Multiple sequence alignment - TraesCS2B01G168300

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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 TraesCS2B01G168300 chr2B 100.000 3044 0 0 1 3044 141146392 141149435 0.000000e+00 5622.0
1 TraesCS2B01G168300 chr2B 79.555 988 165 29 1038 2011 141282585 141283549 0.000000e+00 671.0
2 TraesCS2B01G168300 chr2B 87.931 58 7 0 1513 1570 583529770 583529713 5.450000e-08 69.4
3 TraesCS2B01G168300 chr2D 90.410 2221 135 37 867 3044 87806006 87808191 0.000000e+00 2850.0
4 TraesCS2B01G168300 chr2D 79.289 985 164 30 1038 2011 88088289 88089244 0.000000e+00 652.0
5 TraesCS2B01G168300 chr2D 84.668 587 59 19 81 638 87803999 87804583 9.530000e-155 556.0
6 TraesCS2B01G168300 chr2A 91.631 1410 75 26 888 2261 88280713 88282115 0.000000e+00 1910.0
7 TraesCS2B01G168300 chr2A 79.719 996 162 30 1033 2011 88299518 88300490 0.000000e+00 684.0
8 TraesCS2B01G168300 chr2A 80.480 625 65 30 81 666 88277434 88278040 2.810000e-115 425.0
9 TraesCS2B01G168300 chr2A 92.893 197 10 1 707 899 88278204 88278400 1.790000e-72 283.0
10 TraesCS2B01G168300 chr7B 79.550 934 163 19 1095 2020 61113777 61112864 2.560000e-180 641.0
11 TraesCS2B01G168300 chr7B 98.750 80 1 0 1 80 487629957 487630036 3.160000e-30 143.0
12 TraesCS2B01G168300 chr7A 79.230 857 139 26 1187 2020 107798652 107797812 7.370000e-156 560.0
13 TraesCS2B01G168300 chr7A 94.565 92 3 2 1 91 284457354 284457444 1.140000e-29 141.0
14 TraesCS2B01G168300 chr7D 78.169 284 57 5 148 427 244550956 244551238 3.120000e-40 176.0
15 TraesCS2B01G168300 chr7D 72.047 508 91 30 1033 1525 611159572 611159101 1.490000e-18 104.0
16 TraesCS2B01G168300 chr5B 98.795 83 1 0 1 83 353386704 353386622 6.800000e-32 148.0
17 TraesCS2B01G168300 chr5B 91.837 49 4 0 1514 1562 420180593 420180641 5.450000e-08 69.4
18 TraesCS2B01G168300 chr3B 98.765 81 1 0 1 81 190525471 190525391 8.800000e-31 145.0
19 TraesCS2B01G168300 chr1D 98.750 80 1 0 1 80 67926055 67925976 3.160000e-30 143.0
20 TraesCS2B01G168300 chr4B 96.512 86 2 1 1 85 25206886 25206971 1.140000e-29 141.0
21 TraesCS2B01G168300 chr1A 97.561 82 2 0 1 82 395781001 395780920 1.140000e-29 141.0
22 TraesCS2B01G168300 chr1A 97.561 82 2 0 1 82 542506878 542506797 1.140000e-29 141.0
23 TraesCS2B01G168300 chr1A 80.833 120 19 3 255 373 4529964 4529848 1.160000e-14 91.6
24 TraesCS2B01G168300 chr5A 95.455 88 3 1 1 88 660247355 660247269 4.090000e-29 139.0
25 TraesCS2B01G168300 chr5D 100.000 30 0 0 2987 3016 287780866 287780837 4.240000e-04 56.5


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 TraesCS2B01G168300 chr2B 141146392 141149435 3043 False 5622.000000 5622 100.000000 1 3044 1 chr2B.!!$F1 3043
1 TraesCS2B01G168300 chr2B 141282585 141283549 964 False 671.000000 671 79.555000 1038 2011 1 chr2B.!!$F2 973
2 TraesCS2B01G168300 chr2D 87803999 87808191 4192 False 1703.000000 2850 87.539000 81 3044 2 chr2D.!!$F2 2963
3 TraesCS2B01G168300 chr2D 88088289 88089244 955 False 652.000000 652 79.289000 1038 2011 1 chr2D.!!$F1 973
4 TraesCS2B01G168300 chr2A 88277434 88282115 4681 False 872.666667 1910 88.334667 81 2261 3 chr2A.!!$F2 2180
5 TraesCS2B01G168300 chr2A 88299518 88300490 972 False 684.000000 684 79.719000 1033 2011 1 chr2A.!!$F1 978
6 TraesCS2B01G168300 chr7B 61112864 61113777 913 True 641.000000 641 79.550000 1095 2020 1 chr7B.!!$R1 925
7 TraesCS2B01G168300 chr7A 107797812 107798652 840 True 560.000000 560 79.230000 1187 2020 1 chr7A.!!$R1 833

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
45 46 0.037303 AGGGTCGTGAAGTCGTAGGA 59.963 55.0 0.00 0.0 0.0 2.94 F
503 540 0.248621 GCGGTGCACTATGATTTGCC 60.249 55.0 17.98 0.0 38.0 4.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1668 5445 1.220206 CTCCAGTGCTTGCTCCGAT 59.780 57.895 0.0 0.0 0.0 4.18 R
2238 6023 0.035152 GCCATCACTGTCATGTCCCA 60.035 55.000 0.0 0.0 0.0 4.37 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
19 20 1.679139 TGGGATTTGGATCGACATGC 58.321 50.000 0.00 0.00 32.84 4.06
20 21 1.212688 TGGGATTTGGATCGACATGCT 59.787 47.619 0.00 0.00 32.84 3.79
21 22 2.301346 GGGATTTGGATCGACATGCTT 58.699 47.619 0.00 0.00 32.84 3.91
22 23 2.291741 GGGATTTGGATCGACATGCTTC 59.708 50.000 0.00 0.00 32.84 3.86
23 24 3.209410 GGATTTGGATCGACATGCTTCT 58.791 45.455 0.00 0.00 32.84 2.85
24 25 3.003068 GGATTTGGATCGACATGCTTCTG 59.997 47.826 0.00 0.00 32.84 3.02
25 26 2.768253 TTGGATCGACATGCTTCTGT 57.232 45.000 0.00 0.00 0.00 3.41
26 27 3.885724 TTGGATCGACATGCTTCTGTA 57.114 42.857 0.00 0.00 0.00 2.74
27 28 3.443099 TGGATCGACATGCTTCTGTAG 57.557 47.619 0.00 0.00 0.00 2.74
28 29 2.101415 TGGATCGACATGCTTCTGTAGG 59.899 50.000 0.00 0.00 0.00 3.18
29 30 2.546795 GGATCGACATGCTTCTGTAGGG 60.547 54.545 0.00 0.00 0.00 3.53
30 31 1.557099 TCGACATGCTTCTGTAGGGT 58.443 50.000 0.00 0.00 0.00 4.34
31 32 1.476891 TCGACATGCTTCTGTAGGGTC 59.523 52.381 0.00 0.00 0.00 4.46
32 33 1.799181 CGACATGCTTCTGTAGGGTCG 60.799 57.143 0.00 0.00 40.26 4.79
33 34 1.204941 GACATGCTTCTGTAGGGTCGT 59.795 52.381 0.00 0.00 0.00 4.34
34 35 1.066858 ACATGCTTCTGTAGGGTCGTG 60.067 52.381 0.00 0.00 0.00 4.35
35 36 1.204704 CATGCTTCTGTAGGGTCGTGA 59.795 52.381 0.00 0.00 0.00 4.35
36 37 1.334160 TGCTTCTGTAGGGTCGTGAA 58.666 50.000 0.00 0.00 0.00 3.18
37 38 1.272490 TGCTTCTGTAGGGTCGTGAAG 59.728 52.381 0.00 0.00 37.69 3.02
38 39 1.272769 GCTTCTGTAGGGTCGTGAAGT 59.727 52.381 0.00 0.00 37.17 3.01
39 40 2.671632 GCTTCTGTAGGGTCGTGAAGTC 60.672 54.545 0.00 0.00 37.17 3.01
40 41 1.162698 TCTGTAGGGTCGTGAAGTCG 58.837 55.000 0.00 0.00 0.00 4.18
41 42 0.879765 CTGTAGGGTCGTGAAGTCGT 59.120 55.000 0.00 0.00 0.00 4.34
42 43 2.079158 CTGTAGGGTCGTGAAGTCGTA 58.921 52.381 0.00 0.00 0.00 3.43
43 44 2.079158 TGTAGGGTCGTGAAGTCGTAG 58.921 52.381 0.00 0.00 0.00 3.51
44 45 1.399791 GTAGGGTCGTGAAGTCGTAGG 59.600 57.143 0.00 0.00 0.00 3.18
45 46 0.037303 AGGGTCGTGAAGTCGTAGGA 59.963 55.000 0.00 0.00 0.00 2.94
46 47 1.101331 GGGTCGTGAAGTCGTAGGAT 58.899 55.000 0.00 0.00 0.00 3.24
47 48 1.475682 GGGTCGTGAAGTCGTAGGATT 59.524 52.381 0.00 0.00 0.00 3.01
48 49 2.479219 GGGTCGTGAAGTCGTAGGATTC 60.479 54.545 0.00 0.00 0.00 2.52
49 50 2.422832 GGTCGTGAAGTCGTAGGATTCT 59.577 50.000 0.00 0.00 0.00 2.40
50 51 3.624861 GGTCGTGAAGTCGTAGGATTCTA 59.375 47.826 0.00 0.00 0.00 2.10
51 52 4.260702 GGTCGTGAAGTCGTAGGATTCTAG 60.261 50.000 0.00 0.00 0.00 2.43
52 53 3.311871 TCGTGAAGTCGTAGGATTCTAGC 59.688 47.826 0.00 0.00 0.00 3.42
53 54 3.064958 CGTGAAGTCGTAGGATTCTAGCA 59.935 47.826 0.00 0.00 0.00 3.49
54 55 4.602995 GTGAAGTCGTAGGATTCTAGCAG 58.397 47.826 0.00 0.00 0.00 4.24
55 56 4.096682 GTGAAGTCGTAGGATTCTAGCAGT 59.903 45.833 0.00 0.00 0.00 4.40
56 57 4.705507 TGAAGTCGTAGGATTCTAGCAGTT 59.294 41.667 0.00 0.00 0.00 3.16
57 58 4.640789 AGTCGTAGGATTCTAGCAGTTG 57.359 45.455 0.00 0.00 0.00 3.16
58 59 4.270834 AGTCGTAGGATTCTAGCAGTTGA 58.729 43.478 0.00 0.00 0.00 3.18
59 60 4.705507 AGTCGTAGGATTCTAGCAGTTGAA 59.294 41.667 0.00 0.00 0.00 2.69
60 61 5.361285 AGTCGTAGGATTCTAGCAGTTGAAT 59.639 40.000 0.00 0.00 35.83 2.57
61 62 5.688176 GTCGTAGGATTCTAGCAGTTGAATC 59.312 44.000 0.00 0.00 44.48 2.52
62 63 4.677378 CGTAGGATTCTAGCAGTTGAATCG 59.323 45.833 0.00 0.00 45.50 3.34
63 64 4.065321 AGGATTCTAGCAGTTGAATCGG 57.935 45.455 0.00 0.00 45.50 4.18
64 65 3.134458 GGATTCTAGCAGTTGAATCGGG 58.866 50.000 0.00 0.00 45.50 5.14
65 66 3.181465 GGATTCTAGCAGTTGAATCGGGA 60.181 47.826 0.00 0.00 45.50 5.14
66 67 4.503991 GGATTCTAGCAGTTGAATCGGGAT 60.504 45.833 0.00 0.00 45.50 3.85
67 68 4.487714 TTCTAGCAGTTGAATCGGGATT 57.512 40.909 0.00 0.00 0.00 3.01
68 69 4.060038 TCTAGCAGTTGAATCGGGATTC 57.940 45.455 13.22 13.22 45.55 2.52
69 70 3.706594 TCTAGCAGTTGAATCGGGATTCT 59.293 43.478 19.06 4.07 45.55 2.40
70 71 2.636830 AGCAGTTGAATCGGGATTCTG 58.363 47.619 19.06 11.92 45.55 3.02
71 72 2.237143 AGCAGTTGAATCGGGATTCTGA 59.763 45.455 19.06 8.00 45.55 3.27
72 73 2.352960 GCAGTTGAATCGGGATTCTGAC 59.647 50.000 19.06 16.68 45.55 3.51
73 74 3.866651 CAGTTGAATCGGGATTCTGACT 58.133 45.455 19.06 18.13 45.55 3.41
74 75 4.680708 GCAGTTGAATCGGGATTCTGACTA 60.681 45.833 19.06 0.00 45.55 2.59
75 76 4.806247 CAGTTGAATCGGGATTCTGACTAC 59.194 45.833 19.06 10.83 45.55 2.73
76 77 4.120589 GTTGAATCGGGATTCTGACTACC 58.879 47.826 19.06 0.00 45.55 3.18
77 78 3.643237 TGAATCGGGATTCTGACTACCT 58.357 45.455 19.06 0.00 45.55 3.08
78 79 4.030913 TGAATCGGGATTCTGACTACCTT 58.969 43.478 19.06 0.00 45.55 3.50
79 80 4.141937 TGAATCGGGATTCTGACTACCTTG 60.142 45.833 19.06 0.00 45.55 3.61
85 86 3.431486 GGATTCTGACTACCTTGCTCTGG 60.431 52.174 0.00 0.00 0.00 3.86
117 118 3.413846 TGATCTGCTTCTATCATGGGC 57.586 47.619 0.00 0.00 0.00 5.36
136 137 0.888619 CTTGTCCTCTGTCGGTAGCA 59.111 55.000 0.00 0.00 0.00 3.49
152 153 1.967535 GCAGTTGGCTTCTTTCCCC 59.032 57.895 0.00 0.00 40.25 4.81
179 180 1.472188 GTTAGGTGGAGAGGCGTAGT 58.528 55.000 0.00 0.00 0.00 2.73
184 185 1.000771 TGGAGAGGCGTAGTGCTCT 60.001 57.895 0.00 0.00 45.43 4.09
185 186 0.255033 TGGAGAGGCGTAGTGCTCTA 59.745 55.000 0.00 0.00 45.43 2.43
253 278 2.741228 GCTTCTTGGAGCTGTCATCGAT 60.741 50.000 0.00 0.00 39.57 3.59
259 284 2.159184 TGGAGCTGTCATCGATGAGTTC 60.159 50.000 27.95 21.89 37.51 3.01
267 292 4.464244 TGTCATCGATGAGTTCCTTCTCTT 59.536 41.667 27.95 0.00 37.51 2.85
316 341 2.095415 GGTTATCGTGAAGGTTGTTGGC 60.095 50.000 0.00 0.00 0.00 4.52
320 345 0.950836 CGTGAAGGTTGTTGGCATGA 59.049 50.000 0.00 0.00 0.00 3.07
334 359 1.644786 GCATGACCGGACTTTTCCCG 61.645 60.000 9.46 0.00 46.10 5.14
388 413 0.811281 GAAAGCCTTGATTCGGTGGG 59.189 55.000 0.00 0.00 0.00 4.61
392 417 1.991230 CCTTGATTCGGTGGGGTCT 59.009 57.895 0.00 0.00 0.00 3.85
395 420 2.420129 CCTTGATTCGGTGGGGTCTTAG 60.420 54.545 0.00 0.00 0.00 2.18
427 452 0.729690 GATGCTTCTTGAAGGCGTCC 59.270 55.000 11.70 0.00 36.38 4.79
446 480 1.078848 GAGCTCGCCCACACATCTT 60.079 57.895 0.00 0.00 0.00 2.40
449 483 1.639298 GCTCGCCCACACATCTTCAC 61.639 60.000 0.00 0.00 0.00 3.18
466 500 0.250124 CACGTTTGACACCCCAGCTA 60.250 55.000 0.00 0.00 0.00 3.32
467 501 0.470766 ACGTTTGACACCCCAGCTAA 59.529 50.000 0.00 0.00 0.00 3.09
503 540 0.248621 GCGGTGCACTATGATTTGCC 60.249 55.000 17.98 0.00 38.00 4.52
531 574 1.567537 CACGTGCGTTACTGTTGGG 59.432 57.895 0.82 0.00 0.00 4.12
538 581 1.529865 GCGTTACTGTTGGGAACTGTC 59.470 52.381 2.68 0.00 41.75 3.51
562 605 4.081420 CCCCGTCCAAATATCTCCATCTAG 60.081 50.000 0.00 0.00 0.00 2.43
680 2027 3.368236 GCAAGTACGAGCGAAGAAAGATT 59.632 43.478 0.00 0.00 0.00 2.40
709 2088 4.849329 GCGTTCGGCCGATCTCGT 62.849 66.667 31.56 0.00 37.74 4.18
722 2112 3.251245 CCGATCTCGTCATTGCTACTACT 59.749 47.826 0.00 0.00 37.74 2.57
723 2113 4.451435 CCGATCTCGTCATTGCTACTACTA 59.549 45.833 0.00 0.00 37.74 1.82
724 2114 5.375717 CGATCTCGTCATTGCTACTACTAC 58.624 45.833 0.00 0.00 34.11 2.73
729 2119 4.885325 TCGTCATTGCTACTACTACATCCA 59.115 41.667 0.00 0.00 0.00 3.41
740 2130 2.417652 ACTACATCCATACATGCCCCA 58.582 47.619 0.00 0.00 0.00 4.96
798 2198 1.678970 ACTGCCGGCTGGAAAATCC 60.679 57.895 33.10 0.00 37.49 3.01
903 4631 0.459063 CTGCTAGTCGCTGCATGACA 60.459 55.000 18.22 6.60 38.83 3.58
929 4657 5.572126 GGACGTTGTCTTTGTCACTATAGTC 59.428 44.000 1.26 0.00 34.32 2.59
1009 4749 1.219124 GCAGAGAGAATGTCCGGCA 59.781 57.895 0.00 0.00 0.00 5.69
1128 4880 0.602905 CCGTCAACCGCTTCCTCTTT 60.603 55.000 0.00 0.00 34.38 2.52
1451 5225 2.437359 CTACGACGACGGGGAGGT 60.437 66.667 12.58 0.00 44.46 3.85
1453 5227 3.252627 TACGACGACGGGGAGGTCA 62.253 63.158 12.58 0.00 44.46 4.02
1477 5254 3.315949 GGTACCTCGCCACCACCA 61.316 66.667 4.06 0.00 34.77 4.17
1668 5445 2.362120 GGAGAGGACCGGACCGAA 60.362 66.667 17.49 0.00 34.73 4.30
1962 5739 4.557205 CTGTACACGCCTTCTACTTCTTT 58.443 43.478 0.00 0.00 0.00 2.52
2087 5864 0.316772 CACTCGTCGACTCGTTGTGT 60.317 55.000 14.70 1.74 34.67 3.72
2088 5865 0.379669 ACTCGTCGACTCGTTGTGTT 59.620 50.000 14.70 0.00 0.00 3.32
2090 5867 1.447201 CTCGTCGACTCGTTGTGTTTC 59.553 52.381 14.70 0.00 0.00 2.78
2092 5869 1.187271 CGTCGACTCGTTGTGTTTCTG 59.813 52.381 14.70 0.00 0.00 3.02
2095 5872 2.033675 TCGACTCGTTGTGTTTCTGCTA 59.966 45.455 0.00 0.00 0.00 3.49
2096 5873 2.792674 CGACTCGTTGTGTTTCTGCTAA 59.207 45.455 0.00 0.00 0.00 3.09
2097 5874 3.428870 CGACTCGTTGTGTTTCTGCTAAT 59.571 43.478 0.00 0.00 0.00 1.73
2098 5875 4.664139 CGACTCGTTGTGTTTCTGCTAATG 60.664 45.833 0.00 0.00 0.00 1.90
2099 5876 4.127171 ACTCGTTGTGTTTCTGCTAATGT 58.873 39.130 0.00 0.00 0.00 2.71
2100 5877 5.294356 ACTCGTTGTGTTTCTGCTAATGTA 58.706 37.500 0.00 0.00 0.00 2.29
2101 5878 5.932303 ACTCGTTGTGTTTCTGCTAATGTAT 59.068 36.000 0.00 0.00 0.00 2.29
2104 5881 6.649141 TCGTTGTGTTTCTGCTAATGTATCTT 59.351 34.615 0.00 0.00 0.00 2.40
2105 5882 6.738200 CGTTGTGTTTCTGCTAATGTATCTTG 59.262 38.462 0.00 0.00 0.00 3.02
2107 5884 7.744087 TGTGTTTCTGCTAATGTATCTTGTT 57.256 32.000 0.00 0.00 0.00 2.83
2108 5885 7.584108 TGTGTTTCTGCTAATGTATCTTGTTG 58.416 34.615 0.00 0.00 0.00 3.33
2109 5886 7.023575 GTGTTTCTGCTAATGTATCTTGTTGG 58.976 38.462 0.00 0.00 0.00 3.77
2112 5889 7.558161 TTCTGCTAATGTATCTTGTTGGATG 57.442 36.000 0.00 0.00 0.00 3.51
2113 5890 5.528690 TCTGCTAATGTATCTTGTTGGATGC 59.471 40.000 0.00 0.00 0.00 3.91
2121 5906 3.492102 TCTTGTTGGATGCTATAGCCC 57.508 47.619 21.84 16.43 41.18 5.19
2173 5958 5.865552 GCCGCGTCCATCTAAATTATTACTA 59.134 40.000 4.92 0.00 0.00 1.82
2200 5985 6.311935 GTGTTGTATAAGTTCGAGTTGCCATA 59.688 38.462 0.00 0.00 0.00 2.74
2227 6012 7.535295 CGATATTTTCGTTGTGCAACATGTGT 61.535 38.462 14.37 1.52 42.95 3.72
2238 6023 2.231964 GCAACATGTGTCATGGGTGATT 59.768 45.455 0.00 0.00 36.60 2.57
2247 6032 1.921748 TCATGGGTGATTGGGACATGA 59.078 47.619 0.00 0.00 43.83 3.07
2277 6062 3.579151 GGCACCCCCAAAGTTAAATGTTA 59.421 43.478 0.00 0.00 0.00 2.41
2325 6110 7.279615 TGAGAGAAGTTCATTTTACAACCTCA 58.720 34.615 5.50 0.00 0.00 3.86
2327 6112 7.931275 AGAGAAGTTCATTTTACAACCTCAAC 58.069 34.615 5.50 0.00 0.00 3.18
2328 6113 7.775561 AGAGAAGTTCATTTTACAACCTCAACT 59.224 33.333 5.50 0.00 0.00 3.16
2329 6114 8.974060 AGAAGTTCATTTTACAACCTCAACTA 57.026 30.769 5.50 0.00 0.00 2.24
2330 6115 8.837389 AGAAGTTCATTTTACAACCTCAACTAC 58.163 33.333 5.50 0.00 0.00 2.73
2332 6117 7.057894 AGTTCATTTTACAACCTCAACTACCA 58.942 34.615 0.00 0.00 0.00 3.25
2333 6118 6.870971 TCATTTTACAACCTCAACTACCAC 57.129 37.500 0.00 0.00 0.00 4.16
2334 6119 6.358178 TCATTTTACAACCTCAACTACCACA 58.642 36.000 0.00 0.00 0.00 4.17
2350 6136 6.300703 ACTACCACATAAGCCTAAAACACAA 58.699 36.000 0.00 0.00 0.00 3.33
2355 6141 6.653320 CCACATAAGCCTAAAACACAACTCTA 59.347 38.462 0.00 0.00 0.00 2.43
2362 6148 8.324163 AGCCTAAAACACAACTCTAAACTATG 57.676 34.615 0.00 0.00 0.00 2.23
2369 6155 4.563184 CACAACTCTAAACTATGAGACCGC 59.437 45.833 0.00 0.00 34.65 5.68
2377 6163 8.241497 TCTAAACTATGAGACCGCCTAATTTA 57.759 34.615 0.00 0.00 0.00 1.40
2391 6178 6.149807 CCGCCTAATTTACAACCTCAACTTTA 59.850 38.462 0.00 0.00 0.00 1.85
2398 6185 8.637281 ATTTACAACCTCAACTTTAAAAACCG 57.363 30.769 0.00 0.00 0.00 4.44
2433 6220 5.948992 AATCTAGAGTGGTTTTTGACTGC 57.051 39.130 0.00 0.00 0.00 4.40
2472 6259 5.078411 ACTTAGTCAGCACCAAGTCATAG 57.922 43.478 0.00 0.00 0.00 2.23
2488 6275 2.369860 TCATAGGCCATGTCACCATCTC 59.630 50.000 5.01 0.00 35.96 2.75
2489 6276 1.131638 TAGGCCATGTCACCATCTCC 58.868 55.000 5.01 0.00 0.00 3.71
2498 6286 4.639078 TGTCACCATCTCCTGAATTGAA 57.361 40.909 0.00 0.00 0.00 2.69
2572 6360 2.787473 TGAATCTAAGGGCTGTGTGG 57.213 50.000 0.00 0.00 0.00 4.17
2574 6362 2.846206 TGAATCTAAGGGCTGTGTGGAT 59.154 45.455 0.00 0.00 0.00 3.41
2648 6441 7.576477 GCCTCTGAAGTTGAATTTTTGCTCTAT 60.576 37.037 0.00 0.00 0.00 1.98
2650 6443 9.688592 CTCTGAAGTTGAATTTTTGCTCTATTT 57.311 29.630 0.00 0.00 0.00 1.40
2683 6476 5.906113 TGGCAAAACTTGTTGAGACTTTA 57.094 34.783 0.00 0.00 0.00 1.85
2693 6486 7.054124 ACTTGTTGAGACTTTACCAGATTGAA 58.946 34.615 0.00 0.00 0.00 2.69
2694 6487 7.721399 ACTTGTTGAGACTTTACCAGATTGAAT 59.279 33.333 0.00 0.00 0.00 2.57
2714 6507 7.164230 TGAATATAATGGTTGTGTGGGTTTC 57.836 36.000 0.00 0.00 0.00 2.78
2720 6513 3.370104 TGGTTGTGTGGGTTTCTGAAAT 58.630 40.909 6.06 0.00 0.00 2.17
2722 6515 4.956700 TGGTTGTGTGGGTTTCTGAAATTA 59.043 37.500 6.06 0.00 0.00 1.40
2723 6516 5.600484 TGGTTGTGTGGGTTTCTGAAATTAT 59.400 36.000 6.06 0.00 0.00 1.28
2726 6519 7.170828 GGTTGTGTGGGTTTCTGAAATTATTTC 59.829 37.037 10.47 10.47 40.08 2.17
2727 6520 7.353414 TGTGTGGGTTTCTGAAATTATTTCA 57.647 32.000 17.92 17.92 46.68 2.69
2774 6569 4.514816 GGTGACAATTTGACCCAAAAATGG 59.485 41.667 2.79 0.00 36.90 3.16
2778 6573 4.821260 ACAATTTGACCCAAAAATGGCTTC 59.179 37.500 2.79 0.00 36.90 3.86
2787 6582 4.754114 CCCAAAAATGGCTTCGAATTTGAA 59.246 37.500 17.11 7.89 31.23 2.69
2792 6587 8.683774 CAAAAATGGCTTCGAATTTGAATTTTG 58.316 29.630 19.81 19.81 31.79 2.44
2856 6652 8.065007 AGTTTCCCAGATTTAATATAAGGGCAA 58.935 33.333 0.00 0.00 34.80 4.52
2862 6658 8.462016 CCAGATTTAATATAAGGGCAATGCTAC 58.538 37.037 4.82 0.00 0.00 3.58
2909 6705 2.618709 GGCTGCCGTTAGATTTATTGCT 59.381 45.455 1.35 0.00 0.00 3.91
2917 6713 6.073980 GCCGTTAGATTTATTGCTATCGAACA 60.074 38.462 0.00 0.00 36.67 3.18
2918 6714 7.517734 GCCGTTAGATTTATTGCTATCGAACAA 60.518 37.037 0.00 0.00 36.67 2.83
2920 6716 7.792508 CGTTAGATTTATTGCTATCGAACAACC 59.207 37.037 0.00 0.00 36.67 3.77
2926 6722 3.746045 TGCTATCGAACAACCTATCCC 57.254 47.619 0.00 0.00 0.00 3.85
2939 6735 1.404717 CCTATCCCGCCTTCATCATCG 60.405 57.143 0.00 0.00 0.00 3.84
2959 6755 2.725723 CGCAACAAAGGCAATGTTACAG 59.274 45.455 7.47 0.00 38.90 2.74
2963 6759 4.223320 ACAAAGGCAATGTTACAGAACG 57.777 40.909 0.00 0.00 38.51 3.95
2975 6771 2.559998 ACAGAACGTTTTGCAACTGG 57.440 45.000 17.93 3.45 0.00 4.00
3013 6812 8.806146 AGAAATATTTGCAATAGAGGTTGTGTT 58.194 29.630 5.17 0.00 0.00 3.32
3015 6814 5.789643 ATTTGCAATAGAGGTTGTGTTGT 57.210 34.783 0.00 0.00 0.00 3.32
3018 6817 5.222079 TGCAATAGAGGTTGTGTTGTAGA 57.778 39.130 0.00 0.00 0.00 2.59
3019 6818 5.616270 TGCAATAGAGGTTGTGTTGTAGAA 58.384 37.500 0.00 0.00 0.00 2.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.212688 AGCATGTCGATCCAAATCCCA 59.787 47.619 0.00 0.00 0.00 4.37
1 2 1.972872 AGCATGTCGATCCAAATCCC 58.027 50.000 0.00 0.00 0.00 3.85
3 4 3.624861 ACAGAAGCATGTCGATCCAAATC 59.375 43.478 0.00 0.00 0.00 2.17
4 5 3.614092 ACAGAAGCATGTCGATCCAAAT 58.386 40.909 0.00 0.00 0.00 2.32
5 6 3.057969 ACAGAAGCATGTCGATCCAAA 57.942 42.857 0.00 0.00 0.00 3.28
7 8 2.101415 CCTACAGAAGCATGTCGATCCA 59.899 50.000 0.00 0.00 34.56 3.41
8 9 2.546795 CCCTACAGAAGCATGTCGATCC 60.547 54.545 0.00 0.00 34.56 3.36
9 10 2.101582 ACCCTACAGAAGCATGTCGATC 59.898 50.000 0.00 0.00 34.56 3.69
10 11 2.101582 GACCCTACAGAAGCATGTCGAT 59.898 50.000 0.00 0.00 34.56 3.59
12 13 1.799181 CGACCCTACAGAAGCATGTCG 60.799 57.143 0.00 0.00 35.42 4.35
13 14 1.204941 ACGACCCTACAGAAGCATGTC 59.795 52.381 0.00 0.00 34.56 3.06
14 15 1.066858 CACGACCCTACAGAAGCATGT 60.067 52.381 0.00 0.00 37.19 3.21
15 16 1.204704 TCACGACCCTACAGAAGCATG 59.795 52.381 0.00 0.00 0.00 4.06
16 17 1.557099 TCACGACCCTACAGAAGCAT 58.443 50.000 0.00 0.00 0.00 3.79
17 18 1.272490 CTTCACGACCCTACAGAAGCA 59.728 52.381 0.00 0.00 30.64 3.91
18 19 1.272769 ACTTCACGACCCTACAGAAGC 59.727 52.381 0.00 0.00 39.33 3.86
19 20 2.414293 CGACTTCACGACCCTACAGAAG 60.414 54.545 0.00 0.00 41.00 2.85
20 21 1.538512 CGACTTCACGACCCTACAGAA 59.461 52.381 0.00 0.00 35.09 3.02
21 22 1.162698 CGACTTCACGACCCTACAGA 58.837 55.000 0.00 0.00 35.09 3.41
22 23 0.879765 ACGACTTCACGACCCTACAG 59.120 55.000 0.00 0.00 37.03 2.74
23 24 2.079158 CTACGACTTCACGACCCTACA 58.921 52.381 0.00 0.00 37.03 2.74
24 25 1.399791 CCTACGACTTCACGACCCTAC 59.600 57.143 0.00 0.00 37.03 3.18
25 26 1.278985 TCCTACGACTTCACGACCCTA 59.721 52.381 0.00 0.00 37.03 3.53
26 27 0.037303 TCCTACGACTTCACGACCCT 59.963 55.000 0.00 0.00 37.03 4.34
27 28 1.101331 ATCCTACGACTTCACGACCC 58.899 55.000 0.00 0.00 37.03 4.46
28 29 2.422832 AGAATCCTACGACTTCACGACC 59.577 50.000 0.00 0.00 37.03 4.79
29 30 3.761311 AGAATCCTACGACTTCACGAC 57.239 47.619 0.00 0.00 37.03 4.34
30 31 3.311871 GCTAGAATCCTACGACTTCACGA 59.688 47.826 0.00 0.00 37.03 4.35
31 32 3.064958 TGCTAGAATCCTACGACTTCACG 59.935 47.826 0.00 0.00 39.31 4.35
32 33 4.096682 ACTGCTAGAATCCTACGACTTCAC 59.903 45.833 0.00 0.00 0.00 3.18
33 34 4.270834 ACTGCTAGAATCCTACGACTTCA 58.729 43.478 0.00 0.00 0.00 3.02
34 35 4.904253 ACTGCTAGAATCCTACGACTTC 57.096 45.455 0.00 0.00 0.00 3.01
35 36 4.705507 TCAACTGCTAGAATCCTACGACTT 59.294 41.667 0.00 0.00 0.00 3.01
36 37 4.270834 TCAACTGCTAGAATCCTACGACT 58.729 43.478 0.00 0.00 0.00 4.18
37 38 4.634184 TCAACTGCTAGAATCCTACGAC 57.366 45.455 0.00 0.00 0.00 4.34
38 39 5.505819 CGATTCAACTGCTAGAATCCTACGA 60.506 44.000 8.94 0.00 44.48 3.43
39 40 4.677378 CGATTCAACTGCTAGAATCCTACG 59.323 45.833 8.94 0.00 44.48 3.51
40 41 4.985409 CCGATTCAACTGCTAGAATCCTAC 59.015 45.833 8.94 0.00 44.48 3.18
41 42 4.039245 CCCGATTCAACTGCTAGAATCCTA 59.961 45.833 8.94 0.00 44.48 2.94
42 43 3.181461 CCCGATTCAACTGCTAGAATCCT 60.181 47.826 8.94 0.00 44.48 3.24
43 44 3.134458 CCCGATTCAACTGCTAGAATCC 58.866 50.000 8.94 0.00 44.48 3.01
44 45 4.060038 TCCCGATTCAACTGCTAGAATC 57.940 45.455 0.00 0.00 44.09 2.52
45 46 4.696479 ATCCCGATTCAACTGCTAGAAT 57.304 40.909 0.00 0.00 37.19 2.40
46 47 4.442706 GAATCCCGATTCAACTGCTAGAA 58.557 43.478 11.68 0.00 44.89 2.10
47 48 4.060038 GAATCCCGATTCAACTGCTAGA 57.940 45.455 11.68 0.00 44.89 2.43
57 58 4.372656 CAAGGTAGTCAGAATCCCGATTC 58.627 47.826 9.04 9.04 45.66 2.52
58 59 3.432326 GCAAGGTAGTCAGAATCCCGATT 60.432 47.826 0.00 0.00 0.00 3.34
59 60 2.103263 GCAAGGTAGTCAGAATCCCGAT 59.897 50.000 0.00 0.00 0.00 4.18
60 61 1.480954 GCAAGGTAGTCAGAATCCCGA 59.519 52.381 0.00 0.00 0.00 5.14
61 62 1.482593 AGCAAGGTAGTCAGAATCCCG 59.517 52.381 0.00 0.00 0.00 5.14
62 63 2.769095 AGAGCAAGGTAGTCAGAATCCC 59.231 50.000 0.00 0.00 0.00 3.85
63 64 3.431486 CCAGAGCAAGGTAGTCAGAATCC 60.431 52.174 0.00 0.00 0.00 3.01
64 65 3.196685 ACCAGAGCAAGGTAGTCAGAATC 59.803 47.826 0.00 0.00 37.67 2.52
65 66 3.177228 ACCAGAGCAAGGTAGTCAGAAT 58.823 45.455 0.00 0.00 37.67 2.40
66 67 2.563179 GACCAGAGCAAGGTAGTCAGAA 59.437 50.000 0.00 0.00 40.09 3.02
67 68 2.171840 GACCAGAGCAAGGTAGTCAGA 58.828 52.381 0.00 0.00 40.09 3.27
68 69 1.205893 GGACCAGAGCAAGGTAGTCAG 59.794 57.143 0.00 0.00 40.09 3.51
69 70 1.267121 GGACCAGAGCAAGGTAGTCA 58.733 55.000 0.00 0.00 40.09 3.41
70 71 1.205893 CTGGACCAGAGCAAGGTAGTC 59.794 57.143 17.22 0.00 40.09 2.59
71 72 1.270907 CTGGACCAGAGCAAGGTAGT 58.729 55.000 17.22 0.00 40.09 2.73
72 73 1.066573 CACTGGACCAGAGCAAGGTAG 60.067 57.143 28.56 0.00 40.09 3.18
73 74 0.976641 CACTGGACCAGAGCAAGGTA 59.023 55.000 28.56 0.00 40.09 3.08
74 75 1.056700 ACACTGGACCAGAGCAAGGT 61.057 55.000 28.56 12.09 43.46 3.50
75 76 0.321122 GACACTGGACCAGAGCAAGG 60.321 60.000 28.56 11.50 35.18 3.61
76 77 0.668706 CGACACTGGACCAGAGCAAG 60.669 60.000 28.56 13.44 35.18 4.01
77 78 1.367471 CGACACTGGACCAGAGCAA 59.633 57.895 28.56 0.00 35.18 3.91
78 79 1.399744 AACGACACTGGACCAGAGCA 61.400 55.000 28.56 0.00 35.18 4.26
79 80 0.946221 CAACGACACTGGACCAGAGC 60.946 60.000 28.56 14.47 35.18 4.09
85 86 1.071605 GCAGATCAACGACACTGGAC 58.928 55.000 0.00 0.00 0.00 4.02
117 118 0.888619 TGCTACCGACAGAGGACAAG 59.111 55.000 0.00 0.00 34.73 3.16
136 137 1.074951 CCGGGGAAAGAAGCCAACT 59.925 57.895 0.00 0.00 0.00 3.16
152 153 1.078426 CTCCACCTAACCAAGCCCG 60.078 63.158 0.00 0.00 0.00 6.13
206 231 1.109609 GTCGTTATCCTTCGACCCCT 58.890 55.000 6.46 0.00 46.83 4.79
253 278 4.767928 GGTCTAGTGAAGAGAAGGAACTCA 59.232 45.833 0.00 0.00 39.14 3.41
259 284 2.164624 CCACGGTCTAGTGAAGAGAAGG 59.835 54.545 0.00 0.00 44.43 3.46
267 292 1.045407 AACAAGCCACGGTCTAGTGA 58.955 50.000 0.00 0.00 44.43 3.41
316 341 0.036765 TCGGGAAAAGTCCGGTCATG 60.037 55.000 0.00 0.00 46.04 3.07
320 345 1.376812 GCATCGGGAAAAGTCCGGT 60.377 57.895 0.00 0.00 46.04 5.28
379 404 2.191981 ATCCTAAGACCCCACCGAAT 57.808 50.000 0.00 0.00 0.00 3.34
388 413 1.336125 CGTCACCGGTATCCTAAGACC 59.664 57.143 6.87 0.00 33.17 3.85
392 417 1.338973 GCATCGTCACCGGTATCCTAA 59.661 52.381 6.87 0.00 33.95 2.69
395 420 0.104304 AAGCATCGTCACCGGTATCC 59.896 55.000 6.87 0.00 33.95 2.59
415 440 1.807573 GAGCTCGGACGCCTTCAAG 60.808 63.158 0.00 0.00 0.00 3.02
427 452 2.842394 AAGATGTGTGGGCGAGCTCG 62.842 60.000 31.37 31.37 43.27 5.03
446 480 1.525077 GCTGGGGTGTCAAACGTGA 60.525 57.895 0.00 0.00 0.00 4.35
449 483 1.821216 ATTAGCTGGGGTGTCAAACG 58.179 50.000 0.00 0.00 0.00 3.60
466 500 1.591158 CGCCGTGAGCAATTACGTATT 59.409 47.619 0.00 0.00 44.04 1.89
467 501 1.205657 CGCCGTGAGCAATTACGTAT 58.794 50.000 0.00 0.00 44.04 3.06
531 574 0.037734 ATTTGGACGGGGGACAGTTC 59.962 55.000 0.00 0.00 39.51 3.01
538 581 1.136828 TGGAGATATTTGGACGGGGG 58.863 55.000 0.00 0.00 0.00 5.40
542 585 4.169508 CGCTAGATGGAGATATTTGGACG 58.830 47.826 0.00 0.00 0.00 4.79
546 589 6.923508 TGTAACACGCTAGATGGAGATATTTG 59.076 38.462 0.00 0.00 0.00 2.32
642 697 2.165167 CTTGCATGATTGGTGACTGGT 58.835 47.619 0.00 0.00 0.00 4.00
643 698 2.165167 ACTTGCATGATTGGTGACTGG 58.835 47.619 6.60 0.00 0.00 4.00
709 2088 7.833285 TGTATGGATGTAGTAGTAGCAATGA 57.167 36.000 0.00 0.00 0.00 2.57
722 2112 2.027285 CGATGGGGCATGTATGGATGTA 60.027 50.000 0.00 0.00 0.00 2.29
723 2113 1.271543 CGATGGGGCATGTATGGATGT 60.272 52.381 0.00 0.00 0.00 3.06
724 2114 1.271543 ACGATGGGGCATGTATGGATG 60.272 52.381 0.00 0.00 0.00 3.51
729 2119 2.037251 GACACTACGATGGGGCATGTAT 59.963 50.000 0.00 0.00 0.00 2.29
740 2130 1.410517 CAGATGGCCAGACACTACGAT 59.589 52.381 13.05 0.00 0.00 3.73
778 2168 1.228552 ATTTTCCAGCCGGCAGTGT 60.229 52.632 31.54 4.11 0.00 3.55
798 2198 2.888414 GGACCCTCCTTATCTTCTCTCG 59.112 54.545 0.00 0.00 32.53 4.04
903 4631 1.134907 AGTGACAAAGACAACGTCCGT 60.135 47.619 0.00 0.00 32.18 4.69
929 4657 0.453793 TTTCTGCCGGTGTTTGTGTG 59.546 50.000 1.90 0.00 0.00 3.82
969 4705 3.077556 CTGGGTGGCTAGCTCGGT 61.078 66.667 15.72 0.00 0.00 4.69
970 4706 4.537433 GCTGGGTGGCTAGCTCGG 62.537 72.222 15.72 8.30 36.99 4.63
971 4707 4.880537 CGCTGGGTGGCTAGCTCG 62.881 72.222 15.72 3.63 37.78 5.03
1182 4934 4.316823 TCCACTGAGCGGACCCCT 62.317 66.667 0.00 0.00 0.00 4.79
1477 5254 4.400961 GACTTCGGCTGGCAGGCT 62.401 66.667 34.08 18.91 38.85 4.58
1668 5445 1.220206 CTCCAGTGCTTGCTCCGAT 59.780 57.895 0.00 0.00 0.00 4.18
1986 5763 2.329690 CTGATCTCCGCGACGAGG 59.670 66.667 11.86 11.86 0.00 4.63
2034 5811 3.683822 CGTCTCTACTTCTCTACGTGGTT 59.316 47.826 0.00 0.00 0.00 3.67
2087 5864 7.415541 GCATCCAACAAGATACATTAGCAGAAA 60.416 37.037 0.00 0.00 0.00 2.52
2088 5865 6.038603 GCATCCAACAAGATACATTAGCAGAA 59.961 38.462 0.00 0.00 0.00 3.02
2090 5867 5.530171 AGCATCCAACAAGATACATTAGCAG 59.470 40.000 0.00 0.00 0.00 4.24
2092 5869 7.678947 ATAGCATCCAACAAGATACATTAGC 57.321 36.000 0.00 0.00 0.00 3.09
2095 5872 6.656693 GGCTATAGCATCCAACAAGATACATT 59.343 38.462 25.53 0.00 44.36 2.71
2096 5873 6.176183 GGCTATAGCATCCAACAAGATACAT 58.824 40.000 25.53 0.00 44.36 2.29
2097 5874 5.513094 GGGCTATAGCATCCAACAAGATACA 60.513 44.000 25.53 0.00 44.36 2.29
2098 5875 4.938226 GGGCTATAGCATCCAACAAGATAC 59.062 45.833 25.53 3.43 44.36 2.24
2099 5876 4.597075 TGGGCTATAGCATCCAACAAGATA 59.403 41.667 25.53 0.00 44.36 1.98
2100 5877 3.395607 TGGGCTATAGCATCCAACAAGAT 59.604 43.478 25.53 0.00 44.36 2.40
2101 5878 2.777114 TGGGCTATAGCATCCAACAAGA 59.223 45.455 25.53 0.00 44.36 3.02
2104 5881 3.882102 AATGGGCTATAGCATCCAACA 57.118 42.857 25.53 13.76 44.36 3.33
2105 5882 4.022849 GTGAAATGGGCTATAGCATCCAAC 60.023 45.833 25.53 14.68 44.36 3.77
2107 5884 3.395607 AGTGAAATGGGCTATAGCATCCA 59.604 43.478 25.53 22.92 44.36 3.41
2108 5885 3.755378 CAGTGAAATGGGCTATAGCATCC 59.245 47.826 25.53 18.28 44.36 3.51
2109 5886 4.392940 ACAGTGAAATGGGCTATAGCATC 58.607 43.478 25.53 16.85 44.36 3.91
2112 5889 3.808728 TGACAGTGAAATGGGCTATAGC 58.191 45.455 16.78 16.78 41.14 2.97
2113 5890 5.882557 ACTTTGACAGTGAAATGGGCTATAG 59.117 40.000 0.00 0.00 32.83 1.31
2121 5906 3.548587 CAGCGACTTTGACAGTGAAATG 58.451 45.455 0.00 0.00 35.01 2.32
2173 5958 5.121768 GGCAACTCGAACTTATACAACACAT 59.878 40.000 0.00 0.00 0.00 3.21
2212 5997 2.396601 CCATGACACATGTTGCACAAC 58.603 47.619 6.57 6.57 41.50 3.32
2227 6012 1.921748 TCATGTCCCAATCACCCATGA 59.078 47.619 0.00 0.00 39.51 3.07
2238 6023 0.035152 GCCATCACTGTCATGTCCCA 60.035 55.000 0.00 0.00 0.00 4.37
2247 6032 2.017668 TTTGGGGGTGCCATCACTGT 62.018 55.000 0.00 0.00 42.72 3.55
2319 6104 3.587506 AGGCTTATGTGGTAGTTGAGGTT 59.412 43.478 0.00 0.00 0.00 3.50
2325 6110 6.300703 TGTGTTTTAGGCTTATGTGGTAGTT 58.699 36.000 0.00 0.00 0.00 2.24
2327 6112 6.430000 AGTTGTGTTTTAGGCTTATGTGGTAG 59.570 38.462 0.00 0.00 0.00 3.18
2328 6113 6.300703 AGTTGTGTTTTAGGCTTATGTGGTA 58.699 36.000 0.00 0.00 0.00 3.25
2329 6114 5.137551 AGTTGTGTTTTAGGCTTATGTGGT 58.862 37.500 0.00 0.00 0.00 4.16
2330 6115 5.473504 AGAGTTGTGTTTTAGGCTTATGTGG 59.526 40.000 0.00 0.00 0.00 4.17
2332 6117 8.565416 GTTTAGAGTTGTGTTTTAGGCTTATGT 58.435 33.333 0.00 0.00 0.00 2.29
2333 6118 8.784043 AGTTTAGAGTTGTGTTTTAGGCTTATG 58.216 33.333 0.00 0.00 0.00 1.90
2334 6119 8.919777 AGTTTAGAGTTGTGTTTTAGGCTTAT 57.080 30.769 0.00 0.00 0.00 1.73
2350 6136 3.633418 AGGCGGTCTCATAGTTTAGAGT 58.367 45.455 0.00 0.00 33.63 3.24
2355 6141 6.646267 TGTAAATTAGGCGGTCTCATAGTTT 58.354 36.000 0.00 0.00 0.00 2.66
2362 6148 3.869832 GAGGTTGTAAATTAGGCGGTCTC 59.130 47.826 0.00 0.00 0.00 3.36
2377 6163 4.705991 TCCGGTTTTTAAAGTTGAGGTTGT 59.294 37.500 0.00 0.00 0.00 3.32
2408 6195 6.238759 GCAGTCAAAAACCACTCTAGATTTGT 60.239 38.462 11.90 0.00 0.00 2.83
2409 6196 6.016777 AGCAGTCAAAAACCACTCTAGATTTG 60.017 38.462 7.60 7.60 0.00 2.32
2411 6198 5.625150 AGCAGTCAAAAACCACTCTAGATT 58.375 37.500 0.00 0.00 0.00 2.40
2412 6199 5.234466 AGCAGTCAAAAACCACTCTAGAT 57.766 39.130 0.00 0.00 0.00 1.98
2414 6201 5.757850 AAAGCAGTCAAAAACCACTCTAG 57.242 39.130 0.00 0.00 0.00 2.43
2415 6202 5.650266 TCAAAAGCAGTCAAAAACCACTCTA 59.350 36.000 0.00 0.00 0.00 2.43
2416 6203 4.462483 TCAAAAGCAGTCAAAAACCACTCT 59.538 37.500 0.00 0.00 0.00 3.24
2417 6204 4.562789 GTCAAAAGCAGTCAAAAACCACTC 59.437 41.667 0.00 0.00 0.00 3.51
2457 6244 0.035152 TGGCCTATGACTTGGTGCTG 60.035 55.000 3.32 0.00 0.00 4.41
2488 6275 5.544650 AGTGGAAGCAAATTTCAATTCAGG 58.455 37.500 8.16 0.00 0.00 3.86
2489 6276 7.486802 AAAGTGGAAGCAAATTTCAATTCAG 57.513 32.000 8.16 0.00 33.57 3.02
2520 6308 6.311055 AGATTCAAGAAGTTTTGCTCACTC 57.689 37.500 0.00 0.00 0.00 3.51
2623 6416 6.081872 AGAGCAAAAATTCAACTTCAGAGG 57.918 37.500 0.00 0.00 0.00 3.69
2651 6444 7.155328 TCAACAAGTTTTGCCAAGTAGAAAAA 58.845 30.769 0.00 0.00 0.00 1.94
2655 6448 5.065988 GTCTCAACAAGTTTTGCCAAGTAGA 59.934 40.000 0.00 0.00 0.00 2.59
2683 6476 7.068593 CCACACAACCATTATATTCAATCTGGT 59.931 37.037 0.00 0.00 38.60 4.00
2693 6486 6.489603 TCAGAAACCCACACAACCATTATAT 58.510 36.000 0.00 0.00 0.00 0.86
2694 6487 5.882040 TCAGAAACCCACACAACCATTATA 58.118 37.500 0.00 0.00 0.00 0.98
2754 6549 4.388485 AGCCATTTTTGGGTCAAATTGTC 58.612 39.130 0.00 0.00 33.99 3.18
2756 6551 4.083908 CGAAGCCATTTTTGGGTCAAATTG 60.084 41.667 0.00 0.00 38.97 2.32
2774 6569 4.925646 AGAGCCAAAATTCAAATTCGAAGC 59.074 37.500 3.35 0.00 0.00 3.86
2778 6573 7.816945 ACATTAGAGCCAAAATTCAAATTCG 57.183 32.000 0.00 0.00 0.00 3.34
2808 6604 5.009010 ACTTTCAACATGTTCTGCCAAGTAG 59.991 40.000 8.48 1.62 0.00 2.57
2862 6658 4.933064 GGATCTCTGGCCGACGCG 62.933 72.222 3.53 3.53 35.02 6.01
2906 6702 2.035449 CGGGATAGGTTGTTCGATAGCA 59.965 50.000 0.00 0.00 0.00 3.49
2909 6705 1.342174 GGCGGGATAGGTTGTTCGATA 59.658 52.381 0.00 0.00 0.00 2.92
2917 6713 1.507140 TGATGAAGGCGGGATAGGTT 58.493 50.000 0.00 0.00 0.00 3.50
2918 6714 1.625818 GATGATGAAGGCGGGATAGGT 59.374 52.381 0.00 0.00 0.00 3.08
2920 6716 2.001812 CGATGATGAAGGCGGGATAG 57.998 55.000 0.00 0.00 0.00 2.08
2926 6722 0.447406 TTGTTGCGATGATGAAGGCG 59.553 50.000 0.00 0.00 0.00 5.52
2939 6735 3.976169 TCTGTAACATTGCCTTTGTTGC 58.024 40.909 6.34 5.73 39.30 4.17
2959 6755 0.102300 AGCCCAGTTGCAAAACGTTC 59.898 50.000 0.00 0.00 0.00 3.95
2963 6759 6.162777 TGAAATATTAGCCCAGTTGCAAAAC 58.837 36.000 0.00 0.00 0.00 2.43


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

AutoCloner maintained by Alex Coulton.