Multiple sequence alignment - TraesCS7D01G456300

Loading Multiple Alignment...

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 TraesCS7D01G456300 chr7D 100.000 2402 0 0 1 2402 575075267 575072866 0.000000e+00 4436.0
1 TraesCS7D01G456300 chr7D 85.810 1487 107 36 775 2194 574874726 574876175 0.000000e+00 1482.0
2 TraesCS7D01G456300 chr7D 87.325 1144 66 21 698 1789 575149799 575148683 0.000000e+00 1236.0
3 TraesCS7D01G456300 chr7D 84.841 1293 101 33 775 1982 574925523 574924241 0.000000e+00 1214.0
4 TraesCS7D01G456300 chr7D 84.664 952 79 22 702 1597 575218257 575217317 0.000000e+00 887.0
5 TraesCS7D01G456300 chr7D 92.282 298 19 3 385 679 578387861 578388157 1.030000e-113 420.0
6 TraesCS7D01G456300 chr7D 87.500 344 33 7 48 387 575218761 575218424 2.900000e-104 388.0
7 TraesCS7D01G456300 chr7D 84.000 325 36 9 71 387 575150160 575149844 5.020000e-77 298.0
8 TraesCS7D01G456300 chr7D 79.769 173 21 12 112 280 34373477 34373315 1.950000e-21 113.0
9 TraesCS7D01G456300 chr7D 88.421 95 9 2 2309 2402 574877376 574877469 1.950000e-21 113.0
10 TraesCS7D01G456300 chr7D 84.545 110 7 1 2202 2301 575148650 575148541 1.520000e-17 100.0
11 TraesCS7D01G456300 chr7B 89.256 1303 73 15 969 2238 635749106 635747838 0.000000e+00 1568.0
12 TraesCS7D01G456300 chr7B 86.281 1261 100 38 773 1972 635300854 635302102 0.000000e+00 1303.0
13 TraesCS7D01G456300 chr7B 84.465 1326 89 47 687 1930 636433433 636432143 0.000000e+00 1199.0
14 TraesCS7D01G456300 chr7B 91.577 558 21 5 875 1406 635941145 635940588 0.000000e+00 747.0
15 TraesCS7D01G456300 chr7B 93.200 500 20 5 1563 2058 635935518 635935029 0.000000e+00 723.0
16 TraesCS7D01G456300 chr7B 87.398 611 36 15 870 1453 635064982 635065578 0.000000e+00 664.0
17 TraesCS7D01G456300 chr7B 87.522 577 38 11 910 1453 635170609 635171184 9.370000e-179 636.0
18 TraesCS7D01G456300 chr7B 85.380 342 42 7 1 337 635942606 635942268 4.910000e-92 348.0
19 TraesCS7D01G456300 chr7B 76.814 634 58 38 1512 2086 635065582 635066185 8.460000e-70 274.0
20 TraesCS7D01G456300 chr7B 86.935 199 19 3 2047 2241 635934677 635934482 1.450000e-52 217.0
21 TraesCS7D01G456300 chr7B 75.368 544 53 34 1601 2092 635171258 635171772 1.130000e-43 187.0
22 TraesCS7D01G456300 chr7B 93.750 80 5 0 791 870 635941659 635941580 1.170000e-23 121.0
23 TraesCS7D01G456300 chr7B 98.333 60 1 0 2242 2301 635739039 635738980 3.270000e-19 106.0
24 TraesCS7D01G456300 chr7B 89.189 74 8 0 1485 1558 635940556 635940483 2.540000e-15 93.5
25 TraesCS7D01G456300 chr7B 79.612 103 20 1 2 103 68845142 68845040 3.310000e-09 73.1
26 TraesCS7D01G456300 chr7A 87.690 1251 86 29 910 2126 664781164 664779948 0.000000e+00 1395.0
27 TraesCS7D01G456300 chr7A 84.808 1119 88 28 775 1823 664602987 664604093 0.000000e+00 1050.0
28 TraesCS7D01G456300 chr7A 83.573 1041 85 32 699 1682 664699113 664700124 0.000000e+00 896.0
29 TraesCS7D01G456300 chr7A 88.427 674 55 10 947 1604 664873622 664872956 0.000000e+00 791.0
30 TraesCS7D01G456300 chr7A 90.060 332 30 2 1643 1972 664700124 664700454 6.140000e-116 427.0
31 TraesCS7D01G456300 chr7A 91.857 307 20 5 380 683 322765409 322765105 7.940000e-115 424.0
32 TraesCS7D01G456300 chr7A 85.106 376 37 8 1643 2010 664872962 664872598 1.360000e-97 366.0
33 TraesCS7D01G456300 chr7A 85.185 189 16 5 2116 2294 664777563 664777377 1.470000e-42 183.0
34 TraesCS7D01G456300 chr7A 81.818 165 17 7 117 278 421785159 421785005 2.510000e-25 126.0
35 TraesCS7D01G456300 chr4D 93.092 304 17 4 385 685 440510045 440510347 2.190000e-120 442.0
36 TraesCS7D01G456300 chr6A 93.266 297 17 3 387 681 308188234 308187939 3.670000e-118 435.0
37 TraesCS7D01G456300 chr6A 91.558 308 20 5 380 683 392126514 392126819 1.030000e-113 420.0
38 TraesCS7D01G456300 chr5D 92.182 307 19 5 380 683 419976031 419976335 1.710000e-116 429.0
39 TraesCS7D01G456300 chr5A 92.359 301 20 3 385 683 35986949 35987248 2.210000e-115 425.0
40 TraesCS7D01G456300 chr5A 80.357 168 18 8 114 277 295076272 295076428 1.950000e-21 113.0
41 TraesCS7D01G456300 chr2D 92.359 301 20 3 385 683 501303672 501303971 2.210000e-115 425.0
42 TraesCS7D01G456300 chr2D 83.200 125 11 7 116 237 163017681 163017798 3.270000e-19 106.0
43 TraesCS7D01G456300 chr2D 84.337 83 12 1 1 82 32303439 32303521 1.980000e-11 80.5
44 TraesCS7D01G456300 chr2A 92.333 300 21 2 385 683 572800179 572799881 2.210000e-115 425.0
45 TraesCS7D01G456300 chr2A 87.719 57 7 0 17 73 474202604 474202548 1.540000e-07 67.6
46 TraesCS7D01G456300 chr3D 80.682 176 22 5 107 280 73853077 73853242 2.510000e-25 126.0
47 TraesCS7D01G456300 chr4A 78.916 166 21 11 115 277 703265854 703266008 1.520000e-17 100.0
48 TraesCS7D01G456300 chr1D 78.049 164 25 6 117 277 445006935 445007090 2.540000e-15 93.5


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 TraesCS7D01G456300 chr7D 575072866 575075267 2401 True 4436.000000 4436 100.0000 1 2402 1 chr7D.!!$R3 2401
1 TraesCS7D01G456300 chr7D 574924241 574925523 1282 True 1214.000000 1214 84.8410 775 1982 1 chr7D.!!$R2 1207
2 TraesCS7D01G456300 chr7D 574874726 574877469 2743 False 797.500000 1482 87.1155 775 2402 2 chr7D.!!$F2 1627
3 TraesCS7D01G456300 chr7D 575217317 575218761 1444 True 637.500000 887 86.0820 48 1597 2 chr7D.!!$R5 1549
4 TraesCS7D01G456300 chr7D 575148541 575150160 1619 True 544.666667 1236 85.2900 71 2301 3 chr7D.!!$R4 2230
5 TraesCS7D01G456300 chr7B 635747838 635749106 1268 True 1568.000000 1568 89.2560 969 2238 1 chr7B.!!$R3 1269
6 TraesCS7D01G456300 chr7B 635300854 635302102 1248 False 1303.000000 1303 86.2810 773 1972 1 chr7B.!!$F1 1199
7 TraesCS7D01G456300 chr7B 636432143 636433433 1290 True 1199.000000 1199 84.4650 687 1930 1 chr7B.!!$R4 1243
8 TraesCS7D01G456300 chr7B 635934482 635935518 1036 True 470.000000 723 90.0675 1563 2241 2 chr7B.!!$R5 678
9 TraesCS7D01G456300 chr7B 635064982 635066185 1203 False 469.000000 664 82.1060 870 2086 2 chr7B.!!$F2 1216
10 TraesCS7D01G456300 chr7B 635170609 635171772 1163 False 411.500000 636 81.4450 910 2092 2 chr7B.!!$F3 1182
11 TraesCS7D01G456300 chr7B 635940483 635942606 2123 True 327.375000 747 89.9740 1 1558 4 chr7B.!!$R6 1557
12 TraesCS7D01G456300 chr7A 664602987 664604093 1106 False 1050.000000 1050 84.8080 775 1823 1 chr7A.!!$F1 1048
13 TraesCS7D01G456300 chr7A 664777377 664781164 3787 True 789.000000 1395 86.4375 910 2294 2 chr7A.!!$R3 1384
14 TraesCS7D01G456300 chr7A 664699113 664700454 1341 False 661.500000 896 86.8165 699 1972 2 chr7A.!!$F2 1273
15 TraesCS7D01G456300 chr7A 664872598 664873622 1024 True 578.500000 791 86.7665 947 2010 2 chr7A.!!$R4 1063

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
611 999 0.028902 GACAACCAAACAGGCGTGAC 59.971 55.0 14.38 0.0 43.14 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1503 2590 0.248377 GAACGCATCAGCTGGCAATC 60.248 55.0 15.13 7.46 39.1 2.67 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 3.935828 GTCTCTTGAAGGTGTTCATAGGC 59.064 47.826 0.00 0.00 42.41 3.93
24 25 3.582647 TCTCTTGAAGGTGTTCATAGGCA 59.417 43.478 0.00 0.00 42.41 4.75
27 28 6.061022 TCTTGAAGGTGTTCATAGGCATAA 57.939 37.500 0.00 0.00 42.41 1.90
29 30 5.692115 TGAAGGTGTTCATAGGCATAAGA 57.308 39.130 0.00 0.00 37.79 2.10
33 34 5.371526 AGGTGTTCATAGGCATAAGATGTG 58.628 41.667 0.00 0.00 0.00 3.21
34 35 4.023707 GGTGTTCATAGGCATAAGATGTGC 60.024 45.833 0.00 0.00 41.78 4.57
46 47 3.855209 GATGTGCGTGCGTGCGTTT 62.855 57.895 3.11 0.00 37.81 3.60
58 59 1.852895 CGTGCGTTTATAGGAGTGAGC 59.147 52.381 0.00 0.00 0.00 4.26
84 85 1.822371 TGCGTATCTTGAGTGCCTACA 59.178 47.619 0.00 0.00 0.00 2.74
98 99 8.245195 TGAGTGCCTACATCTATATTGTGTTA 57.755 34.615 0.02 0.00 0.00 2.41
232 239 7.984422 AATGTTTGTGTACATCTGATTCAGA 57.016 32.000 18.29 18.29 44.99 3.27
268 278 3.864243 ACCGGCTTATATTTGTGAACGA 58.136 40.909 0.00 0.00 0.00 3.85
291 302 5.606348 AGGGAGTACAATGTTTGCAAAAA 57.394 34.783 14.67 9.42 0.00 1.94
292 303 6.173427 AGGGAGTACAATGTTTGCAAAAAT 57.827 33.333 14.67 11.75 0.00 1.82
304 315 6.410540 TGTTTGCAAAAATAAGGAACCAACT 58.589 32.000 14.67 0.00 0.00 3.16
314 325 1.639108 AGGAACCAACTATCCCCAACC 59.361 52.381 0.00 0.00 36.31 3.77
347 358 7.279750 TGGTTTTAAGTTGGAATAAGACACC 57.720 36.000 0.00 0.00 0.00 4.16
387 775 7.202016 TCTTGTCAACTTTAGCCAATGTAAG 57.798 36.000 0.00 0.00 0.00 2.34
388 776 5.957842 TGTCAACTTTAGCCAATGTAAGG 57.042 39.130 0.00 0.00 0.00 2.69
389 777 4.764823 TGTCAACTTTAGCCAATGTAAGGG 59.235 41.667 0.00 0.00 0.00 3.95
397 785 1.066929 GCCAATGTAAGGGCCTGTTTG 60.067 52.381 6.92 8.84 44.53 2.93
398 786 1.550072 CCAATGTAAGGGCCTGTTTGG 59.450 52.381 6.92 14.18 39.35 3.28
402 790 2.312390 TGTAAGGGCCTGTTTGGTTTC 58.688 47.619 6.92 0.00 38.35 2.78
403 791 2.312390 GTAAGGGCCTGTTTGGTTTCA 58.688 47.619 6.92 0.00 38.35 2.69
404 792 1.872773 AAGGGCCTGTTTGGTTTCAA 58.127 45.000 6.92 0.00 38.35 2.69
405 793 1.872773 AGGGCCTGTTTGGTTTCAAA 58.127 45.000 4.50 0.00 40.23 2.69
406 794 2.407562 AGGGCCTGTTTGGTTTCAAAT 58.592 42.857 4.50 0.00 43.73 2.32
407 795 3.582164 AGGGCCTGTTTGGTTTCAAATA 58.418 40.909 4.50 0.00 43.73 1.40
408 796 3.970640 AGGGCCTGTTTGGTTTCAAATAA 59.029 39.130 4.50 0.00 43.73 1.40
409 797 4.040339 AGGGCCTGTTTGGTTTCAAATAAG 59.960 41.667 4.50 0.00 43.73 1.73
410 798 4.202315 GGGCCTGTTTGGTTTCAAATAAGT 60.202 41.667 0.84 0.00 43.73 2.24
411 799 4.988540 GGCCTGTTTGGTTTCAAATAAGTC 59.011 41.667 0.00 0.00 43.73 3.01
412 800 5.452636 GGCCTGTTTGGTTTCAAATAAGTCA 60.453 40.000 0.00 0.00 43.73 3.41
414 802 5.983118 CCTGTTTGGTTTCAAATAAGTCACC 59.017 40.000 0.00 0.00 43.73 4.02
417 805 6.814146 TGTTTGGTTTCAAATAAGTCACCAAC 59.186 34.615 1.03 0.00 42.59 3.77
418 806 6.783708 TTGGTTTCAAATAAGTCACCAACT 57.216 33.333 0.00 0.00 38.97 3.16
462 850 9.660180 AAAAAGTAACTTATTTTGCCAAACAGA 57.340 25.926 0.00 0.00 0.00 3.41
463 851 8.642908 AAAGTAACTTATTTTGCCAAACAGAC 57.357 30.769 0.00 0.00 0.00 3.51
464 852 6.745116 AGTAACTTATTTTGCCAAACAGACC 58.255 36.000 0.00 0.00 0.00 3.85
465 853 4.600692 ACTTATTTTGCCAAACAGACCC 57.399 40.909 0.00 0.00 0.00 4.46
466 854 3.964031 ACTTATTTTGCCAAACAGACCCA 59.036 39.130 0.00 0.00 0.00 4.51
467 855 4.407296 ACTTATTTTGCCAAACAGACCCAA 59.593 37.500 0.00 0.00 0.00 4.12
468 856 2.682155 TTTTGCCAAACAGACCCAAC 57.318 45.000 0.00 0.00 0.00 3.77
469 857 1.859302 TTTGCCAAACAGACCCAACT 58.141 45.000 0.00 0.00 0.00 3.16
470 858 1.859302 TTGCCAAACAGACCCAACTT 58.141 45.000 0.00 0.00 0.00 2.66
471 859 2.738587 TGCCAAACAGACCCAACTTA 57.261 45.000 0.00 0.00 0.00 2.24
472 860 3.237268 TGCCAAACAGACCCAACTTAT 57.763 42.857 0.00 0.00 0.00 1.73
473 861 4.374689 TGCCAAACAGACCCAACTTATA 57.625 40.909 0.00 0.00 0.00 0.98
474 862 4.730966 TGCCAAACAGACCCAACTTATAA 58.269 39.130 0.00 0.00 0.00 0.98
475 863 4.764823 TGCCAAACAGACCCAACTTATAAG 59.235 41.667 11.05 11.05 0.00 1.73
476 864 4.765339 GCCAAACAGACCCAACTTATAAGT 59.235 41.667 12.50 12.50 42.04 2.24
477 865 5.106277 GCCAAACAGACCCAACTTATAAGTC 60.106 44.000 18.28 6.18 38.57 3.01
478 866 6.001460 CCAAACAGACCCAACTTATAAGTCA 58.999 40.000 18.28 0.00 38.57 3.41
479 867 6.659242 CCAAACAGACCCAACTTATAAGTCAT 59.341 38.462 18.28 1.19 38.57 3.06
480 868 7.827236 CCAAACAGACCCAACTTATAAGTCATA 59.173 37.037 18.28 0.00 38.57 2.15
481 869 9.226606 CAAACAGACCCAACTTATAAGTCATAA 57.773 33.333 18.28 0.00 38.57 1.90
493 881 7.843490 TTATAAGTCATAAGTTGCTCCACAC 57.157 36.000 0.00 0.00 0.00 3.82
494 882 3.769739 AGTCATAAGTTGCTCCACACA 57.230 42.857 0.00 0.00 0.00 3.72
495 883 4.085357 AGTCATAAGTTGCTCCACACAA 57.915 40.909 0.00 0.00 0.00 3.33
496 884 4.460263 AGTCATAAGTTGCTCCACACAAA 58.540 39.130 0.00 0.00 0.00 2.83
497 885 4.275936 AGTCATAAGTTGCTCCACACAAAC 59.724 41.667 0.00 0.00 0.00 2.93
498 886 4.275936 GTCATAAGTTGCTCCACACAAACT 59.724 41.667 0.00 0.00 0.00 2.66
499 887 4.887071 TCATAAGTTGCTCCACACAAACTT 59.113 37.500 5.15 5.15 0.00 2.66
500 888 6.017440 GTCATAAGTTGCTCCACACAAACTTA 60.017 38.462 8.74 8.74 31.53 2.24
501 889 6.544197 TCATAAGTTGCTCCACACAAACTTAA 59.456 34.615 10.00 0.00 31.16 1.85
502 890 5.652994 AAGTTGCTCCACACAAACTTAAA 57.347 34.783 0.00 0.00 0.00 1.52
503 891 5.652994 AGTTGCTCCACACAAACTTAAAA 57.347 34.783 0.00 0.00 0.00 1.52
504 892 5.407502 AGTTGCTCCACACAAACTTAAAAC 58.592 37.500 0.00 0.00 0.00 2.43
505 893 5.185056 AGTTGCTCCACACAAACTTAAAACT 59.815 36.000 0.00 0.00 0.00 2.66
506 894 5.652994 TGCTCCACACAAACTTAAAACTT 57.347 34.783 0.00 0.00 0.00 2.66
507 895 6.761099 TGCTCCACACAAACTTAAAACTTA 57.239 33.333 0.00 0.00 0.00 2.24
508 896 7.341445 TGCTCCACACAAACTTAAAACTTAT 57.659 32.000 0.00 0.00 0.00 1.73
509 897 8.453238 TGCTCCACACAAACTTAAAACTTATA 57.547 30.769 0.00 0.00 0.00 0.98
510 898 8.904834 TGCTCCACACAAACTTAAAACTTATAA 58.095 29.630 0.00 0.00 0.00 0.98
511 899 9.394477 GCTCCACACAAACTTAAAACTTATAAG 57.606 33.333 11.05 11.05 36.62 1.73
517 905 9.673454 CACAAACTTAAAACTTATAAGTCACCC 57.327 33.333 18.28 0.00 41.49 4.61
518 906 8.853126 ACAAACTTAAAACTTATAAGTCACCCC 58.147 33.333 18.28 0.00 41.49 4.95
519 907 9.074576 CAAACTTAAAACTTATAAGTCACCCCT 57.925 33.333 18.28 0.00 41.49 4.79
520 908 9.650714 AAACTTAAAACTTATAAGTCACCCCTT 57.349 29.630 18.28 5.47 41.49 3.95
521 909 9.650714 AACTTAAAACTTATAAGTCACCCCTTT 57.349 29.630 18.28 15.02 41.49 3.11
522 910 9.650714 ACTTAAAACTTATAAGTCACCCCTTTT 57.349 29.630 18.28 14.40 38.85 2.27
523 911 9.908152 CTTAAAACTTATAAGTCACCCCTTTTG 57.092 33.333 18.28 7.29 38.57 2.44
524 912 5.977489 AACTTATAAGTCACCCCTTTTGC 57.023 39.130 18.28 0.00 38.57 3.68
525 913 4.007659 ACTTATAAGTCACCCCTTTTGCG 58.992 43.478 12.50 0.00 32.86 4.85
526 914 2.579410 ATAAGTCACCCCTTTTGCGT 57.421 45.000 0.00 0.00 0.00 5.24
527 915 1.600023 TAAGTCACCCCTTTTGCGTG 58.400 50.000 0.00 0.00 0.00 5.34
528 916 1.106944 AAGTCACCCCTTTTGCGTGG 61.107 55.000 0.00 0.00 0.00 4.94
529 917 2.203422 TCACCCCTTTTGCGTGGG 60.203 61.111 0.00 0.00 45.34 4.61
532 920 3.047735 CCCCTTTTGCGTGGGTTC 58.952 61.111 0.00 0.00 41.82 3.62
533 921 2.570284 CCCCTTTTGCGTGGGTTCC 61.570 63.158 0.00 0.00 41.82 3.62
534 922 1.830408 CCCTTTTGCGTGGGTTCCA 60.830 57.895 0.00 0.00 38.65 3.53
535 923 1.184970 CCCTTTTGCGTGGGTTCCAT 61.185 55.000 0.00 0.00 38.65 3.41
536 924 0.243636 CCTTTTGCGTGGGTTCCATC 59.756 55.000 0.00 0.00 35.28 3.51
537 925 0.958091 CTTTTGCGTGGGTTCCATCA 59.042 50.000 0.00 0.00 35.28 3.07
538 926 0.671251 TTTTGCGTGGGTTCCATCAC 59.329 50.000 0.00 0.00 35.28 3.06
539 927 1.175983 TTTGCGTGGGTTCCATCACC 61.176 55.000 0.00 0.00 35.28 4.02
540 928 2.063015 TTGCGTGGGTTCCATCACCT 62.063 55.000 0.00 0.00 35.28 4.00
541 929 1.303317 GCGTGGGTTCCATCACCTT 60.303 57.895 0.00 0.00 35.28 3.50
542 930 0.893727 GCGTGGGTTCCATCACCTTT 60.894 55.000 0.00 0.00 35.28 3.11
543 931 1.612199 GCGTGGGTTCCATCACCTTTA 60.612 52.381 0.00 0.00 35.28 1.85
544 932 2.081462 CGTGGGTTCCATCACCTTTAC 58.919 52.381 0.00 0.00 35.28 2.01
545 933 2.551287 CGTGGGTTCCATCACCTTTACA 60.551 50.000 0.00 0.00 35.28 2.41
546 934 3.697166 GTGGGTTCCATCACCTTTACAT 58.303 45.455 0.00 0.00 35.28 2.29
547 935 4.624364 CGTGGGTTCCATCACCTTTACATA 60.624 45.833 0.00 0.00 35.28 2.29
548 936 5.445964 GTGGGTTCCATCACCTTTACATAT 58.554 41.667 0.00 0.00 35.28 1.78
549 937 6.597562 GTGGGTTCCATCACCTTTACATATA 58.402 40.000 0.00 0.00 35.28 0.86
550 938 7.057894 GTGGGTTCCATCACCTTTACATATAA 58.942 38.462 0.00 0.00 35.28 0.98
551 939 7.558444 GTGGGTTCCATCACCTTTACATATAAA 59.442 37.037 0.00 0.00 35.28 1.40
552 940 7.558444 TGGGTTCCATCACCTTTACATATAAAC 59.442 37.037 0.00 0.00 36.97 2.01
553 941 7.558444 GGGTTCCATCACCTTTACATATAAACA 59.442 37.037 0.00 0.00 36.97 2.83
554 942 8.962679 GGTTCCATCACCTTTACATATAAACAA 58.037 33.333 0.00 0.00 33.50 2.83
556 944 8.746052 TCCATCACCTTTACATATAAACAAGG 57.254 34.615 0.00 0.00 0.00 3.61
557 945 8.333235 TCCATCACCTTTACATATAAACAAGGT 58.667 33.333 0.00 0.00 30.29 3.50
558 946 8.405531 CCATCACCTTTACATATAAACAAGGTG 58.594 37.037 19.16 19.16 41.33 4.00
559 947 7.931578 TCACCTTTACATATAAACAAGGTGG 57.068 36.000 22.93 9.73 40.84 4.61
560 948 7.691213 TCACCTTTACATATAAACAAGGTGGA 58.309 34.615 22.93 11.41 40.84 4.02
561 949 8.164733 TCACCTTTACATATAAACAAGGTGGAA 58.835 33.333 22.93 7.77 40.84 3.53
562 950 8.798402 CACCTTTACATATAAACAAGGTGGAAA 58.202 33.333 17.95 4.02 38.88 3.13
563 951 9.020731 ACCTTTACATATAAACAAGGTGGAAAG 57.979 33.333 1.05 0.00 39.37 2.62
565 953 8.943594 TTTACATATAAACAAGGTGGAAAGGT 57.056 30.769 0.00 0.00 0.00 3.50
566 954 6.834168 ACATATAAACAAGGTGGAAAGGTG 57.166 37.500 0.00 0.00 0.00 4.00
567 955 6.311735 ACATATAAACAAGGTGGAAAGGTGT 58.688 36.000 0.00 0.00 0.00 4.16
568 956 6.208599 ACATATAAACAAGGTGGAAAGGTGTG 59.791 38.462 0.00 0.00 0.00 3.82
569 957 1.775385 AACAAGGTGGAAAGGTGTGG 58.225 50.000 0.00 0.00 0.00 4.17
570 958 0.629058 ACAAGGTGGAAAGGTGTGGT 59.371 50.000 0.00 0.00 0.00 4.16
571 959 1.318576 CAAGGTGGAAAGGTGTGGTC 58.681 55.000 0.00 0.00 0.00 4.02
572 960 0.923358 AAGGTGGAAAGGTGTGGTCA 59.077 50.000 0.00 0.00 0.00 4.02
573 961 0.474184 AGGTGGAAAGGTGTGGTCAG 59.526 55.000 0.00 0.00 0.00 3.51
574 962 0.537371 GGTGGAAAGGTGTGGTCAGG 60.537 60.000 0.00 0.00 0.00 3.86
575 963 0.182775 GTGGAAAGGTGTGGTCAGGT 59.817 55.000 0.00 0.00 0.00 4.00
576 964 0.182537 TGGAAAGGTGTGGTCAGGTG 59.817 55.000 0.00 0.00 0.00 4.00
577 965 0.472471 GGAAAGGTGTGGTCAGGTGA 59.528 55.000 0.00 0.00 0.00 4.02
578 966 1.594331 GAAAGGTGTGGTCAGGTGAC 58.406 55.000 1.17 1.17 44.04 3.67
579 967 1.141053 GAAAGGTGTGGTCAGGTGACT 59.859 52.381 9.90 0.00 44.20 3.41
580 968 1.213296 AAGGTGTGGTCAGGTGACTT 58.787 50.000 9.90 0.00 44.20 3.01
581 969 2.097110 AGGTGTGGTCAGGTGACTTA 57.903 50.000 9.90 0.00 44.20 2.24
582 970 2.621070 AGGTGTGGTCAGGTGACTTAT 58.379 47.619 9.90 0.00 44.20 1.73
583 971 3.786553 AGGTGTGGTCAGGTGACTTATA 58.213 45.455 9.90 0.00 44.20 0.98
584 972 4.164981 AGGTGTGGTCAGGTGACTTATAA 58.835 43.478 9.90 0.00 44.20 0.98
585 973 4.223032 AGGTGTGGTCAGGTGACTTATAAG 59.777 45.833 11.05 11.05 44.20 1.73
586 974 4.020485 GGTGTGGTCAGGTGACTTATAAGT 60.020 45.833 18.05 18.05 44.20 2.24
607 995 1.358759 GGTGACAACCAAACAGGCG 59.641 57.895 0.00 0.00 46.75 5.52
608 996 1.381165 GGTGACAACCAAACAGGCGT 61.381 55.000 0.00 0.00 46.75 5.68
609 997 0.248458 GTGACAACCAAACAGGCGTG 60.248 55.000 4.53 4.53 43.14 5.34
610 998 0.393132 TGACAACCAAACAGGCGTGA 60.393 50.000 14.38 0.00 43.14 4.35
611 999 0.028902 GACAACCAAACAGGCGTGAC 59.971 55.000 14.38 0.00 43.14 3.67
612 1000 0.393808 ACAACCAAACAGGCGTGACT 60.394 50.000 14.38 0.00 43.14 3.41
613 1001 0.738389 CAACCAAACAGGCGTGACTT 59.262 50.000 14.38 3.10 43.14 3.01
614 1002 1.944024 CAACCAAACAGGCGTGACTTA 59.056 47.619 14.38 0.00 43.14 2.24
615 1003 2.552315 CAACCAAACAGGCGTGACTTAT 59.448 45.455 14.38 0.00 43.14 1.73
616 1004 3.688694 ACCAAACAGGCGTGACTTATA 57.311 42.857 14.38 0.00 43.14 0.98
617 1005 4.010667 ACCAAACAGGCGTGACTTATAA 57.989 40.909 14.38 0.00 43.14 0.98
618 1006 4.391155 ACCAAACAGGCGTGACTTATAAA 58.609 39.130 14.38 0.00 43.14 1.40
619 1007 4.454504 ACCAAACAGGCGTGACTTATAAAG 59.545 41.667 14.38 0.00 43.14 1.85
620 1008 4.454504 CCAAACAGGCGTGACTTATAAAGT 59.545 41.667 14.38 0.00 46.38 2.66
636 1024 9.841295 ACTTATAAAGTCACTGGTTTTAAGTCA 57.159 29.630 1.34 0.00 37.02 3.41
638 1026 9.841295 TTATAAAGTCACTGGTTTTAAGTCACT 57.159 29.630 0.00 0.00 29.23 3.41
639 1027 8.747538 ATAAAGTCACTGGTTTTAAGTCACTT 57.252 30.769 0.00 0.00 40.23 3.16
640 1028 6.436843 AAGTCACTGGTTTTAAGTCACTTG 57.563 37.500 0.00 0.00 37.55 3.16
641 1029 5.741011 AGTCACTGGTTTTAAGTCACTTGA 58.259 37.500 0.00 0.00 21.62 3.02
642 1030 5.585047 AGTCACTGGTTTTAAGTCACTTGAC 59.415 40.000 0.00 0.77 45.08 3.18
672 1060 6.385649 GTCAGGTGACTTATTGAAACCAAA 57.614 37.500 2.72 0.00 41.65 3.28
673 1061 6.206498 GTCAGGTGACTTATTGAAACCAAAC 58.794 40.000 2.72 0.00 41.65 2.93
674 1062 5.888724 TCAGGTGACTTATTGAAACCAAACA 59.111 36.000 0.00 0.00 40.21 2.83
675 1063 6.039270 TCAGGTGACTTATTGAAACCAAACAG 59.961 38.462 0.00 0.00 40.21 3.16
676 1064 5.301805 AGGTGACTTATTGAAACCAAACAGG 59.698 40.000 0.00 0.00 40.62 4.00
677 1065 4.982295 GTGACTTATTGAAACCAAACAGGC 59.018 41.667 0.00 0.00 43.14 4.85
678 1066 4.892934 TGACTTATTGAAACCAAACAGGCT 59.107 37.500 0.00 0.00 43.14 4.58
679 1067 5.009610 TGACTTATTGAAACCAAACAGGCTC 59.990 40.000 0.00 0.00 43.14 4.70
680 1068 5.140454 ACTTATTGAAACCAAACAGGCTCT 58.860 37.500 0.00 0.00 43.14 4.09
681 1069 6.303839 ACTTATTGAAACCAAACAGGCTCTA 58.696 36.000 0.00 0.00 43.14 2.43
682 1070 6.775629 ACTTATTGAAACCAAACAGGCTCTAA 59.224 34.615 0.00 0.00 43.14 2.10
683 1071 4.911514 TTGAAACCAAACAGGCTCTAAC 57.088 40.909 0.00 0.00 43.14 2.34
684 1072 3.219281 TGAAACCAAACAGGCTCTAACC 58.781 45.455 0.00 0.00 43.14 2.85
685 1073 3.219281 GAAACCAAACAGGCTCTAACCA 58.781 45.455 0.00 0.00 43.14 3.67
695 1083 2.567615 AGGCTCTAACCATTTGTCTCGT 59.432 45.455 0.00 0.00 0.00 4.18
730 1243 5.713389 ACGGGGTTAAATTTTAGAAAGAGGG 59.287 40.000 0.00 0.00 0.00 4.30
734 1247 7.321153 GGGTTAAATTTTAGAAAGAGGGAAGC 58.679 38.462 0.00 0.00 0.00 3.86
737 1250 9.929180 GTTAAATTTTAGAAAGAGGGAAGCAAT 57.071 29.630 0.00 0.00 0.00 3.56
763 1276 2.842188 TACCCGAAGCAGACCGGCTA 62.842 60.000 0.00 0.00 45.07 3.93
842 1374 2.743928 GGCAAGAGGACCTGTGCG 60.744 66.667 16.85 2.99 37.89 5.34
860 1395 2.031012 TCGCACAACCTCCAGCTG 59.969 61.111 6.78 6.78 0.00 4.24
871 1839 2.038557 ACCTCCAGCTGTTTCGTTATGT 59.961 45.455 13.81 0.00 0.00 2.29
886 1855 3.187700 GTTATGTCCGCCTCAGTACAAG 58.812 50.000 0.00 0.00 0.00 3.16
888 1857 1.292223 GTCCGCCTCAGTACAAGCA 59.708 57.895 0.00 0.00 0.00 3.91
1284 2337 2.117156 GCAGGAGTACGGCTACGGA 61.117 63.158 0.00 0.00 46.48 4.69
1428 2493 0.912486 ATTCTTCCCCTTCACCCTCG 59.088 55.000 0.00 0.00 0.00 4.63
1503 2590 2.743928 GGTGAACCAGCAGAGCCG 60.744 66.667 0.00 0.00 35.64 5.52
1660 2853 6.939730 GTGGGAATTCTTCTTCTTCTTCTTCT 59.060 38.462 5.23 0.00 0.00 2.85
1668 2861 9.541143 TTCTTCTTCTTCTTCTTCTTCTTCTTC 57.459 33.333 0.00 0.00 0.00 2.87
1804 3017 1.340405 GGTTGGCCTCATGTGAGTGAT 60.340 52.381 3.32 0.00 40.48 3.06
2020 3287 2.729028 TCTAGGTTTTATGGGCAGGC 57.271 50.000 0.00 0.00 0.00 4.85
2055 3685 4.560128 CGTGCATATAGAGCCATACAGTT 58.440 43.478 0.00 0.00 0.00 3.16
2126 6152 7.902920 AAAATGTGCCTCATCCATTAAGTAT 57.097 32.000 0.00 0.00 35.48 2.12
2243 6879 2.092646 AGTCTCGTCCAGATAGCACTCT 60.093 50.000 0.00 0.00 32.08 3.24
2301 6937 3.377656 GTCCTCGAGCAAGGGACA 58.622 61.111 14.17 0.00 46.14 4.02
2302 6938 1.671742 GTCCTCGAGCAAGGGACAA 59.328 57.895 14.17 0.00 46.14 3.18
2304 6940 0.832135 TCCTCGAGCAAGGGACAACT 60.832 55.000 6.99 0.00 37.02 3.16
2305 6941 0.035458 CCTCGAGCAAGGGACAACTT 59.965 55.000 6.99 0.00 32.35 2.66
2344 7463 5.704888 CTTCAGAACTAGTCGTCACATTCT 58.295 41.667 0.00 0.00 0.00 2.40
2348 7467 6.314152 TCAGAACTAGTCGTCACATTCTCTAG 59.686 42.308 0.00 0.00 0.00 2.43
2355 7475 6.513180 AGTCGTCACATTCTCTAGAAAAACA 58.487 36.000 0.00 0.00 37.61 2.83
2377 7497 0.448990 TAGATTCACCGTGTCCGTCG 59.551 55.000 0.00 0.00 0.00 5.12
2379 7499 0.797249 GATTCACCGTGTCCGTCGAG 60.797 60.000 0.00 0.00 0.00 4.04
2382 7502 4.338539 ACCGTGTCCGTCGAGTGC 62.339 66.667 0.00 0.00 0.00 4.40
2390 7510 0.670239 TCCGTCGAGTGCTGTACGTA 60.670 55.000 0.00 0.00 33.63 3.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 3.809279 CACGCACATCTTATGCCTATGAA 59.191 43.478 0.00 0.00 40.09 2.57
17 18 2.096069 GCACGCACATCTTATGCCTATG 60.096 50.000 0.00 0.00 40.09 2.23
21 22 1.010797 CGCACGCACATCTTATGCC 60.011 57.895 0.00 0.00 40.09 4.40
23 24 0.587242 GCACGCACGCACATCTTATG 60.587 55.000 0.00 0.00 0.00 1.90
24 25 1.715585 GCACGCACGCACATCTTAT 59.284 52.632 0.00 0.00 0.00 1.73
29 30 1.906994 ATAAACGCACGCACGCACAT 61.907 50.000 0.00 0.00 36.19 3.21
33 34 1.012671 CCTATAAACGCACGCACGC 60.013 57.895 0.00 0.00 36.19 5.34
34 35 0.570734 CTCCTATAAACGCACGCACG 59.429 55.000 0.00 0.00 39.50 5.34
46 47 2.225727 CGCACATACGCTCACTCCTATA 59.774 50.000 0.00 0.00 0.00 1.31
58 59 2.216488 GCACTCAAGATACGCACATACG 59.784 50.000 0.00 0.00 39.50 3.06
175 178 8.708742 TGTTTATTCACTCATTTCAGTTCGTAG 58.291 33.333 0.00 0.00 0.00 3.51
250 257 4.879545 TCCCTTCGTTCACAAATATAAGCC 59.120 41.667 0.00 0.00 0.00 4.35
251 258 5.585047 ACTCCCTTCGTTCACAAATATAAGC 59.415 40.000 0.00 0.00 0.00 3.09
268 278 5.606348 TTTTGCAAACATTGTACTCCCTT 57.394 34.783 12.39 0.00 0.00 3.95
291 302 4.079385 GGTTGGGGATAGTTGGTTCCTTAT 60.079 45.833 0.00 0.00 32.34 1.73
292 303 3.267551 GGTTGGGGATAGTTGGTTCCTTA 59.732 47.826 0.00 0.00 32.34 2.69
304 315 2.619332 CCATGACAAACGGTTGGGGATA 60.619 50.000 19.08 0.00 39.22 2.59
314 325 5.583495 TCCAACTTAAAACCATGACAAACG 58.417 37.500 0.00 0.00 0.00 3.60
347 358 5.231702 TGACAAGAAAATGTGCCATGAATG 58.768 37.500 0.00 0.00 32.57 2.67
387 775 2.928801 ATTTGAAACCAAACAGGCCC 57.071 45.000 0.00 0.00 43.14 5.80
388 776 4.956085 ACTTATTTGAAACCAAACAGGCC 58.044 39.130 0.00 0.00 43.14 5.19
389 777 5.462068 GTGACTTATTTGAAACCAAACAGGC 59.538 40.000 0.00 0.00 43.14 4.85
390 778 5.983118 GGTGACTTATTTGAAACCAAACAGG 59.017 40.000 0.00 0.00 45.67 4.00
391 779 6.568869 TGGTGACTTATTTGAAACCAAACAG 58.431 36.000 0.00 0.00 36.48 3.16
436 824 9.660180 TCTGTTTGGCAAAATAAGTTACTTTTT 57.340 25.926 15.29 0.00 0.00 1.94
437 825 9.093970 GTCTGTTTGGCAAAATAAGTTACTTTT 57.906 29.630 15.29 0.00 0.00 2.27
438 826 7.709182 GGTCTGTTTGGCAAAATAAGTTACTTT 59.291 33.333 15.29 0.00 0.00 2.66
440 828 6.239204 GGGTCTGTTTGGCAAAATAAGTTACT 60.239 38.462 15.29 0.00 0.00 2.24
441 829 5.924254 GGGTCTGTTTGGCAAAATAAGTTAC 59.076 40.000 15.29 7.77 0.00 2.50
443 831 4.407296 TGGGTCTGTTTGGCAAAATAAGTT 59.593 37.500 15.29 0.00 0.00 2.66
444 832 3.964031 TGGGTCTGTTTGGCAAAATAAGT 59.036 39.130 15.29 0.00 0.00 2.24
446 834 4.407296 AGTTGGGTCTGTTTGGCAAAATAA 59.593 37.500 15.29 2.73 0.00 1.40
447 835 3.964031 AGTTGGGTCTGTTTGGCAAAATA 59.036 39.130 15.29 6.13 0.00 1.40
449 837 2.183679 AGTTGGGTCTGTTTGGCAAAA 58.816 42.857 15.29 4.59 0.00 2.44
450 838 1.859302 AGTTGGGTCTGTTTGGCAAA 58.141 45.000 8.93 8.93 0.00 3.68
451 839 1.859302 AAGTTGGGTCTGTTTGGCAA 58.141 45.000 0.00 0.00 0.00 4.52
452 840 2.738587 TAAGTTGGGTCTGTTTGGCA 57.261 45.000 0.00 0.00 0.00 4.92
453 841 4.765339 ACTTATAAGTTGGGTCTGTTTGGC 59.235 41.667 12.50 0.00 35.21 4.52
454 842 6.001460 TGACTTATAAGTTGGGTCTGTTTGG 58.999 40.000 18.96 0.00 39.88 3.28
455 843 7.687941 ATGACTTATAAGTTGGGTCTGTTTG 57.312 36.000 18.96 0.00 39.88 2.93
456 844 9.449719 CTTATGACTTATAAGTTGGGTCTGTTT 57.550 33.333 18.96 0.00 42.11 2.83
469 857 7.390823 TGTGTGGAGCAACTTATGACTTATAA 58.609 34.615 0.00 0.00 0.00 0.98
470 858 6.941857 TGTGTGGAGCAACTTATGACTTATA 58.058 36.000 0.00 0.00 0.00 0.98
471 859 5.804639 TGTGTGGAGCAACTTATGACTTAT 58.195 37.500 0.00 0.00 0.00 1.73
472 860 5.222079 TGTGTGGAGCAACTTATGACTTA 57.778 39.130 0.00 0.00 0.00 2.24
473 861 4.085357 TGTGTGGAGCAACTTATGACTT 57.915 40.909 0.00 0.00 0.00 3.01
474 862 3.769739 TGTGTGGAGCAACTTATGACT 57.230 42.857 0.00 0.00 0.00 3.41
475 863 4.275936 AGTTTGTGTGGAGCAACTTATGAC 59.724 41.667 0.00 0.00 0.00 3.06
476 864 4.460263 AGTTTGTGTGGAGCAACTTATGA 58.540 39.130 0.00 0.00 0.00 2.15
477 865 4.836125 AGTTTGTGTGGAGCAACTTATG 57.164 40.909 0.00 0.00 0.00 1.90
478 866 6.952773 TTAAGTTTGTGTGGAGCAACTTAT 57.047 33.333 4.62 0.00 0.00 1.73
479 867 6.761099 TTTAAGTTTGTGTGGAGCAACTTA 57.239 33.333 0.00 0.00 0.00 2.24
480 868 5.652994 TTTAAGTTTGTGTGGAGCAACTT 57.347 34.783 0.00 0.00 0.00 2.66
481 869 5.185056 AGTTTTAAGTTTGTGTGGAGCAACT 59.815 36.000 0.00 0.00 0.00 3.16
482 870 5.407502 AGTTTTAAGTTTGTGTGGAGCAAC 58.592 37.500 0.00 0.00 0.00 4.17
483 871 5.652994 AGTTTTAAGTTTGTGTGGAGCAA 57.347 34.783 0.00 0.00 0.00 3.91
484 872 5.652994 AAGTTTTAAGTTTGTGTGGAGCA 57.347 34.783 0.00 0.00 0.00 4.26
485 873 9.394477 CTTATAAGTTTTAAGTTTGTGTGGAGC 57.606 33.333 4.18 0.00 0.00 4.70
491 879 9.673454 GGGTGACTTATAAGTTTTAAGTTTGTG 57.327 33.333 18.96 0.00 39.40 3.33
492 880 8.853126 GGGGTGACTTATAAGTTTTAAGTTTGT 58.147 33.333 18.96 0.00 39.40 2.83
493 881 9.074576 AGGGGTGACTTATAAGTTTTAAGTTTG 57.925 33.333 18.96 0.00 39.40 2.93
494 882 9.650714 AAGGGGTGACTTATAAGTTTTAAGTTT 57.349 29.630 18.96 6.86 39.40 2.66
495 883 9.650714 AAAGGGGTGACTTATAAGTTTTAAGTT 57.349 29.630 18.96 7.30 39.40 2.66
496 884 9.650714 AAAAGGGGTGACTTATAAGTTTTAAGT 57.349 29.630 18.96 15.86 41.41 2.24
497 885 9.908152 CAAAAGGGGTGACTTATAAGTTTTAAG 57.092 33.333 18.96 10.49 39.88 1.85
498 886 8.361889 GCAAAAGGGGTGACTTATAAGTTTTAA 58.638 33.333 18.96 3.77 39.88 1.52
499 887 7.308710 CGCAAAAGGGGTGACTTATAAGTTTTA 60.309 37.037 18.96 6.80 39.88 1.52
500 888 6.516028 CGCAAAAGGGGTGACTTATAAGTTTT 60.516 38.462 18.96 11.32 39.88 2.43
501 889 5.048294 CGCAAAAGGGGTGACTTATAAGTTT 60.048 40.000 18.96 5.93 39.88 2.66
502 890 4.457949 CGCAAAAGGGGTGACTTATAAGTT 59.542 41.667 18.96 3.63 39.88 2.66
503 891 4.007659 CGCAAAAGGGGTGACTTATAAGT 58.992 43.478 18.05 18.05 43.16 2.24
504 892 4.007659 ACGCAAAAGGGGTGACTTATAAG 58.992 43.478 11.05 11.05 41.74 1.73
505 893 4.023726 ACGCAAAAGGGGTGACTTATAA 57.976 40.909 0.00 0.00 41.74 0.98
506 894 3.706600 ACGCAAAAGGGGTGACTTATA 57.293 42.857 0.00 0.00 41.74 0.98
507 895 2.579410 ACGCAAAAGGGGTGACTTAT 57.421 45.000 0.00 0.00 41.74 1.73
517 905 0.243636 GATGGAACCCACGCAAAAGG 59.756 55.000 0.00 0.00 35.80 3.11
518 906 0.958091 TGATGGAACCCACGCAAAAG 59.042 50.000 0.00 0.00 35.80 2.27
519 907 0.671251 GTGATGGAACCCACGCAAAA 59.329 50.000 0.00 0.00 35.80 2.44
520 908 1.175983 GGTGATGGAACCCACGCAAA 61.176 55.000 0.00 0.00 35.80 3.68
521 909 1.602323 GGTGATGGAACCCACGCAA 60.602 57.895 0.00 0.00 35.80 4.85
522 910 2.033448 GGTGATGGAACCCACGCA 59.967 61.111 0.00 0.00 35.80 5.24
523 911 0.893727 AAAGGTGATGGAACCCACGC 60.894 55.000 0.00 0.00 41.54 5.34
524 912 2.081462 GTAAAGGTGATGGAACCCACG 58.919 52.381 0.00 0.00 41.54 4.94
525 913 3.149005 TGTAAAGGTGATGGAACCCAC 57.851 47.619 0.00 0.00 41.54 4.61
526 914 5.725551 ATATGTAAAGGTGATGGAACCCA 57.274 39.130 0.00 0.00 41.54 4.51
527 915 7.558444 TGTTTATATGTAAAGGTGATGGAACCC 59.442 37.037 0.00 0.00 41.54 4.11
528 916 8.514330 TGTTTATATGTAAAGGTGATGGAACC 57.486 34.615 0.00 0.00 40.85 3.62
530 918 9.184523 CCTTGTTTATATGTAAAGGTGATGGAA 57.815 33.333 0.00 0.00 34.04 3.53
531 919 8.333235 ACCTTGTTTATATGTAAAGGTGATGGA 58.667 33.333 4.66 0.00 46.80 3.41
532 920 8.519799 ACCTTGTTTATATGTAAAGGTGATGG 57.480 34.615 4.66 1.22 46.80 3.51
538 926 8.466798 CCTTTCCACCTTGTTTATATGTAAAGG 58.533 37.037 0.00 0.00 42.57 3.11
539 927 9.020731 ACCTTTCCACCTTGTTTATATGTAAAG 57.979 33.333 0.00 0.00 30.76 1.85
540 928 8.798402 CACCTTTCCACCTTGTTTATATGTAAA 58.202 33.333 0.00 0.00 0.00 2.01
541 929 7.945664 ACACCTTTCCACCTTGTTTATATGTAA 59.054 33.333 0.00 0.00 0.00 2.41
542 930 7.392113 CACACCTTTCCACCTTGTTTATATGTA 59.608 37.037 0.00 0.00 0.00 2.29
543 931 6.208599 CACACCTTTCCACCTTGTTTATATGT 59.791 38.462 0.00 0.00 0.00 2.29
544 932 6.350110 CCACACCTTTCCACCTTGTTTATATG 60.350 42.308 0.00 0.00 0.00 1.78
545 933 5.714806 CCACACCTTTCCACCTTGTTTATAT 59.285 40.000 0.00 0.00 0.00 0.86
546 934 5.074115 CCACACCTTTCCACCTTGTTTATA 58.926 41.667 0.00 0.00 0.00 0.98
547 935 3.895041 CCACACCTTTCCACCTTGTTTAT 59.105 43.478 0.00 0.00 0.00 1.40
548 936 3.292460 CCACACCTTTCCACCTTGTTTA 58.708 45.455 0.00 0.00 0.00 2.01
549 937 2.107366 CCACACCTTTCCACCTTGTTT 58.893 47.619 0.00 0.00 0.00 2.83
550 938 1.006639 ACCACACCTTTCCACCTTGTT 59.993 47.619 0.00 0.00 0.00 2.83
551 939 0.629058 ACCACACCTTTCCACCTTGT 59.371 50.000 0.00 0.00 0.00 3.16
552 940 1.318576 GACCACACCTTTCCACCTTG 58.681 55.000 0.00 0.00 0.00 3.61
553 941 0.923358 TGACCACACCTTTCCACCTT 59.077 50.000 0.00 0.00 0.00 3.50
554 942 0.474184 CTGACCACACCTTTCCACCT 59.526 55.000 0.00 0.00 0.00 4.00
555 943 0.537371 CCTGACCACACCTTTCCACC 60.537 60.000 0.00 0.00 0.00 4.61
556 944 0.182775 ACCTGACCACACCTTTCCAC 59.817 55.000 0.00 0.00 0.00 4.02
557 945 0.182537 CACCTGACCACACCTTTCCA 59.817 55.000 0.00 0.00 0.00 3.53
558 946 0.472471 TCACCTGACCACACCTTTCC 59.528 55.000 0.00 0.00 0.00 3.13
559 947 1.141053 AGTCACCTGACCACACCTTTC 59.859 52.381 1.66 0.00 45.85 2.62
560 948 1.213296 AGTCACCTGACCACACCTTT 58.787 50.000 1.66 0.00 45.85 3.11
561 949 1.213296 AAGTCACCTGACCACACCTT 58.787 50.000 1.66 0.00 45.85 3.50
562 950 2.097110 TAAGTCACCTGACCACACCT 57.903 50.000 1.66 0.00 45.85 4.00
563 951 4.020485 ACTTATAAGTCACCTGACCACACC 60.020 45.833 12.50 0.00 45.85 4.16
564 952 5.148651 ACTTATAAGTCACCTGACCACAC 57.851 43.478 12.50 0.00 45.85 3.82
576 964 5.790593 TGGTTGTCACCTGACTTATAAGTC 58.209 41.667 30.61 30.61 46.58 3.01
577 965 5.818678 TGGTTGTCACCTGACTTATAAGT 57.181 39.130 18.05 18.05 44.61 2.24
578 966 6.485313 TGTTTGGTTGTCACCTGACTTATAAG 59.515 38.462 11.05 11.05 44.61 1.73
579 967 6.358178 TGTTTGGTTGTCACCTGACTTATAA 58.642 36.000 6.97 0.00 44.61 0.98
580 968 5.931294 TGTTTGGTTGTCACCTGACTTATA 58.069 37.500 6.97 0.00 44.61 0.98
581 969 4.787551 TGTTTGGTTGTCACCTGACTTAT 58.212 39.130 6.97 0.00 44.61 1.73
582 970 4.196193 CTGTTTGGTTGTCACCTGACTTA 58.804 43.478 6.97 0.00 44.61 2.24
583 971 3.016736 CTGTTTGGTTGTCACCTGACTT 58.983 45.455 6.97 0.00 44.61 3.01
584 972 2.643551 CTGTTTGGTTGTCACCTGACT 58.356 47.619 6.97 0.00 44.61 3.41
585 973 1.676006 CCTGTTTGGTTGTCACCTGAC 59.324 52.381 0.00 0.00 44.61 3.51
586 974 2.021723 GCCTGTTTGGTTGTCACCTGA 61.022 52.381 0.00 0.00 44.61 3.86
587 975 0.385390 GCCTGTTTGGTTGTCACCTG 59.615 55.000 0.00 0.00 44.61 4.00
588 976 1.101049 CGCCTGTTTGGTTGTCACCT 61.101 55.000 0.00 0.00 44.61 4.00
589 977 1.358759 CGCCTGTTTGGTTGTCACC 59.641 57.895 0.00 0.00 44.56 4.02
590 978 0.248458 CACGCCTGTTTGGTTGTCAC 60.248 55.000 0.00 0.00 38.35 3.67
591 979 0.393132 TCACGCCTGTTTGGTTGTCA 60.393 50.000 0.00 0.00 38.35 3.58
592 980 0.028902 GTCACGCCTGTTTGGTTGTC 59.971 55.000 0.00 0.00 38.35 3.18
593 981 0.393808 AGTCACGCCTGTTTGGTTGT 60.394 50.000 0.00 0.00 38.35 3.32
594 982 0.738389 AAGTCACGCCTGTTTGGTTG 59.262 50.000 0.00 0.00 38.35 3.77
595 983 2.335316 TAAGTCACGCCTGTTTGGTT 57.665 45.000 0.00 0.00 38.35 3.67
596 984 2.561478 ATAAGTCACGCCTGTTTGGT 57.439 45.000 0.00 0.00 38.35 3.67
597 985 4.454504 ACTTTATAAGTCACGCCTGTTTGG 59.545 41.667 0.00 0.00 37.02 3.28
598 986 5.607119 ACTTTATAAGTCACGCCTGTTTG 57.393 39.130 0.00 0.00 37.02 2.93
610 998 9.841295 TGACTTAAAACCAGTGACTTTATAAGT 57.159 29.630 0.00 6.25 46.38 2.24
612 1000 9.841295 AGTGACTTAAAACCAGTGACTTTATAA 57.159 29.630 0.00 0.00 35.43 0.98
613 1001 9.841295 AAGTGACTTAAAACCAGTGACTTTATA 57.159 29.630 0.00 0.00 43.61 0.98
614 1002 8.621286 CAAGTGACTTAAAACCAGTGACTTTAT 58.379 33.333 0.00 0.00 43.61 1.40
615 1003 7.825270 TCAAGTGACTTAAAACCAGTGACTTTA 59.175 33.333 0.00 0.00 43.61 1.85
616 1004 6.657541 TCAAGTGACTTAAAACCAGTGACTTT 59.342 34.615 0.00 0.00 43.61 2.66
617 1005 6.093633 GTCAAGTGACTTAAAACCAGTGACTT 59.906 38.462 0.00 0.00 45.99 3.01
618 1006 5.585047 GTCAAGTGACTTAAAACCAGTGACT 59.415 40.000 0.00 0.00 40.05 3.41
619 1007 5.807344 GTCAAGTGACTTAAAACCAGTGAC 58.193 41.667 0.00 0.00 41.65 3.67
648 1036 6.039382 GTTTGGTTTCAATAAGTCACCTGACT 59.961 38.462 1.87 1.87 43.62 3.41
649 1037 6.183360 TGTTTGGTTTCAATAAGTCACCTGAC 60.183 38.462 0.00 0.00 37.75 3.51
650 1038 5.888724 TGTTTGGTTTCAATAAGTCACCTGA 59.111 36.000 0.00 0.00 32.28 3.86
651 1039 6.142818 TGTTTGGTTTCAATAAGTCACCTG 57.857 37.500 0.00 0.00 32.28 4.00
652 1040 5.301805 CCTGTTTGGTTTCAATAAGTCACCT 59.698 40.000 0.00 0.00 32.28 4.00
653 1041 5.528870 CCTGTTTGGTTTCAATAAGTCACC 58.471 41.667 0.00 0.00 32.28 4.02
654 1042 4.982295 GCCTGTTTGGTTTCAATAAGTCAC 59.018 41.667 0.00 0.00 38.35 3.67
655 1043 4.892934 AGCCTGTTTGGTTTCAATAAGTCA 59.107 37.500 0.00 0.00 38.35 3.41
656 1044 5.241728 AGAGCCTGTTTGGTTTCAATAAGTC 59.758 40.000 0.00 0.00 38.35 3.01
657 1045 5.140454 AGAGCCTGTTTGGTTTCAATAAGT 58.860 37.500 0.00 0.00 38.35 2.24
658 1046 5.712152 AGAGCCTGTTTGGTTTCAATAAG 57.288 39.130 0.00 0.00 38.35 1.73
659 1047 6.015772 GGTTAGAGCCTGTTTGGTTTCAATAA 60.016 38.462 0.00 0.00 38.35 1.40
660 1048 5.475564 GGTTAGAGCCTGTTTGGTTTCAATA 59.524 40.000 0.00 0.00 38.35 1.90
661 1049 4.280929 GGTTAGAGCCTGTTTGGTTTCAAT 59.719 41.667 0.00 0.00 38.35 2.57
662 1050 3.634910 GGTTAGAGCCTGTTTGGTTTCAA 59.365 43.478 0.00 0.00 38.35 2.69
663 1051 3.219281 GGTTAGAGCCTGTTTGGTTTCA 58.781 45.455 0.00 0.00 38.35 2.69
664 1052 3.219281 TGGTTAGAGCCTGTTTGGTTTC 58.781 45.455 0.00 0.00 38.35 2.78
665 1053 3.306472 TGGTTAGAGCCTGTTTGGTTT 57.694 42.857 0.00 0.00 38.35 3.27
666 1054 3.525800 ATGGTTAGAGCCTGTTTGGTT 57.474 42.857 0.00 0.00 38.35 3.67
667 1055 3.525800 AATGGTTAGAGCCTGTTTGGT 57.474 42.857 0.00 0.00 38.35 3.67
668 1056 3.573967 ACAAATGGTTAGAGCCTGTTTGG 59.426 43.478 13.80 0.00 38.21 3.28
669 1057 4.520492 AGACAAATGGTTAGAGCCTGTTTG 59.480 41.667 10.17 10.17 38.97 2.93
670 1058 4.729868 AGACAAATGGTTAGAGCCTGTTT 58.270 39.130 0.00 0.00 0.00 2.83
671 1059 4.327680 GAGACAAATGGTTAGAGCCTGTT 58.672 43.478 0.00 0.00 0.00 3.16
672 1060 3.617531 CGAGACAAATGGTTAGAGCCTGT 60.618 47.826 0.00 0.00 0.00 4.00
673 1061 2.932614 CGAGACAAATGGTTAGAGCCTG 59.067 50.000 0.00 0.00 0.00 4.85
674 1062 2.567615 ACGAGACAAATGGTTAGAGCCT 59.432 45.455 0.00 0.00 0.00 4.58
675 1063 2.973945 ACGAGACAAATGGTTAGAGCC 58.026 47.619 0.00 0.00 0.00 4.70
676 1064 5.867716 TCTAAACGAGACAAATGGTTAGAGC 59.132 40.000 0.00 0.00 0.00 4.09
677 1065 7.884816 TTCTAAACGAGACAAATGGTTAGAG 57.115 36.000 0.00 0.00 32.31 2.43
678 1066 8.092068 TCATTCTAAACGAGACAAATGGTTAGA 58.908 33.333 0.00 0.00 32.31 2.10
679 1067 8.251750 TCATTCTAAACGAGACAAATGGTTAG 57.748 34.615 0.00 0.00 32.31 2.34
680 1068 8.610248 TTCATTCTAAACGAGACAAATGGTTA 57.390 30.769 0.00 0.00 32.31 2.85
681 1069 7.504924 TTCATTCTAAACGAGACAAATGGTT 57.495 32.000 0.00 0.00 32.31 3.67
682 1070 7.360361 GTTTCATTCTAAACGAGACAAATGGT 58.640 34.615 0.00 0.00 32.31 3.55
683 1071 7.781763 GTTTCATTCTAAACGAGACAAATGG 57.218 36.000 0.00 0.00 32.31 3.16
713 1226 8.749354 GGATTGCTTCCCTCTTTCTAAAATTTA 58.251 33.333 0.00 0.00 38.75 1.40
730 1243 2.178235 GGGTACGCCGGATTGCTTC 61.178 63.158 5.05 0.00 34.97 3.86
734 1247 1.881252 CTTCGGGTACGCCGGATTG 60.881 63.158 18.74 0.00 42.56 2.67
740 1253 2.508663 GTCTGCTTCGGGTACGCC 60.509 66.667 4.09 0.00 40.69 5.68
763 1276 5.505654 CGGAATGGAATGTAGCGCTTATTTT 60.506 40.000 18.68 8.56 0.00 1.82
811 1341 6.153510 GGTCCTCTTGCCATTATTTTTCTCTT 59.846 38.462 0.00 0.00 0.00 2.85
842 1374 2.031163 AGCTGGAGGTTGTGCGAC 59.969 61.111 0.00 0.00 0.00 5.19
860 1395 1.659098 CTGAGGCGGACATAACGAAAC 59.341 52.381 0.00 0.00 0.00 2.78
871 1839 1.292223 GTGCTTGTACTGAGGCGGA 59.708 57.895 0.00 0.00 0.00 5.54
886 1855 0.603975 GGTGAGAGGACACAAGGTGC 60.604 60.000 0.00 0.00 41.88 5.01
888 1857 1.051812 CAGGTGAGAGGACACAAGGT 58.948 55.000 0.00 0.00 41.88 3.50
1428 2493 3.499737 CCATGGCAGCCGAACGAC 61.500 66.667 7.03 0.00 0.00 4.34
1503 2590 0.248377 GAACGCATCAGCTGGCAATC 60.248 55.000 15.13 7.46 39.10 2.67
1660 2853 8.184304 AGCTAGAAGAACACTAAGAAGAAGAA 57.816 34.615 0.00 0.00 0.00 2.52
1668 2861 6.693315 AGAGCTAGCTAGAAGAACACTAAG 57.307 41.667 25.15 0.00 0.00 2.18
1952 3198 5.962641 ACAGGCCCAAGTAGTTTAGTAGTAT 59.037 40.000 0.00 0.00 0.00 2.12
2020 3287 2.838386 ATGCACGCAGCTATTTTGAG 57.162 45.000 0.00 0.00 45.94 3.02
2055 3685 5.925506 TCTGGAAAATCCTATACACACGA 57.074 39.130 0.00 0.00 37.46 4.35
2166 6198 4.621991 GCTGTTCAACTGACTGAGTTCTA 58.378 43.478 0.00 0.00 43.52 2.10
2243 6879 4.321718 CTGCTTGGAGAGAAAGTGATGAA 58.678 43.478 0.00 0.00 0.00 2.57
2301 6937 8.632679 TCTGAAGCAATACAAATTCTTCAAGTT 58.367 29.630 0.00 0.00 37.98 2.66
2302 6938 8.169977 TCTGAAGCAATACAAATTCTTCAAGT 57.830 30.769 0.00 0.00 37.98 3.16
2304 6940 8.632679 AGTTCTGAAGCAATACAAATTCTTCAA 58.367 29.630 0.00 0.00 37.98 2.69
2305 6941 8.169977 AGTTCTGAAGCAATACAAATTCTTCA 57.830 30.769 0.00 0.00 37.16 3.02
2306 6942 9.766277 CTAGTTCTGAAGCAATACAAATTCTTC 57.234 33.333 0.00 0.00 33.94 2.87
2307 6943 9.289782 ACTAGTTCTGAAGCAATACAAATTCTT 57.710 29.630 0.00 0.00 0.00 2.52
2308 6944 8.854614 ACTAGTTCTGAAGCAATACAAATTCT 57.145 30.769 0.00 0.00 0.00 2.40
2309 6945 7.900352 CGACTAGTTCTGAAGCAATACAAATTC 59.100 37.037 0.00 0.00 0.00 2.17
2310 6946 7.387948 ACGACTAGTTCTGAAGCAATACAAATT 59.612 33.333 0.00 0.00 0.00 1.82
2311 6947 6.874134 ACGACTAGTTCTGAAGCAATACAAAT 59.126 34.615 0.00 0.00 0.00 2.32
2344 7463 8.717821 CACGGTGAATCTAATTGTTTTTCTAGA 58.282 33.333 0.74 0.00 0.00 2.43
2348 7467 6.581166 GGACACGGTGAATCTAATTGTTTTTC 59.419 38.462 16.29 0.00 0.00 2.29
2355 7475 3.518590 GACGGACACGGTGAATCTAATT 58.481 45.455 16.29 0.00 46.48 1.40
2366 7486 4.039357 AGCACTCGACGGACACGG 62.039 66.667 0.00 0.00 46.48 4.94
2377 7497 4.921547 TGATCTTGATACGTACAGCACTC 58.078 43.478 0.00 0.00 0.00 3.51
2379 7499 3.487574 GCTGATCTTGATACGTACAGCAC 59.512 47.826 20.73 7.13 45.33 4.40


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

AutoCloner maintained by Alex Coulton.