Multiple sequence alignment - TraesCS5D01G376400

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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 TraesCS5D01G376400 chr5D 100.000 3707 0 0 1 3707 449013904 449017610 0.000000e+00 6846.0
1 TraesCS5D01G376400 chr5A 93.247 2310 111 18 460 2741 567780606 567782898 0.000000e+00 3360.0
2 TraesCS5D01G376400 chr5A 88.253 1362 112 18 1006 2334 567896471 567897817 0.000000e+00 1585.0
3 TraesCS5D01G376400 chr5A 91.181 669 44 4 2327 2980 567900013 567900681 0.000000e+00 894.0
4 TraesCS5D01G376400 chr5A 90.727 399 34 3 2990 3386 567901463 567901860 2.540000e-146 529.0
5 TraesCS5D01G376400 chr5A 85.746 456 52 11 1 446 567779952 567780404 1.560000e-128 470.0
6 TraesCS5D01G376400 chr5A 86.093 302 33 4 3374 3674 567901907 567902200 2.150000e-82 316.0
7 TraesCS5D01G376400 chr5A 79.730 148 25 2 3374 3516 568035412 568035559 6.550000e-18 102.0
8 TraesCS5D01G376400 chr5B 91.044 2021 129 22 1004 2980 549082933 549080921 0.000000e+00 2682.0
9 TraesCS5D01G376400 chr5B 84.641 306 35 1 3374 3679 549002940 549002647 1.010000e-75 294.0
10 TraesCS5D01G376400 chr7B 80.059 1685 216 71 1055 2674 643338843 643340472 0.000000e+00 1140.0
11 TraesCS5D01G376400 chr7B 74.113 1043 190 50 1064 2079 42778719 42777730 1.270000e-94 357.0
12 TraesCS5D01G376400 chr7B 82.960 223 34 4 3154 3374 666662405 666662625 8.120000e-47 198.0
13 TraesCS5D01G376400 chr7B 78.000 250 43 11 3097 3336 88643062 88643309 2.980000e-31 147.0
14 TraesCS5D01G376400 chr7B 88.235 119 14 0 3561 3679 502655455 502655337 3.860000e-30 143.0
15 TraesCS5D01G376400 chr7D 79.839 1617 204 74 1117 2657 579141628 579143198 0.000000e+00 1068.0
16 TraesCS5D01G376400 chr7D 76.166 772 129 35 1064 1815 91810232 91810968 4.550000e-94 355.0
17 TraesCS5D01G376400 chr7A 74.067 1045 187 52 1064 2079 93488356 93489345 5.890000e-93 351.0
18 TraesCS5D01G376400 chr7A 84.753 223 31 3 3154 3374 688028927 688028706 1.730000e-53 220.0
19 TraesCS5D01G376400 chr7A 77.823 248 36 16 13 245 243653252 243653009 6.460000e-28 135.0
20 TraesCS5D01G376400 chr2A 74.664 521 91 34 1 503 203245387 203245884 3.780000e-45 193.0
21 TraesCS5D01G376400 chr2A 89.600 125 11 2 3556 3679 463651433 463651556 1.380000e-34 158.0
22 TraesCS5D01G376400 chr1A 84.925 199 21 8 3165 3357 147790820 147791015 3.780000e-45 193.0
23 TraesCS5D01G376400 chr1A 87.023 131 16 1 3550 3679 25675588 25675718 2.980000e-31 147.0
24 TraesCS5D01G376400 chr1A 87.023 131 16 1 3550 3679 71314692 71314562 2.980000e-31 147.0
25 TraesCS5D01G376400 chr2B 87.786 131 15 1 3550 3679 40500629 40500499 6.410000e-33 152.0
26 TraesCS5D01G376400 chr2B 97.143 35 1 0 1 35 632510942 632510908 4.000000e-05 60.2
27 TraesCS5D01G376400 chr4D 87.903 124 15 0 3556 3679 483596246 483596369 2.980000e-31 147.0
28 TraesCS5D01G376400 chr2D 81.026 195 19 14 1 187 372595725 372595909 4.990000e-29 139.0
29 TraesCS5D01G376400 chr3B 78.894 199 30 10 1 192 148066629 148066436 1.400000e-24 124.0
30 TraesCS5D01G376400 chr3B 77.419 186 33 9 7 190 755050753 755050575 6.550000e-18 102.0
31 TraesCS5D01G376400 chr3D 78.571 196 31 10 1 190 567214278 567214468 6.500000e-23 119.0
32 TraesCS5D01G376400 chr4A 77.114 201 31 12 65 263 67987895 67987708 6.550000e-18 102.0
33 TraesCS5D01G376400 chr4B 75.248 202 40 7 1 193 125961403 125961203 1.830000e-13 87.9
34 TraesCS5D01G376400 chr1D 100.000 28 0 0 2954 2981 391099119 391099092 7.000000e-03 52.8


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS5D01G376400 chr5D 449013904 449017610 3706 False 6846 6846 100.0000 1 3707 1 chr5D.!!$F1 3706
1 TraesCS5D01G376400 chr5A 567779952 567782898 2946 False 1915 3360 89.4965 1 2741 2 chr5A.!!$F2 2740
2 TraesCS5D01G376400 chr5A 567896471 567902200 5729 False 831 1585 89.0635 1006 3674 4 chr5A.!!$F3 2668
3 TraesCS5D01G376400 chr5B 549080921 549082933 2012 True 2682 2682 91.0440 1004 2980 1 chr5B.!!$R2 1976
4 TraesCS5D01G376400 chr7B 643338843 643340472 1629 False 1140 1140 80.0590 1055 2674 1 chr7B.!!$F2 1619
5 TraesCS5D01G376400 chr7B 42777730 42778719 989 True 357 357 74.1130 1064 2079 1 chr7B.!!$R1 1015
6 TraesCS5D01G376400 chr7D 579141628 579143198 1570 False 1068 1068 79.8390 1117 2657 1 chr7D.!!$F2 1540
7 TraesCS5D01G376400 chr7D 91810232 91810968 736 False 355 355 76.1660 1064 1815 1 chr7D.!!$F1 751
8 TraesCS5D01G376400 chr7A 93488356 93489345 989 False 351 351 74.0670 1064 2079 1 chr7A.!!$F1 1015

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
860 1071 0.173481 TCGATGCGAGAGAAAGTGGG 59.827 55.0 0.00 0.0 0.00 4.61 F
897 1108 0.612453 GGTGGCCATTCGGGGTTTAA 60.612 55.0 9.72 0.0 37.04 1.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1747 2016 0.108804 TTTGCGATGTCCCTCTCGAC 60.109 55.0 0.00 0.0 37.05 4.20 R
2813 5373 0.317103 CTACCACCGAGATCGAAGCG 60.317 60.0 3.31 0.0 43.02 4.68 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
75 76 5.163581 CCTTCTTGGCAATGAATTAGTGGAG 60.164 44.000 0.00 0.00 0.00 3.86
85 86 8.850156 GCAATGAATTAGTGGAGTTGGTATTAT 58.150 33.333 0.00 0.00 0.00 1.28
93 94 7.138054 AGTGGAGTTGGTATTATCCTTAAGG 57.862 40.000 15.98 15.98 32.79 2.69
155 163 3.287867 AGGATGAACTAGTGGCATTGG 57.712 47.619 11.50 0.00 0.00 3.16
166 174 4.331159 AGTGGCATTGGTATTACCCTTT 57.669 40.909 10.37 0.00 37.50 3.11
172 180 6.605594 TGGCATTGGTATTACCCTTTAAGAAG 59.394 38.462 10.37 0.00 37.50 2.85
173 181 6.831868 GGCATTGGTATTACCCTTTAAGAAGA 59.168 38.462 10.37 0.00 37.50 2.87
175 183 8.406297 GCATTGGTATTACCCTTTAAGAAGAAG 58.594 37.037 10.37 0.00 37.50 2.85
176 184 9.681062 CATTGGTATTACCCTTTAAGAAGAAGA 57.319 33.333 10.37 0.00 37.50 2.87
211 223 7.897575 AAAACACAACTTTGCACAGAAATTA 57.102 28.000 6.92 0.00 0.00 1.40
213 225 5.960113 ACACAACTTTGCACAGAAATTACA 58.040 33.333 6.92 0.00 0.00 2.41
219 231 7.755582 ACTTTGCACAGAAATTACACTTTTC 57.244 32.000 6.92 0.00 34.08 2.29
220 232 6.756542 ACTTTGCACAGAAATTACACTTTTCC 59.243 34.615 6.92 0.00 34.34 3.13
268 282 5.401550 TGCAGTGCAATTTCATACTTTAGC 58.598 37.500 17.26 0.00 34.76 3.09
275 289 8.734030 GTGCAATTTCATACTTTAGCGTAATTC 58.266 33.333 0.00 0.00 0.00 2.17
281 295 7.285783 TCATACTTTAGCGTAATTCACACAC 57.714 36.000 0.00 0.00 0.00 3.82
293 307 6.255670 CGTAATTCACACACATACTGCATACT 59.744 38.462 0.00 0.00 0.00 2.12
299 313 5.869344 CACACACATACTGCATACTACTTGT 59.131 40.000 0.00 0.00 0.00 3.16
328 342 0.182299 TGCACACTCACCCAACATCA 59.818 50.000 0.00 0.00 0.00 3.07
330 344 1.965935 CACACTCACCCAACATCACA 58.034 50.000 0.00 0.00 0.00 3.58
385 399 8.678199 ACCAACTAGAAAGAAAAGAGAAAACAG 58.322 33.333 0.00 0.00 0.00 3.16
451 468 4.602006 GCTTCAAGCCCGATAGAAAAATC 58.398 43.478 0.00 0.00 34.48 2.17
452 469 4.096382 GCTTCAAGCCCGATAGAAAAATCA 59.904 41.667 0.00 0.00 34.48 2.57
455 472 4.398044 TCAAGCCCGATAGAAAAATCAACC 59.602 41.667 0.00 0.00 39.76 3.77
469 674 0.534203 TCAACCGACTCCAAACAGGC 60.534 55.000 0.00 0.00 37.29 4.85
484 689 6.097554 TCCAAACAGGCTAAGTCAAAAATTCA 59.902 34.615 0.00 0.00 37.29 2.57
497 702 4.648762 TCAAAAATTCAGTCCAAGAAGCCA 59.351 37.500 0.00 0.00 0.00 4.75
507 712 3.696051 GTCCAAGAAGCCATGAAATAGCA 59.304 43.478 0.00 0.00 31.57 3.49
531 736 6.085458 CACGAATCTTGACAAAAGAATCAACG 59.915 38.462 0.00 0.00 31.62 4.10
533 738 7.017645 CGAATCTTGACAAAAGAATCAACGAT 58.982 34.615 0.00 0.00 31.62 3.73
534 739 7.006831 CGAATCTTGACAAAAGAATCAACGATG 59.993 37.037 0.00 0.00 31.62 3.84
535 740 6.859420 TCTTGACAAAAGAATCAACGATGA 57.141 33.333 0.00 0.00 40.57 2.92
536 741 6.891624 TCTTGACAAAAGAATCAACGATGAG 58.108 36.000 0.82 0.00 39.39 2.90
537 742 6.705825 TCTTGACAAAAGAATCAACGATGAGA 59.294 34.615 0.82 0.00 39.39 3.27
541 746 7.643764 TGACAAAAGAATCAACGATGAGAAAAC 59.356 33.333 0.82 0.00 39.39 2.43
542 747 7.707104 ACAAAAGAATCAACGATGAGAAAACT 58.293 30.769 0.82 0.00 39.39 2.66
543 748 7.645340 ACAAAAGAATCAACGATGAGAAAACTG 59.355 33.333 0.82 0.00 39.39 3.16
544 749 7.496529 AAAGAATCAACGATGAGAAAACTGA 57.503 32.000 0.82 0.00 39.39 3.41
545 750 6.473397 AGAATCAACGATGAGAAAACTGAC 57.527 37.500 0.82 0.00 39.39 3.51
546 751 6.226787 AGAATCAACGATGAGAAAACTGACT 58.773 36.000 0.82 0.00 39.39 3.41
549 754 6.764877 TCAACGATGAGAAAACTGACTTAC 57.235 37.500 0.00 0.00 0.00 2.34
557 762 8.934023 ATGAGAAAACTGACTTACCCAAATTA 57.066 30.769 0.00 0.00 0.00 1.40
559 764 8.626526 TGAGAAAACTGACTTACCCAAATTAAC 58.373 33.333 0.00 0.00 0.00 2.01
567 772 7.375053 TGACTTACCCAAATTAACAAATCAGC 58.625 34.615 0.00 0.00 0.00 4.26
570 775 5.559148 ACCCAAATTAACAAATCAGCCAA 57.441 34.783 0.00 0.00 0.00 4.52
584 789 7.557719 ACAAATCAGCCAACTTACATATAGCTT 59.442 33.333 0.00 0.00 0.00 3.74
605 810 3.211045 TGCTGGAGTTAAAAGTGTGGAC 58.789 45.455 0.00 0.00 0.00 4.02
624 829 3.248266 GACGTATGTCCGCTTTGTAGTT 58.752 45.455 3.50 0.00 39.30 2.24
649 854 5.117406 ACCTGGGCTTCCTTAATAGAAAG 57.883 43.478 0.00 0.00 0.00 2.62
695 904 6.942532 AAAAAGTTGAACTCTGCTCATACA 57.057 33.333 0.00 0.00 0.00 2.29
737 946 9.820229 TTTACAAAGTCGTCAATTTATGATCAC 57.180 29.630 0.00 0.00 40.97 3.06
738 947 6.842163 ACAAAGTCGTCAATTTATGATCACC 58.158 36.000 0.00 0.00 40.97 4.02
741 950 6.668541 AGTCGTCAATTTATGATCACCTTG 57.331 37.500 0.00 0.00 40.97 3.61
744 953 4.498009 CGTCAATTTATGATCACCTTGGGC 60.498 45.833 0.00 0.00 40.97 5.36
745 954 4.646492 GTCAATTTATGATCACCTTGGGCT 59.354 41.667 0.00 0.00 40.97 5.19
746 955 5.127682 GTCAATTTATGATCACCTTGGGCTT 59.872 40.000 0.00 0.00 40.97 4.35
747 956 5.360714 TCAATTTATGATCACCTTGGGCTTC 59.639 40.000 0.00 0.00 31.50 3.86
778 988 0.528924 CGATGACCTTCACCGTGGTA 59.471 55.000 0.00 0.00 36.59 3.25
790 1000 2.403378 CGTGGTATTGGGGTTGCGG 61.403 63.158 0.00 0.00 0.00 5.69
792 1002 3.144871 GGTATTGGGGTTGCGGGC 61.145 66.667 0.00 0.00 0.00 6.13
793 1003 2.361865 GTATTGGGGTTGCGGGCA 60.362 61.111 0.00 0.00 0.00 5.36
809 1019 2.327592 CACACGCGCAACACATGT 59.672 55.556 5.73 0.00 0.00 3.21
860 1071 0.173481 TCGATGCGAGAGAAAGTGGG 59.827 55.000 0.00 0.00 0.00 4.61
861 1072 0.173481 CGATGCGAGAGAAAGTGGGA 59.827 55.000 0.00 0.00 0.00 4.37
897 1108 0.612453 GGTGGCCATTCGGGGTTTAA 60.612 55.000 9.72 0.00 37.04 1.52
900 1111 1.100510 GGCCATTCGGGGTTTAAGTC 58.899 55.000 0.00 0.00 37.04 3.01
925 1136 2.031870 CTTGGGCTTAGGGTTTATGCC 58.968 52.381 0.00 0.00 42.56 4.40
930 1141 2.158856 GGCTTAGGGTTTATGCCGTACT 60.159 50.000 0.00 0.00 33.96 2.73
931 1142 3.129109 GCTTAGGGTTTATGCCGTACTC 58.871 50.000 0.00 0.00 0.00 2.59
935 1146 4.397481 AGGGTTTATGCCGTACTCTTAC 57.603 45.455 0.00 0.00 0.00 2.34
955 1170 7.110810 TCTTACAGCCACGCTCTATATATAGT 58.889 38.462 17.44 0.00 36.40 2.12
975 1190 1.557099 AGTACCTCTGCCATTGACGA 58.443 50.000 0.00 0.00 0.00 4.20
983 1198 2.689553 TGCCATTGACGAGCAGATTA 57.310 45.000 0.00 0.00 31.65 1.75
984 1199 3.198409 TGCCATTGACGAGCAGATTAT 57.802 42.857 0.00 0.00 31.65 1.28
985 1200 3.544684 TGCCATTGACGAGCAGATTATT 58.455 40.909 0.00 0.00 31.65 1.40
987 1202 4.751600 TGCCATTGACGAGCAGATTATTAG 59.248 41.667 0.00 0.00 31.65 1.73
988 1203 4.377841 GCCATTGACGAGCAGATTATTAGC 60.378 45.833 0.00 0.00 0.00 3.09
989 1204 4.751600 CCATTGACGAGCAGATTATTAGCA 59.248 41.667 0.00 0.00 0.00 3.49
991 1206 5.718649 TTGACGAGCAGATTATTAGCAAC 57.281 39.130 0.00 0.00 0.00 4.17
992 1207 5.011090 TGACGAGCAGATTATTAGCAACT 57.989 39.130 0.00 0.00 0.00 3.16
994 1209 6.569780 TGACGAGCAGATTATTAGCAACTAA 58.430 36.000 0.00 0.00 0.00 2.24
1030 1245 1.006337 GCCTCCGATCAGCAGCTAG 60.006 63.158 0.00 0.00 0.00 3.42
1321 1560 3.695606 GCAGCCTGGACGACCTCA 61.696 66.667 5.33 0.00 37.04 3.86
1413 1652 1.549815 CGCTCTCGCTCATGATGCTG 61.550 60.000 13.06 8.29 0.00 4.41
1534 1785 2.284625 ACCTCATCGACCTGGGCA 60.285 61.111 0.00 0.00 0.00 5.36
1771 2040 0.674895 GAGGGACATCGCAAAGCACT 60.675 55.000 0.00 0.00 0.00 4.40
1796 2065 2.025441 GCTCGAGCTGCTCTACCG 59.975 66.667 29.88 14.32 38.21 4.02
1828 2106 2.610519 AAGCCCAAGCCCTCTGAGG 61.611 63.158 17.02 17.02 41.25 3.86
2195 2539 0.962356 GGCAACCTGTCCACCATCAG 60.962 60.000 0.00 0.00 0.00 2.90
2481 5028 2.671070 CACTCCAAGGTGCCGGAT 59.329 61.111 5.05 0.00 0.00 4.18
2593 5140 2.842496 TCATGGAAGATGCTCACCTTCT 59.158 45.455 4.17 0.00 38.92 2.85
2704 5251 3.060000 TCACGCCGACACCGAGAT 61.060 61.111 0.00 0.00 38.22 2.75
2711 5258 1.263752 GCCGACACCGAGATAGTAGAC 59.736 57.143 0.00 0.00 38.22 2.59
2722 5269 4.248859 GAGATAGTAGACCGGTATACGCA 58.751 47.826 28.51 21.92 42.52 5.24
2813 5373 3.876589 TTTGCCGGCGAGTCCTCAC 62.877 63.158 23.90 0.00 0.00 3.51
2868 5429 0.464916 AAGGTTTGGTGTCCGGTCAC 60.465 55.000 21.72 21.72 37.57 3.67
2890 5451 2.205074 GATGGCGAGACGATGATGTTT 58.795 47.619 0.00 0.00 0.00 2.83
2906 5467 1.812093 TTTCCTTATGCCGGCGTCG 60.812 57.895 27.77 17.39 0.00 5.12
2913 5474 0.942410 TATGCCGGCGTCGAATAAGC 60.942 55.000 27.77 5.67 39.00 3.09
2929 5490 4.933064 GCCATCCTCGCCTCGTCG 62.933 72.222 0.00 0.00 0.00 5.12
2980 5541 0.415830 TAGAGGATGGTGTGTCCCCA 59.584 55.000 0.00 0.00 36.36 4.96
2981 5542 0.253347 AGAGGATGGTGTGTCCCCAT 60.253 55.000 0.00 0.00 45.37 4.00
2982 5543 0.107017 GAGGATGGTGTGTCCCCATG 60.107 60.000 0.00 0.00 42.76 3.66
2983 5544 1.754234 GGATGGTGTGTCCCCATGC 60.754 63.158 0.00 0.00 42.76 4.06
2984 5545 1.001020 GATGGTGTGTCCCCATGCA 60.001 57.895 0.00 0.00 42.76 3.96
2986 5547 0.041535 ATGGTGTGTCCCCATGCATT 59.958 50.000 0.00 0.00 41.17 3.56
2987 5548 0.701147 TGGTGTGTCCCCATGCATTA 59.299 50.000 0.00 0.00 34.77 1.90
2988 5549 1.340893 TGGTGTGTCCCCATGCATTAG 60.341 52.381 0.00 0.00 34.77 1.73
2997 6331 2.424667 CCCCATGCATTAGGATGAACCA 60.425 50.000 13.20 0.00 45.45 3.67
3025 6359 3.550842 GGTTCACTTTCTGCATTGTGACC 60.551 47.826 9.62 10.27 38.87 4.02
3026 6360 2.929641 TCACTTTCTGCATTGTGACCA 58.070 42.857 6.99 0.00 34.94 4.02
3027 6361 2.880268 TCACTTTCTGCATTGTGACCAG 59.120 45.455 6.99 0.00 34.94 4.00
3034 6369 4.081406 TCTGCATTGTGACCAGCTTAATT 58.919 39.130 0.00 0.00 0.00 1.40
3041 6376 3.636300 TGTGACCAGCTTAATTTGCAAGT 59.364 39.130 0.00 0.00 0.00 3.16
3044 6379 6.015519 TGTGACCAGCTTAATTTGCAAGTATT 60.016 34.615 0.00 0.00 0.00 1.89
3081 6417 1.531149 GACGAGGTTGTTGTGTCCATG 59.469 52.381 0.00 0.00 0.00 3.66
3112 6448 7.378181 TCGCTTGCATTTATGATACTAGATGA 58.622 34.615 0.00 0.00 0.00 2.92
3114 6450 7.412346 CGCTTGCATTTATGATACTAGATGACC 60.412 40.741 0.00 0.00 0.00 4.02
3115 6451 7.605691 GCTTGCATTTATGATACTAGATGACCT 59.394 37.037 0.00 0.00 0.00 3.85
3116 6452 8.837788 TTGCATTTATGATACTAGATGACCTG 57.162 34.615 0.00 0.00 0.00 4.00
3126 6462 2.094762 AGATGACCTGTTACGCCAAC 57.905 50.000 0.00 0.00 37.67 3.77
3144 6480 2.280797 TGGCGCAGAGACAACCAC 60.281 61.111 10.83 0.00 32.75 4.16
3148 6484 1.941812 CGCAGAGACAACCACCAAC 59.058 57.895 0.00 0.00 0.00 3.77
3149 6485 1.507141 CGCAGAGACAACCACCAACC 61.507 60.000 0.00 0.00 0.00 3.77
3228 6564 3.367703 GGATGTTTCCTGCAAATGGTCTG 60.368 47.826 0.00 0.00 39.14 3.51
3241 6577 4.644103 AATGGTCTGCAAGTGATTATGC 57.356 40.909 0.00 0.00 42.86 3.14
3256 6592 9.826574 AAGTGATTATGCTTCATAATGCATTTT 57.173 25.926 18.75 6.94 46.29 1.82
3280 6616 8.856153 TTTATATGCCATGTATTACCAACGAT 57.144 30.769 0.00 0.00 0.00 3.73
3283 6619 5.538849 TGCCATGTATTACCAACGATAGA 57.461 39.130 0.00 0.00 41.38 1.98
3288 6624 7.601130 GCCATGTATTACCAACGATAGATAACA 59.399 37.037 0.00 0.00 41.38 2.41
3314 6650 8.180706 TGATCATTTTTCATGTCCTTCTTTGA 57.819 30.769 0.00 0.00 0.00 2.69
3317 6653 7.428020 TCATTTTTCATGTCCTTCTTTGACTG 58.572 34.615 0.00 0.00 33.83 3.51
3331 6667 2.024176 TGACTGGCTAGAAGAACCCA 57.976 50.000 3.17 0.00 0.00 4.51
3333 6669 2.038557 TGACTGGCTAGAAGAACCCAAC 59.961 50.000 3.17 0.00 0.00 3.77
3343 6679 0.106918 AGAACCCAACAGCCGTTTCA 60.107 50.000 0.00 0.00 31.13 2.69
3347 6683 1.826054 CCAACAGCCGTTTCACCCA 60.826 57.895 0.00 0.00 31.13 4.51
3349 6685 2.193536 AACAGCCGTTTCACCCAGC 61.194 57.895 0.00 0.00 28.09 4.85
3363 6699 1.282157 ACCCAGCTGTCTCCCAAATAC 59.718 52.381 13.81 0.00 0.00 1.89
3370 6706 0.106669 GTCTCCCAAATACCTGGCCC 60.107 60.000 0.00 0.00 34.88 5.80
3395 6789 6.656314 TCGGTTTAGCACTATGTATTGTTG 57.344 37.500 0.00 0.00 0.00 3.33
3410 6804 8.860780 ATGTATTGTTGTTTATTGGGCAAAAT 57.139 26.923 0.00 0.00 0.00 1.82
3419 6814 6.717084 TGTTTATTGGGCAAAATAAAAAGGGG 59.283 34.615 14.98 0.00 41.36 4.79
3445 6840 3.336566 GGTGGGAACAACGAACCG 58.663 61.111 0.00 0.00 46.06 4.44
3513 6908 1.135721 GCATGCCAAACTCTTCCCATC 59.864 52.381 6.36 0.00 0.00 3.51
3515 6910 2.496899 TGCCAAACTCTTCCCATCTC 57.503 50.000 0.00 0.00 0.00 2.75
3516 6911 1.704628 TGCCAAACTCTTCCCATCTCA 59.295 47.619 0.00 0.00 0.00 3.27
3521 6916 0.985490 ACTCTTCCCATCTCAGCCCC 60.985 60.000 0.00 0.00 0.00 5.80
3522 6917 0.984961 CTCTTCCCATCTCAGCCCCA 60.985 60.000 0.00 0.00 0.00 4.96
3523 6918 0.327867 TCTTCCCATCTCAGCCCCAT 60.328 55.000 0.00 0.00 0.00 4.00
3524 6919 0.178998 CTTCCCATCTCAGCCCCATG 60.179 60.000 0.00 0.00 0.00 3.66
3526 6921 2.389449 CCCATCTCAGCCCCATGGT 61.389 63.158 11.73 0.00 36.12 3.55
3527 6922 1.150081 CCATCTCAGCCCCATGGTC 59.850 63.158 11.73 1.73 33.57 4.02
3529 6924 1.308128 ATCTCAGCCCCATGGTCCA 60.308 57.895 11.73 0.00 0.00 4.02
3530 6925 0.700269 ATCTCAGCCCCATGGTCCAT 60.700 55.000 11.73 0.00 0.00 3.41
3532 6927 1.619057 TCAGCCCCATGGTCCATGA 60.619 57.895 30.14 9.83 43.81 3.07
3533 6928 0.995132 TCAGCCCCATGGTCCATGAT 60.995 55.000 30.14 12.15 43.81 2.45
3534 6929 0.105862 CAGCCCCATGGTCCATGATT 60.106 55.000 30.14 11.48 43.81 2.57
3535 6930 1.145531 CAGCCCCATGGTCCATGATTA 59.854 52.381 30.14 0.00 43.81 1.75
3536 6931 1.426598 AGCCCCATGGTCCATGATTAG 59.573 52.381 30.14 16.82 43.81 1.73
3537 6932 1.915141 CCCCATGGTCCATGATTAGC 58.085 55.000 30.14 0.00 43.81 3.09
3538 6933 1.145531 CCCCATGGTCCATGATTAGCA 59.854 52.381 30.14 0.00 43.81 3.49
3539 6934 2.511659 CCCATGGTCCATGATTAGCAG 58.488 52.381 30.14 13.09 43.81 4.24
3540 6935 2.158564 CCCATGGTCCATGATTAGCAGT 60.159 50.000 30.14 0.00 43.81 4.40
3541 6936 2.882761 CCATGGTCCATGATTAGCAGTG 59.117 50.000 30.14 8.73 43.81 3.66
3542 6937 2.042686 TGGTCCATGATTAGCAGTGC 57.957 50.000 7.13 7.13 0.00 4.40
3543 6938 1.281577 TGGTCCATGATTAGCAGTGCA 59.718 47.619 19.20 0.00 0.00 4.57
3549 6944 3.630769 CCATGATTAGCAGTGCAATCAGT 59.369 43.478 29.47 21.04 38.42 3.41
3668 7063 8.523523 TTGCATTATTTTCACATGTCTCTTTG 57.476 30.769 0.00 0.00 0.00 2.77
3674 7069 5.913137 TTTCACATGTCTCTTTGTGGTTT 57.087 34.783 0.00 0.00 42.72 3.27
3675 7070 7.397892 TTTTCACATGTCTCTTTGTGGTTTA 57.602 32.000 0.00 0.00 42.72 2.01
3676 7071 7.397892 TTTCACATGTCTCTTTGTGGTTTAA 57.602 32.000 0.00 0.00 42.72 1.52
3677 7072 7.397892 TTCACATGTCTCTTTGTGGTTTAAA 57.602 32.000 0.00 0.00 42.72 1.52
3678 7073 7.581213 TCACATGTCTCTTTGTGGTTTAAAT 57.419 32.000 0.00 0.00 42.72 1.40
3679 7074 8.684386 TCACATGTCTCTTTGTGGTTTAAATA 57.316 30.769 0.00 0.00 42.72 1.40
3680 7075 9.126151 TCACATGTCTCTTTGTGGTTTAAATAA 57.874 29.630 0.00 0.00 42.72 1.40
3681 7076 9.398170 CACATGTCTCTTTGTGGTTTAAATAAG 57.602 33.333 0.00 0.00 39.61 1.73
3682 7077 9.131791 ACATGTCTCTTTGTGGTTTAAATAAGT 57.868 29.630 0.00 0.00 0.00 2.24
3683 7078 9.965824 CATGTCTCTTTGTGGTTTAAATAAGTT 57.034 29.630 0.00 0.00 0.00 2.66
3684 7079 9.965824 ATGTCTCTTTGTGGTTTAAATAAGTTG 57.034 29.630 0.00 0.00 0.00 3.16
3685 7080 8.962679 TGTCTCTTTGTGGTTTAAATAAGTTGT 58.037 29.630 0.00 0.00 0.00 3.32
3686 7081 9.797556 GTCTCTTTGTGGTTTAAATAAGTTGTT 57.202 29.630 0.00 0.00 0.00 2.83
3687 7082 9.796120 TCTCTTTGTGGTTTAAATAAGTTGTTG 57.204 29.630 0.00 0.00 0.00 3.33
3688 7083 9.581099 CTCTTTGTGGTTTAAATAAGTTGTTGT 57.419 29.630 0.00 0.00 0.00 3.32
3689 7084 9.360093 TCTTTGTGGTTTAAATAAGTTGTTGTG 57.640 29.630 0.00 0.00 0.00 3.33
3690 7085 9.360093 CTTTGTGGTTTAAATAAGTTGTTGTGA 57.640 29.630 0.00 0.00 0.00 3.58
3691 7086 8.690680 TTGTGGTTTAAATAAGTTGTTGTGAC 57.309 30.769 0.00 0.00 0.00 3.67
3692 7087 7.259161 TGTGGTTTAAATAAGTTGTTGTGACC 58.741 34.615 0.00 5.08 0.00 4.02
3693 7088 7.122948 TGTGGTTTAAATAAGTTGTTGTGACCT 59.877 33.333 10.48 0.00 0.00 3.85
3694 7089 7.646526 GTGGTTTAAATAAGTTGTTGTGACCTC 59.353 37.037 10.48 5.73 0.00 3.85
3695 7090 7.143340 GGTTTAAATAAGTTGTTGTGACCTCC 58.857 38.462 0.00 0.00 0.00 4.30
3696 7091 7.201839 GGTTTAAATAAGTTGTTGTGACCTCCA 60.202 37.037 0.00 0.00 0.00 3.86
3697 7092 8.357402 GTTTAAATAAGTTGTTGTGACCTCCAT 58.643 33.333 0.00 0.00 0.00 3.41
3698 7093 5.964958 AATAAGTTGTTGTGACCTCCATG 57.035 39.130 0.00 0.00 0.00 3.66
3699 7094 2.276732 AGTTGTTGTGACCTCCATGG 57.723 50.000 4.97 4.97 42.93 3.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
47 48 6.587608 CACTAATTCATTGCCAAGAAGGAAAC 59.412 38.462 0.00 0.00 37.91 2.78
55 56 5.404946 CAACTCCACTAATTCATTGCCAAG 58.595 41.667 0.00 0.00 0.00 3.61
58 59 3.763897 ACCAACTCCACTAATTCATTGCC 59.236 43.478 0.00 0.00 0.00 4.52
124 132 9.174166 GCCACTAGTTCATCCTTTCTTTAATAA 57.826 33.333 0.00 0.00 0.00 1.40
125 133 8.325787 TGCCACTAGTTCATCCTTTCTTTAATA 58.674 33.333 0.00 0.00 0.00 0.98
126 134 7.175104 TGCCACTAGTTCATCCTTTCTTTAAT 58.825 34.615 0.00 0.00 0.00 1.40
127 135 6.539173 TGCCACTAGTTCATCCTTTCTTTAA 58.461 36.000 0.00 0.00 0.00 1.52
128 136 6.121776 TGCCACTAGTTCATCCTTTCTTTA 57.878 37.500 0.00 0.00 0.00 1.85
129 137 4.985538 TGCCACTAGTTCATCCTTTCTTT 58.014 39.130 0.00 0.00 0.00 2.52
136 144 3.004752 ACCAATGCCACTAGTTCATCC 57.995 47.619 7.60 0.00 0.00 3.51
138 146 6.062095 GGTAATACCAATGCCACTAGTTCAT 58.938 40.000 4.24 0.00 38.42 2.57
143 151 4.706842 AGGGTAATACCAATGCCACTAG 57.293 45.455 12.03 0.00 41.02 2.57
149 157 7.875327 TCTTCTTAAAGGGTAATACCAATGC 57.125 36.000 12.03 0.00 41.02 3.56
187 199 6.799926 AATTTCTGTGCAAAGTTGTGTTTT 57.200 29.167 3.21 0.00 0.00 2.43
188 200 6.870965 TGTAATTTCTGTGCAAAGTTGTGTTT 59.129 30.769 3.21 0.00 0.00 2.83
189 201 6.310224 GTGTAATTTCTGTGCAAAGTTGTGTT 59.690 34.615 3.21 0.00 0.00 3.32
194 206 7.277760 GGAAAAGTGTAATTTCTGTGCAAAGTT 59.722 33.333 3.21 0.00 37.06 2.66
204 216 8.952278 TGCATATTACGGAAAAGTGTAATTTCT 58.048 29.630 3.29 0.00 40.64 2.52
211 223 6.811253 TCTTTGCATATTACGGAAAAGTGT 57.189 33.333 0.00 0.00 0.00 3.55
245 258 5.401550 GCTAAAGTATGAAATTGCACTGCA 58.598 37.500 0.00 0.00 36.47 4.41
246 259 4.496895 CGCTAAAGTATGAAATTGCACTGC 59.503 41.667 0.00 0.00 0.00 4.40
258 271 7.056002 TGTGTGTGAATTACGCTAAAGTATG 57.944 36.000 0.00 0.00 40.47 2.39
259 272 7.843490 ATGTGTGTGAATTACGCTAAAGTAT 57.157 32.000 0.00 0.00 40.47 2.12
260 273 8.030692 AGTATGTGTGTGAATTACGCTAAAGTA 58.969 33.333 0.00 0.00 40.47 2.24
268 282 4.919677 TGCAGTATGTGTGTGAATTACG 57.080 40.909 0.00 0.00 39.31 3.18
275 289 5.869344 ACAAGTAGTATGCAGTATGTGTGTG 59.131 40.000 0.00 0.00 39.31 3.82
281 295 9.914131 ATATACACACAAGTAGTATGCAGTATG 57.086 33.333 0.00 0.00 32.72 2.39
359 373 8.575649 TGTTTTCTCTTTTCTTTCTAGTTGGT 57.424 30.769 0.00 0.00 0.00 3.67
414 431 0.679960 GAAGCCCGTTACCCATTGCT 60.680 55.000 0.00 0.00 0.00 3.91
441 458 6.488683 TGTTTGGAGTCGGTTGATTTTTCTAT 59.511 34.615 0.00 0.00 0.00 1.98
446 463 3.317993 CCTGTTTGGAGTCGGTTGATTTT 59.682 43.478 0.00 0.00 38.35 1.82
447 464 2.884639 CCTGTTTGGAGTCGGTTGATTT 59.115 45.455 0.00 0.00 38.35 2.17
451 468 0.535102 AGCCTGTTTGGAGTCGGTTG 60.535 55.000 0.00 0.00 38.35 3.77
452 469 1.053424 TAGCCTGTTTGGAGTCGGTT 58.947 50.000 0.00 0.00 38.35 4.44
455 472 2.288825 TGACTTAGCCTGTTTGGAGTCG 60.289 50.000 0.00 0.00 39.01 4.18
469 674 7.592903 GCTTCTTGGACTGAATTTTTGACTTAG 59.407 37.037 0.00 0.00 0.00 2.18
484 689 3.950395 GCTATTTCATGGCTTCTTGGACT 59.050 43.478 0.00 0.00 33.53 3.85
497 702 6.741992 TTGTCAAGATTCGTGCTATTTCAT 57.258 33.333 0.00 0.00 0.00 2.57
507 712 6.018262 TCGTTGATTCTTTTGTCAAGATTCGT 60.018 34.615 0.00 0.00 35.22 3.85
531 736 6.877611 TTTGGGTAAGTCAGTTTTCTCATC 57.122 37.500 0.00 0.00 0.00 2.92
533 738 8.626526 GTTAATTTGGGTAAGTCAGTTTTCTCA 58.373 33.333 0.00 0.00 0.00 3.27
534 739 8.626526 TGTTAATTTGGGTAAGTCAGTTTTCTC 58.373 33.333 0.00 0.00 0.00 2.87
535 740 8.528044 TGTTAATTTGGGTAAGTCAGTTTTCT 57.472 30.769 0.00 0.00 0.00 2.52
536 741 9.589111 TTTGTTAATTTGGGTAAGTCAGTTTTC 57.411 29.630 0.00 0.00 0.00 2.29
541 746 7.542130 GCTGATTTGTTAATTTGGGTAAGTCAG 59.458 37.037 0.00 0.00 0.00 3.51
542 747 7.375053 GCTGATTTGTTAATTTGGGTAAGTCA 58.625 34.615 0.00 0.00 0.00 3.41
543 748 6.811665 GGCTGATTTGTTAATTTGGGTAAGTC 59.188 38.462 0.00 0.00 0.00 3.01
544 749 6.268847 TGGCTGATTTGTTAATTTGGGTAAGT 59.731 34.615 0.00 0.00 0.00 2.24
545 750 6.696411 TGGCTGATTTGTTAATTTGGGTAAG 58.304 36.000 0.00 0.00 0.00 2.34
546 751 6.672266 TGGCTGATTTGTTAATTTGGGTAA 57.328 33.333 0.00 0.00 0.00 2.85
549 754 5.550290 AGTTGGCTGATTTGTTAATTTGGG 58.450 37.500 0.00 0.00 0.00 4.12
557 762 7.557719 AGCTATATGTAAGTTGGCTGATTTGTT 59.442 33.333 0.00 0.00 0.00 2.83
559 764 7.502120 AGCTATATGTAAGTTGGCTGATTTG 57.498 36.000 0.00 0.00 0.00 2.32
567 772 5.368145 TCCAGCAAGCTATATGTAAGTTGG 58.632 41.667 0.00 0.00 0.00 3.77
570 775 5.878406 ACTCCAGCAAGCTATATGTAAGT 57.122 39.130 0.00 0.00 0.00 2.24
584 789 3.211045 GTCCACACTTTTAACTCCAGCA 58.789 45.455 0.00 0.00 0.00 4.41
605 810 3.247442 TCAACTACAAAGCGGACATACG 58.753 45.455 0.00 0.00 0.00 3.06
624 829 4.108570 TCTATTAAGGAAGCCCAGGTTCA 58.891 43.478 8.60 0.00 41.18 3.18
716 925 7.362056 CCAAGGTGATCATAAATTGACGACTTT 60.362 37.037 0.00 0.00 37.11 2.66
724 933 5.594926 GAAGCCCAAGGTGATCATAAATTG 58.405 41.667 0.00 2.17 0.00 2.32
737 946 1.537202 CTTCTTTGTCGAAGCCCAAGG 59.463 52.381 0.00 0.00 34.59 3.61
738 947 2.224314 GTCTTCTTTGTCGAAGCCCAAG 59.776 50.000 0.00 0.00 40.11 3.61
741 950 0.790814 CGTCTTCTTTGTCGAAGCCC 59.209 55.000 0.00 0.00 40.11 5.19
744 953 3.365220 GGTCATCGTCTTCTTTGTCGAAG 59.635 47.826 0.00 0.00 41.32 3.79
745 954 3.005472 AGGTCATCGTCTTCTTTGTCGAA 59.995 43.478 0.00 0.00 35.99 3.71
746 955 2.557056 AGGTCATCGTCTTCTTTGTCGA 59.443 45.455 0.00 0.00 36.77 4.20
747 956 2.947852 AGGTCATCGTCTTCTTTGTCG 58.052 47.619 0.00 0.00 0.00 4.35
774 984 2.357056 CCCGCAACCCCAATACCA 59.643 61.111 0.00 0.00 0.00 3.25
778 988 4.612279 TGTGCCCGCAACCCCAAT 62.612 61.111 0.00 0.00 0.00 3.16
790 1000 4.326766 ATGTGTTGCGCGTGTGCC 62.327 61.111 8.43 0.00 38.08 5.01
792 1002 2.327592 ACATGTGTTGCGCGTGTG 59.672 55.556 8.43 0.00 41.66 3.82
793 1003 1.506309 ATCACATGTGTTGCGCGTGT 61.506 50.000 24.63 0.00 43.63 4.49
796 1006 1.512522 CCATCACATGTGTTGCGCG 60.513 57.895 25.21 0.00 0.00 6.86
809 1019 2.431771 CCGTTGACGTCGCCATCA 60.432 61.111 11.62 0.00 37.74 3.07
853 1064 5.728741 ACATCTTTATCCTCTCTCCCACTTT 59.271 40.000 0.00 0.00 0.00 2.66
860 1071 4.742138 GCCACCACATCTTTATCCTCTCTC 60.742 50.000 0.00 0.00 0.00 3.20
861 1072 3.135530 GCCACCACATCTTTATCCTCTCT 59.864 47.826 0.00 0.00 0.00 3.10
897 1108 1.566298 CCTAAGCCCAAGCCCAGACT 61.566 60.000 0.00 0.00 41.25 3.24
900 1111 2.155197 AACCCTAAGCCCAAGCCCAG 62.155 60.000 0.00 0.00 41.25 4.45
925 1136 0.170561 AGCGTGGCTGTAAGAGTACG 59.829 55.000 0.00 0.00 37.57 3.67
930 1141 7.110810 ACTATATATAGAGCGTGGCTGTAAGA 58.889 38.462 23.70 0.00 39.88 2.10
931 1142 7.323049 ACTATATATAGAGCGTGGCTGTAAG 57.677 40.000 23.70 0.00 39.88 2.34
935 1146 6.928979 ACTACTATATATAGAGCGTGGCTG 57.071 41.667 23.70 7.19 39.88 4.85
955 1170 2.688446 CTCGTCAATGGCAGAGGTACTA 59.312 50.000 0.00 0.00 41.55 1.82
975 1190 6.115446 TGCTGTTAGTTGCTAATAATCTGCT 58.885 36.000 14.40 0.00 0.00 4.24
983 1198 3.763360 TGCCATTGCTGTTAGTTGCTAAT 59.237 39.130 0.00 0.00 38.71 1.73
984 1199 3.153130 TGCCATTGCTGTTAGTTGCTAA 58.847 40.909 0.00 0.00 38.71 3.09
985 1200 2.789213 TGCCATTGCTGTTAGTTGCTA 58.211 42.857 0.00 0.00 38.71 3.49
987 1202 2.437200 TTGCCATTGCTGTTAGTTGC 57.563 45.000 0.00 0.00 38.71 4.17
988 1203 3.255725 CCATTGCCATTGCTGTTAGTTG 58.744 45.455 0.00 0.00 38.71 3.16
989 1204 2.354003 GCCATTGCCATTGCTGTTAGTT 60.354 45.455 0.00 0.00 38.71 2.24
991 1206 1.930567 GCCATTGCCATTGCTGTTAG 58.069 50.000 0.00 0.00 38.71 2.34
1026 1241 4.906792 CTGCGGGCCTGCTCTAGC 62.907 72.222 35.60 14.27 42.50 3.42
1413 1652 4.699522 AGGAAAGCGCCGTCCACC 62.700 66.667 24.50 11.50 36.28 4.61
1747 2016 0.108804 TTTGCGATGTCCCTCTCGAC 60.109 55.000 0.00 0.00 37.05 4.20
1771 2040 4.426112 CAGCTCGAGCAGGTGCGA 62.426 66.667 36.87 0.00 43.58 5.10
1852 2145 2.077627 CTCGATATCATCCTCGACGGT 58.922 52.381 3.12 0.00 38.86 4.83
1890 2183 2.045045 CCTTCTTGGCCGCCATCA 60.045 61.111 14.30 0.00 31.53 3.07
2007 2318 0.817654 ACTCGATCGGCTTCATCACA 59.182 50.000 16.41 0.00 0.00 3.58
2481 5028 2.748647 TCGATGACCGCGTCCAGA 60.749 61.111 4.92 0.24 38.37 3.86
2593 5140 2.409055 GCATGCTGATGGTGGCGAA 61.409 57.895 11.37 0.00 0.00 4.70
2704 5251 2.485426 GCATGCGTATACCGGTCTACTA 59.515 50.000 23.16 14.64 36.94 1.82
2741 5288 0.921347 GCTATGTCGTTGCCTACACG 59.079 55.000 0.00 0.00 0.00 4.49
2747 5294 0.577269 GATCACGCTATGTCGTTGCC 59.423 55.000 0.00 0.00 41.21 4.52
2750 5297 1.860950 GCATGATCACGCTATGTCGTT 59.139 47.619 6.50 0.00 41.21 3.85
2813 5373 0.317103 CTACCACCGAGATCGAAGCG 60.317 60.000 3.31 0.00 43.02 4.68
2868 5429 1.005804 CATCATCGTCTCGCCATCGG 61.006 60.000 0.00 0.00 36.13 4.18
2890 5451 2.023414 ATTCGACGCCGGCATAAGGA 62.023 55.000 28.98 12.83 36.24 3.36
2906 5467 1.802069 GAGGCGAGGATGGCTTATTC 58.198 55.000 0.00 0.00 45.90 1.75
2913 5474 2.119147 CTACGACGAGGCGAGGATGG 62.119 65.000 4.95 0.00 34.83 3.51
2929 5490 3.056749 AGAGGACACACATCCGAAACTAC 60.057 47.826 0.00 0.00 44.22 2.73
2980 5541 4.458256 TCCATGGTTCATCCTAATGCAT 57.542 40.909 12.58 0.00 37.07 3.96
2981 5542 3.949586 TCCATGGTTCATCCTAATGCA 57.050 42.857 12.58 0.00 37.07 3.96
2982 5543 3.508793 CCATCCATGGTTCATCCTAATGC 59.491 47.826 12.58 0.00 43.05 3.56
2997 6331 3.159213 TGCAGAAAGTGAACCATCCAT 57.841 42.857 0.00 0.00 0.00 3.41
3025 6359 7.243487 TCGAGAAATACTTGCAAATTAAGCTG 58.757 34.615 0.00 0.00 0.00 4.24
3026 6360 7.377766 TCGAGAAATACTTGCAAATTAAGCT 57.622 32.000 0.00 0.00 0.00 3.74
3027 6361 9.716507 TTATCGAGAAATACTTGCAAATTAAGC 57.283 29.630 0.00 0.00 0.00 3.09
3034 6369 5.874810 AGCTGTTATCGAGAAATACTTGCAA 59.125 36.000 0.00 0.00 0.00 4.08
3081 6417 4.864916 TCATAAATGCAAGCGAGTCTTC 57.135 40.909 0.00 0.00 31.27 2.87
3112 6448 4.792087 CCAGTTGGCGTAACAGGT 57.208 55.556 7.30 0.00 40.14 4.00
3126 6462 2.031012 TGGTTGTCTCTGCGCCAG 59.969 61.111 4.18 0.00 0.00 4.85
3131 6467 1.172812 GGGTTGGTGGTTGTCTCTGC 61.173 60.000 0.00 0.00 0.00 4.26
3144 6480 2.678336 GTTCGATTAGCTTCTGGGTTGG 59.322 50.000 0.00 0.00 0.00 3.77
3148 6484 6.049149 TCAAATAGTTCGATTAGCTTCTGGG 58.951 40.000 0.00 0.00 0.00 4.45
3149 6485 7.539712 TTCAAATAGTTCGATTAGCTTCTGG 57.460 36.000 0.00 0.00 0.00 3.86
3228 6564 6.210796 TGCATTATGAAGCATAATCACTTGC 58.789 36.000 9.13 10.94 42.80 4.01
3256 6592 9.594478 CTATCGTTGGTAATACATGGCATATAA 57.406 33.333 0.00 0.00 0.00 0.98
3288 6624 8.809066 TCAAAGAAGGACATGAAAAATGATCAT 58.191 29.630 1.18 1.18 38.02 2.45
3314 6650 2.039084 CTGTTGGGTTCTTCTAGCCAGT 59.961 50.000 0.00 0.00 45.61 4.00
3317 6653 1.454201 GCTGTTGGGTTCTTCTAGCC 58.546 55.000 0.00 0.00 36.22 3.93
3331 6667 2.193536 GCTGGGTGAAACGGCTGTT 61.194 57.895 4.68 4.68 40.98 3.16
3333 6669 2.281761 AGCTGGGTGAAACGGCTG 60.282 61.111 0.00 0.00 36.71 4.85
3343 6679 1.282157 GTATTTGGGAGACAGCTGGGT 59.718 52.381 19.93 3.88 0.00 4.51
3347 6683 1.561542 CCAGGTATTTGGGAGACAGCT 59.438 52.381 0.00 0.00 34.46 4.24
3349 6685 1.408822 GGCCAGGTATTTGGGAGACAG 60.409 57.143 0.00 0.00 38.72 3.51
3370 6706 6.903883 ACAATACATAGTGCTAAACCGAAG 57.096 37.500 0.00 0.00 0.00 3.79
3395 6789 6.349777 GCCCCTTTTTATTTTGCCCAATAAAC 60.350 38.462 8.83 0.00 38.01 2.01
3427 6822 1.227734 CGGTTCGTTGTTCCCACCT 60.228 57.895 0.00 0.00 0.00 4.00
3436 6831 4.459331 CATGCGGGCGGTTCGTTG 62.459 66.667 0.00 0.00 0.00 4.10
3465 6860 3.573772 CTCCCAAGTCTCACGCGCA 62.574 63.158 5.73 0.00 0.00 6.09
3469 6864 2.266055 GCCCTCCCAAGTCTCACG 59.734 66.667 0.00 0.00 0.00 4.35
3471 6866 2.206900 TGGCCCTCCCAAGTCTCA 59.793 61.111 0.00 0.00 41.82 3.27
3491 6886 0.899717 GGGAAGAGTTTGGCATGCCA 60.900 55.000 35.59 35.59 45.63 4.92
3502 6897 0.985490 GGGGCTGAGATGGGAAGAGT 60.985 60.000 0.00 0.00 0.00 3.24
3513 6908 1.152819 CATGGACCATGGGGCTGAG 60.153 63.158 24.65 0.00 38.11 3.35
3515 6910 0.105862 AATCATGGACCATGGGGCTG 60.106 55.000 29.97 9.26 41.66 4.85
3516 6911 1.426598 CTAATCATGGACCATGGGGCT 59.573 52.381 29.97 16.17 41.66 5.19
3521 6916 2.292569 GCACTGCTAATCATGGACCATG 59.707 50.000 26.10 26.10 42.60 3.66
3522 6917 2.092267 TGCACTGCTAATCATGGACCAT 60.092 45.455 0.00 0.00 0.00 3.55
3523 6918 1.281577 TGCACTGCTAATCATGGACCA 59.718 47.619 0.00 0.00 0.00 4.02
3524 6919 2.042686 TGCACTGCTAATCATGGACC 57.957 50.000 1.98 0.00 0.00 4.46
3526 6921 3.881089 CTGATTGCACTGCTAATCATGGA 59.119 43.478 20.03 6.58 41.10 3.41
3527 6922 3.630769 ACTGATTGCACTGCTAATCATGG 59.369 43.478 20.03 15.03 41.10 3.66
3529 6924 5.061853 CCTACTGATTGCACTGCTAATCAT 58.938 41.667 20.03 15.17 41.10 2.45
3530 6925 4.445453 CCTACTGATTGCACTGCTAATCA 58.555 43.478 19.23 19.23 40.06 2.57
3532 6927 3.813443 CCCTACTGATTGCACTGCTAAT 58.187 45.455 1.98 0.87 0.00 1.73
3533 6928 2.680805 GCCCTACTGATTGCACTGCTAA 60.681 50.000 1.98 0.00 0.00 3.09
3534 6929 1.134401 GCCCTACTGATTGCACTGCTA 60.134 52.381 1.98 0.00 0.00 3.49
3535 6930 0.393537 GCCCTACTGATTGCACTGCT 60.394 55.000 1.98 0.00 0.00 4.24
3536 6931 0.677731 TGCCCTACTGATTGCACTGC 60.678 55.000 0.00 0.00 0.00 4.40
3537 6932 2.048444 ATGCCCTACTGATTGCACTG 57.952 50.000 0.00 0.00 36.41 3.66
3538 6933 2.756760 CAAATGCCCTACTGATTGCACT 59.243 45.455 0.00 0.00 36.41 4.40
3539 6934 2.493278 ACAAATGCCCTACTGATTGCAC 59.507 45.455 0.00 0.00 36.41 4.57
3540 6935 2.806434 ACAAATGCCCTACTGATTGCA 58.194 42.857 0.00 0.00 38.23 4.08
3541 6936 3.874392 AACAAATGCCCTACTGATTGC 57.126 42.857 0.00 0.00 0.00 3.56
3542 6937 4.389687 GCAAAACAAATGCCCTACTGATTG 59.610 41.667 0.00 0.00 37.85 2.67
3543 6938 4.040217 TGCAAAACAAATGCCCTACTGATT 59.960 37.500 0.00 0.00 43.16 2.57
3549 6944 4.414337 AACTTGCAAAACAAATGCCCTA 57.586 36.364 0.00 0.00 43.16 3.53
3668 7063 7.485810 AGGTCACAACAACTTATTTAAACCAC 58.514 34.615 0.00 0.00 0.00 4.16
3674 7069 6.432783 CCATGGAGGTCACAACAACTTATTTA 59.567 38.462 5.56 0.00 0.00 1.40
3675 7070 5.243730 CCATGGAGGTCACAACAACTTATTT 59.756 40.000 5.56 0.00 0.00 1.40
3676 7071 4.766891 CCATGGAGGTCACAACAACTTATT 59.233 41.667 5.56 0.00 0.00 1.40
3677 7072 4.335416 CCATGGAGGTCACAACAACTTAT 58.665 43.478 5.56 0.00 0.00 1.73
3678 7073 3.750371 CCATGGAGGTCACAACAACTTA 58.250 45.455 5.56 0.00 0.00 2.24
3679 7074 2.586425 CCATGGAGGTCACAACAACTT 58.414 47.619 5.56 0.00 0.00 2.66
3680 7075 2.276732 CCATGGAGGTCACAACAACT 57.723 50.000 5.56 0.00 0.00 3.16


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

AutoCloner maintained by Alex Coulton.