Multiple sequence alignment - TraesCS3B01G210000

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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 TraesCS3B01G210000 chr3B 100.000 3639 0 0 1 3639 246144516 246148154 0.000000e+00 6721
1 TraesCS3B01G210000 chr3B 85.324 879 106 13 1765 2641 245964146 245963289 0.000000e+00 887
2 TraesCS3B01G210000 chr3B 88.000 625 75 0 2024 2648 245969607 245968983 0.000000e+00 739
3 TraesCS3B01G210000 chr3B 88.488 582 67 0 2050 2631 246129338 246129919 0.000000e+00 704
4 TraesCS3B01G210000 chr3B 81.092 238 37 5 1001 1231 245964727 245964491 2.230000e-42 183
5 TraesCS3B01G210000 chr3B 88.889 144 16 0 1084 1227 245970423 245970280 1.040000e-40 178
6 TraesCS3B01G210000 chr3D 96.002 2626 75 11 724 3337 170667781 170670388 0.000000e+00 4241
7 TraesCS3B01G210000 chr3D 89.536 755 45 7 1 732 170666891 170667634 0.000000e+00 926
8 TraesCS3B01G210000 chr3D 84.493 877 117 7 1765 2641 170558160 170557303 0.000000e+00 848
9 TraesCS3B01G210000 chr3D 88.676 627 69 2 2023 2648 170564258 170563633 0.000000e+00 763
10 TraesCS3B01G210000 chr3D 93.642 173 11 0 203 375 422517793 422517621 3.600000e-65 259
11 TraesCS3B01G210000 chr3D 94.964 139 5 2 3502 3639 170670361 170670498 2.200000e-52 217
12 TraesCS3B01G210000 chr3D 82.500 240 30 8 1001 1231 170558776 170558540 2.220000e-47 200
13 TraesCS3B01G210000 chr3A 95.816 2629 77 12 724 3337 208233946 208236556 0.000000e+00 4215
14 TraesCS3B01G210000 chr3A 91.444 748 38 5 1 732 208233057 208233794 0.000000e+00 1003
15 TraesCS3B01G210000 chr3A 84.886 880 116 8 1765 2641 208086396 208085531 0.000000e+00 872
16 TraesCS3B01G210000 chr3A 89.103 624 68 0 2025 2648 208089595 208088972 0.000000e+00 776
17 TraesCS3B01G210000 chr3A 94.554 202 8 3 3332 3531 336266243 336266443 3.530000e-80 309
18 TraesCS3B01G210000 chr3A 92.222 180 14 0 196 375 353624602 353624423 4.660000e-64 255
19 TraesCS3B01G210000 chr3A 100.000 126 0 0 3514 3639 208236541 208236666 2.180000e-57 233
20 TraesCS3B01G210000 chr3A 82.051 234 36 3 1000 1227 208090513 208090280 1.030000e-45 195
21 TraesCS3B01G210000 chr1A 99.435 177 1 0 3338 3514 481924823 481924647 4.530000e-84 322
22 TraesCS3B01G210000 chr1A 98.361 183 2 1 3338 3520 393958676 393958495 1.630000e-83 320
23 TraesCS3B01G210000 chr2A 97.849 186 3 1 3331 3516 341924089 341924273 1.630000e-83 320
24 TraesCS3B01G210000 chr2A 93.143 175 12 0 201 375 611937185 611937011 1.300000e-64 257
25 TraesCS3B01G210000 chr6A 95.098 204 6 3 3321 3521 162860289 162860087 5.860000e-83 318
26 TraesCS3B01G210000 chr6A 92.697 178 13 0 198 375 153372884 153373061 1.300000e-64 257
27 TraesCS3B01G210000 chr5A 97.838 185 3 1 3338 3521 464473859 464473675 5.860000e-83 318
28 TraesCS3B01G210000 chr2B 98.876 178 2 0 3338 3515 126952054 126951877 5.860000e-83 318
29 TraesCS3B01G210000 chr1B 97.340 188 3 2 3326 3513 333493112 333493297 5.860000e-83 318
30 TraesCS3B01G210000 chr4B 97.826 184 3 1 3338 3521 12893025 12892843 2.110000e-82 316
31 TraesCS3B01G210000 chr7A 92.896 183 13 0 193 375 83784825 83785007 2.150000e-67 267
32 TraesCS3B01G210000 chr4D 93.220 177 12 0 199 375 482703628 482703452 1.000000e-65 261
33 TraesCS3B01G210000 chr6B 92.179 179 12 2 199 375 225525554 225525376 6.030000e-63 252


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 TraesCS3B01G210000 chr3B 246144516 246148154 3638 False 6721.000000 6721 100.000000 1 3639 1 chr3B.!!$F2 3638
1 TraesCS3B01G210000 chr3B 246129338 246129919 581 False 704.000000 704 88.488000 2050 2631 1 chr3B.!!$F1 581
2 TraesCS3B01G210000 chr3B 245963289 245964727 1438 True 535.000000 887 83.208000 1001 2641 2 chr3B.!!$R1 1640
3 TraesCS3B01G210000 chr3B 245968983 245970423 1440 True 458.500000 739 88.444500 1084 2648 2 chr3B.!!$R2 1564
4 TraesCS3B01G210000 chr3D 170666891 170670498 3607 False 1794.666667 4241 93.500667 1 3639 3 chr3D.!!$F1 3638
5 TraesCS3B01G210000 chr3D 170563633 170564258 625 True 763.000000 763 88.676000 2023 2648 1 chr3D.!!$R1 625
6 TraesCS3B01G210000 chr3D 170557303 170558776 1473 True 524.000000 848 83.496500 1001 2641 2 chr3D.!!$R3 1640
7 TraesCS3B01G210000 chr3A 208233057 208236666 3609 False 1817.000000 4215 95.753333 1 3639 3 chr3A.!!$F2 3638
8 TraesCS3B01G210000 chr3A 208085531 208090513 4982 True 614.333333 872 85.346667 1000 2648 3 chr3A.!!$R2 1648

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
772 955 0.311790 AGCAGTTGAACACAATGCCG 59.688 50.0 0.0 0.0 37.61 5.69 F
838 1021 0.390340 TGCAGCATCTCACCGTTCTC 60.390 55.0 0.0 0.0 0.00 2.87 F
878 1061 1.204146 TCTCTTCCCTACATGCACCC 58.796 55.0 0.0 0.0 0.00 4.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1809 2128 0.909610 TTGGACCCCTTCTCGCTGAT 60.910 55.000 0.00 0.00 0.00 2.90 R
1850 2169 1.731969 GTCAACGACCTCGAACCCG 60.732 63.158 0.78 0.00 43.02 5.28 R
2673 6464 2.094234 ACAAAATATGGCGCCAACTTCC 60.094 45.455 36.33 0.84 0.00 3.46 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
58 59 2.224877 TGGGCCCACCGTGATACAA 61.225 57.895 24.45 0.00 44.64 2.41
68 69 5.184287 CCCACCGTGATACAAAAGGTTAAAT 59.816 40.000 0.00 0.00 32.04 1.40
70 71 7.094291 CCCACCGTGATACAAAAGGTTAAATTA 60.094 37.037 0.00 0.00 32.04 1.40
71 72 8.298140 CCACCGTGATACAAAAGGTTAAATTAA 58.702 33.333 0.00 0.00 32.04 1.40
72 73 9.337091 CACCGTGATACAAAAGGTTAAATTAAG 57.663 33.333 0.00 0.00 32.04 1.85
73 74 8.517056 ACCGTGATACAAAAGGTTAAATTAAGG 58.483 33.333 0.00 0.00 0.00 2.69
82 83 7.625828 AAAGGTTAAATTAAGGGAGACATCG 57.374 36.000 0.00 0.00 0.00 3.84
144 145 8.877864 TTGGTAAGGTAATTCAAATCAGTCAT 57.122 30.769 0.00 0.00 0.00 3.06
148 149 9.559958 GTAAGGTAATTCAAATCAGTCATTGTG 57.440 33.333 0.00 0.00 0.00 3.33
183 184 5.408299 TCAATCACTGTAACATTCCAACTCG 59.592 40.000 0.00 0.00 0.00 4.18
234 235 0.447801 GTGCACATAGCTCCCGTTTG 59.552 55.000 13.17 0.00 45.94 2.93
284 285 0.887387 TGGGTCTTTTGTACGCAGCC 60.887 55.000 0.00 0.00 35.18 4.85
361 362 2.618709 GTCACAAGGCAACAGCTTTACT 59.381 45.455 0.00 0.00 41.41 2.24
438 455 8.383318 AGCTATTGTGTATGGATATGTTTGTC 57.617 34.615 0.00 0.00 0.00 3.18
439 456 8.213679 AGCTATTGTGTATGGATATGTTTGTCT 58.786 33.333 0.00 0.00 0.00 3.41
459 476 4.794246 GTCTAAGACATTCTGTACTCGCAC 59.206 45.833 0.00 0.00 32.09 5.34
465 482 2.902705 TTCTGTACTCGCACCTTTGT 57.097 45.000 0.00 0.00 0.00 2.83
470 487 4.219944 TCTGTACTCGCACCTTTGTAGAAT 59.780 41.667 0.00 0.00 0.00 2.40
511 528 3.072330 TCTTCAAGTGGTGATGGCACTAA 59.928 43.478 0.00 0.00 44.52 2.24
512 529 2.778299 TCAAGTGGTGATGGCACTAAC 58.222 47.619 0.00 0.00 44.52 2.34
553 570 9.458374 GTTACAGTGTGCATTTGTATTTAACTT 57.542 29.630 5.88 0.00 0.00 2.66
646 670 9.181061 ACCAAAGCTTAAAGTTTGAGTAACTAA 57.819 29.630 0.00 0.00 46.34 2.24
672 696 6.053005 ACACTAGAAATGAAGACCGAAACAA 58.947 36.000 0.00 0.00 0.00 2.83
681 705 4.282449 TGAAGACCGAAACAAGACATAGGA 59.718 41.667 0.00 0.00 0.00 2.94
690 714 4.046938 ACAAGACATAGGACATAGCACG 57.953 45.455 0.00 0.00 0.00 5.34
705 729 3.733443 AGCACGCTTTGGAAGAAAATT 57.267 38.095 0.00 0.00 0.00 1.82
715 739 8.589629 CGCTTTGGAAGAAAATTAGATGATTTG 58.410 33.333 0.00 0.00 30.06 2.32
762 945 6.942532 AGAGTTATTGTTGAAGCAGTTGAA 57.057 33.333 0.00 0.00 0.00 2.69
763 946 6.729187 AGAGTTATTGTTGAAGCAGTTGAAC 58.271 36.000 0.00 0.00 30.98 3.18
764 947 6.318648 AGAGTTATTGTTGAAGCAGTTGAACA 59.681 34.615 0.00 0.00 37.91 3.18
772 955 0.311790 AGCAGTTGAACACAATGCCG 59.688 50.000 0.00 0.00 37.61 5.69
781 964 1.819632 CACAATGCCGGGTAGCTCC 60.820 63.158 2.18 0.00 0.00 4.70
832 1015 2.827642 GCCCTGCAGCATCTCACC 60.828 66.667 8.66 0.00 0.00 4.02
838 1021 0.390340 TGCAGCATCTCACCGTTCTC 60.390 55.000 0.00 0.00 0.00 2.87
875 1058 4.323792 CCTTCTTTCTCTTCCCTACATGCA 60.324 45.833 0.00 0.00 0.00 3.96
878 1061 1.204146 TCTCTTCCCTACATGCACCC 58.796 55.000 0.00 0.00 0.00 4.61
926 1109 1.357137 TCTGCACCTCATAACCCACA 58.643 50.000 0.00 0.00 0.00 4.17
927 1110 1.702401 TCTGCACCTCATAACCCACAA 59.298 47.619 0.00 0.00 0.00 3.33
928 1111 2.086869 CTGCACCTCATAACCCACAAG 58.913 52.381 0.00 0.00 0.00 3.16
1024 1211 1.609061 CGACTTCCATGAGTTGCCTGT 60.609 52.381 0.00 0.00 0.00 4.00
1245 1493 4.753186 AGGTCTCTGTTTCCTCTTTCCTA 58.247 43.478 0.00 0.00 0.00 2.94
1432 1713 8.947115 AGTGTTACTTTTGCTATATTTGTCCTC 58.053 33.333 0.00 0.00 0.00 3.71
1669 1984 4.565564 GCAATGCTCATCCTTCACAAAATC 59.434 41.667 0.00 0.00 0.00 2.17
1686 2001 5.653769 ACAAAATCCATGTACCTGATCCAAG 59.346 40.000 0.00 0.00 0.00 3.61
1745 2063 8.015185 TGTAGTACCAGTAACTTTTTCTGACT 57.985 34.615 0.00 0.00 0.00 3.41
1809 2128 3.599343 CTGGACAACAGTAGCAGCATAA 58.401 45.455 0.00 0.00 42.42 1.90
1850 2169 0.462759 CCAATCTGAACTCCCTCCGC 60.463 60.000 0.00 0.00 0.00 5.54
1865 2184 4.712425 CGCGGGTTCGAGGTCGTT 62.712 66.667 0.00 0.00 40.80 3.85
1988 2307 6.481644 GTGCACACCAAAAATAATTCTTTCCA 59.518 34.615 13.17 0.00 0.00 3.53
2012 2331 7.096353 CCAAGATAGCATGAATTAAACAATGCG 60.096 37.037 0.00 0.00 39.71 4.73
2013 2332 7.031226 AGATAGCATGAATTAAACAATGCGT 57.969 32.000 0.00 6.94 39.71 5.24
2386 6177 1.546961 ATCTCTTCCCACTCGACGTT 58.453 50.000 0.00 0.00 0.00 3.99
2655 6446 3.256879 CACTGAGTTACTGAAGCTCCTGA 59.743 47.826 0.00 0.00 0.00 3.86
2673 6464 3.551454 CCTGAAAGTGCTGAATTGTGTGG 60.551 47.826 0.00 0.00 0.00 4.17
2724 6515 5.590530 AGCAAGTGTGGTTGTAATTTTCA 57.409 34.783 0.00 0.00 28.67 2.69
2873 6664 6.947733 TGACTTCCAAATTTCACTCATGGTAT 59.052 34.615 0.00 0.00 32.90 2.73
3128 6921 4.771114 ATTGCTGTGCCATACTAGGTTA 57.229 40.909 0.00 0.00 0.00 2.85
3210 7003 3.944650 TCAGCACAAGTTGTTCAAAGCTA 59.055 39.130 15.14 4.67 0.00 3.32
3246 7039 5.319453 TCTTTTGATGACAGCTGGAGAAAT 58.681 37.500 19.93 3.63 0.00 2.17
3263 7056 5.334724 AGAAATCAGGATGCCAATCAAAC 57.665 39.130 0.00 0.00 34.17 2.93
3327 7120 1.202330 CAGTCTCCTCCCTTGCTCAT 58.798 55.000 0.00 0.00 0.00 2.90
3328 7121 1.138661 CAGTCTCCTCCCTTGCTCATC 59.861 57.143 0.00 0.00 0.00 2.92
3329 7122 0.103937 GTCTCCTCCCTTGCTCATCG 59.896 60.000 0.00 0.00 0.00 3.84
3330 7123 1.045350 TCTCCTCCCTTGCTCATCGG 61.045 60.000 0.00 0.00 0.00 4.18
3331 7124 1.001631 TCCTCCCTTGCTCATCGGA 59.998 57.895 0.00 0.00 0.00 4.55
3332 7125 0.617535 TCCTCCCTTGCTCATCGGAA 60.618 55.000 0.00 0.00 0.00 4.30
3333 7126 0.179062 CCTCCCTTGCTCATCGGAAG 60.179 60.000 0.00 0.00 40.42 3.46
3334 7127 0.826715 CTCCCTTGCTCATCGGAAGA 59.173 55.000 0.00 0.00 43.07 2.87
3344 7137 2.048222 TCGGAAGAGCGCAACCTG 60.048 61.111 11.47 0.42 34.84 4.00
3345 7138 3.121030 CGGAAGAGCGCAACCTGG 61.121 66.667 11.47 0.00 0.00 4.45
3346 7139 2.032681 GGAAGAGCGCAACCTGGT 59.967 61.111 11.47 0.00 0.00 4.00
3347 7140 2.328099 GGAAGAGCGCAACCTGGTG 61.328 63.158 11.47 0.00 0.00 4.17
3348 7141 2.970974 GAAGAGCGCAACCTGGTGC 61.971 63.158 11.47 5.64 44.42 5.01
3349 7142 3.772853 AAGAGCGCAACCTGGTGCA 62.773 57.895 11.47 0.00 46.43 4.57
3350 7143 3.058160 GAGCGCAACCTGGTGCAT 61.058 61.111 11.47 8.22 46.43 3.96
3351 7144 3.332493 GAGCGCAACCTGGTGCATG 62.332 63.158 11.47 7.22 46.43 4.06
3352 7145 3.673484 GCGCAACCTGGTGCATGT 61.673 61.111 17.31 0.00 45.19 3.21
3353 7146 2.331893 GCGCAACCTGGTGCATGTA 61.332 57.895 17.31 0.00 45.19 2.29
3354 7147 1.796151 CGCAACCTGGTGCATGTAG 59.204 57.895 17.31 2.51 45.19 2.74
3355 7148 1.508088 GCAACCTGGTGCATGTAGC 59.492 57.895 6.00 6.00 44.29 3.58
3356 7149 0.962356 GCAACCTGGTGCATGTAGCT 60.962 55.000 14.15 0.00 44.29 3.32
3357 7150 1.089920 CAACCTGGTGCATGTAGCTC 58.910 55.000 14.15 0.00 45.94 4.09
3363 7156 1.450312 GTGCATGTAGCTCCCGCTT 60.450 57.895 0.00 0.00 46.47 4.68
3364 7157 1.450134 TGCATGTAGCTCCCGCTTG 60.450 57.895 0.00 0.00 46.47 4.01
3365 7158 2.828128 GCATGTAGCTCCCGCTTGC 61.828 63.158 0.00 0.00 46.47 4.01
3366 7159 2.202932 ATGTAGCTCCCGCTTGCG 60.203 61.111 8.14 8.14 46.47 4.85
3369 7162 4.819761 TAGCTCCCGCTTGCGCAG 62.820 66.667 11.31 6.32 46.47 5.18
3381 7174 4.785453 GCGCAGGGTCCAGGGAAG 62.785 72.222 0.30 0.00 0.00 3.46
3382 7175 4.101448 CGCAGGGTCCAGGGAAGG 62.101 72.222 0.00 0.00 0.00 3.46
3383 7176 3.732849 GCAGGGTCCAGGGAAGGG 61.733 72.222 0.00 0.00 0.00 3.95
3384 7177 2.204151 CAGGGTCCAGGGAAGGGT 60.204 66.667 0.00 0.00 0.00 4.34
3385 7178 2.125225 AGGGTCCAGGGAAGGGTC 59.875 66.667 0.00 0.00 0.00 4.46
3386 7179 3.015753 GGGTCCAGGGAAGGGTCC 61.016 72.222 0.00 0.00 44.10 4.46
3387 7180 3.400054 GGTCCAGGGAAGGGTCCG 61.400 72.222 0.00 0.00 46.04 4.79
3388 7181 2.284405 GTCCAGGGAAGGGTCCGA 60.284 66.667 0.00 0.00 46.04 4.55
3389 7182 2.284405 TCCAGGGAAGGGTCCGAC 60.284 66.667 0.00 0.00 46.04 4.79
3390 7183 3.400054 CCAGGGAAGGGTCCGACC 61.400 72.222 9.30 9.30 46.04 4.79
3391 7184 2.606519 CAGGGAAGGGTCCGACCA 60.607 66.667 19.43 0.00 46.04 4.02
3392 7185 2.606826 AGGGAAGGGTCCGACCAC 60.607 66.667 19.43 8.70 46.04 4.16
3393 7186 2.606826 GGGAAGGGTCCGACCACT 60.607 66.667 19.43 10.80 46.04 4.00
3394 7187 2.222013 GGGAAGGGTCCGACCACTT 61.222 63.158 19.43 17.88 46.04 3.16
3395 7188 1.759236 GGAAGGGTCCGACCACTTT 59.241 57.895 19.43 9.96 41.02 2.66
3396 7189 0.605589 GGAAGGGTCCGACCACTTTG 60.606 60.000 19.43 0.00 41.02 2.77
3397 7190 0.605589 GAAGGGTCCGACCACTTTGG 60.606 60.000 19.43 0.00 41.02 3.28
3398 7191 2.033602 GGGTCCGACCACTTTGGG 59.966 66.667 19.43 0.00 43.37 4.12
3399 7192 2.826003 GGGTCCGACCACTTTGGGT 61.826 63.158 19.43 0.00 43.37 4.51
3409 7202 4.996788 ACCACTTTGGGTCTATAGTACG 57.003 45.455 0.00 0.00 43.37 3.67
3410 7203 3.131755 ACCACTTTGGGTCTATAGTACGC 59.868 47.826 0.00 6.13 43.37 4.42
3411 7204 3.131577 CCACTTTGGGTCTATAGTACGCA 59.868 47.826 13.98 13.98 37.94 5.24
3412 7205 4.360563 CACTTTGGGTCTATAGTACGCAG 58.639 47.826 16.00 11.29 40.36 5.18
3413 7206 3.181478 ACTTTGGGTCTATAGTACGCAGC 60.181 47.826 16.00 2.07 40.36 5.25
3414 7207 2.061509 TGGGTCTATAGTACGCAGCA 57.938 50.000 13.98 0.00 35.18 4.41
3415 7208 2.594131 TGGGTCTATAGTACGCAGCAT 58.406 47.619 13.98 0.00 35.18 3.79
3416 7209 2.963101 TGGGTCTATAGTACGCAGCATT 59.037 45.455 13.98 0.00 35.18 3.56
3417 7210 3.386726 TGGGTCTATAGTACGCAGCATTT 59.613 43.478 13.98 0.00 35.18 2.32
3418 7211 3.988517 GGGTCTATAGTACGCAGCATTTC 59.011 47.826 0.00 0.00 0.00 2.17
3419 7212 3.988517 GGTCTATAGTACGCAGCATTTCC 59.011 47.826 0.00 0.00 0.00 3.13
3420 7213 3.988517 GTCTATAGTACGCAGCATTTCCC 59.011 47.826 0.00 0.00 0.00 3.97
3421 7214 3.895656 TCTATAGTACGCAGCATTTCCCT 59.104 43.478 0.00 0.00 0.00 4.20
3422 7215 5.048224 GTCTATAGTACGCAGCATTTCCCTA 60.048 44.000 0.00 0.00 0.00 3.53
3423 7216 2.311124 AGTACGCAGCATTTCCCTAC 57.689 50.000 0.00 0.00 0.00 3.18
3424 7217 1.553248 AGTACGCAGCATTTCCCTACA 59.447 47.619 0.00 0.00 0.00 2.74
3425 7218 2.170607 AGTACGCAGCATTTCCCTACAT 59.829 45.455 0.00 0.00 0.00 2.29
3426 7219 2.128771 ACGCAGCATTTCCCTACATT 57.871 45.000 0.00 0.00 0.00 2.71
3427 7220 2.446435 ACGCAGCATTTCCCTACATTT 58.554 42.857 0.00 0.00 0.00 2.32
3428 7221 2.423538 ACGCAGCATTTCCCTACATTTC 59.576 45.455 0.00 0.00 0.00 2.17
3429 7222 2.684881 CGCAGCATTTCCCTACATTTCT 59.315 45.455 0.00 0.00 0.00 2.52
3430 7223 3.876914 CGCAGCATTTCCCTACATTTCTA 59.123 43.478 0.00 0.00 0.00 2.10
3431 7224 4.516698 CGCAGCATTTCCCTACATTTCTAT 59.483 41.667 0.00 0.00 0.00 1.98
3432 7225 5.700832 CGCAGCATTTCCCTACATTTCTATA 59.299 40.000 0.00 0.00 0.00 1.31
3433 7226 6.204688 CGCAGCATTTCCCTACATTTCTATAA 59.795 38.462 0.00 0.00 0.00 0.98
3434 7227 7.571983 CGCAGCATTTCCCTACATTTCTATAAG 60.572 40.741 0.00 0.00 0.00 1.73
3435 7228 7.445402 GCAGCATTTCCCTACATTTCTATAAGA 59.555 37.037 0.00 0.00 0.00 2.10
3436 7229 8.997323 CAGCATTTCCCTACATTTCTATAAGAG 58.003 37.037 0.00 0.00 0.00 2.85
3437 7230 8.160106 AGCATTTCCCTACATTTCTATAAGAGG 58.840 37.037 0.00 0.00 0.00 3.69
3438 7231 7.094592 GCATTTCCCTACATTTCTATAAGAGGC 60.095 40.741 0.00 0.00 0.00 4.70
3439 7232 7.691993 TTTCCCTACATTTCTATAAGAGGCT 57.308 36.000 0.00 0.00 0.00 4.58
3440 7233 6.672266 TCCCTACATTTCTATAAGAGGCTG 57.328 41.667 0.00 0.00 0.00 4.85
3441 7234 6.143915 TCCCTACATTTCTATAAGAGGCTGT 58.856 40.000 0.00 0.00 0.00 4.40
3442 7235 6.615726 TCCCTACATTTCTATAAGAGGCTGTT 59.384 38.462 1.39 1.39 0.00 3.16
3443 7236 7.127339 TCCCTACATTTCTATAAGAGGCTGTTT 59.873 37.037 0.90 0.00 0.00 2.83
3444 7237 7.442666 CCCTACATTTCTATAAGAGGCTGTTTC 59.557 40.741 0.90 0.00 0.00 2.78
3445 7238 7.442666 CCTACATTTCTATAAGAGGCTGTTTCC 59.557 40.741 0.90 0.00 0.00 3.13
3446 7239 6.721318 ACATTTCTATAAGAGGCTGTTTCCA 58.279 36.000 0.90 0.00 0.00 3.53
3447 7240 6.825721 ACATTTCTATAAGAGGCTGTTTCCAG 59.174 38.462 0.90 0.00 41.91 3.86
3448 7241 5.359194 TTCTATAAGAGGCTGTTTCCAGG 57.641 43.478 0.90 0.00 39.22 4.45
3449 7242 4.620723 TCTATAAGAGGCTGTTTCCAGGA 58.379 43.478 0.90 0.00 39.22 3.86
3450 7243 3.636153 ATAAGAGGCTGTTTCCAGGAC 57.364 47.619 0.90 0.00 39.22 3.85
3451 7244 1.439543 AAGAGGCTGTTTCCAGGACT 58.560 50.000 0.00 0.00 39.22 3.85
3452 7245 1.439543 AGAGGCTGTTTCCAGGACTT 58.560 50.000 0.00 0.00 39.22 3.01
3453 7246 1.072965 AGAGGCTGTTTCCAGGACTTG 59.927 52.381 0.00 0.00 39.22 3.16
3454 7247 1.072331 GAGGCTGTTTCCAGGACTTGA 59.928 52.381 0.00 0.00 39.22 3.02
3455 7248 1.494721 AGGCTGTTTCCAGGACTTGAA 59.505 47.619 0.00 0.00 39.22 2.69
3456 7249 1.609072 GGCTGTTTCCAGGACTTGAAC 59.391 52.381 0.00 0.00 39.22 3.18
3457 7250 1.609072 GCTGTTTCCAGGACTTGAACC 59.391 52.381 0.00 0.00 39.22 3.62
3458 7251 2.230660 CTGTTTCCAGGACTTGAACCC 58.769 52.381 0.00 0.00 34.90 4.11
3459 7252 1.566703 TGTTTCCAGGACTTGAACCCA 59.433 47.619 0.00 0.00 0.00 4.51
3460 7253 2.176798 TGTTTCCAGGACTTGAACCCAT 59.823 45.455 0.00 0.00 0.00 4.00
3461 7254 2.558359 GTTTCCAGGACTTGAACCCATG 59.442 50.000 0.00 0.00 0.00 3.66
3462 7255 1.741028 TCCAGGACTTGAACCCATGA 58.259 50.000 0.00 0.00 0.00 3.07
3463 7256 1.351017 TCCAGGACTTGAACCCATGAC 59.649 52.381 0.00 0.00 0.00 3.06
3464 7257 1.614317 CCAGGACTTGAACCCATGACC 60.614 57.143 0.00 0.00 34.29 4.02
3465 7258 1.352352 CAGGACTTGAACCCATGACCT 59.648 52.381 0.00 0.00 40.96 3.85
3466 7259 1.630878 AGGACTTGAACCCATGACCTC 59.369 52.381 0.00 0.00 37.82 3.85
3467 7260 1.351017 GGACTTGAACCCATGACCTCA 59.649 52.381 0.00 0.00 32.45 3.86
3468 7261 2.025887 GGACTTGAACCCATGACCTCAT 60.026 50.000 0.00 0.00 36.96 2.90
3480 7273 2.154139 ACCTCATGGTCACAAGGCA 58.846 52.632 0.00 0.00 44.78 4.75
3481 7274 0.037303 ACCTCATGGTCACAAGGCAG 59.963 55.000 0.00 0.00 44.78 4.85
3482 7275 1.310933 CCTCATGGTCACAAGGCAGC 61.311 60.000 0.00 0.00 0.00 5.25
3483 7276 0.607217 CTCATGGTCACAAGGCAGCA 60.607 55.000 0.00 0.00 0.00 4.41
3484 7277 0.607217 TCATGGTCACAAGGCAGCAG 60.607 55.000 0.00 0.00 0.00 4.24
3485 7278 1.975407 ATGGTCACAAGGCAGCAGC 60.975 57.895 0.00 0.00 41.10 5.25
3486 7279 2.282040 GGTCACAAGGCAGCAGCT 60.282 61.111 0.00 0.00 41.70 4.24
3487 7280 1.900498 GGTCACAAGGCAGCAGCTT 60.900 57.895 0.00 0.00 41.70 3.74
3488 7281 1.458639 GGTCACAAGGCAGCAGCTTT 61.459 55.000 0.00 0.00 41.17 3.51
3489 7282 1.238439 GTCACAAGGCAGCAGCTTTA 58.762 50.000 0.00 0.00 38.07 1.85
3490 7283 1.068954 GTCACAAGGCAGCAGCTTTAC 60.069 52.381 0.00 0.00 38.07 2.01
3491 7284 0.242017 CACAAGGCAGCAGCTTTACC 59.758 55.000 0.00 0.00 38.07 2.85
3492 7285 0.178992 ACAAGGCAGCAGCTTTACCA 60.179 50.000 0.00 0.00 38.07 3.25
3493 7286 0.242017 CAAGGCAGCAGCTTTACCAC 59.758 55.000 0.00 0.00 38.07 4.16
3494 7287 0.111253 AAGGCAGCAGCTTTACCACT 59.889 50.000 0.00 0.00 38.40 4.00
3495 7288 0.607489 AGGCAGCAGCTTTACCACTG 60.607 55.000 0.00 0.00 41.70 3.66
3499 7292 2.870372 CAGCTTTACCACTGCGCC 59.130 61.111 4.18 0.00 0.00 6.53
3500 7293 1.965930 CAGCTTTACCACTGCGCCA 60.966 57.895 4.18 0.00 0.00 5.69
3501 7294 1.228124 AGCTTTACCACTGCGCCAA 60.228 52.632 4.18 0.00 0.00 4.52
3502 7295 1.210155 GCTTTACCACTGCGCCAAG 59.790 57.895 4.18 0.00 0.00 3.61
3503 7296 1.875963 CTTTACCACTGCGCCAAGG 59.124 57.895 4.18 6.21 0.00 3.61
3504 7297 2.200170 CTTTACCACTGCGCCAAGGC 62.200 60.000 4.18 0.00 37.85 4.35
3505 7298 2.690653 TTTACCACTGCGCCAAGGCT 62.691 55.000 4.18 0.00 39.32 4.58
3506 7299 3.605749 TACCACTGCGCCAAGGCTC 62.606 63.158 4.18 1.20 39.32 4.70
3518 7311 2.123632 AGGCTCCCCTTCTGCTCA 59.876 61.111 0.00 0.00 38.74 4.26
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 3.391296 CACTAGTCTCTAGGAGCCTCTCT 59.609 52.174 0.00 0.00 0.00 3.10
12 13 5.986501 AACAAACCACTAGTCTCTAGGAG 57.013 43.478 3.32 2.47 0.00 3.69
24 25 0.481128 CCCACCCCTAACAAACCACT 59.519 55.000 0.00 0.00 0.00 4.00
25 26 1.183030 GCCCACCCCTAACAAACCAC 61.183 60.000 0.00 0.00 0.00 4.16
46 47 9.337091 CTTAATTTAACCTTTTGTATCACGGTG 57.663 33.333 0.56 0.56 0.00 4.94
58 59 6.602009 CCGATGTCTCCCTTAATTTAACCTTT 59.398 38.462 0.00 0.00 0.00 3.11
68 69 1.108776 CGGTCCGATGTCTCCCTTAA 58.891 55.000 4.91 0.00 0.00 1.85
70 71 0.397254 ATCGGTCCGATGTCTCCCTT 60.397 55.000 25.86 0.00 45.24 3.95
71 72 1.230497 ATCGGTCCGATGTCTCCCT 59.770 57.895 25.86 0.00 45.24 4.20
72 73 3.857764 ATCGGTCCGATGTCTCCC 58.142 61.111 25.86 0.00 45.24 4.30
82 83 4.592485 ACAATAGATCAGTCATCGGTCC 57.408 45.455 0.00 0.00 36.50 4.46
144 145 5.003160 AGTGATTGAATCGGAATGTCACAA 58.997 37.500 0.18 0.00 37.53 3.33
148 149 6.092122 TGTTACAGTGATTGAATCGGAATGTC 59.908 38.462 0.00 0.00 0.00 3.06
284 285 4.397417 CCTCTTGCAGAAATGTAGGGAAAG 59.603 45.833 0.00 0.00 0.00 2.62
308 309 2.567985 GGGTTCGAGTCCTGAAAACAA 58.432 47.619 8.28 0.00 0.00 2.83
317 318 2.210341 GAGGTCACGGGTTCGAGTCC 62.210 65.000 0.82 0.82 40.11 3.85
459 476 8.971073 ACCATTCCTATGAAAATTCTACAAAGG 58.029 33.333 0.00 0.00 33.32 3.11
465 482 9.753674 AGAACAACCATTCCTATGAAAATTCTA 57.246 29.630 0.00 0.00 33.32 2.10
470 487 7.831691 TGAAGAACAACCATTCCTATGAAAA 57.168 32.000 0.00 0.00 33.32 2.29
511 528 5.177511 CACTGTAACACTGATGAAACATCGT 59.822 40.000 7.14 5.66 0.00 3.73
512 529 5.177511 ACACTGTAACACTGATGAAACATCG 59.822 40.000 7.14 5.15 0.00 3.84
600 624 5.302360 TGGTGATTTGGTAGACAAGTGTAC 58.698 41.667 0.00 0.00 40.82 2.90
646 670 6.540914 TGTTTCGGTCTTCATTTCTAGTGTTT 59.459 34.615 0.00 0.00 0.00 2.83
672 696 2.311463 AGCGTGCTATGTCCTATGTCT 58.689 47.619 0.00 0.00 0.00 3.41
681 705 2.472695 TCTTCCAAAGCGTGCTATGT 57.527 45.000 0.00 0.00 0.00 2.29
690 714 9.643693 TCAAATCATCTAATTTTCTTCCAAAGC 57.356 29.630 0.00 0.00 0.00 3.51
705 729 8.383175 AGTAACTCCAAAGGTTCAAATCATCTA 58.617 33.333 0.00 0.00 0.00 1.98
715 739 8.095169 TCTTCTATCAAGTAACTCCAAAGGTTC 58.905 37.037 0.00 0.00 0.00 3.62
750 933 2.223782 GGCATTGTGTTCAACTGCTTCA 60.224 45.455 0.07 0.00 37.75 3.02
762 945 1.078426 GAGCTACCCGGCATTGTGT 60.078 57.895 0.00 0.00 34.17 3.72
763 946 1.819632 GGAGCTACCCGGCATTGTG 60.820 63.158 0.00 0.00 34.17 3.33
764 947 2.590092 GGAGCTACCCGGCATTGT 59.410 61.111 0.00 0.00 34.17 2.71
793 976 1.943968 GCTGGGTTGTTAGACGATGCA 60.944 52.381 0.00 0.00 0.00 3.96
832 1015 1.608283 GGTGGTTTCTGGGAGAGAACG 60.608 57.143 0.00 0.00 40.60 3.95
838 1021 1.068121 AGAAGGGTGGTTTCTGGGAG 58.932 55.000 0.00 0.00 33.79 4.30
875 1058 6.183361 TGGTTTATATAGTAGGAGGATGGGGT 60.183 42.308 0.00 0.00 0.00 4.95
878 1061 6.156429 GGGTGGTTTATATAGTAGGAGGATGG 59.844 46.154 0.00 0.00 0.00 3.51
1024 1211 1.073763 ACAGACAAGGCATAGCACCAA 59.926 47.619 0.00 0.00 0.00 3.67
1432 1713 1.852965 AGGACAAGGTTCCCCATATGG 59.147 52.381 15.41 15.41 36.12 2.74
1669 1984 3.931907 TTCCTTGGATCAGGTACATGG 57.068 47.619 7.81 0.00 37.32 3.66
1686 2001 8.811378 GGTACATACAACGAAATAGTAGTTTCC 58.189 37.037 0.00 0.00 35.23 3.13
1799 2118 3.553715 CCTTCTCGCTGATTATGCTGCTA 60.554 47.826 0.00 0.00 0.00 3.49
1809 2128 0.909610 TTGGACCCCTTCTCGCTGAT 60.910 55.000 0.00 0.00 0.00 2.90
1850 2169 1.731969 GTCAACGACCTCGAACCCG 60.732 63.158 0.78 0.00 43.02 5.28
1988 2307 7.483307 ACGCATTGTTTAATTCATGCTATCTT 58.517 30.769 10.06 0.00 33.32 2.40
1997 2316 6.751514 ATACTGGACGCATTGTTTAATTCA 57.248 33.333 0.00 0.00 0.00 2.57
2012 2331 5.710099 TCCCAAAGAATCACAAATACTGGAC 59.290 40.000 0.00 0.00 0.00 4.02
2013 2332 5.710099 GTCCCAAAGAATCACAAATACTGGA 59.290 40.000 0.00 0.00 0.00 3.86
2655 6446 2.665165 TCCCACACAATTCAGCACTTT 58.335 42.857 0.00 0.00 0.00 2.66
2673 6464 2.094234 ACAAAATATGGCGCCAACTTCC 60.094 45.455 36.33 0.84 0.00 3.46
2724 6515 7.814107 ACATAACACAAATGATCAAGCGATTTT 59.186 29.630 0.00 0.00 29.66 1.82
2873 6664 4.941263 GCTGTTGAACAATAGGTGGATGTA 59.059 41.667 11.86 0.00 31.27 2.29
3210 7003 5.005740 TCATCAAAAGATAACACAGCTGCT 58.994 37.500 15.27 0.00 0.00 4.24
3246 7039 2.041485 TCCAGTTTGATTGGCATCCTGA 59.959 45.455 0.00 0.00 35.62 3.86
3263 7056 2.149578 CCTCACTTGCTCTTGTTCCAG 58.850 52.381 0.00 0.00 0.00 3.86
3327 7120 2.048222 CAGGTTGCGCTCTTCCGA 60.048 61.111 9.73 0.00 0.00 4.55
3328 7121 3.121030 CCAGGTTGCGCTCTTCCG 61.121 66.667 9.73 2.93 0.00 4.30
3329 7122 2.032681 ACCAGGTTGCGCTCTTCC 59.967 61.111 9.73 5.78 0.00 3.46
3330 7123 2.970974 GCACCAGGTTGCGCTCTTC 61.971 63.158 9.73 0.00 31.51 2.87
3331 7124 2.980233 GCACCAGGTTGCGCTCTT 60.980 61.111 9.73 0.00 31.51 2.85
3332 7125 3.557903 ATGCACCAGGTTGCGCTCT 62.558 57.895 9.73 0.11 46.20 4.09
3333 7126 3.058160 ATGCACCAGGTTGCGCTC 61.058 61.111 9.73 1.18 46.20 5.03
3334 7127 2.746412 TACATGCACCAGGTTGCGCT 62.746 55.000 9.73 0.00 46.20 5.92
3335 7128 2.257286 CTACATGCACCAGGTTGCGC 62.257 60.000 0.00 0.00 46.20 6.09
3336 7129 1.796151 CTACATGCACCAGGTTGCG 59.204 57.895 8.84 0.44 46.20 4.85
3337 7130 0.962356 AGCTACATGCACCAGGTTGC 60.962 55.000 8.03 8.03 44.17 4.17
3338 7131 1.089920 GAGCTACATGCACCAGGTTG 58.910 55.000 0.00 0.00 45.94 3.77
3339 7132 3.558674 GAGCTACATGCACCAGGTT 57.441 52.632 0.00 0.00 45.94 3.50
3364 7157 4.785453 CTTCCCTGGACCCTGCGC 62.785 72.222 0.00 0.00 0.00 6.09
3365 7158 4.101448 CCTTCCCTGGACCCTGCG 62.101 72.222 0.00 0.00 0.00 5.18
3366 7159 3.732849 CCCTTCCCTGGACCCTGC 61.733 72.222 0.00 0.00 0.00 4.85
3367 7160 2.204151 ACCCTTCCCTGGACCCTG 60.204 66.667 0.00 0.00 0.00 4.45
3368 7161 2.125225 GACCCTTCCCTGGACCCT 59.875 66.667 0.00 0.00 0.00 4.34
3369 7162 3.015753 GGACCCTTCCCTGGACCC 61.016 72.222 0.00 0.00 35.57 4.46
3370 7163 3.400054 CGGACCCTTCCCTGGACC 61.400 72.222 0.00 0.00 38.99 4.46
3371 7164 2.284405 TCGGACCCTTCCCTGGAC 60.284 66.667 0.00 0.00 38.99 4.02
3372 7165 2.284405 GTCGGACCCTTCCCTGGA 60.284 66.667 0.00 0.00 38.99 3.86
3373 7166 3.400054 GGTCGGACCCTTCCCTGG 61.400 72.222 16.55 0.00 38.99 4.45
3374 7167 2.606519 TGGTCGGACCCTTCCCTG 60.607 66.667 23.81 0.00 38.99 4.45
3375 7168 2.606826 GTGGTCGGACCCTTCCCT 60.607 66.667 23.81 0.00 38.99 4.20
3376 7169 1.775934 AAAGTGGTCGGACCCTTCCC 61.776 60.000 23.81 7.17 38.99 3.97
3377 7170 0.605589 CAAAGTGGTCGGACCCTTCC 60.606 60.000 23.81 9.51 37.50 3.46
3378 7171 0.605589 CCAAAGTGGTCGGACCCTTC 60.606 60.000 23.81 13.97 37.50 3.46
3379 7172 1.454539 CCAAAGTGGTCGGACCCTT 59.545 57.895 23.81 21.08 37.50 3.95
3380 7173 2.526046 CCCAAAGTGGTCGGACCCT 61.526 63.158 23.81 16.82 37.50 4.34
3381 7174 2.033602 CCCAAAGTGGTCGGACCC 59.966 66.667 23.81 14.91 37.50 4.46
3382 7175 1.302271 GACCCAAAGTGGTCGGACC 60.302 63.158 20.36 20.36 44.98 4.46
3383 7176 4.373771 GACCCAAAGTGGTCGGAC 57.626 61.111 0.00 0.00 44.98 4.79
3388 7181 3.131755 GCGTACTATAGACCCAAAGTGGT 59.868 47.826 6.78 0.00 42.79 4.16
3389 7182 3.131577 TGCGTACTATAGACCCAAAGTGG 59.868 47.826 6.78 0.00 37.25 4.00
3390 7183 4.360563 CTGCGTACTATAGACCCAAAGTG 58.639 47.826 6.78 0.00 0.00 3.16
3391 7184 3.181478 GCTGCGTACTATAGACCCAAAGT 60.181 47.826 6.78 0.00 0.00 2.66
3392 7185 3.181479 TGCTGCGTACTATAGACCCAAAG 60.181 47.826 6.78 0.00 0.00 2.77
3393 7186 2.761767 TGCTGCGTACTATAGACCCAAA 59.238 45.455 6.78 0.00 0.00 3.28
3394 7187 2.380941 TGCTGCGTACTATAGACCCAA 58.619 47.619 6.78 0.00 0.00 4.12
3395 7188 2.061509 TGCTGCGTACTATAGACCCA 57.938 50.000 6.78 0.00 0.00 4.51
3396 7189 3.662247 AATGCTGCGTACTATAGACCC 57.338 47.619 6.78 0.00 0.00 4.46
3397 7190 3.988517 GGAAATGCTGCGTACTATAGACC 59.011 47.826 6.78 0.00 0.00 3.85
3398 7191 3.988517 GGGAAATGCTGCGTACTATAGAC 59.011 47.826 6.78 0.00 0.00 2.59
3399 7192 3.895656 AGGGAAATGCTGCGTACTATAGA 59.104 43.478 6.78 0.00 0.00 1.98
3400 7193 4.258702 AGGGAAATGCTGCGTACTATAG 57.741 45.455 0.00 0.00 0.00 1.31
3401 7194 4.585581 TGTAGGGAAATGCTGCGTACTATA 59.414 41.667 0.00 0.00 37.55 1.31
3402 7195 3.386726 TGTAGGGAAATGCTGCGTACTAT 59.613 43.478 0.00 0.00 37.55 2.12
3403 7196 2.761767 TGTAGGGAAATGCTGCGTACTA 59.238 45.455 0.00 0.00 37.55 1.82
3404 7197 1.553248 TGTAGGGAAATGCTGCGTACT 59.447 47.619 0.00 0.00 37.55 2.73
3405 7198 2.018542 TGTAGGGAAATGCTGCGTAC 57.981 50.000 0.00 0.00 37.28 3.67
3406 7199 3.275617 AATGTAGGGAAATGCTGCGTA 57.724 42.857 0.00 0.00 0.00 4.42
3407 7200 2.128771 AATGTAGGGAAATGCTGCGT 57.871 45.000 0.00 0.00 0.00 5.24
3408 7201 2.684881 AGAAATGTAGGGAAATGCTGCG 59.315 45.455 0.00 0.00 0.00 5.18
3409 7202 7.445402 TCTTATAGAAATGTAGGGAAATGCTGC 59.555 37.037 0.00 0.00 0.00 5.25
3410 7203 8.908786 TCTTATAGAAATGTAGGGAAATGCTG 57.091 34.615 0.00 0.00 0.00 4.41
3411 7204 8.160106 CCTCTTATAGAAATGTAGGGAAATGCT 58.840 37.037 0.00 0.00 0.00 3.79
3412 7205 7.094592 GCCTCTTATAGAAATGTAGGGAAATGC 60.095 40.741 0.00 0.00 0.00 3.56
3413 7206 8.160106 AGCCTCTTATAGAAATGTAGGGAAATG 58.840 37.037 0.00 0.00 0.00 2.32
3414 7207 8.160106 CAGCCTCTTATAGAAATGTAGGGAAAT 58.840 37.037 0.00 0.00 0.00 2.17
3415 7208 7.127339 ACAGCCTCTTATAGAAATGTAGGGAAA 59.873 37.037 0.00 0.00 0.00 3.13
3416 7209 6.615726 ACAGCCTCTTATAGAAATGTAGGGAA 59.384 38.462 0.00 0.00 0.00 3.97
3417 7210 6.143915 ACAGCCTCTTATAGAAATGTAGGGA 58.856 40.000 0.00 0.00 0.00 4.20
3418 7211 6.426646 ACAGCCTCTTATAGAAATGTAGGG 57.573 41.667 0.00 0.00 0.00 3.53
3419 7212 7.442666 GGAAACAGCCTCTTATAGAAATGTAGG 59.557 40.741 0.00 0.00 0.00 3.18
3420 7213 7.987458 TGGAAACAGCCTCTTATAGAAATGTAG 59.013 37.037 0.00 0.00 35.01 2.74
3421 7214 7.857456 TGGAAACAGCCTCTTATAGAAATGTA 58.143 34.615 0.00 0.00 35.01 2.29
3422 7215 6.721318 TGGAAACAGCCTCTTATAGAAATGT 58.279 36.000 0.00 0.00 35.01 2.71
3439 7232 1.566703 TGGGTTCAAGTCCTGGAAACA 59.433 47.619 0.00 0.00 32.36 2.83
3440 7233 2.358322 TGGGTTCAAGTCCTGGAAAC 57.642 50.000 0.00 0.00 0.00 2.78
3441 7234 2.445145 TCATGGGTTCAAGTCCTGGAAA 59.555 45.455 0.00 0.00 0.00 3.13
3442 7235 2.061848 TCATGGGTTCAAGTCCTGGAA 58.938 47.619 0.00 0.00 0.00 3.53
3443 7236 1.351017 GTCATGGGTTCAAGTCCTGGA 59.649 52.381 0.00 0.00 0.00 3.86
3444 7237 1.614317 GGTCATGGGTTCAAGTCCTGG 60.614 57.143 0.00 0.00 0.00 4.45
3445 7238 1.352352 AGGTCATGGGTTCAAGTCCTG 59.648 52.381 0.00 0.00 0.00 3.86
3446 7239 1.630878 GAGGTCATGGGTTCAAGTCCT 59.369 52.381 0.00 0.00 0.00 3.85
3447 7240 1.351017 TGAGGTCATGGGTTCAAGTCC 59.649 52.381 0.00 0.00 0.00 3.85
3448 7241 2.859165 TGAGGTCATGGGTTCAAGTC 57.141 50.000 0.00 0.00 0.00 3.01
3463 7256 1.310933 GCTGCCTTGTGACCATGAGG 61.311 60.000 0.00 0.00 42.21 3.86
3464 7257 0.607217 TGCTGCCTTGTGACCATGAG 60.607 55.000 0.00 0.00 0.00 2.90
3465 7258 0.607217 CTGCTGCCTTGTGACCATGA 60.607 55.000 0.00 0.00 0.00 3.07
3466 7259 1.880894 CTGCTGCCTTGTGACCATG 59.119 57.895 0.00 0.00 0.00 3.66
3467 7260 1.975407 GCTGCTGCCTTGTGACCAT 60.975 57.895 3.85 0.00 0.00 3.55
3468 7261 2.595463 GCTGCTGCCTTGTGACCA 60.595 61.111 3.85 0.00 0.00 4.02
3469 7262 1.458639 AAAGCTGCTGCCTTGTGACC 61.459 55.000 12.44 0.00 40.80 4.02
3470 7263 1.068954 GTAAAGCTGCTGCCTTGTGAC 60.069 52.381 12.44 0.00 40.80 3.67
3471 7264 1.238439 GTAAAGCTGCTGCCTTGTGA 58.762 50.000 12.44 0.00 40.80 3.58
3472 7265 0.242017 GGTAAAGCTGCTGCCTTGTG 59.758 55.000 12.44 0.00 40.80 3.33
3473 7266 0.178992 TGGTAAAGCTGCTGCCTTGT 60.179 50.000 12.44 0.00 40.80 3.16
3474 7267 0.242017 GTGGTAAAGCTGCTGCCTTG 59.758 55.000 12.44 0.00 40.80 3.61
3475 7268 0.111253 AGTGGTAAAGCTGCTGCCTT 59.889 50.000 12.44 8.34 40.80 4.35
3476 7269 0.607489 CAGTGGTAAAGCTGCTGCCT 60.607 55.000 12.44 2.45 40.80 4.75
3477 7270 1.878775 CAGTGGTAAAGCTGCTGCC 59.121 57.895 12.44 7.07 40.80 4.85
3482 7275 1.514678 TTGGCGCAGTGGTAAAGCTG 61.515 55.000 10.83 0.00 35.93 4.24
3483 7276 1.228124 TTGGCGCAGTGGTAAAGCT 60.228 52.632 10.83 0.00 0.00 3.74
3484 7277 1.210155 CTTGGCGCAGTGGTAAAGC 59.790 57.895 10.83 0.00 0.00 3.51
3485 7278 1.875963 CCTTGGCGCAGTGGTAAAG 59.124 57.895 10.83 0.71 0.00 1.85
3486 7279 2.265182 GCCTTGGCGCAGTGGTAAA 61.265 57.895 10.83 0.00 0.00 2.01
3487 7280 2.671619 GCCTTGGCGCAGTGGTAA 60.672 61.111 10.83 0.00 0.00 2.85
3488 7281 3.605749 GAGCCTTGGCGCAGTGGTA 62.606 63.158 10.83 0.00 0.00 3.25
3496 7289 3.721706 AGAAGGGGAGCCTTGGCG 61.722 66.667 5.95 0.00 0.00 5.69
3497 7290 2.044551 CAGAAGGGGAGCCTTGGC 60.045 66.667 2.97 2.97 0.00 4.52
3498 7291 2.044551 GCAGAAGGGGAGCCTTGG 60.045 66.667 0.00 0.00 0.00 3.61
3499 7292 1.077858 GAGCAGAAGGGGAGCCTTG 60.078 63.158 0.00 0.00 0.00 3.61
3500 7293 0.918310 ATGAGCAGAAGGGGAGCCTT 60.918 55.000 0.00 0.00 0.00 4.35
3501 7294 1.307691 ATGAGCAGAAGGGGAGCCT 60.308 57.895 0.00 0.00 0.00 4.58
3502 7295 1.148048 GATGAGCAGAAGGGGAGCC 59.852 63.158 0.00 0.00 0.00 4.70
3503 7296 1.227497 CGATGAGCAGAAGGGGAGC 60.227 63.158 0.00 0.00 0.00 4.70
3504 7297 1.045350 TCCGATGAGCAGAAGGGGAG 61.045 60.000 0.00 0.00 0.00 4.30
3505 7298 0.617535 TTCCGATGAGCAGAAGGGGA 60.618 55.000 0.00 0.00 0.00 4.81
3506 7299 0.179062 CTTCCGATGAGCAGAAGGGG 60.179 60.000 0.00 0.00 34.63 4.79
3507 7300 0.826715 TCTTCCGATGAGCAGAAGGG 59.173 55.000 0.00 0.00 38.03 3.95
3508 7301 2.222007 CTCTTCCGATGAGCAGAAGG 57.778 55.000 0.00 0.00 38.03 3.46
3515 7308 1.664659 CTTGCTTGCTCTTCCGATGAG 59.335 52.381 6.88 6.88 34.87 2.90
3516 7309 1.676916 CCTTGCTTGCTCTTCCGATGA 60.677 52.381 0.00 0.00 0.00 2.92
3517 7310 0.731417 CCTTGCTTGCTCTTCCGATG 59.269 55.000 0.00 0.00 0.00 3.84
3518 7311 0.615331 TCCTTGCTTGCTCTTCCGAT 59.385 50.000 0.00 0.00 0.00 4.18


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

AutoCloner maintained by Alex Coulton.