Multiple sequence alignment - TraesCS5A01G113800

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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 TraesCS5A01G113800 chr5A 100.000 4102 0 0 1 4102 226796845 226792744 0.000000e+00 7576.0
1 TraesCS5A01G113800 chr5A 86.238 901 92 12 2197 3070 63623871 63624766 0.000000e+00 948.0
2 TraesCS5A01G113800 chr5A 91.928 223 18 0 3880 4102 226787919 226787697 3.080000e-81 313.0
3 TraesCS5A01G113800 chr5A 79.769 173 28 1 36 201 63557166 63557338 7.200000e-23 119.0
4 TraesCS5A01G113800 chr5A 95.455 44 2 0 3849 3892 510439120 510439163 2.050000e-08 71.3
5 TraesCS5A01G113800 chr7B 99.025 3899 21 3 1 3883 647012921 647009024 0.000000e+00 6974.0
6 TraesCS5A01G113800 chr7B 86.239 952 88 19 2197 3125 715812093 715811162 0.000000e+00 992.0
7 TraesCS5A01G113800 chr7B 86.761 355 27 13 3311 3654 715810856 715810511 1.080000e-100 377.0
8 TraesCS5A01G113800 chr1D 91.207 3298 166 39 490 3731 206078544 206081773 0.000000e+00 4370.0
9 TraesCS5A01G113800 chr1D 84.475 438 27 5 12 414 206076554 206076985 1.070000e-105 394.0
10 TraesCS5A01G113800 chr1D 83.333 414 26 3 35 414 206077004 206077408 3.930000e-90 342.0
11 TraesCS5A01G113800 chr1D 93.367 196 7 2 219 414 206077440 206077629 6.710000e-73 285.0
12 TraesCS5A01G113800 chr1D 92.308 195 7 3 220 414 206078331 206078517 1.880000e-68 270.0
13 TraesCS5A01G113800 chr6A 89.201 1778 119 26 1968 3737 189431773 189430061 0.000000e+00 2152.0
14 TraesCS5A01G113800 chr2A 91.923 1461 104 9 1990 3437 753528611 753530070 0.000000e+00 2032.0
15 TraesCS5A01G113800 chr2A 83.107 515 56 11 1715 2198 751647804 751647290 1.350000e-119 440.0
16 TraesCS5A01G113800 chr2A 86.192 239 23 4 3507 3737 753530064 753530300 2.450000e-62 250.0
17 TraesCS5A01G113800 chr2A 89.899 99 10 0 3783 3881 753530515 753530613 1.200000e-25 128.0
18 TraesCS5A01G113800 chr3D 83.981 2160 245 50 36 2125 513938367 513940495 0.000000e+00 1978.0
19 TraesCS5A01G113800 chr3D 90.242 1117 90 13 2197 3299 513940880 513941991 0.000000e+00 1441.0
20 TraesCS5A01G113800 chr3D 87.829 304 23 7 3313 3608 513942038 513942335 1.090000e-90 344.0
21 TraesCS5A01G113800 chr3D 83.853 353 40 10 3390 3731 534119477 534119131 1.840000e-83 320.0
22 TraesCS5A01G113800 chr3D 77.681 345 43 13 36 349 73377828 73378169 3.260000e-41 180.0
23 TraesCS5A01G113800 chr3D 90.000 50 2 2 3834 3880 389113511 389113560 1.230000e-05 62.1
24 TraesCS5A01G113800 chr3D 89.362 47 5 0 3834 3880 19016299 19016253 4.430000e-05 60.2
25 TraesCS5A01G113800 chr7A 89.037 1122 98 11 2197 3299 612738910 612740025 0.000000e+00 1367.0
26 TraesCS5A01G113800 chr7A 82.702 1214 158 32 36 1212 612702183 612703381 0.000000e+00 1031.0
27 TraesCS5A01G113800 chr7A 82.960 1027 108 26 2334 3302 690406183 690405166 0.000000e+00 865.0
28 TraesCS5A01G113800 chr7A 83.842 786 91 18 2544 3299 492422481 492423260 0.000000e+00 715.0
29 TraesCS5A01G113800 chr7A 88.083 386 41 4 1736 2118 612738135 612738518 1.740000e-123 453.0
30 TraesCS5A01G113800 chr7A 87.708 301 27 5 3313 3608 612740072 612740367 3.930000e-90 342.0
31 TraesCS5A01G113800 chr1A 84.500 1329 121 43 728 2006 563755092 563756385 0.000000e+00 1234.0
32 TraesCS5A01G113800 chr1A 89.640 222 23 0 3881 4102 111869727 111869948 2.410000e-72 283.0
33 TraesCS5A01G113800 chr6B 84.187 1328 125 47 728 2006 502721400 502722691 0.000000e+00 1210.0
34 TraesCS5A01G113800 chr6B 84.127 1323 125 44 734 2006 705836956 705835669 0.000000e+00 1201.0
35 TraesCS5A01G113800 chr5B 86.196 949 87 20 2197 3122 669635107 669636034 0.000000e+00 987.0
36 TraesCS5A01G113800 chr5B 86.479 355 29 11 3311 3654 669636343 669636689 5.010000e-99 372.0
37 TraesCS5A01G113800 chr1B 81.464 1079 121 44 184 1220 473220526 473221567 0.000000e+00 811.0
38 TraesCS5A01G113800 chr1B 82.752 516 57 12 1715 2198 473221600 473222115 8.150000e-117 431.0
39 TraesCS5A01G113800 chr1B 82.258 434 63 10 3312 3737 103401068 103401495 3.010000e-96 363.0
40 TraesCS5A01G113800 chr4B 81.096 1058 128 34 2735 3732 453511205 453510160 0.000000e+00 780.0
41 TraesCS5A01G113800 chr4B 83.313 833 102 12 2506 3307 55324845 55325671 0.000000e+00 734.0
42 TraesCS5A01G113800 chr4B 95.122 41 1 1 3852 3891 4888915 4888875 3.420000e-06 63.9
43 TraesCS5A01G113800 chr2D 84.192 835 99 21 2496 3303 29523301 29522473 0.000000e+00 780.0
44 TraesCS5A01G113800 chr2D 89.796 49 3 2 3834 3880 136180725 136180773 1.230000e-05 62.1
45 TraesCS5A01G113800 chr2B 83.433 833 100 12 2506 3307 72977864 72977039 0.000000e+00 739.0
46 TraesCS5A01G113800 chr2B 89.502 562 39 8 2523 3068 245168699 245169256 0.000000e+00 693.0
47 TraesCS5A01G113800 chr2B 89.238 223 24 0 3880 4102 255622154 255621932 3.120000e-71 279.0
48 TraesCS5A01G113800 chr2B 89.362 47 3 2 3845 3890 658918162 658918117 1.590000e-04 58.4
49 TraesCS5A01G113800 chrUn 81.679 917 112 35 322 1220 13902405 13903283 0.000000e+00 712.0
50 TraesCS5A01G113800 chrUn 83.301 515 55 11 1715 2198 13903316 13903830 2.910000e-121 446.0
51 TraesCS5A01G113800 chrUn 89.796 49 3 2 3834 3880 46038415 46038463 1.230000e-05 62.1
52 TraesCS5A01G113800 chr7D 82.196 337 43 11 931 1266 577261595 577261915 1.450000e-69 274.0
53 TraesCS5A01G113800 chr7D 92.683 82 6 0 3880 3961 219483085 219483166 7.200000e-23 119.0
54 TraesCS5A01G113800 chr3B 82.222 180 17 10 184 351 118709084 118709260 1.540000e-29 141.0
55 TraesCS5A01G113800 chr3A 75.000 364 40 18 36 349 86337650 86338012 2.000000e-23 121.0
56 TraesCS5A01G113800 chr6D 92.683 82 6 0 3880 3961 448924053 448923972 7.200000e-23 119.0
57 TraesCS5A01G113800 chr6D 79.096 177 28 5 655 829 169715209 169715378 3.350000e-21 113.0


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 TraesCS5A01G113800 chr5A 226792744 226796845 4101 True 7576.000000 7576 100.000000 1 4102 1 chr5A.!!$R2 4101
1 TraesCS5A01G113800 chr5A 63623871 63624766 895 False 948.000000 948 86.238000 2197 3070 1 chr5A.!!$F2 873
2 TraesCS5A01G113800 chr7B 647009024 647012921 3897 True 6974.000000 6974 99.025000 1 3883 1 chr7B.!!$R1 3882
3 TraesCS5A01G113800 chr7B 715810511 715812093 1582 True 684.500000 992 86.500000 2197 3654 2 chr7B.!!$R2 1457
4 TraesCS5A01G113800 chr1D 206076554 206081773 5219 False 1132.200000 4370 88.938000 12 3731 5 chr1D.!!$F1 3719
5 TraesCS5A01G113800 chr6A 189430061 189431773 1712 True 2152.000000 2152 89.201000 1968 3737 1 chr6A.!!$R1 1769
6 TraesCS5A01G113800 chr2A 753528611 753530613 2002 False 803.333333 2032 89.338000 1990 3881 3 chr2A.!!$F1 1891
7 TraesCS5A01G113800 chr2A 751647290 751647804 514 True 440.000000 440 83.107000 1715 2198 1 chr2A.!!$R1 483
8 TraesCS5A01G113800 chr3D 513938367 513942335 3968 False 1254.333333 1978 87.350667 36 3608 3 chr3D.!!$F3 3572
9 TraesCS5A01G113800 chr7A 612702183 612703381 1198 False 1031.000000 1031 82.702000 36 1212 1 chr7A.!!$F2 1176
10 TraesCS5A01G113800 chr7A 690405166 690406183 1017 True 865.000000 865 82.960000 2334 3302 1 chr7A.!!$R1 968
11 TraesCS5A01G113800 chr7A 612738135 612740367 2232 False 720.666667 1367 88.276000 1736 3608 3 chr7A.!!$F3 1872
12 TraesCS5A01G113800 chr7A 492422481 492423260 779 False 715.000000 715 83.842000 2544 3299 1 chr7A.!!$F1 755
13 TraesCS5A01G113800 chr1A 563755092 563756385 1293 False 1234.000000 1234 84.500000 728 2006 1 chr1A.!!$F2 1278
14 TraesCS5A01G113800 chr6B 502721400 502722691 1291 False 1210.000000 1210 84.187000 728 2006 1 chr6B.!!$F1 1278
15 TraesCS5A01G113800 chr6B 705835669 705836956 1287 True 1201.000000 1201 84.127000 734 2006 1 chr6B.!!$R1 1272
16 TraesCS5A01G113800 chr5B 669635107 669636689 1582 False 679.500000 987 86.337500 2197 3654 2 chr5B.!!$F1 1457
17 TraesCS5A01G113800 chr1B 473220526 473222115 1589 False 621.000000 811 82.108000 184 2198 2 chr1B.!!$F2 2014
18 TraesCS5A01G113800 chr4B 453510160 453511205 1045 True 780.000000 780 81.096000 2735 3732 1 chr4B.!!$R2 997
19 TraesCS5A01G113800 chr4B 55324845 55325671 826 False 734.000000 734 83.313000 2506 3307 1 chr4B.!!$F1 801
20 TraesCS5A01G113800 chr2D 29522473 29523301 828 True 780.000000 780 84.192000 2496 3303 1 chr2D.!!$R1 807
21 TraesCS5A01G113800 chr2B 72977039 72977864 825 True 739.000000 739 83.433000 2506 3307 1 chr2B.!!$R1 801
22 TraesCS5A01G113800 chr2B 245168699 245169256 557 False 693.000000 693 89.502000 2523 3068 1 chr2B.!!$F1 545
23 TraesCS5A01G113800 chrUn 13902405 13903830 1425 False 579.000000 712 82.490000 322 2198 2 chrUn.!!$F2 1876

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
2129 3812 0.678366 TAACCAACCATGCGCGGATT 60.678 50.0 11.57 0.0 0.0 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
4078 6536 0.036765 ACACCCGTGTATCATTGCGT 60.037 50.0 0.0 0.0 42.9 5.24 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
2129 3812 0.678366 TAACCAACCATGCGCGGATT 60.678 50.000 11.57 0.00 0.00 3.01
2756 4829 5.975344 GCCCGCCATTTTATTACTCTAAAAC 59.025 40.000 0.00 0.00 34.39 2.43
3074 5216 6.426646 AGTGTGGATTATGGACTCCTTATC 57.573 41.667 0.00 0.00 32.47 1.75
3226 5429 5.563592 TCCTTCATTTTCAAGCATCTCTCA 58.436 37.500 0.00 0.00 0.00 3.27
3715 6004 4.046286 TGCTCTAACCCAAAATCACCAT 57.954 40.909 0.00 0.00 0.00 3.55
3883 6341 3.425525 CACGTGCACACTTACTAGTCTTG 59.574 47.826 18.64 0.00 30.26 3.02
3884 6342 2.987149 CGTGCACACTTACTAGTCTTGG 59.013 50.000 18.64 0.00 30.26 3.61
3885 6343 3.305131 CGTGCACACTTACTAGTCTTGGA 60.305 47.826 18.64 0.00 30.26 3.53
3886 6344 4.628074 GTGCACACTTACTAGTCTTGGAA 58.372 43.478 13.17 0.00 30.26 3.53
3887 6345 5.054477 GTGCACACTTACTAGTCTTGGAAA 58.946 41.667 13.17 0.00 30.26 3.13
3888 6346 5.526111 GTGCACACTTACTAGTCTTGGAAAA 59.474 40.000 13.17 0.00 30.26 2.29
3889 6347 6.037830 GTGCACACTTACTAGTCTTGGAAAAA 59.962 38.462 13.17 0.00 30.26 1.94
3890 6348 6.260050 TGCACACTTACTAGTCTTGGAAAAAG 59.740 38.462 0.00 0.00 30.26 2.27
3891 6349 6.482308 GCACACTTACTAGTCTTGGAAAAAGA 59.518 38.462 0.00 0.00 30.26 2.52
3892 6350 7.012044 GCACACTTACTAGTCTTGGAAAAAGAA 59.988 37.037 0.00 0.00 30.26 2.52
3893 6351 8.889717 CACACTTACTAGTCTTGGAAAAAGAAA 58.110 33.333 0.00 0.00 30.26 2.52
3894 6352 9.457436 ACACTTACTAGTCTTGGAAAAAGAAAA 57.543 29.630 0.00 0.00 30.26 2.29
3898 6356 7.526142 ACTAGTCTTGGAAAAAGAAAATCCC 57.474 36.000 0.00 0.00 32.01 3.85
3899 6357 5.808366 AGTCTTGGAAAAAGAAAATCCCC 57.192 39.130 0.00 0.00 32.01 4.81
3900 6358 5.467738 AGTCTTGGAAAAAGAAAATCCCCT 58.532 37.500 0.00 0.00 32.01 4.79
3901 6359 5.905331 AGTCTTGGAAAAAGAAAATCCCCTT 59.095 36.000 0.00 0.00 32.01 3.95
3902 6360 6.386927 AGTCTTGGAAAAAGAAAATCCCCTTT 59.613 34.615 0.00 0.00 34.39 3.11
3903 6361 6.483307 GTCTTGGAAAAAGAAAATCCCCTTTG 59.517 38.462 0.00 0.00 33.37 2.77
3904 6362 5.303259 TGGAAAAAGAAAATCCCCTTTGG 57.697 39.130 0.00 0.00 33.37 3.28
3905 6363 4.724293 TGGAAAAAGAAAATCCCCTTTGGT 59.276 37.500 0.00 0.00 33.37 3.67
3906 6364 5.063204 GGAAAAAGAAAATCCCCTTTGGTG 58.937 41.667 0.00 0.00 33.37 4.17
3907 6365 5.397447 GGAAAAAGAAAATCCCCTTTGGTGT 60.397 40.000 0.00 0.00 33.37 4.16
3908 6366 5.708736 AAAAGAAAATCCCCTTTGGTGTT 57.291 34.783 0.00 0.00 33.37 3.32
3909 6367 5.708736 AAAGAAAATCCCCTTTGGTGTTT 57.291 34.783 0.00 0.00 32.00 2.83
3910 6368 5.708736 AAGAAAATCCCCTTTGGTGTTTT 57.291 34.783 0.00 0.00 36.45 2.43
3911 6369 5.290493 AGAAAATCCCCTTTGGTGTTTTC 57.710 39.130 12.38 12.38 42.94 2.29
3912 6370 4.719273 AGAAAATCCCCTTTGGTGTTTTCA 59.281 37.500 17.83 0.00 43.85 2.69
3925 6383 2.370349 TGTTTTCACATGTCGGTTGGT 58.630 42.857 0.00 0.00 0.00 3.67
3926 6384 2.356382 TGTTTTCACATGTCGGTTGGTC 59.644 45.455 0.00 0.00 0.00 4.02
3927 6385 2.616842 GTTTTCACATGTCGGTTGGTCT 59.383 45.455 0.00 0.00 0.00 3.85
3928 6386 1.877637 TTCACATGTCGGTTGGTCTG 58.122 50.000 0.00 0.00 0.00 3.51
3929 6387 1.044611 TCACATGTCGGTTGGTCTGA 58.955 50.000 0.00 0.00 0.00 3.27
3930 6388 1.623311 TCACATGTCGGTTGGTCTGAT 59.377 47.619 0.00 0.00 33.66 2.90
3931 6389 2.002586 CACATGTCGGTTGGTCTGATC 58.997 52.381 0.00 0.00 33.66 2.92
3932 6390 1.623311 ACATGTCGGTTGGTCTGATCA 59.377 47.619 0.00 0.00 33.66 2.92
3933 6391 2.002586 CATGTCGGTTGGTCTGATCAC 58.997 52.381 0.00 0.00 33.66 3.06
3934 6392 1.044611 TGTCGGTTGGTCTGATCACA 58.955 50.000 0.00 0.00 33.66 3.58
3935 6393 1.414550 TGTCGGTTGGTCTGATCACAA 59.585 47.619 0.00 0.00 33.66 3.33
3936 6394 2.158885 TGTCGGTTGGTCTGATCACAAA 60.159 45.455 0.00 0.00 33.66 2.83
3937 6395 3.074412 GTCGGTTGGTCTGATCACAAAT 58.926 45.455 0.00 0.00 33.66 2.32
3938 6396 4.250464 GTCGGTTGGTCTGATCACAAATA 58.750 43.478 0.00 0.00 33.66 1.40
3939 6397 4.330074 GTCGGTTGGTCTGATCACAAATAG 59.670 45.833 0.00 0.00 33.66 1.73
3940 6398 3.063997 CGGTTGGTCTGATCACAAATAGC 59.936 47.826 0.00 0.00 0.00 2.97
3941 6399 3.378427 GGTTGGTCTGATCACAAATAGCC 59.622 47.826 0.00 0.00 0.00 3.93
3942 6400 3.281727 TGGTCTGATCACAAATAGCCC 57.718 47.619 0.00 0.00 0.00 5.19
3943 6401 2.092429 TGGTCTGATCACAAATAGCCCC 60.092 50.000 0.00 0.00 0.00 5.80
3944 6402 2.173569 GGTCTGATCACAAATAGCCCCT 59.826 50.000 0.00 0.00 0.00 4.79
3945 6403 3.391296 GGTCTGATCACAAATAGCCCCTA 59.609 47.826 0.00 0.00 0.00 3.53
3946 6404 4.141482 GGTCTGATCACAAATAGCCCCTAA 60.141 45.833 0.00 0.00 0.00 2.69
3947 6405 5.437060 GTCTGATCACAAATAGCCCCTAAA 58.563 41.667 0.00 0.00 0.00 1.85
3948 6406 6.064717 GTCTGATCACAAATAGCCCCTAAAT 58.935 40.000 0.00 0.00 0.00 1.40
3949 6407 6.205658 GTCTGATCACAAATAGCCCCTAAATC 59.794 42.308 0.00 0.00 0.00 2.17
3950 6408 6.101734 TCTGATCACAAATAGCCCCTAAATCT 59.898 38.462 0.00 0.00 0.00 2.40
3951 6409 6.672593 TGATCACAAATAGCCCCTAAATCTT 58.327 36.000 0.00 0.00 0.00 2.40
3952 6410 7.125391 TGATCACAAATAGCCCCTAAATCTTT 58.875 34.615 0.00 0.00 0.00 2.52
3953 6411 6.773976 TCACAAATAGCCCCTAAATCTTTG 57.226 37.500 0.00 0.00 0.00 2.77
3954 6412 5.127031 TCACAAATAGCCCCTAAATCTTTGC 59.873 40.000 0.00 0.00 0.00 3.68
3955 6413 5.127682 CACAAATAGCCCCTAAATCTTTGCT 59.872 40.000 0.00 0.00 0.00 3.91
3956 6414 5.721480 ACAAATAGCCCCTAAATCTTTGCTT 59.279 36.000 0.00 0.00 0.00 3.91
3957 6415 6.127338 ACAAATAGCCCCTAAATCTTTGCTTC 60.127 38.462 0.00 0.00 0.00 3.86
3958 6416 3.456380 AGCCCCTAAATCTTTGCTTCA 57.544 42.857 0.00 0.00 0.00 3.02
3959 6417 3.986435 AGCCCCTAAATCTTTGCTTCAT 58.014 40.909 0.00 0.00 0.00 2.57
3960 6418 3.956848 AGCCCCTAAATCTTTGCTTCATC 59.043 43.478 0.00 0.00 0.00 2.92
3961 6419 3.956848 GCCCCTAAATCTTTGCTTCATCT 59.043 43.478 0.00 0.00 0.00 2.90
3962 6420 5.103940 AGCCCCTAAATCTTTGCTTCATCTA 60.104 40.000 0.00 0.00 0.00 1.98
3963 6421 5.772169 GCCCCTAAATCTTTGCTTCATCTAT 59.228 40.000 0.00 0.00 0.00 1.98
3964 6422 6.266330 GCCCCTAAATCTTTGCTTCATCTATT 59.734 38.462 0.00 0.00 0.00 1.73
3965 6423 7.522889 GCCCCTAAATCTTTGCTTCATCTATTC 60.523 40.741 0.00 0.00 0.00 1.75
3966 6424 7.503566 CCCCTAAATCTTTGCTTCATCTATTCA 59.496 37.037 0.00 0.00 0.00 2.57
3967 6425 8.906867 CCCTAAATCTTTGCTTCATCTATTCAA 58.093 33.333 0.00 0.00 0.00 2.69
3971 6429 9.985730 AAATCTTTGCTTCATCTATTCAAACAA 57.014 25.926 0.00 0.00 0.00 2.83
3972 6430 9.985730 AATCTTTGCTTCATCTATTCAAACAAA 57.014 25.926 0.00 0.00 0.00 2.83
3973 6431 9.985730 ATCTTTGCTTCATCTATTCAAACAAAA 57.014 25.926 0.00 0.00 0.00 2.44
3974 6432 9.814899 TCTTTGCTTCATCTATTCAAACAAAAA 57.185 25.926 0.00 0.00 0.00 1.94
3975 6433 9.853921 CTTTGCTTCATCTATTCAAACAAAAAC 57.146 29.630 0.00 0.00 0.00 2.43
3976 6434 7.945033 TGCTTCATCTATTCAAACAAAAACC 57.055 32.000 0.00 0.00 0.00 3.27
3977 6435 6.928492 TGCTTCATCTATTCAAACAAAAACCC 59.072 34.615 0.00 0.00 0.00 4.11
3978 6436 7.154656 GCTTCATCTATTCAAACAAAAACCCT 58.845 34.615 0.00 0.00 0.00 4.34
3979 6437 7.116805 GCTTCATCTATTCAAACAAAAACCCTG 59.883 37.037 0.00 0.00 0.00 4.45
3980 6438 7.595819 TCATCTATTCAAACAAAAACCCTGT 57.404 32.000 0.00 0.00 0.00 4.00
3981 6439 7.657336 TCATCTATTCAAACAAAAACCCTGTC 58.343 34.615 0.00 0.00 0.00 3.51
3982 6440 7.286546 TCATCTATTCAAACAAAAACCCTGTCA 59.713 33.333 0.00 0.00 0.00 3.58
3983 6441 7.038154 TCTATTCAAACAAAAACCCTGTCAG 57.962 36.000 0.00 0.00 0.00 3.51
3984 6442 5.675684 ATTCAAACAAAAACCCTGTCAGT 57.324 34.783 0.00 0.00 0.00 3.41
3985 6443 4.712122 TCAAACAAAAACCCTGTCAGTC 57.288 40.909 0.00 0.00 0.00 3.51
3986 6444 4.340617 TCAAACAAAAACCCTGTCAGTCT 58.659 39.130 0.00 0.00 0.00 3.24
3987 6445 4.770010 TCAAACAAAAACCCTGTCAGTCTT 59.230 37.500 0.00 0.00 0.00 3.01
3988 6446 4.718940 AACAAAAACCCTGTCAGTCTTG 57.281 40.909 0.00 0.00 0.00 3.02
3989 6447 3.963129 ACAAAAACCCTGTCAGTCTTGA 58.037 40.909 0.00 0.00 0.00 3.02
3990 6448 4.536765 ACAAAAACCCTGTCAGTCTTGAT 58.463 39.130 0.00 0.00 35.39 2.57
3991 6449 4.339247 ACAAAAACCCTGTCAGTCTTGATG 59.661 41.667 0.00 0.00 35.39 3.07
3992 6450 4.437682 AAAACCCTGTCAGTCTTGATGA 57.562 40.909 0.00 0.00 35.39 2.92
3993 6451 4.647564 AAACCCTGTCAGTCTTGATGAT 57.352 40.909 0.00 0.00 35.39 2.45
3994 6452 4.647564 AACCCTGTCAGTCTTGATGATT 57.352 40.909 0.00 0.00 35.39 2.57
3995 6453 3.947868 ACCCTGTCAGTCTTGATGATTG 58.052 45.455 0.00 0.00 35.39 2.67
3996 6454 3.584406 ACCCTGTCAGTCTTGATGATTGA 59.416 43.478 0.00 0.00 38.78 2.57
4003 6461 5.614308 TCAGTCTTGATGATTGACAGTTGT 58.386 37.500 0.00 0.00 36.66 3.32
4004 6462 6.758254 TCAGTCTTGATGATTGACAGTTGTA 58.242 36.000 0.00 0.00 36.66 2.41
4005 6463 6.870439 TCAGTCTTGATGATTGACAGTTGTAG 59.130 38.462 0.00 0.00 36.66 2.74
4006 6464 5.641209 AGTCTTGATGATTGACAGTTGTAGC 59.359 40.000 0.00 0.00 33.56 3.58
4007 6465 4.627035 TCTTGATGATTGACAGTTGTAGCG 59.373 41.667 0.00 0.00 0.00 4.26
4008 6466 4.186856 TGATGATTGACAGTTGTAGCGA 57.813 40.909 0.00 0.00 0.00 4.93
4009 6467 4.758688 TGATGATTGACAGTTGTAGCGAT 58.241 39.130 0.00 0.00 0.00 4.58
4010 6468 4.805719 TGATGATTGACAGTTGTAGCGATC 59.194 41.667 0.00 0.00 0.00 3.69
4011 6469 3.179048 TGATTGACAGTTGTAGCGATCG 58.821 45.455 11.69 11.69 0.00 3.69
4012 6470 2.717580 TTGACAGTTGTAGCGATCGT 57.282 45.000 17.81 6.21 0.00 3.73
4013 6471 3.835378 TTGACAGTTGTAGCGATCGTA 57.165 42.857 17.81 5.19 0.00 3.43
4014 6472 4.365899 TTGACAGTTGTAGCGATCGTAT 57.634 40.909 17.81 8.57 0.00 3.06
4015 6473 5.488645 TTGACAGTTGTAGCGATCGTATA 57.511 39.130 17.81 7.52 0.00 1.47
4016 6474 5.684550 TGACAGTTGTAGCGATCGTATAT 57.315 39.130 17.81 3.34 0.00 0.86
4017 6475 6.790285 TGACAGTTGTAGCGATCGTATATA 57.210 37.500 17.81 5.95 0.00 0.86
4018 6476 6.828672 TGACAGTTGTAGCGATCGTATATAG 58.171 40.000 17.81 3.28 0.00 1.31
4019 6477 6.647895 TGACAGTTGTAGCGATCGTATATAGA 59.352 38.462 17.81 1.12 0.00 1.98
4020 6478 7.172019 TGACAGTTGTAGCGATCGTATATAGAA 59.828 37.037 17.81 7.05 0.00 2.10
4021 6479 7.868775 ACAGTTGTAGCGATCGTATATAGAAA 58.131 34.615 17.81 0.00 0.00 2.52
4022 6480 8.512956 ACAGTTGTAGCGATCGTATATAGAAAT 58.487 33.333 17.81 6.42 0.00 2.17
4023 6481 9.343103 CAGTTGTAGCGATCGTATATAGAAATT 57.657 33.333 17.81 0.65 0.00 1.82
4024 6482 9.909644 AGTTGTAGCGATCGTATATAGAAATTT 57.090 29.630 17.81 0.00 0.00 1.82
4027 6485 9.687210 TGTAGCGATCGTATATAGAAATTTTGT 57.313 29.630 17.81 0.00 0.00 2.83
4030 6488 8.861101 AGCGATCGTATATAGAAATTTTGTAGC 58.139 33.333 17.81 0.00 0.00 3.58
4031 6489 8.644619 GCGATCGTATATAGAAATTTTGTAGCA 58.355 33.333 17.81 0.00 0.00 3.49
4043 6501 8.632679 AGAAATTTTGTAGCAGAGTTGATTTCA 58.367 29.630 0.00 0.00 34.89 2.69
4044 6502 9.248291 GAAATTTTGTAGCAGAGTTGATTTCAA 57.752 29.630 0.00 0.00 33.48 2.69
4045 6503 9.768662 AAATTTTGTAGCAGAGTTGATTTCAAT 57.231 25.926 0.00 0.00 38.24 2.57
4046 6504 9.768662 AATTTTGTAGCAGAGTTGATTTCAATT 57.231 25.926 0.00 0.00 38.24 2.32
4047 6505 8.578308 TTTTGTAGCAGAGTTGATTTCAATTG 57.422 30.769 0.00 0.00 38.24 2.32
4048 6506 6.258230 TGTAGCAGAGTTGATTTCAATTGG 57.742 37.500 5.42 0.00 38.24 3.16
4049 6507 4.796038 AGCAGAGTTGATTTCAATTGGG 57.204 40.909 5.42 0.00 38.24 4.12
4050 6508 4.154942 AGCAGAGTTGATTTCAATTGGGT 58.845 39.130 5.42 0.00 38.24 4.51
4051 6509 4.590222 AGCAGAGTTGATTTCAATTGGGTT 59.410 37.500 5.42 0.00 38.24 4.11
4052 6510 5.774690 AGCAGAGTTGATTTCAATTGGGTTA 59.225 36.000 5.42 0.00 38.24 2.85
4053 6511 6.267471 AGCAGAGTTGATTTCAATTGGGTTAA 59.733 34.615 5.42 0.00 38.24 2.01
4054 6512 7.038799 AGCAGAGTTGATTTCAATTGGGTTAAT 60.039 33.333 5.42 1.15 38.24 1.40
4055 6513 7.276438 GCAGAGTTGATTTCAATTGGGTTAATC 59.724 37.037 5.42 10.14 38.24 1.75
4056 6514 8.526147 CAGAGTTGATTTCAATTGGGTTAATCT 58.474 33.333 5.42 0.00 38.24 2.40
4057 6515 8.743714 AGAGTTGATTTCAATTGGGTTAATCTC 58.256 33.333 5.42 7.15 38.24 2.75
4058 6516 8.421249 AGTTGATTTCAATTGGGTTAATCTCA 57.579 30.769 5.42 0.00 38.24 3.27
4059 6517 8.306761 AGTTGATTTCAATTGGGTTAATCTCAC 58.693 33.333 5.42 10.23 38.24 3.51
4060 6518 6.851609 TGATTTCAATTGGGTTAATCTCACG 58.148 36.000 5.42 0.00 0.00 4.35
4061 6519 6.657117 TGATTTCAATTGGGTTAATCTCACGA 59.343 34.615 5.42 0.00 0.00 4.35
4062 6520 5.873179 TTCAATTGGGTTAATCTCACGAC 57.127 39.130 5.42 0.00 0.00 4.34
4063 6521 4.258543 TCAATTGGGTTAATCTCACGACC 58.741 43.478 5.42 0.00 0.00 4.79
4064 6522 2.373540 TTGGGTTAATCTCACGACCG 57.626 50.000 0.00 0.00 32.91 4.79
4065 6523 0.108520 TGGGTTAATCTCACGACCGC 60.109 55.000 0.00 0.00 32.91 5.68
4066 6524 1.143969 GGGTTAATCTCACGACCGCG 61.144 60.000 0.00 0.00 44.79 6.46
4067 6525 0.179156 GGTTAATCTCACGACCGCGA 60.179 55.000 8.23 0.00 41.64 5.87
4068 6526 0.912528 GTTAATCTCACGACCGCGAC 59.087 55.000 8.23 0.00 41.64 5.19
4069 6527 0.522626 TTAATCTCACGACCGCGACA 59.477 50.000 8.23 0.00 41.64 4.35
4070 6528 0.522626 TAATCTCACGACCGCGACAA 59.477 50.000 8.23 0.00 41.64 3.18
4071 6529 1.007336 AATCTCACGACCGCGACAAC 61.007 55.000 8.23 0.00 41.64 3.32
4072 6530 2.137425 ATCTCACGACCGCGACAACA 62.137 55.000 8.23 0.00 41.64 3.33
4073 6531 2.645510 CTCACGACCGCGACAACAC 61.646 63.158 8.23 0.00 41.64 3.32
4074 6532 2.957489 CACGACCGCGACAACACA 60.957 61.111 8.23 0.00 41.64 3.72
4075 6533 2.958016 ACGACCGCGACAACACAC 60.958 61.111 8.23 0.00 41.64 3.82
4076 6534 2.957489 CGACCGCGACAACACACA 60.957 61.111 8.23 0.00 40.82 3.72
4077 6535 2.927618 CGACCGCGACAACACACAG 61.928 63.158 8.23 0.00 40.82 3.66
4078 6536 1.590525 GACCGCGACAACACACAGA 60.591 57.895 8.23 0.00 0.00 3.41
4079 6537 1.818221 GACCGCGACAACACACAGAC 61.818 60.000 8.23 0.00 0.00 3.51
4080 6538 2.539503 CGCGACAACACACAGACG 59.460 61.111 0.00 0.00 0.00 4.18
4081 6539 2.245532 GCGACAACACACAGACGC 59.754 61.111 0.00 0.00 39.33 5.19
4082 6540 2.521771 GCGACAACACACAGACGCA 61.522 57.895 0.00 0.00 44.29 5.24
4083 6541 2.002899 CGACAACACACAGACGCAA 58.997 52.632 0.00 0.00 0.00 4.85
4084 6542 0.581529 CGACAACACACAGACGCAAT 59.418 50.000 0.00 0.00 0.00 3.56
4085 6543 1.657260 CGACAACACACAGACGCAATG 60.657 52.381 0.00 0.00 0.00 2.82
4086 6544 1.597195 GACAACACACAGACGCAATGA 59.403 47.619 0.00 0.00 0.00 2.57
4087 6545 2.221169 ACAACACACAGACGCAATGAT 58.779 42.857 0.00 0.00 0.00 2.45
4088 6546 3.398406 ACAACACACAGACGCAATGATA 58.602 40.909 0.00 0.00 0.00 2.15
4089 6547 3.186409 ACAACACACAGACGCAATGATAC 59.814 43.478 0.00 0.00 0.00 2.24
4090 6548 3.038788 ACACACAGACGCAATGATACA 57.961 42.857 0.00 0.00 0.00 2.29
4091 6549 2.736721 ACACACAGACGCAATGATACAC 59.263 45.455 0.00 0.00 0.00 2.90
4092 6550 1.992667 ACACAGACGCAATGATACACG 59.007 47.619 0.00 0.00 0.00 4.49
4093 6551 1.324435 CACAGACGCAATGATACACGG 59.676 52.381 0.00 0.00 0.00 4.94
4094 6552 0.930310 CAGACGCAATGATACACGGG 59.070 55.000 0.00 0.00 0.00 5.28
4095 6553 0.535335 AGACGCAATGATACACGGGT 59.465 50.000 0.00 0.00 0.00 5.28
4096 6554 0.650512 GACGCAATGATACACGGGTG 59.349 55.000 0.00 0.00 0.00 4.61
4097 6555 0.036765 ACGCAATGATACACGGGTGT 60.037 50.000 0.00 9.66 46.87 4.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1143 2721 1.235281 GGAACTTGAGGAACGGCACC 61.235 60.000 0.00 0.00 0.00 5.01
1831 3482 5.797934 CACACGGCGTATCAAATAAAAACAT 59.202 36.000 14.22 0.00 0.00 2.71
2129 3812 4.220821 GGGACACTCAGTAGAATGAACTCA 59.779 45.833 0.00 0.00 0.00 3.41
2756 4829 8.443160 CAATAGCCAAATATCACCGTATAGTTG 58.557 37.037 0.00 0.00 37.23 3.16
3226 5429 4.222810 TGAACCTGCATATATCGCCTGTAT 59.777 41.667 0.00 0.00 0.00 2.29
3883 6341 5.063204 CACCAAAGGGGATTTTCTTTTTCC 58.937 41.667 0.00 0.00 41.15 3.13
3884 6342 5.680619 ACACCAAAGGGGATTTTCTTTTTC 58.319 37.500 0.00 0.00 41.15 2.29
3885 6343 5.708736 ACACCAAAGGGGATTTTCTTTTT 57.291 34.783 0.00 0.00 41.15 1.94
3886 6344 5.708736 AACACCAAAGGGGATTTTCTTTT 57.291 34.783 0.00 0.00 41.15 2.27
3887 6345 5.708736 AAACACCAAAGGGGATTTTCTTT 57.291 34.783 0.00 0.00 41.15 2.52
3888 6346 5.190726 TGAAAACACCAAAGGGGATTTTCTT 59.809 36.000 18.13 0.00 45.40 2.52
3889 6347 4.719273 TGAAAACACCAAAGGGGATTTTCT 59.281 37.500 18.13 0.00 45.40 2.52
3890 6348 4.814234 GTGAAAACACCAAAGGGGATTTTC 59.186 41.667 13.98 13.98 45.40 2.29
3891 6349 4.226168 TGTGAAAACACCAAAGGGGATTTT 59.774 37.500 0.00 0.00 39.53 1.82
3892 6350 3.777522 TGTGAAAACACCAAAGGGGATTT 59.222 39.130 0.00 0.00 41.15 2.17
3893 6351 3.379452 TGTGAAAACACCAAAGGGGATT 58.621 40.909 0.00 0.00 41.15 3.01
3894 6352 3.039252 TGTGAAAACACCAAAGGGGAT 57.961 42.857 0.00 0.00 41.15 3.85
3895 6353 2.534042 TGTGAAAACACCAAAGGGGA 57.466 45.000 0.00 0.00 41.15 4.81
3896 6354 2.433970 ACATGTGAAAACACCAAAGGGG 59.566 45.455 0.00 0.00 44.81 4.79
3897 6355 3.716601 GACATGTGAAAACACCAAAGGG 58.283 45.455 1.15 0.00 41.29 3.95
3898 6356 3.371168 CGACATGTGAAAACACCAAAGG 58.629 45.455 1.15 0.00 0.00 3.11
3899 6357 3.181491 ACCGACATGTGAAAACACCAAAG 60.181 43.478 1.15 0.00 0.00 2.77
3900 6358 2.755655 ACCGACATGTGAAAACACCAAA 59.244 40.909 1.15 0.00 0.00 3.28
3901 6359 2.370349 ACCGACATGTGAAAACACCAA 58.630 42.857 1.15 0.00 0.00 3.67
3902 6360 2.045561 ACCGACATGTGAAAACACCA 57.954 45.000 1.15 0.00 0.00 4.17
3903 6361 2.542824 CCAACCGACATGTGAAAACACC 60.543 50.000 1.15 0.00 0.00 4.16
3904 6362 2.098443 ACCAACCGACATGTGAAAACAC 59.902 45.455 1.15 0.00 0.00 3.32
3905 6363 2.356382 GACCAACCGACATGTGAAAACA 59.644 45.455 1.15 0.00 0.00 2.83
3906 6364 2.616842 AGACCAACCGACATGTGAAAAC 59.383 45.455 1.15 0.00 0.00 2.43
3907 6365 2.616376 CAGACCAACCGACATGTGAAAA 59.384 45.455 1.15 0.00 0.00 2.29
3908 6366 2.158885 TCAGACCAACCGACATGTGAAA 60.159 45.455 1.15 0.00 0.00 2.69
3909 6367 1.414550 TCAGACCAACCGACATGTGAA 59.585 47.619 1.15 0.00 0.00 3.18
3910 6368 1.044611 TCAGACCAACCGACATGTGA 58.955 50.000 1.15 0.00 0.00 3.58
3911 6369 2.002586 GATCAGACCAACCGACATGTG 58.997 52.381 1.15 0.00 0.00 3.21
3912 6370 1.623311 TGATCAGACCAACCGACATGT 59.377 47.619 0.00 0.00 0.00 3.21
3913 6371 2.002586 GTGATCAGACCAACCGACATG 58.997 52.381 0.00 0.00 0.00 3.21
3914 6372 1.623311 TGTGATCAGACCAACCGACAT 59.377 47.619 0.00 0.00 0.00 3.06
3915 6373 1.044611 TGTGATCAGACCAACCGACA 58.955 50.000 0.00 0.00 0.00 4.35
3916 6374 2.163818 TTGTGATCAGACCAACCGAC 57.836 50.000 0.00 0.00 0.00 4.79
3917 6375 2.920724 TTTGTGATCAGACCAACCGA 57.079 45.000 0.00 0.00 0.00 4.69
3918 6376 3.063997 GCTATTTGTGATCAGACCAACCG 59.936 47.826 0.00 0.00 0.00 4.44
3919 6377 3.378427 GGCTATTTGTGATCAGACCAACC 59.622 47.826 0.00 0.00 0.00 3.77
3920 6378 3.378427 GGGCTATTTGTGATCAGACCAAC 59.622 47.826 0.00 0.00 36.11 3.77
3921 6379 3.620488 GGGCTATTTGTGATCAGACCAA 58.380 45.455 0.00 0.00 36.11 3.67
3922 6380 2.092429 GGGGCTATTTGTGATCAGACCA 60.092 50.000 0.00 0.00 38.00 4.02
3923 6381 2.173569 AGGGGCTATTTGTGATCAGACC 59.826 50.000 0.00 0.00 35.25 3.85
3924 6382 3.567478 AGGGGCTATTTGTGATCAGAC 57.433 47.619 0.00 0.00 0.00 3.51
3925 6383 5.708736 TTTAGGGGCTATTTGTGATCAGA 57.291 39.130 0.00 0.00 0.00 3.27
3926 6384 6.302269 AGATTTAGGGGCTATTTGTGATCAG 58.698 40.000 0.00 0.00 0.00 2.90
3927 6385 6.266131 AGATTTAGGGGCTATTTGTGATCA 57.734 37.500 0.00 0.00 0.00 2.92
3928 6386 7.428826 CAAAGATTTAGGGGCTATTTGTGATC 58.571 38.462 0.00 0.00 0.00 2.92
3929 6387 6.183360 GCAAAGATTTAGGGGCTATTTGTGAT 60.183 38.462 0.00 0.00 0.00 3.06
3930 6388 5.127031 GCAAAGATTTAGGGGCTATTTGTGA 59.873 40.000 0.00 0.00 0.00 3.58
3931 6389 5.127682 AGCAAAGATTTAGGGGCTATTTGTG 59.872 40.000 0.00 0.00 0.00 3.33
3932 6390 5.272402 AGCAAAGATTTAGGGGCTATTTGT 58.728 37.500 0.00 0.00 0.00 2.83
3933 6391 5.859205 AGCAAAGATTTAGGGGCTATTTG 57.141 39.130 0.00 0.00 0.00 2.32
3934 6392 5.957774 TGAAGCAAAGATTTAGGGGCTATTT 59.042 36.000 0.00 0.00 0.00 1.40
3935 6393 5.518865 TGAAGCAAAGATTTAGGGGCTATT 58.481 37.500 0.00 0.00 0.00 1.73
3936 6394 5.129368 TGAAGCAAAGATTTAGGGGCTAT 57.871 39.130 0.00 0.00 0.00 2.97
3937 6395 4.584638 TGAAGCAAAGATTTAGGGGCTA 57.415 40.909 0.00 0.00 0.00 3.93
3938 6396 3.456380 TGAAGCAAAGATTTAGGGGCT 57.544 42.857 0.00 0.00 0.00 5.19
3939 6397 3.956848 AGATGAAGCAAAGATTTAGGGGC 59.043 43.478 0.00 0.00 0.00 5.80
3940 6398 7.503566 TGAATAGATGAAGCAAAGATTTAGGGG 59.496 37.037 0.00 0.00 0.00 4.79
3941 6399 8.455903 TGAATAGATGAAGCAAAGATTTAGGG 57.544 34.615 0.00 0.00 0.00 3.53
3945 6403 9.985730 TTGTTTGAATAGATGAAGCAAAGATTT 57.014 25.926 0.00 0.00 0.00 2.17
3946 6404 9.985730 TTTGTTTGAATAGATGAAGCAAAGATT 57.014 25.926 0.00 0.00 29.77 2.40
3947 6405 9.985730 TTTTGTTTGAATAGATGAAGCAAAGAT 57.014 25.926 0.00 0.00 33.28 2.40
3948 6406 9.814899 TTTTTGTTTGAATAGATGAAGCAAAGA 57.185 25.926 0.00 0.00 33.28 2.52
3949 6407 9.853921 GTTTTTGTTTGAATAGATGAAGCAAAG 57.146 29.630 0.00 0.00 33.28 2.77
3950 6408 8.825745 GGTTTTTGTTTGAATAGATGAAGCAAA 58.174 29.630 0.00 0.00 30.80 3.68
3951 6409 7.440856 GGGTTTTTGTTTGAATAGATGAAGCAA 59.559 33.333 0.00 0.00 0.00 3.91
3952 6410 6.928492 GGGTTTTTGTTTGAATAGATGAAGCA 59.072 34.615 0.00 0.00 0.00 3.91
3953 6411 7.116805 CAGGGTTTTTGTTTGAATAGATGAAGC 59.883 37.037 0.00 0.00 0.00 3.86
3954 6412 8.143835 ACAGGGTTTTTGTTTGAATAGATGAAG 58.856 33.333 0.00 0.00 0.00 3.02
3955 6413 8.017418 ACAGGGTTTTTGTTTGAATAGATGAA 57.983 30.769 0.00 0.00 0.00 2.57
3956 6414 7.286546 TGACAGGGTTTTTGTTTGAATAGATGA 59.713 33.333 0.00 0.00 0.00 2.92
3957 6415 7.432869 TGACAGGGTTTTTGTTTGAATAGATG 58.567 34.615 0.00 0.00 0.00 2.90
3958 6416 7.287696 ACTGACAGGGTTTTTGTTTGAATAGAT 59.712 33.333 7.51 0.00 0.00 1.98
3959 6417 6.605594 ACTGACAGGGTTTTTGTTTGAATAGA 59.394 34.615 7.51 0.00 0.00 1.98
3960 6418 6.805713 ACTGACAGGGTTTTTGTTTGAATAG 58.194 36.000 7.51 0.00 0.00 1.73
3961 6419 6.605594 AGACTGACAGGGTTTTTGTTTGAATA 59.394 34.615 7.51 0.00 0.00 1.75
3962 6420 5.422012 AGACTGACAGGGTTTTTGTTTGAAT 59.578 36.000 7.51 0.00 0.00 2.57
3963 6421 4.770010 AGACTGACAGGGTTTTTGTTTGAA 59.230 37.500 7.51 0.00 0.00 2.69
3964 6422 4.340617 AGACTGACAGGGTTTTTGTTTGA 58.659 39.130 7.51 0.00 0.00 2.69
3965 6423 4.718940 AGACTGACAGGGTTTTTGTTTG 57.281 40.909 7.51 0.00 0.00 2.93
3966 6424 4.770010 TCAAGACTGACAGGGTTTTTGTTT 59.230 37.500 7.51 0.00 0.00 2.83
3967 6425 4.340617 TCAAGACTGACAGGGTTTTTGTT 58.659 39.130 7.51 0.00 0.00 2.83
3968 6426 3.963129 TCAAGACTGACAGGGTTTTTGT 58.037 40.909 7.51 0.00 0.00 2.83
3969 6427 4.580167 TCATCAAGACTGACAGGGTTTTTG 59.420 41.667 7.51 4.27 33.30 2.44
3970 6428 4.792068 TCATCAAGACTGACAGGGTTTTT 58.208 39.130 7.51 0.00 33.30 1.94
3971 6429 4.437682 TCATCAAGACTGACAGGGTTTT 57.562 40.909 7.51 0.00 33.30 2.43
3972 6430 4.647564 ATCATCAAGACTGACAGGGTTT 57.352 40.909 7.51 0.00 33.30 3.27
3973 6431 4.042062 TCAATCATCAAGACTGACAGGGTT 59.958 41.667 7.51 0.00 33.30 4.11
3974 6432 3.584406 TCAATCATCAAGACTGACAGGGT 59.416 43.478 7.51 0.00 33.30 4.34
3975 6433 4.212143 TCAATCATCAAGACTGACAGGG 57.788 45.455 7.51 0.00 33.30 4.45
3980 6438 5.614308 ACAACTGTCAATCATCAAGACTGA 58.386 37.500 0.00 0.00 35.83 3.41
3981 6439 5.936686 ACAACTGTCAATCATCAAGACTG 57.063 39.130 0.00 0.00 37.29 3.51
3982 6440 5.641209 GCTACAACTGTCAATCATCAAGACT 59.359 40.000 0.00 0.00 33.56 3.24
3983 6441 5.445142 CGCTACAACTGTCAATCATCAAGAC 60.445 44.000 0.00 0.00 0.00 3.01
3984 6442 4.627035 CGCTACAACTGTCAATCATCAAGA 59.373 41.667 0.00 0.00 0.00 3.02
3985 6443 4.627035 TCGCTACAACTGTCAATCATCAAG 59.373 41.667 0.00 0.00 0.00 3.02
3986 6444 4.565022 TCGCTACAACTGTCAATCATCAA 58.435 39.130 0.00 0.00 0.00 2.57
3987 6445 4.186856 TCGCTACAACTGTCAATCATCA 57.813 40.909 0.00 0.00 0.00 3.07
3988 6446 4.085363 CGATCGCTACAACTGTCAATCATC 60.085 45.833 0.26 0.00 0.00 2.92
3989 6447 3.798878 CGATCGCTACAACTGTCAATCAT 59.201 43.478 0.26 0.00 0.00 2.45
3990 6448 3.179048 CGATCGCTACAACTGTCAATCA 58.821 45.455 0.26 0.00 0.00 2.57
3991 6449 3.179830 ACGATCGCTACAACTGTCAATC 58.820 45.455 16.60 0.00 0.00 2.67
3992 6450 3.232213 ACGATCGCTACAACTGTCAAT 57.768 42.857 16.60 0.00 0.00 2.57
3993 6451 2.717580 ACGATCGCTACAACTGTCAA 57.282 45.000 16.60 0.00 0.00 3.18
3994 6452 5.684550 ATATACGATCGCTACAACTGTCA 57.315 39.130 16.60 0.00 0.00 3.58
3995 6453 7.058298 TCTATATACGATCGCTACAACTGTC 57.942 40.000 16.60 0.00 0.00 3.51
3996 6454 7.430992 TTCTATATACGATCGCTACAACTGT 57.569 36.000 16.60 0.00 0.00 3.55
3997 6455 8.897457 ATTTCTATATACGATCGCTACAACTG 57.103 34.615 16.60 0.00 0.00 3.16
3998 6456 9.909644 AAATTTCTATATACGATCGCTACAACT 57.090 29.630 16.60 0.00 0.00 3.16
4001 6459 9.687210 ACAAAATTTCTATATACGATCGCTACA 57.313 29.630 16.60 0.00 0.00 2.74
4004 6462 8.861101 GCTACAAAATTTCTATATACGATCGCT 58.139 33.333 16.60 5.44 0.00 4.93
4005 6463 8.644619 TGCTACAAAATTTCTATATACGATCGC 58.355 33.333 16.60 0.00 0.00 4.58
4017 6475 8.632679 TGAAATCAACTCTGCTACAAAATTTCT 58.367 29.630 0.00 0.00 33.76 2.52
4018 6476 8.801715 TGAAATCAACTCTGCTACAAAATTTC 57.198 30.769 0.00 0.00 33.41 2.17
4019 6477 9.768662 ATTGAAATCAACTCTGCTACAAAATTT 57.231 25.926 0.00 0.00 38.86 1.82
4020 6478 9.768662 AATTGAAATCAACTCTGCTACAAAATT 57.231 25.926 0.00 0.00 38.86 1.82
4021 6479 9.199982 CAATTGAAATCAACTCTGCTACAAAAT 57.800 29.630 0.00 0.00 38.86 1.82
4022 6480 7.652909 CCAATTGAAATCAACTCTGCTACAAAA 59.347 33.333 7.12 0.00 38.86 2.44
4023 6481 7.147312 CCAATTGAAATCAACTCTGCTACAAA 58.853 34.615 7.12 0.00 38.86 2.83
4024 6482 6.294675 CCCAATTGAAATCAACTCTGCTACAA 60.295 38.462 7.12 0.00 38.86 2.41
4025 6483 5.183713 CCCAATTGAAATCAACTCTGCTACA 59.816 40.000 7.12 0.00 38.86 2.74
4026 6484 5.183904 ACCCAATTGAAATCAACTCTGCTAC 59.816 40.000 7.12 0.00 38.86 3.58
4027 6485 5.324409 ACCCAATTGAAATCAACTCTGCTA 58.676 37.500 7.12 0.00 38.86 3.49
4028 6486 4.154942 ACCCAATTGAAATCAACTCTGCT 58.845 39.130 7.12 0.00 38.86 4.24
4029 6487 4.525912 ACCCAATTGAAATCAACTCTGC 57.474 40.909 7.12 0.00 38.86 4.26
4030 6488 8.526147 AGATTAACCCAATTGAAATCAACTCTG 58.474 33.333 7.12 0.00 38.86 3.35
4031 6489 8.655935 AGATTAACCCAATTGAAATCAACTCT 57.344 30.769 7.12 0.00 38.86 3.24
4032 6490 8.522830 TGAGATTAACCCAATTGAAATCAACTC 58.477 33.333 7.12 8.65 38.86 3.01
4033 6491 8.306761 GTGAGATTAACCCAATTGAAATCAACT 58.693 33.333 7.12 0.00 38.86 3.16
4034 6492 7.273381 CGTGAGATTAACCCAATTGAAATCAAC 59.727 37.037 7.12 10.92 38.86 3.18
4035 6493 7.175816 TCGTGAGATTAACCCAATTGAAATCAA 59.824 33.333 7.12 0.00 36.10 2.57
4036 6494 6.657117 TCGTGAGATTAACCCAATTGAAATCA 59.343 34.615 7.12 0.16 33.31 2.57
4037 6495 6.967199 GTCGTGAGATTAACCCAATTGAAATC 59.033 38.462 7.12 10.12 45.19 2.17
4038 6496 6.127730 GGTCGTGAGATTAACCCAATTGAAAT 60.128 38.462 7.12 1.26 45.19 2.17
4039 6497 5.182380 GGTCGTGAGATTAACCCAATTGAAA 59.818 40.000 7.12 0.00 45.19 2.69
4040 6498 4.698304 GGTCGTGAGATTAACCCAATTGAA 59.302 41.667 7.12 0.00 45.19 2.69
4041 6499 4.258543 GGTCGTGAGATTAACCCAATTGA 58.741 43.478 7.12 0.00 45.19 2.57
4042 6500 3.063452 CGGTCGTGAGATTAACCCAATTG 59.937 47.826 0.00 0.00 45.19 2.32
4043 6501 3.267483 CGGTCGTGAGATTAACCCAATT 58.733 45.455 0.00 0.00 45.19 2.32
4044 6502 2.901249 CGGTCGTGAGATTAACCCAAT 58.099 47.619 0.00 0.00 45.19 3.16
4045 6503 1.673626 GCGGTCGTGAGATTAACCCAA 60.674 52.381 0.00 0.00 45.19 4.12
4046 6504 0.108520 GCGGTCGTGAGATTAACCCA 60.109 55.000 0.00 0.00 45.19 4.51
4047 6505 1.143969 CGCGGTCGTGAGATTAACCC 61.144 60.000 0.00 0.00 45.19 4.11
4048 6506 0.179156 TCGCGGTCGTGAGATTAACC 60.179 55.000 6.13 0.00 45.19 2.85
4049 6507 0.912528 GTCGCGGTCGTGAGATTAAC 59.087 55.000 6.13 0.00 45.19 2.01
4050 6508 0.522626 TGTCGCGGTCGTGAGATTAA 59.477 50.000 6.13 0.00 45.19 1.40
4051 6509 0.522626 TTGTCGCGGTCGTGAGATTA 59.477 50.000 6.13 0.00 45.19 1.75
4052 6510 1.007336 GTTGTCGCGGTCGTGAGATT 61.007 55.000 6.13 0.00 45.19 2.40
4053 6511 1.443872 GTTGTCGCGGTCGTGAGAT 60.444 57.895 6.13 0.00 45.19 2.75
4054 6512 2.050714 GTTGTCGCGGTCGTGAGA 60.051 61.111 6.13 3.20 35.12 3.27
4055 6513 2.354188 TGTTGTCGCGGTCGTGAG 60.354 61.111 6.13 0.00 35.12 3.51
4056 6514 2.656007 GTGTTGTCGCGGTCGTGA 60.656 61.111 6.13 2.28 36.96 4.35
4057 6515 2.957489 TGTGTTGTCGCGGTCGTG 60.957 61.111 6.13 0.00 36.96 4.35
4058 6516 2.958016 GTGTGTTGTCGCGGTCGT 60.958 61.111 6.13 0.00 36.96 4.34
4059 6517 2.927618 CTGTGTGTTGTCGCGGTCG 61.928 63.158 6.13 0.00 0.00 4.79
4060 6518 1.590525 TCTGTGTGTTGTCGCGGTC 60.591 57.895 6.13 0.00 0.00 4.79
4061 6519 1.881252 GTCTGTGTGTTGTCGCGGT 60.881 57.895 6.13 0.00 0.00 5.68
4062 6520 2.927618 CGTCTGTGTGTTGTCGCGG 61.928 63.158 6.13 0.00 0.00 6.46
4063 6521 2.539503 CGTCTGTGTGTTGTCGCG 59.460 61.111 0.00 0.00 0.00 5.87
4064 6522 2.031044 TTGCGTCTGTGTGTTGTCGC 62.031 55.000 0.00 0.00 43.14 5.19
4065 6523 0.581529 ATTGCGTCTGTGTGTTGTCG 59.418 50.000 0.00 0.00 0.00 4.35
4066 6524 1.597195 TCATTGCGTCTGTGTGTTGTC 59.403 47.619 0.00 0.00 0.00 3.18
4067 6525 1.662517 TCATTGCGTCTGTGTGTTGT 58.337 45.000 0.00 0.00 0.00 3.32
4068 6526 2.975410 ATCATTGCGTCTGTGTGTTG 57.025 45.000 0.00 0.00 0.00 3.33
4069 6527 3.186409 GTGTATCATTGCGTCTGTGTGTT 59.814 43.478 0.00 0.00 0.00 3.32
4070 6528 2.736721 GTGTATCATTGCGTCTGTGTGT 59.263 45.455 0.00 0.00 0.00 3.72
4071 6529 2.222574 CGTGTATCATTGCGTCTGTGTG 60.223 50.000 0.00 0.00 0.00 3.82
4072 6530 1.992667 CGTGTATCATTGCGTCTGTGT 59.007 47.619 0.00 0.00 0.00 3.72
4073 6531 1.324435 CCGTGTATCATTGCGTCTGTG 59.676 52.381 0.00 0.00 0.00 3.66
4074 6532 1.640428 CCGTGTATCATTGCGTCTGT 58.360 50.000 0.00 0.00 0.00 3.41
4075 6533 0.930310 CCCGTGTATCATTGCGTCTG 59.070 55.000 0.00 0.00 0.00 3.51
4076 6534 0.535335 ACCCGTGTATCATTGCGTCT 59.465 50.000 0.00 0.00 0.00 4.18
4077 6535 0.650512 CACCCGTGTATCATTGCGTC 59.349 55.000 0.00 0.00 0.00 5.19
4078 6536 0.036765 ACACCCGTGTATCATTGCGT 60.037 50.000 0.00 0.00 42.90 5.24
4079 6537 0.373370 CACACCCGTGTATCATTGCG 59.627 55.000 0.00 0.00 42.83 4.85
4080 6538 0.732571 CCACACCCGTGTATCATTGC 59.267 55.000 0.00 0.00 42.83 3.56
4081 6539 0.732571 GCCACACCCGTGTATCATTG 59.267 55.000 0.00 0.00 42.83 2.82
4082 6540 0.742990 CGCCACACCCGTGTATCATT 60.743 55.000 0.00 0.00 42.83 2.57
4083 6541 1.153449 CGCCACACCCGTGTATCAT 60.153 57.895 0.00 0.00 42.83 2.45
4084 6542 2.263227 CGCCACACCCGTGTATCA 59.737 61.111 0.00 0.00 42.83 2.15


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

AutoCloner maintained by Alex Coulton.