Multiple sequence alignment - TraesCS4D01G119700

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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 TraesCS4D01G119700 chr4D 100.000 4362 0 0 1 4362 100813309 100808948 0.000000e+00 8056.0
1 TraesCS4D01G119700 chr4D 93.962 265 14 1 3863 4125 379243573 379243837 2.440000e-107 399.0
2 TraesCS4D01G119700 chr4D 92.509 267 18 1 4094 4360 379243837 379244101 8.850000e-102 381.0
3 TraesCS4D01G119700 chr4D 82.367 431 55 14 77 494 100813142 100812720 5.370000e-94 355.0
4 TraesCS4D01G119700 chr4D 82.407 432 53 16 168 590 100813233 100812816 5.370000e-94 355.0
5 TraesCS4D01G119700 chr4D 92.857 182 9 2 3863 4042 379248822 379249001 1.200000e-65 261.0
6 TraesCS4D01G119700 chr4D 91.667 48 3 1 3688 3735 100809583 100809537 1.010000e-06 65.8
7 TraesCS4D01G119700 chr4D 91.667 48 3 1 3727 3773 100809622 100809575 1.010000e-06 65.8
8 TraesCS4D01G119700 chr4A 94.689 2881 90 33 875 3719 475395947 475398800 0.000000e+00 4414.0
9 TraesCS4D01G119700 chr4A 83.862 756 88 21 3 754 475394797 475395522 0.000000e+00 689.0
10 TraesCS4D01G119700 chr4B 96.768 2073 60 6 1661 3729 143314977 143312908 0.000000e+00 3450.0
11 TraesCS4D01G119700 chr4B 96.186 839 21 5 793 1622 143315808 143314972 0.000000e+00 1362.0
12 TraesCS4D01G119700 chr4B 81.376 596 82 21 177 760 143316469 143315891 3.980000e-125 459.0
13 TraesCS4D01G119700 chr4B 82.338 385 65 3 167 549 143316432 143316049 9.040000e-87 331.0
14 TraesCS4D01G119700 chr4B 79.545 352 63 4 248 598 143316439 143316096 4.360000e-60 243.0
15 TraesCS4D01G119700 chr4B 87.591 137 9 2 3727 3862 143312949 143312820 7.560000e-33 152.0
16 TraesCS4D01G119700 chr7B 84.512 523 53 10 3863 4360 588089474 588089993 3.920000e-135 492.0
17 TraesCS4D01G119700 chr7D 92.366 262 20 0 4099 4360 9816550 9816811 1.480000e-99 374.0
18 TraesCS4D01G119700 chr7D 90.189 265 21 2 3863 4125 9816284 9816545 1.500000e-89 340.0
19 TraesCS4D01G119700 chr7D 89.552 268 20 6 3863 4125 264763322 264763586 2.510000e-87 333.0
20 TraesCS4D01G119700 chr7D 92.746 193 12 1 3863 4053 9823447 9823639 1.190000e-70 278.0
21 TraesCS4D01G119700 chr2D 88.433 268 23 6 3863 4125 33017492 33017756 2.530000e-82 316.0
22 TraesCS4D01G119700 chr2D 93.750 192 10 1 3863 4052 350037556 350037365 1.990000e-73 287.0
23 TraesCS4D01G119700 chr2D 92.553 188 12 1 3862 4047 350041030 350040843 7.190000e-68 268.0
24 TraesCS4D01G119700 chr1D 86.124 209 26 3 4050 4256 409495131 409494924 5.680000e-54 222.0
25 TraesCS4D01G119700 chr6B 89.610 154 13 1 4103 4256 53654003 53653853 4.450000e-45 193.0


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 TraesCS4D01G119700 chr4D 100808948 100813309 4361 True 1779.52 8056 89.621600 1 4362 5 chr4D.!!$R1 4361
1 TraesCS4D01G119700 chr4D 379243573 379244101 528 False 390.00 399 93.235500 3863 4360 2 chr4D.!!$F2 497
2 TraesCS4D01G119700 chr4A 475394797 475398800 4003 False 2551.50 4414 89.275500 3 3719 2 chr4A.!!$F1 3716
3 TraesCS4D01G119700 chr4B 143312820 143316469 3649 True 999.50 3450 87.300667 167 3862 6 chr4B.!!$R1 3695
4 TraesCS4D01G119700 chr7B 588089474 588089993 519 False 492.00 492 84.512000 3863 4360 1 chr7B.!!$F1 497
5 TraesCS4D01G119700 chr7D 9816284 9816811 527 False 357.00 374 91.277500 3863 4360 2 chr7D.!!$F3 497
6 TraesCS4D01G119700 chr2D 350037365 350041030 3665 True 277.50 287 93.151500 3862 4052 2 chr2D.!!$R1 190

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
77 78 0.035439 AACCATTGGAGTGGGCTACG 60.035 55.000 10.37 0.0 43.77 3.51 F
207 208 0.456653 GATGTCACAACCATTGGCGC 60.457 55.000 0.00 0.0 34.12 6.53 F
625 673 0.603707 CCGTCACAATCACTGGCACT 60.604 55.000 0.00 0.0 0.00 4.40 F
1381 1748 1.007038 GCATGTGTTGCCTGTGTGG 60.007 57.895 0.00 0.0 46.15 4.17 F
2736 3129 0.930310 GTATGCGCTCTCGAATGCAA 59.070 50.000 9.73 0.0 41.22 4.08 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1808 2181 1.429021 CGGCGATGTGATTTGTGGG 59.571 57.895 0.00 0.0 0.00 4.61 R
2142 2516 1.064017 ACAAAGGAGGTCCAGTTGCAA 60.064 47.619 0.00 0.0 37.01 4.08 R
2260 2635 2.032178 GTCGGCATGATGCTAAAGGTTC 59.968 50.000 17.84 0.0 44.28 3.62 R
2938 3332 0.247736 GGTCGCTCATGTCCTTCTGT 59.752 55.000 0.00 0.0 0.00 3.41 R
4300 8228 0.754957 CCTCCAACAACAGCCAACCA 60.755 55.000 0.00 0.0 0.00 3.67 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
54 55 1.802839 GCAGAACGATCAATTGACGC 58.197 50.000 22.03 12.93 0.00 5.19
62 63 1.539388 GATCAATTGACGCCACAACCA 59.461 47.619 11.07 0.00 32.50 3.67
63 64 1.614996 TCAATTGACGCCACAACCAT 58.385 45.000 3.38 0.00 32.50 3.55
67 68 0.466372 TTGACGCCACAACCATTGGA 60.466 50.000 10.37 0.00 36.02 3.53
68 69 0.888736 TGACGCCACAACCATTGGAG 60.889 55.000 10.37 4.02 39.66 3.86
70 71 1.172180 ACGCCACAACCATTGGAGTG 61.172 55.000 19.35 19.35 44.54 3.51
72 73 1.535204 GCCACAACCATTGGAGTGGG 61.535 60.000 32.94 21.98 45.23 4.61
73 74 1.535204 CCACAACCATTGGAGTGGGC 61.535 60.000 28.85 0.00 43.25 5.36
74 75 0.540365 CACAACCATTGGAGTGGGCT 60.540 55.000 10.37 0.00 43.77 5.19
75 76 1.072266 ACAACCATTGGAGTGGGCTA 58.928 50.000 10.37 0.00 43.77 3.93
76 77 1.271926 ACAACCATTGGAGTGGGCTAC 60.272 52.381 10.37 0.00 43.77 3.58
77 78 0.035439 AACCATTGGAGTGGGCTACG 60.035 55.000 10.37 0.00 43.77 3.51
78 79 1.819632 CCATTGGAGTGGGCTACGC 60.820 63.158 0.00 0.00 35.55 4.42
95 96 3.110178 CCGCACCGAAAGACCGAC 61.110 66.667 0.00 0.00 0.00 4.79
103 104 1.067846 CCGAAAGACCGACTGATGTCA 60.068 52.381 0.00 0.00 43.06 3.58
106 107 3.390135 GAAAGACCGACTGATGTCACAA 58.610 45.455 0.00 0.00 43.06 3.33
111 112 2.224523 ACCGACTGATGTCACAACCATT 60.225 45.455 0.00 0.00 43.06 3.16
122 123 4.418328 AACCATTGGCGCGGGCTA 62.418 61.111 24.48 16.38 39.81 3.93
136 137 3.849953 GCTACGCCGCACCGAAAG 61.850 66.667 0.00 0.00 0.00 2.62
139 140 3.919973 TACGCCGCACCGAAAGACC 62.920 63.158 0.00 0.00 0.00 3.85
141 142 3.423154 GCCGCACCGAAAGACCAG 61.423 66.667 0.00 0.00 0.00 4.00
147 148 0.859232 CACCGAAAGACCAGTTGACG 59.141 55.000 0.00 0.00 0.00 4.35
159 160 1.094785 AGTTGACGTATTGGCATGGC 58.905 50.000 13.29 13.29 0.00 4.40
160 161 1.094785 GTTGACGTATTGGCATGGCT 58.905 50.000 21.08 3.30 0.00 4.75
161 162 1.093972 TTGACGTATTGGCATGGCTG 58.906 50.000 21.08 7.54 0.00 4.85
182 183 4.223964 GGCGCCGCATCGAAAGAC 62.224 66.667 12.58 0.00 46.97 3.01
183 184 4.223964 GCGCCGCATCGAAAGACC 62.224 66.667 3.15 0.00 46.97 3.85
184 185 3.913573 CGCCGCATCGAAAGACCG 61.914 66.667 0.00 0.00 46.97 4.79
204 205 3.427909 CCGATTGATGTCACAACCATTGG 60.428 47.826 0.00 0.00 32.50 3.16
207 208 0.456653 GATGTCACAACCATTGGCGC 60.457 55.000 0.00 0.00 34.12 6.53
231 232 2.943653 CGCCACACCGAAAAGACC 59.056 61.111 0.00 0.00 0.00 3.85
239 240 2.878406 ACACCGAAAAGACCAGTTGATG 59.122 45.455 0.00 0.00 0.00 3.07
244 245 5.181245 ACCGAAAAGACCAGTTGATGTATTG 59.819 40.000 0.00 0.00 0.00 1.90
252 253 2.164219 CAGTTGATGTATTGGTGTGGGC 59.836 50.000 0.00 0.00 0.00 5.36
254 255 2.127271 TGATGTATTGGTGTGGGCTG 57.873 50.000 0.00 0.00 0.00 4.85
255 256 0.740737 GATGTATTGGTGTGGGCTGC 59.259 55.000 0.00 0.00 0.00 5.25
292 293 3.813800 CGATTGATATCGCAACCATTGG 58.186 45.455 0.00 0.00 46.15 3.16
320 321 3.342627 CGCGCACCGAAAGACCAA 61.343 61.111 8.75 0.00 40.02 3.67
328 329 2.096417 CACCGAAAGACCAATTGACGTC 60.096 50.000 9.11 9.11 0.00 4.34
329 330 2.139917 CCGAAAGACCAATTGACGTCA 58.860 47.619 15.76 15.76 0.00 4.35
330 331 2.096417 CCGAAAGACCAATTGACGTCAC 60.096 50.000 19.90 5.54 0.00 3.67
331 332 2.542178 CGAAAGACCAATTGACGTCACA 59.458 45.455 19.90 10.27 0.00 3.58
332 333 3.603857 CGAAAGACCAATTGACGTCACAC 60.604 47.826 19.90 6.26 0.00 3.82
333 334 1.878953 AGACCAATTGACGTCACACC 58.121 50.000 19.90 4.70 0.00 4.16
338 339 2.551887 CCAATTGACGTCACACCATTGA 59.448 45.455 29.33 12.24 0.00 2.57
342 343 1.155889 GACGTCACACCATTGATGCA 58.844 50.000 11.55 0.00 36.15 3.96
372 373 2.546778 GCACCGAAAGACCGATTGATA 58.453 47.619 0.00 0.00 0.00 2.15
373 374 2.284417 GCACCGAAAGACCGATTGATAC 59.716 50.000 0.00 0.00 0.00 2.24
375 376 2.498481 ACCGAAAGACCGATTGATACCA 59.502 45.455 0.00 0.00 0.00 3.25
387 388 1.458398 TGATACCACAACCATTGGCG 58.542 50.000 1.54 0.00 37.69 5.69
431 479 2.551887 CCAATTGACGTCACACCATTGA 59.448 45.455 29.33 12.24 0.00 2.57
472 520 2.315925 AGACCGATTGATGTCGCAAT 57.684 45.000 0.00 0.00 40.96 3.56
533 581 0.893270 CACAAACCATTGGCTCGGGA 60.893 55.000 1.54 0.00 41.01 5.14
597 645 4.241999 GCTGCGCCGCATCGAAAT 62.242 61.111 19.50 0.00 38.13 2.17
599 647 1.652329 CTGCGCCGCATCGAAATTC 60.652 57.895 14.15 0.00 38.13 2.17
615 663 1.909700 ATTCTGGTTGCCGTCACAAT 58.090 45.000 0.00 0.00 0.00 2.71
623 671 1.965930 GCCGTCACAATCACTGGCA 60.966 57.895 0.00 0.00 42.03 4.92
625 673 0.603707 CCGTCACAATCACTGGCACT 60.604 55.000 0.00 0.00 0.00 4.40
655 703 2.484065 CGCCCCGAAACACCAGATTATA 60.484 50.000 0.00 0.00 0.00 0.98
656 704 3.139077 GCCCCGAAACACCAGATTATAG 58.861 50.000 0.00 0.00 0.00 1.31
658 706 4.632153 CCCCGAAACACCAGATTATAGAG 58.368 47.826 0.00 0.00 0.00 2.43
661 709 5.303589 CCCGAAACACCAGATTATAGAGGTA 59.696 44.000 0.00 0.00 32.01 3.08
662 710 6.214399 CCGAAACACCAGATTATAGAGGTAC 58.786 44.000 0.00 0.00 32.01 3.34
664 712 7.230108 CCGAAACACCAGATTATAGAGGTACTA 59.770 40.741 0.00 0.00 41.55 1.82
665 713 8.074972 CGAAACACCAGATTATAGAGGTACTAC 58.925 40.741 0.00 0.00 41.55 2.73
666 714 9.134055 GAAACACCAGATTATAGAGGTACTACT 57.866 37.037 0.00 0.00 41.55 2.57
698 746 6.287589 AGGAAGCGGTCATAAATATAGAGG 57.712 41.667 0.00 0.00 0.00 3.69
701 749 6.071278 GGAAGCGGTCATAAATATAGAGGACT 60.071 42.308 0.00 0.00 0.00 3.85
791 883 2.047560 GCCTGGACGCCGTTAAGT 60.048 61.111 0.00 0.00 0.00 2.24
1207 1568 3.077556 GCCAGGAAGGAGGAGCGA 61.078 66.667 0.00 0.00 41.22 4.93
1381 1748 1.007038 GCATGTGTTGCCTGTGTGG 60.007 57.895 0.00 0.00 46.15 4.17
1492 1859 2.040544 GGGCGTGTGTTGATCTGGG 61.041 63.158 0.00 0.00 0.00 4.45
1518 1887 3.732849 GGGGGCCTGGACCTTCTG 61.733 72.222 20.33 0.00 0.00 3.02
1523 1892 2.993853 CCTGGACCTTCTGCTCCC 59.006 66.667 0.00 0.00 0.00 4.30
1560 1929 6.449635 AGAATTCCTAGCTCGCTATATCAG 57.550 41.667 0.65 0.00 0.00 2.90
1635 2008 5.441718 AGAACATGTCTCTCTCTCTCTCT 57.558 43.478 0.00 0.00 0.00 3.10
1636 2009 5.431765 AGAACATGTCTCTCTCTCTCTCTC 58.568 45.833 0.00 0.00 0.00 3.20
1637 2010 5.190528 AGAACATGTCTCTCTCTCTCTCTCT 59.809 44.000 0.00 0.00 0.00 3.10
1638 2011 5.028549 ACATGTCTCTCTCTCTCTCTCTC 57.971 47.826 0.00 0.00 0.00 3.20
1639 2012 4.718774 ACATGTCTCTCTCTCTCTCTCTCT 59.281 45.833 0.00 0.00 0.00 3.10
1640 2013 5.163364 ACATGTCTCTCTCTCTCTCTCTCTC 60.163 48.000 0.00 0.00 0.00 3.20
1641 2014 4.614475 TGTCTCTCTCTCTCTCTCTCTCT 58.386 47.826 0.00 0.00 0.00 3.10
1642 2015 4.646945 TGTCTCTCTCTCTCTCTCTCTCTC 59.353 50.000 0.00 0.00 0.00 3.20
1643 2016 4.892934 GTCTCTCTCTCTCTCTCTCTCTCT 59.107 50.000 0.00 0.00 0.00 3.10
1644 2017 5.009610 GTCTCTCTCTCTCTCTCTCTCTCTC 59.990 52.000 0.00 0.00 0.00 3.20
1645 2018 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
1646 2019 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
1647 2020 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
1648 2021 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
1649 2022 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
1650 2023 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
1823 2196 2.698803 TCAGTCCCACAAATCACATCG 58.301 47.619 0.00 0.00 0.00 3.84
2065 2438 4.329545 GGGACCTTCACAGCGGCA 62.330 66.667 1.45 0.00 0.00 5.69
2113 2487 8.284693 CCAGCAAGACAAATAAAAATCCAAAAG 58.715 33.333 0.00 0.00 0.00 2.27
2321 2696 3.418684 TTTACTTCCTTGGAGACTGGC 57.581 47.619 0.00 0.00 0.00 4.85
2475 2858 7.422399 TGGCCTAATTTTAATAGATTGAACGC 58.578 34.615 3.32 0.00 0.00 4.84
2505 2897 5.016831 GGGGAGAGGTGAAAATAAACACAT 58.983 41.667 0.00 0.00 38.57 3.21
2514 2906 9.405587 AGGTGAAAATAAACACATGATTTAACG 57.594 29.630 0.00 0.00 38.57 3.18
2561 2953 9.146984 TGTTGTAAGTAATGTTACTCTATGCAC 57.853 33.333 5.93 1.24 42.86 4.57
2736 3129 0.930310 GTATGCGCTCTCGAATGCAA 59.070 50.000 9.73 0.00 41.22 4.08
2775 3168 4.531339 ACTTCCCTAACTAGTCCTGGAAAC 59.469 45.833 16.31 0.00 31.93 2.78
2809 3202 6.261603 TCTTGAATGCAACTATTATCTGCCTG 59.738 38.462 0.00 0.00 35.13 4.85
2844 3237 3.849563 TTTCTTCTGTTTCCTTCGGGA 57.150 42.857 0.00 0.00 43.37 5.14
2845 3238 3.402628 TTCTTCTGTTTCCTTCGGGAG 57.597 47.619 0.00 0.00 45.95 4.30
2865 3258 5.332707 GGAGTGGAAATTTAAATCTGCGTC 58.667 41.667 0.10 0.00 0.00 5.19
2868 3261 4.553429 GTGGAAATTTAAATCTGCGTCGTG 59.447 41.667 0.10 0.00 0.00 4.35
2938 3332 1.403679 CCTGCGACAAAACAAGTCCAA 59.596 47.619 0.00 0.00 32.41 3.53
3402 3796 0.954452 CTTGGTCCTTGTTGCAGGTC 59.046 55.000 0.00 0.00 35.15 3.85
3430 3825 1.071567 GTAGCGACGACTGCTGTTCC 61.072 60.000 0.00 0.00 43.85 3.62
3629 4025 3.056607 CCCATTTGGAAGTAGTTTGGCTG 60.057 47.826 0.00 0.00 37.39 4.85
3634 4030 1.923227 GAAGTAGTTTGGCTGGCCGC 61.923 60.000 10.60 10.60 39.42 6.53
3659 4055 4.688879 CGGTCACTAATGAAGTACTGCAAA 59.311 41.667 7.88 0.00 35.76 3.68
3720 4117 7.098074 ACTTACTACCTCTGTACACTAATGC 57.902 40.000 0.00 0.00 0.00 3.56
3729 4126 6.372659 CCTCTGTACACTAATGCAAGATGTTT 59.627 38.462 0.00 0.00 0.00 2.83
3730 4127 7.364522 TCTGTACACTAATGCAAGATGTTTC 57.635 36.000 0.00 0.00 0.00 2.78
3731 4128 7.161404 TCTGTACACTAATGCAAGATGTTTCT 58.839 34.615 0.00 0.00 0.00 2.52
3732 4129 7.118245 TCTGTACACTAATGCAAGATGTTTCTG 59.882 37.037 0.00 0.00 30.72 3.02
3733 4130 5.051891 ACACTAATGCAAGATGTTTCTGC 57.948 39.130 0.00 0.00 30.72 4.26
3734 4131 4.520111 ACACTAATGCAAGATGTTTCTGCA 59.480 37.500 0.00 0.00 39.03 4.41
3735 4132 5.009911 ACACTAATGCAAGATGTTTCTGCAA 59.990 36.000 0.00 0.00 38.55 4.08
3736 4133 5.571741 CACTAATGCAAGATGTTTCTGCAAG 59.428 40.000 0.00 0.00 38.55 4.01
3737 4134 4.595762 AATGCAAGATGTTTCTGCAAGT 57.404 36.364 0.00 0.00 38.55 3.16
3738 4135 5.710513 AATGCAAGATGTTTCTGCAAGTA 57.289 34.783 0.00 0.00 38.55 2.24
3739 4136 4.488126 TGCAAGATGTTTCTGCAAGTAC 57.512 40.909 0.00 0.00 34.93 2.73
3740 4137 4.136796 TGCAAGATGTTTCTGCAAGTACT 58.863 39.130 0.00 0.00 34.93 2.73
3741 4138 5.304778 TGCAAGATGTTTCTGCAAGTACTA 58.695 37.500 0.00 0.00 34.93 1.82
3742 4139 5.179368 TGCAAGATGTTTCTGCAAGTACTAC 59.821 40.000 0.00 0.00 34.93 2.73
3743 4140 5.390991 GCAAGATGTTTCTGCAAGTACTACC 60.391 44.000 0.00 0.00 33.76 3.18
3744 4141 5.483685 AGATGTTTCTGCAAGTACTACCA 57.516 39.130 0.00 0.00 33.76 3.25
3745 4142 5.238583 AGATGTTTCTGCAAGTACTACCAC 58.761 41.667 0.00 0.00 33.76 4.16
3746 4143 4.682778 TGTTTCTGCAAGTACTACCACT 57.317 40.909 0.00 0.00 33.76 4.00
3747 4144 4.377021 TGTTTCTGCAAGTACTACCACTG 58.623 43.478 0.00 0.00 33.76 3.66
3748 4145 4.141801 TGTTTCTGCAAGTACTACCACTGT 60.142 41.667 0.00 0.00 33.76 3.55
3749 4146 5.069383 TGTTTCTGCAAGTACTACCACTGTA 59.931 40.000 0.00 0.00 33.76 2.74
3750 4147 4.778534 TCTGCAAGTACTACCACTGTAC 57.221 45.455 0.00 0.00 40.19 2.90
3751 4148 4.146564 TCTGCAAGTACTACCACTGTACA 58.853 43.478 0.00 0.00 41.76 2.90
3752 4149 4.022589 TCTGCAAGTACTACCACTGTACAC 60.023 45.833 0.00 0.00 41.76 2.90
3753 4150 3.893200 TGCAAGTACTACCACTGTACACT 59.107 43.478 0.00 0.00 41.76 3.55
3754 4151 5.072055 TGCAAGTACTACCACTGTACACTA 58.928 41.667 0.00 0.00 41.76 2.74
3755 4152 5.535783 TGCAAGTACTACCACTGTACACTAA 59.464 40.000 0.00 0.00 41.76 2.24
3756 4153 6.209986 TGCAAGTACTACCACTGTACACTAAT 59.790 38.462 0.00 0.00 41.76 1.73
3757 4154 6.530534 GCAAGTACTACCACTGTACACTAATG 59.469 42.308 0.00 0.00 41.76 1.90
3758 4155 6.205101 AGTACTACCACTGTACACTAATGC 57.795 41.667 0.00 0.00 41.76 3.56
3759 4156 5.713389 AGTACTACCACTGTACACTAATGCA 59.287 40.000 0.00 0.00 41.76 3.96
3760 4157 5.477607 ACTACCACTGTACACTAATGCAA 57.522 39.130 0.00 0.00 0.00 4.08
3761 4158 5.479306 ACTACCACTGTACACTAATGCAAG 58.521 41.667 0.00 0.00 0.00 4.01
3762 4159 4.617253 ACCACTGTACACTAATGCAAGA 57.383 40.909 0.00 0.00 0.00 3.02
3763 4160 5.165961 ACCACTGTACACTAATGCAAGAT 57.834 39.130 0.00 0.00 0.00 2.40
3764 4161 4.937620 ACCACTGTACACTAATGCAAGATG 59.062 41.667 0.00 0.00 0.00 2.90
3765 4162 4.937620 CCACTGTACACTAATGCAAGATGT 59.062 41.667 0.00 0.00 0.00 3.06
3766 4163 5.412594 CCACTGTACACTAATGCAAGATGTT 59.587 40.000 0.00 0.00 0.00 2.71
3767 4164 6.072508 CCACTGTACACTAATGCAAGATGTTT 60.073 38.462 0.00 0.00 0.00 2.83
3768 4165 7.017645 CACTGTACACTAATGCAAGATGTTTC 58.982 38.462 0.00 0.00 0.00 2.78
3769 4166 6.936900 ACTGTACACTAATGCAAGATGTTTCT 59.063 34.615 0.00 0.00 0.00 2.52
3770 4167 7.095060 ACTGTACACTAATGCAAGATGTTTCTG 60.095 37.037 0.00 0.00 30.72 3.02
3771 4168 5.051891 ACACTAATGCAAGATGTTTCTGC 57.948 39.130 0.00 0.00 30.72 4.26
3772 4169 4.520111 ACACTAATGCAAGATGTTTCTGCA 59.480 37.500 0.00 0.00 39.03 4.41
3773 4170 5.093457 CACTAATGCAAGATGTTTCTGCAG 58.907 41.667 7.63 7.63 38.50 4.41
3774 4171 2.649331 ATGCAAGATGTTTCTGCAGC 57.351 45.000 9.47 0.00 38.50 5.25
3775 4172 1.320507 TGCAAGATGTTTCTGCAGCA 58.679 45.000 9.47 1.20 33.78 4.41
3776 4173 1.682323 TGCAAGATGTTTCTGCAGCAA 59.318 42.857 9.47 0.30 34.28 3.91
3777 4174 2.056577 GCAAGATGTTTCTGCAGCAAC 58.943 47.619 20.54 20.54 30.72 4.17
3778 4175 2.544277 GCAAGATGTTTCTGCAGCAACA 60.544 45.455 29.52 29.52 35.80 3.33
3797 4194 7.331934 CAGCAACATCTTACATTAGTGTACAGT 59.668 37.037 8.55 8.55 40.40 3.55
3837 4234 8.783660 ACTCCCTCTGTTCACAATATAAGATA 57.216 34.615 0.00 0.00 0.00 1.98
3962 7832 3.642741 ATCCAGCCCTCCCGTTCCT 62.643 63.158 0.00 0.00 0.00 3.36
4020 7894 1.973515 ACAAGACACCATGAGCTCTCA 59.026 47.619 16.19 1.67 44.59 3.27
4085 7960 3.072468 CGACGGTGGGGCCTAAGA 61.072 66.667 0.84 0.00 34.25 2.10
4216 8122 4.154347 CGACAGGAGGAGGCAGCC 62.154 72.222 1.84 1.84 0.00 4.85
4247 8154 1.000646 GGTCTCCTCGAGAGTGGGT 60.001 63.158 15.71 0.00 44.63 4.51
4252 8159 0.469331 TCCTCGAGAGTGGGTTGTGT 60.469 55.000 15.71 0.00 44.63 3.72
4257 8185 1.270094 CGAGAGTGGGTTGTGTTGCTA 60.270 52.381 0.00 0.00 0.00 3.49
4279 8207 3.157949 TGTGTGTGCAGGGGACGA 61.158 61.111 0.00 0.00 0.00 4.20
4280 8208 2.665185 GTGTGTGCAGGGGACGAC 60.665 66.667 0.00 0.00 0.00 4.34
4282 8210 2.110213 GTGTGCAGGGGACGACAA 59.890 61.111 0.00 0.00 0.00 3.18
4300 8228 4.079850 CTGGAGAGCTGCTGCGGT 62.080 66.667 7.01 3.07 45.42 5.68
4320 8248 0.467290 GGTTGGCTGTTGTTGGAGGA 60.467 55.000 0.00 0.00 0.00 3.71
4360 8288 2.951642 CTGTTGTTTGCAGAGGAAGGAA 59.048 45.455 0.00 0.00 36.12 3.36
4361 8289 3.360867 TGTTGTTTGCAGAGGAAGGAAA 58.639 40.909 0.00 0.00 0.00 3.13
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 26 5.856126 TTGATCGTTCTGCGTTATTCTTT 57.144 34.783 0.00 0.00 42.13 2.52
26 27 6.092122 TCAATTGATCGTTCTGCGTTATTCTT 59.908 34.615 3.38 0.00 42.13 2.52
28 29 5.672856 GTCAATTGATCGTTCTGCGTTATTC 59.327 40.000 12.12 0.00 42.13 1.75
29 30 5.560148 GTCAATTGATCGTTCTGCGTTATT 58.440 37.500 12.12 0.00 42.13 1.40
31 32 3.060230 CGTCAATTGATCGTTCTGCGTTA 59.940 43.478 12.12 0.00 42.13 3.18
32 33 2.159841 CGTCAATTGATCGTTCTGCGTT 60.160 45.455 12.12 0.00 42.13 4.84
35 36 1.529826 GGCGTCAATTGATCGTTCTGC 60.530 52.381 22.44 13.81 0.00 4.26
36 37 1.731709 TGGCGTCAATTGATCGTTCTG 59.268 47.619 22.44 7.18 0.00 3.02
38 39 1.463056 TGTGGCGTCAATTGATCGTTC 59.537 47.619 22.44 17.46 0.00 3.95
39 40 1.518325 TGTGGCGTCAATTGATCGTT 58.482 45.000 22.44 0.00 0.00 3.85
40 41 1.196808 GTTGTGGCGTCAATTGATCGT 59.803 47.619 22.44 0.00 0.00 3.73
41 42 1.465689 GGTTGTGGCGTCAATTGATCG 60.466 52.381 12.12 16.78 0.00 3.69
42 43 1.539388 TGGTTGTGGCGTCAATTGATC 59.461 47.619 12.12 6.76 0.00 2.92
47 48 0.602562 CCAATGGTTGTGGCGTCAAT 59.397 50.000 0.00 0.00 0.00 2.57
51 52 1.150536 ACTCCAATGGTTGTGGCGT 59.849 52.632 0.00 0.00 35.99 5.68
54 55 1.535204 GCCCACTCCAATGGTTGTGG 61.535 60.000 27.16 27.16 42.73 4.17
73 74 2.126228 TCTTTCGGTGCGGCGTAG 60.126 61.111 9.37 0.00 0.00 3.51
74 75 2.431260 GTCTTTCGGTGCGGCGTA 60.431 61.111 9.37 0.00 0.00 4.42
78 79 3.110178 GTCGGTCTTTCGGTGCGG 61.110 66.667 0.00 0.00 0.00 5.69
82 83 0.966920 ACATCAGTCGGTCTTTCGGT 59.033 50.000 0.00 0.00 0.00 4.69
95 96 1.135603 CGCCAATGGTTGTGACATCAG 60.136 52.381 0.00 0.00 0.00 2.90
136 137 1.803334 TGCCAATACGTCAACTGGTC 58.197 50.000 0.00 0.00 0.00 4.02
139 140 1.202177 GCCATGCCAATACGTCAACTG 60.202 52.381 0.00 0.00 0.00 3.16
140 141 1.094785 GCCATGCCAATACGTCAACT 58.905 50.000 0.00 0.00 0.00 3.16
141 142 1.094785 AGCCATGCCAATACGTCAAC 58.905 50.000 0.00 0.00 0.00 3.18
165 166 4.223964 GTCTTTCGATGCGGCGCC 62.224 66.667 30.82 19.07 0.00 6.53
167 168 3.913573 CGGTCTTTCGATGCGGCG 61.914 66.667 0.51 0.51 0.00 6.46
169 170 4.420143 ATCGGTCTTTCGATGCGG 57.580 55.556 0.00 0.00 46.52 5.69
174 175 3.250744 GTGACATCAATCGGTCTTTCGA 58.749 45.455 0.00 0.00 43.61 3.71
175 176 2.993220 TGTGACATCAATCGGTCTTTCG 59.007 45.455 0.00 0.00 35.11 3.46
178 179 3.074412 GGTTGTGACATCAATCGGTCTT 58.926 45.455 0.00 0.00 35.11 3.01
179 180 2.038426 TGGTTGTGACATCAATCGGTCT 59.962 45.455 0.00 0.00 35.11 3.85
180 181 2.422597 TGGTTGTGACATCAATCGGTC 58.577 47.619 0.00 0.00 31.79 4.79
181 182 2.559698 TGGTTGTGACATCAATCGGT 57.440 45.000 0.00 0.00 31.79 4.69
182 183 3.427909 CCAATGGTTGTGACATCAATCGG 60.428 47.826 0.00 0.00 31.79 4.18
183 184 3.761657 CCAATGGTTGTGACATCAATCG 58.238 45.455 0.00 0.00 31.79 3.34
184 185 3.514645 GCCAATGGTTGTGACATCAATC 58.485 45.455 0.00 0.00 0.00 2.67
211 212 2.250939 TCTTTTCGGTGTGGCGCAG 61.251 57.895 10.83 0.00 0.00 5.18
225 226 5.241506 CACACCAATACATCAACTGGTCTTT 59.758 40.000 0.00 0.00 40.23 2.52
231 232 2.164219 GCCCACACCAATACATCAACTG 59.836 50.000 0.00 0.00 0.00 3.16
239 240 3.187058 CGCAGCCCACACCAATAC 58.813 61.111 0.00 0.00 0.00 1.89
252 253 2.799502 TCTTTCGACGTCGCGCAG 60.800 61.111 32.19 24.52 39.60 5.18
254 255 3.824510 GGTCTTTCGACGTCGCGC 61.825 66.667 32.19 18.17 41.16 6.86
255 256 3.521220 CGGTCTTTCGACGTCGCG 61.521 66.667 32.19 23.56 41.16 5.87
259 260 2.649331 ATCAATCGGTCTTTCGACGT 57.351 45.000 0.00 0.00 42.21 4.34
260 261 4.870315 GATATCAATCGGTCTTTCGACG 57.130 45.455 0.00 0.00 42.21 5.12
303 304 2.182614 AATTGGTCTTTCGGTGCGCG 62.183 55.000 0.00 0.00 0.00 6.86
304 305 0.729140 CAATTGGTCTTTCGGTGCGC 60.729 55.000 0.00 0.00 0.00 6.09
320 321 2.162208 GCATCAATGGTGTGACGTCAAT 59.838 45.455 21.95 7.28 0.00 2.57
328 329 0.172578 CAGCCTGCATCAATGGTGTG 59.827 55.000 0.00 0.00 0.00 3.82
329 330 1.601419 GCAGCCTGCATCAATGGTGT 61.601 55.000 12.82 0.00 44.26 4.16
330 331 1.141019 GCAGCCTGCATCAATGGTG 59.859 57.895 12.82 0.00 44.26 4.17
331 332 2.412323 CGCAGCCTGCATCAATGGT 61.412 57.895 18.21 0.00 45.36 3.55
332 333 2.411701 CGCAGCCTGCATCAATGG 59.588 61.111 18.21 0.00 45.36 3.16
354 355 2.498481 TGGTATCAATCGGTCTTTCGGT 59.502 45.455 0.00 0.00 0.00 4.69
372 373 3.669344 CGCGCCAATGGTTGTGGT 61.669 61.111 0.00 0.00 38.50 4.16
373 374 4.418401 CCGCGCCAATGGTTGTGG 62.418 66.667 0.00 10.86 39.33 4.17
472 520 2.672651 CGCAGCCCACACCAATGA 60.673 61.111 0.00 0.00 0.00 2.57
533 581 1.094785 GGTATTTCAGTGTGGCGCAT 58.905 50.000 10.83 0.00 0.00 4.73
597 645 1.234821 GATTGTGACGGCAACCAGAA 58.765 50.000 0.00 0.00 0.00 3.02
599 647 0.238289 GTGATTGTGACGGCAACCAG 59.762 55.000 0.00 0.00 0.00 4.00
655 703 9.353431 GCTTCCTAAGTTTATAGTAGTACCTCT 57.647 37.037 0.00 0.00 0.00 3.69
656 704 8.288913 CGCTTCCTAAGTTTATAGTAGTACCTC 58.711 40.741 0.00 0.00 0.00 3.85
658 706 7.013750 ACCGCTTCCTAAGTTTATAGTAGTACC 59.986 40.741 0.00 0.00 0.00 3.34
661 709 6.604795 TGACCGCTTCCTAAGTTTATAGTAGT 59.395 38.462 0.00 0.00 0.00 2.73
662 710 7.035840 TGACCGCTTCCTAAGTTTATAGTAG 57.964 40.000 0.00 0.00 0.00 2.57
664 712 5.927281 TGACCGCTTCCTAAGTTTATAGT 57.073 39.130 0.00 0.00 0.00 2.12
665 713 8.882415 TTTATGACCGCTTCCTAAGTTTATAG 57.118 34.615 0.00 0.00 0.00 1.31
672 720 7.976734 CCTCTATATTTATGACCGCTTCCTAAG 59.023 40.741 0.00 0.00 0.00 2.18
746 794 5.413523 TCCTCCGGCTTTAGTATTTTTGTTC 59.586 40.000 0.00 0.00 0.00 3.18
754 802 3.477530 GCATTTCCTCCGGCTTTAGTAT 58.522 45.455 0.00 0.00 0.00 2.12
757 805 1.025041 GGCATTTCCTCCGGCTTTAG 58.975 55.000 0.00 0.00 0.00 1.85
764 836 1.815421 CGTCCAGGCATTTCCTCCG 60.815 63.158 0.00 0.00 45.52 4.63
791 883 2.002977 CCCCCTCTCCCATGCTTCA 61.003 63.158 0.00 0.00 0.00 3.02
1103 1463 2.079158 CCTTCTGCTGCGAGAAATTGA 58.921 47.619 13.01 0.00 31.52 2.57
1104 1464 1.808945 ACCTTCTGCTGCGAGAAATTG 59.191 47.619 13.01 8.74 31.52 2.32
1207 1568 4.955774 GTGTCCGCCGTCCACGTT 62.956 66.667 0.00 0.00 37.74 3.99
1381 1748 6.128363 CCGTTCTACTTGAAATTACTTGACCC 60.128 42.308 0.00 0.00 36.30 4.46
1518 1887 4.287766 TCTTCCTGTTAGAAAAGGGAGC 57.712 45.455 2.11 0.00 38.87 4.70
1560 1929 5.299148 TGCATGCATATTGGCTAATTTTCC 58.701 37.500 18.46 0.00 34.04 3.13
1627 2000 5.136068 AGAGAGAGAGAGAGAGAGAGAGA 57.864 47.826 0.00 0.00 0.00 3.10
1628 2001 4.892345 TGAGAGAGAGAGAGAGAGAGAGAG 59.108 50.000 0.00 0.00 0.00 3.20
1629 2002 4.871822 TGAGAGAGAGAGAGAGAGAGAGA 58.128 47.826 0.00 0.00 0.00 3.10
1630 2003 4.892345 TCTGAGAGAGAGAGAGAGAGAGAG 59.108 50.000 0.00 0.00 0.00 3.20
1631 2004 4.871822 TCTGAGAGAGAGAGAGAGAGAGA 58.128 47.826 0.00 0.00 0.00 3.10
1632 2005 5.804944 ATCTGAGAGAGAGAGAGAGAGAG 57.195 47.826 0.00 0.00 32.80 3.20
1633 2006 8.956446 TTATATCTGAGAGAGAGAGAGAGAGA 57.044 38.462 0.00 0.00 32.80 3.10
1808 2181 1.429021 CGGCGATGTGATTTGTGGG 59.571 57.895 0.00 0.00 0.00 4.61
2065 2438 6.469410 TGGGTTGTCAATTACGTAAGAGATT 58.531 36.000 14.25 0.01 43.62 2.40
2142 2516 1.064017 ACAAAGGAGGTCCAGTTGCAA 60.064 47.619 0.00 0.00 37.01 4.08
2211 2586 7.203218 GCAAAACAAATGAGGAAACTTCTAGT 58.797 34.615 0.00 0.00 44.43 2.57
2260 2635 2.032178 GTCGGCATGATGCTAAAGGTTC 59.968 50.000 17.84 0.00 44.28 3.62
2500 2892 5.627499 AGCACAATCGTTAAATCATGTGT 57.373 34.783 11.83 0.00 40.10 3.72
2514 2906 8.462016 ACAACATTCCTATAAAGAAGCACAATC 58.538 33.333 0.00 0.00 0.00 2.67
2561 2953 7.960793 ACTTTAAGTAAGCAACTAAGCATACG 58.039 34.615 0.00 0.00 41.93 3.06
2684 3076 0.538057 CTGTGGTGCAGTGTCCCATT 60.538 55.000 6.24 0.00 40.27 3.16
2695 3087 2.985847 GGGTGGCTTCTGTGGTGC 60.986 66.667 0.00 0.00 0.00 5.01
2710 3102 0.583438 CGAGAGCGCATACATTTGGG 59.417 55.000 11.47 0.00 0.00 4.12
2801 3194 7.472334 AATCTTTGACAAAATACAGGCAGAT 57.528 32.000 1.62 0.00 0.00 2.90
2844 3237 4.454504 ACGACGCAGATTTAAATTTCCACT 59.545 37.500 1.43 0.00 0.00 4.00
2845 3238 4.553429 CACGACGCAGATTTAAATTTCCAC 59.447 41.667 1.43 0.00 0.00 4.02
2868 3261 4.253685 TCTGTAGTAGAACCTGCAAATGC 58.746 43.478 0.00 0.00 35.29 3.56
2938 3332 0.247736 GGTCGCTCATGTCCTTCTGT 59.752 55.000 0.00 0.00 0.00 3.41
3402 3796 0.025256 GTCGTCGCTACTCAGACTCG 59.975 60.000 0.00 0.00 35.38 4.18
3430 3825 3.319137 TGTGGATCCTTCAGAACTTCG 57.681 47.619 14.23 0.00 0.00 3.79
3629 4025 1.883084 CATTAGTGACCGAGCGGCC 60.883 63.158 9.14 0.00 39.32 6.13
3634 4030 4.106197 GCAGTACTTCATTAGTGACCGAG 58.894 47.826 0.00 0.00 37.73 4.63
3659 4055 3.133003 CACGTATCCAGGGAATCTGAACT 59.867 47.826 0.00 0.00 46.18 3.01
3720 4117 5.700832 TGGTAGTACTTGCAGAAACATCTTG 59.299 40.000 0.00 0.00 0.00 3.02
3729 4126 4.022589 GTGTACAGTGGTAGTACTTGCAGA 60.023 45.833 0.00 0.00 41.76 4.26
3730 4127 4.022242 AGTGTACAGTGGTAGTACTTGCAG 60.022 45.833 0.00 0.00 41.76 4.41
3731 4128 3.893200 AGTGTACAGTGGTAGTACTTGCA 59.107 43.478 0.00 0.00 41.76 4.08
3732 4129 4.516365 AGTGTACAGTGGTAGTACTTGC 57.484 45.455 0.00 0.00 41.76 4.01
3733 4130 6.530534 GCATTAGTGTACAGTGGTAGTACTTG 59.469 42.308 13.66 0.00 41.76 3.16
3734 4131 6.209986 TGCATTAGTGTACAGTGGTAGTACTT 59.790 38.462 13.66 0.00 41.76 2.24
3735 4132 5.713389 TGCATTAGTGTACAGTGGTAGTACT 59.287 40.000 13.66 0.00 41.76 2.73
3736 4133 5.957798 TGCATTAGTGTACAGTGGTAGTAC 58.042 41.667 13.66 0.00 41.63 2.73
3737 4134 6.434965 TCTTGCATTAGTGTACAGTGGTAGTA 59.565 38.462 13.66 0.00 0.00 1.82
3738 4135 5.245301 TCTTGCATTAGTGTACAGTGGTAGT 59.755 40.000 13.66 0.00 0.00 2.73
3739 4136 5.720202 TCTTGCATTAGTGTACAGTGGTAG 58.280 41.667 13.66 2.21 0.00 3.18
3740 4137 5.731957 TCTTGCATTAGTGTACAGTGGTA 57.268 39.130 13.66 0.02 0.00 3.25
3741 4138 4.617253 TCTTGCATTAGTGTACAGTGGT 57.383 40.909 13.66 0.00 0.00 4.16
3742 4139 4.937620 ACATCTTGCATTAGTGTACAGTGG 59.062 41.667 13.66 4.22 0.00 4.00
3743 4140 6.486253 AACATCTTGCATTAGTGTACAGTG 57.514 37.500 13.66 3.58 0.00 3.66
3744 4141 6.936900 AGAAACATCTTGCATTAGTGTACAGT 59.063 34.615 8.55 8.55 0.00 3.55
3745 4142 7.239271 CAGAAACATCTTGCATTAGTGTACAG 58.761 38.462 0.00 0.00 0.00 2.74
3746 4143 6.348458 GCAGAAACATCTTGCATTAGTGTACA 60.348 38.462 0.00 0.00 0.00 2.90
3747 4144 6.024049 GCAGAAACATCTTGCATTAGTGTAC 58.976 40.000 0.00 0.00 0.00 2.90
3748 4145 5.704978 TGCAGAAACATCTTGCATTAGTGTA 59.295 36.000 0.00 0.00 0.00 2.90
3749 4146 4.520111 TGCAGAAACATCTTGCATTAGTGT 59.480 37.500 0.00 0.00 0.00 3.55
3750 4147 5.050644 TGCAGAAACATCTTGCATTAGTG 57.949 39.130 0.00 0.00 0.00 2.74
3751 4148 4.380233 GCTGCAGAAACATCTTGCATTAGT 60.380 41.667 20.43 0.00 34.85 2.24
3752 4149 4.103357 GCTGCAGAAACATCTTGCATTAG 58.897 43.478 20.43 0.00 34.85 1.73
3753 4150 3.506844 TGCTGCAGAAACATCTTGCATTA 59.493 39.130 20.43 0.00 34.85 1.90
3754 4151 2.297880 TGCTGCAGAAACATCTTGCATT 59.702 40.909 20.43 0.00 34.85 3.56
3755 4152 1.890489 TGCTGCAGAAACATCTTGCAT 59.110 42.857 20.43 0.00 34.85 3.96
3756 4153 1.320507 TGCTGCAGAAACATCTTGCA 58.679 45.000 20.43 1.08 0.00 4.08
3757 4154 2.056577 GTTGCTGCAGAAACATCTTGC 58.943 47.619 29.38 6.50 33.71 4.01
3758 4155 3.358707 TGTTGCTGCAGAAACATCTTG 57.641 42.857 32.42 0.00 38.60 3.02
3763 4160 3.882288 TGTAAGATGTTGCTGCAGAAACA 59.118 39.130 36.47 36.47 46.71 2.83
3764 4161 4.488126 TGTAAGATGTTGCTGCAGAAAC 57.512 40.909 28.00 28.00 34.12 2.78
3765 4162 5.710513 AATGTAAGATGTTGCTGCAGAAA 57.289 34.783 20.43 11.53 0.00 2.52
3766 4163 5.939883 ACTAATGTAAGATGTTGCTGCAGAA 59.060 36.000 20.43 2.96 0.00 3.02
3767 4164 5.352293 CACTAATGTAAGATGTTGCTGCAGA 59.648 40.000 20.43 0.00 0.00 4.26
3768 4165 5.122869 ACACTAATGTAAGATGTTGCTGCAG 59.877 40.000 10.11 10.11 37.26 4.41
3769 4166 5.003160 ACACTAATGTAAGATGTTGCTGCA 58.997 37.500 0.00 0.00 37.26 4.41
3770 4167 5.551760 ACACTAATGTAAGATGTTGCTGC 57.448 39.130 0.00 0.00 37.26 5.25
3771 4168 7.331934 ACTGTACACTAATGTAAGATGTTGCTG 59.668 37.037 0.00 0.00 42.99 4.41
3772 4169 7.331934 CACTGTACACTAATGTAAGATGTTGCT 59.668 37.037 0.00 0.00 42.99 3.91
3773 4170 7.413000 CCACTGTACACTAATGTAAGATGTTGC 60.413 40.741 0.00 0.00 42.99 4.17
3774 4171 7.602644 ACCACTGTACACTAATGTAAGATGTTG 59.397 37.037 0.00 0.00 42.99 3.33
3775 4172 7.676947 ACCACTGTACACTAATGTAAGATGTT 58.323 34.615 0.00 0.00 42.99 2.71
3776 4173 7.241042 ACCACTGTACACTAATGTAAGATGT 57.759 36.000 0.00 0.00 42.99 3.06
3777 4174 8.467598 ACTACCACTGTACACTAATGTAAGATG 58.532 37.037 0.00 0.00 42.99 2.90
3778 4175 8.591114 ACTACCACTGTACACTAATGTAAGAT 57.409 34.615 0.00 0.00 42.99 2.40
3837 4234 5.018809 AGCCCATATCGGAATATGCAAAAT 58.981 37.500 0.00 0.00 42.30 1.82
3849 4246 3.074412 GGTTCAACATAGCCCATATCGG 58.926 50.000 0.00 0.00 0.00 4.18
3851 4248 3.074412 CCGGTTCAACATAGCCCATATC 58.926 50.000 0.00 0.00 0.00 1.63
3892 4289 2.749800 GCTTGGGCCCTAAGTGATAAGG 60.750 54.545 25.70 0.00 0.00 2.69
3962 7832 0.949397 CGTGTATGGCGGCTCTACTA 59.051 55.000 11.43 1.26 0.00 1.82
4020 7894 3.108376 GAGGGGAAGTACCTTCAGACAT 58.892 50.000 6.34 0.00 41.77 3.06
4120 8026 3.357079 CACACCGCACCTTCCAGC 61.357 66.667 0.00 0.00 0.00 4.85
4201 8107 4.704103 TCGGCTGCCTCCTCCTGT 62.704 66.667 17.92 0.00 0.00 4.00
4216 8122 3.708220 GAGACCAAGCCGCTCCTCG 62.708 68.421 0.00 0.00 38.08 4.63
4247 8154 1.003008 CACACACGCATAGCAACACAA 60.003 47.619 0.00 0.00 0.00 3.33
4252 8159 1.162800 TGCACACACACGCATAGCAA 61.163 50.000 0.00 0.00 31.95 3.91
4257 8185 2.979676 CCCTGCACACACACGCAT 60.980 61.111 0.00 0.00 37.54 4.73
4279 8207 1.302351 GCAGCAGCTCTCCAGTTGT 60.302 57.895 0.00 0.00 37.91 3.32
4280 8208 2.389020 CGCAGCAGCTCTCCAGTTG 61.389 63.158 0.00 0.00 39.10 3.16
4282 8210 4.079850 CCGCAGCAGCTCTCCAGT 62.080 66.667 0.00 0.00 39.10 4.00
4300 8228 0.754957 CCTCCAACAACAGCCAACCA 60.755 55.000 0.00 0.00 0.00 3.67
4320 8248 4.445448 AACAGCAGTTCCAGAGAATCTTGT 60.445 41.667 0.00 0.00 36.83 3.16


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

AutoCloner maintained by Alex Coulton.