Multiple sequence alignment - TraesCS1A01G372200

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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 TraesCS1A01G372200 chr1A 100.000 3242 0 0 1 3242 548771420 548774661 0.000000e+00 5987.0
1 TraesCS1A01G372200 chr1A 90.664 1371 104 11 961 2313 548733332 548734696 0.000000e+00 1801.0
2 TraesCS1A01G372200 chr1A 89.861 1223 90 17 963 2157 548789296 548790512 0.000000e+00 1541.0
3 TraesCS1A01G372200 chr1A 81.330 391 41 21 79 467 548732534 548732894 4.090000e-74 289.0
4 TraesCS1A01G372200 chr1A 80.779 385 39 14 1 378 548787865 548788221 5.330000e-68 268.0
5 TraesCS1A01G372200 chr1D 90.035 2318 175 30 961 3241 454769065 454771363 0.000000e+00 2950.0
6 TraesCS1A01G372200 chr1D 91.780 1472 61 25 961 2396 454458459 454457012 0.000000e+00 1993.0
7 TraesCS1A01G372200 chr1D 87.256 1483 115 30 961 2398 454493849 454492396 0.000000e+00 1624.0
8 TraesCS1A01G372200 chr1D 89.595 1211 92 15 975 2157 454812740 454813944 0.000000e+00 1507.0
9 TraesCS1A01G372200 chr1D 89.489 333 29 2 135 467 454459297 454458971 1.800000e-112 416.0
10 TraesCS1A01G372200 chr1D 82.670 352 37 13 79 429 454494922 454494594 1.140000e-74 291.0
11 TraesCS1A01G372200 chr1D 81.606 386 38 17 1 378 454811390 454811750 4.090000e-74 289.0
12 TraesCS1A01G372200 chr1D 85.813 289 17 9 620 884 454458748 454458460 5.290000e-73 285.0
13 TraesCS1A01G372200 chr1D 100.000 31 0 0 624 654 454494550 454494520 1.260000e-04 58.4
14 TraesCS1A01G372200 chr1B 92.550 1463 74 13 962 2398 625082562 625084015 0.000000e+00 2065.0
15 TraesCS1A01G372200 chr1B 88.824 1369 111 16 961 2313 624970796 624972138 0.000000e+00 1642.0
16 TraesCS1A01G372200 chr1B 88.980 1225 98 22 961 2157 625145189 625146404 0.000000e+00 1480.0
17 TraesCS1A01G372200 chr1B 83.991 456 32 14 1 438 625081614 625082046 1.810000e-107 399.0
18 TraesCS1A01G372200 chr1B 83.812 383 34 11 1 378 625143228 625143587 4.010000e-89 339.0
19 TraesCS1A01G372200 chr1B 79.310 464 57 17 1958 2398 625052002 625052449 4.090000e-74 289.0
20 TraesCS1A01G372200 chr1B 81.461 356 27 21 79 420 624969782 624970112 4.150000e-64 255.0
21 TraesCS1A01G372200 chr1B 86.528 193 15 5 1 192 625045905 625046087 5.480000e-48 202.0
22 TraesCS1A01G372200 chr1B 90.909 44 2 2 2538 2579 652480961 652480918 1.260000e-04 58.4
23 TraesCS1A01G372200 chr3D 82.454 872 101 34 1183 2040 362070340 362069507 0.000000e+00 715.0
24 TraesCS1A01G372200 chr3D 92.405 79 6 0 468 546 38215534 38215612 2.640000e-21 113.0
25 TraesCS1A01G372200 chr3D 90.123 81 8 0 469 549 550468482 550468562 4.420000e-19 106.0
26 TraesCS1A01G372200 chr7A 95.327 107 4 1 863 968 579199446 579199552 5.560000e-38 169.0
27 TraesCS1A01G372200 chr7D 95.283 106 3 1 863 968 104453467 104453570 2.000000e-37 167.0
28 TraesCS1A01G372200 chr7D 91.743 109 9 0 861 969 548668948 548669056 5.600000e-33 152.0
29 TraesCS1A01G372200 chr7D 90.164 122 5 6 844 961 615461348 615461466 5.600000e-33 152.0
30 TraesCS1A01G372200 chr4A 96.907 97 1 2 864 960 553449426 553449520 9.310000e-36 161.0
31 TraesCS1A01G372200 chr4A 95.146 103 4 1 865 967 738877603 738877502 9.310000e-36 161.0
32 TraesCS1A01G372200 chr6A 94.231 104 4 2 859 962 610209163 610209062 1.200000e-34 158.0
33 TraesCS1A01G372200 chr6A 85.294 68 7 3 2525 2590 600811463 600811397 2.090000e-07 67.6
34 TraesCS1A01G372200 chr2D 94.231 104 5 1 864 967 567672202 567672304 1.200000e-34 158.0
35 TraesCS1A01G372200 chr2D 89.076 119 9 4 876 994 650861478 650861364 9.370000e-31 145.0
36 TraesCS1A01G372200 chr2D 92.308 78 6 0 469 546 626426878 626426955 9.510000e-21 111.0
37 TraesCS1A01G372200 chr4D 93.671 79 5 0 468 546 87959621 87959699 5.680000e-23 119.0
38 TraesCS1A01G372200 chr4D 91.358 81 7 0 468 548 66503833 66503913 9.510000e-21 111.0
39 TraesCS1A01G372200 chr5A 92.593 81 6 0 468 548 74676154 74676074 2.040000e-22 117.0
40 TraesCS1A01G372200 chr2B 92.405 79 6 0 468 546 713926594 713926672 2.640000e-21 113.0
41 TraesCS1A01G372200 chr2B 75.936 187 35 9 2397 2577 765556221 765556403 1.600000e-13 87.9
42 TraesCS1A01G372200 chr2B 90.741 54 3 1 2525 2576 16263039 16263092 1.610000e-08 71.3
43 TraesCS1A01G372200 chr3B 89.655 87 8 1 469 554 735109347 735109433 3.420000e-20 110.0
44 TraesCS1A01G372200 chr6B 89.535 86 8 1 468 553 649810745 649810829 1.230000e-19 108.0
45 TraesCS1A01G372200 chr3A 75.714 210 31 18 2388 2589 562912710 562912907 1.600000e-13 87.9
46 TraesCS1A01G372200 chr6D 89.062 64 3 3 2524 2584 81654777 81654715 3.470000e-10 76.8
47 TraesCS1A01G372200 chr6D 75.342 146 26 8 2437 2580 112916581 112916718 9.710000e-06 62.1
48 TraesCS1A01G372200 chr5B 86.667 60 6 1 2525 2582 334071930 334071871 7.510000e-07 65.8


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 TraesCS1A01G372200 chr1A 548771420 548774661 3241 False 5987.0 5987 100.000000 1 3242 1 chr1A.!!$F1 3241
1 TraesCS1A01G372200 chr1A 548732534 548734696 2162 False 1045.0 1801 85.997000 79 2313 2 chr1A.!!$F2 2234
2 TraesCS1A01G372200 chr1A 548787865 548790512 2647 False 904.5 1541 85.320000 1 2157 2 chr1A.!!$F3 2156
3 TraesCS1A01G372200 chr1D 454769065 454771363 2298 False 2950.0 2950 90.035000 961 3241 1 chr1D.!!$F1 2280
4 TraesCS1A01G372200 chr1D 454457012 454459297 2285 True 898.0 1993 89.027333 135 2396 3 chr1D.!!$R1 2261
5 TraesCS1A01G372200 chr1D 454811390 454813944 2554 False 898.0 1507 85.600500 1 2157 2 chr1D.!!$F2 2156
6 TraesCS1A01G372200 chr1D 454492396 454494922 2526 True 657.8 1624 89.975333 79 2398 3 chr1D.!!$R2 2319
7 TraesCS1A01G372200 chr1B 625081614 625084015 2401 False 1232.0 2065 88.270500 1 2398 2 chr1B.!!$F4 2397
8 TraesCS1A01G372200 chr1B 624969782 624972138 2356 False 948.5 1642 85.142500 79 2313 2 chr1B.!!$F3 2234
9 TraesCS1A01G372200 chr1B 625143228 625146404 3176 False 909.5 1480 86.396000 1 2157 2 chr1B.!!$F5 2156
10 TraesCS1A01G372200 chr3D 362069507 362070340 833 True 715.0 715 82.454000 1183 2040 1 chr3D.!!$R1 857

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
789 3085 0.31904 CCACACTCACACTCACCTCG 60.319 60.0 0.0 0.0 0.0 4.63 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2745 5225 0.036388 TCCCTTGAAGCCTTAGCACG 60.036 55.0 0.0 0.0 43.56 5.34 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
30 32 1.377333 TGACGGGCACACAACAACA 60.377 52.632 0.00 0.00 0.00 3.33
59 65 2.131183 GTTGCATAAGCGCCAAAACAA 58.869 42.857 2.29 0.44 46.23 2.83
69 75 2.555199 CGCCAAAACAAAAATGGGTCA 58.445 42.857 0.00 0.00 34.71 4.02
70 76 2.543430 CGCCAAAACAAAAATGGGTCAG 59.457 45.455 0.00 0.00 34.71 3.51
71 77 2.290367 GCCAAAACAAAAATGGGTCAGC 59.710 45.455 0.00 0.00 34.71 4.26
72 78 3.807553 CCAAAACAAAAATGGGTCAGCT 58.192 40.909 0.00 0.00 0.00 4.24
73 79 3.560896 CCAAAACAAAAATGGGTCAGCTG 59.439 43.478 7.63 7.63 0.00 4.24
74 80 4.440880 CAAAACAAAAATGGGTCAGCTGA 58.559 39.130 13.74 13.74 0.00 4.26
75 81 4.326504 AAACAAAAATGGGTCAGCTGAG 57.673 40.909 18.89 4.33 0.00 3.35
76 82 1.615392 ACAAAAATGGGTCAGCTGAGC 59.385 47.619 32.87 32.87 41.50 4.26
77 83 1.891150 CAAAAATGGGTCAGCTGAGCT 59.109 47.619 36.85 21.32 41.88 4.09
125 132 2.876550 GTTCTTCCACTTGTAGGCGTTT 59.123 45.455 0.00 0.00 0.00 3.60
143 157 3.383185 CGTTTCTAAGAGGAGGAGATGCT 59.617 47.826 0.00 0.00 0.00 3.79
146 160 5.606348 TTCTAAGAGGAGGAGATGCTTTC 57.394 43.478 0.00 0.00 0.00 2.62
163 184 0.970640 TTCCTTGGCGTGCTACTACA 59.029 50.000 0.00 0.00 0.00 2.74
254 276 0.946700 TCACGCAACCACACCATACG 60.947 55.000 0.00 0.00 0.00 3.06
261 283 3.194861 CAACCACACCATACGATACTGG 58.805 50.000 0.00 0.00 38.55 4.00
307 335 5.068987 TGTGTTCATCATCATCCTCATCGTA 59.931 40.000 0.00 0.00 0.00 3.43
322 350 7.036220 TCCTCATCGTAGTCTTTGATCTTTTC 58.964 38.462 0.00 0.00 0.00 2.29
446 1768 9.589111 TTGAAACCTTAAGTCCAAAACATAAAC 57.411 29.630 0.97 0.00 0.00 2.01
451 1773 9.596308 ACCTTAAGTCCAAAACATAAACCTTAT 57.404 29.630 0.97 0.00 0.00 1.73
458 1780 9.620660 GTCCAAAACATAAACCTTATACACAAG 57.379 33.333 0.00 0.00 0.00 3.16
507 1829 5.886960 ATTTGTGGAAGCTTAGATGTGAC 57.113 39.130 0.00 0.00 0.00 3.67
508 1830 4.350368 TTGTGGAAGCTTAGATGTGACA 57.650 40.909 0.00 0.00 0.00 3.58
509 1831 4.558226 TGTGGAAGCTTAGATGTGACAT 57.442 40.909 0.00 0.00 0.00 3.06
510 1832 4.910195 TGTGGAAGCTTAGATGTGACATT 58.090 39.130 0.00 0.00 0.00 2.71
511 1833 5.316167 TGTGGAAGCTTAGATGTGACATTT 58.684 37.500 0.00 0.00 0.00 2.32
512 1834 5.769662 TGTGGAAGCTTAGATGTGACATTTT 59.230 36.000 0.00 0.00 0.00 1.82
513 1835 6.265196 TGTGGAAGCTTAGATGTGACATTTTT 59.735 34.615 0.00 0.00 0.00 1.94
514 1836 7.446931 TGTGGAAGCTTAGATGTGACATTTTTA 59.553 33.333 0.00 0.00 0.00 1.52
515 1837 8.296713 GTGGAAGCTTAGATGTGACATTTTTAA 58.703 33.333 0.00 0.00 0.00 1.52
516 1838 8.855110 TGGAAGCTTAGATGTGACATTTTTAAA 58.145 29.630 0.00 0.00 0.00 1.52
517 1839 9.691362 GGAAGCTTAGATGTGACATTTTTAAAA 57.309 29.630 0.00 0.00 0.00 1.52
547 1869 9.911788 ATTTAGATGTGGATTAGACAAACTGAT 57.088 29.630 0.00 0.00 0.00 2.90
549 1871 9.817809 TTAGATGTGGATTAGACAAACTGATAC 57.182 33.333 0.00 0.00 0.00 2.24
550 1872 8.083828 AGATGTGGATTAGACAAACTGATACT 57.916 34.615 0.00 0.00 0.00 2.12
551 1873 9.201989 AGATGTGGATTAGACAAACTGATACTA 57.798 33.333 0.00 0.00 0.00 1.82
569 1891 9.619316 CTGATACTAATATCAAGTACTGTCTGC 57.381 37.037 0.00 0.00 45.26 4.26
570 1892 9.131791 TGATACTAATATCAAGTACTGTCTGCA 57.868 33.333 0.00 0.00 43.46 4.41
571 1893 9.967346 GATACTAATATCAAGTACTGTCTGCAA 57.033 33.333 0.00 0.00 37.69 4.08
573 1895 8.709386 ACTAATATCAAGTACTGTCTGCAAAG 57.291 34.615 0.00 0.00 0.00 2.77
574 1896 8.531982 ACTAATATCAAGTACTGTCTGCAAAGA 58.468 33.333 0.00 0.00 0.00 2.52
617 2153 9.674068 TGTATAACTAAAGTACCATGCAAATGA 57.326 29.630 0.00 0.00 0.00 2.57
748 2583 8.735315 TGAAACAATACAATATAGTGTGGTTGG 58.265 33.333 24.25 13.88 34.95 3.77
762 2615 1.379527 GGTTGGTGTATGCACTAGCC 58.620 55.000 16.03 16.03 46.28 3.93
789 3085 0.319040 CCACACTCACACTCACCTCG 60.319 60.000 0.00 0.00 0.00 4.63
792 3088 0.955178 CACTCACACTCACCTCGTCT 59.045 55.000 0.00 0.00 0.00 4.18
793 3089 1.068885 CACTCACACTCACCTCGTCTC 60.069 57.143 0.00 0.00 0.00 3.36
816 3138 4.219143 TCCTCTATATAACACACGCACG 57.781 45.455 0.00 0.00 0.00 5.34
817 3139 3.004002 TCCTCTATATAACACACGCACGG 59.996 47.826 0.00 0.00 0.00 4.94
818 3140 3.004002 CCTCTATATAACACACGCACGGA 59.996 47.826 0.00 0.00 0.00 4.69
820 3142 1.552226 ATATAACACACGCACGGACG 58.448 50.000 0.00 0.00 39.50 4.79
821 3143 1.072116 TATAACACACGCACGGACGC 61.072 55.000 0.00 0.00 36.19 5.19
822 3144 3.660115 TATAACACACGCACGGACGCA 62.660 52.381 0.00 0.00 36.19 5.24
842 3175 2.091775 CACCTACCTACCTACTGCCTCT 60.092 54.545 0.00 0.00 0.00 3.69
886 3230 7.826918 CTAATTAAGCTACTACTCCCTCTGT 57.173 40.000 0.00 0.00 0.00 3.41
887 3231 8.921353 CTAATTAAGCTACTACTCCCTCTGTA 57.079 38.462 0.00 0.00 0.00 2.74
888 3232 9.352191 CTAATTAAGCTACTACTCCCTCTGTAA 57.648 37.037 0.00 0.00 0.00 2.41
889 3233 8.605325 AATTAAGCTACTACTCCCTCTGTAAA 57.395 34.615 0.00 0.00 0.00 2.01
890 3234 5.918426 AAGCTACTACTCCCTCTGTAAAC 57.082 43.478 0.00 0.00 0.00 2.01
891 3235 5.195848 AGCTACTACTCCCTCTGTAAACT 57.804 43.478 0.00 0.00 0.00 2.66
892 3236 6.324601 AGCTACTACTCCCTCTGTAAACTA 57.675 41.667 0.00 0.00 0.00 2.24
893 3237 6.729428 AGCTACTACTCCCTCTGTAAACTAA 58.271 40.000 0.00 0.00 0.00 2.24
894 3238 7.355890 AGCTACTACTCCCTCTGTAAACTAAT 58.644 38.462 0.00 0.00 0.00 1.73
895 3239 8.501070 AGCTACTACTCCCTCTGTAAACTAATA 58.499 37.037 0.00 0.00 0.00 0.98
896 3240 9.299465 GCTACTACTCCCTCTGTAAACTAATAT 57.701 37.037 0.00 0.00 0.00 1.28
902 3246 8.862085 ACTCCCTCTGTAAACTAATATAAGAGC 58.138 37.037 0.00 0.00 0.00 4.09
903 3247 7.883217 TCCCTCTGTAAACTAATATAAGAGCG 58.117 38.462 0.00 0.00 0.00 5.03
904 3248 7.504911 TCCCTCTGTAAACTAATATAAGAGCGT 59.495 37.037 0.00 0.00 0.00 5.07
905 3249 8.142551 CCCTCTGTAAACTAATATAAGAGCGTT 58.857 37.037 0.00 0.00 0.00 4.84
906 3250 9.530633 CCTCTGTAAACTAATATAAGAGCGTTT 57.469 33.333 0.00 0.00 0.00 3.60
921 3265 7.870588 AAGAGCGTTTAGAACACTACTTTAG 57.129 36.000 0.00 0.00 0.00 1.85
922 3266 6.979465 AGAGCGTTTAGAACACTACTTTAGT 58.021 36.000 0.00 0.00 40.28 2.24
923 3267 8.103948 AGAGCGTTTAGAACACTACTTTAGTA 57.896 34.615 0.00 0.00 37.23 1.82
924 3268 8.571336 AGAGCGTTTAGAACACTACTTTAGTAA 58.429 33.333 0.00 0.00 37.23 2.24
925 3269 9.351570 GAGCGTTTAGAACACTACTTTAGTAAT 57.648 33.333 0.00 0.00 37.23 1.89
926 3270 9.351570 AGCGTTTAGAACACTACTTTAGTAATC 57.648 33.333 0.00 0.00 37.23 1.75
927 3271 9.351570 GCGTTTAGAACACTACTTTAGTAATCT 57.648 33.333 5.76 5.76 37.23 2.40
933 3277 9.351570 AGAACACTACTTTAGTAATCTAAACGC 57.648 33.333 0.00 0.00 40.05 4.84
934 3278 9.351570 GAACACTACTTTAGTAATCTAAACGCT 57.648 33.333 0.00 0.00 40.05 5.07
935 3279 8.908172 ACACTACTTTAGTAATCTAAACGCTC 57.092 34.615 0.00 0.00 40.05 5.03
936 3280 8.738106 ACACTACTTTAGTAATCTAAACGCTCT 58.262 33.333 0.00 0.00 40.05 4.09
937 3281 9.570488 CACTACTTTAGTAATCTAAACGCTCTT 57.430 33.333 0.00 0.00 40.05 2.85
951 3295 9.669353 TCTAAACGCTCTTATATTAGTTTACGG 57.331 33.333 0.00 0.00 34.29 4.02
952 3296 9.669353 CTAAACGCTCTTATATTAGTTTACGGA 57.331 33.333 0.00 0.00 34.29 4.69
953 3297 8.571461 AAACGCTCTTATATTAGTTTACGGAG 57.429 34.615 0.00 0.00 31.14 4.63
954 3298 6.675987 ACGCTCTTATATTAGTTTACGGAGG 58.324 40.000 0.00 0.00 0.00 4.30
955 3299 6.091437 CGCTCTTATATTAGTTTACGGAGGG 58.909 44.000 0.00 0.00 0.00 4.30
956 3300 6.072286 CGCTCTTATATTAGTTTACGGAGGGA 60.072 42.308 0.00 0.00 34.63 4.20
957 3301 7.314393 GCTCTTATATTAGTTTACGGAGGGAG 58.686 42.308 0.00 0.00 0.00 4.30
958 3302 7.039853 GCTCTTATATTAGTTTACGGAGGGAGT 60.040 40.741 0.00 0.00 0.00 3.85
959 3303 9.512588 CTCTTATATTAGTTTACGGAGGGAGTA 57.487 37.037 0.00 0.00 0.00 2.59
985 3329 6.923928 AGCTAAGCATCTTCTTGATTTCTC 57.076 37.500 0.00 0.00 32.05 2.87
1248 3612 3.231889 CTGGGGCGCGCAGATCTAT 62.232 63.158 34.42 0.00 45.41 1.98
1467 3831 0.179045 GCAAGCACATCTACCCCGAT 60.179 55.000 0.00 0.00 0.00 4.18
1934 4313 1.743252 GCAAGCTCCGGTCCAAGAG 60.743 63.158 0.00 2.11 0.00 2.85
2211 4641 6.329496 GTCAAGAGATCAAGTAGAAGGAGTG 58.671 44.000 0.00 0.00 0.00 3.51
2214 4644 4.402155 AGAGATCAAGTAGAAGGAGTGCAG 59.598 45.833 0.00 0.00 0.00 4.41
2259 4689 1.115930 AGACTTGTCACCACTCGCCT 61.116 55.000 3.49 0.00 0.00 5.52
2306 4736 3.392431 CTGGAATCAGCGACGCAG 58.608 61.111 23.70 15.02 33.86 5.18
2449 4906 7.220030 AGACTTGTTTATGTCTCAGTTGATGT 58.780 34.615 0.00 0.00 36.84 3.06
2450 4907 7.716998 AGACTTGTTTATGTCTCAGTTGATGTT 59.283 33.333 0.00 0.00 36.84 2.71
2460 4918 6.147164 TGTCTCAGTTGATGTTTATTCGTTCC 59.853 38.462 0.00 0.00 0.00 3.62
2462 4920 6.878923 TCTCAGTTGATGTTTATTCGTTCCAT 59.121 34.615 0.00 0.00 0.00 3.41
2467 4925 7.390440 AGTTGATGTTTATTCGTTCCATCTTGA 59.610 33.333 0.00 0.00 34.44 3.02
2472 4932 3.703001 ATTCGTTCCATCTTGAGTGGT 57.297 42.857 0.00 0.00 37.96 4.16
2477 4937 2.030027 TCCATCTTGAGTGGTGGTCT 57.970 50.000 0.00 0.00 37.96 3.85
2485 4945 1.133823 TGAGTGGTGGTCTGTGCAAAT 60.134 47.619 0.00 0.00 0.00 2.32
2486 4946 1.956477 GAGTGGTGGTCTGTGCAAATT 59.044 47.619 0.00 0.00 0.00 1.82
2487 4947 2.362077 GAGTGGTGGTCTGTGCAAATTT 59.638 45.455 0.00 0.00 0.00 1.82
2489 4949 3.197549 AGTGGTGGTCTGTGCAAATTTTT 59.802 39.130 0.00 0.00 0.00 1.94
2490 4950 3.555547 GTGGTGGTCTGTGCAAATTTTTC 59.444 43.478 0.00 0.00 0.00 2.29
2498 4958 7.768120 TGGTCTGTGCAAATTTTTCTGTTTAAT 59.232 29.630 0.00 0.00 0.00 1.40
2544 5018 8.412456 ACTCTGTATATCACTTGATTGAGACTG 58.588 37.037 0.00 0.00 36.05 3.51
2576 5052 4.400884 CAGTTGACTGAGACCTAGCTACAT 59.599 45.833 5.19 0.00 46.59 2.29
2582 5058 5.959512 ACTGAGACCTAGCTACATCCTTAT 58.040 41.667 0.00 0.00 0.00 1.73
2646 5123 4.277672 CAGTTAATAGACTACCTAGCGGCA 59.722 45.833 1.45 0.00 0.00 5.69
2648 5125 5.539193 AGTTAATAGACTACCTAGCGGCAAT 59.461 40.000 1.45 0.00 0.00 3.56
2658 5135 2.484264 CCTAGCGGCAATTATAAGCACC 59.516 50.000 1.45 0.00 0.00 5.01
2662 5139 2.223386 GCGGCAATTATAAGCACCGAAA 60.223 45.455 20.74 0.00 43.19 3.46
2667 5144 5.061684 GGCAATTATAAGCACCGAAACAAAC 59.938 40.000 0.00 0.00 0.00 2.93
2675 5152 1.403679 CACCGAAACAAACTGAAGGCA 59.596 47.619 0.00 0.00 0.00 4.75
2700 5179 1.067821 GCCTATCTTGTCTCCCTCACG 59.932 57.143 0.00 0.00 0.00 4.35
2701 5180 1.683917 CCTATCTTGTCTCCCTCACGG 59.316 57.143 0.00 0.00 0.00 4.94
2702 5181 2.656002 CTATCTTGTCTCCCTCACGGA 58.344 52.381 0.00 0.00 38.83 4.69
2745 5225 6.997239 AGTATAAACAATCGGGAGGTTTTC 57.003 37.500 6.58 1.33 36.29 2.29
2755 5235 0.803117 GGAGGTTTTCGTGCTAAGGC 59.197 55.000 0.00 0.00 39.26 4.35
2756 5236 1.610886 GGAGGTTTTCGTGCTAAGGCT 60.611 52.381 0.00 0.00 39.59 4.58
2764 5244 0.036388 CGTGCTAAGGCTTCAAGGGA 60.036 55.000 1.30 0.00 39.59 4.20
2781 5261 2.311542 AGGGACCAGTGCATCCAATTAA 59.688 45.455 12.37 0.00 36.65 1.40
2795 5275 6.955963 GCATCCAATTAATAACGATCGATGAC 59.044 38.462 24.34 3.44 0.00 3.06
2833 5313 6.978674 ATCGGAAGGATCTAACATGTAGAA 57.021 37.500 0.00 0.00 0.00 2.10
2837 5317 9.090103 TCGGAAGGATCTAACATGTAGAAATAT 57.910 33.333 0.00 0.00 0.00 1.28
2867 5347 5.756347 CCATACAAATGAATGCCAAATCCAG 59.244 40.000 0.00 0.00 34.84 3.86
2910 5390 4.261781 GTAGTACCCTCGGGCGCG 62.262 72.222 18.21 18.21 39.32 6.86
2917 5397 3.124921 CCTCGGGCGCGTTCATTT 61.125 61.111 23.19 0.00 0.00 2.32
2919 5399 2.666862 TCGGGCGCGTTCATTTGT 60.667 55.556 23.19 0.00 0.00 2.83
2920 5400 2.182614 CTCGGGCGCGTTCATTTGTT 62.183 55.000 23.19 0.00 0.00 2.83
2921 5401 1.371145 CGGGCGCGTTCATTTGTTT 60.371 52.632 15.94 0.00 0.00 2.83
2922 5402 1.334288 CGGGCGCGTTCATTTGTTTC 61.334 55.000 15.94 0.00 0.00 2.78
2923 5403 0.039527 GGGCGCGTTCATTTGTTTCT 60.040 50.000 8.43 0.00 0.00 2.52
2934 5414 7.059212 CGTTCATTTGTTTCTTTCTTCATTGC 58.941 34.615 0.00 0.00 0.00 3.56
2948 5428 9.467258 CTTTCTTCATTGCTTCTTTGTTCATTA 57.533 29.630 0.00 0.00 0.00 1.90
2949 5429 9.467258 TTTCTTCATTGCTTCTTTGTTCATTAG 57.533 29.630 0.00 0.00 0.00 1.73
2953 5433 9.598517 TTCATTGCTTCTTTGTTCATTAGTTTT 57.401 25.926 0.00 0.00 0.00 2.43
2954 5434 9.598517 TCATTGCTTCTTTGTTCATTAGTTTTT 57.401 25.926 0.00 0.00 0.00 1.94
3068 5548 9.528018 TGTTAAGTCATTGAAAAATTTCCTCAC 57.472 29.630 3.60 0.00 36.36 3.51
3069 5549 8.690840 GTTAAGTCATTGAAAAATTTCCTCACG 58.309 33.333 3.60 0.00 36.36 4.35
3070 5550 6.391227 AGTCATTGAAAAATTTCCTCACGT 57.609 33.333 3.60 0.00 36.36 4.49
3072 5552 7.936584 AGTCATTGAAAAATTTCCTCACGTAA 58.063 30.769 3.60 0.00 36.36 3.18
3075 5555 9.757227 TCATTGAAAAATTTCCTCACGTAATTT 57.243 25.926 3.60 1.09 36.36 1.82
3195 5676 9.726034 GTGCAAATAAATGTTTCTGTAATTTCG 57.274 29.630 0.00 0.00 0.00 3.46
3196 5677 8.920665 TGCAAATAAATGTTTCTGTAATTTCGG 58.079 29.630 0.00 0.00 0.00 4.30
3208 5689 6.193761 TCTGTAATTTCGGAAAACGTTTCAC 58.806 36.000 15.01 11.34 44.69 3.18
3213 5694 2.290464 TCGGAAAACGTTTCACACCAT 58.710 42.857 15.01 0.00 44.69 3.55
3214 5695 2.683867 TCGGAAAACGTTTCACACCATT 59.316 40.909 15.01 0.00 44.69 3.16
3216 5697 4.515944 TCGGAAAACGTTTCACACCATTAT 59.484 37.500 15.01 0.00 44.69 1.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 18 3.761752 AGGTAATATGTTGTTGTGTGCCC 59.238 43.478 0.00 0.00 0.00 5.36
30 32 3.502211 GGCGCTTATGCAACAGGTAATAT 59.498 43.478 7.64 0.00 39.64 1.28
59 65 2.996631 CTAGCTCAGCTGACCCATTTT 58.003 47.619 13.74 0.00 40.10 1.82
125 132 3.964031 GGAAAGCATCTCCTCCTCTTAGA 59.036 47.826 0.00 0.00 0.00 2.10
143 157 1.345089 TGTAGTAGCACGCCAAGGAAA 59.655 47.619 0.00 0.00 0.00 3.13
146 160 2.024176 AATGTAGTAGCACGCCAAGG 57.976 50.000 0.00 0.00 0.00 3.61
163 184 7.669089 TTAACTTTGTTTGGGAGGAAGAAAT 57.331 32.000 0.00 0.00 0.00 2.17
229 251 1.336755 GGTGTGGTTGCGTGAGAAATT 59.663 47.619 0.00 0.00 0.00 1.82
254 276 1.502231 CATGCTACGCACCCAGTATC 58.498 55.000 0.00 0.00 43.04 2.24
261 283 2.749839 TTGGCCATGCTACGCACC 60.750 61.111 6.09 0.00 43.04 5.01
280 302 5.937975 TGAGGATGATGATGAACACACTA 57.062 39.130 0.00 0.00 0.00 2.74
322 350 5.284079 CGGCTTTCATGGAAAGGATAAATG 58.716 41.667 17.56 0.00 46.21 2.32
327 355 1.106285 GCGGCTTTCATGGAAAGGAT 58.894 50.000 17.56 0.00 46.21 3.24
341 377 6.607004 ACTAGTAGATATTTTATGGCGGCT 57.393 37.500 11.43 0.00 0.00 5.52
342 378 6.872020 TCAACTAGTAGATATTTTATGGCGGC 59.128 38.462 3.59 0.00 0.00 6.53
374 410 0.813610 CTCGTGGGCACTTGTGTTGA 60.814 55.000 2.61 0.00 0.00 3.18
423 1742 8.313944 AGGTTTATGTTTTGGACTTAAGGTTT 57.686 30.769 7.53 0.00 31.78 3.27
481 1803 9.277783 GTCACATCTAAGCTTCCACAAATATAT 57.722 33.333 0.00 0.00 0.00 0.86
482 1804 8.264347 TGTCACATCTAAGCTTCCACAAATATA 58.736 33.333 0.00 0.00 0.00 0.86
483 1805 7.112122 TGTCACATCTAAGCTTCCACAAATAT 58.888 34.615 0.00 0.00 0.00 1.28
484 1806 6.472016 TGTCACATCTAAGCTTCCACAAATA 58.528 36.000 0.00 0.00 0.00 1.40
485 1807 5.316167 TGTCACATCTAAGCTTCCACAAAT 58.684 37.500 0.00 0.00 0.00 2.32
486 1808 4.713553 TGTCACATCTAAGCTTCCACAAA 58.286 39.130 0.00 0.00 0.00 2.83
487 1809 4.350368 TGTCACATCTAAGCTTCCACAA 57.650 40.909 0.00 0.00 0.00 3.33
488 1810 4.558226 ATGTCACATCTAAGCTTCCACA 57.442 40.909 0.00 0.00 0.00 4.17
489 1811 5.886960 AAATGTCACATCTAAGCTTCCAC 57.113 39.130 0.00 0.00 0.00 4.02
490 1812 6.899393 AAAAATGTCACATCTAAGCTTCCA 57.101 33.333 0.00 0.00 0.00 3.53
491 1813 9.691362 TTTTAAAAATGTCACATCTAAGCTTCC 57.309 29.630 0.00 0.00 0.00 3.46
521 1843 9.911788 ATCAGTTTGTCTAATCCACATCTAAAT 57.088 29.630 0.00 0.00 0.00 1.40
523 1845 9.817809 GTATCAGTTTGTCTAATCCACATCTAA 57.182 33.333 0.00 0.00 0.00 2.10
524 1846 9.201989 AGTATCAGTTTGTCTAATCCACATCTA 57.798 33.333 0.00 0.00 0.00 1.98
525 1847 8.083828 AGTATCAGTTTGTCTAATCCACATCT 57.916 34.615 0.00 0.00 0.00 2.90
526 1848 9.817809 TTAGTATCAGTTTGTCTAATCCACATC 57.182 33.333 0.00 0.00 0.00 3.06
543 1865 9.619316 GCAGACAGTACTTGATATTAGTATCAG 57.381 37.037 7.85 5.86 45.44 2.90
544 1866 9.131791 TGCAGACAGTACTTGATATTAGTATCA 57.868 33.333 3.94 3.94 43.73 2.15
545 1867 9.967346 TTGCAGACAGTACTTGATATTAGTATC 57.033 33.333 0.00 0.00 37.75 2.24
547 1869 9.803315 CTTTGCAGACAGTACTTGATATTAGTA 57.197 33.333 0.00 0.00 0.00 1.82
548 1870 8.531982 TCTTTGCAGACAGTACTTGATATTAGT 58.468 33.333 0.00 0.00 0.00 2.24
549 1871 8.932945 TCTTTGCAGACAGTACTTGATATTAG 57.067 34.615 0.00 0.00 0.00 1.73
550 1872 9.719355 TTTCTTTGCAGACAGTACTTGATATTA 57.281 29.630 0.00 0.00 0.00 0.98
551 1873 8.621532 TTTCTTTGCAGACAGTACTTGATATT 57.378 30.769 0.00 0.00 0.00 1.28
591 1913 9.674068 TCATTTGCATGGTACTTTAGTTATACA 57.326 29.630 0.00 0.00 0.00 2.29
607 1929 6.018913 TGCTAGTGTTGTTTTTCATTTGCATG 60.019 34.615 0.00 0.00 30.85 4.06
732 2567 5.588246 TGCATACACCAACCACACTATATTG 59.412 40.000 0.00 0.00 0.00 1.90
762 2615 1.151668 GTGTGAGTGTGGCTAAGCTG 58.848 55.000 0.00 0.00 0.00 4.24
789 3085 6.087522 GCGTGTGTTATATAGAGGATGAGAC 58.912 44.000 0.00 0.00 0.00 3.36
792 3088 5.562113 CGTGCGTGTGTTATATAGAGGATGA 60.562 44.000 0.00 0.00 0.00 2.92
793 3089 4.617223 CGTGCGTGTGTTATATAGAGGATG 59.383 45.833 0.00 0.00 0.00 3.51
816 3138 1.028130 GTAGGTAGGTAGGTGCGTCC 58.972 60.000 0.00 0.00 0.00 4.79
817 3139 1.674962 CAGTAGGTAGGTAGGTGCGTC 59.325 57.143 0.00 0.00 0.00 5.19
818 3140 1.760192 CAGTAGGTAGGTAGGTGCGT 58.240 55.000 0.00 0.00 0.00 5.24
820 3142 0.751452 GGCAGTAGGTAGGTAGGTGC 59.249 60.000 0.00 0.00 0.00 5.01
821 3143 2.091775 AGAGGCAGTAGGTAGGTAGGTG 60.092 54.545 0.00 0.00 0.00 4.00
822 3144 2.215987 AGAGGCAGTAGGTAGGTAGGT 58.784 52.381 0.00 0.00 0.00 3.08
823 3145 4.661247 ATAGAGGCAGTAGGTAGGTAGG 57.339 50.000 0.00 0.00 0.00 3.18
842 3175 8.644374 AATTAGCTAAAGGTTGTGTGGAAATA 57.356 30.769 10.85 0.00 0.00 1.40
880 3224 9.530633 AAACGCTCTTATATTAGTTTACAGAGG 57.469 33.333 0.00 0.00 31.14 3.69
901 3245 9.351570 AGATTACTAAAGTAGTGTTCTAAACGC 57.648 33.333 0.00 0.00 39.81 4.84
907 3251 9.351570 GCGTTTAGATTACTAAAGTAGTGTTCT 57.648 33.333 0.00 3.55 45.42 3.01
908 3252 9.351570 AGCGTTTAGATTACTAAAGTAGTGTTC 57.648 33.333 0.00 0.00 45.42 3.18
909 3253 9.351570 GAGCGTTTAGATTACTAAAGTAGTGTT 57.648 33.333 0.00 0.00 45.42 3.32
910 3254 8.738106 AGAGCGTTTAGATTACTAAAGTAGTGT 58.262 33.333 0.00 0.00 45.42 3.55
911 3255 9.570488 AAGAGCGTTTAGATTACTAAAGTAGTG 57.430 33.333 0.00 0.00 45.42 2.74
925 3269 9.669353 CCGTAAACTAATATAAGAGCGTTTAGA 57.331 33.333 0.00 0.00 30.36 2.10
926 3270 9.669353 TCCGTAAACTAATATAAGAGCGTTTAG 57.331 33.333 0.00 0.00 30.36 1.85
927 3271 9.669353 CTCCGTAAACTAATATAAGAGCGTTTA 57.331 33.333 0.00 0.00 0.00 2.01
928 3272 7.650903 CCTCCGTAAACTAATATAAGAGCGTTT 59.349 37.037 0.00 0.00 0.00 3.60
929 3273 7.144000 CCTCCGTAAACTAATATAAGAGCGTT 58.856 38.462 0.00 0.00 0.00 4.84
930 3274 6.294397 CCCTCCGTAAACTAATATAAGAGCGT 60.294 42.308 0.00 0.00 0.00 5.07
931 3275 6.072286 TCCCTCCGTAAACTAATATAAGAGCG 60.072 42.308 0.00 0.00 0.00 5.03
932 3276 7.039853 ACTCCCTCCGTAAACTAATATAAGAGC 60.040 40.741 0.00 0.00 0.00 4.09
933 3277 8.406730 ACTCCCTCCGTAAACTAATATAAGAG 57.593 38.462 0.00 0.00 0.00 2.85
934 3278 9.289782 GTACTCCCTCCGTAAACTAATATAAGA 57.710 37.037 0.00 0.00 0.00 2.10
935 3279 9.294614 AGTACTCCCTCCGTAAACTAATATAAG 57.705 37.037 0.00 0.00 0.00 1.73
937 3281 9.950496 CTAGTACTCCCTCCGTAAACTAATATA 57.050 37.037 0.00 0.00 0.00 0.86
938 3282 7.392953 GCTAGTACTCCCTCCGTAAACTAATAT 59.607 40.741 0.00 0.00 0.00 1.28
939 3283 6.712547 GCTAGTACTCCCTCCGTAAACTAATA 59.287 42.308 0.00 0.00 0.00 0.98
940 3284 5.534278 GCTAGTACTCCCTCCGTAAACTAAT 59.466 44.000 0.00 0.00 0.00 1.73
941 3285 4.884164 GCTAGTACTCCCTCCGTAAACTAA 59.116 45.833 0.00 0.00 0.00 2.24
942 3286 4.164988 AGCTAGTACTCCCTCCGTAAACTA 59.835 45.833 0.00 0.00 0.00 2.24
943 3287 3.053768 AGCTAGTACTCCCTCCGTAAACT 60.054 47.826 0.00 0.00 0.00 2.66
944 3288 3.286353 AGCTAGTACTCCCTCCGTAAAC 58.714 50.000 0.00 0.00 0.00 2.01
945 3289 3.659183 AGCTAGTACTCCCTCCGTAAA 57.341 47.619 0.00 0.00 0.00 2.01
946 3290 4.712476 CTTAGCTAGTACTCCCTCCGTAA 58.288 47.826 0.00 0.00 0.00 3.18
947 3291 3.495806 GCTTAGCTAGTACTCCCTCCGTA 60.496 52.174 0.00 0.00 0.00 4.02
948 3292 2.749132 GCTTAGCTAGTACTCCCTCCGT 60.749 54.545 0.00 0.00 0.00 4.69
949 3293 1.881324 GCTTAGCTAGTACTCCCTCCG 59.119 57.143 0.00 0.00 0.00 4.63
950 3294 2.946785 TGCTTAGCTAGTACTCCCTCC 58.053 52.381 5.60 0.00 0.00 4.30
951 3295 4.403734 AGATGCTTAGCTAGTACTCCCTC 58.596 47.826 5.60 0.00 0.00 4.30
952 3296 4.463050 AGATGCTTAGCTAGTACTCCCT 57.537 45.455 5.60 0.00 0.00 4.20
953 3297 4.830600 AGAAGATGCTTAGCTAGTACTCCC 59.169 45.833 5.60 0.00 0.00 4.30
954 3298 6.039941 TCAAGAAGATGCTTAGCTAGTACTCC 59.960 42.308 5.60 0.00 0.00 3.85
955 3299 7.033530 TCAAGAAGATGCTTAGCTAGTACTC 57.966 40.000 5.60 0.00 0.00 2.59
956 3300 7.595819 ATCAAGAAGATGCTTAGCTAGTACT 57.404 36.000 5.60 0.00 35.06 2.73
957 3301 8.655651 AAATCAAGAAGATGCTTAGCTAGTAC 57.344 34.615 5.60 0.00 36.96 2.73
958 3302 8.700051 AGAAATCAAGAAGATGCTTAGCTAGTA 58.300 33.333 5.60 0.00 36.96 1.82
959 3303 7.563906 AGAAATCAAGAAGATGCTTAGCTAGT 58.436 34.615 5.60 0.00 36.96 2.57
985 3329 1.068083 CCATCCGATCACCACCGAG 59.932 63.158 0.00 0.00 0.00 4.63
1710 4086 4.335647 CCCTTGCACTCGCCTGGT 62.336 66.667 0.00 0.00 37.32 4.00
1934 4313 1.066136 GTTAAGGAAGGTCGTCGTGC 58.934 55.000 0.00 0.00 0.00 5.34
1935 4332 1.334054 CGTTAAGGAAGGTCGTCGTG 58.666 55.000 0.00 0.00 0.00 4.35
2070 4485 1.688735 CTGGCGTCCATGGATCTCTTA 59.311 52.381 19.62 2.10 30.82 2.10
2112 4542 1.738099 CTTCTTCCAGACCGCGTGG 60.738 63.158 14.93 14.93 42.84 4.94
2211 4641 2.124942 GTACTCCCTGCTGCCTGC 60.125 66.667 0.00 0.00 43.25 4.85
2214 4644 1.098050 CAAATGTACTCCCTGCTGCC 58.902 55.000 0.00 0.00 0.00 4.85
2300 4730 2.531912 CGTGAATGTGAGTATCTGCGTC 59.468 50.000 0.00 0.00 34.92 5.19
2306 4736 9.383462 CACTACTATTACGTGAATGTGAGTATC 57.617 37.037 0.00 0.00 0.00 2.24
2398 4855 8.383264 CAGTCGACTGATACTTAGTAAAACTG 57.617 38.462 36.73 7.03 46.59 3.16
2442 4899 7.526608 TCAAGATGGAACGAATAAACATCAAC 58.473 34.615 0.00 0.00 40.17 3.18
2449 4906 5.411361 CACCACTCAAGATGGAACGAATAAA 59.589 40.000 0.00 0.00 39.87 1.40
2450 4907 4.935205 CACCACTCAAGATGGAACGAATAA 59.065 41.667 0.00 0.00 39.87 1.40
2460 4918 2.420642 CACAGACCACCACTCAAGATG 58.579 52.381 0.00 0.00 0.00 2.90
2462 4920 0.106708 GCACAGACCACCACTCAAGA 59.893 55.000 0.00 0.00 0.00 3.02
2467 4925 2.071778 AATTTGCACAGACCACCACT 57.928 45.000 0.00 0.00 0.00 4.00
2472 4932 4.734398 ACAGAAAAATTTGCACAGACCA 57.266 36.364 0.00 0.00 0.00 4.02
2520 4994 8.298729 ACAGTCTCAATCAAGTGATATACAGA 57.701 34.615 0.00 0.00 33.73 3.41
2521 4995 8.939201 AACAGTCTCAATCAAGTGATATACAG 57.061 34.615 0.00 0.00 33.73 2.74
2527 5001 9.160496 GAGATTTAACAGTCTCAATCAAGTGAT 57.840 33.333 6.77 0.00 40.41 3.06
2557 5033 3.203263 AGGATGTAGCTAGGTCTCAGTCA 59.797 47.826 0.00 0.00 0.00 3.41
2613 5089 7.048512 GGTAGTCTATTAACTGGATGCAACTT 58.951 38.462 0.00 0.00 0.00 2.66
2624 5100 4.467769 TGCCGCTAGGTAGTCTATTAACT 58.532 43.478 0.00 0.00 40.50 2.24
2626 5102 6.415206 AATTGCCGCTAGGTAGTCTATTAA 57.585 37.500 0.00 0.00 40.50 1.40
2629 5106 7.630944 GCTTATAATTGCCGCTAGGTAGTCTAT 60.631 40.741 0.00 0.00 40.50 1.98
2646 5123 7.209471 TCAGTTTGTTTCGGTGCTTATAATT 57.791 32.000 0.00 0.00 0.00 1.40
2648 5125 6.293735 CCTTCAGTTTGTTTCGGTGCTTATAA 60.294 38.462 0.00 0.00 0.00 0.98
2658 5135 2.053627 GCATGCCTTCAGTTTGTTTCG 58.946 47.619 6.36 0.00 0.00 3.46
2662 5139 1.959085 CGGCATGCCTTCAGTTTGT 59.041 52.632 33.07 0.00 0.00 2.83
2675 5152 0.394565 GGAGACAAGATAGGCGGCAT 59.605 55.000 13.08 2.25 0.00 4.40
2700 5179 6.514063 ACTACGATAAGGTTTGATTAGCTCC 58.486 40.000 0.00 0.00 0.00 4.70
2730 5210 0.168128 GCACGAAAACCTCCCGATTG 59.832 55.000 0.00 0.00 0.00 2.67
2745 5225 0.036388 TCCCTTGAAGCCTTAGCACG 60.036 55.000 0.00 0.00 43.56 5.34
2755 5235 1.457346 GATGCACTGGTCCCTTGAAG 58.543 55.000 0.00 0.00 0.00 3.02
2756 5236 0.038166 GGATGCACTGGTCCCTTGAA 59.962 55.000 0.00 0.00 0.00 2.69
2764 5244 5.189928 TCGTTATTAATTGGATGCACTGGT 58.810 37.500 0.00 0.00 0.00 4.00
2781 5261 5.007823 ACTTCTCTTCGTCATCGATCGTTAT 59.992 40.000 15.94 0.00 45.65 1.89
2795 5275 5.038033 CCTTCCGATTAAGACTTCTCTTCG 58.962 45.833 0.00 0.00 37.87 3.79
2799 5279 6.399639 AGATCCTTCCGATTAAGACTTCTC 57.600 41.667 0.00 0.00 0.00 2.87
2805 5285 7.361457 ACATGTTAGATCCTTCCGATTAAGA 57.639 36.000 0.00 0.00 0.00 2.10
2806 5286 8.577296 TCTACATGTTAGATCCTTCCGATTAAG 58.423 37.037 2.30 0.00 0.00 1.85
2833 5313 7.927629 GGCATTCATTTGTATGGTGTTCATATT 59.072 33.333 0.32 0.00 40.15 1.28
2837 5317 4.525874 TGGCATTCATTTGTATGGTGTTCA 59.474 37.500 0.00 0.00 32.40 3.18
2856 5336 2.161855 CAAGTAGTGCTGGATTTGGCA 58.838 47.619 0.00 0.00 36.01 4.92
2910 5390 8.134905 AGCAATGAAGAAAGAAACAAATGAAC 57.865 30.769 0.00 0.00 0.00 3.18
2917 5397 7.322664 ACAAAGAAGCAATGAAGAAAGAAACA 58.677 30.769 0.00 0.00 0.00 2.83
2919 5399 8.034215 TGAACAAAGAAGCAATGAAGAAAGAAA 58.966 29.630 0.00 0.00 0.00 2.52
2920 5400 7.546358 TGAACAAAGAAGCAATGAAGAAAGAA 58.454 30.769 0.00 0.00 0.00 2.52
2921 5401 7.099266 TGAACAAAGAAGCAATGAAGAAAGA 57.901 32.000 0.00 0.00 0.00 2.52
2922 5402 7.941795 ATGAACAAAGAAGCAATGAAGAAAG 57.058 32.000 0.00 0.00 0.00 2.62
2923 5403 9.467258 CTAATGAACAAAGAAGCAATGAAGAAA 57.533 29.630 0.00 0.00 0.00 2.52
3025 5505 9.624697 TGACTTAACATTTTTCTAATGCATGTC 57.375 29.630 0.00 0.00 0.00 3.06
3046 5526 6.805713 ACGTGAGGAAATTTTTCAATGACTT 58.194 32.000 7.62 0.00 38.92 3.01
3075 5555 7.931578 TGTTCTGAAGAGTGGAGTTTAAAAA 57.068 32.000 0.00 0.00 0.00 1.94
3076 5556 7.931578 TTGTTCTGAAGAGTGGAGTTTAAAA 57.068 32.000 0.00 0.00 0.00 1.52
3077 5557 7.556275 ACATTGTTCTGAAGAGTGGAGTTTAAA 59.444 33.333 13.25 0.00 0.00 1.52
3078 5558 7.054124 ACATTGTTCTGAAGAGTGGAGTTTAA 58.946 34.615 13.25 0.00 0.00 1.52
3079 5559 6.591935 ACATTGTTCTGAAGAGTGGAGTTTA 58.408 36.000 13.25 0.00 0.00 2.01
3083 5564 6.091849 CACATACATTGTTCTGAAGAGTGGAG 59.908 42.308 13.25 6.20 36.00 3.86
3185 5666 5.966503 TGTGAAACGTTTTCCGAAATTACAG 59.033 36.000 15.89 0.00 42.39 2.74
3195 5676 8.576936 TTTTATAATGGTGTGAAACGTTTTCC 57.423 30.769 15.89 14.82 42.39 3.13


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

AutoCloner maintained by Alex Coulton.