Multiple sequence alignment - TraesCS6B01G385600

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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 TraesCS6B01G385600 chr6B 100.000 4034 0 0 1 4034 660266290 660270323 0.000000e+00 7450.0
1 TraesCS6B01G385600 chr6B 92.799 611 43 1 1969 2579 660255376 660254767 0.000000e+00 883.0
2 TraesCS6B01G385600 chr6B 93.064 173 12 0 2882 3054 660254273 660254101 1.860000e-63 254.0
3 TraesCS6B01G385600 chr6B 81.525 341 31 7 97 406 706614976 706614637 6.690000e-63 252.0
4 TraesCS6B01G385600 chr6B 85.455 165 11 4 281 435 29983944 29983783 4.170000e-35 159.0
5 TraesCS6B01G385600 chr6B 94.898 98 4 1 336 433 642965445 642965349 6.980000e-33 152.0
6 TraesCS6B01G385600 chr6B 95.699 93 4 0 336 428 29989035 29988943 2.510000e-32 150.0
7 TraesCS6B01G385600 chr6B 95.699 93 4 0 336 428 174589047 174588955 2.510000e-32 150.0
8 TraesCS6B01G385600 chr6D 94.593 2164 106 9 896 3054 436769941 436772098 0.000000e+00 3338.0
9 TraesCS6B01G385600 chr6D 88.037 326 27 7 3295 3615 436772122 436772440 3.810000e-100 375.0
10 TraesCS6B01G385600 chr6D 95.294 170 8 0 3091 3260 90890275 90890444 1.850000e-68 270.0
11 TraesCS6B01G385600 chr6A 93.548 2170 110 16 906 3054 584997703 584999863 0.000000e+00 3205.0
12 TraesCS6B01G385600 chr6A 89.106 2102 208 12 1000 3097 584980100 584982184 0.000000e+00 2593.0
13 TraesCS6B01G385600 chr6A 88.948 2081 206 11 1026 3096 584990539 584988473 0.000000e+00 2547.0
14 TraesCS6B01G385600 chr6A 93.694 444 27 1 456 898 584997190 584997633 0.000000e+00 664.0
15 TraesCS6B01G385600 chr6A 87.041 517 45 14 3284 3798 584999885 585000381 7.570000e-157 564.0
16 TraesCS6B01G385600 chr6A 87.793 213 24 2 3330 3540 584982222 584982434 8.660000e-62 248.0
17 TraesCS6B01G385600 chr6A 70.895 1017 258 25 2006 2991 104412912 104411903 1.900000e-48 204.0
18 TraesCS6B01G385600 chr6A 86.905 168 21 1 3277 3444 584988478 584988312 1.910000e-43 187.0
19 TraesCS6B01G385600 chr6A 79.693 261 19 12 3795 4026 585000619 585000874 1.500000e-34 158.0
20 TraesCS6B01G385600 chr5D 76.288 1961 399 47 1112 3046 515252577 515250657 0.000000e+00 985.0
21 TraesCS6B01G385600 chr5D 79.200 250 20 9 209 429 220689149 220689395 1.170000e-30 145.0
22 TraesCS6B01G385600 chr5A 75.237 2003 438 38 1056 3035 643366116 643364149 0.000000e+00 898.0
23 TraesCS6B01G385600 chr7B 86.976 453 23 9 2 428 603962666 603963108 1.010000e-130 477.0
24 TraesCS6B01G385600 chr7B 97.561 164 4 0 3097 3260 497576787 497576624 8.540000e-72 281.0
25 TraesCS6B01G385600 chr1B 85.376 465 20 4 1 428 538735326 538735779 4.790000e-119 438.0
26 TraesCS6B01G385600 chr1B 88.502 287 11 4 164 428 607135541 607135827 1.080000e-85 327.0
27 TraesCS6B01G385600 chr1B 96.899 129 4 0 1 129 607134987 607135115 2.440000e-52 217.0
28 TraesCS6B01G385600 chr1B 80.308 325 31 10 131 428 249232380 249232698 8.780000e-52 215.0
29 TraesCS6B01G385600 chr1B 96.774 93 3 0 336 428 538730660 538730752 5.400000e-34 156.0
30 TraesCS6B01G385600 chr1B 96.774 93 3 0 336 428 607130318 607130410 5.400000e-34 156.0
31 TraesCS6B01G385600 chr2B 97.576 165 4 0 3096 3260 664125036 664125200 2.370000e-72 283.0
32 TraesCS6B01G385600 chr2B 95.808 167 5 2 3095 3260 500939711 500939546 6.650000e-68 268.0
33 TraesCS6B01G385600 chr2B 96.273 161 6 0 3097 3257 526379427 526379587 8.600000e-67 265.0
34 TraesCS6B01G385600 chr5B 96.988 166 5 0 3098 3263 701551649 701551814 3.070000e-71 279.0
35 TraesCS6B01G385600 chr5B 93.085 188 9 3 3095 3278 467382692 467382505 5.140000e-69 272.0
36 TraesCS6B01G385600 chr5B 79.612 206 30 10 87 284 453882619 453882418 1.960000e-28 137.0
37 TraesCS6B01G385600 chr7D 96.364 165 6 0 3097 3261 416628416 416628252 5.140000e-69 272.0
38 TraesCS6B01G385600 chr7D 96.341 164 6 0 3097 3260 573953277 573953114 1.850000e-68 270.0
39 TraesCS6B01G385600 chr7D 77.384 367 42 24 94 428 20296773 20297130 3.200000e-41 180.0
40 TraesCS6B01G385600 chr4B 83.746 283 22 2 170 428 35247085 35247367 3.110000e-61 246.0
41 TraesCS6B01G385600 chr2D 78.935 413 37 22 58 428 627149953 627149549 6.740000e-58 235.0
42 TraesCS6B01G385600 chr3B 80.755 265 26 9 185 426 42694528 42694266 2.480000e-42 183.0
43 TraesCS6B01G385600 chr3B 93.617 94 6 0 336 429 727150894 727150987 1.510000e-29 141.0
44 TraesCS6B01G385600 chr3B 78.453 181 13 5 222 376 770192452 770192272 1.190000e-15 95.3
45 TraesCS6B01G385600 chrUn 76.503 366 38 28 105 436 79572204 79571853 5.400000e-34 156.0
46 TraesCS6B01G385600 chrUn 95.699 93 4 0 336 428 300552290 300552382 2.510000e-32 150.0
47 TraesCS6B01G385600 chr7A 77.912 249 23 9 209 428 3201199 3201444 4.230000e-25 126.0


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 TraesCS6B01G385600 chr6B 660266290 660270323 4033 False 7450.00 7450 100.0000 1 4034 1 chr6B.!!$F1 4033
1 TraesCS6B01G385600 chr6B 660254101 660255376 1275 True 568.50 883 92.9315 1969 3054 2 chr6B.!!$R6 1085
2 TraesCS6B01G385600 chr6D 436769941 436772440 2499 False 1856.50 3338 91.3150 896 3615 2 chr6D.!!$F2 2719
3 TraesCS6B01G385600 chr6A 584980100 584982434 2334 False 1420.50 2593 88.4495 1000 3540 2 chr6A.!!$F1 2540
4 TraesCS6B01G385600 chr6A 584988312 584990539 2227 True 1367.00 2547 87.9265 1026 3444 2 chr6A.!!$R2 2418
5 TraesCS6B01G385600 chr6A 584997190 585000874 3684 False 1147.75 3205 88.4940 456 4026 4 chr6A.!!$F2 3570
6 TraesCS6B01G385600 chr6A 104411903 104412912 1009 True 204.00 204 70.8950 2006 2991 1 chr6A.!!$R1 985
7 TraesCS6B01G385600 chr5D 515250657 515252577 1920 True 985.00 985 76.2880 1112 3046 1 chr5D.!!$R1 1934
8 TraesCS6B01G385600 chr5A 643364149 643366116 1967 True 898.00 898 75.2370 1056 3035 1 chr5A.!!$R1 1979
9 TraesCS6B01G385600 chr1B 607134987 607135827 840 False 272.00 327 92.7005 1 428 2 chr1B.!!$F5 427

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
584 998 0.034616 ACTCTGAAGTGTGAGCTGGC 59.965 55.0 0.0 0.0 33.32 4.85 F
1689 2197 0.320374 TGGACAAGCCTACAAGACCG 59.680 55.0 0.0 0.0 37.63 4.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1926 2440 0.392193 CCACAGACAGGATGAGTGCC 60.392 60.0 0.0 0.0 39.69 5.01 R
3649 4462 0.538287 GAAGCACACTTCCAAGCCCT 60.538 55.0 0.0 0.0 45.60 5.19 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
57 58 4.445545 GCGGAAGAAGTTGCGGCG 62.446 66.667 0.51 0.51 46.71 6.46
279 671 1.226717 CGACGAGGAAGCTAGGCAC 60.227 63.158 0.00 0.00 0.00 5.01
318 723 2.224992 TGGCAACTGATACCATGTTGGT 60.225 45.455 4.36 4.36 46.86 3.67
379 793 3.485947 TGTGTGTGAAAGTGCAGAAAC 57.514 42.857 0.00 0.00 0.00 2.78
387 801 1.455383 AAGTGCAGAAACGCCCCTTG 61.455 55.000 0.00 0.00 0.00 3.61
428 842 9.890629 ACACAATGAACTATACACATCTAACAT 57.109 29.630 0.00 0.00 0.00 2.71
437 851 9.935241 ACTATACACATCTAACATGAATGATCC 57.065 33.333 0.00 0.00 0.00 3.36
438 852 9.933723 CTATACACATCTAACATGAATGATCCA 57.066 33.333 0.00 0.00 0.00 3.41
440 854 7.943079 ACACATCTAACATGAATGATCCAAA 57.057 32.000 0.00 0.00 0.00 3.28
441 855 8.352137 ACACATCTAACATGAATGATCCAAAA 57.648 30.769 0.00 0.00 0.00 2.44
442 856 8.974238 ACACATCTAACATGAATGATCCAAAAT 58.026 29.630 0.00 0.00 0.00 1.82
443 857 9.244799 CACATCTAACATGAATGATCCAAAATG 57.755 33.333 0.00 0.00 0.00 2.32
444 858 8.974238 ACATCTAACATGAATGATCCAAAATGT 58.026 29.630 0.00 0.00 0.00 2.71
454 868 9.460019 TGAATGATCCAAAATGTATTACACAGA 57.540 29.630 0.00 0.00 41.51 3.41
540 954 4.844085 TGAACAACAGAGGATTAGGAAGGA 59.156 41.667 0.00 0.00 0.00 3.36
584 998 0.034616 ACTCTGAAGTGTGAGCTGGC 59.965 55.000 0.00 0.00 33.32 4.85
585 999 0.673022 CTCTGAAGTGTGAGCTGGCC 60.673 60.000 0.00 0.00 0.00 5.36
599 1013 0.394216 CTGGCCGTTTCCCATCATCA 60.394 55.000 0.00 0.00 0.00 3.07
740 1154 8.994429 TTAAATTCAACGGTATACTTTCGGTA 57.006 30.769 2.25 0.00 34.62 4.02
769 1183 9.260002 GTTGACCAAATTTACATGACAAAAGAT 57.740 29.630 0.00 0.00 0.00 2.40
785 1199 6.569780 ACAAAAGATTACAAAAAGGTCGCTT 58.430 32.000 0.00 0.00 0.00 4.68
788 1202 2.392933 TTACAAAAAGGTCGCTTGCG 57.607 45.000 8.87 8.87 0.00 4.85
807 1221 2.598439 GCGCATCGATGTTCAAGCTAAG 60.598 50.000 25.47 6.71 0.00 2.18
808 1222 2.860136 CGCATCGATGTTCAAGCTAAGA 59.140 45.455 25.47 0.00 0.00 2.10
845 1260 3.047796 GTCTGTGATGCAAGCAAAACTG 58.952 45.455 0.00 5.12 28.10 3.16
846 1261 1.790623 CTGTGATGCAAGCAAAACTGC 59.209 47.619 0.00 0.00 28.10 4.40
853 1268 0.661187 CAAGCAAAACTGCGACGCAT 60.661 50.000 24.71 6.54 38.13 4.73
860 1275 0.443869 AACTGCGACGCATTAGCTTG 59.556 50.000 24.71 12.19 38.13 4.01
865 1280 0.647410 CGACGCATTAGCTTGGACAG 59.353 55.000 0.00 0.00 39.10 3.51
871 1286 5.126067 ACGCATTAGCTTGGACAGATAAAT 58.874 37.500 0.00 0.00 36.94 1.40
872 1287 6.288294 ACGCATTAGCTTGGACAGATAAATA 58.712 36.000 0.00 0.00 36.94 1.40
882 1297 8.632679 GCTTGGACAGATAAATATGGATCAAAA 58.367 33.333 0.00 0.00 0.00 2.44
884 1299 9.699410 TTGGACAGATAAATATGGATCAAAACT 57.301 29.630 0.00 0.00 0.00 2.66
891 1306 9.736023 GATAAATATGGATCAAAACTGTGTTCC 57.264 33.333 0.00 0.00 37.73 3.62
932 1409 3.181474 ACTGATAAAAGGCCGAGTAGAGC 60.181 47.826 0.00 0.00 0.00 4.09
935 1412 2.561478 AAAAGGCCGAGTAGAGCAAA 57.439 45.000 0.00 0.00 0.00 3.68
947 1425 2.281900 AGCAAAAGGCCGGCGTTA 60.282 55.556 32.56 0.00 46.50 3.18
953 1431 3.912745 AAGGCCGGCGTTACCCAAG 62.913 63.158 31.59 0.00 33.26 3.61
959 1437 1.305201 CGGCGTTACCCAAGCATAAT 58.695 50.000 0.00 0.00 33.26 1.28
973 1451 7.014230 ACCCAAGCATAATTAACATCCATACAC 59.986 37.037 0.00 0.00 0.00 2.90
977 1455 6.430925 AGCATAATTAACATCCATACACGCAT 59.569 34.615 0.00 0.00 0.00 4.73
982 1460 0.870393 CATCCATACACGCATCTGCC 59.130 55.000 0.00 0.00 37.91 4.85
1003 1499 2.596904 ATGCAAGCCATTCTTCATGC 57.403 45.000 0.00 0.00 31.27 4.06
1066 1562 0.547712 ACTCTCCCTTGGCCTTAGCA 60.548 55.000 3.32 0.00 42.56 3.49
1081 1580 2.210144 TAGCATGGCACCACCCTTCC 62.210 60.000 0.00 0.00 37.83 3.46
1107 1609 3.521995 CGATGAGCACCAGTTCAGT 57.478 52.632 0.00 0.00 38.42 3.41
1194 1696 2.426738 GCTTATGCTTACCAATGGCACA 59.573 45.455 0.00 0.00 38.83 4.57
1230 1732 1.269778 CGCGCTTTCTATCCTGATCCA 60.270 52.381 5.56 0.00 0.00 3.41
1365 1870 0.798776 CGCCGAGCAAGAATTTGTCT 59.201 50.000 0.00 0.00 38.69 3.41
1440 1945 2.043411 CAAACAAACCACATCTTCGCG 58.957 47.619 0.00 0.00 0.00 5.87
1673 2178 3.157252 GGCTCCTCTCGGCATGGA 61.157 66.667 0.00 0.00 0.00 3.41
1689 2197 0.320374 TGGACAAGCCTACAAGACCG 59.680 55.000 0.00 0.00 37.63 4.79
1815 2329 2.622942 GAGTTTTGGCATGAACAGTCCA 59.377 45.455 14.24 0.00 0.00 4.02
1971 2485 2.215196 GTTGTTTCCCTACTTGTGCGA 58.785 47.619 0.00 0.00 0.00 5.10
2653 3444 5.450550 GCCTTTGGTGTATTTATTCTGGAGC 60.451 44.000 0.00 0.00 0.00 4.70
2733 3527 0.394216 ATTGGGCGCTTGAGCATGTA 60.394 50.000 7.64 0.00 42.21 2.29
2984 3781 7.975866 TCGATTCATACATCATGTCATATCG 57.024 36.000 13.91 13.91 35.99 2.92
3032 3832 3.960755 TCGAGCATTTCAGGAGGAAGATA 59.039 43.478 0.00 0.00 36.72 1.98
3055 3855 3.770263 CACTATGTTTGATGGTGCTGG 57.230 47.619 0.00 0.00 0.00 4.85
3056 3856 2.424601 CACTATGTTTGATGGTGCTGGG 59.575 50.000 0.00 0.00 0.00 4.45
3057 3857 2.308570 ACTATGTTTGATGGTGCTGGGA 59.691 45.455 0.00 0.00 0.00 4.37
3058 3858 2.307496 ATGTTTGATGGTGCTGGGAA 57.693 45.000 0.00 0.00 0.00 3.97
3059 3859 1.619654 TGTTTGATGGTGCTGGGAAG 58.380 50.000 0.00 0.00 0.00 3.46
3060 3860 1.133513 TGTTTGATGGTGCTGGGAAGT 60.134 47.619 0.00 0.00 0.00 3.01
3061 3861 1.270550 GTTTGATGGTGCTGGGAAGTG 59.729 52.381 0.00 0.00 0.00 3.16
3062 3862 0.251297 TTGATGGTGCTGGGAAGTGG 60.251 55.000 0.00 0.00 0.00 4.00
3072 3872 1.561542 CTGGGAAGTGGGAGTGCTTAT 59.438 52.381 0.00 0.00 0.00 1.73
3102 3902 9.310449 TCTATGATGTACCCTAAAGAATACTCC 57.690 37.037 0.00 0.00 0.00 3.85
3103 3903 6.742559 TGATGTACCCTAAAGAATACTCCC 57.257 41.667 0.00 0.00 0.00 4.30
3105 3905 6.553852 TGATGTACCCTAAAGAATACTCCCTC 59.446 42.308 0.00 0.00 0.00 4.30
3106 3906 5.214293 TGTACCCTAAAGAATACTCCCTCC 58.786 45.833 0.00 0.00 0.00 4.30
3107 3907 3.306613 ACCCTAAAGAATACTCCCTCCG 58.693 50.000 0.00 0.00 0.00 4.63
3109 3909 3.710165 CCCTAAAGAATACTCCCTCCGTT 59.290 47.826 0.00 0.00 0.00 4.44
3110 3910 4.202233 CCCTAAAGAATACTCCCTCCGTTC 60.202 50.000 0.00 0.00 0.00 3.95
3111 3911 3.908643 AAAGAATACTCCCTCCGTTCC 57.091 47.619 0.00 0.00 0.00 3.62
3112 3912 2.850695 AGAATACTCCCTCCGTTCCT 57.149 50.000 0.00 0.00 0.00 3.36
3113 3913 3.967467 AGAATACTCCCTCCGTTCCTA 57.033 47.619 0.00 0.00 0.00 2.94
3116 3916 5.217400 AGAATACTCCCTCCGTTCCTAAAT 58.783 41.667 0.00 0.00 0.00 1.40
3117 3917 6.379579 AGAATACTCCCTCCGTTCCTAAATA 58.620 40.000 0.00 0.00 0.00 1.40
3118 3918 7.017531 AGAATACTCCCTCCGTTCCTAAATAT 58.982 38.462 0.00 0.00 0.00 1.28
3119 3919 8.175431 AGAATACTCCCTCCGTTCCTAAATATA 58.825 37.037 0.00 0.00 0.00 0.86
3121 3921 6.667558 ACTCCCTCCGTTCCTAAATATAAG 57.332 41.667 0.00 0.00 0.00 1.73
3123 3923 6.267242 ACTCCCTCCGTTCCTAAATATAAGTC 59.733 42.308 0.00 0.00 0.00 3.01
3124 3924 6.379579 TCCCTCCGTTCCTAAATATAAGTCT 58.620 40.000 0.00 0.00 0.00 3.24
3125 3925 6.842807 TCCCTCCGTTCCTAAATATAAGTCTT 59.157 38.462 0.00 0.00 0.00 3.01
3126 3926 7.346436 TCCCTCCGTTCCTAAATATAAGTCTTT 59.654 37.037 0.00 0.00 0.00 2.52
3144 3944 7.741554 AGTCTTTGTAGAGATTCCATTAGGT 57.258 36.000 0.00 0.00 35.89 3.08
3145 3945 7.560368 AGTCTTTGTAGAGATTCCATTAGGTG 58.440 38.462 0.00 0.00 35.89 4.00
3159 3959 5.122512 CATTAGGTGGACTACATACGGAG 57.877 47.826 0.00 0.00 0.00 4.63
3160 3960 1.400737 AGGTGGACTACATACGGAGC 58.599 55.000 0.00 0.00 0.00 4.70
3161 3961 1.108776 GGTGGACTACATACGGAGCA 58.891 55.000 0.00 0.00 0.00 4.26
3162 3962 1.479323 GGTGGACTACATACGGAGCAA 59.521 52.381 0.00 0.00 0.00 3.91
3163 3963 2.093869 GGTGGACTACATACGGAGCAAA 60.094 50.000 0.00 0.00 0.00 3.68
3164 3964 3.592059 GTGGACTACATACGGAGCAAAA 58.408 45.455 0.00 0.00 0.00 2.44
3165 3965 4.189231 GTGGACTACATACGGAGCAAAAT 58.811 43.478 0.00 0.00 0.00 1.82
3166 3966 4.034048 GTGGACTACATACGGAGCAAAATG 59.966 45.833 0.00 0.00 0.00 2.32
3167 3967 4.081365 TGGACTACATACGGAGCAAAATGA 60.081 41.667 0.00 0.00 0.00 2.57
3168 3968 4.873827 GGACTACATACGGAGCAAAATGAA 59.126 41.667 0.00 0.00 0.00 2.57
3169 3969 5.527582 GGACTACATACGGAGCAAAATGAAT 59.472 40.000 0.00 0.00 0.00 2.57
3170 3970 6.363577 ACTACATACGGAGCAAAATGAATG 57.636 37.500 0.00 0.00 0.00 2.67
3171 3971 6.112734 ACTACATACGGAGCAAAATGAATGA 58.887 36.000 0.00 0.00 0.00 2.57
3172 3972 5.895636 ACATACGGAGCAAAATGAATGAA 57.104 34.783 0.00 0.00 0.00 2.57
3173 3973 6.455360 ACATACGGAGCAAAATGAATGAAT 57.545 33.333 0.00 0.00 0.00 2.57
3174 3974 6.498304 ACATACGGAGCAAAATGAATGAATC 58.502 36.000 0.00 0.00 0.00 2.52
3175 3975 6.319658 ACATACGGAGCAAAATGAATGAATCT 59.680 34.615 0.00 0.00 0.00 2.40
3176 3976 7.498900 ACATACGGAGCAAAATGAATGAATCTA 59.501 33.333 0.00 0.00 0.00 1.98
3177 3977 6.369059 ACGGAGCAAAATGAATGAATCTAG 57.631 37.500 0.00 0.00 0.00 2.43
3178 3978 6.115446 ACGGAGCAAAATGAATGAATCTAGA 58.885 36.000 0.00 0.00 0.00 2.43
3179 3979 6.037610 ACGGAGCAAAATGAATGAATCTAGAC 59.962 38.462 0.00 0.00 0.00 2.59
3180 3980 6.259608 CGGAGCAAAATGAATGAATCTAGACT 59.740 38.462 0.00 0.00 0.00 3.24
3181 3981 7.201679 CGGAGCAAAATGAATGAATCTAGACTT 60.202 37.037 0.00 0.00 0.00 3.01
3182 3982 9.113838 GGAGCAAAATGAATGAATCTAGACTTA 57.886 33.333 0.00 0.00 0.00 2.24
3203 4003 9.973246 GACTTAAAATGCATGTATATACATCCG 57.027 33.333 22.81 14.97 44.57 4.18
3204 4004 9.502091 ACTTAAAATGCATGTATATACATCCGT 57.498 29.630 22.81 14.46 44.57 4.69
3208 4008 7.482654 AATGCATGTATATACATCCGTATGC 57.517 36.000 22.81 22.21 44.57 3.14
3209 4009 5.040635 TGCATGTATATACATCCGTATGCG 58.959 41.667 22.81 11.88 44.57 4.73
3211 4011 5.847111 ATGTATATACATCCGTATGCGGT 57.153 39.130 22.06 5.57 46.90 5.68
3212 4012 6.216801 ATGTATATACATCCGTATGCGGTT 57.783 37.500 22.06 11.25 46.90 4.44
3213 4013 6.636705 ATGTATATACATCCGTATGCGGTTT 58.363 36.000 22.06 8.31 46.90 3.27
3214 4014 7.774134 ATGTATATACATCCGTATGCGGTTTA 58.226 34.615 22.06 11.61 46.90 2.01
3215 4015 8.418662 ATGTATATACATCCGTATGCGGTTTAT 58.581 33.333 22.06 17.06 46.90 1.40
3224 4024 5.511088 CGTATGCGGTTTATAGTGGAATC 57.489 43.478 0.00 0.00 0.00 2.52
3225 4025 5.227908 CGTATGCGGTTTATAGTGGAATCT 58.772 41.667 0.00 0.00 0.00 2.40
3226 4026 5.345202 CGTATGCGGTTTATAGTGGAATCTC 59.655 44.000 0.00 0.00 0.00 2.75
3227 4027 5.552870 ATGCGGTTTATAGTGGAATCTCT 57.447 39.130 0.00 0.00 0.00 3.10
3228 4028 6.665992 ATGCGGTTTATAGTGGAATCTCTA 57.334 37.500 0.00 0.00 0.00 2.43
3229 4029 6.665992 TGCGGTTTATAGTGGAATCTCTAT 57.334 37.500 0.00 0.00 34.95 1.98
3230 4030 7.770366 TGCGGTTTATAGTGGAATCTCTATA 57.230 36.000 0.00 0.00 33.37 1.31
3231 4031 8.185506 TGCGGTTTATAGTGGAATCTCTATAA 57.814 34.615 11.26 11.26 38.81 0.98
3232 4032 8.644216 TGCGGTTTATAGTGGAATCTCTATAAA 58.356 33.333 17.61 17.61 42.89 1.40
3233 4033 9.141400 GCGGTTTATAGTGGAATCTCTATAAAG 57.859 37.037 19.82 14.62 44.15 1.85
3253 4053 8.943909 ATAAAGACTTACATTTAGGAACGGAG 57.056 34.615 0.00 0.00 0.00 4.63
3254 4054 5.340439 AGACTTACATTTAGGAACGGAGG 57.660 43.478 0.00 0.00 0.00 4.30
3255 4055 4.161754 AGACTTACATTTAGGAACGGAGGG 59.838 45.833 0.00 0.00 0.00 4.30
3256 4056 4.098894 ACTTACATTTAGGAACGGAGGGA 58.901 43.478 0.00 0.00 0.00 4.20
3257 4057 4.161754 ACTTACATTTAGGAACGGAGGGAG 59.838 45.833 0.00 0.00 0.00 4.30
3258 4058 2.547990 ACATTTAGGAACGGAGGGAGT 58.452 47.619 0.00 0.00 0.00 3.85
3259 4059 3.716431 ACATTTAGGAACGGAGGGAGTA 58.284 45.455 0.00 0.00 0.00 2.59
3260 4060 3.705072 ACATTTAGGAACGGAGGGAGTAG 59.295 47.826 0.00 0.00 0.00 2.57
3261 4061 3.744940 TTTAGGAACGGAGGGAGTAGA 57.255 47.619 0.00 0.00 0.00 2.59
3262 4062 3.744940 TTAGGAACGGAGGGAGTAGAA 57.255 47.619 0.00 0.00 0.00 2.10
3263 4063 2.850695 AGGAACGGAGGGAGTAGAAT 57.149 50.000 0.00 0.00 0.00 2.40
3264 4064 3.967467 AGGAACGGAGGGAGTAGAATA 57.033 47.619 0.00 0.00 0.00 1.75
3265 4065 4.472690 AGGAACGGAGGGAGTAGAATAT 57.527 45.455 0.00 0.00 0.00 1.28
3266 4066 5.595814 AGGAACGGAGGGAGTAGAATATA 57.404 43.478 0.00 0.00 0.00 0.86
3267 4067 6.155247 AGGAACGGAGGGAGTAGAATATAT 57.845 41.667 0.00 0.00 0.00 0.86
3268 4068 6.563163 AGGAACGGAGGGAGTAGAATATATT 58.437 40.000 0.00 0.00 0.00 1.28
3269 4069 6.437793 AGGAACGGAGGGAGTAGAATATATTG 59.562 42.308 1.78 0.00 0.00 1.90
3270 4070 6.351117 GGAACGGAGGGAGTAGAATATATTGG 60.351 46.154 1.78 0.00 0.00 3.16
3271 4071 5.900437 ACGGAGGGAGTAGAATATATTGGA 58.100 41.667 1.78 0.00 0.00 3.53
3272 4072 5.715753 ACGGAGGGAGTAGAATATATTGGAC 59.284 44.000 1.78 0.70 0.00 4.02
3273 4073 5.163642 CGGAGGGAGTAGAATATATTGGACG 60.164 48.000 1.78 0.00 0.00 4.79
3274 4074 5.715753 GGAGGGAGTAGAATATATTGGACGT 59.284 44.000 1.78 0.00 0.00 4.34
3275 4075 6.350277 GGAGGGAGTAGAATATATTGGACGTG 60.350 46.154 1.78 0.00 0.00 4.49
3276 4076 6.075984 AGGGAGTAGAATATATTGGACGTGT 58.924 40.000 1.78 0.00 0.00 4.49
3277 4077 7.236529 AGGGAGTAGAATATATTGGACGTGTA 58.763 38.462 1.78 0.00 0.00 2.90
3278 4078 7.727186 AGGGAGTAGAATATATTGGACGTGTAA 59.273 37.037 1.78 0.00 0.00 2.41
3287 4087 8.763049 ATATATTGGACGTGTAATGAGACATG 57.237 34.615 0.00 0.00 41.32 3.21
3299 4106 7.443575 GTGTAATGAGACATGGATATGAAAGCT 59.556 37.037 0.00 0.00 37.73 3.74
3305 4112 6.653020 AGACATGGATATGAAAGCTTGTACA 58.347 36.000 0.00 1.40 37.73 2.90
3308 4115 9.224267 GACATGGATATGAAAGCTTGTACATAT 57.776 33.333 22.42 22.42 38.23 1.78
3319 4126 8.863872 AAAGCTTGTACATATGTTCTTACCTT 57.136 30.769 14.77 7.45 0.00 3.50
3323 4130 8.391106 GCTTGTACATATGTTCTTACCTTTCAG 58.609 37.037 14.77 0.00 0.00 3.02
3375 4182 8.503428 AGATTGATAGGTCTGGTAGAATGATT 57.497 34.615 0.00 0.00 0.00 2.57
3414 4222 6.969993 AAGAGTTTATAGTAGGAGGCTCAG 57.030 41.667 17.69 0.00 0.00 3.35
3422 4230 0.325110 TAGGAGGCTCAGCTCAGCTT 60.325 55.000 17.69 0.00 36.40 3.74
3473 4283 6.928979 TTCATAGTTTCGTGGTTTCTTCAA 57.071 33.333 0.00 0.00 0.00 2.69
3474 4285 7.504924 TTCATAGTTTCGTGGTTTCTTCAAT 57.495 32.000 0.00 0.00 0.00 2.57
3478 4289 9.672086 CATAGTTTCGTGGTTTCTTCAATAAAA 57.328 29.630 0.00 0.00 0.00 1.52
3540 4351 6.263516 ACTCATTTGTTTCTGATGGACATG 57.736 37.500 0.00 0.00 0.00 3.21
3560 4371 3.791245 TGTTCTTGCATTTGTTTGGGAC 58.209 40.909 0.00 0.00 0.00 4.46
3593 4406 7.526142 TTACCTGGTGATATGTAGACAGATC 57.474 40.000 10.23 9.79 42.99 2.75
3627 4440 4.065088 GTCAAAATTTGGGAAGGGCTTTC 58.935 43.478 5.83 0.00 34.93 2.62
3628 4441 3.713764 TCAAAATTTGGGAAGGGCTTTCA 59.286 39.130 11.69 0.00 37.54 2.69
3629 4442 4.067192 CAAAATTTGGGAAGGGCTTTCAG 58.933 43.478 11.69 0.00 37.54 3.02
3631 4444 2.765689 TTTGGGAAGGGCTTTCAGAA 57.234 45.000 11.69 0.29 37.54 3.02
3634 4447 4.608170 TTGGGAAGGGCTTTCAGAATAT 57.392 40.909 11.69 0.00 37.54 1.28
3635 4448 3.902218 TGGGAAGGGCTTTCAGAATATG 58.098 45.455 11.69 0.00 37.54 1.78
3636 4449 3.269381 TGGGAAGGGCTTTCAGAATATGT 59.731 43.478 11.69 0.00 37.54 2.29
3644 4457 3.428045 GCTTTCAGAATATGTGTGGCCAC 60.428 47.826 29.67 29.67 42.19 5.01
3678 4491 0.032678 AGTGTGCTTCAGTGAGACGG 59.967 55.000 0.00 0.00 0.00 4.79
3679 4492 1.300931 TGTGCTTCAGTGAGACGGC 60.301 57.895 0.00 0.00 0.00 5.68
3681 4494 2.343758 GCTTCAGTGAGACGGCCA 59.656 61.111 2.24 0.00 0.00 5.36
3682 4495 1.301716 GCTTCAGTGAGACGGCCAA 60.302 57.895 2.24 0.00 0.00 4.52
3699 4512 1.008361 CAACGGCCCTTTCAATTGCG 61.008 55.000 0.00 0.00 0.00 4.85
3723 4536 7.298122 CGTGTGCATTTTATAAGAGTTTGTCT 58.702 34.615 0.00 0.00 36.94 3.41
3750 4563 1.478510 CAGTCCGTGCTTCTAGACCAT 59.521 52.381 0.00 0.00 0.00 3.55
3772 4585 2.391678 AGATCCAAATCCAATGGCACC 58.608 47.619 0.00 0.00 37.88 5.01
3780 4593 3.498774 ATCCAATGGCACCTGTATCTC 57.501 47.619 0.00 0.00 0.00 2.75
3790 4603 3.181470 GCACCTGTATCTCCTTCCTTCTC 60.181 52.174 0.00 0.00 0.00 2.87
3815 4869 5.880332 TGGACATTTAACCAGTGATAAGAGC 59.120 40.000 0.00 0.00 0.00 4.09
3824 4878 4.125703 CCAGTGATAAGAGCATGGAAGAC 58.874 47.826 0.00 0.00 0.00 3.01
3825 4879 3.801050 CAGTGATAAGAGCATGGAAGACG 59.199 47.826 0.00 0.00 0.00 4.18
3826 4880 3.701542 AGTGATAAGAGCATGGAAGACGA 59.298 43.478 0.00 0.00 0.00 4.20
3827 4881 4.160439 AGTGATAAGAGCATGGAAGACGAA 59.840 41.667 0.00 0.00 0.00 3.85
3828 4882 4.870426 GTGATAAGAGCATGGAAGACGAAA 59.130 41.667 0.00 0.00 0.00 3.46
3842 4896 8.554835 TGGAAGACGAAATGAAATGTACATTA 57.445 30.769 21.07 7.50 37.04 1.90
3864 4918 7.496529 TTAGCATTCCATAAAGTAGATGCAC 57.503 36.000 8.58 0.00 36.37 4.57
3868 4922 7.775093 AGCATTCCATAAAGTAGATGCACTTAA 59.225 33.333 8.58 0.00 37.78 1.85
3878 4932 4.882671 AGATGCACTTAATTAACAGGCG 57.117 40.909 0.00 0.00 0.00 5.52
3879 4933 2.911819 TGCACTTAATTAACAGGCGC 57.088 45.000 0.00 0.00 0.00 6.53
3894 4948 2.545526 CAGGCGCTGGAACATATTGTAG 59.454 50.000 7.64 0.00 38.20 2.74
3899 4953 4.260375 GCGCTGGAACATATTGTAGTCTTG 60.260 45.833 0.00 0.00 38.20 3.02
3900 4954 4.870426 CGCTGGAACATATTGTAGTCTTGT 59.130 41.667 0.00 0.00 38.20 3.16
3901 4955 5.220472 CGCTGGAACATATTGTAGTCTTGTG 60.220 44.000 0.00 0.00 38.20 3.33
3902 4956 5.874810 GCTGGAACATATTGTAGTCTTGTGA 59.125 40.000 0.00 0.00 38.20 3.58
3915 4977 8.589335 TGTAGTCTTGTGAGAAATAAACTGTC 57.411 34.615 0.00 0.00 32.66 3.51
3924 4986 9.554395 TGTGAGAAATAAACTGTCATTGAACTA 57.446 29.630 0.00 0.00 0.00 2.24
3938 5000 3.969117 TGAACTAAAGTGCAACAGCAG 57.031 42.857 0.00 0.00 41.43 4.24
3950 5012 2.030007 GCAACAGCAGCATCAAACCTTA 60.030 45.455 0.00 0.00 0.00 2.69
3954 5016 5.824904 ACAGCAGCATCAAACCTTAATAG 57.175 39.130 0.00 0.00 0.00 1.73
3955 5017 5.256474 ACAGCAGCATCAAACCTTAATAGT 58.744 37.500 0.00 0.00 0.00 2.12
3956 5018 5.711976 ACAGCAGCATCAAACCTTAATAGTT 59.288 36.000 0.00 0.00 0.00 2.24
3957 5019 6.884295 ACAGCAGCATCAAACCTTAATAGTTA 59.116 34.615 0.00 0.00 0.00 2.24
3958 5020 7.066284 ACAGCAGCATCAAACCTTAATAGTTAG 59.934 37.037 0.00 0.00 0.00 2.34
3960 5022 7.497249 AGCAGCATCAAACCTTAATAGTTAGAG 59.503 37.037 0.00 0.00 0.00 2.43
3961 5023 7.495934 GCAGCATCAAACCTTAATAGTTAGAGA 59.504 37.037 0.00 0.00 0.00 3.10
3962 5024 9.383519 CAGCATCAAACCTTAATAGTTAGAGAA 57.616 33.333 0.00 0.00 0.00 2.87
3991 5074 5.111989 TGTAGCATCACAAGCTAATCTGAC 58.888 41.667 0.00 0.00 45.30 3.51
3993 5076 3.118992 AGCATCACAAGCTAATCTGACGA 60.119 43.478 0.00 0.00 41.32 4.20
4003 5086 0.905357 AATCTGACGACTTCCCCTGG 59.095 55.000 0.00 0.00 0.00 4.45
4008 5091 3.691342 CGACTTCCCCTGGCACGA 61.691 66.667 0.00 0.00 0.00 4.35
4011 5094 1.229082 ACTTCCCCTGGCACGACTA 60.229 57.895 0.00 0.00 0.00 2.59
4018 5101 1.202533 CCCTGGCACGACTAATACCAG 60.203 57.143 0.00 0.00 46.10 4.00
4026 5109 4.508124 GCACGACTAATACCAGATTGAAGG 59.492 45.833 0.00 0.00 0.00 3.46
4027 5110 4.508124 CACGACTAATACCAGATTGAAGGC 59.492 45.833 0.00 0.00 0.00 4.35
4028 5111 4.406003 ACGACTAATACCAGATTGAAGGCT 59.594 41.667 0.00 0.00 0.00 4.58
4029 5112 4.985409 CGACTAATACCAGATTGAAGGCTC 59.015 45.833 0.00 0.00 0.00 4.70
4030 5113 5.451937 CGACTAATACCAGATTGAAGGCTCA 60.452 44.000 0.00 0.00 0.00 4.26
4031 5114 6.313519 ACTAATACCAGATTGAAGGCTCAA 57.686 37.500 0.00 0.00 45.53 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
68 69 3.465403 CTCCTCCCTGTCAGGCCG 61.465 72.222 13.99 6.05 32.73 6.13
239 631 2.851071 GCCATCTCCTCCTCCGTCG 61.851 68.421 0.00 0.00 0.00 5.12
279 671 0.820871 CAGGTTCCTCTTCCTCTCCG 59.179 60.000 0.00 0.00 30.91 4.63
318 723 2.290071 GGCCCACTAGTTGCTCACTTAA 60.290 50.000 12.56 0.00 36.88 1.85
370 784 0.887387 TACAAGGGGCGTTTCTGCAC 60.887 55.000 0.00 0.00 37.62 4.57
387 801 5.189928 TCATTGTGTACATCCCCATTGTAC 58.810 41.667 0.00 6.96 46.18 2.90
428 842 9.460019 TCTGTGTAATACATTTTGGATCATTCA 57.540 29.630 0.00 0.00 38.92 2.57
448 862 9.003658 CAATCAACCTTTTCTAAGTATCTGTGT 57.996 33.333 0.00 0.00 0.00 3.72
449 863 9.219603 TCAATCAACCTTTTCTAAGTATCTGTG 57.780 33.333 0.00 0.00 0.00 3.66
450 864 9.442047 CTCAATCAACCTTTTCTAAGTATCTGT 57.558 33.333 0.00 0.00 0.00 3.41
451 865 9.658799 TCTCAATCAACCTTTTCTAAGTATCTG 57.341 33.333 0.00 0.00 0.00 2.90
454 868 9.620259 GGATCTCAATCAACCTTTTCTAAGTAT 57.380 33.333 0.00 0.00 33.21 2.12
540 954 2.248686 AGGTCCAGACTATCTCCACCAT 59.751 50.000 0.00 0.00 30.81 3.55
584 998 2.436417 ACTTGTGATGATGGGAAACGG 58.564 47.619 0.00 0.00 0.00 4.44
585 999 4.695455 ACTAACTTGTGATGATGGGAAACG 59.305 41.667 0.00 0.00 0.00 3.60
599 1013 3.311596 GTGACTTTTGGCGACTAACTTGT 59.688 43.478 0.00 0.00 0.00 3.16
685 1099 6.017357 GGACAAGAACTGAAAAGGAAACGTAT 60.017 38.462 0.00 0.00 0.00 3.06
690 1104 6.129179 AGATGGACAAGAACTGAAAAGGAAA 58.871 36.000 0.00 0.00 0.00 3.13
735 1149 2.547299 AATTTGGTCAACCGTACCGA 57.453 45.000 0.00 0.00 40.08 4.69
737 1151 5.181622 TCATGTAAATTTGGTCAACCGTACC 59.818 40.000 0.00 0.00 39.43 3.34
740 1154 4.580995 TGTCATGTAAATTTGGTCAACCGT 59.419 37.500 0.00 0.00 39.43 4.83
769 1183 2.392933 CGCAAGCGACCTTTTTGTAA 57.607 45.000 9.11 0.00 42.83 2.41
785 1199 1.020861 AGCTTGAACATCGATGCGCA 61.021 50.000 25.11 14.96 0.00 6.09
788 1202 6.530913 TTATCTTAGCTTGAACATCGATGC 57.469 37.500 25.11 10.15 0.00 3.91
808 1222 8.928733 GCATCACAGACAAAAACATTGATTTAT 58.071 29.630 0.00 0.00 0.00 1.40
823 1238 2.689471 AGTTTTGCTTGCATCACAGACA 59.311 40.909 0.00 0.00 0.00 3.41
845 1260 1.348594 GTCCAAGCTAATGCGTCGC 59.651 57.895 11.10 11.10 45.42 5.19
846 1261 0.647410 CTGTCCAAGCTAATGCGTCG 59.353 55.000 0.00 0.00 45.42 5.12
853 1268 8.659527 TGATCCATATTTATCTGTCCAAGCTAA 58.340 33.333 0.00 0.00 0.00 3.09
860 1275 9.125026 ACAGTTTTGATCCATATTTATCTGTCC 57.875 33.333 0.00 0.00 0.00 4.02
865 1280 9.736023 GGAACACAGTTTTGATCCATATTTATC 57.264 33.333 0.00 0.00 0.00 1.75
884 1299 1.615883 GACTCTCAGCTCTGGAACACA 59.384 52.381 0.00 0.00 0.00 3.72
891 1306 3.425577 GTCAGATGACTCTCAGCTCTG 57.574 52.381 5.72 0.00 39.11 3.35
919 1396 0.250513 CCTTTTGCTCTACTCGGCCT 59.749 55.000 0.00 0.00 0.00 5.19
932 1409 2.564458 GGTAACGCCGGCCTTTTG 59.436 61.111 23.46 9.08 0.00 2.44
935 1412 3.912745 CTTGGGTAACGCCGGCCTT 62.913 63.158 23.46 18.77 38.44 4.35
947 1425 7.014230 GTGTATGGATGTTAATTATGCTTGGGT 59.986 37.037 0.00 0.00 0.00 4.51
953 1431 5.996219 TGCGTGTATGGATGTTAATTATGC 58.004 37.500 0.00 0.00 0.00 3.14
954 1432 7.959109 CAGATGCGTGTATGGATGTTAATTATG 59.041 37.037 0.00 0.00 0.00 1.90
959 1437 3.559655 GCAGATGCGTGTATGGATGTTAA 59.440 43.478 0.00 0.00 0.00 2.01
982 1460 3.639538 GCATGAAGAATGGCTTGCATAG 58.360 45.455 0.00 0.00 36.83 2.23
1016 1512 3.101643 TGAGTAGCAGAAAGGAGGCTA 57.898 47.619 0.00 0.00 39.01 3.93
1017 1513 1.944177 TGAGTAGCAGAAAGGAGGCT 58.056 50.000 0.00 0.00 41.51 4.58
1018 1514 2.626840 CTTGAGTAGCAGAAAGGAGGC 58.373 52.381 0.00 0.00 0.00 4.70
1045 1541 1.414550 GCTAAGGCCAAGGGAGAGTAG 59.585 57.143 5.01 0.00 0.00 2.57
1046 1542 1.273609 TGCTAAGGCCAAGGGAGAGTA 60.274 52.381 5.01 0.00 37.74 2.59
1047 1543 0.547712 TGCTAAGGCCAAGGGAGAGT 60.548 55.000 5.01 0.00 37.74 3.24
1053 1549 3.530067 GCCATGCTAAGGCCAAGG 58.470 61.111 5.01 0.00 46.50 3.61
1066 1562 1.077265 CAAGGAAGGGTGGTGCCAT 59.923 57.895 0.00 0.00 39.65 4.40
1081 1580 3.869272 GTGCTCATCGCCGGCAAG 61.869 66.667 28.98 18.11 37.73 4.01
1215 1717 2.483714 GCGCAGTGGATCAGGATAGAAA 60.484 50.000 0.30 0.00 0.00 2.52
1440 1945 0.456628 GGAAGGTGTCTAGCTCGACC 59.543 60.000 15.18 7.04 32.44 4.79
1566 2071 3.612955 CGAGACTCAAACTCTGGAAGGTC 60.613 52.174 2.82 0.00 32.87 3.85
1673 2178 3.097614 ACTATCGGTCTTGTAGGCTTGT 58.902 45.455 0.00 0.00 0.00 3.16
1689 2197 6.041069 AGAGGTTGTAGTTGGCTGATACTATC 59.959 42.308 0.00 0.00 0.00 2.08
1788 2302 2.079170 TCATGCCAAAACTCCAACCA 57.921 45.000 0.00 0.00 0.00 3.67
1926 2440 0.392193 CCACAGACAGGATGAGTGCC 60.392 60.000 0.00 0.00 39.69 5.01
1980 2494 3.436496 GTCACGTACTTCTGCATACCTC 58.564 50.000 0.00 0.00 0.00 3.85
2170 2684 0.609957 TTCATGCCTTGCCTGGAGTG 60.610 55.000 0.00 0.00 0.00 3.51
2653 3444 3.199880 AGGTCTTTGTCCACAAGTGAG 57.800 47.619 0.94 0.00 37.15 3.51
2733 3527 4.836825 CATCATCTAGTGACCCTTGTTGT 58.163 43.478 0.00 0.00 40.28 3.32
3012 3812 4.514816 GCTTATCTTCCTCCTGAAATGCTC 59.485 45.833 0.00 0.00 31.06 4.26
3055 3855 5.685728 AGATAAATAAGCACTCCCACTTCC 58.314 41.667 0.00 0.00 0.00 3.46
3056 3856 8.150945 TCATAGATAAATAAGCACTCCCACTTC 58.849 37.037 0.00 0.00 0.00 3.01
3057 3857 8.034313 TCATAGATAAATAAGCACTCCCACTT 57.966 34.615 0.00 0.00 0.00 3.16
3058 3858 7.618019 TCATAGATAAATAAGCACTCCCACT 57.382 36.000 0.00 0.00 0.00 4.00
3059 3859 7.880195 ACATCATAGATAAATAAGCACTCCCAC 59.120 37.037 0.00 0.00 0.00 4.61
3060 3860 7.977818 ACATCATAGATAAATAAGCACTCCCA 58.022 34.615 0.00 0.00 0.00 4.37
3061 3861 9.372369 GTACATCATAGATAAATAAGCACTCCC 57.628 37.037 0.00 0.00 0.00 4.30
3062 3862 9.372369 GGTACATCATAGATAAATAAGCACTCC 57.628 37.037 0.00 0.00 0.00 3.85
3097 3897 7.300658 ACTTATATTTAGGAACGGAGGGAGTA 58.699 38.462 0.00 0.00 0.00 2.59
3099 3899 6.494146 AGACTTATATTTAGGAACGGAGGGAG 59.506 42.308 0.00 0.00 0.00 4.30
3100 3900 6.379579 AGACTTATATTTAGGAACGGAGGGA 58.620 40.000 0.00 0.00 0.00 4.20
3102 3902 7.985752 ACAAAGACTTATATTTAGGAACGGAGG 59.014 37.037 0.00 0.00 0.00 4.30
3103 3903 8.943909 ACAAAGACTTATATTTAGGAACGGAG 57.056 34.615 0.00 0.00 0.00 4.63
3118 3918 9.268282 ACCTAATGGAATCTCTACAAAGACTTA 57.732 33.333 0.00 0.00 37.04 2.24
3119 3919 8.043710 CACCTAATGGAATCTCTACAAAGACTT 58.956 37.037 0.00 0.00 37.04 3.01
3121 3921 7.778470 CACCTAATGGAATCTCTACAAAGAC 57.222 40.000 0.00 0.00 37.04 3.01
3137 3937 4.558898 GCTCCGTATGTAGTCCACCTAATG 60.559 50.000 0.00 0.00 0.00 1.90
3138 3938 3.573110 GCTCCGTATGTAGTCCACCTAAT 59.427 47.826 0.00 0.00 0.00 1.73
3139 3939 2.954318 GCTCCGTATGTAGTCCACCTAA 59.046 50.000 0.00 0.00 0.00 2.69
3140 3940 2.092267 TGCTCCGTATGTAGTCCACCTA 60.092 50.000 0.00 0.00 0.00 3.08
3141 3941 1.341679 TGCTCCGTATGTAGTCCACCT 60.342 52.381 0.00 0.00 0.00 4.00
3142 3942 1.108776 TGCTCCGTATGTAGTCCACC 58.891 55.000 0.00 0.00 0.00 4.61
3143 3943 2.953466 TTGCTCCGTATGTAGTCCAC 57.047 50.000 0.00 0.00 0.00 4.02
3144 3944 3.965379 TTTTGCTCCGTATGTAGTCCA 57.035 42.857 0.00 0.00 0.00 4.02
3145 3945 4.439057 TCATTTTGCTCCGTATGTAGTCC 58.561 43.478 0.00 0.00 0.00 3.85
3146 3946 6.257849 TCATTCATTTTGCTCCGTATGTAGTC 59.742 38.462 0.00 0.00 0.00 2.59
3147 3947 6.112734 TCATTCATTTTGCTCCGTATGTAGT 58.887 36.000 0.00 0.00 0.00 2.73
3148 3948 6.603237 TCATTCATTTTGCTCCGTATGTAG 57.397 37.500 0.00 0.00 0.00 2.74
3149 3949 6.993786 TTCATTCATTTTGCTCCGTATGTA 57.006 33.333 0.00 0.00 0.00 2.29
3150 3950 5.895636 TTCATTCATTTTGCTCCGTATGT 57.104 34.783 0.00 0.00 0.00 2.29
3151 3951 6.732154 AGATTCATTCATTTTGCTCCGTATG 58.268 36.000 0.00 0.00 0.00 2.39
3152 3952 6.949352 AGATTCATTCATTTTGCTCCGTAT 57.051 33.333 0.00 0.00 0.00 3.06
3153 3953 7.224753 GTCTAGATTCATTCATTTTGCTCCGTA 59.775 37.037 0.00 0.00 0.00 4.02
3154 3954 6.037610 GTCTAGATTCATTCATTTTGCTCCGT 59.962 38.462 0.00 0.00 0.00 4.69
3155 3955 6.259608 AGTCTAGATTCATTCATTTTGCTCCG 59.740 38.462 0.00 0.00 0.00 4.63
3156 3956 7.565323 AGTCTAGATTCATTCATTTTGCTCC 57.435 36.000 0.00 0.00 0.00 4.70
3187 3987 5.561199 CGCATACGGATGTATATACATGC 57.439 43.478 28.82 28.52 46.20 4.06
3202 4002 5.227908 AGATTCCACTATAAACCGCATACG 58.772 41.667 0.00 0.00 39.67 3.06
3203 4003 6.456501 AGAGATTCCACTATAAACCGCATAC 58.543 40.000 0.00 0.00 0.00 2.39
3204 4004 6.665992 AGAGATTCCACTATAAACCGCATA 57.334 37.500 0.00 0.00 0.00 3.14
3205 4005 5.552870 AGAGATTCCACTATAAACCGCAT 57.447 39.130 0.00 0.00 0.00 4.73
3206 4006 6.665992 ATAGAGATTCCACTATAAACCGCA 57.334 37.500 0.00 0.00 0.00 5.69
3207 4007 9.141400 CTTTATAGAGATTCCACTATAAACCGC 57.859 37.037 18.88 0.00 41.95 5.68
3228 4028 7.985752 CCTCCGTTCCTAAATGTAAGTCTTTAT 59.014 37.037 0.00 0.00 0.00 1.40
3229 4029 7.325694 CCTCCGTTCCTAAATGTAAGTCTTTA 58.674 38.462 0.00 0.00 0.00 1.85
3230 4030 6.171213 CCTCCGTTCCTAAATGTAAGTCTTT 58.829 40.000 0.00 0.00 0.00 2.52
3231 4031 5.338137 CCCTCCGTTCCTAAATGTAAGTCTT 60.338 44.000 0.00 0.00 0.00 3.01
3232 4032 4.161754 CCCTCCGTTCCTAAATGTAAGTCT 59.838 45.833 0.00 0.00 0.00 3.24
3233 4033 4.161001 TCCCTCCGTTCCTAAATGTAAGTC 59.839 45.833 0.00 0.00 0.00 3.01
3234 4034 4.098894 TCCCTCCGTTCCTAAATGTAAGT 58.901 43.478 0.00 0.00 0.00 2.24
3235 4035 4.161754 ACTCCCTCCGTTCCTAAATGTAAG 59.838 45.833 0.00 0.00 0.00 2.34
3236 4036 4.098894 ACTCCCTCCGTTCCTAAATGTAA 58.901 43.478 0.00 0.00 0.00 2.41
3237 4037 3.716431 ACTCCCTCCGTTCCTAAATGTA 58.284 45.455 0.00 0.00 0.00 2.29
3238 4038 2.547990 ACTCCCTCCGTTCCTAAATGT 58.452 47.619 0.00 0.00 0.00 2.71
3239 4039 3.958798 TCTACTCCCTCCGTTCCTAAATG 59.041 47.826 0.00 0.00 0.00 2.32
3240 4040 4.261411 TCTACTCCCTCCGTTCCTAAAT 57.739 45.455 0.00 0.00 0.00 1.40
3241 4041 3.744940 TCTACTCCCTCCGTTCCTAAA 57.255 47.619 0.00 0.00 0.00 1.85
3242 4042 3.744940 TTCTACTCCCTCCGTTCCTAA 57.255 47.619 0.00 0.00 0.00 2.69
3243 4043 3.967467 ATTCTACTCCCTCCGTTCCTA 57.033 47.619 0.00 0.00 0.00 2.94
3244 4044 2.850695 ATTCTACTCCCTCCGTTCCT 57.149 50.000 0.00 0.00 0.00 3.36
3245 4045 6.351117 CCAATATATTCTACTCCCTCCGTTCC 60.351 46.154 0.00 0.00 0.00 3.62
3246 4046 6.436532 TCCAATATATTCTACTCCCTCCGTTC 59.563 42.308 0.00 0.00 0.00 3.95
3247 4047 6.210984 GTCCAATATATTCTACTCCCTCCGTT 59.789 42.308 0.00 0.00 0.00 4.44
3248 4048 5.715753 GTCCAATATATTCTACTCCCTCCGT 59.284 44.000 0.00 0.00 0.00 4.69
3249 4049 5.163642 CGTCCAATATATTCTACTCCCTCCG 60.164 48.000 0.00 0.00 0.00 4.63
3250 4050 5.715753 ACGTCCAATATATTCTACTCCCTCC 59.284 44.000 0.00 0.00 0.00 4.30
3251 4051 6.208994 ACACGTCCAATATATTCTACTCCCTC 59.791 42.308 0.00 0.00 0.00 4.30
3252 4052 6.075984 ACACGTCCAATATATTCTACTCCCT 58.924 40.000 0.00 0.00 0.00 4.20
3253 4053 6.342338 ACACGTCCAATATATTCTACTCCC 57.658 41.667 0.00 0.00 0.00 4.30
3254 4054 9.355215 CATTACACGTCCAATATATTCTACTCC 57.645 37.037 0.00 0.00 0.00 3.85
3259 4059 8.638873 TGTCTCATTACACGTCCAATATATTCT 58.361 33.333 0.00 0.00 0.00 2.40
3260 4060 8.812147 TGTCTCATTACACGTCCAATATATTC 57.188 34.615 0.00 0.00 0.00 1.75
3261 4061 9.208022 CATGTCTCATTACACGTCCAATATATT 57.792 33.333 0.00 0.00 30.75 1.28
3262 4062 7.819415 CCATGTCTCATTACACGTCCAATATAT 59.181 37.037 0.00 0.00 30.75 0.86
3263 4063 7.014808 TCCATGTCTCATTACACGTCCAATATA 59.985 37.037 0.00 0.00 30.75 0.86
3264 4064 5.991606 CCATGTCTCATTACACGTCCAATAT 59.008 40.000 0.00 0.00 30.75 1.28
3265 4065 5.128008 TCCATGTCTCATTACACGTCCAATA 59.872 40.000 0.00 0.00 30.75 1.90
3266 4066 4.081142 TCCATGTCTCATTACACGTCCAAT 60.081 41.667 0.00 0.00 30.75 3.16
3267 4067 3.259625 TCCATGTCTCATTACACGTCCAA 59.740 43.478 0.00 0.00 30.75 3.53
3268 4068 2.829120 TCCATGTCTCATTACACGTCCA 59.171 45.455 0.00 0.00 30.75 4.02
3269 4069 3.520290 TCCATGTCTCATTACACGTCC 57.480 47.619 0.00 0.00 30.75 4.79
3270 4070 6.447162 TCATATCCATGTCTCATTACACGTC 58.553 40.000 0.00 0.00 33.57 4.34
3271 4071 6.405278 TCATATCCATGTCTCATTACACGT 57.595 37.500 0.00 0.00 33.57 4.49
3272 4072 7.570140 GCTTTCATATCCATGTCTCATTACACG 60.570 40.741 0.00 0.00 33.57 4.49
3273 4073 7.443575 AGCTTTCATATCCATGTCTCATTACAC 59.556 37.037 0.00 0.00 33.57 2.90
3274 4074 7.512130 AGCTTTCATATCCATGTCTCATTACA 58.488 34.615 0.00 0.00 33.57 2.41
3275 4075 7.976135 AGCTTTCATATCCATGTCTCATTAC 57.024 36.000 0.00 0.00 33.57 1.89
3276 4076 7.994911 ACAAGCTTTCATATCCATGTCTCATTA 59.005 33.333 0.00 0.00 33.57 1.90
3277 4077 6.832384 ACAAGCTTTCATATCCATGTCTCATT 59.168 34.615 0.00 0.00 33.57 2.57
3278 4078 6.363065 ACAAGCTTTCATATCCATGTCTCAT 58.637 36.000 0.00 0.00 33.57 2.90
3283 4083 9.006839 CATATGTACAAGCTTTCATATCCATGT 57.993 33.333 18.01 5.84 33.14 3.21
3287 4087 9.277783 AGAACATATGTACAAGCTTTCATATCC 57.722 33.333 9.21 13.04 33.14 2.59
3305 4112 9.422681 TCTAGCTACTGAAAGGTAAGAACATAT 57.577 33.333 0.00 0.00 39.30 1.78
3308 4115 7.719871 ATCTAGCTACTGAAAGGTAAGAACA 57.280 36.000 0.00 0.00 39.30 3.18
3319 4126 5.165961 AGGCAACAAATCTAGCTACTGAA 57.834 39.130 0.00 0.00 41.41 3.02
3323 4130 5.118990 TCATGAGGCAACAAATCTAGCTAC 58.881 41.667 0.00 0.00 41.41 3.58
3402 4209 1.042559 AGCTGAGCTGAGCCTCCTAC 61.043 60.000 22.26 0.00 40.08 3.18
3460 4270 8.107564 CACAAAACTTTTATTGAAGAAACCACG 58.892 33.333 0.00 0.00 0.00 4.94
3478 4289 9.868277 TCACAAAGAATAAACAATCACAAAACT 57.132 25.926 0.00 0.00 0.00 2.66
3531 4342 4.813027 ACAAATGCAAGAACATGTCCATC 58.187 39.130 0.00 0.00 0.00 3.51
3535 4346 4.211794 CCCAAACAAATGCAAGAACATGTC 59.788 41.667 0.00 0.00 0.00 3.06
3540 4351 3.791245 TGTCCCAAACAAATGCAAGAAC 58.209 40.909 0.00 0.00 34.03 3.01
3560 4371 7.487822 ACATATCACCAGGTAATAGAGGATG 57.512 40.000 0.00 0.00 0.00 3.51
3593 4406 6.478344 TCCCAAATTTTGACAACTCAATTTCG 59.522 34.615 10.72 1.93 36.26 3.46
3644 4457 4.351054 ACTTCCAAGCCCTGGCCG 62.351 66.667 4.13 0.00 45.98 6.13
3649 4462 0.538287 GAAGCACACTTCCAAGCCCT 60.538 55.000 0.00 0.00 45.60 5.19
3679 4492 0.670239 GCAATTGAAAGGGCCGTTGG 60.670 55.000 12.25 0.00 0.00 3.77
3681 4494 1.288752 CGCAATTGAAAGGGCCGTT 59.711 52.632 10.34 3.77 0.00 4.44
3682 4495 1.901464 ACGCAATTGAAAGGGCCGT 60.901 52.632 10.34 4.35 0.00 5.68
3684 4497 0.667184 CACACGCAATTGAAAGGGCC 60.667 55.000 10.34 0.00 0.00 5.80
3685 4498 1.284297 GCACACGCAATTGAAAGGGC 61.284 55.000 10.34 6.28 38.36 5.19
3686 4499 2.813100 GCACACGCAATTGAAAGGG 58.187 52.632 10.34 3.09 38.36 3.95
3699 4512 7.061094 GCAGACAAACTCTTATAAAATGCACAC 59.939 37.037 0.00 0.00 0.00 3.82
3705 4518 6.546395 CGCTGCAGACAAACTCTTATAAAAT 58.454 36.000 20.43 0.00 0.00 1.82
3713 4526 1.227645 TGCGCTGCAGACAAACTCT 60.228 52.632 20.43 0.00 33.32 3.24
3732 4545 2.674796 AATGGTCTAGAAGCACGGAC 57.325 50.000 0.00 0.00 38.41 4.79
3750 4563 3.960102 GGTGCCATTGGATTTGGATCTAA 59.040 43.478 6.95 0.00 37.20 2.10
3768 4581 2.769095 AGAAGGAAGGAGATACAGGTGC 59.231 50.000 0.00 0.00 0.00 5.01
3772 4585 4.340950 GTCCAGAGAAGGAAGGAGATACAG 59.659 50.000 0.00 0.00 39.92 2.74
3780 4593 4.944317 GGTTAAATGTCCAGAGAAGGAAGG 59.056 45.833 0.00 0.00 39.92 3.46
3815 4869 6.841119 TGTACATTTCATTTCGTCTTCCATG 58.159 36.000 0.00 0.00 0.00 3.66
3824 4878 7.914871 TGGAATGCTAATGTACATTTCATTTCG 59.085 33.333 29.30 14.34 36.96 3.46
3825 4879 9.754382 ATGGAATGCTAATGTACATTTCATTTC 57.246 29.630 29.30 28.31 45.90 2.17
3842 4896 5.688807 AGTGCATCTACTTTATGGAATGCT 58.311 37.500 6.68 0.00 35.12 3.79
3856 4910 4.272504 GCGCCTGTTAATTAAGTGCATCTA 59.727 41.667 13.58 0.00 0.00 1.98
3864 4918 3.438781 TGTTCCAGCGCCTGTTAATTAAG 59.561 43.478 2.29 0.00 0.00 1.85
3868 4922 2.128771 ATGTTCCAGCGCCTGTTAAT 57.871 45.000 2.29 0.00 0.00 1.40
3878 4932 5.874810 TCACAAGACTACAATATGTTCCAGC 59.125 40.000 0.00 0.00 0.00 4.85
3879 4933 7.323420 TCTCACAAGACTACAATATGTTCCAG 58.677 38.462 0.00 0.00 0.00 3.86
3894 4948 8.559536 TCAATGACAGTTTATTTCTCACAAGAC 58.440 33.333 0.00 0.00 0.00 3.01
3915 4977 4.609947 TGCTGTTGCACTTTAGTTCAATG 58.390 39.130 0.00 0.00 45.31 2.82
3924 4986 1.034356 TGATGCTGCTGTTGCACTTT 58.966 45.000 0.00 0.00 45.31 2.66
3929 4991 0.316204 AGGTTTGATGCTGCTGTTGC 59.684 50.000 0.00 0.00 40.20 4.17
3954 5016 8.201554 TGTGATGCTACAAATGATTCTCTAAC 57.798 34.615 0.00 0.00 0.00 2.34
3955 5017 8.791327 TTGTGATGCTACAAATGATTCTCTAA 57.209 30.769 0.00 0.00 37.60 2.10
3956 5018 7.011763 GCTTGTGATGCTACAAATGATTCTCTA 59.988 37.037 0.00 0.00 39.81 2.43
3957 5019 6.183360 GCTTGTGATGCTACAAATGATTCTCT 60.183 38.462 0.00 0.00 39.81 3.10
3958 5020 5.970023 GCTTGTGATGCTACAAATGATTCTC 59.030 40.000 0.00 0.00 39.81 2.87
3960 5022 5.888105 AGCTTGTGATGCTACAAATGATTC 58.112 37.500 0.00 0.00 39.81 2.52
3961 5023 5.909621 AGCTTGTGATGCTACAAATGATT 57.090 34.783 0.00 0.00 39.81 2.57
3962 5024 7.501559 AGATTAGCTTGTGATGCTACAAATGAT 59.498 33.333 0.00 0.00 41.95 2.45
3991 5074 3.691342 TCGTGCCAGGGGAAGTCG 61.691 66.667 0.00 0.00 0.00 4.18
3993 5076 0.834687 TTAGTCGTGCCAGGGGAAGT 60.835 55.000 0.00 0.00 0.00 3.01
4003 5086 4.508124 CCTTCAATCTGGTATTAGTCGTGC 59.492 45.833 0.00 0.00 0.00 5.34
4008 5091 5.957771 TGAGCCTTCAATCTGGTATTAGT 57.042 39.130 0.00 0.00 0.00 2.24


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

AutoCloner maintained by Alex Coulton.