Multiple sequence alignment - TraesCS1B01G131800

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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 TraesCS1B01G131800 chr1B 100.000 4974 0 0 1 4974 165070954 165075927 0.000000e+00 9186.0
1 TraesCS1B01G131800 chr1B 87.695 577 62 8 2659 3231 165072703 165073274 0.000000e+00 664.0
2 TraesCS1B01G131800 chr1B 87.695 577 62 8 1750 2321 165073612 165074184 0.000000e+00 664.0
3 TraesCS1B01G131800 chr1B 92.000 75 6 0 2 76 223787517 223787443 6.810000e-19 106.0
4 TraesCS1B01G131800 chr1D 97.008 4445 91 17 76 4505 109471671 109476088 0.000000e+00 7433.0
5 TraesCS1B01G131800 chr1D 84.056 922 96 30 1750 2628 109474250 109475163 0.000000e+00 841.0
6 TraesCS1B01G131800 chr1D 87.179 585 68 6 2650 3231 109473332 109473912 0.000000e+00 658.0
7 TraesCS1B01G131800 chr1D 95.848 289 8 2 4546 4834 109476085 109476369 9.750000e-127 464.0
8 TraesCS1B01G131800 chr1D 86.486 111 12 2 4829 4939 246650088 246649981 8.750000e-23 119.0
9 TraesCS1B01G131800 chr1D 83.784 111 15 1 4829 4939 156133385 156133492 8.810000e-18 102.0
10 TraesCS1B01G131800 chr1A 95.440 3224 118 17 76 3285 112934798 112938006 0.000000e+00 5112.0
11 TraesCS1B01G131800 chr1A 91.745 1490 85 13 3322 4797 112940926 112942391 0.000000e+00 2036.0
12 TraesCS1B01G131800 chr1A 87.695 577 63 7 2659 3231 112936468 112937040 0.000000e+00 665.0
13 TraesCS1B01G131800 chr1A 87.958 573 55 11 1750 2317 112937377 112937940 0.000000e+00 664.0
14 TraesCS1B01G131800 chr1A 85.953 299 34 7 2357 2649 112940904 112941200 3.740000e-81 313.0
15 TraesCS1B01G131800 chr1A 90.278 72 6 1 1 71 8293237 8293166 5.300000e-15 93.5
16 TraesCS1B01G131800 chr2A 87.826 115 11 3 4829 4943 715334997 715335108 1.120000e-26 132.0
17 TraesCS1B01G131800 chr2A 92.105 76 5 1 1 75 638786323 638786398 6.810000e-19 106.0
18 TraesCS1B01G131800 chr6B 85.217 115 13 3 4829 4943 537553948 537553838 1.130000e-21 115.0
19 TraesCS1B01G131800 chr3A 84.956 113 15 2 4829 4940 310691978 310692089 4.070000e-21 113.0
20 TraesCS1B01G131800 chr5A 85.586 111 11 2 4829 4939 321920676 321920781 1.460000e-20 111.0
21 TraesCS1B01G131800 chr7A 84.211 114 17 1 4829 4942 709640420 709640308 5.260000e-20 110.0
22 TraesCS1B01G131800 chr3B 84.685 111 16 1 4829 4939 328715553 328715444 5.260000e-20 110.0
23 TraesCS1B01G131800 chr3B 91.667 72 5 1 1 71 459449477 459449406 1.140000e-16 99.0
24 TraesCS1B01G131800 chr4B 83.784 111 15 1 4829 4939 78607661 78607768 8.810000e-18 102.0
25 TraesCS1B01G131800 chr2B 88.889 81 7 2 1 79 741220866 741220946 1.140000e-16 99.0
26 TraesCS1B01G131800 chr2B 88.889 81 7 2 1 79 741250439 741250519 1.140000e-16 99.0
27 TraesCS1B01G131800 chr6D 91.429 70 5 1 1 69 460583866 460583935 1.470000e-15 95.3
28 TraesCS1B01G131800 chr7B 87.500 80 9 1 1 79 173068077 173068156 1.910000e-14 91.6
29 TraesCS1B01G131800 chr5B 87.500 80 8 2 1 79 594097784 594097706 1.910000e-14 91.6


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 TraesCS1B01G131800 chr1B 165070954 165075927 4973 False 3504.666667 9186 91.796667 1 4974 3 chr1B.!!$F1 4973
1 TraesCS1B01G131800 chr1D 109471671 109476369 4698 False 2349.000000 7433 91.022750 76 4834 4 chr1D.!!$F2 4758
2 TraesCS1B01G131800 chr1A 112934798 112942391 7593 False 1758.000000 5112 89.758200 76 4797 5 chr1A.!!$F1 4721

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
83 84 0.324943 AGTTGGTGCGCTAGGTCATT 59.675 50.000 9.73 0.0 0.00 2.57 F
286 293 1.408702 CAACCCACCAACCACTCAAAG 59.591 52.381 0.00 0.0 0.00 2.77 F
413 423 2.269241 GCCCTGACCTTTCCCTCG 59.731 66.667 0.00 0.0 0.00 4.63 F
1181 1192 3.694072 CGATCATTGCTGGGAAAGGTAAA 59.306 43.478 0.00 0.0 0.00 2.01 F
2937 2953 1.628846 AGGTGGGTGTAGGATGAACAC 59.371 52.381 0.00 0.0 45.21 3.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1882 1897 4.361451 AGATTGATTGGTGATTTCGCAC 57.639 40.909 0.00 0.00 38.05 5.34 R
2166 2182 6.183361 GGGAGGAATTGCTATCTAACAGAAGA 60.183 42.308 0.00 0.00 0.00 2.87 R
2410 2426 2.765135 ACATAGACATCACTGCTCAGCT 59.235 45.455 0.00 0.00 0.00 4.24 R
3079 3095 1.668419 AAGGCATTGCTAGCTAACGG 58.332 50.000 17.23 4.03 0.00 4.44 R
4533 7451 2.605837 TAAGAACAACGTCAGTGGCA 57.394 45.000 0.00 0.00 0.00 4.92 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
20 21 1.734465 CGAGCATCAAGACTTGAACCC 59.266 52.381 21.29 12.24 43.95 4.11
21 22 2.613977 CGAGCATCAAGACTTGAACCCT 60.614 50.000 21.29 16.26 43.95 4.34
22 23 2.746362 GAGCATCAAGACTTGAACCCTG 59.254 50.000 21.29 15.43 43.95 4.45
23 24 2.373169 AGCATCAAGACTTGAACCCTGA 59.627 45.455 21.29 0.00 43.95 3.86
24 25 3.009916 AGCATCAAGACTTGAACCCTGAT 59.990 43.478 21.29 11.20 43.95 2.90
25 26 3.128242 GCATCAAGACTTGAACCCTGATG 59.872 47.826 21.29 13.78 43.95 3.07
26 27 3.423539 TCAAGACTTGAACCCTGATGG 57.576 47.619 15.58 0.00 36.59 3.51
27 28 2.978978 TCAAGACTTGAACCCTGATGGA 59.021 45.455 15.58 0.00 36.59 3.41
28 29 3.077359 CAAGACTTGAACCCTGATGGAC 58.923 50.000 9.76 0.00 38.00 4.02
29 30 2.625639 AGACTTGAACCCTGATGGACT 58.374 47.619 0.00 0.00 38.00 3.85
30 31 2.304180 AGACTTGAACCCTGATGGACTG 59.696 50.000 0.00 0.00 38.00 3.51
31 32 2.303022 GACTTGAACCCTGATGGACTGA 59.697 50.000 0.00 0.00 38.00 3.41
32 33 2.304180 ACTTGAACCCTGATGGACTGAG 59.696 50.000 0.00 0.00 38.00 3.35
33 34 2.325661 TGAACCCTGATGGACTGAGA 57.674 50.000 0.00 0.00 38.00 3.27
34 35 2.837947 TGAACCCTGATGGACTGAGAT 58.162 47.619 0.00 0.00 38.00 2.75
35 36 3.994317 TGAACCCTGATGGACTGAGATA 58.006 45.455 0.00 0.00 38.00 1.98
36 37 3.706594 TGAACCCTGATGGACTGAGATAC 59.293 47.826 0.00 0.00 38.00 2.24
37 38 2.683768 ACCCTGATGGACTGAGATACC 58.316 52.381 0.00 0.00 38.00 2.73
38 39 2.023015 ACCCTGATGGACTGAGATACCA 60.023 50.000 0.00 0.00 38.00 3.25
39 40 2.366916 CCCTGATGGACTGAGATACCAC 59.633 54.545 0.00 0.00 36.49 4.16
40 41 3.033909 CCTGATGGACTGAGATACCACA 58.966 50.000 0.00 0.00 36.49 4.17
41 42 3.069300 CCTGATGGACTGAGATACCACAG 59.931 52.174 0.00 0.00 36.49 3.66
46 47 2.930109 ACTGAGATACCACAGTCCCT 57.070 50.000 0.00 0.00 42.61 4.20
47 48 2.741145 ACTGAGATACCACAGTCCCTC 58.259 52.381 0.00 0.00 42.61 4.30
48 49 2.313342 ACTGAGATACCACAGTCCCTCT 59.687 50.000 0.00 0.00 42.61 3.69
49 50 3.528078 ACTGAGATACCACAGTCCCTCTA 59.472 47.826 0.00 0.00 42.61 2.43
50 51 4.017407 ACTGAGATACCACAGTCCCTCTAA 60.017 45.833 0.00 0.00 42.61 2.10
51 52 5.144100 CTGAGATACCACAGTCCCTCTAAT 58.856 45.833 0.00 0.00 0.00 1.73
52 53 5.141182 TGAGATACCACAGTCCCTCTAATC 58.859 45.833 0.00 0.00 0.00 1.75
53 54 5.141182 GAGATACCACAGTCCCTCTAATCA 58.859 45.833 0.00 0.00 0.00 2.57
54 55 5.721225 AGATACCACAGTCCCTCTAATCAT 58.279 41.667 0.00 0.00 0.00 2.45
55 56 5.777732 AGATACCACAGTCCCTCTAATCATC 59.222 44.000 0.00 0.00 0.00 2.92
56 57 3.041946 ACCACAGTCCCTCTAATCATCC 58.958 50.000 0.00 0.00 0.00 3.51
57 58 3.041211 CCACAGTCCCTCTAATCATCCA 58.959 50.000 0.00 0.00 0.00 3.41
58 59 3.455910 CCACAGTCCCTCTAATCATCCAA 59.544 47.826 0.00 0.00 0.00 3.53
59 60 4.446371 CACAGTCCCTCTAATCATCCAAC 58.554 47.826 0.00 0.00 0.00 3.77
60 61 3.456277 ACAGTCCCTCTAATCATCCAACC 59.544 47.826 0.00 0.00 0.00 3.77
61 62 3.455910 CAGTCCCTCTAATCATCCAACCA 59.544 47.826 0.00 0.00 0.00 3.67
62 63 3.456277 AGTCCCTCTAATCATCCAACCAC 59.544 47.826 0.00 0.00 0.00 4.16
63 64 3.199946 GTCCCTCTAATCATCCAACCACA 59.800 47.826 0.00 0.00 0.00 4.17
64 65 3.849574 TCCCTCTAATCATCCAACCACAA 59.150 43.478 0.00 0.00 0.00 3.33
65 66 4.080356 TCCCTCTAATCATCCAACCACAAG 60.080 45.833 0.00 0.00 0.00 3.16
66 67 4.324563 CCCTCTAATCATCCAACCACAAGT 60.325 45.833 0.00 0.00 0.00 3.16
67 68 5.256474 CCTCTAATCATCCAACCACAAGTT 58.744 41.667 0.00 0.00 40.16 2.66
83 84 0.324943 AGTTGGTGCGCTAGGTCATT 59.675 50.000 9.73 0.00 0.00 2.57
202 208 6.148480 CCATAAATGACTTATCAGGTAGCTGC 59.852 42.308 17.20 0.00 38.57 5.25
286 293 1.408702 CAACCCACCAACCACTCAAAG 59.591 52.381 0.00 0.00 0.00 2.77
413 423 2.269241 GCCCTGACCTTTCCCTCG 59.731 66.667 0.00 0.00 0.00 4.63
587 598 4.320494 GCAGGTATTGGTTTTGAGTGACTG 60.320 45.833 0.00 0.00 0.00 3.51
707 718 5.654603 TCCTTAAAGTTGATGAGCGTCTA 57.345 39.130 0.00 0.00 0.00 2.59
797 808 4.468153 ACCGGGTTTGGCAATAATAAACAT 59.532 37.500 6.32 0.00 36.34 2.71
799 810 5.877564 CCGGGTTTGGCAATAATAAACATTT 59.122 36.000 0.00 0.00 36.34 2.32
801 812 7.549488 CCGGGTTTGGCAATAATAAACATTTTA 59.451 33.333 0.00 0.00 36.34 1.52
935 946 8.257306 TCAGCACTTTGTCATGTATAATGTCTA 58.743 33.333 0.00 0.00 0.00 2.59
1181 1192 3.694072 CGATCATTGCTGGGAAAGGTAAA 59.306 43.478 0.00 0.00 0.00 2.01
1189 1200 5.636123 TGCTGGGAAAGGTAAATTCTGTTA 58.364 37.500 0.00 0.00 0.00 2.41
1338 1349 9.912634 CTTTAAGATGTCCAATTGTGTATTGTT 57.087 29.630 4.43 0.00 41.74 2.83
1339 1350 9.906660 TTTAAGATGTCCAATTGTGTATTGTTC 57.093 29.630 4.43 0.00 41.74 3.18
1341 1352 8.862325 AAGATGTCCAATTGTGTATTGTTCTA 57.138 30.769 4.43 0.00 41.74 2.10
1342 1353 8.498054 AGATGTCCAATTGTGTATTGTTCTAG 57.502 34.615 4.43 0.00 41.74 2.43
1343 1354 7.554118 AGATGTCCAATTGTGTATTGTTCTAGG 59.446 37.037 4.43 0.00 41.74 3.02
1344 1355 6.774673 TGTCCAATTGTGTATTGTTCTAGGA 58.225 36.000 4.43 0.00 41.74 2.94
1345 1356 7.227873 TGTCCAATTGTGTATTGTTCTAGGAA 58.772 34.615 4.43 0.00 41.74 3.36
1859 1874 5.885912 TGGGGTTCAGCTAGAAATACATTTC 59.114 40.000 6.58 6.58 44.91 2.17
1882 1897 3.971245 GAGGTATTATCAGCCTCCCTG 57.029 52.381 0.00 0.00 42.09 4.45
2166 2182 5.081032 GGCTGAGTGGATATAGGTAGACTT 58.919 45.833 0.00 0.00 0.00 3.01
2296 2312 6.477253 TGTATATTAACTGTTGGTTGCTCCA 58.523 36.000 2.69 0.00 45.60 3.86
2497 2513 8.095452 ACATCATATCTTTACCCTCAGAAAGT 57.905 34.615 0.00 0.00 34.81 2.66
2550 2566 3.877508 ACTATTAAATCTGCTTCGGTGGC 59.122 43.478 0.00 0.00 0.00 5.01
2693 2709 7.101054 AGGTATCAACAGCGTGTTTCTTATTA 58.899 34.615 1.37 0.00 38.77 0.98
2810 2826 8.159447 CCTCCTTATGAGAAATCACCAATCATA 58.841 37.037 0.00 0.00 44.42 2.15
2913 2929 6.630863 CGTTGGTGGGAACTATTAGGTTATCA 60.631 42.308 0.00 0.00 0.00 2.15
2937 2953 1.628846 AGGTGGGTGTAGGATGAACAC 59.371 52.381 0.00 0.00 45.21 3.32
3014 3030 5.537188 GCCACCAATTATTCAAGTGTCAAA 58.463 37.500 0.00 0.00 0.00 2.69
3079 3095 5.010112 TGAGTGGATATAAGTAGACTGCTGC 59.990 44.000 0.00 0.00 0.00 5.25
3101 3117 2.939103 CGTTAGCTAGCAATGCCTTTCT 59.061 45.455 18.83 0.00 0.00 2.52
3170 3186 2.802247 GCAAACAAGAGAAATGGCAACC 59.198 45.455 0.00 0.00 0.00 3.77
3193 3209 9.762381 AACCTCCCATGATTTGTTTATTAACTA 57.238 29.630 0.00 0.00 35.24 2.24
3265 3288 1.947456 AGGCTCAACGGTTTTCTGAAC 59.053 47.619 0.00 0.00 0.00 3.18
3286 6160 7.041721 TGAACGAGATTGTTCTAGCAATATGT 58.958 34.615 12.90 0.00 46.59 2.29
3310 6188 7.820386 TGTTGTAAGACAGTAAGACTTTGTTCA 59.180 33.333 0.00 0.00 34.20 3.18
3356 6262 4.768448 TGTTGATGCTGGTTTCAGATCAAT 59.232 37.500 16.30 0.77 42.36 2.57
3390 6297 5.450592 TGATGTCTATGCTTTTGTTTGCA 57.549 34.783 0.00 0.00 43.67 4.08
3433 6340 6.719365 GCATGAAGCACTTCGTATCTTAAAT 58.281 36.000 4.84 0.00 44.79 1.40
3500 6407 3.390967 TCAAATCTCCTTCTGTGGTGTCA 59.609 43.478 0.00 0.00 0.00 3.58
3563 6470 6.151817 AGAGGGATATGTTTTCTGCAACTTTC 59.848 38.462 0.00 0.00 0.00 2.62
3617 6535 5.329035 ACAGCTGTTGTTCTCACATTTTT 57.671 34.783 15.25 0.00 36.31 1.94
3782 6700 6.568653 GCTCAAGCTAGTTTTCCAGGTAAAAG 60.569 42.308 0.00 0.00 38.21 2.27
3927 6845 4.601621 CATTCACAGACTCTGAATGCAG 57.398 45.455 17.19 0.00 44.86 4.41
4236 7154 1.300931 CACCATGGGATCTACGCCG 60.301 63.158 18.09 0.00 0.00 6.46
4419 7337 6.030228 GCATTACTAGTCAAAATCTTGCACC 58.970 40.000 0.00 0.00 32.14 5.01
4457 7375 5.070446 AGTCAAATCTACAGTTGTGGACAGA 59.930 40.000 0.16 0.00 38.35 3.41
4464 7382 2.894126 ACAGTTGTGGACAGAGGAGTAG 59.106 50.000 0.00 0.00 0.00 2.57
4533 7451 6.817765 AGACAAACGGTTCACATGATATTT 57.182 33.333 0.00 0.00 0.00 1.40
4736 7654 0.536915 GAAGAGAGCCCCATGCATCC 60.537 60.000 0.00 0.00 44.83 3.51
4757 7675 5.698104 TCCCATATGCAAAGATCTCAATGT 58.302 37.500 0.00 0.00 0.00 2.71
4790 7708 3.309296 CACACCTCATATGGAGTAGGGT 58.691 50.000 11.71 5.29 42.40 4.34
4802 7720 2.434336 GGAGTAGGGTGTATCATGTGCA 59.566 50.000 0.00 0.00 0.00 4.57
4834 7752 5.071788 CCCTATTCCTATGCTTGTTGGACTA 59.928 44.000 0.00 0.00 0.00 2.59
4835 7753 5.992217 CCTATTCCTATGCTTGTTGGACTAC 59.008 44.000 0.00 0.00 0.00 2.73
4836 7754 4.901197 TTCCTATGCTTGTTGGACTACA 57.099 40.909 0.00 0.00 0.00 2.74
4837 7755 5.435686 TTCCTATGCTTGTTGGACTACAT 57.564 39.130 0.00 0.00 0.00 2.29
4838 7756 6.553953 TTCCTATGCTTGTTGGACTACATA 57.446 37.500 0.00 0.00 0.00 2.29
4839 7757 5.914033 TCCTATGCTTGTTGGACTACATAC 58.086 41.667 0.00 0.00 0.00 2.39
4840 7758 5.423931 TCCTATGCTTGTTGGACTACATACA 59.576 40.000 0.00 0.00 0.00 2.29
4841 7759 5.755375 CCTATGCTTGTTGGACTACATACAG 59.245 44.000 0.00 0.00 0.00 2.74
4842 7760 4.882842 TGCTTGTTGGACTACATACAGA 57.117 40.909 0.00 0.00 0.00 3.41
4843 7761 4.566004 TGCTTGTTGGACTACATACAGAC 58.434 43.478 0.00 0.00 0.00 3.51
4844 7762 4.283467 TGCTTGTTGGACTACATACAGACT 59.717 41.667 0.00 0.00 0.00 3.24
4845 7763 4.627467 GCTTGTTGGACTACATACAGACTG 59.373 45.833 0.00 0.00 0.00 3.51
4846 7764 5.566826 GCTTGTTGGACTACATACAGACTGA 60.567 44.000 10.08 0.00 0.00 3.41
4847 7765 6.413783 TTGTTGGACTACATACAGACTGAA 57.586 37.500 10.08 0.00 0.00 3.02
4848 7766 6.413783 TGTTGGACTACATACAGACTGAAA 57.586 37.500 10.08 0.00 0.00 2.69
4849 7767 7.004555 TGTTGGACTACATACAGACTGAAAT 57.995 36.000 10.08 0.00 0.00 2.17
4850 7768 6.873605 TGTTGGACTACATACAGACTGAAATG 59.126 38.462 10.08 14.00 0.00 2.32
4851 7769 6.850752 TGGACTACATACAGACTGAAATGA 57.149 37.500 21.47 9.94 0.00 2.57
4852 7770 6.867550 TGGACTACATACAGACTGAAATGAG 58.132 40.000 21.47 17.00 0.00 2.90
4853 7771 6.437477 TGGACTACATACAGACTGAAATGAGT 59.563 38.462 21.47 18.93 0.00 3.41
4854 7772 6.754209 GGACTACATACAGACTGAAATGAGTG 59.246 42.308 21.47 14.86 0.00 3.51
4855 7773 7.363007 GGACTACATACAGACTGAAATGAGTGA 60.363 40.741 21.47 8.83 0.00 3.41
4856 7774 7.896811 ACTACATACAGACTGAAATGAGTGAA 58.103 34.615 21.47 7.35 0.00 3.18
4857 7775 7.815068 ACTACATACAGACTGAAATGAGTGAAC 59.185 37.037 21.47 0.00 0.00 3.18
4858 7776 6.524734 ACATACAGACTGAAATGAGTGAACA 58.475 36.000 21.47 0.00 0.00 3.18
4859 7777 6.992123 ACATACAGACTGAAATGAGTGAACAA 59.008 34.615 21.47 0.00 0.00 2.83
4860 7778 7.498900 ACATACAGACTGAAATGAGTGAACAAA 59.501 33.333 21.47 0.00 0.00 2.83
4861 7779 6.124088 ACAGACTGAAATGAGTGAACAAAC 57.876 37.500 10.08 0.00 0.00 2.93
4862 7780 5.647658 ACAGACTGAAATGAGTGAACAAACA 59.352 36.000 10.08 0.00 0.00 2.83
4863 7781 6.319658 ACAGACTGAAATGAGTGAACAAACAT 59.680 34.615 10.08 0.00 0.00 2.71
4864 7782 7.498900 ACAGACTGAAATGAGTGAACAAACATA 59.501 33.333 10.08 0.00 0.00 2.29
4865 7783 7.800380 CAGACTGAAATGAGTGAACAAACATAC 59.200 37.037 0.00 0.00 0.00 2.39
4866 7784 7.716998 AGACTGAAATGAGTGAACAAACATACT 59.283 33.333 0.00 0.00 0.00 2.12
4867 7785 8.902540 ACTGAAATGAGTGAACAAACATACTA 57.097 30.769 0.00 0.00 0.00 1.82
4868 7786 9.507329 ACTGAAATGAGTGAACAAACATACTAT 57.493 29.630 0.00 0.00 0.00 2.12
4873 7791 7.285783 TGAGTGAACAAACATACTATAACGC 57.714 36.000 0.00 0.00 0.00 4.84
4874 7792 6.034150 TGAGTGAACAAACATACTATAACGCG 59.966 38.462 3.53 3.53 0.00 6.01
4875 7793 5.865552 AGTGAACAAACATACTATAACGCGT 59.134 36.000 5.58 5.58 0.00 6.01
4876 7794 5.949787 GTGAACAAACATACTATAACGCGTG 59.050 40.000 14.98 1.65 0.00 5.34
4877 7795 5.634439 TGAACAAACATACTATAACGCGTGT 59.366 36.000 14.98 9.15 0.00 4.49
4878 7796 5.691508 ACAAACATACTATAACGCGTGTC 57.308 39.130 14.98 0.00 0.00 3.67
4879 7797 5.404946 ACAAACATACTATAACGCGTGTCT 58.595 37.500 14.98 0.00 0.00 3.41
4880 7798 6.554419 ACAAACATACTATAACGCGTGTCTA 58.446 36.000 14.98 0.87 0.00 2.59
4881 7799 7.198390 ACAAACATACTATAACGCGTGTCTAT 58.802 34.615 14.98 10.07 0.00 1.98
4882 7800 8.344831 ACAAACATACTATAACGCGTGTCTATA 58.655 33.333 14.98 10.75 0.00 1.31
4883 7801 8.624877 CAAACATACTATAACGCGTGTCTATAC 58.375 37.037 14.98 0.00 0.00 1.47
4884 7802 7.425577 ACATACTATAACGCGTGTCTATACA 57.574 36.000 14.98 0.80 0.00 2.29
4885 7803 8.037382 ACATACTATAACGCGTGTCTATACAT 57.963 34.615 14.98 3.13 38.08 2.29
4886 7804 8.173775 ACATACTATAACGCGTGTCTATACATC 58.826 37.037 14.98 0.00 38.08 3.06
4887 7805 5.936054 ACTATAACGCGTGTCTATACATCC 58.064 41.667 14.98 0.00 38.08 3.51
4888 7806 4.841443 ATAACGCGTGTCTATACATCCA 57.159 40.909 14.98 0.00 38.08 3.41
4889 7807 3.513680 AACGCGTGTCTATACATCCAA 57.486 42.857 14.98 0.00 38.08 3.53
4890 7808 3.728076 ACGCGTGTCTATACATCCAAT 57.272 42.857 12.93 0.00 38.08 3.16
4891 7809 4.054780 ACGCGTGTCTATACATCCAATT 57.945 40.909 12.93 0.00 38.08 2.32
4892 7810 4.439057 ACGCGTGTCTATACATCCAATTT 58.561 39.130 12.93 0.00 38.08 1.82
4893 7811 5.593968 ACGCGTGTCTATACATCCAATTTA 58.406 37.500 12.93 0.00 38.08 1.40
4894 7812 5.690409 ACGCGTGTCTATACATCCAATTTAG 59.310 40.000 12.93 0.00 38.08 1.85
4895 7813 5.918576 CGCGTGTCTATACATCCAATTTAGA 59.081 40.000 0.00 0.00 38.08 2.10
4896 7814 6.419710 CGCGTGTCTATACATCCAATTTAGAA 59.580 38.462 0.00 0.00 38.08 2.10
4897 7815 7.358435 CGCGTGTCTATACATCCAATTTAGAAG 60.358 40.741 0.00 0.00 38.08 2.85
4898 7816 7.652105 GCGTGTCTATACATCCAATTTAGAAGA 59.348 37.037 0.00 0.00 38.08 2.87
4899 7817 9.529325 CGTGTCTATACATCCAATTTAGAAGAA 57.471 33.333 0.00 0.00 38.08 2.52
4934 7852 9.503427 GAACATCTTATAATTCAAAACGGAAGG 57.497 33.333 0.00 0.00 0.00 3.46
4935 7853 8.801882 ACATCTTATAATTCAAAACGGAAGGA 57.198 30.769 0.00 0.00 0.00 3.36
4936 7854 8.893727 ACATCTTATAATTCAAAACGGAAGGAG 58.106 33.333 0.00 0.00 0.00 3.69
4937 7855 8.893727 CATCTTATAATTCAAAACGGAAGGAGT 58.106 33.333 0.00 0.00 0.00 3.85
4939 7857 9.947433 TCTTATAATTCAAAACGGAAGGAGTAA 57.053 29.630 0.00 0.00 0.00 2.24
4940 7858 9.983804 CTTATAATTCAAAACGGAAGGAGTAAC 57.016 33.333 0.00 0.00 0.00 2.50
4941 7859 9.729281 TTATAATTCAAAACGGAAGGAGTAACT 57.271 29.630 0.00 0.00 0.00 2.24
4943 7861 7.668525 AATTCAAAACGGAAGGAGTAACTAG 57.331 36.000 0.00 0.00 0.00 2.57
4944 7862 5.143376 TCAAAACGGAAGGAGTAACTAGG 57.857 43.478 0.00 0.00 0.00 3.02
4945 7863 4.590222 TCAAAACGGAAGGAGTAACTAGGT 59.410 41.667 0.00 0.00 0.00 3.08
4946 7864 5.774690 TCAAAACGGAAGGAGTAACTAGGTA 59.225 40.000 0.00 0.00 0.00 3.08
4947 7865 5.911378 AAACGGAAGGAGTAACTAGGTAG 57.089 43.478 0.00 0.00 0.00 3.18
4948 7866 3.895998 ACGGAAGGAGTAACTAGGTAGG 58.104 50.000 0.00 0.00 0.00 3.18
4949 7867 3.525199 ACGGAAGGAGTAACTAGGTAGGA 59.475 47.826 0.00 0.00 0.00 2.94
4950 7868 4.167697 ACGGAAGGAGTAACTAGGTAGGAT 59.832 45.833 0.00 0.00 0.00 3.24
4951 7869 5.370880 ACGGAAGGAGTAACTAGGTAGGATA 59.629 44.000 0.00 0.00 0.00 2.59
4952 7870 6.045341 ACGGAAGGAGTAACTAGGTAGGATAT 59.955 42.308 0.00 0.00 0.00 1.63
4953 7871 7.238514 ACGGAAGGAGTAACTAGGTAGGATATA 59.761 40.741 0.00 0.00 0.00 0.86
4954 7872 8.273605 CGGAAGGAGTAACTAGGTAGGATATAT 58.726 40.741 0.00 0.00 0.00 0.86
4955 7873 9.994017 GGAAGGAGTAACTAGGTAGGATATATT 57.006 37.037 0.00 0.00 0.00 1.28
4964 7882 9.900112 AACTAGGTAGGATATATTGTTCCTCTT 57.100 33.333 5.17 0.00 41.50 2.85
4965 7883 9.900112 ACTAGGTAGGATATATTGTTCCTCTTT 57.100 33.333 5.17 0.00 41.50 2.52
4968 7886 8.875168 AGGTAGGATATATTGTTCCTCTTTCTG 58.125 37.037 5.17 0.00 41.50 3.02
4969 7887 8.097662 GGTAGGATATATTGTTCCTCTTTCTGG 58.902 40.741 5.17 0.00 41.50 3.86
4970 7888 7.937700 AGGATATATTGTTCCTCTTTCTGGA 57.062 36.000 0.00 0.00 37.89 3.86
4971 7889 7.972301 AGGATATATTGTTCCTCTTTCTGGAG 58.028 38.462 0.00 0.00 37.89 3.86
4972 7890 7.570607 AGGATATATTGTTCCTCTTTCTGGAGT 59.429 37.037 0.00 0.00 37.89 3.85
4973 7891 8.871125 GGATATATTGTTCCTCTTTCTGGAGTA 58.129 37.037 0.00 0.00 34.76 2.59
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.734465 GGGTTCAAGTCTTGATGCTCG 59.266 52.381 15.95 0.00 39.84 5.03
1 2 2.746362 CAGGGTTCAAGTCTTGATGCTC 59.254 50.000 15.95 11.75 39.84 4.26
2 3 2.373169 TCAGGGTTCAAGTCTTGATGCT 59.627 45.455 15.95 0.00 39.84 3.79
3 4 2.783135 TCAGGGTTCAAGTCTTGATGC 58.217 47.619 15.95 11.57 39.84 3.91
4 5 3.693085 CCATCAGGGTTCAAGTCTTGATG 59.307 47.826 15.95 11.15 39.84 3.07
5 6 3.588842 TCCATCAGGGTTCAAGTCTTGAT 59.411 43.478 15.95 0.00 35.95 2.57
6 7 2.978978 TCCATCAGGGTTCAAGTCTTGA 59.021 45.455 11.36 11.36 38.11 3.02
7 8 3.077359 GTCCATCAGGGTTCAAGTCTTG 58.923 50.000 6.21 6.21 38.11 3.02
8 9 2.982488 AGTCCATCAGGGTTCAAGTCTT 59.018 45.455 0.00 0.00 38.11 3.01
9 10 2.304180 CAGTCCATCAGGGTTCAAGTCT 59.696 50.000 0.00 0.00 38.11 3.24
10 11 2.303022 TCAGTCCATCAGGGTTCAAGTC 59.697 50.000 0.00 0.00 38.11 3.01
11 12 2.304180 CTCAGTCCATCAGGGTTCAAGT 59.696 50.000 0.00 0.00 38.11 3.16
12 13 2.568956 TCTCAGTCCATCAGGGTTCAAG 59.431 50.000 0.00 0.00 38.11 3.02
13 14 2.619931 TCTCAGTCCATCAGGGTTCAA 58.380 47.619 0.00 0.00 38.11 2.69
14 15 2.325661 TCTCAGTCCATCAGGGTTCA 57.674 50.000 0.00 0.00 38.11 3.18
15 16 3.070302 GGTATCTCAGTCCATCAGGGTTC 59.930 52.174 0.00 0.00 38.11 3.62
16 17 3.041946 GGTATCTCAGTCCATCAGGGTT 58.958 50.000 0.00 0.00 38.11 4.11
17 18 2.023015 TGGTATCTCAGTCCATCAGGGT 60.023 50.000 0.00 0.00 38.11 4.34
18 19 2.366916 GTGGTATCTCAGTCCATCAGGG 59.633 54.545 0.00 0.00 33.68 4.45
19 20 3.033909 TGTGGTATCTCAGTCCATCAGG 58.966 50.000 0.00 0.00 33.68 3.86
20 21 3.703556 ACTGTGGTATCTCAGTCCATCAG 59.296 47.826 4.86 0.00 42.07 2.90
21 22 3.713003 ACTGTGGTATCTCAGTCCATCA 58.287 45.455 4.86 0.00 42.07 3.07
27 28 2.313342 AGAGGGACTGTGGTATCTCAGT 59.687 50.000 10.41 10.41 46.53 3.41
28 29 3.025322 AGAGGGACTGTGGTATCTCAG 57.975 52.381 3.50 3.50 41.55 3.35
29 30 4.603094 TTAGAGGGACTGTGGTATCTCA 57.397 45.455 0.00 0.00 41.55 3.27
30 31 5.141182 TGATTAGAGGGACTGTGGTATCTC 58.859 45.833 0.00 0.00 41.55 2.75
31 32 5.144159 TGATTAGAGGGACTGTGGTATCT 57.856 43.478 0.00 0.00 41.55 1.98
32 33 5.046950 GGATGATTAGAGGGACTGTGGTATC 60.047 48.000 0.00 0.00 41.55 2.24
33 34 4.841246 GGATGATTAGAGGGACTGTGGTAT 59.159 45.833 0.00 0.00 41.55 2.73
34 35 4.223953 GGATGATTAGAGGGACTGTGGTA 58.776 47.826 0.00 0.00 41.55 3.25
35 36 3.041946 GGATGATTAGAGGGACTGTGGT 58.958 50.000 0.00 0.00 41.55 4.16
36 37 3.041211 TGGATGATTAGAGGGACTGTGG 58.959 50.000 0.00 0.00 41.55 4.17
37 38 4.446371 GTTGGATGATTAGAGGGACTGTG 58.554 47.826 0.00 0.00 41.55 3.66
38 39 3.456277 GGTTGGATGATTAGAGGGACTGT 59.544 47.826 0.00 0.00 41.55 3.55
39 40 3.455910 TGGTTGGATGATTAGAGGGACTG 59.544 47.826 0.00 0.00 41.55 3.51
41 42 3.199946 TGTGGTTGGATGATTAGAGGGAC 59.800 47.826 0.00 0.00 0.00 4.46
42 43 3.459828 TGTGGTTGGATGATTAGAGGGA 58.540 45.455 0.00 0.00 0.00 4.20
43 44 3.931907 TGTGGTTGGATGATTAGAGGG 57.068 47.619 0.00 0.00 0.00 4.30
44 45 4.848357 ACTTGTGGTTGGATGATTAGAGG 58.152 43.478 0.00 0.00 0.00 3.69
60 61 0.884704 ACCTAGCGCACCAACTTGTG 60.885 55.000 11.47 0.00 39.29 3.33
61 62 0.602905 GACCTAGCGCACCAACTTGT 60.603 55.000 11.47 0.00 0.00 3.16
62 63 0.602638 TGACCTAGCGCACCAACTTG 60.603 55.000 11.47 0.00 0.00 3.16
63 64 0.324943 ATGACCTAGCGCACCAACTT 59.675 50.000 11.47 0.00 0.00 2.66
64 65 0.324943 AATGACCTAGCGCACCAACT 59.675 50.000 11.47 0.00 0.00 3.16
65 66 0.727398 GAATGACCTAGCGCACCAAC 59.273 55.000 11.47 0.00 0.00 3.77
66 67 0.613260 AGAATGACCTAGCGCACCAA 59.387 50.000 11.47 0.00 0.00 3.67
67 68 1.480789 TAGAATGACCTAGCGCACCA 58.519 50.000 11.47 0.00 0.00 4.17
68 69 2.821991 ATAGAATGACCTAGCGCACC 57.178 50.000 11.47 0.00 0.00 5.01
69 70 5.753921 AGTAAAATAGAATGACCTAGCGCAC 59.246 40.000 11.47 0.00 0.00 5.34
70 71 5.914033 AGTAAAATAGAATGACCTAGCGCA 58.086 37.500 11.47 0.00 0.00 6.09
71 72 6.846325 AAGTAAAATAGAATGACCTAGCGC 57.154 37.500 0.00 0.00 0.00 5.92
72 73 7.640240 GCAAAAGTAAAATAGAATGACCTAGCG 59.360 37.037 0.00 0.00 0.00 4.26
73 74 8.678199 AGCAAAAGTAAAATAGAATGACCTAGC 58.322 33.333 0.00 0.00 0.00 3.42
149 155 0.896923 TGTTTAGTACGCCGGACCAT 59.103 50.000 5.05 0.00 0.00 3.55
202 208 2.562738 CCCTGGTTTGGGCTCTAAAAAG 59.437 50.000 0.00 0.00 40.84 2.27
293 300 6.638468 CAGTTGCAGAGTTAGGATTTGTTTTC 59.362 38.462 0.00 0.00 0.00 2.29
295 302 5.507985 GCAGTTGCAGAGTTAGGATTTGTTT 60.508 40.000 0.00 0.00 41.59 2.83
296 303 4.022849 GCAGTTGCAGAGTTAGGATTTGTT 60.023 41.667 0.00 0.00 41.59 2.83
297 304 3.503748 GCAGTTGCAGAGTTAGGATTTGT 59.496 43.478 0.00 0.00 41.59 2.83
390 400 3.249189 AAAGGTCAGGGCCTCGCA 61.249 61.111 0.95 0.00 38.03 5.10
587 598 1.248101 ACCCCCATTTACGCAAGCAC 61.248 55.000 0.00 0.00 45.62 4.40
707 718 2.641321 TGCTCTATCTATGGGCAGCATT 59.359 45.455 0.00 0.00 32.00 3.56
797 808 6.717540 ACTGCATGGTGTAAACTGGTATAAAA 59.282 34.615 0.00 0.00 0.00 1.52
799 810 5.811190 ACTGCATGGTGTAAACTGGTATAA 58.189 37.500 0.00 0.00 0.00 0.98
801 812 4.301072 ACTGCATGGTGTAAACTGGTAT 57.699 40.909 0.00 0.00 0.00 2.73
935 946 7.289549 ACCAAGGTACTAACTAAGACTGAAACT 59.710 37.037 0.00 0.00 38.49 2.66
1189 1200 9.829507 CTCTTCTGATTTCTGGTAGTGATTTAT 57.170 33.333 0.00 0.00 0.00 1.40
1882 1897 4.361451 AGATTGATTGGTGATTTCGCAC 57.639 40.909 0.00 0.00 38.05 5.34
2166 2182 6.183361 GGGAGGAATTGCTATCTAACAGAAGA 60.183 42.308 0.00 0.00 0.00 2.87
2397 2413 3.451526 TGCTCAGCTAATTGATCTGACG 58.548 45.455 0.00 0.00 33.72 4.35
2410 2426 2.765135 ACATAGACATCACTGCTCAGCT 59.235 45.455 0.00 0.00 0.00 4.24
2550 2566 2.348362 TGCTGTCTATGATTTTGCGACG 59.652 45.455 0.00 0.00 0.00 5.12
2638 2654 4.023107 GCATCGTCTATTACAGTAGCCTGA 60.023 45.833 0.00 0.00 41.50 3.86
2913 2929 3.414759 TCATCCTACACCCACCTGTAT 57.585 47.619 0.00 0.00 0.00 2.29
2937 2953 5.361857 AGTCATCCATTTTGGCCATCTAAAG 59.638 40.000 6.09 0.00 37.47 1.85
3079 3095 1.668419 AAGGCATTGCTAGCTAACGG 58.332 50.000 17.23 4.03 0.00 4.44
3101 3117 7.286546 TCCTAAAACATGAGGATTGTTTGTTCA 59.713 33.333 0.00 0.00 44.32 3.18
3122 3138 6.431852 CCAAAAGAAAACGGATTACCTCCTAA 59.568 38.462 0.00 0.00 42.47 2.69
3193 3209 0.036952 CGTGATCCAGAGCAACCAGT 60.037 55.000 0.00 0.00 0.00 4.00
3265 3288 7.239166 ACAACATATTGCTAGAACAATCTCG 57.761 36.000 0.00 0.00 40.64 4.04
3286 6160 8.826710 CATGAACAAAGTCTTACTGTCTTACAA 58.173 33.333 0.00 0.00 0.00 2.41
3310 6188 2.193993 GTCTTACCCAGTACCCACCAT 58.806 52.381 0.00 0.00 0.00 3.55
3356 6262 2.391616 AGACATCATTGCTCAGCGAA 57.608 45.000 0.00 0.00 0.00 4.70
3390 6297 3.700538 TGCCAAGCAAGGAGTTCATAAT 58.299 40.909 0.00 0.00 34.76 1.28
3433 6340 7.542477 CGCTTGAATCTTAAGTCTTTCTGAGTA 59.458 37.037 1.63 0.00 0.00 2.59
3479 6386 3.499918 GTGACACCACAGAAGGAGATTTG 59.500 47.826 0.00 0.00 42.72 2.32
3563 6470 3.451178 TCCAGTAGCCTACTAAGCAAAGG 59.549 47.826 3.61 0.00 37.23 3.11
4236 7154 9.097257 TCAAGATTTCAAAATCAAAAGGTTGAC 57.903 29.630 15.75 0.00 46.40 3.18
4419 7337 3.577649 TTTGACTTCTAGCTGTCCTCG 57.422 47.619 0.00 0.00 32.67 4.63
4457 7375 5.397786 GGCAAGGTAGTACTACTCTACTCCT 60.398 48.000 27.71 14.80 38.16 3.69
4464 7382 5.974108 TGAAATGGCAAGGTAGTACTACTC 58.026 41.667 27.71 19.13 36.36 2.59
4533 7451 2.605837 TAAGAACAACGTCAGTGGCA 57.394 45.000 0.00 0.00 0.00 4.92
4584 7502 5.942236 CCCCATACATCGATTGATTTGATCT 59.058 40.000 0.00 0.00 30.49 2.75
4585 7503 5.939883 TCCCCATACATCGATTGATTTGATC 59.060 40.000 0.00 0.00 30.49 2.92
4586 7504 5.879763 TCCCCATACATCGATTGATTTGAT 58.120 37.500 0.00 0.00 30.49 2.57
4587 7505 5.071653 TCTCCCCATACATCGATTGATTTGA 59.928 40.000 0.00 0.00 30.49 2.69
4736 7654 7.443272 TGACTACATTGAGATCTTTGCATATGG 59.557 37.037 4.56 0.00 0.00 2.74
4751 7669 5.650266 AGGTGTGTTTGTTTGACTACATTGA 59.350 36.000 0.00 0.00 0.00 2.57
4757 7675 6.429692 CCATATGAGGTGTGTTTGTTTGACTA 59.570 38.462 3.65 0.00 0.00 2.59
4790 7708 2.615240 GGGTGTCACTGCACATGATACA 60.615 50.000 18.92 5.08 39.28 2.29
4802 7720 2.706190 GCATAGGAATAGGGGTGTCACT 59.294 50.000 2.35 0.00 0.00 3.41
4834 7752 6.524734 TGTTCACTCATTTCAGTCTGTATGT 58.475 36.000 13.61 0.32 0.00 2.29
4835 7753 7.425577 TTGTTCACTCATTTCAGTCTGTATG 57.574 36.000 0.00 5.69 0.00 2.39
4836 7754 7.498900 TGTTTGTTCACTCATTTCAGTCTGTAT 59.501 33.333 0.00 0.00 0.00 2.29
4837 7755 6.821160 TGTTTGTTCACTCATTTCAGTCTGTA 59.179 34.615 0.00 0.00 0.00 2.74
4838 7756 5.647658 TGTTTGTTCACTCATTTCAGTCTGT 59.352 36.000 0.00 0.00 0.00 3.41
4839 7757 6.122850 TGTTTGTTCACTCATTTCAGTCTG 57.877 37.500 0.00 0.00 0.00 3.51
4840 7758 6.949352 ATGTTTGTTCACTCATTTCAGTCT 57.051 33.333 0.00 0.00 0.00 3.24
4841 7759 7.865707 AGTATGTTTGTTCACTCATTTCAGTC 58.134 34.615 0.00 0.00 0.00 3.51
4842 7760 7.807977 AGTATGTTTGTTCACTCATTTCAGT 57.192 32.000 0.00 0.00 0.00 3.41
4847 7765 8.388103 GCGTTATAGTATGTTTGTTCACTCATT 58.612 33.333 0.00 0.00 0.00 2.57
4848 7766 7.253983 CGCGTTATAGTATGTTTGTTCACTCAT 60.254 37.037 0.00 0.00 0.00 2.90
4849 7767 6.034150 CGCGTTATAGTATGTTTGTTCACTCA 59.966 38.462 0.00 0.00 0.00 3.41
4850 7768 6.034256 ACGCGTTATAGTATGTTTGTTCACTC 59.966 38.462 5.58 0.00 0.00 3.51
4851 7769 5.865552 ACGCGTTATAGTATGTTTGTTCACT 59.134 36.000 5.58 0.00 0.00 3.41
4852 7770 5.949787 CACGCGTTATAGTATGTTTGTTCAC 59.050 40.000 10.22 0.00 0.00 3.18
4853 7771 5.634439 ACACGCGTTATAGTATGTTTGTTCA 59.366 36.000 10.22 0.00 0.00 3.18
4854 7772 6.034256 AGACACGCGTTATAGTATGTTTGTTC 59.966 38.462 10.22 0.00 0.00 3.18
4855 7773 5.865552 AGACACGCGTTATAGTATGTTTGTT 59.134 36.000 10.22 0.00 0.00 2.83
4856 7774 5.404946 AGACACGCGTTATAGTATGTTTGT 58.595 37.500 10.22 0.00 0.00 2.83
4857 7775 5.944049 AGACACGCGTTATAGTATGTTTG 57.056 39.130 10.22 0.00 0.00 2.93
4858 7776 8.344831 TGTATAGACACGCGTTATAGTATGTTT 58.655 33.333 10.22 0.00 0.00 2.83
4859 7777 7.864686 TGTATAGACACGCGTTATAGTATGTT 58.135 34.615 10.22 0.00 0.00 2.71
4860 7778 7.425577 TGTATAGACACGCGTTATAGTATGT 57.574 36.000 10.22 0.46 0.00 2.29
4861 7779 7.639072 GGATGTATAGACACGCGTTATAGTATG 59.361 40.741 10.22 0.00 38.76 2.39
4862 7780 7.335171 TGGATGTATAGACACGCGTTATAGTAT 59.665 37.037 10.22 4.09 38.76 2.12
4863 7781 6.650390 TGGATGTATAGACACGCGTTATAGTA 59.350 38.462 10.22 2.64 38.76 1.82
4864 7782 5.471116 TGGATGTATAGACACGCGTTATAGT 59.529 40.000 10.22 3.71 38.76 2.12
4865 7783 5.934921 TGGATGTATAGACACGCGTTATAG 58.065 41.667 10.22 0.00 38.76 1.31
4866 7784 5.945466 TGGATGTATAGACACGCGTTATA 57.055 39.130 10.22 7.07 38.76 0.98
4867 7785 4.841443 TGGATGTATAGACACGCGTTAT 57.159 40.909 10.22 8.23 38.76 1.89
4868 7786 4.635833 TTGGATGTATAGACACGCGTTA 57.364 40.909 10.22 0.00 38.76 3.18
4869 7787 3.513680 TTGGATGTATAGACACGCGTT 57.486 42.857 10.22 0.17 38.76 4.84
4870 7788 3.728076 ATTGGATGTATAGACACGCGT 57.272 42.857 5.58 5.58 38.76 6.01
4871 7789 5.918576 TCTAAATTGGATGTATAGACACGCG 59.081 40.000 3.53 3.53 38.76 6.01
4872 7790 7.652105 TCTTCTAAATTGGATGTATAGACACGC 59.348 37.037 0.00 0.00 38.76 5.34
4873 7791 9.529325 TTCTTCTAAATTGGATGTATAGACACG 57.471 33.333 0.00 0.00 38.76 4.49
4908 7826 9.503427 CCTTCCGTTTTGAATTATAAGATGTTC 57.497 33.333 0.00 0.00 0.00 3.18
4909 7827 9.238368 TCCTTCCGTTTTGAATTATAAGATGTT 57.762 29.630 0.00 0.00 0.00 2.71
4910 7828 8.801882 TCCTTCCGTTTTGAATTATAAGATGT 57.198 30.769 0.00 0.00 0.00 3.06
4911 7829 8.893727 ACTCCTTCCGTTTTGAATTATAAGATG 58.106 33.333 0.00 0.00 0.00 2.90
4913 7831 9.947433 TTACTCCTTCCGTTTTGAATTATAAGA 57.053 29.630 0.00 0.00 0.00 2.10
4914 7832 9.983804 GTTACTCCTTCCGTTTTGAATTATAAG 57.016 33.333 0.00 0.00 0.00 1.73
4915 7833 9.729281 AGTTACTCCTTCCGTTTTGAATTATAA 57.271 29.630 0.00 0.00 0.00 0.98
4917 7835 9.379791 CTAGTTACTCCTTCCGTTTTGAATTAT 57.620 33.333 0.00 0.00 0.00 1.28
4918 7836 7.820872 CCTAGTTACTCCTTCCGTTTTGAATTA 59.179 37.037 0.00 0.00 0.00 1.40
4919 7837 6.653740 CCTAGTTACTCCTTCCGTTTTGAATT 59.346 38.462 0.00 0.00 0.00 2.17
4920 7838 6.171213 CCTAGTTACTCCTTCCGTTTTGAAT 58.829 40.000 0.00 0.00 0.00 2.57
4921 7839 5.070847 ACCTAGTTACTCCTTCCGTTTTGAA 59.929 40.000 0.00 0.00 0.00 2.69
4922 7840 4.590222 ACCTAGTTACTCCTTCCGTTTTGA 59.410 41.667 0.00 0.00 0.00 2.69
4923 7841 4.891260 ACCTAGTTACTCCTTCCGTTTTG 58.109 43.478 0.00 0.00 0.00 2.44
4924 7842 5.186603 CCTACCTAGTTACTCCTTCCGTTTT 59.813 44.000 0.00 0.00 0.00 2.43
4925 7843 4.708909 CCTACCTAGTTACTCCTTCCGTTT 59.291 45.833 0.00 0.00 0.00 3.60
4926 7844 4.018050 TCCTACCTAGTTACTCCTTCCGTT 60.018 45.833 0.00 0.00 0.00 4.44
4927 7845 3.525199 TCCTACCTAGTTACTCCTTCCGT 59.475 47.826 0.00 0.00 0.00 4.69
4928 7846 4.162040 TCCTACCTAGTTACTCCTTCCG 57.838 50.000 0.00 0.00 0.00 4.30
4929 7847 9.994017 AATATATCCTACCTAGTTACTCCTTCC 57.006 37.037 0.00 0.00 0.00 3.46
4938 7856 9.900112 AAGAGGAACAATATATCCTACCTAGTT 57.100 33.333 4.98 0.00 46.04 2.24
4939 7857 9.900112 AAAGAGGAACAATATATCCTACCTAGT 57.100 33.333 4.98 0.00 46.04 2.57
4942 7860 8.875168 CAGAAAGAGGAACAATATATCCTACCT 58.125 37.037 4.98 0.00 46.04 3.08
4943 7861 8.097662 CCAGAAAGAGGAACAATATATCCTACC 58.902 40.741 4.98 0.00 46.04 3.18
4944 7862 8.871125 TCCAGAAAGAGGAACAATATATCCTAC 58.129 37.037 4.98 1.30 46.04 3.18
4945 7863 9.094578 CTCCAGAAAGAGGAACAATATATCCTA 57.905 37.037 4.98 0.00 46.04 2.94
4947 7865 7.740805 ACTCCAGAAAGAGGAACAATATATCC 58.259 38.462 0.00 0.00 38.26 2.59


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

AutoCloner maintained by Alex Coulton.