACG 59.245 41.667 0.00 0.00 0.00 4.79
3629 3697 3.670625 TGAGACACTTATTTTGGGACGG 58.329 45.455 0.00 0.00 0.00 4.79
3630 3698 3.325425 TGAGACACTTATTTTGGGACGGA 59.675 43.478 0.00 0.00 0.00 4.69
3631 3699 3.933332 GAGACACTTATTTTGGGACGGAG 59.067 47.826 0.00 0.00 0.00 4.63
3632 3700 3.007635 GACACTTATTTTGGGACGGAGG 58.992 50.000 0.00 0.00 0.00 4.30
3633 3701 2.290705 ACACTTATTTTGGGACGGAGGG 60.291 50.000 0.00 0.00 0.00 4.30
3634 3702 2.026636 CACTTATTTTGGGACGGAGGGA 60.027 50.000 0.00 0.00 0.00 4.20
3635 3703 2.238898 ACTTATTTTGGGACGGAGGGAG 59.761 50.000 0.00 0.00 0.00 4.30
3636 3704 1.961133 TATTTTGGGACGGAGGGAGT 58.039 50.000 0.00 0.00 0.00 3.85
3637 3705 1.961133 ATTTTGGGACGGAGGGAGTA 58.039 50.000 0.00 0.00 0.00 2.59
3638 3706 0.978907 TTTTGGGACGGAGGGAGTAC 59.021 55.000 0.00 0.00 0.00 2.73
3724 3793 1.686052 TGTGCATTTTGGACAAGGGAC 59.314 47.619 0.00 0.00 45.65 4.46
3828 3897 3.625764 GCTCAAATAATGGGTACAAGCGA 59.374 43.478 0.00 0.00 0.00 4.93
4092 4162 1.164411 CCCGCAAACTGTCATTAGCA 58.836 50.000 0.00 0.00 0.00 3.49
4164 4234 2.552743 GGACAAGTTCAAACCTGCCTAC 59.447 50.000 0.00 0.00 0.00 3.18
4269 4339 0.873743 GATTCGAGGAAGCTCGCCTG 60.874 60.000 12.44 5.94 45.45 4.85
4372 4442 4.396166 CCCAATGTCTGACAAGGTATGTTC 59.604 45.833 22.91 0.00 44.12 3.18
4416 4486 7.726738 TCTGGTTTGCTTTTAATACTTAAGGGT 59.273 33.333 7.53 0.00 0.00 4.34
4453 4523 9.561069 ACTGACTTCATAGTTTGTCTTTAATGT 57.439 29.630 0.00 0.00 33.84 2.71
4737 4807 3.892588 GCACCCTCTAGTAGCTCTACAAT 59.107 47.826 9.44 0.00 38.48 2.71
4761 4831 5.047566 TGAGTTGGAATATGGGTATGTGG 57.952 43.478 0.00 0.00 0.00 4.17
4763 4833 2.890945 GTTGGAATATGGGTATGTGGGC 59.109 50.000 0.00 0.00 0.00 5.36
5165 5235 6.008696 TCTAGTTTCCCTGAAAACAAAGGA 57.991 37.500 2.73 0.00 40.77 3.36
5170 5240 1.000171 CCCTGAAAACAAAGGAGCAGC 60.000 52.381 0.00 0.00 35.40 5.25
5191 5261 4.705023 AGCGCCAAACAAAATAATACTCCT 59.295 37.500 2.29 0.00 0.00 3.69
5441 5580 3.017442 CTCTGAACATACCACTCTCCGA 58.983 50.000 0.00 0.00 0.00 4.55
5862 6027 3.198635 AGACACTGCAGCAGGTATACATT 59.801 43.478 26.38 0.00 35.51 2.71
6106 6447 2.115695 TGGTGCTGCTGCCATTGA 59.884 55.556 13.47 0.00 38.71 2.57
6344 7473 5.582269 ACTCACCATGTCGATACATTCAAAG 59.418 40.000 0.00 0.00 44.07 2.77
6357 7486 7.426456 CGATACATTCAAAGTTGTATGCACTTC 59.574 37.037 9.72 3.21 38.74 3.01
6377 7506 5.645497 ACTTCTGAATTCTTCTCCCATTTCG 59.355 40.000 7.05 0.00 0.00 3.46
6451 7580 7.250569 TCAATTGAAGAAACAAGTGTGACTTC 58.749 34.615 5.45 16.85 43.31 3.01
6567 7700 2.914695 TTCTGCCAAAATTGCTTGCT 57.085 40.000 0.00 0.00 0.00 3.91
6570 7703 2.158928 TCTGCCAAAATTGCTTGCTGTT 60.159 40.909 0.00 0.00 0.00 3.16
6598 7731 3.875134 CGGTAACAGTTCCTTTTGTGTCT 59.125 43.478 0.00 0.00 0.00 3.41
6622 7755 1.843851 TCCTCCACAAACTTGTCACCT 59.156 47.619 0.00 0.00 39.91 4.00
6906 8050 4.092968 CGTGCCTTCTATGGTTTTAGTGTC 59.907 45.833 0.00 0.00 0.00 3.67
6986 8131 7.339976 TGAAGATGCATCAATGGTTAAGATTCA 59.660 33.333 27.81 19.17 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.914426 ATGAACTGCTCCTTTCCGTAT 57.086 42.857 0.00 0.00 0.00 3.06
1 2 4.021229 TCTATGAACTGCTCCTTTCCGTA 58.979 43.478 0.00 0.00 0.00 4.02
2 3 2.832129 TCTATGAACTGCTCCTTTCCGT 59.168 45.455 0.00 0.00 0.00 4.69
3 4 3.526931 TCTATGAACTGCTCCTTTCCG 57.473 47.619 0.00 0.00 0.00 4.30
4 5 5.003804 TGTTTCTATGAACTGCTCCTTTCC 58.996 41.667 0.00 0.00 0.00 3.13
5 6 6.017109 TGTTGTTTCTATGAACTGCTCCTTTC 60.017 38.462 0.00 0.00 0.00 2.62
6 7 5.827797 TGTTGTTTCTATGAACTGCTCCTTT 59.172 36.000 0.00 0.00 0.00 3.11
40 43 3.111098 GGATGCGAAAACATCTGCAATC 58.889 45.455 4.67 0.00 44.81 2.67
42 45 1.885233 TGGATGCGAAAACATCTGCAA 59.115 42.857 4.67 0.00 44.81 4.08
63 66 4.322349 GCAGGGGTACAATTTAACATGCAA 60.322 41.667 0.00 0.00 0.00 4.08
72 75 2.042979 AGATGGTGCAGGGGTACAATTT 59.957 45.455 0.00 0.00 0.00 1.82
190 196 2.154462 ACTCTGCTTGGTTACATGTGC 58.846 47.619 9.11 2.26 0.00 4.57
209 215 1.537562 CGGTAGCTCGGGGTGAATTAC 60.538 57.143 0.00 0.00 0.00 1.89
210 216 0.748450 CGGTAGCTCGGGGTGAATTA 59.252 55.000 0.00 0.00 0.00 1.40
237 244 6.476053 GCCACGTTGTAGAAATTTTTACCAAA 59.524 34.615 14.41 2.91 0.00 3.28
248 255 3.794717 TGTAGTTGCCACGTTGTAGAAA 58.205 40.909 0.00 0.00 0.00 2.52
328 335 5.916320 CACCGCGTTTTAGAATTTTTACCTT 59.084 36.000 4.92 0.00 0.00 3.50
330 337 5.451039 TCACCGCGTTTTAGAATTTTTACC 58.549 37.500 4.92 0.00 0.00 2.85
332 339 6.727215 ACTTCACCGCGTTTTAGAATTTTTA 58.273 32.000 4.92 0.00 0.00 1.52
339 350 3.102052 AGAACTTCACCGCGTTTTAGA 57.898 42.857 4.92 0.00 0.00 2.10
351 362 6.511121 GCTTCGATTTGTGTTGTAGAACTTCA 60.511 38.462 4.21 1.34 32.79 3.02
361 372 1.044725 GTGCGCTTCGATTTGTGTTG 58.955 50.000 9.73 0.00 0.00 3.33
425 436 3.011760 GCGGCTGTTGTCTGTACGC 62.012 63.158 0.00 0.00 35.57 4.42
734 766 2.308811 GTCGTCTAATCGAATCGAGGC 58.691 52.381 12.00 0.00 39.91 4.70
790 823 3.902112 CAGCCAACCCACCCAGGT 61.902 66.667 0.00 0.00 44.00 4.00
833 866 2.044806 CTAAGGCCCGGATGACCCAG 62.045 65.000 0.73 0.00 34.14 4.45
880 913 2.032981 CCCTTGGCAATCCGTATGC 58.967 57.895 0.00 0.00 43.08 3.14
907 940 2.711009 CAATCCCCCTATTGGCTGACTA 59.289 50.000 0.00 0.00 33.95 2.59
908 941 1.496429 CAATCCCCCTATTGGCTGACT 59.504 52.381 0.00 0.00 33.95 3.41
919 952 1.768265 ACAAACTACCCAATCCCCCT 58.232 50.000 0.00 0.00 0.00 4.79
920 953 2.615986 AACAAACTACCCAATCCCCC 57.384 50.000 0.00 0.00 0.00 5.40
921 954 3.446161 GCTAAACAAACTACCCAATCCCC 59.554 47.826 0.00 0.00 0.00 4.81
922 955 3.128068 CGCTAAACAAACTACCCAATCCC 59.872 47.826 0.00 0.00 0.00 3.85
923 956 3.128068 CCGCTAAACAAACTACCCAATCC 59.872 47.826 0.00 0.00 0.00 3.01
924 957 3.427098 GCCGCTAAACAAACTACCCAATC 60.427 47.826 0.00 0.00 0.00 2.67
936 969 2.361789 GATTAAGTGGGCCGCTAAACA 58.638 47.619 21.93 4.94 0.00 2.83
963 996 4.463070 TCTAGTGGGCCGTTAAACTTTTT 58.537 39.130 0.00 0.00 0.00 1.94
964 997 4.070009 CTCTAGTGGGCCGTTAAACTTTT 58.930 43.478 0.00 0.00 0.00 2.27
965 998 3.325716 TCTCTAGTGGGCCGTTAAACTTT 59.674 43.478 0.00 0.00 0.00 2.66
966 999 2.901839 TCTCTAGTGGGCCGTTAAACTT 59.098 45.455 0.00 0.00 0.00 2.66
967 1000 2.532843 TCTCTAGTGGGCCGTTAAACT 58.467 47.619 0.00 0.00 0.00 2.66
968 1001 3.323751 TTCTCTAGTGGGCCGTTAAAC 57.676 47.619 0.00 0.00 0.00 2.01
969 1002 3.325716 ACTTTCTCTAGTGGGCCGTTAAA 59.674 43.478 0.00 0.00 0.00 1.52
970 1003 2.901839 ACTTTCTCTAGTGGGCCGTTAA 59.098 45.455 0.00 0.00 0.00 2.01
971 1004 2.532843 ACTTTCTCTAGTGGGCCGTTA 58.467 47.619 0.00 0.00 0.00 3.18
972 1005 1.349067 ACTTTCTCTAGTGGGCCGTT 58.651 50.000 0.00 0.00 0.00 4.44
973 1006 1.349067 AACTTTCTCTAGTGGGCCGT 58.651 50.000 0.00 0.00 0.00 5.68
974 1007 3.604875 TTAACTTTCTCTAGTGGGCCG 57.395 47.619 0.00 0.00 0.00 6.13
975 1008 4.571176 CGAATTAACTTTCTCTAGTGGGCC 59.429 45.833 0.00 0.00 0.00 5.80
976 1009 4.571176 CCGAATTAACTTTCTCTAGTGGGC 59.429 45.833 0.00 0.00 0.00 5.36
977 1010 4.571176 GCCGAATTAACTTTCTCTAGTGGG 59.429 45.833 0.00 0.00 0.00 4.61
1021 1054 1.153862 GCAGCTCGACACCTCTCTG 60.154 63.158 0.00 0.00 0.00 3.35
1077 1116 1.988956 CACAGCCTCTCCAGCTCCT 60.989 63.158 0.00 0.00 38.95 3.69
1135 1174 2.815298 CGTCTCGAGCTCCGACTCC 61.815 68.421 21.58 3.95 43.23 3.85
1375 1414 3.567797 GTTCATCGAGCTGCGCCC 61.568 66.667 4.18 0.00 40.61 6.13
1381 1420 1.965754 GAGGGCAGGTTCATCGAGCT 61.966 60.000 0.00 0.00 0.00 4.09
1494 1533 1.026182 CCGCAAGCTGCCAGATACAA 61.026 55.000 0.00 0.00 41.12 2.41
1502 1541 4.347453 CCAACACCGCAAGCTGCC 62.347 66.667 0.00 0.00 41.12 4.85
1533 1572 1.071987 CAGCAGCAACAGGGACAGA 59.928 57.895 0.00 0.00 0.00 3.41
1688 1727 6.375174 GGAGCAAAGCAAATCCCAAATTATTT 59.625 34.615 0.00 0.00 0.00 1.40
1733 1793 4.521639 AGCATGATCGCCAACATAATTCAT 59.478 37.500 0.00 0.00 0.00 2.57
1760 1820 9.270576 CATTCAAATTTGTTTCTCAGATAGACG 57.729 33.333 17.47 0.00 32.51 4.18
1808 1869 5.133221 AGCTAACAACCTGACAAGTGAATT 58.867 37.500 0.00 0.00 0.00 2.17
1817 1878 4.745649 AGTTCGATAGCTAACAACCTGAC 58.254 43.478 0.00 0.00 0.00 3.51
1823 1884 3.441222 TGACCGAGTTCGATAGCTAACAA 59.559 43.478 0.00 0.00 43.02 2.83
1921 1982 3.181426 TGAGGAATAGTATGCCCCGTCTA 60.181 47.826 3.20 0.00 0.00 2.59
1922 1983 2.249139 GAGGAATAGTATGCCCCGTCT 58.751 52.381 3.20 0.00 0.00 4.18
2090 2152 5.151454 TCAAAAGGGGATACAACCACATTT 58.849 37.500 0.00 0.00 35.11 2.32
2112 2174 9.237846 GCATTTCTTTTGCCATAAATACTACTC 57.762 33.333 0.00 0.00 33.95 2.59
2114 2176 9.237846 GAGCATTTCTTTTGCCATAAATACTAC 57.762 33.333 0.00 0.00 41.06 2.73
2235 2299 2.888834 AAGCGTTGTTTGGCTTCAAT 57.111 40.000 0.00 0.00 45.86 2.57
2246 2310 0.738389 CACAACCTCCAAAGCGTTGT 59.262 50.000 11.48 5.03 42.54 3.32
2332 2396 6.803154 ATTTAGTGCTGAAAACAGGAGTAC 57.197 37.500 0.00 0.00 29.99 2.73
2336 2400 7.446931 TGTGATAATTTAGTGCTGAAAACAGGA 59.553 33.333 0.00 0.00 0.00 3.86
2475 2539 6.482308 ACATTGTGAAGTACTTAGAACACCAC 59.518 38.462 17.71 14.99 0.00 4.16
2481 2546 9.653287 CAGGATTACATTGTGAAGTACTTAGAA 57.347 33.333 8.42 2.12 0.00 2.10
2512 2577 6.204108 GCTAACCACTAACATAACACAACAGT 59.796 38.462 0.00 0.00 0.00 3.55
2593 2658 6.566197 AAAACCAGTGCAAATGAAACAAAA 57.434 29.167 1.78 0.00 30.28 2.44
2640 2705 9.632638 AGATATAAGAGGCTGCAAGAATAAAAA 57.367 29.630 0.50 0.00 34.07 1.94
2649 2714 3.745480 GCACCAGATATAAGAGGCTGCAA 60.745 47.826 0.50 0.00 32.33 4.08
2760 2828 7.426929 AACAGTCAACTATTCAAGACATCAC 57.573 36.000 0.00 0.00 33.56 3.06
2915 2983 2.287788 GCTGCAGTGTGCTGTTGTTATT 60.288 45.455 16.64 0.00 45.31 1.40
2928 2996 4.690184 TCATATTTCAACTGCTGCAGTG 57.310 40.909 33.53 25.37 44.62 3.66
3125 3193 9.270640 AGTAAATGCATGCTCTATCTAGAAAAG 57.729 33.333 20.33 0.00 0.00 2.27
3194 3262 6.673154 TGCATATGATTAGCACATCATAGC 57.327 37.500 17.90 18.72 45.28 2.97
3340 3408 3.679980 CACTTAGAGGTTCACCAACATCG 59.320 47.826 0.00 0.00 46.01 3.84
3496 3564 4.569564 GGAACGGGTATTACAAGTAGCAAG 59.430 45.833 0.00 0.00 0.00 4.01
3551 3619 5.892348 AGGTTGAGACACTTAATTTGGGAT 58.108 37.500 0.00 0.00 0.00 3.85
3553 3621 6.715264 ACTAAGGTTGAGACACTTAATTTGGG 59.285 38.462 0.00 0.00 0.00 4.12
3554 3622 7.745620 ACTAAGGTTGAGACACTTAATTTGG 57.254 36.000 0.00 0.00 0.00 3.28
3555 3623 9.268268 TGTACTAAGGTTGAGACACTTAATTTG 57.732 33.333 0.00 0.00 0.00 2.32
3556 3624 9.841295 TTGTACTAAGGTTGAGACACTTAATTT 57.159 29.630 0.00 0.00 0.00 1.82
3559 3627 8.015185 AGTTGTACTAAGGTTGAGACACTTAA 57.985 34.615 0.00 0.00 0.00 1.85
3562 3630 6.481434 AAGTTGTACTAAGGTTGAGACACT 57.519 37.500 0.00 0.00 0.00 3.55
3563 3631 8.828688 ATAAAGTTGTACTAAGGTTGAGACAC 57.171 34.615 0.00 0.00 0.00 3.67
3564 3632 9.918630 GTATAAAGTTGTACTAAGGTTGAGACA 57.081 33.333 0.00 0.00 0.00 3.41
3587 3655 9.694137 GTCTCAACTTTGTACTAACTTGAGTAT 57.306 33.333 24.16 0.47 37.16 2.12
3589 3657 7.491696 GTGTCTCAACTTTGTACTAACTTGAGT 59.508 37.037 24.16 6.21 37.16 3.41
3592 3660 7.772332 AGTGTCTCAACTTTGTACTAACTTG 57.228 36.000 0.00 0.00 0.00 3.16
3600 3668 7.776030 TCCCAAAATAAGTGTCTCAACTTTGTA 59.224 33.333 0.00 0.00 40.77 2.41
3601 3669 6.605594 TCCCAAAATAAGTGTCTCAACTTTGT 59.394 34.615 0.00 0.00 40.77 2.83
3602 3670 6.918022 GTCCCAAAATAAGTGTCTCAACTTTG 59.082 38.462 0.00 0.00 40.77 2.77
3603 3671 6.238648 CGTCCCAAAATAAGTGTCTCAACTTT 60.239 38.462 0.00 0.00 40.77 2.66
3604 3672 5.238650 CGTCCCAAAATAAGTGTCTCAACTT 59.761 40.000 0.00 0.00 42.89 2.66
3605 3673 4.755123 CGTCCCAAAATAAGTGTCTCAACT 59.245 41.667 0.00 0.00 0.00 3.16
3606 3674 4.083484 CCGTCCCAAAATAAGTGTCTCAAC 60.083 45.833 0.00 0.00 0.00 3.18
3607 3675 4.069304 CCGTCCCAAAATAAGTGTCTCAA 58.931 43.478 0.00 0.00 0.00 3.02
3608 3676 3.325425 TCCGTCCCAAAATAAGTGTCTCA 59.675 43.478 0.00 0.00 0.00 3.27
3609 3677 3.933332 CTCCGTCCCAAAATAAGTGTCTC 59.067 47.826 0.00 0.00 0.00 3.36
3610 3678 3.307480 CCTCCGTCCCAAAATAAGTGTCT 60.307 47.826 0.00 0.00 0.00 3.41
3611 3679 3.007635 CCTCCGTCCCAAAATAAGTGTC 58.992 50.000 0.00 0.00 0.00 3.67
3612 3680 2.290705 CCCTCCGTCCCAAAATAAGTGT 60.291 50.000 0.00 0.00 0.00 3.55
3613 3681 2.026636 TCCCTCCGTCCCAAAATAAGTG 60.027 50.000 0.00 0.00 0.00 3.16
3614 3682 2.238898 CTCCCTCCGTCCCAAAATAAGT 59.761 50.000 0.00 0.00 0.00 2.24
3615 3683 2.238898 ACTCCCTCCGTCCCAAAATAAG 59.761 50.000 0.00 0.00 0.00 1.73
3616 3684 2.271777 ACTCCCTCCGTCCCAAAATAA 58.728 47.619 0.00 0.00 0.00 1.40
3617 3685 1.961133 ACTCCCTCCGTCCCAAAATA 58.039 50.000 0.00 0.00 0.00 1.40
3618 3686 1.558294 GTACTCCCTCCGTCCCAAAAT 59.442 52.381 0.00 0.00 0.00 1.82
3619 3687 0.978907 GTACTCCCTCCGTCCCAAAA 59.021 55.000 0.00 0.00 0.00 2.44
3620 3688 0.115745 AGTACTCCCTCCGTCCCAAA 59.884 55.000 0.00 0.00 0.00 3.28
3621 3689 1.002069 TAGTACTCCCTCCGTCCCAA 58.998 55.000 0.00 0.00 0.00 4.12
3622 3690 1.002069 TTAGTACTCCCTCCGTCCCA 58.998 55.000 0.00 0.00 0.00 4.37
3623 3691 2.378378 ATTAGTACTCCCTCCGTCCC 57.622 55.000 0.00 0.00 0.00 4.46
3624 3692 3.825585 CCTAATTAGTACTCCCTCCGTCC 59.174 52.174 11.50 0.00 0.00 4.79
3625 3693 4.723309 TCCTAATTAGTACTCCCTCCGTC 58.277 47.826 11.50 0.00 0.00 4.79
3626 3694 4.803329 TCCTAATTAGTACTCCCTCCGT 57.197 45.455 11.50 0.00 0.00 4.69
3627 3695 4.523558 CCTTCCTAATTAGTACTCCCTCCG 59.476 50.000 11.50 0.00 0.00 4.63
3628 3696 5.713807 TCCTTCCTAATTAGTACTCCCTCC 58.286 45.833 11.50 0.00 0.00 4.30
3629 3697 7.672122 TTTCCTTCCTAATTAGTACTCCCTC 57.328 40.000 11.50 0.00 0.00 4.30
3630 3698 8.640033 AATTTCCTTCCTAATTAGTACTCCCT 57.360 34.615 11.50 0.00 0.00 4.20
3631 3699 9.339850 GAAATTTCCTTCCTAATTAGTACTCCC 57.660 37.037 11.50 0.00 0.00 4.30
3632 3700 9.901172 TGAAATTTCCTTCCTAATTAGTACTCC 57.099 33.333 15.48 0.00 0.00 3.85
3724 3793 5.308825 AGGACTGGACAACAAGTCTAATTG 58.691 41.667 0.00 0.00 46.72 2.32
3736 3805 2.891580 GAGTACACTGAGGACTGGACAA 59.108 50.000 0.00 0.00 0.00 3.18
4092 4162 9.295825 TGATACAACTTCAAAAGGTCATACAAT 57.704 29.630 0.00 0.00 0.00 2.71
4372 4442 4.653341 ACCAGAATCTCAATACAGAGGGAG 59.347 45.833 0.00 0.00 36.30 4.30
4453 4523 4.837896 TGTTTACACAAAATGCCGATCA 57.162 36.364 0.00 0.00 0.00 2.92
4737 4807 5.163205 CCACATACCCATATTCCAACTCAGA 60.163 44.000 0.00 0.00 0.00 3.27
4763 4833 1.673665 GGACTTGGGCTGCTCAGTG 60.674 63.158 1.00 2.56 0.00 3.66
5073 5143 1.468736 GGCATTCAGCTTGCTTACTGC 60.469 52.381 8.68 9.62 44.79 4.40
5165 5235 2.810439 TTATTTTGTTTGGCGCTGCT 57.190 40.000 7.64 0.00 0.00 4.24
5170 5240 6.033966 GGAAGGAGTATTATTTTGTTTGGCG 58.966 40.000 0.00 0.00 0.00 5.69
5191 5261 3.068560 CGACACTTATTTTGGGACGGAA 58.931 45.455 0.00 0.00 0.00 4.30
5295 5434 0.036875 GGGCACTTTCTGGTAGCAGT 59.963 55.000 20.76 0.06 0.00 4.40
5441 5580 0.326427 AGGCAGCTTCTCCTCCAGAT 60.326 55.000 0.00 0.00 0.00 2.90
5715 5874 0.445436 CTCAAGCTGGACGTTCATGC 59.555 55.000 0.00 3.40 0.00 4.06
5906 6071 2.669113 CGACGATGACAACCGGAAGTTA 60.669 50.000 9.46 2.77 36.18 2.24
6106 6447 1.069227 CGAACTTTTTAGGCTGCGCTT 60.069 47.619 9.73 0.00 0.00 4.68
6125 6468 2.094338 GTGTAACCCACTAAGGAGTCCG 60.094 54.545 2.76 0.00 41.11 4.79
6451 7580 7.074507 GCATAGAAATGATGCTAATCTCAGG 57.925 40.000 0.42 0.00 45.14 3.86
6567 7700 2.550606 GGAACTGTTACCGATTGCAACA 59.449 45.455 0.00 0.00 0.00 3.33
6570 7703 2.851263 AGGAACTGTTACCGATTGCA 57.149 45.000 0.00 0.00 37.18 4.08
6598 7731 0.923358 ACAAGTTTGTGGAGGACCCA 59.077 50.000 0.00 0.00 44.25 4.51
6986 8131 3.004524 GCTACTCGGAGTCGGTAATGATT 59.995 47.826 15.05 0.00 36.95 2.57


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

AutoCloner maintained by Alex Coulton.