Multiple sequence alignment - TraesCS5D01G310300

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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 TraesCS5D01G310300 chr5D 100.000 6414 0 0 1 6414 407007713 407014126 0.000000e+00 11845.0
1 TraesCS5D01G310300 chr5D 89.058 2038 183 29 1535 3558 458108603 458110614 0.000000e+00 2492.0
2 TraesCS5D01G310300 chr5D 86.975 1666 193 17 3768 5418 406972431 406974087 0.000000e+00 1853.0
3 TraesCS5D01G310300 chr5D 78.113 265 27 20 460 718 406970997 406971236 8.670000e-29 139.0
4 TraesCS5D01G310300 chr5D 72.447 421 99 17 3834 4244 373215566 373215979 1.130000e-22 119.0
5 TraesCS5D01G310300 chr5D 72.076 419 104 13 3834 4244 384143192 384143605 5.260000e-21 113.0
6 TraesCS5D01G310300 chr5B 96.260 4840 147 10 777 5610 488119979 488115168 0.000000e+00 7904.0
7 TraesCS5D01G310300 chr5B 89.305 2001 187 19 1534 3521 226435178 226437164 0.000000e+00 2484.0
8 TraesCS5D01G310300 chr5B 85.098 1322 160 24 4098 5403 488123934 488122634 0.000000e+00 1315.0
9 TraesCS5D01G310300 chr5B 86.345 1223 129 18 3763 4974 488181416 488180221 0.000000e+00 1299.0
10 TraesCS5D01G310300 chr5B 90.361 664 31 15 5658 6292 488115078 488114419 0.000000e+00 841.0
11 TraesCS5D01G310300 chr5B 91.250 480 23 6 54 531 488120951 488120489 2.520000e-178 636.0
12 TraesCS5D01G310300 chr5B 94.737 266 11 3 514 779 488120470 488120208 1.660000e-110 411.0
13 TraesCS5D01G310300 chr5B 78.085 470 50 32 256 718 488183245 488182822 1.380000e-61 248.0
14 TraesCS5D01G310300 chr5B 79.941 339 55 12 1314 1648 86550437 86550766 2.990000e-58 237.0
15 TraesCS5D01G310300 chr5B 84.360 211 31 2 4976 5185 488180059 488179850 8.430000e-49 206.0
16 TraesCS5D01G310300 chr5B 76.640 381 67 15 716 1079 488182613 488182238 2.360000e-44 191.0
17 TraesCS5D01G310300 chr5B 71.667 420 104 15 3834 4244 443290182 443290595 1.140000e-17 102.0
18 TraesCS5D01G310300 chr1D 89.849 2256 199 23 1313 3561 52740691 52738459 0.000000e+00 2870.0
19 TraesCS5D01G310300 chr1D 89.652 2242 204 11 1317 3556 318551628 318549413 0.000000e+00 2830.0
20 TraesCS5D01G310300 chr2D 89.481 2253 210 22 1313 3561 43277141 43279370 0.000000e+00 2822.0
21 TraesCS5D01G310300 chr5A 92.854 1973 83 18 4381 6303 512621805 512619841 0.000000e+00 2809.0
22 TraesCS5D01G310300 chr5A 87.541 1228 138 9 3768 4988 512628471 512627252 0.000000e+00 1406.0
23 TraesCS5D01G310300 chr5A 96.656 598 20 0 3790 4387 512622693 512622096 0.000000e+00 994.0
24 TraesCS5D01G310300 chr5A 89.052 749 46 12 55 792 512624112 512623389 0.000000e+00 896.0
25 TraesCS5D01G310300 chr5A 92.966 327 21 2 801 1125 512623077 512622751 5.820000e-130 475.0
26 TraesCS5D01G310300 chr5A 82.171 258 35 4 814 1061 512629341 512629085 1.810000e-50 211.0
27 TraesCS5D01G310300 chr5A 70.909 605 151 23 3834 4424 509126436 509125843 1.130000e-22 119.0
28 TraesCS5D01G310300 chr7D 88.642 2254 217 26 1319 3561 124639537 124641762 0.000000e+00 2708.0
29 TraesCS5D01G310300 chr4D 90.075 2005 186 12 1557 3556 348294894 348292898 0.000000e+00 2588.0
30 TraesCS5D01G310300 chr4D 88.802 2045 192 24 1536 3561 30308995 30306969 0.000000e+00 2473.0
31 TraesCS5D01G310300 chr4D 89.911 902 75 9 1314 2214 434963955 434964841 0.000000e+00 1147.0
32 TraesCS5D01G310300 chr3D 87.611 2252 221 30 1318 3558 398411943 398414147 0.000000e+00 2560.0
33 TraesCS5D01G310300 chr3D 88.248 936 94 6 1313 2246 374685579 374684658 0.000000e+00 1105.0
34 TraesCS5D01G310300 chrUn 100.000 411 0 0 4095 4505 477630991 477630581 0.000000e+00 760.0
35 TraesCS5D01G310300 chr2A 87.847 576 65 4 1317 1891 758913413 758912842 0.000000e+00 671.0
36 TraesCS5D01G310300 chr4B 91.935 62 1 2 3501 3560 397015450 397015391 4.120000e-12 84.2


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 TraesCS5D01G310300 chr5D 407007713 407014126 6413 False 11845.000000 11845 100.000000 1 6414 1 chr5D.!!$F3 6413
1 TraesCS5D01G310300 chr5D 458108603 458110614 2011 False 2492.000000 2492 89.058000 1535 3558 1 chr5D.!!$F4 2023
2 TraesCS5D01G310300 chr5D 406970997 406974087 3090 False 996.000000 1853 82.544000 460 5418 2 chr5D.!!$F5 4958
3 TraesCS5D01G310300 chr5B 226435178 226437164 1986 False 2484.000000 2484 89.305000 1534 3521 1 chr5B.!!$F2 1987
4 TraesCS5D01G310300 chr5B 488114419 488123934 9515 True 2221.400000 7904 91.541200 54 6292 5 chr5B.!!$R1 6238
5 TraesCS5D01G310300 chr5B 488179850 488183245 3395 True 486.000000 1299 81.357500 256 5185 4 chr5B.!!$R2 4929
6 TraesCS5D01G310300 chr1D 52738459 52740691 2232 True 2870.000000 2870 89.849000 1313 3561 1 chr1D.!!$R1 2248
7 TraesCS5D01G310300 chr1D 318549413 318551628 2215 True 2830.000000 2830 89.652000 1317 3556 1 chr1D.!!$R2 2239
8 TraesCS5D01G310300 chr2D 43277141 43279370 2229 False 2822.000000 2822 89.481000 1313 3561 1 chr2D.!!$F1 2248
9 TraesCS5D01G310300 chr5A 512619841 512629341 9500 True 1131.833333 2809 90.206667 55 6303 6 chr5A.!!$R2 6248
10 TraesCS5D01G310300 chr7D 124639537 124641762 2225 False 2708.000000 2708 88.642000 1319 3561 1 chr7D.!!$F1 2242
11 TraesCS5D01G310300 chr4D 348292898 348294894 1996 True 2588.000000 2588 90.075000 1557 3556 1 chr4D.!!$R2 1999
12 TraesCS5D01G310300 chr4D 30306969 30308995 2026 True 2473.000000 2473 88.802000 1536 3561 1 chr4D.!!$R1 2025
13 TraesCS5D01G310300 chr4D 434963955 434964841 886 False 1147.000000 1147 89.911000 1314 2214 1 chr4D.!!$F1 900
14 TraesCS5D01G310300 chr3D 398411943 398414147 2204 False 2560.000000 2560 87.611000 1318 3558 1 chr3D.!!$F1 2240
15 TraesCS5D01G310300 chr3D 374684658 374685579 921 True 1105.000000 1105 88.248000 1313 2246 1 chr3D.!!$R1 933
16 TraesCS5D01G310300 chr2A 758912842 758913413 571 True 671.000000 671 87.847000 1317 1891 1 chr2A.!!$R1 574

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
188 4314 0.036952 ACCATCGTCTGCTCACAAGG 60.037 55.000 0.00 0.0 0.00 3.61 F
980 5647 0.464554 GCCCTCCAGCAAGATGGTAC 60.465 60.000 4.07 0.0 41.43 3.34 F
1713 6442 0.524862 CAGCTGCATGTGAGTTTCCC 59.475 55.000 0.00 0.0 0.00 3.97 F
2247 6985 0.532573 GAGATCTTGTGAGGCCACGA 59.467 55.000 5.01 0.0 46.06 4.35 F
2864 7603 0.322816 AACACGGCAGCCAAGATCAT 60.323 50.000 13.30 0.0 0.00 2.45 F
2881 7620 1.025041 CATCTCCTCATCGTCGGACA 58.975 55.000 9.10 0.0 0.00 4.02 F
3267 8071 2.035626 CCAGAAATGGGTGGCGGT 59.964 61.111 0.00 0.0 0.00 5.68 F
5041 10794 2.116238 CATCTTTAGGGGTTCGAGGGA 58.884 52.381 0.00 0.0 0.00 4.20 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1962 6700 1.139095 GTGCTAGGAAGGACGTCGG 59.861 63.158 9.92 0.0 34.12 4.79 R
2744 7483 0.393537 AGAGAGCGGGCATTTCCTTG 60.394 55.000 0.00 0.0 34.39 3.61 R
2864 7603 1.095600 CTTGTCCGACGATGAGGAGA 58.904 55.000 0.00 0.0 37.18 3.71 R
3934 9130 0.977395 ACTGAAGGTGAGGCTGGTAC 59.023 55.000 0.00 0.0 0.00 3.34 R
3973 9169 5.455392 CATCCTTTTCACACACATCTTCAC 58.545 41.667 0.00 0.0 0.00 3.18 R
4984 10737 7.838696 ACATATGAATTGAAGGTTCCACCATAA 59.161 33.333 10.38 0.0 41.95 1.90 R
5289 16554 0.674895 ACGAGCTTCCAAGATGGCAC 60.675 55.000 0.00 0.0 37.47 5.01 R
6387 17739 0.180406 GGGTCTGTGACTTGTGTGGT 59.820 55.000 0.00 0.0 32.47 4.16 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
17 18 4.598257 AGATGTCAGTTTCGGCCG 57.402 55.556 22.12 22.12 0.00 6.13
18 19 1.079127 AGATGTCAGTTTCGGCCGG 60.079 57.895 27.83 8.93 0.00 6.13
20 21 1.359459 GATGTCAGTTTCGGCCGGTC 61.359 60.000 27.83 15.72 0.00 4.79
22 23 4.367023 TCAGTTTCGGCCGGTCGG 62.367 66.667 30.66 12.46 38.57 4.79
81 82 6.763303 AACCTTTCGTTATACGTAAAACGT 57.237 33.333 10.22 10.22 45.11 3.99
82 83 8.951954 TAACCTTTCGTTATACGTAAAACGTA 57.048 30.769 13.94 13.94 46.51 3.57
95 4221 4.784550 CGTAAAACGTAGCTTTGCCATAAC 59.215 41.667 0.00 0.00 36.74 1.89
171 4297 3.154589 CGTAGGGAGAAGCCAAACC 57.845 57.895 0.00 0.00 38.95 3.27
186 4312 1.872952 CAAACCATCGTCTGCTCACAA 59.127 47.619 0.00 0.00 0.00 3.33
188 4314 0.036952 ACCATCGTCTGCTCACAAGG 60.037 55.000 0.00 0.00 0.00 3.61
217 4345 4.347453 CCACTTGCAGCGGCCAAC 62.347 66.667 6.32 0.00 40.13 3.77
339 4472 0.781787 GGTGAAAAACAAATCGCGCC 59.218 50.000 0.00 0.00 0.00 6.53
348 4481 1.739929 AAATCGCGCCATCGACACA 60.740 52.632 0.00 0.00 41.62 3.72
388 4521 4.598257 CGGATTTCGTGTCTGCCT 57.402 55.556 0.00 0.00 0.00 4.75
474 4607 0.471191 AGCGGATCATCTCCATGCAA 59.529 50.000 0.00 0.00 45.24 4.08
545 4714 2.489275 CGCCTCTCTCTCAGCTCCC 61.489 68.421 0.00 0.00 0.00 4.30
627 4804 5.699143 AGAAGGGGATGGTCTTATTCAATG 58.301 41.667 0.00 0.00 0.00 2.82
706 4888 6.515696 GCTTTGGTGGATAGCAAGATTATTCC 60.516 42.308 0.00 0.00 44.25 3.01
774 5183 3.054878 GGTTCTCAGCAGCAACAAATTG 58.945 45.455 0.00 0.00 38.99 2.32
820 5464 5.470777 AGCATTGTTGACCAAAATTGAATGG 59.529 36.000 4.16 4.16 42.60 3.16
824 5468 4.040217 TGTTGACCAAAATTGAATGGGAGG 59.960 41.667 9.30 0.00 41.17 4.30
829 5473 4.845796 ACCAAAATTGAATGGGAGGAACAT 59.154 37.500 9.30 0.00 41.17 2.71
930 5597 4.695993 TGCGTTGCAGGCGGATCA 62.696 61.111 13.27 2.26 33.32 2.92
937 5604 1.358046 GCAGGCGGATCAATTGCTC 59.642 57.895 0.00 0.00 0.00 4.26
949 5616 1.750778 CAATTGCTCCGGTGCCTAAAT 59.249 47.619 24.73 15.07 0.00 1.40
980 5647 0.464554 GCCCTCCAGCAAGATGGTAC 60.465 60.000 4.07 0.00 41.43 3.34
1071 5738 5.738909 ACAGAAGAACTATGCTGCAAGTAT 58.261 37.500 6.36 2.25 43.51 2.12
1088 5755 6.199531 TGCAAGTATATTATCAACGTCGAACC 59.800 38.462 0.00 0.00 0.00 3.62
1151 5856 1.167851 TCTGCTGGCAAGTAACATGC 58.832 50.000 0.00 0.00 43.08 4.06
1214 5924 8.780249 TGTAGAAAAAGGTGAAAAGCTACATAC 58.220 33.333 0.00 0.00 33.98 2.39
1221 5931 6.043411 AGGTGAAAAGCTACATACGAGATTC 58.957 40.000 0.00 0.00 0.00 2.52
1250 5960 9.459640 GTACTGTCCTTTGGATTTTTCTAAAAC 57.540 33.333 0.00 0.00 32.73 2.43
1516 6228 7.381948 GCACACATATTTCATTGTTTCACAAGA 59.618 33.333 0.00 0.00 41.94 3.02
1663 6391 6.835488 AGATACATCTATTGGTTGCCAACATT 59.165 34.615 10.18 0.00 46.95 2.71
1713 6442 0.524862 CAGCTGCATGTGAGTTTCCC 59.475 55.000 0.00 0.00 0.00 3.97
1962 6700 1.142965 AAAACACCAAAGGCACGCC 59.857 52.632 0.00 0.00 0.00 5.68
2247 6985 0.532573 GAGATCTTGTGAGGCCACGA 59.467 55.000 5.01 0.00 46.06 4.35
2425 7163 2.088423 AGTAGTCGGCTCTCTCAAGTG 58.912 52.381 0.00 0.00 0.00 3.16
2502 7240 3.245797 CATGTAGAATCGCTCATACGGG 58.754 50.000 0.00 0.00 0.00 5.28
2691 7430 1.079681 ATACGAAAACGCCGCTGGA 60.080 52.632 0.00 0.00 0.00 3.86
2744 7483 4.879545 TGTGTCAAAGTAGTCCTTCCAAAC 59.120 41.667 0.00 0.00 31.27 2.93
2863 7602 1.073025 AACACGGCAGCCAAGATCA 59.927 52.632 13.30 0.00 0.00 2.92
2864 7603 0.322816 AACACGGCAGCCAAGATCAT 60.323 50.000 13.30 0.00 0.00 2.45
2881 7620 1.025041 CATCTCCTCATCGTCGGACA 58.975 55.000 9.10 0.00 0.00 4.02
2922 7663 6.183360 CGCAAAGGAAATTGTGGAAAAAGAAA 60.183 34.615 0.00 0.00 37.20 2.52
3127 7922 3.612371 GACGCGACTTCCTGCTCGT 62.612 63.158 15.93 0.00 32.30 4.18
3267 8071 2.035626 CCAGAAATGGGTGGCGGT 59.964 61.111 0.00 0.00 0.00 5.68
3934 9130 2.892425 GCATTCCTGGAGACGCCG 60.892 66.667 0.00 0.00 40.66 6.46
4093 9289 9.593134 AGTCAGAATTGAGTTCTATGATAACAC 57.407 33.333 0.00 0.00 45.35 3.32
4505 9701 9.453572 ACAATAGAGATTGAAGCTCAATGTTTA 57.546 29.630 13.36 10.55 46.20 2.01
4984 10737 6.017605 CCTGCGCTTCAAATAGATCACTTAAT 60.018 38.462 9.73 0.00 0.00 1.40
5036 10789 2.678336 GCTTGTCATCTTTAGGGGTTCG 59.322 50.000 0.00 0.00 0.00 3.95
5041 10794 2.116238 CATCTTTAGGGGTTCGAGGGA 58.884 52.381 0.00 0.00 0.00 4.20
5164 16423 2.818432 CTCTGCAAAGAGCTTGGTTGAT 59.182 45.455 8.64 0.00 45.94 2.57
5165 16424 3.225104 TCTGCAAAGAGCTTGGTTGATT 58.775 40.909 8.64 0.00 45.94 2.57
5204 16463 4.464947 TGAGAGTTCAGAGTCACTTGAGA 58.535 43.478 0.00 0.00 0.00 3.27
5405 16670 0.038892 CAGCCAGTGCCATGTTGTTC 60.039 55.000 0.00 0.00 38.69 3.18
5610 16878 0.182775 AGTGCGGTTTTGGGAGAACT 59.817 50.000 0.00 0.00 0.00 3.01
5611 16879 0.310854 GTGCGGTTTTGGGAGAACTG 59.689 55.000 0.00 0.00 36.65 3.16
5652 16938 9.593134 ACTCTGTTTAGTTTGATATCATCTGTC 57.407 33.333 6.17 4.91 0.00 3.51
5743 17070 4.345859 TTTGGTTACAGTGGGTACTCTG 57.654 45.455 0.00 3.25 34.07 3.35
5759 17086 6.239232 GGGTACTCTGAAGTCTTGTTGTTCTA 60.239 42.308 0.00 0.00 36.92 2.10
5785 17112 2.739885 TGCACATTATGTTGTTGCCC 57.260 45.000 0.00 0.00 0.00 5.36
5786 17113 1.966354 TGCACATTATGTTGTTGCCCA 59.034 42.857 0.00 0.00 0.00 5.36
5787 17114 2.366590 TGCACATTATGTTGTTGCCCAA 59.633 40.909 0.00 0.00 0.00 4.12
5792 17121 5.469421 CACATTATGTTGTTGCCCAATGTTT 59.531 36.000 0.00 0.00 35.12 2.83
5800 17129 3.196469 TGTTGCCCAATGTTTTCAAGTCA 59.804 39.130 0.00 0.00 0.00 3.41
5905 17234 3.191371 GGAAGGTTGATGCTTGATTCGTT 59.809 43.478 0.00 0.00 0.00 3.85
6049 17394 8.022550 TGTGTTCAAAGCTATGAAACATACATG 58.977 33.333 7.02 0.00 40.76 3.21
6141 17490 5.392057 GCACACTAAACAAAGATAGAAGGGC 60.392 44.000 0.00 0.00 0.00 5.19
6198 17547 4.515191 TGATACTGAACAAAACAGGACTGC 59.485 41.667 0.00 0.00 39.38 4.40
6225 17577 4.795970 AGACATAAATTTGACGGCGATC 57.204 40.909 16.62 8.31 0.00 3.69
6263 17615 6.506500 ACTGATTGACATGAAAATCTCACC 57.493 37.500 19.01 2.02 36.69 4.02
6269 17621 2.228822 ACATGAAAATCTCACCGCAACC 59.771 45.455 0.00 0.00 36.69 3.77
6303 17655 7.820578 TCATCGCATATCATATCATCTCTCT 57.179 36.000 0.00 0.00 0.00 3.10
6304 17656 7.873910 TCATCGCATATCATATCATCTCTCTC 58.126 38.462 0.00 0.00 0.00 3.20
6305 17657 7.720515 TCATCGCATATCATATCATCTCTCTCT 59.279 37.037 0.00 0.00 0.00 3.10
6306 17658 7.495135 TCGCATATCATATCATCTCTCTCTC 57.505 40.000 0.00 0.00 0.00 3.20
6307 17659 7.281841 TCGCATATCATATCATCTCTCTCTCT 58.718 38.462 0.00 0.00 0.00 3.10
6308 17660 7.442062 TCGCATATCATATCATCTCTCTCTCTC 59.558 40.741 0.00 0.00 0.00 3.20
6309 17661 7.443272 CGCATATCATATCATCTCTCTCTCTCT 59.557 40.741 0.00 0.00 0.00 3.10
6310 17662 8.781196 GCATATCATATCATCTCTCTCTCTCTC 58.219 40.741 0.00 0.00 0.00 3.20
6313 17665 7.803487 TCATATCATCTCTCTCTCTCTCTCT 57.197 40.000 0.00 0.00 0.00 3.10
6314 17666 7.845037 TCATATCATCTCTCTCTCTCTCTCTC 58.155 42.308 0.00 0.00 0.00 3.20
6315 17667 7.677319 TCATATCATCTCTCTCTCTCTCTCTCT 59.323 40.741 0.00 0.00 0.00 3.10
6316 17668 5.798125 TCATCTCTCTCTCTCTCTCTCTC 57.202 47.826 0.00 0.00 0.00 3.20
6317 17669 5.462240 TCATCTCTCTCTCTCTCTCTCTCT 58.538 45.833 0.00 0.00 0.00 3.10
6318 17670 5.538053 TCATCTCTCTCTCTCTCTCTCTCTC 59.462 48.000 0.00 0.00 0.00 3.20
6319 17671 5.136068 TCTCTCTCTCTCTCTCTCTCTCT 57.864 47.826 0.00 0.00 0.00 3.10
6320 17672 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
6321 17673 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
6322 17674 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
6323 17675 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
6324 17676 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
6325 17677 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
6326 17678 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
6327 17679 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
6328 17680 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
6329 17681 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
6330 17682 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
6331 17683 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
6332 17684 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
6333 17685 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
6334 17686 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
6335 17687 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
6336 17688 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
6337 17689 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
6338 17690 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
6339 17691 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
6340 17692 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
6341 17693 4.219115 TCTCTCTCTCTCTCTCTCTCTCC 58.781 52.174 0.00 0.00 0.00 3.71
6342 17694 3.963374 CTCTCTCTCTCTCTCTCTCTCCA 59.037 52.174 0.00 0.00 0.00 3.86
6343 17695 4.361783 TCTCTCTCTCTCTCTCTCTCCAA 58.638 47.826 0.00 0.00 0.00 3.53
6344 17696 4.971282 TCTCTCTCTCTCTCTCTCTCCAAT 59.029 45.833 0.00 0.00 0.00 3.16
6345 17697 5.039920 TCTCTCTCTCTCTCTCTCCAATG 57.960 47.826 0.00 0.00 0.00 2.82
6346 17698 4.139786 CTCTCTCTCTCTCTCTCCAATGG 58.860 52.174 0.00 0.00 0.00 3.16
6347 17699 3.785325 TCTCTCTCTCTCTCTCCAATGGA 59.215 47.826 0.48 0.48 0.00 3.41
6348 17700 4.416513 TCTCTCTCTCTCTCTCCAATGGAT 59.583 45.833 0.87 0.00 0.00 3.41
6349 17701 5.103558 TCTCTCTCTCTCTCTCCAATGGATT 60.104 44.000 0.87 0.00 0.00 3.01
6350 17702 6.102468 TCTCTCTCTCTCTCTCCAATGGATTA 59.898 42.308 0.87 0.00 0.00 1.75
6351 17703 6.677552 TCTCTCTCTCTCTCCAATGGATTAA 58.322 40.000 0.87 0.00 0.00 1.40
6352 17704 6.549364 TCTCTCTCTCTCTCCAATGGATTAAC 59.451 42.308 0.87 0.00 0.00 2.01
6353 17705 6.197903 TCTCTCTCTCTCCAATGGATTAACA 58.802 40.000 0.87 0.00 0.00 2.41
6354 17706 6.843333 TCTCTCTCTCTCCAATGGATTAACAT 59.157 38.462 0.87 0.00 0.00 2.71
6355 17707 6.824553 TCTCTCTCTCCAATGGATTAACATG 58.175 40.000 0.87 0.00 0.00 3.21
6356 17708 6.385176 TCTCTCTCTCCAATGGATTAACATGT 59.615 38.462 0.87 0.00 0.00 3.21
6357 17709 6.351711 TCTCTCTCCAATGGATTAACATGTG 58.648 40.000 0.87 0.00 0.00 3.21
6358 17710 4.883585 TCTCTCCAATGGATTAACATGTGC 59.116 41.667 0.87 0.00 0.00 4.57
6359 17711 4.598022 TCTCCAATGGATTAACATGTGCA 58.402 39.130 0.87 0.00 0.00 4.57
6360 17712 5.015515 TCTCCAATGGATTAACATGTGCAA 58.984 37.500 0.87 0.00 0.00 4.08
6361 17713 5.479724 TCTCCAATGGATTAACATGTGCAAA 59.520 36.000 0.87 0.00 0.00 3.68
6362 17714 6.014755 TCTCCAATGGATTAACATGTGCAAAA 60.015 34.615 0.87 0.00 0.00 2.44
6363 17715 6.164876 TCCAATGGATTAACATGTGCAAAAG 58.835 36.000 0.00 0.00 0.00 2.27
6364 17716 6.014755 TCCAATGGATTAACATGTGCAAAAGA 60.015 34.615 0.00 0.00 0.00 2.52
6365 17717 6.091169 CCAATGGATTAACATGTGCAAAAGAC 59.909 38.462 0.00 0.00 0.00 3.01
6366 17718 5.781210 TGGATTAACATGTGCAAAAGACA 57.219 34.783 0.00 0.00 0.00 3.41
6367 17719 6.154203 TGGATTAACATGTGCAAAAGACAA 57.846 33.333 0.00 0.00 0.00 3.18
6368 17720 6.577103 TGGATTAACATGTGCAAAAGACAAA 58.423 32.000 0.00 0.00 0.00 2.83
6369 17721 6.478344 TGGATTAACATGTGCAAAAGACAAAC 59.522 34.615 0.00 0.00 0.00 2.93
6370 17722 6.701400 GGATTAACATGTGCAAAAGACAAACT 59.299 34.615 0.00 0.00 0.00 2.66
6371 17723 7.865385 GGATTAACATGTGCAAAAGACAAACTA 59.135 33.333 0.00 0.00 0.00 2.24
6372 17724 9.243637 GATTAACATGTGCAAAAGACAAACTAA 57.756 29.630 0.00 0.00 0.00 2.24
6373 17725 8.988064 TTAACATGTGCAAAAGACAAACTAAA 57.012 26.923 0.00 0.00 0.00 1.85
6374 17726 7.897575 AACATGTGCAAAAGACAAACTAAAA 57.102 28.000 0.00 0.00 0.00 1.52
6375 17727 7.897575 ACATGTGCAAAAGACAAACTAAAAA 57.102 28.000 0.00 0.00 0.00 1.94
6376 17728 8.491331 ACATGTGCAAAAGACAAACTAAAAAT 57.509 26.923 0.00 0.00 0.00 1.82
6377 17729 8.945057 ACATGTGCAAAAGACAAACTAAAAATT 58.055 25.926 0.00 0.00 0.00 1.82
6380 17732 9.646427 TGTGCAAAAGACAAACTAAAAATTACT 57.354 25.926 0.00 0.00 0.00 2.24
6399 17751 9.787435 AAATTACTAAGATTACCACACAAGTCA 57.213 29.630 0.00 0.00 0.00 3.41
6400 17752 8.773404 ATTACTAAGATTACCACACAAGTCAC 57.227 34.615 0.00 0.00 0.00 3.67
6401 17753 6.169557 ACTAAGATTACCACACAAGTCACA 57.830 37.500 0.00 0.00 0.00 3.58
6402 17754 6.223852 ACTAAGATTACCACACAAGTCACAG 58.776 40.000 0.00 0.00 0.00 3.66
6403 17755 4.955811 AGATTACCACACAAGTCACAGA 57.044 40.909 0.00 0.00 0.00 3.41
6404 17756 4.632153 AGATTACCACACAAGTCACAGAC 58.368 43.478 0.00 0.00 0.00 3.51
6405 17757 2.902705 TACCACACAAGTCACAGACC 57.097 50.000 0.00 0.00 32.18 3.85
6406 17758 0.180406 ACCACACAAGTCACAGACCC 59.820 55.000 0.00 0.00 32.18 4.46
6407 17759 0.469917 CCACACAAGTCACAGACCCT 59.530 55.000 0.00 0.00 32.18 4.34
6408 17760 1.541233 CCACACAAGTCACAGACCCTC 60.541 57.143 0.00 0.00 32.18 4.30
6409 17761 0.389391 ACACAAGTCACAGACCCTCG 59.611 55.000 0.00 0.00 32.18 4.63
6410 17762 0.389391 CACAAGTCACAGACCCTCGT 59.611 55.000 0.00 0.00 32.18 4.18
6411 17763 0.674534 ACAAGTCACAGACCCTCGTC 59.325 55.000 0.00 0.00 39.50 4.20
6412 17764 0.673985 CAAGTCACAGACCCTCGTCA 59.326 55.000 0.00 0.00 41.87 4.35
6413 17765 1.273606 CAAGTCACAGACCCTCGTCAT 59.726 52.381 0.00 0.00 41.87 3.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 1.359459 GACCGGCCGAAACTGACATC 61.359 60.000 30.73 5.68 0.00 3.06
73 74 5.793457 CAGTTATGGCAAAGCTACGTTTTAC 59.207 40.000 0.00 0.00 0.00 2.01
74 75 5.701750 TCAGTTATGGCAAAGCTACGTTTTA 59.298 36.000 0.00 0.00 0.00 1.52
75 76 4.517453 TCAGTTATGGCAAAGCTACGTTTT 59.483 37.500 0.00 0.00 0.00 2.43
76 77 4.069304 TCAGTTATGGCAAAGCTACGTTT 58.931 39.130 0.00 0.00 0.00 3.60
77 78 3.670625 TCAGTTATGGCAAAGCTACGTT 58.329 40.909 0.00 0.00 0.00 3.99
78 79 3.262420 CTCAGTTATGGCAAAGCTACGT 58.738 45.455 0.00 0.00 0.00 3.57
79 80 2.030946 GCTCAGTTATGGCAAAGCTACG 59.969 50.000 0.00 0.00 0.00 3.51
81 82 2.093711 TCGCTCAGTTATGGCAAAGCTA 60.094 45.455 0.00 0.00 0.00 3.32
82 83 1.089920 CGCTCAGTTATGGCAAAGCT 58.910 50.000 0.00 0.00 0.00 3.74
84 85 2.938451 TGATCGCTCAGTTATGGCAAAG 59.062 45.455 0.00 0.00 0.00 2.77
85 86 2.984562 TGATCGCTCAGTTATGGCAAA 58.015 42.857 0.00 0.00 0.00 3.68
87 88 2.677836 GTTTGATCGCTCAGTTATGGCA 59.322 45.455 0.00 0.00 31.68 4.92
95 4221 5.998454 ATGGATTTAGTTTGATCGCTCAG 57.002 39.130 0.00 0.00 31.68 3.35
171 4297 1.800805 AACCTTGTGAGCAGACGATG 58.199 50.000 0.00 0.00 0.00 3.84
339 4472 2.815211 CCACCGCCTGTGTCGATG 60.815 66.667 0.00 0.00 43.85 3.84
348 4481 4.787280 CTCTCTCCCCCACCGCCT 62.787 72.222 0.00 0.00 0.00 5.52
417 4550 4.514577 AGCGATTCGAGGCCCACG 62.515 66.667 10.88 12.80 0.00 4.94
418 4551 2.586357 GAGCGATTCGAGGCCCAC 60.586 66.667 10.88 0.00 0.00 4.61
419 4552 2.434843 ATGAGCGATTCGAGGCCCA 61.435 57.895 10.88 0.00 0.00 5.36
421 4554 1.958205 CCATGAGCGATTCGAGGCC 60.958 63.158 10.88 0.00 0.00 5.19
422 4555 1.958205 CCCATGAGCGATTCGAGGC 60.958 63.158 10.88 0.00 0.00 4.70
423 4556 1.301244 CCCCATGAGCGATTCGAGG 60.301 63.158 10.88 2.93 0.00 4.63
424 4557 1.958205 GCCCCATGAGCGATTCGAG 60.958 63.158 10.88 0.00 0.00 4.04
425 4558 1.971505 AAGCCCCATGAGCGATTCGA 61.972 55.000 10.88 0.00 34.64 3.71
426 4559 1.502163 GAAGCCCCATGAGCGATTCG 61.502 60.000 0.62 0.62 34.64 3.34
427 4560 1.169034 GGAAGCCCCATGAGCGATTC 61.169 60.000 0.00 0.00 34.64 2.52
428 4561 1.152881 GGAAGCCCCATGAGCGATT 60.153 57.895 0.00 0.00 34.64 3.34
429 4562 2.512896 GGAAGCCCCATGAGCGAT 59.487 61.111 0.00 0.00 34.64 4.58
430 4563 4.161295 CGGAAGCCCCATGAGCGA 62.161 66.667 0.00 0.00 34.64 4.93
554 4723 1.884579 ACGTACAGAATATCCGCGGAT 59.115 47.619 39.97 39.97 38.54 4.18
558 4727 0.776451 CGCACGTACAGAATATCCGC 59.224 55.000 0.00 0.00 0.00 5.54
560 4729 1.521423 GCACGCACGTACAGAATATCC 59.479 52.381 0.00 0.00 0.00 2.59
614 4791 4.437390 CGTGGAGCAACATTGAATAAGACC 60.437 45.833 0.00 0.00 0.00 3.85
706 4888 2.858344 CAGGCATACGAACTAAACGAGG 59.142 50.000 0.00 0.00 34.70 4.63
742 5151 5.105063 GCTGCTGAGAACCCAAATTTTATC 58.895 41.667 0.00 0.00 0.00 1.75
794 5433 7.334921 CCATTCAATTTTGGTCAACAATGCTAT 59.665 33.333 0.00 0.00 39.21 2.97
798 5437 5.996513 TCCCATTCAATTTTGGTCAACAATG 59.003 36.000 0.00 0.00 39.21 2.82
820 5464 2.872858 GCGAAATCCACTATGTTCCTCC 59.127 50.000 0.00 0.00 0.00 4.30
824 5468 3.627577 ACATGGCGAAATCCACTATGTTC 59.372 43.478 0.00 0.00 39.25 3.18
829 5473 1.378531 GCACATGGCGAAATCCACTA 58.621 50.000 0.00 0.00 39.25 2.74
930 5597 1.750778 CATTTAGGCACCGGAGCAATT 59.249 47.619 25.48 12.43 35.83 2.32
937 5604 2.161609 GTGACTTTCATTTAGGCACCGG 59.838 50.000 0.00 0.00 44.27 5.28
949 5616 1.059584 TGGAGGGCTGGTGACTTTCA 61.060 55.000 0.00 0.00 0.00 2.69
980 5647 4.279169 TCATTCTTTTGCCACCTTCAGAAG 59.721 41.667 2.78 2.78 0.00 2.85
1071 5738 7.424227 AACAAAAGGTTCGACGTTGATAATA 57.576 32.000 6.27 0.00 33.35 0.98
1151 5856 5.409826 ACGCAAAGAGAAGGAATGTTCTAAG 59.590 40.000 0.00 0.00 36.89 2.18
1214 5924 4.177026 CAAAGGACAGTACAGGAATCTCG 58.823 47.826 0.00 0.00 0.00 4.04
1221 5931 5.770162 AGAAAAATCCAAAGGACAGTACAGG 59.230 40.000 0.00 0.00 32.98 4.00
1250 5960 5.009010 GTGGCTATGATCATGTGTTTTAGGG 59.991 44.000 18.72 0.00 0.00 3.53
1315 6026 3.660111 GGCGCGTTGGAGTTGCTT 61.660 61.111 8.43 0.00 0.00 3.91
1636 6361 7.342581 TGTTGGCAACCAATAGATGTATCTTA 58.657 34.615 26.31 0.00 45.80 2.10
1663 6391 1.843206 TGGTTGAGCATATGTGGGCTA 59.157 47.619 4.29 0.00 41.22 3.93
1962 6700 1.139095 GTGCTAGGAAGGACGTCGG 59.861 63.158 9.92 0.00 34.12 4.79
2247 6985 3.668447 CTTGCACTGTCATACTTGAGGT 58.332 45.455 0.00 0.00 30.85 3.85
2691 7430 5.752955 CCCGTTGTTCAAACATCAGAAATTT 59.247 36.000 0.00 0.00 38.95 1.82
2744 7483 0.393537 AGAGAGCGGGCATTTCCTTG 60.394 55.000 0.00 0.00 34.39 3.61
2863 7602 1.678627 CTTGTCCGACGATGAGGAGAT 59.321 52.381 0.00 0.00 37.18 2.75
2864 7603 1.095600 CTTGTCCGACGATGAGGAGA 58.904 55.000 0.00 0.00 37.18 3.71
2881 7620 1.139095 GCGACTCCGACGATTCCTT 59.861 57.895 0.00 0.00 38.22 3.36
2922 7663 1.956629 AAATGGACTCCGCCGACGAT 61.957 55.000 0.00 0.00 43.93 3.73
3277 8084 3.547787 AACCCTCGCCCTCCTCAGT 62.548 63.158 0.00 0.00 0.00 3.41
3934 9130 0.977395 ACTGAAGGTGAGGCTGGTAC 59.023 55.000 0.00 0.00 0.00 3.34
3973 9169 5.455392 CATCCTTTTCACACACATCTTCAC 58.545 41.667 0.00 0.00 0.00 3.18
4984 10737 7.838696 ACATATGAATTGAAGGTTCCACCATAA 59.161 33.333 10.38 0.00 41.95 1.90
4997 10750 7.884257 TGACAAGCAAAGACATATGAATTGAA 58.116 30.769 10.38 0.00 0.00 2.69
4999 10752 8.188799 AGATGACAAGCAAAGACATATGAATTG 58.811 33.333 10.38 11.70 0.00 2.32
5008 10761 4.761739 CCCTAAAGATGACAAGCAAAGACA 59.238 41.667 0.00 0.00 0.00 3.41
5009 10762 4.156739 CCCCTAAAGATGACAAGCAAAGAC 59.843 45.833 0.00 0.00 0.00 3.01
5036 10789 0.743097 GGATGTTGCATGCTTCCCTC 59.257 55.000 20.33 9.00 0.00 4.30
5041 10794 1.855295 TGGATGGATGTTGCATGCTT 58.145 45.000 20.33 0.66 37.43 3.91
5164 16423 9.436957 GAACTCTCAAGAATATGACAGGTTAAA 57.563 33.333 0.00 0.00 0.00 1.52
5165 16424 8.593679 TGAACTCTCAAGAATATGACAGGTTAA 58.406 33.333 0.00 0.00 0.00 2.01
5204 16463 2.289444 CCGTGGTGTCCAATGTAAGACT 60.289 50.000 0.00 0.00 34.18 3.24
5289 16554 0.674895 ACGAGCTTCCAAGATGGCAC 60.675 55.000 0.00 0.00 37.47 5.01
5405 16670 3.817647 GGATAACCTGGCATCTAAAGCTG 59.182 47.826 8.34 0.00 0.00 4.24
5470 16736 4.023193 CCTTCACCTAAAGCGTTCAACATT 60.023 41.667 0.00 0.00 0.00 2.71
5471 16737 3.502211 CCTTCACCTAAAGCGTTCAACAT 59.498 43.478 0.00 0.00 0.00 2.71
5476 16744 2.762745 TCACCTTCACCTAAAGCGTTC 58.237 47.619 0.00 0.00 0.00 3.95
5501 16769 5.325239 CCCTTCAAAAAGTGGGAGTCTATT 58.675 41.667 0.00 0.00 42.11 1.73
5610 16878 5.876651 ACAGAGTAATCATGCTCATACCA 57.123 39.130 0.00 0.00 40.41 3.25
5611 16879 7.928706 ACTAAACAGAGTAATCATGCTCATACC 59.071 37.037 0.00 0.00 40.41 2.73
5646 16932 4.636206 GGAAAGCAATCCTTTACGACAGAT 59.364 41.667 0.00 0.00 43.64 2.90
5720 17035 5.104444 TCAGAGTACCCACTGTAACCAAAAA 60.104 40.000 10.57 0.00 34.21 1.94
5725 17040 3.577415 ACTTCAGAGTACCCACTGTAACC 59.423 47.826 10.57 0.00 34.21 2.85
5726 17041 4.523558 AGACTTCAGAGTACCCACTGTAAC 59.476 45.833 10.57 4.26 35.88 2.50
5729 17044 3.246416 AGACTTCAGAGTACCCACTGT 57.754 47.619 10.57 0.00 35.88 3.55
5759 17086 7.656948 GGGCAACAACATAATGTGCATAATAAT 59.343 33.333 0.00 0.00 39.74 1.28
5780 17107 3.450457 ACTGACTTGAAAACATTGGGCAA 59.550 39.130 0.00 0.00 0.00 4.52
5785 17112 5.111293 AGCCAAACTGACTTGAAAACATTG 58.889 37.500 0.00 0.00 0.00 2.82
5786 17113 5.343307 AGCCAAACTGACTTGAAAACATT 57.657 34.783 0.00 0.00 0.00 2.71
5800 17129 3.188159 TCGTTTCTACACAGCCAAACT 57.812 42.857 0.00 0.00 0.00 2.66
6108 17457 6.862209 TCTTTGTTTAGTGTGCAGTTTCAAT 58.138 32.000 0.00 0.00 0.00 2.57
6141 17490 3.861276 TCGGTCTATAACGGCATATGG 57.139 47.619 4.56 0.00 0.00 2.74
6168 17517 2.325583 TTGTTCAGTATCATCGCCCC 57.674 50.000 0.00 0.00 0.00 5.80
6170 17519 4.437390 CCTGTTTTGTTCAGTATCATCGCC 60.437 45.833 0.00 0.00 0.00 5.54
6198 17547 4.084013 GCCGTCAAATTTATGTCTATCGGG 60.084 45.833 0.00 0.00 35.65 5.14
6225 17577 4.025229 TCAATCAGTTTTCGGTTCGTCTTG 60.025 41.667 0.00 0.00 0.00 3.02
6231 17583 5.356882 TCATGTCAATCAGTTTTCGGTTC 57.643 39.130 0.00 0.00 0.00 3.62
6263 17615 4.625311 TGCGATGATATATACAAGGTTGCG 59.375 41.667 0.00 0.00 0.00 4.85
6293 17645 6.083383 AGAGAGAGAGAGAGAGAGAGATGAT 58.917 44.000 0.00 0.00 0.00 2.45
6296 17648 5.714863 AGAGAGAGAGAGAGAGAGAGAGAT 58.285 45.833 0.00 0.00 0.00 2.75
6297 17649 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
6298 17650 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
6299 17651 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
6300 17652 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
6301 17653 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
6302 17654 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
6303 17655 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
6304 17656 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
6305 17657 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
6306 17658 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
6307 17659 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
6308 17660 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
6309 17661 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
6310 17662 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
6311 17663 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
6312 17664 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
6313 17665 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
6314 17666 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
6315 17667 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
6316 17668 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
6317 17669 5.136068 AGAGAGAGAGAGAGAGAGAGAGA 57.864 47.826 0.00 0.00 0.00 3.10
6318 17670 4.280677 GGAGAGAGAGAGAGAGAGAGAGAG 59.719 54.167 0.00 0.00 0.00 3.20
6319 17671 4.219115 GGAGAGAGAGAGAGAGAGAGAGA 58.781 52.174 0.00 0.00 0.00 3.10
6320 17672 3.963374 TGGAGAGAGAGAGAGAGAGAGAG 59.037 52.174 0.00 0.00 0.00 3.20
6321 17673 3.994317 TGGAGAGAGAGAGAGAGAGAGA 58.006 50.000 0.00 0.00 0.00 3.10
6322 17674 4.760530 TTGGAGAGAGAGAGAGAGAGAG 57.239 50.000 0.00 0.00 0.00 3.20
6323 17675 4.141413 CCATTGGAGAGAGAGAGAGAGAGA 60.141 50.000 0.00 0.00 0.00 3.10
6324 17676 4.139786 CCATTGGAGAGAGAGAGAGAGAG 58.860 52.174 0.00 0.00 0.00 3.20
6325 17677 3.785325 TCCATTGGAGAGAGAGAGAGAGA 59.215 47.826 0.00 0.00 0.00 3.10
6326 17678 4.169059 TCCATTGGAGAGAGAGAGAGAG 57.831 50.000 0.00 0.00 0.00 3.20
6327 17679 4.812403 ATCCATTGGAGAGAGAGAGAGA 57.188 45.455 11.78 0.00 34.05 3.10
6328 17680 6.323482 TGTTAATCCATTGGAGAGAGAGAGAG 59.677 42.308 11.78 0.00 34.05 3.20
6329 17681 6.197903 TGTTAATCCATTGGAGAGAGAGAGA 58.802 40.000 11.78 0.00 34.05 3.10
6330 17682 6.477053 TGTTAATCCATTGGAGAGAGAGAG 57.523 41.667 11.78 0.00 34.05 3.20
6331 17683 6.385176 ACATGTTAATCCATTGGAGAGAGAGA 59.615 38.462 11.78 0.00 34.05 3.10
6332 17684 6.482641 CACATGTTAATCCATTGGAGAGAGAG 59.517 42.308 11.78 1.47 34.05 3.20
6333 17685 6.351711 CACATGTTAATCCATTGGAGAGAGA 58.648 40.000 11.78 0.00 34.05 3.10
6334 17686 5.008415 GCACATGTTAATCCATTGGAGAGAG 59.992 44.000 11.78 0.38 34.05 3.20
6335 17687 4.883585 GCACATGTTAATCCATTGGAGAGA 59.116 41.667 11.78 0.00 34.05 3.10
6336 17688 4.641541 TGCACATGTTAATCCATTGGAGAG 59.358 41.667 11.78 0.00 34.05 3.20
6337 17689 4.598022 TGCACATGTTAATCCATTGGAGA 58.402 39.130 11.78 0.00 34.05 3.71
6338 17690 4.987408 TGCACATGTTAATCCATTGGAG 57.013 40.909 11.78 0.00 34.05 3.86
6339 17691 5.735285 TTTGCACATGTTAATCCATTGGA 57.265 34.783 8.08 8.08 35.55 3.53
6340 17692 6.091169 GTCTTTTGCACATGTTAATCCATTGG 59.909 38.462 0.00 0.00 0.00 3.16
6341 17693 6.645827 TGTCTTTTGCACATGTTAATCCATTG 59.354 34.615 0.00 0.00 0.00 2.82
6342 17694 6.757237 TGTCTTTTGCACATGTTAATCCATT 58.243 32.000 0.00 0.00 0.00 3.16
6343 17695 6.343716 TGTCTTTTGCACATGTTAATCCAT 57.656 33.333 0.00 0.00 0.00 3.41
6344 17696 5.781210 TGTCTTTTGCACATGTTAATCCA 57.219 34.783 0.00 0.00 0.00 3.41
6345 17697 6.701400 AGTTTGTCTTTTGCACATGTTAATCC 59.299 34.615 0.00 0.00 0.00 3.01
6346 17698 7.698836 AGTTTGTCTTTTGCACATGTTAATC 57.301 32.000 0.00 0.00 0.00 1.75
6347 17699 9.593134 TTTAGTTTGTCTTTTGCACATGTTAAT 57.407 25.926 0.00 0.00 0.00 1.40
6348 17700 8.988064 TTTAGTTTGTCTTTTGCACATGTTAA 57.012 26.923 0.00 0.00 0.00 2.01
6349 17701 8.988064 TTTTAGTTTGTCTTTTGCACATGTTA 57.012 26.923 0.00 0.00 0.00 2.41
6350 17702 7.897575 TTTTAGTTTGTCTTTTGCACATGTT 57.102 28.000 0.00 0.00 0.00 2.71
6351 17703 7.897575 TTTTTAGTTTGTCTTTTGCACATGT 57.102 28.000 0.00 0.00 0.00 3.21
6354 17706 9.646427 AGTAATTTTTAGTTTGTCTTTTGCACA 57.354 25.926 0.00 0.00 0.00 4.57
6373 17725 9.787435 TGACTTGTGTGGTAATCTTAGTAATTT 57.213 29.630 0.00 0.00 0.00 1.82
6374 17726 9.216117 GTGACTTGTGTGGTAATCTTAGTAATT 57.784 33.333 0.00 0.00 0.00 1.40
6375 17727 8.372459 TGTGACTTGTGTGGTAATCTTAGTAAT 58.628 33.333 0.00 0.00 0.00 1.89
6376 17728 7.728148 TGTGACTTGTGTGGTAATCTTAGTAA 58.272 34.615 0.00 0.00 0.00 2.24
6377 17729 7.231925 TCTGTGACTTGTGTGGTAATCTTAGTA 59.768 37.037 0.00 0.00 0.00 1.82
6378 17730 6.041637 TCTGTGACTTGTGTGGTAATCTTAGT 59.958 38.462 0.00 0.00 0.00 2.24
6379 17731 6.366332 GTCTGTGACTTGTGTGGTAATCTTAG 59.634 42.308 0.00 0.00 0.00 2.18
6380 17732 6.220930 GTCTGTGACTTGTGTGGTAATCTTA 58.779 40.000 0.00 0.00 0.00 2.10
6381 17733 5.057149 GTCTGTGACTTGTGTGGTAATCTT 58.943 41.667 0.00 0.00 0.00 2.40
6382 17734 4.503296 GGTCTGTGACTTGTGTGGTAATCT 60.503 45.833 0.00 0.00 32.47 2.40
6383 17735 3.746492 GGTCTGTGACTTGTGTGGTAATC 59.254 47.826 0.00 0.00 32.47 1.75
6384 17736 3.496160 GGGTCTGTGACTTGTGTGGTAAT 60.496 47.826 0.00 0.00 32.47 1.89
6385 17737 2.158871 GGGTCTGTGACTTGTGTGGTAA 60.159 50.000 0.00 0.00 32.47 2.85
6386 17738 1.414919 GGGTCTGTGACTTGTGTGGTA 59.585 52.381 0.00 0.00 32.47 3.25
6387 17739 0.180406 GGGTCTGTGACTTGTGTGGT 59.820 55.000 0.00 0.00 32.47 4.16
6388 17740 0.469917 AGGGTCTGTGACTTGTGTGG 59.530 55.000 0.00 0.00 32.47 4.17
6389 17741 1.869754 CGAGGGTCTGTGACTTGTGTG 60.870 57.143 0.00 0.00 32.47 3.82
6390 17742 0.389391 CGAGGGTCTGTGACTTGTGT 59.611 55.000 0.00 0.00 32.47 3.72
6391 17743 0.389391 ACGAGGGTCTGTGACTTGTG 59.611 55.000 0.00 0.00 32.47 3.33
6392 17744 0.674534 GACGAGGGTCTGTGACTTGT 59.325 55.000 0.00 0.00 40.15 3.16
6393 17745 0.673985 TGACGAGGGTCTGTGACTTG 59.326 55.000 0.00 0.00 43.79 3.16
6394 17746 1.633774 ATGACGAGGGTCTGTGACTT 58.366 50.000 0.00 0.00 43.79 3.01
6395 17747 3.365536 ATGACGAGGGTCTGTGACT 57.634 52.632 0.00 0.00 43.79 3.41


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

AutoCloner maintained by Alex Coulton.