Multiple sequence alignment - TraesCS2B01G004300

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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 TraesCS2B01G004300 chr2B 100.000 2369 0 0 1 2369 2334867 2337235 0.000000e+00 4375.0
1 TraesCS2B01G004300 chr2B 96.169 522 19 1 1 521 716171257 716171778 0.000000e+00 852.0
2 TraesCS2B01G004300 chr2B 96.169 522 19 1 1 521 782813257 782813778 0.000000e+00 852.0
3 TraesCS2B01G004300 chr2B 95.977 522 20 1 1 521 782938275 782938796 0.000000e+00 846.0
4 TraesCS2B01G004300 chr2A 87.277 1234 51 27 977 2141 5405269 5404073 0.000000e+00 1312.0
5 TraesCS2B01G004300 chr2A 84.520 323 38 3 1795 2105 70125451 70125129 2.290000e-80 309.0
6 TraesCS2B01G004300 chr2A 93.750 192 10 1 519 710 5407172 5406983 1.070000e-73 287.0
7 TraesCS2B01G004300 chr2A 94.186 86 4 1 873 958 5405339 5405255 1.910000e-26 130.0
8 TraesCS2B01G004300 chr2A 93.056 72 5 0 810 881 5405764 5405693 3.220000e-19 106.0
9 TraesCS2B01G004300 chr3B 96.552 522 17 1 1 521 26802153 26802674 0.000000e+00 863.0
10 TraesCS2B01G004300 chr3B 96.360 522 18 1 1 521 675229603 675229082 0.000000e+00 857.0
11 TraesCS2B01G004300 chr3B 92.308 221 15 2 2146 2365 392770719 392770500 1.770000e-81 313.0
12 TraesCS2B01G004300 chr6B 96.360 522 18 1 1 521 84618555 84618034 0.000000e+00 857.0
13 TraesCS2B01G004300 chr6B 77.642 653 68 30 977 1570 9759846 9759213 2.270000e-85 326.0
14 TraesCS2B01G004300 chr6B 93.213 221 14 1 2146 2366 686178867 686179086 8.170000e-85 324.0
15 TraesCS2B01G004300 chr6B 86.755 151 13 5 654 804 9760195 9760052 6.780000e-36 161.0
16 TraesCS2B01G004300 chr6B 95.385 65 3 0 893 957 101702774 101702838 1.160000e-18 104.0
17 TraesCS2B01G004300 chr6B 91.781 73 6 0 887 959 9759903 9759831 4.170000e-18 102.0
18 TraesCS2B01G004300 chr6B 94.000 50 3 0 977 1026 101702825 101702874 2.520000e-10 76.8
19 TraesCS2B01G004300 chr1B 96.169 522 19 1 1 521 35746408 35745887 0.000000e+00 852.0
20 TraesCS2B01G004300 chr1B 92.308 221 15 1 2146 2366 17377525 17377743 1.770000e-81 313.0
21 TraesCS2B01G004300 chr1B 80.000 315 46 5 1805 2105 393532613 393532924 1.430000e-52 217.0
22 TraesCS2B01G004300 chr7B 95.977 522 20 1 1 521 510814809 510814288 0.000000e+00 846.0
23 TraesCS2B01G004300 chr7B 92.760 221 13 2 2147 2366 15100952 15101170 1.370000e-82 316.0
24 TraesCS2B01G004300 chr7B 84.877 324 37 3 1795 2106 648720140 648719817 1.370000e-82 316.0
25 TraesCS2B01G004300 chr7B 92.273 220 15 1 2146 2365 37025227 37025444 6.360000e-81 311.0
26 TraesCS2B01G004300 chr5B 96.146 519 19 1 1 518 536819049 536819567 0.000000e+00 846.0
27 TraesCS2B01G004300 chr5B 93.750 224 12 2 2146 2367 355402861 355402638 3.770000e-88 335.0
28 TraesCS2B01G004300 chr5B 92.760 221 15 1 2146 2366 694312558 694312339 3.800000e-83 318.0
29 TraesCS2B01G004300 chr4D 87.708 480 30 12 977 1429 486812279 486811802 1.250000e-147 532.0
30 TraesCS2B01G004300 chr4D 93.333 150 5 2 810 959 486812408 486812264 1.430000e-52 217.0
31 TraesCS2B01G004300 chr6A 78.892 668 63 38 977 1570 54201617 54200954 4.780000e-102 381.0
32 TraesCS2B01G004300 chr6A 87.179 117 4 6 841 957 54201709 54201604 3.200000e-24 122.0
33 TraesCS2B01G004300 chr6A 84.559 136 5 7 825 959 99503941 99504061 1.150000e-23 121.0
34 TraesCS2B01G004300 chr7D 81.725 487 46 10 977 1421 565671365 565670880 1.340000e-97 366.0
35 TraesCS2B01G004300 chr7D 81.169 154 21 6 810 959 565671499 565671350 1.490000e-22 117.0
36 TraesCS2B01G004300 chr4A 85.494 324 35 3 1795 2106 125037631 125037308 6.310000e-86 327.0
37 TraesCS2B01G004300 chrUn 77.677 663 59 30 977 1570 70140798 70141440 2.940000e-84 322.0
38 TraesCS2B01G004300 chrUn 77.821 257 37 15 703 957 70140573 70140811 8.830000e-30 141.0
39 TraesCS2B01G004300 chr5A 84.877 324 37 3 1795 2106 649443189 649443512 1.370000e-82 316.0
40 TraesCS2B01G004300 chr4B 92.727 220 15 1 2146 2365 618349074 618348856 1.370000e-82 316.0
41 TraesCS2B01G004300 chr2D 92.308 221 14 2 2146 2365 526224545 526224763 6.360000e-81 311.0
42 TraesCS2B01G004300 chr1A 79.495 317 49 8 1805 2109 364648393 364648705 6.630000e-51 211.0
43 TraesCS2B01G004300 chr6D 88.742 151 10 5 654 804 82695912 82696055 6.730000e-41 178.0
44 TraesCS2B01G004300 chr6D 82.500 160 15 8 812 959 82696118 82696276 6.870000e-26 128.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2B01G004300 chr2B 2334867 2337235 2368 False 4375.00 4375 100.00000 1 2369 1 chr2B.!!$F1 2368
1 TraesCS2B01G004300 chr2B 716171257 716171778 521 False 852.00 852 96.16900 1 521 1 chr2B.!!$F2 520
2 TraesCS2B01G004300 chr2B 782813257 782813778 521 False 852.00 852 96.16900 1 521 1 chr2B.!!$F3 520
3 TraesCS2B01G004300 chr2B 782938275 782938796 521 False 846.00 846 95.97700 1 521 1 chr2B.!!$F4 520
4 TraesCS2B01G004300 chr2A 5404073 5407172 3099 True 458.75 1312 92.06725 519 2141 4 chr2A.!!$R2 1622
5 TraesCS2B01G004300 chr3B 26802153 26802674 521 False 863.00 863 96.55200 1 521 1 chr3B.!!$F1 520
6 TraesCS2B01G004300 chr3B 675229082 675229603 521 True 857.00 857 96.36000 1 521 1 chr3B.!!$R2 520
7 TraesCS2B01G004300 chr6B 84618034 84618555 521 True 857.00 857 96.36000 1 521 1 chr6B.!!$R1 520
8 TraesCS2B01G004300 chr1B 35745887 35746408 521 True 852.00 852 96.16900 1 521 1 chr1B.!!$R1 520
9 TraesCS2B01G004300 chr7B 510814288 510814809 521 True 846.00 846 95.97700 1 521 1 chr7B.!!$R1 520
10 TraesCS2B01G004300 chr5B 536819049 536819567 518 False 846.00 846 96.14600 1 518 1 chr5B.!!$F1 517
11 TraesCS2B01G004300 chr4D 486811802 486812408 606 True 374.50 532 90.52050 810 1429 2 chr4D.!!$R1 619
12 TraesCS2B01G004300 chr6A 54200954 54201709 755 True 251.50 381 83.03550 841 1570 2 chr6A.!!$R1 729
13 TraesCS2B01G004300 chr7D 565670880 565671499 619 True 241.50 366 81.44700 810 1421 2 chr7D.!!$R1 611
14 TraesCS2B01G004300 chrUn 70140573 70141440 867 False 231.50 322 77.74900 703 1570 2 chrUn.!!$F1 867

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
986 2479 0.032815 TTGCGTGGATCGTGTCTTGA 59.967 50.0 0.0 0.0 42.13 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2289 3923 0.036022 TGGATGACACGTGGCATTCA 59.964 50.0 36.64 36.64 46.54 2.57 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
188 189 6.829229 TGACCTCTATTTCTCGTAAAGTGA 57.171 37.500 0.00 0.00 0.00 3.41
196 197 2.333926 TCTCGTAAAGTGATTGTGGCG 58.666 47.619 0.00 0.00 0.00 5.69
287 288 2.889852 CGGGGCTACTCTAAAAGACAC 58.110 52.381 0.00 0.00 0.00 3.67
356 357 7.014134 ACACCATCATTTCTGTTGTGTTTCATA 59.986 33.333 0.00 0.00 0.00 2.15
421 423 4.000988 GCGGAATGAACTCCTAGAACAAA 58.999 43.478 0.00 0.00 32.82 2.83
525 527 4.241590 AGTTGATTTCAAATGCTTCGCA 57.758 36.364 0.00 0.00 44.86 5.10
553 555 0.533951 CCCTTTGCAAATCTCTGGGC 59.466 55.000 17.68 0.00 0.00 5.36
554 556 0.533951 CCTTTGCAAATCTCTGGGCC 59.466 55.000 13.23 0.00 0.00 5.80
594 596 1.472376 CGTCTCCTCAGATTTGGCTCC 60.472 57.143 0.00 0.00 0.00 4.70
599 601 1.478288 CCTCAGATTTGGCTCCCCATC 60.478 57.143 0.00 0.00 41.78 3.51
612 614 0.108615 CCCCATCGCGCTAGAATAGG 60.109 60.000 5.56 0.57 39.70 2.57
631 633 0.183731 GGAGGGGCAGTTAATGAGGG 59.816 60.000 0.00 0.00 0.00 4.30
646 648 8.381636 AGTTAATGAGGGAATCAGAGATATTGG 58.618 37.037 0.00 0.00 42.53 3.16
684 686 6.967199 GCTTAATAACTGCCTGTGTCAATTAC 59.033 38.462 0.00 0.00 0.00 1.89
687 689 1.086696 CTGCCTGTGTCAATTACGGG 58.913 55.000 0.88 0.88 45.48 5.28
699 701 9.887629 TGTGTCAATTACGGGATTAGTAATTTA 57.112 29.630 10.50 2.69 46.51 1.40
727 1799 8.311650 TCAGAAAATAGCCGCTTATTTATCTC 57.688 34.615 0.00 0.00 33.32 2.75
787 1859 7.125356 ACCCGTGAGAATAGGAAGTAGTAAAAT 59.875 37.037 0.00 0.00 0.00 1.82
959 2452 9.653287 TTACATTTCTTCGTGTCTTGATAATCT 57.347 29.630 0.00 0.00 0.00 2.40
960 2453 8.553459 ACATTTCTTCGTGTCTTGATAATCTT 57.447 30.769 0.00 0.00 0.00 2.40
961 2454 8.660373 ACATTTCTTCGTGTCTTGATAATCTTC 58.340 33.333 0.00 0.00 0.00 2.87
962 2455 8.877779 CATTTCTTCGTGTCTTGATAATCTTCT 58.122 33.333 0.00 0.00 0.00 2.85
963 2456 8.833231 TTTCTTCGTGTCTTGATAATCTTCTT 57.167 30.769 0.00 0.00 0.00 2.52
964 2457 8.833231 TTCTTCGTGTCTTGATAATCTTCTTT 57.167 30.769 0.00 0.00 0.00 2.52
965 2458 8.833231 TCTTCGTGTCTTGATAATCTTCTTTT 57.167 30.769 0.00 0.00 0.00 2.27
966 2459 9.273016 TCTTCGTGTCTTGATAATCTTCTTTTT 57.727 29.630 0.00 0.00 0.00 1.94
983 2476 1.588674 TTTTTGCGTGGATCGTGTCT 58.411 45.000 0.00 0.00 42.13 3.41
984 2477 1.588674 TTTTGCGTGGATCGTGTCTT 58.411 45.000 0.00 0.00 42.13 3.01
985 2478 0.865111 TTTGCGTGGATCGTGTCTTG 59.135 50.000 0.00 0.00 42.13 3.02
986 2479 0.032815 TTGCGTGGATCGTGTCTTGA 59.967 50.000 0.00 0.00 42.13 3.02
987 2480 0.246360 TGCGTGGATCGTGTCTTGAT 59.754 50.000 0.00 0.00 42.13 2.57
988 2481 1.474879 TGCGTGGATCGTGTCTTGATA 59.525 47.619 0.00 0.00 42.13 2.15
989 2482 2.094442 TGCGTGGATCGTGTCTTGATAA 60.094 45.455 0.00 0.00 42.13 1.75
990 2483 3.123804 GCGTGGATCGTGTCTTGATAAT 58.876 45.455 0.00 0.00 42.13 1.28
991 2484 3.182572 GCGTGGATCGTGTCTTGATAATC 59.817 47.826 0.00 0.00 42.13 1.75
1026 2519 1.628846 GTCCTCAAGGTTCCAAGCCTA 59.371 52.381 0.00 0.00 34.81 3.93
1072 2573 1.078823 TCCTCTTGGCTCCTGGTAAGA 59.921 52.381 0.00 0.12 0.00 2.10
1145 2667 5.263599 TGTGAAATTCATACTCCATGCCTT 58.736 37.500 0.00 0.00 34.35 4.35
1250 2781 0.892814 GCCAAGACTTGCAAGGAGCT 60.893 55.000 29.18 19.61 45.94 4.09
1287 2818 2.224769 CCCTTTTAGGTGCCTGACTGAA 60.225 50.000 0.12 0.00 31.93 3.02
1429 2981 2.163818 TGTTGAAACTAGGGCGTGAG 57.836 50.000 0.00 0.00 0.00 3.51
1437 3013 1.888512 ACTAGGGCGTGAGTCGTTTTA 59.111 47.619 0.00 0.00 42.13 1.52
1442 3018 3.566742 AGGGCGTGAGTCGTTTTAAAAAT 59.433 39.130 1.31 0.00 42.13 1.82
1651 3244 0.179020 TGGTCTTGGTGCAAGGAGTG 60.179 55.000 0.00 0.00 41.33 3.51
1665 3258 1.376466 GAGTGGCCCTCAAGAAGCA 59.624 57.895 14.36 0.00 40.17 3.91
1666 3259 0.957888 GAGTGGCCCTCAAGAAGCAC 60.958 60.000 14.36 0.00 40.17 4.40
1667 3260 1.973812 GTGGCCCTCAAGAAGCACC 60.974 63.158 0.00 0.00 0.00 5.01
1668 3261 2.747855 GGCCCTCAAGAAGCACCG 60.748 66.667 0.00 0.00 0.00 4.94
1669 3262 3.435186 GCCCTCAAGAAGCACCGC 61.435 66.667 0.00 0.00 0.00 5.68
1670 3263 2.747855 CCCTCAAGAAGCACCGCC 60.748 66.667 0.00 0.00 0.00 6.13
1671 3264 2.032528 CCTCAAGAAGCACCGCCA 59.967 61.111 0.00 0.00 0.00 5.69
1672 3265 2.037136 CCTCAAGAAGCACCGCCAG 61.037 63.158 0.00 0.00 0.00 4.85
1673 3266 2.032528 TCAAGAAGCACCGCCAGG 59.967 61.111 0.00 0.00 45.13 4.45
1674 3267 2.032528 CAAGAAGCACCGCCAGGA 59.967 61.111 0.00 0.00 41.02 3.86
1788 3404 0.811616 ATCAGACGAATTGCCGGAGC 60.812 55.000 5.05 0.00 40.48 4.70
1806 3422 1.904990 GCACTTCCTCCCTCCTGGAC 61.905 65.000 0.00 0.00 38.61 4.02
1807 3423 1.305381 ACTTCCTCCCTCCTGGACG 60.305 63.158 0.00 0.00 38.61 4.79
1858 3485 0.462375 CCGTCCCCGACATGAACATA 59.538 55.000 0.00 0.00 35.63 2.29
1861 3488 2.607635 CGTCCCCGACATGAACATAAAG 59.392 50.000 0.00 0.00 35.63 1.85
1880 3507 8.378565 ACATAAAGATCAAGGTTGAAGAAGAGA 58.621 33.333 0.00 0.00 41.13 3.10
1946 3573 2.584391 GCGACACCACCTCCTCCTT 61.584 63.158 0.00 0.00 0.00 3.36
1949 3576 2.266055 CACCACCTCCTCCTTCGC 59.734 66.667 0.00 0.00 0.00 4.70
1968 3595 3.851128 GCCGCCTCTACCTCCCAC 61.851 72.222 0.00 0.00 0.00 4.61
1969 3596 3.528370 CCGCCTCTACCTCCCACG 61.528 72.222 0.00 0.00 0.00 4.94
1970 3597 4.208686 CGCCTCTACCTCCCACGC 62.209 72.222 0.00 0.00 0.00 5.34
1971 3598 3.851128 GCCTCTACCTCCCACGCC 61.851 72.222 0.00 0.00 0.00 5.68
1972 3599 2.363795 CCTCTACCTCCCACGCCA 60.364 66.667 0.00 0.00 0.00 5.69
1973 3600 2.722201 CCTCTACCTCCCACGCCAC 61.722 68.421 0.00 0.00 0.00 5.01
1995 3622 0.749091 CCTGATCCTGCGCCAATTCA 60.749 55.000 4.18 2.26 0.00 2.57
1998 3625 2.051804 GATCCTGCGCCAATTCACCG 62.052 60.000 4.18 0.00 0.00 4.94
2141 3775 4.697798 TCCTTTTGGGGGATTTGATGATT 58.302 39.130 0.00 0.00 40.87 2.57
2142 3776 4.470664 TCCTTTTGGGGGATTTGATGATTG 59.529 41.667 0.00 0.00 40.87 2.67
2143 3777 4.470664 CCTTTTGGGGGATTTGATGATTGA 59.529 41.667 0.00 0.00 35.46 2.57
2144 3778 5.045724 CCTTTTGGGGGATTTGATGATTGAA 60.046 40.000 0.00 0.00 35.46 2.69
2145 3779 6.445451 TTTTGGGGGATTTGATGATTGAAA 57.555 33.333 0.00 0.00 0.00 2.69
2146 3780 6.445451 TTTGGGGGATTTGATGATTGAAAA 57.555 33.333 0.00 0.00 0.00 2.29
2147 3781 6.445451 TTGGGGGATTTGATGATTGAAAAA 57.555 33.333 0.00 0.00 0.00 1.94
2183 3817 7.906199 AGACTAGGTCTCATATAAAGCAAGT 57.094 36.000 0.00 0.00 38.71 3.16
2184 3818 7.721402 AGACTAGGTCTCATATAAAGCAAGTG 58.279 38.462 0.00 0.00 38.71 3.16
2185 3819 7.561722 AGACTAGGTCTCATATAAAGCAAGTGA 59.438 37.037 0.00 0.00 38.71 3.41
2186 3820 7.721402 ACTAGGTCTCATATAAAGCAAGTGAG 58.279 38.462 0.00 0.00 38.07 3.51
2187 3821 6.798427 AGGTCTCATATAAAGCAAGTGAGA 57.202 37.500 0.00 0.00 41.99 3.27
2190 3824 5.918608 TCTCATATAAAGCAAGTGAGACCC 58.081 41.667 0.00 0.00 40.06 4.46
2191 3825 4.693283 TCATATAAAGCAAGTGAGACCCG 58.307 43.478 0.00 0.00 0.00 5.28
2192 3826 1.739067 ATAAAGCAAGTGAGACCCGC 58.261 50.000 0.00 0.00 0.00 6.13
2193 3827 0.321298 TAAAGCAAGTGAGACCCGCC 60.321 55.000 0.00 0.00 0.00 6.13
2194 3828 3.553095 AAGCAAGTGAGACCCGCCC 62.553 63.158 0.00 0.00 0.00 6.13
2195 3829 4.021925 GCAAGTGAGACCCGCCCT 62.022 66.667 0.00 0.00 0.00 5.19
2196 3830 2.046892 CAAGTGAGACCCGCCCTG 60.047 66.667 0.00 0.00 0.00 4.45
2197 3831 2.203788 AAGTGAGACCCGCCCTGA 60.204 61.111 0.00 0.00 0.00 3.86
2198 3832 1.613630 AAGTGAGACCCGCCCTGAT 60.614 57.895 0.00 0.00 0.00 2.90
2199 3833 1.903877 AAGTGAGACCCGCCCTGATG 61.904 60.000 0.00 0.00 0.00 3.07
2200 3834 3.083349 TGAGACCCGCCCTGATGG 61.083 66.667 0.00 0.00 37.09 3.51
2201 3835 2.764128 GAGACCCGCCCTGATGGA 60.764 66.667 0.00 0.00 35.39 3.41
2202 3836 2.040464 AGACCCGCCCTGATGGAT 60.040 61.111 0.00 0.00 35.39 3.41
2203 3837 2.111878 GACCCGCCCTGATGGATG 59.888 66.667 0.00 0.00 35.39 3.51
2204 3838 2.366837 ACCCGCCCTGATGGATGA 60.367 61.111 0.00 0.00 35.39 2.92
2205 3839 2.111878 CCCGCCCTGATGGATGAC 59.888 66.667 0.00 0.00 35.39 3.06
2206 3840 2.745308 CCCGCCCTGATGGATGACA 61.745 63.158 0.00 0.00 35.39 3.58
2207 3841 1.524621 CCGCCCTGATGGATGACAC 60.525 63.158 0.00 0.00 35.39 3.67
2208 3842 1.221566 CGCCCTGATGGATGACACA 59.778 57.895 0.00 0.00 35.39 3.72
2209 3843 0.179037 CGCCCTGATGGATGACACAT 60.179 55.000 0.00 0.00 35.39 3.21
2210 3844 1.315690 GCCCTGATGGATGACACATG 58.684 55.000 0.00 0.00 35.39 3.21
2211 3845 1.977056 CCCTGATGGATGACACATGG 58.023 55.000 0.00 0.00 35.39 3.66
2212 3846 1.315690 CCTGATGGATGACACATGGC 58.684 55.000 0.00 0.00 34.57 4.40
2213 3847 1.409101 CCTGATGGATGACACATGGCA 60.409 52.381 0.00 0.00 37.54 4.92
2215 3849 2.956333 CTGATGGATGACACATGGCATT 59.044 45.455 0.78 0.00 45.42 3.56
2216 3850 2.953648 TGATGGATGACACATGGCATTC 59.046 45.455 0.78 0.00 45.42 2.67
2217 3851 2.510928 TGGATGACACATGGCATTCA 57.489 45.000 4.43 4.43 46.54 2.57
2218 3852 2.093890 TGGATGACACATGGCATTCAC 58.906 47.619 4.43 0.00 43.95 3.18
2219 3853 2.291089 TGGATGACACATGGCATTCACT 60.291 45.455 4.43 0.00 43.95 3.41
2220 3854 3.054508 TGGATGACACATGGCATTCACTA 60.055 43.478 4.43 0.00 43.95 2.74
2221 3855 3.947196 GGATGACACATGGCATTCACTAA 59.053 43.478 0.78 0.00 45.42 2.24
2222 3856 4.581824 GGATGACACATGGCATTCACTAAT 59.418 41.667 0.78 0.00 45.42 1.73
2223 3857 5.278169 GGATGACACATGGCATTCACTAATC 60.278 44.000 0.78 0.00 45.42 1.75
2224 3858 4.587891 TGACACATGGCATTCACTAATCA 58.412 39.130 0.00 0.00 0.00 2.57
2225 3859 4.395854 TGACACATGGCATTCACTAATCAC 59.604 41.667 0.00 0.00 0.00 3.06
2226 3860 4.334552 ACACATGGCATTCACTAATCACA 58.665 39.130 0.00 0.00 0.00 3.58
2227 3861 4.766373 ACACATGGCATTCACTAATCACAA 59.234 37.500 0.00 0.00 0.00 3.33
2228 3862 5.243507 ACACATGGCATTCACTAATCACAAA 59.756 36.000 0.00 0.00 0.00 2.83
2229 3863 5.803461 CACATGGCATTCACTAATCACAAAG 59.197 40.000 0.00 0.00 0.00 2.77
2230 3864 4.439305 TGGCATTCACTAATCACAAAGC 57.561 40.909 0.00 0.00 0.00 3.51
2231 3865 3.825585 TGGCATTCACTAATCACAAAGCA 59.174 39.130 0.00 0.00 0.00 3.91
2232 3866 4.463539 TGGCATTCACTAATCACAAAGCAT 59.536 37.500 0.00 0.00 0.00 3.79
2233 3867 5.039333 GGCATTCACTAATCACAAAGCATC 58.961 41.667 0.00 0.00 0.00 3.91
2234 3868 5.163581 GGCATTCACTAATCACAAAGCATCT 60.164 40.000 0.00 0.00 0.00 2.90
2235 3869 6.038603 GGCATTCACTAATCACAAAGCATCTA 59.961 38.462 0.00 0.00 0.00 1.98
2236 3870 7.415541 GGCATTCACTAATCACAAAGCATCTAA 60.416 37.037 0.00 0.00 0.00 2.10
2237 3871 8.133627 GCATTCACTAATCACAAAGCATCTAAT 58.866 33.333 0.00 0.00 0.00 1.73
2238 3872 9.661187 CATTCACTAATCACAAAGCATCTAATC 57.339 33.333 0.00 0.00 0.00 1.75
2239 3873 9.624373 ATTCACTAATCACAAAGCATCTAATCT 57.376 29.630 0.00 0.00 0.00 2.40
2240 3874 8.654230 TCACTAATCACAAAGCATCTAATCTC 57.346 34.615 0.00 0.00 0.00 2.75
2241 3875 8.481314 TCACTAATCACAAAGCATCTAATCTCT 58.519 33.333 0.00 0.00 0.00 3.10
2242 3876 8.763356 CACTAATCACAAAGCATCTAATCTCTC 58.237 37.037 0.00 0.00 0.00 3.20
2243 3877 8.703743 ACTAATCACAAAGCATCTAATCTCTCT 58.296 33.333 0.00 0.00 0.00 3.10
2244 3878 9.195411 CTAATCACAAAGCATCTAATCTCTCTC 57.805 37.037 0.00 0.00 0.00 3.20
2245 3879 5.911752 TCACAAAGCATCTAATCTCTCTCC 58.088 41.667 0.00 0.00 0.00 3.71
2246 3880 5.055812 CACAAAGCATCTAATCTCTCTCCC 58.944 45.833 0.00 0.00 0.00 4.30
2247 3881 4.102367 ACAAAGCATCTAATCTCTCTCCCC 59.898 45.833 0.00 0.00 0.00 4.81
2248 3882 2.901291 AGCATCTAATCTCTCTCCCCC 58.099 52.381 0.00 0.00 0.00 5.40
2267 3901 3.271250 CTGATTTCAGGTGGGGGTG 57.729 57.895 0.00 0.00 40.20 4.61
2268 3902 0.323725 CTGATTTCAGGTGGGGGTGG 60.324 60.000 0.00 0.00 40.20 4.61
2269 3903 1.000359 GATTTCAGGTGGGGGTGGG 60.000 63.158 0.00 0.00 0.00 4.61
2270 3904 2.514516 GATTTCAGGTGGGGGTGGGG 62.515 65.000 0.00 0.00 0.00 4.96
2271 3905 4.542627 TTCAGGTGGGGGTGGGGT 62.543 66.667 0.00 0.00 0.00 4.95
2272 3906 2.656269 TTTCAGGTGGGGGTGGGGTA 62.656 60.000 0.00 0.00 0.00 3.69
2273 3907 3.015145 CAGGTGGGGGTGGGGTAG 61.015 72.222 0.00 0.00 0.00 3.18
2274 3908 3.213245 AGGTGGGGGTGGGGTAGA 61.213 66.667 0.00 0.00 0.00 2.59
2275 3909 2.043941 GGTGGGGGTGGGGTAGAT 59.956 66.667 0.00 0.00 0.00 1.98
2276 3910 2.383601 GGTGGGGGTGGGGTAGATG 61.384 68.421 0.00 0.00 0.00 2.90
2277 3911 2.694616 TGGGGGTGGGGTAGATGC 60.695 66.667 0.00 0.00 0.00 3.91
2278 3912 2.368329 GGGGGTGGGGTAGATGCT 60.368 66.667 0.00 0.00 0.00 3.79
2279 3913 2.006991 GGGGGTGGGGTAGATGCTT 61.007 63.158 0.00 0.00 0.00 3.91
2280 3914 1.580994 GGGGGTGGGGTAGATGCTTT 61.581 60.000 0.00 0.00 0.00 3.51
2281 3915 0.395724 GGGGTGGGGTAGATGCTTTG 60.396 60.000 0.00 0.00 0.00 2.77
2282 3916 0.331616 GGGTGGGGTAGATGCTTTGT 59.668 55.000 0.00 0.00 0.00 2.83
2283 3917 1.463674 GGTGGGGTAGATGCTTTGTG 58.536 55.000 0.00 0.00 0.00 3.33
2284 3918 1.004277 GGTGGGGTAGATGCTTTGTGA 59.996 52.381 0.00 0.00 0.00 3.58
2285 3919 2.357154 GGTGGGGTAGATGCTTTGTGAT 60.357 50.000 0.00 0.00 0.00 3.06
2286 3920 3.356290 GTGGGGTAGATGCTTTGTGATT 58.644 45.455 0.00 0.00 0.00 2.57
2287 3921 3.763897 GTGGGGTAGATGCTTTGTGATTT 59.236 43.478 0.00 0.00 0.00 2.17
2288 3922 3.763360 TGGGGTAGATGCTTTGTGATTTG 59.237 43.478 0.00 0.00 0.00 2.32
2289 3923 3.763897 GGGGTAGATGCTTTGTGATTTGT 59.236 43.478 0.00 0.00 0.00 2.83
2290 3924 4.380867 GGGGTAGATGCTTTGTGATTTGTG 60.381 45.833 0.00 0.00 0.00 3.33
2291 3925 4.458989 GGGTAGATGCTTTGTGATTTGTGA 59.541 41.667 0.00 0.00 0.00 3.58
2292 3926 5.048083 GGGTAGATGCTTTGTGATTTGTGAA 60.048 40.000 0.00 0.00 0.00 3.18
2293 3927 6.350445 GGGTAGATGCTTTGTGATTTGTGAAT 60.350 38.462 0.00 0.00 0.00 2.57
2294 3928 6.529125 GGTAGATGCTTTGTGATTTGTGAATG 59.471 38.462 0.00 0.00 0.00 2.67
2295 3929 4.927425 AGATGCTTTGTGATTTGTGAATGC 59.073 37.500 0.00 0.00 0.00 3.56
2296 3930 3.391965 TGCTTTGTGATTTGTGAATGCC 58.608 40.909 0.00 0.00 0.00 4.40
2297 3931 3.181468 TGCTTTGTGATTTGTGAATGCCA 60.181 39.130 0.00 0.00 0.00 4.92
2298 3932 3.184986 GCTTTGTGATTTGTGAATGCCAC 59.815 43.478 0.00 0.00 45.88 5.01
2306 3940 3.975992 GTGAATGCCACGTGTCATC 57.024 52.632 13.12 7.23 35.86 2.92
2307 3941 0.447801 GTGAATGCCACGTGTCATCC 59.552 55.000 13.12 0.00 35.86 3.51
2308 3942 0.036022 TGAATGCCACGTGTCATCCA 59.964 50.000 13.12 2.86 0.00 3.41
2309 3943 1.339920 TGAATGCCACGTGTCATCCAT 60.340 47.619 13.12 0.00 0.00 3.41
2310 3944 1.331756 GAATGCCACGTGTCATCCATC 59.668 52.381 13.12 3.25 0.00 3.51
2311 3945 0.252761 ATGCCACGTGTCATCCATCA 59.747 50.000 15.65 0.00 0.00 3.07
2312 3946 0.391528 TGCCACGTGTCATCCATCAG 60.392 55.000 15.65 0.00 0.00 2.90
2313 3947 1.091771 GCCACGTGTCATCCATCAGG 61.092 60.000 15.65 0.00 0.00 3.86
2331 3965 5.452341 TCAGGATGAGTCTCACCTACTAA 57.548 43.478 18.13 7.05 42.56 2.24
2332 3966 5.194432 TCAGGATGAGTCTCACCTACTAAC 58.806 45.833 18.13 0.80 42.56 2.34
2333 3967 4.339814 CAGGATGAGTCTCACCTACTAACC 59.660 50.000 18.13 7.78 39.69 2.85
2334 3968 3.637694 GGATGAGTCTCACCTACTAACCC 59.362 52.174 4.21 0.00 0.00 4.11
2335 3969 2.719739 TGAGTCTCACCTACTAACCCG 58.280 52.381 0.00 0.00 0.00 5.28
2336 3970 2.040813 TGAGTCTCACCTACTAACCCGT 59.959 50.000 0.00 0.00 0.00 5.28
2337 3971 2.422832 GAGTCTCACCTACTAACCCGTG 59.577 54.545 0.00 0.00 0.00 4.94
2338 3972 2.040813 AGTCTCACCTACTAACCCGTGA 59.959 50.000 0.00 0.00 34.26 4.35
2340 3974 2.885135 TCACCTACTAACCCGTGAGA 57.115 50.000 0.00 0.00 31.80 3.27
2341 3975 3.377253 TCACCTACTAACCCGTGAGAT 57.623 47.619 0.00 0.00 31.80 2.75
2342 3976 3.285484 TCACCTACTAACCCGTGAGATC 58.715 50.000 0.00 0.00 31.80 2.75
2343 3977 3.053842 TCACCTACTAACCCGTGAGATCT 60.054 47.826 0.00 0.00 31.80 2.75
2344 3978 3.066900 CACCTACTAACCCGTGAGATCTG 59.933 52.174 0.00 0.00 0.00 2.90
2345 3979 3.053842 ACCTACTAACCCGTGAGATCTGA 60.054 47.826 0.00 0.00 0.00 3.27
2346 3980 4.145807 CCTACTAACCCGTGAGATCTGAT 58.854 47.826 0.00 0.00 0.00 2.90
2347 3981 4.216687 CCTACTAACCCGTGAGATCTGATC 59.783 50.000 9.65 9.65 0.00 2.92
2348 3982 3.904717 ACTAACCCGTGAGATCTGATCT 58.095 45.455 19.63 19.63 43.70 2.75
2365 3999 9.875675 GATCTGATCTCATAAAATTCTTTTCCG 57.124 33.333 10.37 0.00 34.19 4.30
2366 4000 7.697691 TCTGATCTCATAAAATTCTTTTCCGC 58.302 34.615 0.00 0.00 34.19 5.54
2367 4001 6.486248 TGATCTCATAAAATTCTTTTCCGCG 58.514 36.000 0.00 0.00 34.19 6.46
2368 4002 5.873179 TCTCATAAAATTCTTTTCCGCGT 57.127 34.783 4.92 0.00 34.19 6.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
96 97 8.824756 ATAGCTATAGAATCAACGGGAGATAA 57.175 34.615 3.84 0.00 0.00 1.75
97 98 9.339850 GTATAGCTATAGAATCAACGGGAGATA 57.660 37.037 13.86 0.00 0.00 1.98
147 148 7.004086 AGAGGTCAACCAAACTGATAATGAAA 58.996 34.615 1.33 0.00 38.89 2.69
188 189 1.000896 CCCTTCTTCCCGCCACAAT 60.001 57.895 0.00 0.00 0.00 2.71
196 197 5.360999 CCACAGAAATTATTCCCTTCTTCCC 59.639 44.000 0.00 0.00 36.12 3.97
421 423 5.063180 TCTTGAATTGCTTTCATGCGATT 57.937 34.783 2.05 2.05 46.34 3.34
476 478 6.319658 CACATGGTATTCTCCAGCTTTATTGT 59.680 38.462 0.00 0.00 41.05 2.71
553 555 0.604578 CAATCAGCCACAACCTTGGG 59.395 55.000 0.00 0.00 37.10 4.12
554 556 0.604578 CCAATCAGCCACAACCTTGG 59.395 55.000 0.00 0.00 39.98 3.61
594 596 0.108615 CCCTATTCTAGCGCGATGGG 60.109 60.000 12.10 5.30 0.00 4.00
599 601 1.587054 CCCTCCCTATTCTAGCGCG 59.413 63.158 0.00 0.00 0.00 6.86
612 614 0.183731 CCCTCATTAACTGCCCCTCC 59.816 60.000 0.00 0.00 0.00 4.30
631 633 9.118300 CATAATTAGGCCCAATATCTCTGATTC 57.882 37.037 0.00 0.00 0.00 2.52
646 648 7.084486 GCAGTTATTAAGCACATAATTAGGCC 58.916 38.462 0.00 0.00 0.00 5.19
699 701 6.759497 AAATAAGCGGCTATTTTCTGAAGT 57.241 33.333 1.35 0.00 29.05 3.01
787 1859 7.286215 TGGTGGAAATTAAATTACGGTTTCA 57.714 32.000 0.00 0.00 32.04 2.69
800 1872 7.128751 TGGGTGATCATATTTGGTGGAAATTA 58.871 34.615 0.00 0.00 35.74 1.40
802 1874 5.527385 TGGGTGATCATATTTGGTGGAAAT 58.473 37.500 0.00 0.00 37.96 2.17
803 1875 4.940483 TGGGTGATCATATTTGGTGGAAA 58.060 39.130 0.00 0.00 0.00 3.13
804 1876 4.599720 TGGGTGATCATATTTGGTGGAA 57.400 40.909 0.00 0.00 0.00 3.53
806 1878 6.975196 TTATTGGGTGATCATATTTGGTGG 57.025 37.500 0.00 0.00 0.00 4.61
837 1958 5.723887 TGTGGCCTAATGGAAAATTAATGGT 59.276 36.000 3.32 0.00 34.57 3.55
878 2010 8.495361 AGTCTACGCCATCTGTTACTATATAG 57.505 38.462 8.27 8.27 0.00 1.31
881 2013 8.859236 AATAGTCTACGCCATCTGTTACTATA 57.141 34.615 0.00 0.00 32.02 1.31
883 2015 7.423199 CAAATAGTCTACGCCATCTGTTACTA 58.577 38.462 0.00 0.00 0.00 1.82
884 2016 6.273825 CAAATAGTCTACGCCATCTGTTACT 58.726 40.000 0.00 0.00 0.00 2.24
885 2017 5.462398 CCAAATAGTCTACGCCATCTGTTAC 59.538 44.000 0.00 0.00 0.00 2.50
964 2457 1.588674 AGACACGATCCACGCAAAAA 58.411 45.000 0.00 0.00 46.94 1.94
965 2458 1.262950 CAAGACACGATCCACGCAAAA 59.737 47.619 0.00 0.00 46.94 2.44
966 2459 0.865111 CAAGACACGATCCACGCAAA 59.135 50.000 0.00 0.00 46.94 3.68
967 2460 0.032815 TCAAGACACGATCCACGCAA 59.967 50.000 0.00 0.00 46.94 4.85
968 2461 0.246360 ATCAAGACACGATCCACGCA 59.754 50.000 0.00 0.00 46.94 5.24
969 2462 2.203800 TATCAAGACACGATCCACGC 57.796 50.000 0.00 0.00 46.94 5.34
971 2464 4.360563 ACGATTATCAAGACACGATCCAC 58.639 43.478 0.00 0.00 0.00 4.02
972 2465 4.649088 ACGATTATCAAGACACGATCCA 57.351 40.909 0.00 0.00 0.00 3.41
973 2466 5.041287 TCAACGATTATCAAGACACGATCC 58.959 41.667 0.00 0.00 0.00 3.36
974 2467 5.971792 TCTCAACGATTATCAAGACACGATC 59.028 40.000 0.00 0.00 0.00 3.69
975 2468 5.744345 GTCTCAACGATTATCAAGACACGAT 59.256 40.000 0.00 0.00 34.64 3.73
976 2469 5.093457 GTCTCAACGATTATCAAGACACGA 58.907 41.667 0.00 0.00 34.64 4.35
977 2470 4.857037 TGTCTCAACGATTATCAAGACACG 59.143 41.667 10.56 0.00 38.47 4.49
978 2471 6.237942 CCATGTCTCAACGATTATCAAGACAC 60.238 42.308 14.48 0.41 44.02 3.67
979 2472 5.812127 CCATGTCTCAACGATTATCAAGACA 59.188 40.000 14.52 14.52 44.94 3.41
980 2473 5.235186 CCCATGTCTCAACGATTATCAAGAC 59.765 44.000 0.00 0.93 34.98 3.01
981 2474 5.128663 TCCCATGTCTCAACGATTATCAAGA 59.871 40.000 0.00 0.00 0.00 3.02
982 2475 5.359756 TCCCATGTCTCAACGATTATCAAG 58.640 41.667 0.00 0.00 0.00 3.02
983 2476 5.104941 ACTCCCATGTCTCAACGATTATCAA 60.105 40.000 0.00 0.00 0.00 2.57
984 2477 4.405680 ACTCCCATGTCTCAACGATTATCA 59.594 41.667 0.00 0.00 0.00 2.15
985 2478 4.950050 ACTCCCATGTCTCAACGATTATC 58.050 43.478 0.00 0.00 0.00 1.75
986 2479 4.202264 GGACTCCCATGTCTCAACGATTAT 60.202 45.833 0.00 0.00 37.16 1.28
987 2480 3.132289 GGACTCCCATGTCTCAACGATTA 59.868 47.826 0.00 0.00 37.16 1.75
988 2481 2.093447 GGACTCCCATGTCTCAACGATT 60.093 50.000 0.00 0.00 37.16 3.34
989 2482 1.482593 GGACTCCCATGTCTCAACGAT 59.517 52.381 0.00 0.00 37.16 3.73
990 2483 0.895530 GGACTCCCATGTCTCAACGA 59.104 55.000 0.00 0.00 37.16 3.85
991 2484 0.898320 AGGACTCCCATGTCTCAACG 59.102 55.000 0.00 0.00 37.16 4.10
1026 2519 5.688807 AGCATGAGAAATACCAAGCATAGT 58.311 37.500 0.00 0.00 30.33 2.12
1072 2573 7.654022 TGACCAAGTTCCTTGTTCTTTAAAT 57.346 32.000 3.69 0.00 39.58 1.40
1287 2818 0.611896 GGCAGGCCTTAACACATGGT 60.612 55.000 0.00 0.00 0.00 3.55
1429 2981 9.113876 CTCATGTCCAGTAATTTTTAAAACGAC 57.886 33.333 0.00 0.00 0.00 4.34
1437 3013 7.669427 TCAATTGCTCATGTCCAGTAATTTTT 58.331 30.769 0.00 0.00 34.92 1.94
1442 3018 5.164620 TCTCAATTGCTCATGTCCAGTAA 57.835 39.130 0.00 0.00 0.00 2.24
1531 3116 8.204160 CACCTGGACATGAGTTAGATATTTGTA 58.796 37.037 0.00 0.00 0.00 2.41
1554 3139 3.268023 AGCCTATGAGTTTGTAGCACC 57.732 47.619 0.00 0.00 0.00 5.01
1627 3220 1.546323 CCTTGCACCAAGACCATGACT 60.546 52.381 6.54 0.00 43.42 3.41
1651 3244 2.747855 CGGTGCTTCTTGAGGGCC 60.748 66.667 0.00 0.00 0.00 5.80
1759 3371 0.396435 TTCGTCTGATGGTTGCAGGT 59.604 50.000 0.00 0.00 34.20 4.00
1788 3404 4.896979 TCCAGGAGGGAGGAAGTG 57.103 61.111 0.00 0.00 42.15 3.16
1858 3485 7.512992 TCTTCTCTTCTTCAACCTTGATCTTT 58.487 34.615 0.00 0.00 37.00 2.52
1861 3488 6.315891 CCATCTTCTCTTCTTCAACCTTGATC 59.684 42.308 0.00 0.00 37.00 2.92
1880 3507 0.985490 GAGCCCTGGTCCTCCATCTT 60.985 60.000 0.00 0.00 43.43 2.40
1954 3581 3.851128 GGCGTGGGAGGTAGAGGC 61.851 72.222 0.00 0.00 0.00 4.70
1978 3605 1.031571 GGTGAATTGGCGCAGGATCA 61.032 55.000 10.83 5.33 0.00 2.92
2113 3747 5.518865 TCAAATCCCCCAAAAGGATAAGAG 58.481 41.667 0.00 0.00 43.54 2.85
2114 3748 5.544441 TCAAATCCCCCAAAAGGATAAGA 57.456 39.130 0.00 0.00 43.54 2.10
2159 3793 7.561722 TCACTTGCTTTATATGAGACCTAGTCT 59.438 37.037 0.00 0.00 46.42 3.24
2160 3794 7.717568 TCACTTGCTTTATATGAGACCTAGTC 58.282 38.462 0.00 0.00 0.00 2.59
2161 3795 7.561722 TCTCACTTGCTTTATATGAGACCTAGT 59.438 37.037 0.00 0.00 40.59 2.57
2162 3796 7.946207 TCTCACTTGCTTTATATGAGACCTAG 58.054 38.462 0.00 0.00 40.59 3.02
2163 3797 7.898014 TCTCACTTGCTTTATATGAGACCTA 57.102 36.000 0.00 0.00 40.59 3.08
2164 3798 6.798427 TCTCACTTGCTTTATATGAGACCT 57.202 37.500 0.00 0.00 40.59 3.85
2167 3801 5.451937 CGGGTCTCACTTGCTTTATATGAGA 60.452 44.000 0.00 0.00 42.63 3.27
2168 3802 4.747108 CGGGTCTCACTTGCTTTATATGAG 59.253 45.833 0.00 0.00 38.51 2.90
2169 3803 4.693283 CGGGTCTCACTTGCTTTATATGA 58.307 43.478 0.00 0.00 0.00 2.15
2170 3804 3.248602 GCGGGTCTCACTTGCTTTATATG 59.751 47.826 0.00 0.00 0.00 1.78
2171 3805 3.467803 GCGGGTCTCACTTGCTTTATAT 58.532 45.455 0.00 0.00 0.00 0.86
2172 3806 2.419574 GGCGGGTCTCACTTGCTTTATA 60.420 50.000 0.00 0.00 0.00 0.98
2173 3807 1.679032 GGCGGGTCTCACTTGCTTTAT 60.679 52.381 0.00 0.00 0.00 1.40
2174 3808 0.321298 GGCGGGTCTCACTTGCTTTA 60.321 55.000 0.00 0.00 0.00 1.85
2175 3809 1.600916 GGCGGGTCTCACTTGCTTT 60.601 57.895 0.00 0.00 0.00 3.51
2176 3810 2.032681 GGCGGGTCTCACTTGCTT 59.967 61.111 0.00 0.00 0.00 3.91
2177 3811 4.021925 GGGCGGGTCTCACTTGCT 62.022 66.667 0.00 0.00 0.00 3.91
2178 3812 4.021925 AGGGCGGGTCTCACTTGC 62.022 66.667 0.00 0.00 0.00 4.01
2179 3813 1.903877 ATCAGGGCGGGTCTCACTTG 61.904 60.000 0.00 0.00 0.00 3.16
2180 3814 1.613630 ATCAGGGCGGGTCTCACTT 60.614 57.895 0.00 0.00 0.00 3.16
2181 3815 2.039624 ATCAGGGCGGGTCTCACT 59.960 61.111 0.00 0.00 0.00 3.41
2182 3816 2.187946 CATCAGGGCGGGTCTCAC 59.812 66.667 0.00 0.00 0.00 3.51
2183 3817 2.896677 ATCCATCAGGGCGGGTCTCA 62.897 60.000 0.00 0.00 36.21 3.27
2184 3818 2.143419 ATCCATCAGGGCGGGTCTC 61.143 63.158 0.00 0.00 36.21 3.36
2185 3819 2.040464 ATCCATCAGGGCGGGTCT 60.040 61.111 0.00 0.00 36.21 3.85
2186 3820 2.111878 CATCCATCAGGGCGGGTC 59.888 66.667 0.00 0.00 36.21 4.46
2187 3821 2.366837 TCATCCATCAGGGCGGGT 60.367 61.111 0.00 0.00 36.21 5.28
2188 3822 2.111878 GTCATCCATCAGGGCGGG 59.888 66.667 0.00 0.00 36.21 6.13
2189 3823 1.524621 GTGTCATCCATCAGGGCGG 60.525 63.158 0.00 0.00 36.21 6.13
2190 3824 0.179037 ATGTGTCATCCATCAGGGCG 60.179 55.000 0.00 0.00 36.21 6.13
2191 3825 1.315690 CATGTGTCATCCATCAGGGC 58.684 55.000 0.00 0.00 36.21 5.19
2192 3826 1.977056 CCATGTGTCATCCATCAGGG 58.023 55.000 0.00 0.00 34.83 4.45
2193 3827 1.315690 GCCATGTGTCATCCATCAGG 58.684 55.000 0.00 0.00 0.00 3.86
2194 3828 2.047002 TGCCATGTGTCATCCATCAG 57.953 50.000 0.00 0.00 0.00 2.90
2195 3829 2.740506 ATGCCATGTGTCATCCATCA 57.259 45.000 0.00 0.00 0.00 3.07
2196 3830 2.953648 TGAATGCCATGTGTCATCCATC 59.046 45.455 0.00 0.00 0.00 3.51
2197 3831 2.691526 GTGAATGCCATGTGTCATCCAT 59.308 45.455 0.00 0.00 0.00 3.41
2198 3832 2.093890 GTGAATGCCATGTGTCATCCA 58.906 47.619 0.00 0.00 0.00 3.41
2199 3833 2.372264 AGTGAATGCCATGTGTCATCC 58.628 47.619 0.00 0.00 0.00 3.51
2200 3834 5.297527 TGATTAGTGAATGCCATGTGTCATC 59.702 40.000 0.00 0.00 0.00 2.92
2201 3835 5.066893 GTGATTAGTGAATGCCATGTGTCAT 59.933 40.000 0.00 0.00 0.00 3.06
2202 3836 4.395854 GTGATTAGTGAATGCCATGTGTCA 59.604 41.667 0.00 0.00 0.00 3.58
2203 3837 4.395854 TGTGATTAGTGAATGCCATGTGTC 59.604 41.667 0.00 0.00 0.00 3.67
2204 3838 4.334552 TGTGATTAGTGAATGCCATGTGT 58.665 39.130 0.00 0.00 0.00 3.72
2205 3839 4.968812 TGTGATTAGTGAATGCCATGTG 57.031 40.909 0.00 0.00 0.00 3.21
2206 3840 5.622914 GCTTTGTGATTAGTGAATGCCATGT 60.623 40.000 0.00 0.00 0.00 3.21
2207 3841 4.802039 GCTTTGTGATTAGTGAATGCCATG 59.198 41.667 0.00 0.00 0.00 3.66
2208 3842 4.463539 TGCTTTGTGATTAGTGAATGCCAT 59.536 37.500 0.00 0.00 0.00 4.40
2209 3843 3.825585 TGCTTTGTGATTAGTGAATGCCA 59.174 39.130 0.00 0.00 0.00 4.92
2210 3844 4.439305 TGCTTTGTGATTAGTGAATGCC 57.561 40.909 0.00 0.00 0.00 4.40
2211 3845 5.888105 AGATGCTTTGTGATTAGTGAATGC 58.112 37.500 0.00 0.00 0.00 3.56
2212 3846 9.661187 GATTAGATGCTTTGTGATTAGTGAATG 57.339 33.333 0.00 0.00 0.00 2.67
2213 3847 9.624373 AGATTAGATGCTTTGTGATTAGTGAAT 57.376 29.630 0.00 0.00 0.00 2.57
2214 3848 9.102757 GAGATTAGATGCTTTGTGATTAGTGAA 57.897 33.333 0.00 0.00 0.00 3.18
2215 3849 8.481314 AGAGATTAGATGCTTTGTGATTAGTGA 58.519 33.333 0.00 0.00 0.00 3.41
2216 3850 8.659925 AGAGATTAGATGCTTTGTGATTAGTG 57.340 34.615 0.00 0.00 0.00 2.74
2217 3851 8.703743 AGAGAGATTAGATGCTTTGTGATTAGT 58.296 33.333 0.00 0.00 0.00 2.24
2218 3852 9.195411 GAGAGAGATTAGATGCTTTGTGATTAG 57.805 37.037 0.00 0.00 0.00 1.73
2219 3853 8.147058 GGAGAGAGATTAGATGCTTTGTGATTA 58.853 37.037 0.00 0.00 0.00 1.75
2220 3854 6.991531 GGAGAGAGATTAGATGCTTTGTGATT 59.008 38.462 0.00 0.00 0.00 2.57
2221 3855 6.464180 GGGAGAGAGATTAGATGCTTTGTGAT 60.464 42.308 0.00 0.00 0.00 3.06
2222 3856 5.163364 GGGAGAGAGATTAGATGCTTTGTGA 60.163 44.000 0.00 0.00 0.00 3.58
2223 3857 5.055812 GGGAGAGAGATTAGATGCTTTGTG 58.944 45.833 0.00 0.00 0.00 3.33
2224 3858 4.102367 GGGGAGAGAGATTAGATGCTTTGT 59.898 45.833 0.00 0.00 0.00 2.83
2225 3859 4.504689 GGGGGAGAGAGATTAGATGCTTTG 60.505 50.000 0.00 0.00 0.00 2.77
2226 3860 3.650461 GGGGGAGAGAGATTAGATGCTTT 59.350 47.826 0.00 0.00 0.00 3.51
2227 3861 3.247162 GGGGGAGAGAGATTAGATGCTT 58.753 50.000 0.00 0.00 0.00 3.91
2228 3862 2.901291 GGGGGAGAGAGATTAGATGCT 58.099 52.381 0.00 0.00 0.00 3.79
2249 3883 0.323725 CCACCCCCACCTGAAATCAG 60.324 60.000 3.37 3.37 43.40 2.90
2250 3884 1.773635 CCACCCCCACCTGAAATCA 59.226 57.895 0.00 0.00 0.00 2.57
2251 3885 1.000359 CCCACCCCCACCTGAAATC 60.000 63.158 0.00 0.00 0.00 2.17
2252 3886 2.557181 CCCCACCCCCACCTGAAAT 61.557 63.158 0.00 0.00 0.00 2.17
2253 3887 2.656269 TACCCCACCCCCACCTGAAA 62.656 60.000 0.00 0.00 0.00 2.69
2254 3888 3.130153 TACCCCACCCCCACCTGAA 62.130 63.158 0.00 0.00 0.00 3.02
2255 3889 3.543626 TACCCCACCCCCACCTGA 61.544 66.667 0.00 0.00 0.00 3.86
2256 3890 2.857998 ATCTACCCCACCCCCACCTG 62.858 65.000 0.00 0.00 0.00 4.00
2257 3891 2.587774 ATCTACCCCACCCCCACCT 61.588 63.158 0.00 0.00 0.00 4.00
2258 3892 2.043941 ATCTACCCCACCCCCACC 59.956 66.667 0.00 0.00 0.00 4.61
2259 3893 3.056754 GCATCTACCCCACCCCCAC 62.057 68.421 0.00 0.00 0.00 4.61
2260 3894 2.694616 GCATCTACCCCACCCCCA 60.695 66.667 0.00 0.00 0.00 4.96
2261 3895 1.580994 AAAGCATCTACCCCACCCCC 61.581 60.000 0.00 0.00 0.00 5.40
2262 3896 0.395724 CAAAGCATCTACCCCACCCC 60.396 60.000 0.00 0.00 0.00 4.95
2263 3897 0.331616 ACAAAGCATCTACCCCACCC 59.668 55.000 0.00 0.00 0.00 4.61
2264 3898 1.004277 TCACAAAGCATCTACCCCACC 59.996 52.381 0.00 0.00 0.00 4.61
2265 3899 2.489938 TCACAAAGCATCTACCCCAC 57.510 50.000 0.00 0.00 0.00 4.61
2266 3900 3.737559 AATCACAAAGCATCTACCCCA 57.262 42.857 0.00 0.00 0.00 4.96
2267 3901 3.763897 ACAAATCACAAAGCATCTACCCC 59.236 43.478 0.00 0.00 0.00 4.95
2268 3902 4.458989 TCACAAATCACAAAGCATCTACCC 59.541 41.667 0.00 0.00 0.00 3.69
2269 3903 5.627499 TCACAAATCACAAAGCATCTACC 57.373 39.130 0.00 0.00 0.00 3.18
2270 3904 6.034256 GCATTCACAAATCACAAAGCATCTAC 59.966 38.462 0.00 0.00 0.00 2.59
2271 3905 6.094719 GCATTCACAAATCACAAAGCATCTA 58.905 36.000 0.00 0.00 0.00 1.98
2272 3906 4.927425 GCATTCACAAATCACAAAGCATCT 59.073 37.500 0.00 0.00 0.00 2.90
2273 3907 4.092383 GGCATTCACAAATCACAAAGCATC 59.908 41.667 0.00 0.00 0.00 3.91
2274 3908 3.998341 GGCATTCACAAATCACAAAGCAT 59.002 39.130 0.00 0.00 0.00 3.79
2275 3909 3.181468 TGGCATTCACAAATCACAAAGCA 60.181 39.130 0.00 0.00 0.00 3.91
2276 3910 3.184986 GTGGCATTCACAAATCACAAAGC 59.815 43.478 0.00 0.00 45.39 3.51
2277 3911 3.426191 CGTGGCATTCACAAATCACAAAG 59.574 43.478 0.00 0.00 46.36 2.77
2278 3912 3.181482 ACGTGGCATTCACAAATCACAAA 60.181 39.130 0.00 0.00 46.36 2.83
2279 3913 2.360483 ACGTGGCATTCACAAATCACAA 59.640 40.909 0.00 0.00 46.36 3.33
2280 3914 1.952990 ACGTGGCATTCACAAATCACA 59.047 42.857 0.00 0.00 46.36 3.58
2281 3915 2.287547 ACACGTGGCATTCACAAATCAC 60.288 45.455 21.57 0.00 46.36 3.06
2282 3916 1.952990 ACACGTGGCATTCACAAATCA 59.047 42.857 21.57 0.00 46.36 2.57
2283 3917 2.031245 TGACACGTGGCATTCACAAATC 60.031 45.455 23.03 3.54 46.36 2.17
2284 3918 1.952990 TGACACGTGGCATTCACAAAT 59.047 42.857 23.03 0.00 46.36 2.32
2285 3919 1.383523 TGACACGTGGCATTCACAAA 58.616 45.000 23.03 0.00 46.36 2.83
2286 3920 1.535028 GATGACACGTGGCATTCACAA 59.465 47.619 36.07 8.22 45.42 3.33
2287 3921 1.155889 GATGACACGTGGCATTCACA 58.844 50.000 36.07 9.07 45.42 3.58
2288 3922 0.447801 GGATGACACGTGGCATTCAC 59.552 55.000 36.07 24.74 45.42 3.18
2289 3923 0.036022 TGGATGACACGTGGCATTCA 59.964 50.000 36.64 36.64 46.54 2.57
2290 3924 1.331756 GATGGATGACACGTGGCATTC 59.668 52.381 36.07 34.16 45.42 2.67
2291 3925 1.339920 TGATGGATGACACGTGGCATT 60.340 47.619 36.07 22.11 45.42 3.56
2293 3927 0.391528 CTGATGGATGACACGTGGCA 60.392 55.000 29.28 29.28 37.54 4.92
2294 3928 1.091771 CCTGATGGATGACACGTGGC 61.092 60.000 21.57 19.24 34.57 5.01
2295 3929 0.536724 TCCTGATGGATGACACGTGG 59.463 55.000 21.57 1.66 37.46 4.94
2306 3940 2.396608 AGGTGAGACTCATCCTGATGG 58.603 52.381 19.63 1.57 39.24 3.51
2307 3941 4.214310 AGTAGGTGAGACTCATCCTGATG 58.786 47.826 25.02 0.55 40.09 3.07
2308 3942 4.534647 AGTAGGTGAGACTCATCCTGAT 57.465 45.455 25.02 15.83 32.70 2.90
2309 3943 5.194432 GTTAGTAGGTGAGACTCATCCTGA 58.806 45.833 25.02 14.02 32.70 3.86
2310 3944 4.339814 GGTTAGTAGGTGAGACTCATCCTG 59.660 50.000 25.02 0.00 32.70 3.86
2311 3945 4.538738 GGTTAGTAGGTGAGACTCATCCT 58.461 47.826 22.25 22.25 34.14 3.24
2312 3946 3.637694 GGGTTAGTAGGTGAGACTCATCC 59.362 52.174 12.25 12.86 0.00 3.51
2313 3947 3.315749 CGGGTTAGTAGGTGAGACTCATC 59.684 52.174 8.73 8.21 0.00 2.92
2314 3948 3.288964 CGGGTTAGTAGGTGAGACTCAT 58.711 50.000 8.73 0.00 0.00 2.90
2315 3949 2.040813 ACGGGTTAGTAGGTGAGACTCA 59.959 50.000 0.00 0.00 0.00 3.41
2316 3950 2.422832 CACGGGTTAGTAGGTGAGACTC 59.577 54.545 0.00 0.00 32.23 3.36
2317 3951 2.040813 TCACGGGTTAGTAGGTGAGACT 59.959 50.000 0.00 0.00 34.71 3.24
2318 3952 2.440409 TCACGGGTTAGTAGGTGAGAC 58.560 52.381 0.00 0.00 34.71 3.36
2319 3953 2.885135 TCACGGGTTAGTAGGTGAGA 57.115 50.000 0.00 0.00 34.71 3.27
2321 3955 2.885135 TCTCACGGGTTAGTAGGTGA 57.115 50.000 0.00 0.00 37.77 4.02
2322 3956 3.066900 CAGATCTCACGGGTTAGTAGGTG 59.933 52.174 0.00 0.00 0.00 4.00
2323 3957 3.053842 TCAGATCTCACGGGTTAGTAGGT 60.054 47.826 0.00 0.00 0.00 3.08
2324 3958 3.552875 TCAGATCTCACGGGTTAGTAGG 58.447 50.000 0.00 0.00 0.00 3.18
2325 3959 5.067273 AGATCAGATCTCACGGGTTAGTAG 58.933 45.833 7.15 0.00 33.42 2.57
2326 3960 5.050126 AGATCAGATCTCACGGGTTAGTA 57.950 43.478 7.15 0.00 33.42 1.82
2327 3961 3.904717 AGATCAGATCTCACGGGTTAGT 58.095 45.455 7.15 0.00 33.42 2.24


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

AutoCloner maintained by Alex Coulton.