Multiple sequence alignment - TraesCS2B01G429100

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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 TraesCS2B01G429100 chr2B 100.000 3532 0 0 1 3532 616476628 616473097 0.000000e+00 6523.0
1 TraesCS2B01G429100 chr2B 95.890 292 12 0 236 527 291586498 291586789 1.150000e-129 473.0
2 TraesCS2B01G429100 chr2B 94.595 185 10 0 1 185 291586015 291586199 1.600000e-73 287.0
3 TraesCS2B01G429100 chr2B 79.636 275 28 10 258 504 69202353 69202627 4.690000e-39 172.0
4 TraesCS2B01G429100 chr2B 81.208 149 24 4 1941 2088 182551478 182551333 2.230000e-22 117.0
5 TraesCS2B01G429100 chr2B 96.364 55 2 0 190 244 299083112 299083058 1.350000e-14 91.6
6 TraesCS2B01G429100 chr2D 91.965 2875 141 41 627 3485 522988115 522985315 0.000000e+00 3947.0
7 TraesCS2B01G429100 chr2D 100.000 53 0 0 189 241 27254851 27254903 8.070000e-17 99.0
8 TraesCS2B01G429100 chr2D 96.364 55 2 0 192 246 192312613 192312667 1.350000e-14 91.6
9 TraesCS2B01G429100 chr2A 91.303 2564 155 23 1006 3532 668051606 668049074 0.000000e+00 3437.0
10 TraesCS2B01G429100 chr2A 96.241 266 7 3 627 891 668052289 668052026 1.950000e-117 433.0
11 TraesCS2B01G429100 chr4A 94.966 298 15 0 236 533 646585662 646585365 5.340000e-128 468.0
12 TraesCS2B01G429100 chr4A 95.000 200 9 1 1 200 646585857 646585659 2.650000e-81 313.0
13 TraesCS2B01G429100 chr4A 80.617 227 31 8 238 462 518816514 518816729 2.820000e-36 163.0
14 TraesCS2B01G429100 chr3D 83.446 296 36 9 238 530 565878088 565878373 2.700000e-66 263.0
15 TraesCS2B01G429100 chr6D 87.330 221 24 4 236 454 2979642 2979860 2.110000e-62 250.0
16 TraesCS2B01G429100 chr6D 93.617 47 3 0 1004 1050 319709558 319709512 1.760000e-08 71.3
17 TraesCS2B01G429100 chr1D 88.889 198 17 4 242 437 21661120 21660926 4.560000e-59 239.0
18 TraesCS2B01G429100 chr1D 91.176 68 6 0 34 101 21661320 21661253 3.750000e-15 93.5
19 TraesCS2B01G429100 chr5A 84.141 227 34 1 238 462 119247773 119247999 5.940000e-53 219.0
20 TraesCS2B01G429100 chr6B 83.333 180 30 0 2230 2409 503522923 503523102 2.180000e-37 167.0
21 TraesCS2B01G429100 chr6B 82.550 149 24 2 1941 2088 241058013 241058160 2.860000e-26 130.0
22 TraesCS2B01G429100 chr6B 89.552 67 7 0 34 100 472401882 472401816 6.280000e-13 86.1
23 TraesCS2B01G429100 chr6B 93.617 47 3 0 1004 1050 503521507 503521553 1.760000e-08 71.3
24 TraesCS2B01G429100 chr6A 83.146 178 30 0 2232 2409 457402901 457402724 2.820000e-36 163.0
25 TraesCS2B01G429100 chr4B 81.707 164 25 5 1929 2088 180695467 180695305 7.960000e-27 132.0
26 TraesCS2B01G429100 chr1A 80.405 148 27 2 1942 2088 505524664 505524518 1.040000e-20 111.0
27 TraesCS2B01G429100 chr5D 96.552 58 1 1 189 245 37893822 37893879 1.040000e-15 95.3
28 TraesCS2B01G429100 chr5B 96.429 56 2 0 186 241 637132221 637132276 3.750000e-15 93.5
29 TraesCS2B01G429100 chr3B 96.429 56 2 0 190 245 710381402 710381347 3.750000e-15 93.5
30 TraesCS2B01G429100 chr3B 98.000 50 1 0 197 246 556644788 556644739 1.750000e-13 87.9
31 TraesCS2B01G429100 chr3A 98.077 52 1 0 195 246 697782311 697782260 1.350000e-14 91.6
32 TraesCS2B01G429100 chr7D 93.443 61 3 1 196 256 368887002 368886943 4.860000e-14 89.8


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 TraesCS2B01G429100 chr2B 616473097 616476628 3531 True 6523 6523 100.0000 1 3532 1 chr2B.!!$R3 3531
1 TraesCS2B01G429100 chr2B 291586015 291586789 774 False 380 473 95.2425 1 527 2 chr2B.!!$F2 526
2 TraesCS2B01G429100 chr2D 522985315 522988115 2800 True 3947 3947 91.9650 627 3485 1 chr2D.!!$R1 2858
3 TraesCS2B01G429100 chr2A 668049074 668052289 3215 True 1935 3437 93.7720 627 3532 2 chr2A.!!$R1 2905

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
531 819 0.036448 TTGTTATCAAACGGGGCCGA 59.964 50.0 0.00 0.0 42.83 5.54 F
1262 1859 0.096454 GCTGACCGGTATTTCGTTGC 59.904 55.0 7.34 0.0 0.00 4.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1444 2041 1.069636 GCCGAGCTGAAAGTGAAGTTG 60.070 52.381 0.00 0.0 35.3 3.16 R
2919 3532 0.242017 AGCGCCTTCTGAACATTTGC 59.758 50.000 2.29 0.0 0.0 3.68 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
33 34 1.149148 GACTTGTCTCTTTCCACGCC 58.851 55.000 0.00 0.00 0.00 5.68
36 37 0.599204 TTGTCTCTTTCCACGCCGAC 60.599 55.000 0.00 0.00 0.00 4.79
66 67 2.611224 GGATGAAGGCCAAGCTGTTTTG 60.611 50.000 5.01 0.00 0.00 2.44
105 106 0.839946 GTATGGTCCACTGCCTCCAT 59.160 55.000 0.00 0.00 42.38 3.41
129 130 2.305343 GCAGCTCCTGATTATCCCAGAT 59.695 50.000 0.00 0.00 32.44 2.90
131 132 3.327172 CAGCTCCTGATTATCCCAGATGT 59.673 47.826 0.00 0.00 32.44 3.06
147 148 3.976942 CAGATGTGAAAGAAAACCAAGCG 59.023 43.478 0.00 0.00 0.00 4.68
185 186 3.329889 TGCCATTGACCGCCTCCT 61.330 61.111 0.00 0.00 0.00 3.69
200 488 3.492829 CGCCTCCTCCCTATTTGTTACTC 60.493 52.174 0.00 0.00 0.00 2.59
201 489 3.181453 GCCTCCTCCCTATTTGTTACTCC 60.181 52.174 0.00 0.00 0.00 3.85
202 490 3.391626 CCTCCTCCCTATTTGTTACTCCC 59.608 52.174 0.00 0.00 0.00 4.30
203 491 4.299485 CTCCTCCCTATTTGTTACTCCCT 58.701 47.826 0.00 0.00 0.00 4.20
204 492 4.296056 TCCTCCCTATTTGTTACTCCCTC 58.704 47.826 0.00 0.00 0.00 4.30
205 493 3.391626 CCTCCCTATTTGTTACTCCCTCC 59.608 52.174 0.00 0.00 0.00 4.30
206 494 3.036091 TCCCTATTTGTTACTCCCTCCG 58.964 50.000 0.00 0.00 0.00 4.63
207 495 2.770232 CCCTATTTGTTACTCCCTCCGT 59.230 50.000 0.00 0.00 0.00 4.69
208 496 3.962718 CCCTATTTGTTACTCCCTCCGTA 59.037 47.826 0.00 0.00 0.00 4.02
209 497 4.406649 CCCTATTTGTTACTCCCTCCGTAA 59.593 45.833 0.00 0.00 0.00 3.18
210 498 5.104817 CCCTATTTGTTACTCCCTCCGTAAA 60.105 44.000 0.00 0.00 0.00 2.01
211 499 5.814188 CCTATTTGTTACTCCCTCCGTAAAC 59.186 44.000 0.00 0.00 0.00 2.01
212 500 4.961438 TTTGTTACTCCCTCCGTAAACT 57.039 40.909 0.00 0.00 0.00 2.66
213 501 6.610075 ATTTGTTACTCCCTCCGTAAACTA 57.390 37.500 0.00 0.00 0.00 2.24
214 502 6.418057 TTTGTTACTCCCTCCGTAAACTAA 57.582 37.500 0.00 0.00 0.00 2.24
215 503 6.610075 TTGTTACTCCCTCCGTAAACTAAT 57.390 37.500 0.00 0.00 0.00 1.73
216 504 7.716799 TTGTTACTCCCTCCGTAAACTAATA 57.283 36.000 0.00 0.00 0.00 0.98
217 505 7.902920 TGTTACTCCCTCCGTAAACTAATAT 57.097 36.000 0.00 0.00 0.00 1.28
218 506 8.995027 TGTTACTCCCTCCGTAAACTAATATA 57.005 34.615 0.00 0.00 0.00 0.86
219 507 9.420118 TGTTACTCCCTCCGTAAACTAATATAA 57.580 33.333 0.00 0.00 0.00 0.98
220 508 9.905171 GTTACTCCCTCCGTAAACTAATATAAG 57.095 37.037 0.00 0.00 0.00 1.73
221 509 9.866655 TTACTCCCTCCGTAAACTAATATAAGA 57.133 33.333 0.00 0.00 0.00 2.10
222 510 8.406730 ACTCCCTCCGTAAACTAATATAAGAG 57.593 38.462 0.00 0.00 0.00 2.85
223 511 7.039853 ACTCCCTCCGTAAACTAATATAAGAGC 60.040 40.741 0.00 0.00 0.00 4.09
224 512 6.072286 TCCCTCCGTAAACTAATATAAGAGCG 60.072 42.308 0.00 0.00 0.00 5.03
225 513 6.294397 CCCTCCGTAAACTAATATAAGAGCGT 60.294 42.308 0.00 0.00 0.00 5.07
226 514 7.144000 CCTCCGTAAACTAATATAAGAGCGTT 58.856 38.462 0.00 0.00 0.00 4.84
227 515 7.650903 CCTCCGTAAACTAATATAAGAGCGTTT 59.349 37.037 0.00 0.00 0.00 3.60
228 516 9.669353 CTCCGTAAACTAATATAAGAGCGTTTA 57.331 33.333 0.00 0.00 0.00 2.01
229 517 9.669353 TCCGTAAACTAATATAAGAGCGTTTAG 57.331 33.333 0.00 0.00 30.36 1.85
230 518 9.669353 CCGTAAACTAATATAAGAGCGTTTAGA 57.331 33.333 0.00 0.00 30.36 2.10
252 540 6.331061 AGATCACTACTTTGGTAAGCGTAAG 58.669 40.000 0.00 0.00 34.60 2.34
267 555 2.196749 CGTAAGAGCGAGATTGTGCAT 58.803 47.619 0.00 0.00 43.02 3.96
271 559 1.371337 GAGCGAGATTGTGCATGGCA 61.371 55.000 0.00 0.00 35.60 4.92
324 612 2.698763 TACGTCGGTGCCGTGCATA 61.699 57.895 10.60 0.00 41.91 3.14
365 653 1.751351 TGTCTAGCTAGCTCAACGCAT 59.249 47.619 23.26 0.00 42.61 4.73
371 659 2.797156 AGCTAGCTCAACGCATAATTCG 59.203 45.455 12.68 0.00 42.61 3.34
407 695 1.691196 CTCTTGCCAAACAGGTCCAA 58.309 50.000 0.00 0.00 40.61 3.53
457 745 7.281098 TCTATTATGGCAAAACCGTGGTATTA 58.719 34.615 0.00 0.00 43.94 0.98
465 753 5.448089 GCAAAACCGTGGTATTATGTACCTG 60.448 44.000 9.66 3.96 38.39 4.00
466 754 5.425196 AAACCGTGGTATTATGTACCTGT 57.575 39.130 9.66 3.56 38.39 4.00
469 757 5.448654 ACCGTGGTATTATGTACCTGTAGA 58.551 41.667 9.66 0.00 38.39 2.59
527 815 3.866883 ATGCTTTGTTATCAAACGGGG 57.133 42.857 0.00 0.00 38.44 5.73
528 816 1.271102 TGCTTTGTTATCAAACGGGGC 59.729 47.619 0.00 0.00 38.44 5.80
529 817 1.403647 GCTTTGTTATCAAACGGGGCC 60.404 52.381 0.00 0.00 38.44 5.80
530 818 0.882474 TTTGTTATCAAACGGGGCCG 59.118 50.000 0.00 0.00 46.03 6.13
531 819 0.036448 TTGTTATCAAACGGGGCCGA 59.964 50.000 0.00 0.00 42.83 5.54
532 820 0.036448 TGTTATCAAACGGGGCCGAA 59.964 50.000 0.00 0.00 42.83 4.30
533 821 1.166989 GTTATCAAACGGGGCCGAAA 58.833 50.000 0.00 0.00 42.83 3.46
534 822 1.540707 GTTATCAAACGGGGCCGAAAA 59.459 47.619 0.00 0.00 42.83 2.29
535 823 2.131776 TATCAAACGGGGCCGAAAAT 57.868 45.000 0.00 0.00 42.83 1.82
536 824 0.815095 ATCAAACGGGGCCGAAAATC 59.185 50.000 0.00 0.00 42.83 2.17
537 825 1.154112 CAAACGGGGCCGAAAATCG 60.154 57.895 0.00 0.00 42.83 3.34
546 834 4.617875 CGAAAATCGGCCTCCAGT 57.382 55.556 0.00 0.00 36.00 4.00
547 835 3.752796 CGAAAATCGGCCTCCAGTA 57.247 52.632 0.00 0.00 36.00 2.74
548 836 1.571919 CGAAAATCGGCCTCCAGTAG 58.428 55.000 0.00 0.00 36.00 2.57
549 837 1.300481 GAAAATCGGCCTCCAGTAGC 58.700 55.000 0.00 0.00 0.00 3.58
550 838 0.462047 AAAATCGGCCTCCAGTAGCG 60.462 55.000 0.00 0.00 0.00 4.26
551 839 2.925162 AAATCGGCCTCCAGTAGCGC 62.925 60.000 0.00 0.00 0.00 5.92
553 841 4.148825 CGGCCTCCAGTAGCGCTT 62.149 66.667 18.68 0.00 0.00 4.68
554 842 2.512515 GGCCTCCAGTAGCGCTTG 60.513 66.667 18.68 9.07 0.00 4.01
555 843 2.266055 GCCTCCAGTAGCGCTTGT 59.734 61.111 18.68 0.00 0.00 3.16
556 844 2.103042 GCCTCCAGTAGCGCTTGTG 61.103 63.158 18.68 13.81 0.00 3.33
557 845 2.103042 CCTCCAGTAGCGCTTGTGC 61.103 63.158 18.68 3.83 0.00 4.57
567 855 3.440267 GCTTGTGCGACATTTGCG 58.560 55.556 0.00 0.00 34.24 4.85
568 856 2.082366 GCTTGTGCGACATTTGCGG 61.082 57.895 0.00 0.00 34.24 5.69
569 857 1.573932 CTTGTGCGACATTTGCGGA 59.426 52.632 0.00 0.00 34.24 5.54
570 858 0.168788 CTTGTGCGACATTTGCGGAT 59.831 50.000 0.00 0.00 34.24 4.18
571 859 0.595588 TTGTGCGACATTTGCGGATT 59.404 45.000 0.00 0.00 34.24 3.01
572 860 0.595588 TGTGCGACATTTGCGGATTT 59.404 45.000 0.00 0.00 34.24 2.17
573 861 0.984109 GTGCGACATTTGCGGATTTG 59.016 50.000 0.00 0.00 34.24 2.32
574 862 0.732196 TGCGACATTTGCGGATTTGC 60.732 50.000 0.00 0.00 34.24 3.68
575 863 1.413008 GCGACATTTGCGGATTTGCC 61.413 55.000 0.00 0.00 0.00 4.52
576 864 0.171007 CGACATTTGCGGATTTGCCT 59.829 50.000 0.00 0.00 0.00 4.75
577 865 1.402720 CGACATTTGCGGATTTGCCTT 60.403 47.619 0.00 0.00 0.00 4.35
578 866 2.262211 GACATTTGCGGATTTGCCTTC 58.738 47.619 0.00 0.00 0.00 3.46
579 867 1.066929 ACATTTGCGGATTTGCCTTCC 60.067 47.619 0.00 0.00 0.00 3.46
580 868 0.536724 ATTTGCGGATTTGCCTTCCC 59.463 50.000 0.00 0.00 0.00 3.97
581 869 0.829602 TTTGCGGATTTGCCTTCCCA 60.830 50.000 0.00 0.00 0.00 4.37
582 870 1.531739 TTGCGGATTTGCCTTCCCAC 61.532 55.000 0.00 0.00 0.00 4.61
583 871 2.710902 GCGGATTTGCCTTCCCACC 61.711 63.158 0.00 0.00 0.00 4.61
584 872 1.304052 CGGATTTGCCTTCCCACCA 60.304 57.895 0.00 0.00 0.00 4.17
585 873 1.595093 CGGATTTGCCTTCCCACCAC 61.595 60.000 0.00 0.00 0.00 4.16
586 874 1.257750 GGATTTGCCTTCCCACCACC 61.258 60.000 0.00 0.00 0.00 4.61
587 875 1.595093 GATTTGCCTTCCCACCACCG 61.595 60.000 0.00 0.00 0.00 4.94
588 876 4.966787 TTGCCTTCCCACCACCGC 62.967 66.667 0.00 0.00 0.00 5.68
591 879 4.722700 CCTTCCCACCACCGCCAG 62.723 72.222 0.00 0.00 0.00 4.85
592 880 3.953775 CTTCCCACCACCGCCAGT 61.954 66.667 0.00 0.00 0.00 4.00
593 881 3.491598 CTTCCCACCACCGCCAGTT 62.492 63.158 0.00 0.00 0.00 3.16
594 882 3.485346 TTCCCACCACCGCCAGTTC 62.485 63.158 0.00 0.00 0.00 3.01
603 891 4.764336 CGCCAGTTCCGCGTACGA 62.764 66.667 21.65 0.00 44.55 3.43
604 892 2.879462 GCCAGTTCCGCGTACGAG 60.879 66.667 21.65 16.82 43.93 4.18
605 893 2.872557 CCAGTTCCGCGTACGAGA 59.127 61.111 21.65 12.07 43.93 4.04
606 894 1.432251 CCAGTTCCGCGTACGAGAT 59.568 57.895 21.65 0.00 43.93 2.75
607 895 0.866061 CCAGTTCCGCGTACGAGATG 60.866 60.000 21.65 12.16 43.93 2.90
608 896 0.098200 CAGTTCCGCGTACGAGATGA 59.902 55.000 21.65 6.66 43.93 2.92
609 897 0.377554 AGTTCCGCGTACGAGATGAG 59.622 55.000 21.65 2.80 43.93 2.90
610 898 1.063649 TTCCGCGTACGAGATGAGC 59.936 57.895 21.65 0.00 43.93 4.26
613 901 4.924924 GCGTACGAGATGAGCGAT 57.075 55.556 21.65 0.00 0.00 4.58
614 902 2.702331 GCGTACGAGATGAGCGATC 58.298 57.895 21.65 0.00 0.00 3.69
615 903 0.726452 GCGTACGAGATGAGCGATCC 60.726 60.000 21.65 0.00 0.00 3.36
616 904 0.451299 CGTACGAGATGAGCGATCCG 60.451 60.000 10.44 0.00 33.46 4.18
752 1040 1.535860 GGCCACGCGCATTCATTATTT 60.536 47.619 5.73 0.00 40.31 1.40
886 1177 0.671472 TCTCGTCGTCTCCACGCTAA 60.671 55.000 0.00 0.00 46.28 3.09
920 1212 0.769247 AAACTCCCAACTACCCGCTT 59.231 50.000 0.00 0.00 0.00 4.68
921 1213 1.648116 AACTCCCAACTACCCGCTTA 58.352 50.000 0.00 0.00 0.00 3.09
933 1226 1.187087 CCCGCTTACTCCTGAGTTCT 58.813 55.000 4.94 0.00 42.54 3.01
941 1234 1.954362 CTCCTGAGTTCTGAGCCCGG 61.954 65.000 0.00 0.00 0.00 5.73
946 1239 1.668101 GAGTTCTGAGCCCGGTCGAT 61.668 60.000 0.00 0.00 0.00 3.59
948 1241 2.423898 TTCTGAGCCCGGTCGATCC 61.424 63.158 0.00 0.00 0.00 3.36
993 1286 2.029964 TCAACTCGCACGGGGAAC 59.970 61.111 0.00 0.00 0.00 3.62
1062 1658 1.144936 CAAGGTCATCCCCGCTCTC 59.855 63.158 0.00 0.00 0.00 3.20
1067 1663 3.237741 CATCCCCGCTCTCCCTCC 61.238 72.222 0.00 0.00 0.00 4.30
1091 1687 3.178865 TCCCCTTCGGTCTCTGTATTTT 58.821 45.455 0.00 0.00 0.00 1.82
1092 1688 3.055385 TCCCCTTCGGTCTCTGTATTTTG 60.055 47.826 0.00 0.00 0.00 2.44
1093 1689 3.307480 CCCCTTCGGTCTCTGTATTTTGT 60.307 47.826 0.00 0.00 0.00 2.83
1111 1707 0.917259 GTTCACACGCTGCTAGATCG 59.083 55.000 0.00 0.00 0.00 3.69
1174 1770 1.055338 CTAGTTTGCGCTTTGCTTGC 58.945 50.000 9.73 0.00 46.63 4.01
1198 1794 2.678336 GGGTGGATCTTCGTGTGAATTC 59.322 50.000 0.00 0.00 32.61 2.17
1200 1796 2.348666 GTGGATCTTCGTGTGAATTCCG 59.651 50.000 2.27 0.00 38.33 4.30
1254 1851 1.754803 TCTGAATTCGCTGACCGGTAT 59.245 47.619 7.34 0.00 37.59 2.73
1261 1858 0.368907 CGCTGACCGGTATTTCGTTG 59.631 55.000 7.34 0.00 0.00 4.10
1262 1859 0.096454 GCTGACCGGTATTTCGTTGC 59.904 55.000 7.34 0.00 0.00 4.17
1274 1871 2.087501 TTCGTTGCGCCTGATTTCTA 57.912 45.000 4.18 0.00 0.00 2.10
1298 1895 1.164411 CCGCTTAGGTGAATTGTGCA 58.836 50.000 0.00 0.00 34.51 4.57
1320 1917 5.861725 CAGTAGTACGACTGTATTGAACGA 58.138 41.667 23.48 0.00 41.67 3.85
1324 1921 6.486253 AGTACGACTGTATTGAACGAGTTA 57.514 37.500 0.00 0.00 32.11 2.24
1332 1929 4.873827 TGTATTGAACGAGTTATCCTTGGC 59.126 41.667 0.00 0.00 0.00 4.52
1431 2028 2.076100 CAGTGGTACGTACGACCTGTA 58.924 52.381 29.82 6.77 37.88 2.74
1433 2030 3.058293 CAGTGGTACGTACGACCTGTAAA 60.058 47.826 29.82 6.08 37.88 2.01
1435 2032 2.227865 TGGTACGTACGACCTGTAAACC 59.772 50.000 24.41 14.54 37.88 3.27
1436 2033 2.488153 GGTACGTACGACCTGTAAACCT 59.512 50.000 24.41 0.00 34.07 3.50
1438 2035 1.270550 ACGTACGACCTGTAAACCTGG 59.729 52.381 24.41 0.00 34.07 4.45
1439 2036 1.718396 GTACGACCTGTAAACCTGGC 58.282 55.000 0.00 0.00 35.64 4.85
1440 2037 1.001181 GTACGACCTGTAAACCTGGCA 59.999 52.381 0.00 0.00 35.64 4.92
1441 2038 0.690762 ACGACCTGTAAACCTGGCAT 59.309 50.000 0.00 0.00 35.64 4.40
1442 2039 1.073284 ACGACCTGTAAACCTGGCATT 59.927 47.619 0.00 0.00 35.64 3.56
1444 2041 2.092323 GACCTGTAAACCTGGCATTCC 58.908 52.381 0.00 0.00 35.64 3.01
1445 2042 1.427368 ACCTGTAAACCTGGCATTCCA 59.573 47.619 0.00 0.00 40.85 3.53
1474 2074 4.526262 ACTTTCAGCTCGGCTATGAGATAT 59.474 41.667 5.52 0.00 36.40 1.63
1484 2084 5.047731 TCGGCTATGAGATATCTCCAACTTG 60.048 44.000 26.33 14.21 42.20 3.16
1522 2122 7.312154 TGAATCAAATTATTTTGTCTGGTCCG 58.688 34.615 9.31 0.00 42.37 4.79
1579 2181 4.894784 AGGTTATTATATGCCGTGTCCTG 58.105 43.478 0.00 0.00 0.00 3.86
1610 2212 5.233476 TGTCCAAAATAATGATCGTCTACGC 59.767 40.000 0.00 0.00 39.60 4.42
1628 2230 3.596214 ACGCCATTAAACATCGACTCTT 58.404 40.909 0.00 0.00 0.00 2.85
1771 2376 4.337274 CGAAGTACAAGGACCAAGGTTTTT 59.663 41.667 0.00 0.00 0.00 1.94
1857 2462 8.451908 ACTGGGTTTAATCTACATATTGCTTC 57.548 34.615 0.00 0.00 0.00 3.86
1889 2494 9.565213 GTACTAGTTAGTCGATTTACACAACAT 57.435 33.333 0.00 0.00 37.73 2.71
1894 2499 8.521176 AGTTAGTCGATTTACACAACATACTCT 58.479 33.333 0.00 0.00 0.00 3.24
2030 2636 1.008538 CGTTCAGTTTGCCTGCACC 60.009 57.895 0.00 0.00 41.25 5.01
2123 2729 6.822667 TGCATTTATCTGTTTCAGTGTGAT 57.177 33.333 0.00 0.00 32.61 3.06
2125 2731 8.334263 TGCATTTATCTGTTTCAGTGTGATAA 57.666 30.769 0.00 0.00 32.61 1.75
2126 2732 8.959548 TGCATTTATCTGTTTCAGTGTGATAAT 58.040 29.630 0.00 0.00 32.11 1.28
2163 2769 0.479815 GGGATGCCCATGAATCTCCA 59.520 55.000 0.00 0.00 44.65 3.86
2194 2800 7.671302 TCTTAAGAATAATCCATCCGAGAAGG 58.329 38.462 1.68 0.00 42.97 3.46
2206 2816 1.667724 CCGAGAAGGTTTATGCTGCAG 59.332 52.381 10.11 10.11 34.51 4.41
2222 2832 3.878778 CTGCAGTATTGAGCCCTAGTTT 58.121 45.455 5.25 0.00 0.00 2.66
2263 2873 0.313672 TCAACGGCAGCAATGTTTCC 59.686 50.000 0.00 0.00 0.00 3.13
2365 2975 0.544697 ACAAGGAGGGTCACGTTGTT 59.455 50.000 0.00 0.00 41.38 2.83
2395 3005 1.611261 CCCGACCACTTCCCCACTA 60.611 63.158 0.00 0.00 0.00 2.74
2451 3064 2.173519 CCCCTTGCACATGTTGAATCT 58.826 47.619 0.00 0.00 0.00 2.40
2682 3295 9.251440 TCCTACTCTGTACTTGTTGTATATGTT 57.749 33.333 0.00 0.00 33.23 2.71
2696 3309 9.566530 TGTTGTATATGTTGTGTTAATGAATGC 57.433 29.630 0.00 0.00 0.00 3.56
2765 3378 5.192927 TGTTGTCTGGTCAAGTTTCTGAAT 58.807 37.500 0.00 0.00 0.00 2.57
2834 3447 3.278574 TCTGCATTTAATAGCGGCAACT 58.721 40.909 1.45 0.00 37.06 3.16
2919 3532 3.924686 GCATAGGTAAATCCCACGTATCG 59.075 47.826 0.00 0.00 36.75 2.92
3008 3626 9.628746 GACTTGCTATTACTAGTTTATAGCTCC 57.371 37.037 30.03 20.08 44.39 4.70
3012 3630 7.728981 TGCTATTACTAGTTTATAGCTCCCACT 59.271 37.037 30.03 0.00 44.39 4.00
3204 3822 4.034285 AGCTTGCCCTTACAACTGTTAT 57.966 40.909 0.00 0.00 0.00 1.89
3262 3880 1.742761 GCAGCATAGTGAAGCCAAGA 58.257 50.000 0.00 0.00 0.00 3.02
3288 3906 1.350193 CATTGGTCAGGTCGAAGTCG 58.650 55.000 0.00 0.00 41.45 4.18
3476 4094 4.446371 CTTCCAGCAATTACCTGAGGTAG 58.554 47.826 11.73 1.70 39.52 3.18
3485 4103 4.699925 TTACCTGAGGTAGCAAAACACT 57.300 40.909 11.73 0.00 39.52 3.55
3486 4104 2.851195 ACCTGAGGTAGCAAAACACTG 58.149 47.619 0.07 0.00 32.11 3.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 0.599204 GTCGGCGTGGAAAGAGACAA 60.599 55.000 6.85 0.00 0.00 3.18
36 37 3.864686 CCTTCATCCGCGTTGCCG 61.865 66.667 4.92 0.00 37.07 5.69
66 67 3.159984 CGAAGCTGCTCGTGAACC 58.840 61.111 1.00 0.00 34.08 3.62
105 106 0.250038 GGATAATCAGGAGCTGCGCA 60.250 55.000 10.98 10.98 0.00 6.09
129 130 1.202359 GCCGCTTGGTTTTCTTTCACA 60.202 47.619 0.00 0.00 34.16 3.58
131 132 1.336755 GAGCCGCTTGGTTTTCTTTCA 59.663 47.619 0.00 0.00 34.16 2.69
168 169 3.329542 GAGGAGGCGGTCAATGGCA 62.330 63.158 0.00 0.00 0.00 4.92
172 173 0.104934 ATAGGGAGGAGGCGGTCAAT 60.105 55.000 0.00 0.00 0.00 2.57
185 186 3.036091 CGGAGGGAGTAACAAATAGGGA 58.964 50.000 0.00 0.00 0.00 4.20
200 488 6.091437 CGCTCTTATATTAGTTTACGGAGGG 58.909 44.000 0.00 0.00 0.00 4.30
201 489 6.675987 ACGCTCTTATATTAGTTTACGGAGG 58.324 40.000 0.00 0.00 0.00 4.30
202 490 8.571461 AAACGCTCTTATATTAGTTTACGGAG 57.429 34.615 0.00 0.00 31.14 4.63
203 491 9.669353 CTAAACGCTCTTATATTAGTTTACGGA 57.331 33.333 0.00 0.00 34.29 4.69
204 492 9.669353 TCTAAACGCTCTTATATTAGTTTACGG 57.331 33.333 0.00 0.00 34.29 4.02
215 503 9.731819 CAAAGTAGTGATCTAAACGCTCTTATA 57.268 33.333 0.00 0.00 0.00 0.98
216 504 7.707035 CCAAAGTAGTGATCTAAACGCTCTTAT 59.293 37.037 0.00 0.00 0.00 1.73
217 505 7.033791 CCAAAGTAGTGATCTAAACGCTCTTA 58.966 38.462 0.00 0.00 0.00 2.10
218 506 5.869888 CCAAAGTAGTGATCTAAACGCTCTT 59.130 40.000 0.00 0.00 0.00 2.85
219 507 5.047235 ACCAAAGTAGTGATCTAAACGCTCT 60.047 40.000 0.00 0.00 0.00 4.09
220 508 5.169295 ACCAAAGTAGTGATCTAAACGCTC 58.831 41.667 0.00 0.00 0.00 5.03
221 509 5.148651 ACCAAAGTAGTGATCTAAACGCT 57.851 39.130 0.00 0.00 0.00 5.07
222 510 6.455246 GCTTACCAAAGTAGTGATCTAAACGC 60.455 42.308 0.00 0.00 34.99 4.84
223 511 6.237490 CGCTTACCAAAGTAGTGATCTAAACG 60.237 42.308 0.00 0.00 34.99 3.60
224 512 6.589139 ACGCTTACCAAAGTAGTGATCTAAAC 59.411 38.462 0.00 0.00 34.99 2.01
225 513 6.694447 ACGCTTACCAAAGTAGTGATCTAAA 58.306 36.000 0.00 0.00 34.99 1.85
226 514 6.276832 ACGCTTACCAAAGTAGTGATCTAA 57.723 37.500 0.00 0.00 34.99 2.10
227 515 5.909621 ACGCTTACCAAAGTAGTGATCTA 57.090 39.130 0.00 0.00 34.99 1.98
228 516 4.803098 ACGCTTACCAAAGTAGTGATCT 57.197 40.909 0.00 0.00 34.99 2.75
229 517 6.327934 TCTTACGCTTACCAAAGTAGTGATC 58.672 40.000 0.00 0.00 34.99 2.92
230 518 6.276832 TCTTACGCTTACCAAAGTAGTGAT 57.723 37.500 0.00 0.00 34.99 3.06
231 519 5.706916 CTCTTACGCTTACCAAAGTAGTGA 58.293 41.667 0.00 0.00 34.99 3.41
232 520 4.326548 GCTCTTACGCTTACCAAAGTAGTG 59.673 45.833 0.00 0.00 34.99 2.74
233 521 4.492611 GCTCTTACGCTTACCAAAGTAGT 58.507 43.478 0.00 0.00 34.99 2.73
234 522 3.546670 CGCTCTTACGCTTACCAAAGTAG 59.453 47.826 0.00 0.00 34.99 2.57
235 523 3.191162 TCGCTCTTACGCTTACCAAAGTA 59.809 43.478 0.00 0.00 34.99 2.24
236 524 2.029649 TCGCTCTTACGCTTACCAAAGT 60.030 45.455 0.00 0.00 34.99 2.66
237 525 2.599082 CTCGCTCTTACGCTTACCAAAG 59.401 50.000 0.00 0.00 35.68 2.77
238 526 2.229543 TCTCGCTCTTACGCTTACCAAA 59.770 45.455 0.00 0.00 0.00 3.28
252 540 1.354506 GCCATGCACAATCTCGCTC 59.645 57.895 0.00 0.00 0.00 5.03
267 555 2.265182 GGCCAAGCTAAACGTGCCA 61.265 57.895 0.00 0.00 0.00 4.92
271 559 1.812571 CTGAATGGCCAAGCTAAACGT 59.187 47.619 10.96 0.00 0.00 3.99
324 612 2.854963 TCTGCAAACTGATGAACTGCT 58.145 42.857 0.00 0.00 34.10 4.24
365 653 4.380444 GCCATTGGAAGCAGTTTCGAATTA 60.380 41.667 6.95 0.00 40.79 1.40
371 659 2.165998 AGAGCCATTGGAAGCAGTTTC 58.834 47.619 6.95 0.00 34.93 2.78
529 817 1.571919 CTACTGGAGGCCGATTTTCG 58.428 55.000 0.00 0.00 40.07 3.46
530 818 1.300481 GCTACTGGAGGCCGATTTTC 58.700 55.000 0.00 0.00 0.00 2.29
531 819 0.462047 CGCTACTGGAGGCCGATTTT 60.462 55.000 0.00 0.00 0.00 1.82
532 820 1.144057 CGCTACTGGAGGCCGATTT 59.856 57.895 0.00 0.00 0.00 2.17
533 821 2.815308 CGCTACTGGAGGCCGATT 59.185 61.111 0.00 0.00 0.00 3.34
534 822 3.917760 GCGCTACTGGAGGCCGAT 61.918 66.667 0.00 0.00 0.00 4.18
536 824 4.148825 AAGCGCTACTGGAGGCCG 62.149 66.667 12.05 0.00 0.00 6.13
537 825 2.512515 CAAGCGCTACTGGAGGCC 60.513 66.667 12.05 0.00 0.00 5.19
538 826 2.103042 CACAAGCGCTACTGGAGGC 61.103 63.158 12.05 0.00 0.00 4.70
539 827 2.103042 GCACAAGCGCTACTGGAGG 61.103 63.158 12.05 1.73 0.00 4.30
540 828 3.479370 GCACAAGCGCTACTGGAG 58.521 61.111 12.05 4.85 0.00 3.86
550 838 2.082366 CCGCAAATGTCGCACAAGC 61.082 57.895 0.00 0.00 37.42 4.01
551 839 0.168788 ATCCGCAAATGTCGCACAAG 59.831 50.000 0.00 0.00 0.00 3.16
552 840 0.595588 AATCCGCAAATGTCGCACAA 59.404 45.000 0.00 0.00 0.00 3.33
553 841 0.595588 AAATCCGCAAATGTCGCACA 59.404 45.000 0.00 0.00 0.00 4.57
554 842 0.984109 CAAATCCGCAAATGTCGCAC 59.016 50.000 0.00 0.00 0.00 5.34
555 843 0.732196 GCAAATCCGCAAATGTCGCA 60.732 50.000 0.00 0.00 0.00 5.10
556 844 1.413008 GGCAAATCCGCAAATGTCGC 61.413 55.000 0.00 0.00 0.00 5.19
557 845 0.171007 AGGCAAATCCGCAAATGTCG 59.829 50.000 0.00 0.00 40.77 4.35
558 846 2.262211 GAAGGCAAATCCGCAAATGTC 58.738 47.619 0.00 0.00 40.77 3.06
559 847 1.066929 GGAAGGCAAATCCGCAAATGT 60.067 47.619 0.00 0.00 40.77 2.71
560 848 1.643880 GGAAGGCAAATCCGCAAATG 58.356 50.000 0.00 0.00 40.77 2.32
561 849 0.536724 GGGAAGGCAAATCCGCAAAT 59.463 50.000 0.00 0.00 40.77 2.32
562 850 0.829602 TGGGAAGGCAAATCCGCAAA 60.830 50.000 0.00 0.00 40.77 3.68
563 851 1.228706 TGGGAAGGCAAATCCGCAA 60.229 52.632 0.00 0.00 40.77 4.85
564 852 1.976474 GTGGGAAGGCAAATCCGCA 60.976 57.895 0.00 0.00 40.77 5.69
565 853 2.710902 GGTGGGAAGGCAAATCCGC 61.711 63.158 0.00 0.00 40.77 5.54
566 854 1.304052 TGGTGGGAAGGCAAATCCG 60.304 57.895 0.00 0.00 40.77 4.18
567 855 1.257750 GGTGGTGGGAAGGCAAATCC 61.258 60.000 0.00 0.00 36.16 3.01
568 856 1.595093 CGGTGGTGGGAAGGCAAATC 61.595 60.000 0.00 0.00 0.00 2.17
569 857 1.606313 CGGTGGTGGGAAGGCAAAT 60.606 57.895 0.00 0.00 0.00 2.32
570 858 2.203422 CGGTGGTGGGAAGGCAAA 60.203 61.111 0.00 0.00 0.00 3.68
571 859 4.966787 GCGGTGGTGGGAAGGCAA 62.967 66.667 0.00 0.00 0.00 4.52
574 862 4.722700 CTGGCGGTGGTGGGAAGG 62.723 72.222 0.00 0.00 0.00 3.46
575 863 3.491598 AACTGGCGGTGGTGGGAAG 62.492 63.158 0.00 0.00 0.00 3.46
576 864 3.485346 GAACTGGCGGTGGTGGGAA 62.485 63.158 0.00 0.00 0.00 3.97
577 865 3.948719 GAACTGGCGGTGGTGGGA 61.949 66.667 0.00 0.00 0.00 4.37
587 875 2.609183 ATCTCGTACGCGGAACTGGC 62.609 60.000 12.47 0.00 38.89 4.85
588 876 0.866061 CATCTCGTACGCGGAACTGG 60.866 60.000 12.47 4.05 38.89 4.00
589 877 0.098200 TCATCTCGTACGCGGAACTG 59.902 55.000 12.47 7.68 38.89 3.16
590 878 0.377554 CTCATCTCGTACGCGGAACT 59.622 55.000 12.47 0.00 38.89 3.01
591 879 1.201098 GCTCATCTCGTACGCGGAAC 61.201 60.000 12.47 7.50 38.89 3.62
592 880 1.063649 GCTCATCTCGTACGCGGAA 59.936 57.895 12.47 0.00 38.89 4.30
593 881 2.713770 GCTCATCTCGTACGCGGA 59.286 61.111 12.47 11.58 38.89 5.54
594 882 2.445354 ATCGCTCATCTCGTACGCGG 62.445 60.000 12.47 6.06 43.57 6.46
595 883 1.055405 GATCGCTCATCTCGTACGCG 61.055 60.000 11.24 3.53 44.63 6.01
596 884 0.726452 GGATCGCTCATCTCGTACGC 60.726 60.000 11.24 0.00 0.00 4.42
597 885 0.451299 CGGATCGCTCATCTCGTACG 60.451 60.000 9.53 9.53 0.00 3.67
598 886 3.369701 CGGATCGCTCATCTCGTAC 57.630 57.895 0.00 0.00 0.00 3.67
610 898 2.049985 GATGGTCTCGGCGGATCG 60.050 66.667 7.21 0.00 0.00 3.69
611 899 2.340443 GGATGGTCTCGGCGGATC 59.660 66.667 7.21 4.22 0.00 3.36
612 900 3.606662 CGGATGGTCTCGGCGGAT 61.607 66.667 7.21 0.00 0.00 4.18
613 901 4.807631 TCGGATGGTCTCGGCGGA 62.808 66.667 7.21 0.00 0.00 5.54
614 902 3.559657 GATCGGATGGTCTCGGCGG 62.560 68.421 7.21 0.00 0.00 6.13
615 903 2.049985 GATCGGATGGTCTCGGCG 60.050 66.667 0.00 0.00 0.00 6.46
616 904 2.340443 GGATCGGATGGTCTCGGC 59.660 66.667 0.00 0.00 0.00 5.54
617 905 1.244697 ATCGGATCGGATGGTCTCGG 61.245 60.000 14.43 0.00 0.00 4.63
618 906 0.169230 GATCGGATCGGATGGTCTCG 59.831 60.000 19.43 0.00 0.00 4.04
661 949 2.180159 GAGGCGCTGGGGTCAACTTA 62.180 60.000 7.64 0.00 0.00 2.24
920 1212 1.853963 GGGCTCAGAACTCAGGAGTA 58.146 55.000 1.78 0.00 41.58 2.59
921 1213 1.254284 CGGGCTCAGAACTCAGGAGT 61.254 60.000 0.00 0.00 44.94 3.85
968 1261 4.717629 TGCGAGTTGACGGAGGCG 62.718 66.667 0.00 0.00 0.00 5.52
969 1262 3.112709 GTGCGAGTTGACGGAGGC 61.113 66.667 0.00 0.00 33.91 4.70
970 1263 2.805353 CGTGCGAGTTGACGGAGG 60.805 66.667 0.00 0.00 33.91 4.30
1051 1647 4.565850 GGGAGGGAGAGCGGGGAT 62.566 72.222 0.00 0.00 0.00 3.85
1091 1687 1.732405 CGATCTAGCAGCGTGTGAACA 60.732 52.381 0.00 0.00 0.00 3.18
1092 1688 0.917259 CGATCTAGCAGCGTGTGAAC 59.083 55.000 0.00 0.00 0.00 3.18
1093 1689 0.802222 GCGATCTAGCAGCGTGTGAA 60.802 55.000 0.00 0.00 37.05 3.18
1129 1725 2.517402 CGAGCTAGCCCGGAGTCT 60.517 66.667 11.26 0.00 0.00 3.24
1157 1753 0.595825 GAGCAAGCAAAGCGCAAACT 60.596 50.000 11.47 0.00 46.13 2.66
1158 1754 1.848640 GAGCAAGCAAAGCGCAAAC 59.151 52.632 11.47 0.00 46.13 2.93
1174 1770 0.458543 CACACGAAGATCCACCCGAG 60.459 60.000 0.00 0.00 0.00 4.63
1200 1796 1.376609 AAATCCAACGGATCGGCAGC 61.377 55.000 0.00 0.00 42.27 5.25
1254 1851 1.234821 AGAAATCAGGCGCAACGAAA 58.765 45.000 10.83 0.00 0.00 3.46
1261 1858 0.940833 GGCTTCTAGAAATCAGGCGC 59.059 55.000 6.63 0.00 0.00 6.53
1262 1859 1.212616 CGGCTTCTAGAAATCAGGCG 58.787 55.000 19.61 19.61 46.94 5.52
1274 1871 2.290323 ACAATTCACCTAAGCGGCTTCT 60.290 45.455 20.06 0.00 35.61 2.85
1298 1895 5.641209 ACTCGTTCAATACAGTCGTACTACT 59.359 40.000 0.00 0.00 0.00 2.57
1320 1917 0.392998 CCTGCACGCCAAGGATAACT 60.393 55.000 0.00 0.00 0.00 2.24
1324 1921 1.452651 CATCCTGCACGCCAAGGAT 60.453 57.895 7.38 7.38 41.41 3.24
1431 2028 2.365293 GTGAAGTTGGAATGCCAGGTTT 59.635 45.455 0.00 0.00 46.91 3.27
1433 2030 1.145738 AGTGAAGTTGGAATGCCAGGT 59.854 47.619 0.00 0.00 46.91 4.00
1435 2032 3.318839 TGAAAGTGAAGTTGGAATGCCAG 59.681 43.478 0.00 0.00 46.91 4.85
1436 2033 3.295093 TGAAAGTGAAGTTGGAATGCCA 58.705 40.909 0.00 0.00 44.17 4.92
1438 2035 3.005155 AGCTGAAAGTGAAGTTGGAATGC 59.995 43.478 0.00 0.00 35.30 3.56
1439 2036 4.612259 CGAGCTGAAAGTGAAGTTGGAATG 60.612 45.833 0.00 0.00 35.30 2.67
1440 2037 3.499918 CGAGCTGAAAGTGAAGTTGGAAT 59.500 43.478 0.00 0.00 35.30 3.01
1441 2038 2.872245 CGAGCTGAAAGTGAAGTTGGAA 59.128 45.455 0.00 0.00 35.30 3.53
1442 2039 2.483876 CGAGCTGAAAGTGAAGTTGGA 58.516 47.619 0.00 0.00 35.30 3.53
1444 2041 1.069636 GCCGAGCTGAAAGTGAAGTTG 60.070 52.381 0.00 0.00 35.30 3.16
1445 2042 1.202698 AGCCGAGCTGAAAGTGAAGTT 60.203 47.619 0.00 0.00 37.57 2.66
1474 2074 1.311859 CACTGCTTGCAAGTTGGAGA 58.688 50.000 26.55 4.61 0.00 3.71
1522 2122 7.062255 GGACTGTACTTATTTTTCATTTGCTGC 59.938 37.037 0.00 0.00 0.00 5.25
1555 2157 6.640518 CAGGACACGGCATATAATAACCTAT 58.359 40.000 0.00 0.00 0.00 2.57
1556 2158 5.568023 GCAGGACACGGCATATAATAACCTA 60.568 44.000 0.00 0.00 37.75 3.08
1557 2159 4.802918 GCAGGACACGGCATATAATAACCT 60.803 45.833 0.00 0.00 37.75 3.50
1558 2160 3.435671 GCAGGACACGGCATATAATAACC 59.564 47.826 0.00 0.00 37.75 2.85
1559 2161 4.315803 AGCAGGACACGGCATATAATAAC 58.684 43.478 0.00 0.00 40.48 1.89
1579 2181 6.974622 ACGATCATTATTTTGGACAATCAAGC 59.025 34.615 0.00 0.00 0.00 4.01
1649 2251 4.705337 CGTAGCTGAAGAAGTAAGGTCT 57.295 45.455 0.00 0.00 0.00 3.85
1857 2462 9.946165 TGTAAATCGACTAACTAGTACATCATG 57.054 33.333 0.00 0.00 36.50 3.07
1889 2494 5.925509 GGTTAGCATCCAATAACCAGAGTA 58.074 41.667 8.82 0.00 46.76 2.59
2030 2636 1.810030 GTACTCGGCCTTGAAGCGG 60.810 63.158 0.00 0.00 34.61 5.52
2097 2703 7.085746 TCACACTGAAACAGATAAATGCATTG 58.914 34.615 13.82 2.92 35.18 2.82
2123 2729 5.069648 TCCCACTGAAACATTTGCAACATTA 59.930 36.000 0.00 0.00 0.00 1.90
2125 2731 3.387374 TCCCACTGAAACATTTGCAACAT 59.613 39.130 0.00 0.00 0.00 2.71
2126 2732 2.762887 TCCCACTGAAACATTTGCAACA 59.237 40.909 0.00 0.00 0.00 3.33
2179 2785 4.137543 GCATAAACCTTCTCGGATGGATT 58.862 43.478 11.20 8.73 36.31 3.01
2188 2794 5.586243 TCAATACTGCAGCATAAACCTTCTC 59.414 40.000 15.27 0.00 0.00 2.87
2192 2798 3.629398 GCTCAATACTGCAGCATAAACCT 59.371 43.478 15.27 0.00 33.06 3.50
2194 2800 3.243201 GGGCTCAATACTGCAGCATAAAC 60.243 47.826 15.27 0.00 34.62 2.01
2206 2816 7.011482 CAGACAATACAAACTAGGGCTCAATAC 59.989 40.741 0.00 0.00 0.00 1.89
2222 2832 5.221621 TGACATCAACCTGACAGACAATACA 60.222 40.000 3.32 0.00 0.00 2.29
2263 2873 1.358152 TCAGGAACTTGTACAGGGGG 58.642 55.000 10.04 0.00 34.60 5.40
2269 2879 5.135508 TGCTAGACTTCAGGAACTTGTAC 57.864 43.478 0.00 0.00 34.60 2.90
2365 2975 3.845259 GTCGGGGCATAGCGGTCA 61.845 66.667 0.00 0.00 0.00 4.02
2392 3002 5.875359 GCTGTTAGTTACCTCAATGCTTAGT 59.125 40.000 0.00 0.00 0.00 2.24
2395 3005 4.455877 GTGCTGTTAGTTACCTCAATGCTT 59.544 41.667 0.00 0.00 0.00 3.91
2551 3164 1.403679 AGAGTGCCGATTTCTCTCGAG 59.596 52.381 5.93 5.93 41.12 4.04
2554 3167 2.663826 ACAGAGTGCCGATTTCTCTC 57.336 50.000 0.00 0.00 36.57 3.20
2555 3168 4.404073 AGAATACAGAGTGCCGATTTCTCT 59.596 41.667 0.00 0.00 38.83 3.10
2696 3309 6.688385 CACCGAACAGCTACAATATTTGAATG 59.312 38.462 0.00 0.00 0.00 2.67
2765 3378 7.155655 TGCAGCAATGTGAGAAATTATGTTA 57.844 32.000 0.00 0.00 0.00 2.41
2811 3424 3.192541 TGCCGCTATTAAATGCAGAGA 57.807 42.857 0.00 0.00 0.00 3.10
2834 3447 6.910289 TGCTACGCATTACCACCTATTGGTA 61.910 44.000 0.00 0.00 45.68 3.25
2919 3532 0.242017 AGCGCCTTCTGAACATTTGC 59.758 50.000 2.29 0.00 0.00 3.68
3008 3626 4.322080 TTCCGCAGACTTATATCAGTGG 57.678 45.455 0.00 0.00 37.17 4.00
3012 3630 6.220930 GGTGTAATTCCGCAGACTTATATCA 58.779 40.000 0.00 0.00 0.00 2.15
3075 3693 8.423906 AATTCTAACCAAGACTTCTAGAGACA 57.576 34.615 0.00 0.00 32.51 3.41
3262 3880 1.066143 CGACCTGACCAATGGTTAGCT 60.066 52.381 17.69 5.20 37.89 3.32
3288 3906 2.744202 AGATGTCAAACTTGATCGCCAC 59.256 45.455 0.00 0.00 39.73 5.01
3476 4094 2.098117 AGAAGCTCACACAGTGTTTTGC 59.902 45.455 2.45 8.70 34.79 3.68
3486 4104 4.022762 TCTCTCTTGTGTAGAAGCTCACAC 60.023 45.833 15.63 15.63 42.93 3.82


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

AutoCloner maintained by Alex Coulton.