Multiple sequence alignment - TraesCS2A01G397900

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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 TraesCS2A01G397900 chr2A 100.000 4981 0 0 1 4981 651603988 651608968 0.000000e+00 9199.0
1 TraesCS2A01G397900 chr2A 85.142 1299 154 18 2903 4172 736548275 736549563 0.000000e+00 1293.0
2 TraesCS2A01G397900 chr2A 80.811 370 52 17 1809 2173 736546923 736547278 6.350000e-69 272.0
3 TraesCS2A01G397900 chr2D 93.993 2830 110 23 2168 4981 506788917 506791702 0.000000e+00 4229.0
4 TraesCS2A01G397900 chr2D 91.630 1362 70 21 847 2175 506787428 506788778 0.000000e+00 1844.0
5 TraesCS2A01G397900 chr2D 82.311 1549 208 29 2671 4172 605369873 605371402 0.000000e+00 1282.0
6 TraesCS2A01G397900 chr2D 89.054 539 53 2 132 669 506786815 506787348 0.000000e+00 664.0
7 TraesCS2A01G397900 chr2D 75.837 687 102 38 1527 2175 605368641 605369301 1.750000e-74 291.0
8 TraesCS2A01G397900 chr2D 91.870 123 9 1 26 147 506786432 506786554 2.380000e-38 171.0
9 TraesCS2A01G397900 chr2B 93.525 2857 121 29 2168 4981 594843099 594845934 0.000000e+00 4193.0
10 TraesCS2A01G397900 chr2B 90.429 1421 90 23 770 2175 594841572 594842961 0.000000e+00 1829.0
11 TraesCS2A01G397900 chr2B 82.594 1511 202 29 2707 4172 735519955 735521449 0.000000e+00 1277.0
12 TraesCS2A01G397900 chr2B 90.972 144 10 1 544 684 594841418 594841561 1.830000e-44 191.0
13 TraesCS2A01G397900 chr1B 79.784 371 66 9 1808 2175 672366496 672366132 1.380000e-65 261.0
14 TraesCS2A01G397900 chr6B 91.250 80 5 2 549 626 548822608 548822529 1.900000e-19 108.0
15 TraesCS2A01G397900 chr7D 87.805 82 8 2 546 625 140832235 140832316 1.480000e-15 95.3


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 TraesCS2A01G397900 chr2A 651603988 651608968 4980 False 9199.0 9199 100.00000 1 4981 1 chr2A.!!$F1 4980
1 TraesCS2A01G397900 chr2A 736546923 736549563 2640 False 782.5 1293 82.97650 1809 4172 2 chr2A.!!$F2 2363
2 TraesCS2A01G397900 chr2D 506786432 506791702 5270 False 1727.0 4229 91.63675 26 4981 4 chr2D.!!$F1 4955
3 TraesCS2A01G397900 chr2D 605368641 605371402 2761 False 786.5 1282 79.07400 1527 4172 2 chr2D.!!$F2 2645
4 TraesCS2A01G397900 chr2B 594841418 594845934 4516 False 2071.0 4193 91.64200 544 4981 3 chr2B.!!$F2 4437
5 TraesCS2A01G397900 chr2B 735519955 735521449 1494 False 1277.0 1277 82.59400 2707 4172 1 chr2B.!!$F1 1465

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
204 482 0.183014 TGCCACCCCTACAAAAACGA 59.817 50.000 0.00 0.0 0.00 3.85 F
547 826 0.400213 ACGATCCAAACTGCCCTTCA 59.600 50.000 0.00 0.0 0.00 3.02 F
1967 2335 0.463620 TTTGCACCCTTGTTTCAGCC 59.536 50.000 0.00 0.0 0.00 4.85 F
1982 2350 1.483827 TCAGCCTGTCTATTCTGCCTG 59.516 52.381 0.00 0.0 0.00 4.85 F
3122 3885 0.178953 CCCCCTATTTGCCAGATGGG 60.179 60.000 0.12 0.0 40.85 4.00 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1240 1551 0.894141 CCAATGGCCGAACAAATCCA 59.106 50.000 0.00 0.00 0.00 3.41 R
2342 2877 0.034670 GCATCTGGCCCTCAAGACTT 60.035 55.000 0.00 0.00 36.11 3.01 R
3046 3804 0.545171 ATCCACTGATGTCCTGCAGG 59.455 55.000 27.87 27.87 36.47 4.85 R
3830 4593 1.679032 GCATACGGCCTCCTGAAAACT 60.679 52.381 0.00 0.00 36.11 2.66 R
4742 5568 0.179045 ATATCCGCTTGCACTCCACC 60.179 55.000 0.00 0.00 0.00 4.61 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
21 22 3.515562 AGGGGTGACAAAATAATTGGCA 58.484 40.909 0.00 0.00 34.56 4.92
22 23 3.515104 AGGGGTGACAAAATAATTGGCAG 59.485 43.478 0.00 0.00 38.25 4.85
23 24 3.260632 GGGGTGACAAAATAATTGGCAGT 59.739 43.478 0.00 0.00 38.25 4.40
24 25 4.244862 GGGTGACAAAATAATTGGCAGTG 58.755 43.478 0.00 0.00 38.25 3.66
25 26 4.021544 GGGTGACAAAATAATTGGCAGTGA 60.022 41.667 0.00 0.00 38.25 3.41
26 27 5.337491 GGGTGACAAAATAATTGGCAGTGAT 60.337 40.000 0.00 0.00 38.25 3.06
27 28 6.127479 GGGTGACAAAATAATTGGCAGTGATA 60.127 38.462 0.00 0.00 38.25 2.15
34 35 2.310327 ATTGGCAGTGATAGGCGCGA 62.310 55.000 12.10 0.00 0.00 5.87
63 64 2.081462 CTTACCAACCCATCGGTGAAC 58.919 52.381 0.00 0.00 43.71 3.18
81 83 0.824182 ACGACCAAAAATTGCCCGGA 60.824 50.000 0.73 0.00 0.00 5.14
82 84 0.530288 CGACCAAAAATTGCCCGGAT 59.470 50.000 0.73 0.00 0.00 4.18
93 95 1.908793 GCCCGGATAGCTCTAGGCA 60.909 63.158 0.73 0.00 44.79 4.75
102 104 0.621571 AGCTCTAGGCACCCATCCAA 60.622 55.000 6.07 0.00 44.79 3.53
106 108 1.707989 TCTAGGCACCCATCCAAACAA 59.292 47.619 0.00 0.00 0.00 2.83
147 149 3.634397 TGACTCATCACAGGGGATTTC 57.366 47.619 0.00 0.00 0.00 2.17
148 150 2.912295 TGACTCATCACAGGGGATTTCA 59.088 45.455 0.00 0.00 0.00 2.69
149 151 3.330405 TGACTCATCACAGGGGATTTCAA 59.670 43.478 0.00 0.00 0.00 2.69
190 468 3.694538 GGTTGGTGCCCATGCCAC 61.695 66.667 6.26 6.26 36.33 5.01
204 482 0.183014 TGCCACCCCTACAAAAACGA 59.817 50.000 0.00 0.00 0.00 3.85
206 484 1.530323 CCACCCCTACAAAAACGAGG 58.470 55.000 0.00 0.00 0.00 4.63
287 565 5.413833 GCAGAATCTCAAGAGATGACCAAAA 59.586 40.000 12.96 0.00 46.75 2.44
330 608 5.742562 AATAGGGGGATGTTTGGATTACA 57.257 39.130 0.00 0.00 0.00 2.41
333 611 2.024369 GGGGGATGTTTGGATTACACCT 60.024 50.000 0.00 0.00 0.00 4.00
340 618 6.409234 GGATGTTTGGATTACACCTAGGATGA 60.409 42.308 17.98 0.00 0.00 2.92
352 630 2.643551 CTAGGATGACCACGCCAAATT 58.356 47.619 0.00 0.00 38.94 1.82
355 633 2.238646 AGGATGACCACGCCAAATTAGA 59.761 45.455 0.00 0.00 38.94 2.10
357 635 2.851263 TGACCACGCCAAATTAGAGT 57.149 45.000 0.00 0.00 0.00 3.24
367 645 4.558496 CGCCAAATTAGAGTGAGCCAAAAA 60.558 41.667 0.00 0.00 0.00 1.94
372 650 7.293018 CAAATTAGAGTGAGCCAAAAATTTGC 58.707 34.615 0.29 0.00 36.57 3.68
375 653 1.147473 GTGAGCCAAAAATTTGCCGG 58.853 50.000 0.00 0.00 36.86 6.13
421 699 1.407299 GGCGCATGGGCATCATATCTA 60.407 52.381 32.47 0.00 41.24 1.98
423 701 2.947652 GCGCATGGGCATCATATCTAAT 59.052 45.455 28.03 0.00 41.24 1.73
425 703 4.449131 CGCATGGGCATCATATCTAATCT 58.551 43.478 0.00 0.00 41.24 2.40
434 712 6.095580 GGCATCATATCTAATCTAGACGACCA 59.904 42.308 0.00 0.00 37.69 4.02
435 713 7.363007 GGCATCATATCTAATCTAGACGACCAA 60.363 40.741 0.00 0.00 37.69 3.67
436 714 8.029522 GCATCATATCTAATCTAGACGACCAAA 58.970 37.037 0.00 0.00 37.69 3.28
437 715 9.914131 CATCATATCTAATCTAGACGACCAAAA 57.086 33.333 0.00 0.00 37.69 2.44
490 769 1.619827 CCAACATTCACCCATGCAGTT 59.380 47.619 0.00 0.00 0.00 3.16
517 796 3.495124 CCAAGATTTTGGCGTGGTG 57.505 52.632 1.44 0.00 46.84 4.17
519 798 1.335872 CCAAGATTTTGGCGTGGTGAC 60.336 52.381 1.44 0.00 46.84 3.67
523 802 1.791103 ATTTTGGCGTGGTGACCGTG 61.791 55.000 0.00 0.00 0.00 4.94
539 818 1.303317 GTGGGCCACGATCCAAACT 60.303 57.895 22.83 0.00 34.47 2.66
547 826 0.400213 ACGATCCAAACTGCCCTTCA 59.600 50.000 0.00 0.00 0.00 3.02
560 839 1.886542 GCCCTTCAAAACACCTACCAG 59.113 52.381 0.00 0.00 0.00 4.00
574 853 1.195442 TACCAGCCCATCGGTCAACA 61.195 55.000 0.00 0.00 36.69 3.33
663 942 5.945144 TCATCACAGAGGATTTCATCAGA 57.055 39.130 0.00 0.00 0.00 3.27
669 948 6.070366 TCACAGAGGATTTCATCAGAAGTGAT 60.070 38.462 0.00 0.00 44.85 3.06
670 949 6.598457 CACAGAGGATTTCATCAGAAGTGATT 59.402 38.462 0.00 0.00 40.84 2.57
671 950 7.120873 CACAGAGGATTTCATCAGAAGTGATTT 59.879 37.037 0.00 0.00 40.84 2.17
672 951 7.668886 ACAGAGGATTTCATCAGAAGTGATTTT 59.331 33.333 0.00 0.00 40.84 1.82
720 999 6.672266 TGAGAATCAGGAGTGAAAACTACT 57.328 37.500 0.00 0.00 42.56 2.57
721 1000 7.776618 TGAGAATCAGGAGTGAAAACTACTA 57.223 36.000 0.00 0.00 42.56 1.82
722 1001 8.367660 TGAGAATCAGGAGTGAAAACTACTAT 57.632 34.615 0.00 0.00 42.56 2.12
723 1002 8.253810 TGAGAATCAGGAGTGAAAACTACTATG 58.746 37.037 0.00 0.00 42.56 2.23
724 1003 8.140112 AGAATCAGGAGTGAAAACTACTATGT 57.860 34.615 0.00 0.00 35.88 2.29
725 1004 9.256228 AGAATCAGGAGTGAAAACTACTATGTA 57.744 33.333 0.00 0.00 35.88 2.29
726 1005 9.303537 GAATCAGGAGTGAAAACTACTATGTAC 57.696 37.037 0.00 0.00 35.88 2.90
727 1006 8.596781 ATCAGGAGTGAAAACTACTATGTACT 57.403 34.615 0.00 0.00 35.88 2.73
728 1007 8.418597 TCAGGAGTGAAAACTACTATGTACTT 57.581 34.615 0.00 0.00 27.94 2.24
729 1008 8.521176 TCAGGAGTGAAAACTACTATGTACTTC 58.479 37.037 0.00 0.00 27.94 3.01
730 1009 7.760340 CAGGAGTGAAAACTACTATGTACTTCC 59.240 40.741 0.00 0.00 27.94 3.46
731 1010 7.453752 AGGAGTGAAAACTACTATGTACTTCCA 59.546 37.037 0.00 0.00 0.00 3.53
732 1011 7.544915 GGAGTGAAAACTACTATGTACTTCCAC 59.455 40.741 0.00 0.00 0.00 4.02
733 1012 7.959175 AGTGAAAACTACTATGTACTTCCACA 58.041 34.615 0.00 0.00 0.00 4.17
734 1013 8.594550 AGTGAAAACTACTATGTACTTCCACAT 58.405 33.333 0.00 0.00 41.88 3.21
735 1014 9.216117 GTGAAAACTACTATGTACTTCCACATT 57.784 33.333 0.00 0.00 39.77 2.71
736 1015 9.787435 TGAAAACTACTATGTACTTCCACATTT 57.213 29.630 0.00 0.00 39.77 2.32
738 1017 8.475331 AAACTACTATGTACTTCCACATTTCG 57.525 34.615 0.00 0.00 39.77 3.46
739 1018 6.040878 ACTACTATGTACTTCCACATTTCGC 58.959 40.000 0.00 0.00 39.77 4.70
740 1019 4.827692 ACTATGTACTTCCACATTTCGCA 58.172 39.130 0.00 0.00 39.77 5.10
741 1020 5.242434 ACTATGTACTTCCACATTTCGCAA 58.758 37.500 0.00 0.00 39.77 4.85
742 1021 4.685169 ATGTACTTCCACATTTCGCAAG 57.315 40.909 0.00 0.00 35.60 4.01
743 1022 4.323417 ATGTACTTCCACATTTCGCAAGA 58.677 39.130 0.00 0.00 39.20 3.02
777 1056 2.645297 ACTTCCCTCTTTTCCCTCTTCC 59.355 50.000 0.00 0.00 0.00 3.46
792 1071 2.758770 CTTCCACGGGCGAGTCGAAA 62.759 60.000 18.61 0.00 0.00 3.46
793 1072 2.356553 CCACGGGCGAGTCGAAAA 60.357 61.111 18.61 0.00 0.00 2.29
812 1091 0.916358 AGCCCAGGCCACTGTTCTAT 60.916 55.000 5.01 0.00 43.36 1.98
843 1126 3.998672 AGGCCACACCGTACCGTG 61.999 66.667 5.01 12.08 46.52 4.94
914 1214 2.502692 AAGCCGTTAGTCCCGTCTGC 62.503 60.000 0.00 0.00 0.00 4.26
916 1216 2.348888 CCGTTAGTCCCGTCTGCCT 61.349 63.158 0.00 0.00 0.00 4.75
1104 1405 4.200283 CTCTCTCGCTCCACCGCC 62.200 72.222 0.00 0.00 0.00 6.13
1129 1430 2.943345 CTCGCGTCACACAGGTTGC 61.943 63.158 5.77 0.00 0.00 4.17
1150 1459 1.654954 CCCCGGTCTCTGTGACTACG 61.655 65.000 0.00 5.86 44.74 3.51
1212 1523 3.690139 TCGGAACAGTCTGATGAGAGTAC 59.310 47.826 6.91 0.00 34.02 2.73
1240 1551 2.678336 GCGAATTTCGGTTGAGATTCCT 59.322 45.455 19.53 0.00 40.73 3.36
1407 1736 9.654663 GACCTCAGAATAGTTAGTGTATTTTGT 57.345 33.333 0.00 0.00 0.00 2.83
1416 1745 9.893305 ATAGTTAGTGTATTTTGTTTTGAGTGC 57.107 29.630 0.00 0.00 0.00 4.40
1477 1806 1.532794 GGCACCAAACATGTGGGGA 60.533 57.895 19.80 0.00 45.87 4.81
1521 1850 2.890311 CCAGTGTGATGGTTGCCTTTTA 59.110 45.455 0.00 0.00 35.47 1.52
1522 1851 3.511146 CCAGTGTGATGGTTGCCTTTTAT 59.489 43.478 0.00 0.00 35.47 1.40
1525 1854 6.295011 CCAGTGTGATGGTTGCCTTTTATTTA 60.295 38.462 0.00 0.00 35.47 1.40
1955 2323 5.277779 GGGTTTTAGCTTTCATTTTTGCACC 60.278 40.000 0.00 0.00 0.00 5.01
1958 2326 3.843893 AGCTTTCATTTTTGCACCCTT 57.156 38.095 0.00 0.00 0.00 3.95
1967 2335 0.463620 TTTGCACCCTTGTTTCAGCC 59.536 50.000 0.00 0.00 0.00 4.85
1982 2350 1.483827 TCAGCCTGTCTATTCTGCCTG 59.516 52.381 0.00 0.00 0.00 4.85
2017 2385 4.993905 ACTTCCAAAAGCAACACACTAAC 58.006 39.130 0.00 0.00 35.81 2.34
2130 2498 7.281324 TGAAGTGAAAAATCGGTGACTTTTCTA 59.719 33.333 12.74 0.54 39.00 2.10
2139 2507 9.892130 AAATCGGTGACTTTTCTATCTCTAAAT 57.108 29.630 0.00 0.00 0.00 1.40
2141 2509 9.892130 ATCGGTGACTTTTCTATCTCTAAATTT 57.108 29.630 0.00 0.00 0.00 1.82
2229 2760 8.243426 GCAATGGTCAGTATCTGTAAATTTTGA 58.757 33.333 0.00 0.00 32.61 2.69
2264 2795 8.463930 TCATTGAGTTAGGTCAAACAAGAAAT 57.536 30.769 0.00 0.00 39.84 2.17
2294 2825 8.114331 TCTTACTTAAACTGACGGAGATTACA 57.886 34.615 0.00 0.00 0.00 2.41
2342 2877 2.637872 GGTACTATGGCAGCCTGGATAA 59.362 50.000 14.15 0.00 0.00 1.75
2396 2931 5.872617 CACCAATTGATGATCATGTTTGCTT 59.127 36.000 14.30 1.65 0.00 3.91
2400 2935 5.988310 TTGATGATCATGTTTGCTTCCTT 57.012 34.783 14.30 0.00 0.00 3.36
2523 3058 5.990668 ACATACTGGGAGAAGATGTTTACC 58.009 41.667 0.00 0.00 0.00 2.85
2567 3102 4.278170 GTGTGATCAATCCTGTTTCAACCA 59.722 41.667 0.00 0.00 0.00 3.67
2575 3110 1.806542 CCTGTTTCAACCATCACTCGG 59.193 52.381 0.00 0.00 0.00 4.63
2662 3198 3.855689 AATTGCCACATGTACTTCTGC 57.144 42.857 0.00 0.00 0.00 4.26
2676 3212 3.604582 ACTTCTGCACCATTTCTCTAGC 58.395 45.455 0.00 0.00 0.00 3.42
2697 3233 6.229936 AGCGAATTACAATAAGTCCAGGTA 57.770 37.500 0.00 0.00 0.00 3.08
2718 3434 7.362234 AGGTATAGCCCCTGAATTATTGTTTT 58.638 34.615 0.00 0.00 38.26 2.43
2924 3680 4.035675 GCTTGTACAATCCTAGTGAATGGC 59.964 45.833 9.13 0.29 0.00 4.40
2933 3689 2.224066 CCTAGTGAATGGCTAACCGAGG 60.224 54.545 0.00 0.00 39.70 4.63
2999 3756 6.141560 TGTTTGCACACAAGTATTTGATGA 57.858 33.333 2.49 0.00 37.04 2.92
3009 3766 9.283768 ACACAAGTATTTGATGACTTTGATACA 57.716 29.630 4.81 0.00 37.73 2.29
3014 3771 8.820933 AGTATTTGATGACTTTGATACATGTCG 58.179 33.333 0.00 0.00 32.64 4.35
3046 3804 5.555017 TGCTTATATCTGATCTTTCCCTGC 58.445 41.667 0.00 0.00 0.00 4.85
3062 3825 1.002990 TGCCTGCAGGACATCAGTG 60.003 57.895 37.21 6.70 37.39 3.66
3122 3885 0.178953 CCCCCTATTTGCCAGATGGG 60.179 60.000 0.12 0.00 40.85 4.00
3179 3942 1.253100 CACAAATAAACGGGGGTGCT 58.747 50.000 0.00 0.00 0.00 4.40
3200 3963 4.806286 GCTGAAGGTGTAATAGTTGGTGGT 60.806 45.833 0.00 0.00 0.00 4.16
3474 4237 5.349270 CCAACAATCATTTACAATGTGCCAG 59.651 40.000 0.00 0.00 0.00 4.85
3515 4278 2.249413 CTCCTGCGGTCATTGAGGCT 62.249 60.000 10.08 0.00 0.00 4.58
3597 4360 5.967088 AGTGCTACACTGACAAAGGTATAG 58.033 41.667 0.00 0.00 43.63 1.31
3699 4462 2.057922 ACCTTGTTCCTGGTCTCATGT 58.942 47.619 0.00 0.00 29.18 3.21
3748 4511 4.388773 CACAACGCTAAATGAGAAGCTACA 59.611 41.667 0.00 0.00 36.56 2.74
3825 4588 1.807573 GCTCAGCTCGGTGTAGTGC 60.808 63.158 0.00 0.00 0.00 4.40
3830 4593 4.063967 CTCGGTGTAGTGCGGCCA 62.064 66.667 2.24 0.00 0.00 5.36
4045 4812 4.217767 GGCGGTTCTCCTTTTAGACATTTT 59.782 41.667 0.00 0.00 0.00 1.82
4094 4882 6.954944 TCTTTTCTGTGATTGGAAGTTAACG 58.045 36.000 0.00 0.00 0.00 3.18
4139 4928 4.065789 GCACCCTATAATGCCAGTTCTAC 58.934 47.826 0.00 0.00 35.73 2.59
4193 4982 5.697178 CAGCTCTCTTGTGATCAATCCATAG 59.303 44.000 0.00 0.00 32.82 2.23
4199 4988 8.583296 TCTCTTGTGATCAATCCATAGATAGTG 58.417 37.037 0.00 0.00 32.82 2.74
4306 5128 7.015226 TGCTGTTTAATCACACATAGTATGC 57.985 36.000 10.16 0.00 0.00 3.14
4374 5200 0.039764 TGGTGATGGAGGAGACGACT 59.960 55.000 0.00 0.00 0.00 4.18
4701 5527 0.670546 ACGCGATGGAGAACCTGTTG 60.671 55.000 15.93 0.00 37.04 3.33
4702 5528 0.389817 CGCGATGGAGAACCTGTTGA 60.390 55.000 0.00 0.00 37.04 3.18
4703 5529 1.808411 GCGATGGAGAACCTGTTGAA 58.192 50.000 0.00 0.00 37.04 2.69
4704 5530 2.359900 GCGATGGAGAACCTGTTGAAT 58.640 47.619 0.00 0.00 37.04 2.57
4705 5531 2.749621 GCGATGGAGAACCTGTTGAATT 59.250 45.455 0.00 0.00 37.04 2.17
4706 5532 3.426695 GCGATGGAGAACCTGTTGAATTG 60.427 47.826 0.00 0.00 37.04 2.32
4707 5533 4.002982 CGATGGAGAACCTGTTGAATTGA 58.997 43.478 0.00 0.00 37.04 2.57
4710 5536 3.882888 TGGAGAACCTGTTGAATTGACAC 59.117 43.478 0.00 0.00 37.04 3.67
4725 5551 1.134848 TGACACGGCGAATGATCATCA 60.135 47.619 16.62 0.00 0.00 3.07
4726 5552 1.524355 GACACGGCGAATGATCATCAG 59.476 52.381 16.62 7.30 0.00 2.90
4727 5553 1.136891 ACACGGCGAATGATCATCAGA 59.863 47.619 16.62 0.00 0.00 3.27
4729 5555 2.157085 CACGGCGAATGATCATCAGATG 59.843 50.000 16.62 3.71 33.72 2.90
4730 5556 2.036346 ACGGCGAATGATCATCAGATGA 59.964 45.455 16.62 15.69 44.55 2.92
4741 5567 2.489722 TCATCAGATGATCGGATCGGAC 59.510 50.000 9.21 7.04 33.59 4.79
4742 5568 0.875059 TCAGATGATCGGATCGGACG 59.125 55.000 12.99 2.82 0.00 4.79
4744 5570 0.537600 AGATGATCGGATCGGACGGT 60.538 55.000 12.99 0.00 0.00 4.83
4745 5571 0.387367 GATGATCGGATCGGACGGTG 60.387 60.000 12.99 0.00 0.00 4.94
4746 5572 1.806461 ATGATCGGATCGGACGGTGG 61.806 60.000 12.99 0.00 0.00 4.61
4747 5573 2.124024 ATCGGATCGGACGGTGGA 60.124 61.111 4.94 0.00 0.00 4.02
4749 5575 2.905935 ATCGGATCGGACGGTGGAGT 62.906 60.000 4.94 0.00 0.00 3.85
4750 5576 2.494918 GGATCGGACGGTGGAGTG 59.505 66.667 0.00 0.00 0.00 3.51
4751 5577 2.202756 GATCGGACGGTGGAGTGC 60.203 66.667 0.00 0.00 0.00 4.40
4752 5578 2.994995 ATCGGACGGTGGAGTGCA 60.995 61.111 0.00 0.00 32.46 4.57
4753 5579 2.501223 GATCGGACGGTGGAGTGCAA 62.501 60.000 0.00 0.00 32.46 4.08
4754 5580 2.507110 ATCGGACGGTGGAGTGCAAG 62.507 60.000 0.00 0.00 32.46 4.01
4755 5581 3.050275 GGACGGTGGAGTGCAAGC 61.050 66.667 0.00 0.00 32.46 4.01
4757 5583 4.988598 ACGGTGGAGTGCAAGCGG 62.989 66.667 11.86 0.00 41.37 5.52
4759 5585 2.045926 GGTGGAGTGCAAGCGGAT 60.046 61.111 0.00 0.00 0.00 4.18
4761 5587 0.179045 GGTGGAGTGCAAGCGGATAT 60.179 55.000 0.00 0.00 0.00 1.63
4763 5589 0.179048 TGGAGTGCAAGCGGATATGG 60.179 55.000 0.00 0.00 0.00 2.74
4764 5590 0.886490 GGAGTGCAAGCGGATATGGG 60.886 60.000 0.00 0.00 0.00 4.00
4766 5592 0.179045 AGTGCAAGCGGATATGGGTC 60.179 55.000 0.00 0.00 0.00 4.46
4767 5593 0.463654 GTGCAAGCGGATATGGGTCA 60.464 55.000 0.00 0.00 0.00 4.02
4768 5594 0.473755 TGCAAGCGGATATGGGTCAT 59.526 50.000 0.00 0.00 0.00 3.06
4769 5595 0.877071 GCAAGCGGATATGGGTCATG 59.123 55.000 0.00 0.00 0.00 3.07
4770 5596 1.527034 CAAGCGGATATGGGTCATGG 58.473 55.000 0.00 0.00 0.00 3.66
4771 5597 1.072173 CAAGCGGATATGGGTCATGGA 59.928 52.381 0.00 0.00 0.00 3.41
4772 5598 1.661463 AGCGGATATGGGTCATGGAT 58.339 50.000 0.00 0.00 0.00 3.41
4773 5599 1.280133 AGCGGATATGGGTCATGGATG 59.720 52.381 0.00 0.00 0.00 3.51
4774 5600 1.679944 GCGGATATGGGTCATGGATGG 60.680 57.143 0.00 0.00 0.00 3.51
4775 5601 1.065199 CGGATATGGGTCATGGATGGG 60.065 57.143 0.00 0.00 0.00 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 3.260632 ACTGCCAATTATTTTGTCACCCC 59.739 43.478 0.00 0.00 0.00 4.95
2 3 4.021544 TCACTGCCAATTATTTTGTCACCC 60.022 41.667 0.00 0.00 0.00 4.61
3 4 5.132897 TCACTGCCAATTATTTTGTCACC 57.867 39.130 0.00 0.00 0.00 4.02
4 5 6.974622 CCTATCACTGCCAATTATTTTGTCAC 59.025 38.462 0.00 0.00 0.00 3.67
6 7 5.979517 GCCTATCACTGCCAATTATTTTGTC 59.020 40.000 0.00 0.00 0.00 3.18
8 9 4.977963 CGCCTATCACTGCCAATTATTTTG 59.022 41.667 0.00 0.00 0.00 2.44
9 10 4.499696 GCGCCTATCACTGCCAATTATTTT 60.500 41.667 0.00 0.00 0.00 1.82
10 11 3.004734 GCGCCTATCACTGCCAATTATTT 59.995 43.478 0.00 0.00 0.00 1.40
11 12 2.554032 GCGCCTATCACTGCCAATTATT 59.446 45.455 0.00 0.00 0.00 1.40
12 13 2.154462 GCGCCTATCACTGCCAATTAT 58.846 47.619 0.00 0.00 0.00 1.28
13 14 1.593196 GCGCCTATCACTGCCAATTA 58.407 50.000 0.00 0.00 0.00 1.40
14 15 1.439353 CGCGCCTATCACTGCCAATT 61.439 55.000 0.00 0.00 0.00 2.32
15 16 1.889105 CGCGCCTATCACTGCCAAT 60.889 57.895 0.00 0.00 0.00 3.16
16 17 2.310327 ATCGCGCCTATCACTGCCAA 62.310 55.000 0.00 0.00 0.00 4.52
17 18 2.699576 GATCGCGCCTATCACTGCCA 62.700 60.000 0.00 0.00 0.00 4.92
18 19 2.024319 GATCGCGCCTATCACTGCC 61.024 63.158 0.00 0.00 0.00 4.85
19 20 2.024319 GGATCGCGCCTATCACTGC 61.024 63.158 16.62 0.00 0.00 4.40
20 21 0.249447 TTGGATCGCGCCTATCACTG 60.249 55.000 16.62 0.00 0.00 3.66
21 22 0.464036 TTTGGATCGCGCCTATCACT 59.536 50.000 16.62 0.00 0.00 3.41
22 23 0.582005 GTTTGGATCGCGCCTATCAC 59.418 55.000 16.62 8.56 0.00 3.06
23 24 0.176910 TGTTTGGATCGCGCCTATCA 59.823 50.000 16.62 0.00 0.00 2.15
24 25 0.582005 GTGTTTGGATCGCGCCTATC 59.418 55.000 0.00 5.22 0.00 2.08
25 26 0.178068 AGTGTTTGGATCGCGCCTAT 59.822 50.000 0.00 0.00 0.00 2.57
26 27 0.036765 AAGTGTTTGGATCGCGCCTA 60.037 50.000 0.00 0.00 0.00 3.93
27 28 0.036765 TAAGTGTTTGGATCGCGCCT 60.037 50.000 0.00 0.00 0.00 5.52
34 35 3.603965 TGGGTTGGTAAGTGTTTGGAT 57.396 42.857 0.00 0.00 0.00 3.41
63 64 0.530288 ATCCGGGCAATTTTTGGTCG 59.470 50.000 0.00 0.00 0.00 4.79
67 68 2.689983 AGAGCTATCCGGGCAATTTTTG 59.310 45.455 0.00 0.00 0.00 2.44
81 83 1.132721 TGGATGGGTGCCTAGAGCTAT 60.133 52.381 0.00 0.00 44.23 2.97
82 84 0.264657 TGGATGGGTGCCTAGAGCTA 59.735 55.000 0.00 0.00 44.23 3.32
93 95 0.266152 TTGGGGTTGTTTGGATGGGT 59.734 50.000 0.00 0.00 0.00 4.51
102 104 4.290942 TCCATAGTTGTTTTGGGGTTGTT 58.709 39.130 0.00 0.00 0.00 2.83
106 108 3.831911 CACATCCATAGTTGTTTTGGGGT 59.168 43.478 0.00 0.00 0.00 4.95
147 149 3.690460 AGCCCCATAGTTTTCACTCTTG 58.310 45.455 0.00 0.00 34.06 3.02
148 150 4.536489 AGTAGCCCCATAGTTTTCACTCTT 59.464 41.667 0.00 0.00 34.06 2.85
149 151 4.104831 AGTAGCCCCATAGTTTTCACTCT 58.895 43.478 0.00 0.00 34.06 3.24
226 504 4.280677 TGAAACCCTGGTAGCAAAATCTTG 59.719 41.667 0.00 0.00 35.49 3.02
254 532 3.261643 TCTTGAGATTCTGCTGCAACCTA 59.738 43.478 3.02 0.00 0.00 3.08
256 534 2.419324 CTCTTGAGATTCTGCTGCAACC 59.581 50.000 3.02 0.00 0.00 3.77
261 539 4.121317 GGTCATCTCTTGAGATTCTGCTG 58.879 47.826 10.14 1.16 34.17 4.41
308 586 5.454966 GTGTAATCCAAACATCCCCCTATT 58.545 41.667 0.00 0.00 0.00 1.73
309 587 4.141018 GGTGTAATCCAAACATCCCCCTAT 60.141 45.833 0.00 0.00 0.00 2.57
318 596 5.338871 GGTCATCCTAGGTGTAATCCAAACA 60.339 44.000 9.08 0.00 0.00 2.83
330 608 0.907704 TTGGCGTGGTCATCCTAGGT 60.908 55.000 9.08 0.00 34.23 3.08
333 611 2.799126 AATTTGGCGTGGTCATCCTA 57.201 45.000 0.00 0.00 34.23 2.94
340 618 2.699954 CTCACTCTAATTTGGCGTGGT 58.300 47.619 3.49 0.00 0.00 4.16
367 645 0.463833 GGTCGATTCCTCCGGCAAAT 60.464 55.000 0.00 0.00 32.62 2.32
372 650 4.587189 GGCGGTCGATTCCTCCGG 62.587 72.222 12.63 0.00 43.77 5.14
401 679 0.679002 AGATATGATGCCCATGCGCC 60.679 55.000 4.18 0.00 41.78 6.53
402 680 2.028420 TAGATATGATGCCCATGCGC 57.972 50.000 0.00 0.00 41.78 6.09
406 684 6.836007 TCGTCTAGATTAGATATGATGCCCAT 59.164 38.462 0.00 0.00 37.13 4.00
434 712 3.436243 TCCCTTTCCACGCCAATATTTT 58.564 40.909 0.00 0.00 0.00 1.82
435 713 3.094484 TCCCTTTCCACGCCAATATTT 57.906 42.857 0.00 0.00 0.00 1.40
436 714 2.818751 TCCCTTTCCACGCCAATATT 57.181 45.000 0.00 0.00 0.00 1.28
437 715 2.654863 CTTCCCTTTCCACGCCAATAT 58.345 47.619 0.00 0.00 0.00 1.28
438 716 1.953311 GCTTCCCTTTCCACGCCAATA 60.953 52.381 0.00 0.00 0.00 1.90
474 752 3.346315 TGACTAACTGCATGGGTGAATG 58.654 45.455 0.00 0.00 0.00 2.67
475 753 3.719268 TGACTAACTGCATGGGTGAAT 57.281 42.857 0.00 0.00 0.00 2.57
476 754 3.146066 GTTGACTAACTGCATGGGTGAA 58.854 45.455 0.00 0.00 33.94 3.18
523 802 2.700773 GCAGTTTGGATCGTGGCCC 61.701 63.158 0.00 0.00 0.00 5.80
530 809 3.069443 TGTTTTGAAGGGCAGTTTGGATC 59.931 43.478 0.00 0.00 0.00 3.36
534 813 2.168313 AGGTGTTTTGAAGGGCAGTTTG 59.832 45.455 0.00 0.00 0.00 2.93
539 818 1.215673 TGGTAGGTGTTTTGAAGGGCA 59.784 47.619 0.00 0.00 0.00 5.36
547 826 1.613255 CGATGGGCTGGTAGGTGTTTT 60.613 52.381 0.00 0.00 0.00 2.43
560 839 3.274067 GGTTGTTGACCGATGGGC 58.726 61.111 0.00 0.00 39.00 5.36
698 977 8.254508 ACATAGTAGTTTTCACTCCTGATTCTC 58.745 37.037 0.00 0.00 34.06 2.87
705 984 7.453752 TGGAAGTACATAGTAGTTTTCACTCCT 59.546 37.037 0.00 0.00 34.06 3.69
710 989 9.787435 AAATGTGGAAGTACATAGTAGTTTTCA 57.213 29.630 0.00 0.19 40.24 2.69
712 991 8.932791 CGAAATGTGGAAGTACATAGTAGTTTT 58.067 33.333 0.00 0.00 40.24 2.43
713 992 7.064253 GCGAAATGTGGAAGTACATAGTAGTTT 59.936 37.037 0.00 0.00 40.24 2.66
715 994 6.040878 GCGAAATGTGGAAGTACATAGTAGT 58.959 40.000 0.00 0.00 40.24 2.73
716 995 6.040247 TGCGAAATGTGGAAGTACATAGTAG 58.960 40.000 0.00 0.00 40.24 2.57
717 996 5.968254 TGCGAAATGTGGAAGTACATAGTA 58.032 37.500 0.00 0.00 40.24 1.82
718 997 4.827692 TGCGAAATGTGGAAGTACATAGT 58.172 39.130 0.00 0.00 40.24 2.12
719 998 5.580691 TCTTGCGAAATGTGGAAGTACATAG 59.419 40.000 0.00 0.00 40.24 2.23
720 999 5.483811 TCTTGCGAAATGTGGAAGTACATA 58.516 37.500 0.00 0.00 40.24 2.29
721 1000 4.323417 TCTTGCGAAATGTGGAAGTACAT 58.677 39.130 0.00 0.00 42.82 2.29
722 1001 3.734463 TCTTGCGAAATGTGGAAGTACA 58.266 40.909 0.00 0.00 36.33 2.90
723 1002 4.742438 TTCTTGCGAAATGTGGAAGTAC 57.258 40.909 0.00 0.00 36.33 2.73
724 1003 5.759506 TTTTCTTGCGAAATGTGGAAGTA 57.240 34.783 0.00 0.00 38.81 2.24
725 1004 4.647424 TTTTCTTGCGAAATGTGGAAGT 57.353 36.364 0.00 0.00 38.81 3.01
745 1024 7.450634 GGGAAAAGAGGGAAGTACATAGTTTTT 59.549 37.037 0.00 0.00 0.00 1.94
746 1025 6.946583 GGGAAAAGAGGGAAGTACATAGTTTT 59.053 38.462 0.00 0.00 0.00 2.43
747 1026 6.274908 AGGGAAAAGAGGGAAGTACATAGTTT 59.725 38.462 0.00 0.00 0.00 2.66
748 1027 5.791141 AGGGAAAAGAGGGAAGTACATAGTT 59.209 40.000 0.00 0.00 0.00 2.24
749 1028 5.351405 AGGGAAAAGAGGGAAGTACATAGT 58.649 41.667 0.00 0.00 0.00 2.12
750 1029 5.663556 AGAGGGAAAAGAGGGAAGTACATAG 59.336 44.000 0.00 0.00 0.00 2.23
751 1030 5.600749 AGAGGGAAAAGAGGGAAGTACATA 58.399 41.667 0.00 0.00 0.00 2.29
752 1031 4.439860 AGAGGGAAAAGAGGGAAGTACAT 58.560 43.478 0.00 0.00 0.00 2.29
753 1032 3.870559 AGAGGGAAAAGAGGGAAGTACA 58.129 45.455 0.00 0.00 0.00 2.90
754 1033 4.323638 GGAAGAGGGAAAAGAGGGAAGTAC 60.324 50.000 0.00 0.00 0.00 2.73
755 1034 3.844804 GGAAGAGGGAAAAGAGGGAAGTA 59.155 47.826 0.00 0.00 0.00 2.24
756 1035 2.645297 GGAAGAGGGAAAAGAGGGAAGT 59.355 50.000 0.00 0.00 0.00 3.01
757 1036 2.644798 TGGAAGAGGGAAAAGAGGGAAG 59.355 50.000 0.00 0.00 0.00 3.46
758 1037 2.375509 GTGGAAGAGGGAAAAGAGGGAA 59.624 50.000 0.00 0.00 0.00 3.97
759 1038 1.985895 GTGGAAGAGGGAAAAGAGGGA 59.014 52.381 0.00 0.00 0.00 4.20
760 1039 1.339151 CGTGGAAGAGGGAAAAGAGGG 60.339 57.143 0.00 0.00 0.00 4.30
761 1040 1.339151 CCGTGGAAGAGGGAAAAGAGG 60.339 57.143 0.00 0.00 0.00 3.69
762 1041 2.100605 CCGTGGAAGAGGGAAAAGAG 57.899 55.000 0.00 0.00 0.00 2.85
777 1056 3.011760 GCTTTTCGACTCGCCCGTG 62.012 63.158 0.00 0.00 0.00 4.94
792 1071 1.133809 TAGAACAGTGGCCTGGGCTT 61.134 55.000 21.72 7.00 43.36 4.35
793 1072 0.916358 ATAGAACAGTGGCCTGGGCT 60.916 55.000 21.72 0.00 43.36 5.19
944 1244 2.288763 CGAGGGTTTTGGAATTTGGGTG 60.289 50.000 0.00 0.00 0.00 4.61
945 1245 1.967779 CGAGGGTTTTGGAATTTGGGT 59.032 47.619 0.00 0.00 0.00 4.51
995 1296 2.181525 GCGCCGCCATCATTGTTT 59.818 55.556 0.00 0.00 0.00 2.83
996 1297 3.055080 CTGCGCCGCCATCATTGTT 62.055 57.895 6.63 0.00 0.00 2.83
1169 1480 7.690228 TCCGATTTTAGTAATCAACAAATCGG 58.310 34.615 27.07 27.07 45.04 4.18
1212 1523 4.092821 TCTCAACCGAAATTCGCACATAAG 59.907 41.667 10.24 2.66 38.82 1.73
1240 1551 0.894141 CCAATGGCCGAACAAATCCA 59.106 50.000 0.00 0.00 0.00 3.41
1338 1667 9.162764 GCTAAATAACTAATCCAGTTCTGTTCA 57.837 33.333 0.00 0.00 44.48 3.18
1364 1693 5.010933 TGAGGTCCAAGTCTAGAACTACAG 58.989 45.833 0.00 0.00 37.17 2.74
1366 1695 5.254901 TCTGAGGTCCAAGTCTAGAACTAC 58.745 45.833 0.00 0.00 37.17 2.73
1416 1745 8.142994 ACACGCTGTCATTATCCTTAATTTAG 57.857 34.615 0.00 0.00 0.00 1.85
1477 1806 5.048013 GGAATAGTTTTACAGCCAAACAGCT 60.048 40.000 0.00 0.00 46.45 4.24
1661 1994 4.959210 TGAGAAAGAGGCTTCATAGCTACT 59.041 41.667 0.00 0.00 46.90 2.57
1663 1996 5.163364 CCTTGAGAAAGAGGCTTCATAGCTA 60.163 44.000 0.00 0.00 46.90 3.32
1694 2027 6.696148 CGCCTACTGGTACTACTTATTTCTTG 59.304 42.308 0.00 0.00 35.27 3.02
1730 2063 2.040813 AGATGTGTGTGGCTCAGGAAAT 59.959 45.455 0.00 0.00 0.00 2.17
1841 2202 4.169059 TGGGAAGCTGTGCATATTGTAT 57.831 40.909 0.00 0.00 0.00 2.29
1955 2323 4.394300 CAGAATAGACAGGCTGAAACAAGG 59.606 45.833 23.66 0.23 0.00 3.61
1958 2326 3.338249 GCAGAATAGACAGGCTGAAACA 58.662 45.455 23.66 3.34 0.00 2.83
1967 2335 5.638657 GCAGAATATCAGGCAGAATAGACAG 59.361 44.000 0.00 0.00 0.00 3.51
1982 2350 6.540189 TGCTTTTGGAAGTAGAGCAGAATATC 59.460 38.462 0.00 0.00 38.33 1.63
2017 2385 2.384382 CTGTACAAGCACTTTTTGGCG 58.616 47.619 0.00 0.00 34.54 5.69
2130 2498 8.885693 AACCAAGGCTTTCTAAATTTAGAGAT 57.114 30.769 23.41 6.33 40.57 2.75
2139 2507 6.538945 AACAAGAAACCAAGGCTTTCTAAA 57.461 33.333 0.00 0.00 37.04 1.85
2141 2509 6.538945 AAAACAAGAAACCAAGGCTTTCTA 57.461 33.333 0.00 0.00 37.04 2.10
2229 2760 5.918608 ACCTAACTCAATGAACAGCGATAT 58.081 37.500 0.00 0.00 0.00 1.63
2284 2815 3.004734 GGGCCAAATTGATGTAATCTCCG 59.995 47.826 4.39 0.00 45.81 4.63
2342 2877 0.034670 GCATCTGGCCCTCAAGACTT 60.035 55.000 0.00 0.00 36.11 3.01
2396 2931 3.318839 CCATGCAACAGAAAACAGAAGGA 59.681 43.478 0.00 0.00 0.00 3.36
2400 2935 2.886523 CTCCCATGCAACAGAAAACAGA 59.113 45.455 0.00 0.00 0.00 3.41
2523 3058 7.540400 TCACACAAACACAATAACTTTGACTTG 59.460 33.333 0.00 0.00 0.00 3.16
2567 3102 7.389330 TGATGTTACAACAATAAACCGAGTGAT 59.611 33.333 0.00 0.00 43.03 3.06
2575 3110 5.407502 GGCCCTGATGTTACAACAATAAAC 58.592 41.667 0.00 0.00 43.03 2.01
2662 3198 6.662414 TTGTAATTCGCTAGAGAAATGGTG 57.338 37.500 13.11 0.00 33.43 4.17
2676 3212 7.331193 GGCTATACCTGGACTTATTGTAATTCG 59.669 40.741 0.00 0.00 34.51 3.34
2697 3233 5.662657 AGCAAAACAATAATTCAGGGGCTAT 59.337 36.000 0.00 0.00 0.00 2.97
2924 3680 4.138487 AGCAACTAAATCCCTCGGTTAG 57.862 45.455 0.00 0.00 0.00 2.34
2975 3732 6.475076 GTCATCAAATACTTGTGTGCAAACAA 59.525 34.615 21.08 21.08 37.71 2.83
2999 3756 4.568359 GCAGACATCGACATGTATCAAAGT 59.432 41.667 0.00 0.00 43.79 2.66
3009 3766 2.967599 TAAGCAGCAGACATCGACAT 57.032 45.000 0.00 0.00 0.00 3.06
3010 3767 2.967599 ATAAGCAGCAGACATCGACA 57.032 45.000 0.00 0.00 0.00 4.35
3011 3768 4.620609 CAGATATAAGCAGCAGACATCGAC 59.379 45.833 0.00 0.00 0.00 4.20
3012 3769 4.520492 TCAGATATAAGCAGCAGACATCGA 59.480 41.667 0.00 0.00 0.00 3.59
3013 3770 4.802999 TCAGATATAAGCAGCAGACATCG 58.197 43.478 0.00 0.00 0.00 3.84
3014 3771 6.632909 AGATCAGATATAAGCAGCAGACATC 58.367 40.000 0.00 0.00 0.00 3.06
3046 3804 0.545171 ATCCACTGATGTCCTGCAGG 59.455 55.000 27.87 27.87 36.47 4.85
3062 3825 5.495640 AGTCTGAGACTTTTGATTCCATCC 58.504 41.667 9.77 0.00 40.28 3.51
3122 3885 9.828852 GAATCATATGCTTCAAGATCAAATCTC 57.171 33.333 13.19 0.00 39.08 2.75
3179 3942 4.986054 ACCACCAACTATTACACCTTCA 57.014 40.909 0.00 0.00 0.00 3.02
3200 3963 6.667848 TCATAAGATGACCTTCTCCTGTTGTA 59.332 38.462 0.00 0.00 36.34 2.41
3515 4278 4.626287 GCCATGTTTGGATAACCTGAGAGA 60.626 45.833 0.00 0.00 46.92 3.10
3522 4285 2.689983 CTCCTGCCATGTTTGGATAACC 59.310 50.000 0.00 0.00 46.92 2.85
3597 4360 3.570975 TCATCATTGCCACTCCATATTGC 59.429 43.478 0.00 0.00 0.00 3.56
3699 4462 2.507484 CCCTTCAAACATGAGACTGCA 58.493 47.619 0.00 0.00 0.00 4.41
3748 4511 6.894103 AGAAAATAACCATTTCATCAGAGGCT 59.106 34.615 0.00 0.00 38.86 4.58
3825 4588 2.335712 GCCTCCTGAAAACTGGCCG 61.336 63.158 0.00 0.00 37.81 6.13
3830 4593 1.679032 GCATACGGCCTCCTGAAAACT 60.679 52.381 0.00 0.00 36.11 2.66
4056 4842 8.462143 TCACAGAAAAGATAAACATACGACTC 57.538 34.615 0.00 0.00 0.00 3.36
4109 4897 4.402155 TGGCATTATAGGGTGCAAAGAAAG 59.598 41.667 0.00 0.00 43.00 2.62
4139 4928 9.985730 ATCTCTTAGCTTATTCTCATTTCTCAG 57.014 33.333 0.00 0.00 0.00 3.35
4193 4982 6.009115 GCTAGAGCTAGAAGGAACACTATC 57.991 45.833 8.65 0.00 38.21 2.08
4275 5070 5.698832 TGTGTGATTAAACAGCATTACAGC 58.301 37.500 0.00 0.00 0.00 4.40
4306 5128 5.848406 AGAGGAGAAAACAGACTAGTTGTG 58.152 41.667 0.00 0.32 0.00 3.33
4374 5200 3.630013 AAGCAGGTGCCGCTCTCA 61.630 61.111 0.00 0.00 43.38 3.27
4701 5527 2.351418 TGATCATTCGCCGTGTCAATTC 59.649 45.455 0.00 0.00 0.00 2.17
4702 5528 2.355197 TGATCATTCGCCGTGTCAATT 58.645 42.857 0.00 0.00 0.00 2.32
4703 5529 2.022764 TGATCATTCGCCGTGTCAAT 57.977 45.000 0.00 0.00 0.00 2.57
4704 5530 1.933181 GATGATCATTCGCCGTGTCAA 59.067 47.619 10.14 0.00 0.00 3.18
4705 5531 1.134848 TGATGATCATTCGCCGTGTCA 60.135 47.619 10.14 0.00 0.00 3.58
4706 5532 1.524355 CTGATGATCATTCGCCGTGTC 59.476 52.381 10.14 0.00 0.00 3.67
4707 5533 1.136891 TCTGATGATCATTCGCCGTGT 59.863 47.619 10.14 0.00 0.00 4.49
4710 5536 2.680577 TCATCTGATGATCATTCGCCG 58.319 47.619 16.06 0.00 33.59 6.46
4725 5551 0.537600 ACCGTCCGATCCGATCATCT 60.538 55.000 9.07 0.00 0.00 2.90
4726 5552 0.387367 CACCGTCCGATCCGATCATC 60.387 60.000 9.07 0.00 0.00 2.92
4727 5553 1.660355 CACCGTCCGATCCGATCAT 59.340 57.895 9.07 0.00 0.00 2.45
4729 5555 2.131294 CTCCACCGTCCGATCCGATC 62.131 65.000 0.00 0.00 0.00 3.69
4730 5556 2.124024 TCCACCGTCCGATCCGAT 60.124 61.111 0.00 0.00 0.00 4.18
4731 5557 2.827190 CTCCACCGTCCGATCCGA 60.827 66.667 0.00 0.00 0.00 4.55
4732 5558 3.138798 ACTCCACCGTCCGATCCG 61.139 66.667 0.00 0.00 0.00 4.18
4733 5559 2.494918 CACTCCACCGTCCGATCC 59.505 66.667 0.00 0.00 0.00 3.36
4735 5561 2.507110 CTTGCACTCCACCGTCCGAT 62.507 60.000 0.00 0.00 0.00 4.18
4736 5562 3.220999 CTTGCACTCCACCGTCCGA 62.221 63.158 0.00 0.00 0.00 4.55
4737 5563 2.738521 CTTGCACTCCACCGTCCG 60.739 66.667 0.00 0.00 0.00 4.79
4741 5567 2.572095 TATCCGCTTGCACTCCACCG 62.572 60.000 0.00 0.00 0.00 4.94
4742 5568 0.179045 ATATCCGCTTGCACTCCACC 60.179 55.000 0.00 0.00 0.00 4.61
4744 5570 0.179048 CCATATCCGCTTGCACTCCA 60.179 55.000 0.00 0.00 0.00 3.86
4745 5571 0.886490 CCCATATCCGCTTGCACTCC 60.886 60.000 0.00 0.00 0.00 3.85
4746 5572 0.179045 ACCCATATCCGCTTGCACTC 60.179 55.000 0.00 0.00 0.00 3.51
4747 5573 0.179045 GACCCATATCCGCTTGCACT 60.179 55.000 0.00 0.00 0.00 4.40
4749 5575 0.473755 ATGACCCATATCCGCTTGCA 59.526 50.000 0.00 0.00 0.00 4.08
4750 5576 0.877071 CATGACCCATATCCGCTTGC 59.123 55.000 0.00 0.00 0.00 4.01
4751 5577 1.072173 TCCATGACCCATATCCGCTTG 59.928 52.381 0.00 0.00 0.00 4.01
4752 5578 1.434188 TCCATGACCCATATCCGCTT 58.566 50.000 0.00 0.00 0.00 4.68
4753 5579 1.280133 CATCCATGACCCATATCCGCT 59.720 52.381 0.00 0.00 0.00 5.52
4754 5580 1.679944 CCATCCATGACCCATATCCGC 60.680 57.143 0.00 0.00 0.00 5.54
4755 5581 1.065199 CCCATCCATGACCCATATCCG 60.065 57.143 0.00 0.00 0.00 4.18
4757 5583 1.995542 ACCCCATCCATGACCCATATC 59.004 52.381 0.00 0.00 0.00 1.63
4759 5585 1.148216 CACCCCATCCATGACCCATA 58.852 55.000 0.00 0.00 0.00 2.74
4761 5587 2.315794 CCACCCCATCCATGACCCA 61.316 63.158 0.00 0.00 0.00 4.51
4763 5589 1.076777 CACCACCCCATCCATGACC 60.077 63.158 0.00 0.00 0.00 4.02
4764 5590 1.754234 GCACCACCCCATCCATGAC 60.754 63.158 0.00 0.00 0.00 3.06
4766 5592 1.454479 GAGCACCACCCCATCCATG 60.454 63.158 0.00 0.00 0.00 3.66
4767 5593 1.930133 TGAGCACCACCCCATCCAT 60.930 57.895 0.00 0.00 0.00 3.41
4768 5594 2.531428 TGAGCACCACCCCATCCA 60.531 61.111 0.00 0.00 0.00 3.41
4769 5595 2.044946 GTGAGCACCACCCCATCC 60.045 66.667 0.00 0.00 39.86 3.51


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

AutoCloner maintained by Alex Coulton.