Multiple sequence alignment - TraesCS5B01G304300

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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 TraesCS5B01G304300 chr5B 100.000 3683 0 0 1 3683 488559933 488563615 0.000000e+00 6802.0
1 TraesCS5B01G304300 chr5B 86.415 1325 154 18 1140 2454 520046519 520047827 0.000000e+00 1426.0
2 TraesCS5B01G304300 chr5B 85.392 1328 170 13 1136 2454 519451324 519452636 0.000000e+00 1356.0
3 TraesCS5B01G304300 chr5B 95.812 597 25 0 3084 3680 488602043 488602639 0.000000e+00 965.0
4 TraesCS5B01G304300 chr5B 93.467 597 39 0 3084 3680 705897223 705897819 0.000000e+00 887.0
5 TraesCS5B01G304300 chr5B 95.342 322 7 1 413 726 586867993 586868314 4.240000e-139 505.0
6 TraesCS5B01G304300 chr5B 86.429 280 17 9 463 726 541949778 541949504 1.670000e-73 287.0
7 TraesCS5B01G304300 chr5B 94.545 165 9 0 209 373 541950134 541950298 4.720000e-64 255.0
8 TraesCS5B01G304300 chr5B 83.420 193 26 5 536 726 515189848 515189660 1.360000e-39 174.0
9 TraesCS5B01G304300 chr5D 94.989 1876 68 9 867 2740 407517218 407519069 0.000000e+00 2920.0
10 TraesCS5B01G304300 chr5D 85.617 1328 167 13 1136 2454 430164055 430165367 0.000000e+00 1373.0
11 TraesCS5B01G304300 chr5D 85.660 1325 164 15 1140 2454 430511644 430512952 0.000000e+00 1371.0
12 TraesCS5B01G304300 chr5D 85.585 1325 165 15 1140 2454 430445541 430446849 0.000000e+00 1365.0
13 TraesCS5B01G304300 chr5D 85.217 345 28 8 2746 3084 407519374 407519701 2.120000e-87 333.0
14 TraesCS5B01G304300 chr5A 92.825 1561 75 17 995 2535 512799234 512800777 0.000000e+00 2228.0
15 TraesCS5B01G304300 chr5A 86.189 1325 157 15 1140 2454 545984616 545985924 0.000000e+00 1410.0
16 TraesCS5B01G304300 chr5A 85.811 1325 162 19 1140 2454 546154213 546155521 0.000000e+00 1382.0
17 TraesCS5B01G304300 chr5A 85.693 1328 166 14 1136 2454 545870664 545871976 0.000000e+00 1378.0
18 TraesCS5B01G304300 chr5A 85.574 1324 165 15 1141 2454 546146219 546147526 0.000000e+00 1363.0
19 TraesCS5B01G304300 chr5A 85.307 456 29 16 2562 2997 512822848 512823285 1.570000e-118 436.0
20 TraesCS5B01G304300 chr5A 82.915 199 28 5 530 726 355118632 355118826 1.360000e-39 174.0
21 TraesCS5B01G304300 chr5A 94.286 35 2 0 867 901 512799200 512799234 2.000000e-03 54.7
22 TraesCS5B01G304300 chr3B 94.472 597 33 0 3084 3680 158085403 158085999 0.000000e+00 920.0
23 TraesCS5B01G304300 chr3B 93.500 600 37 2 3084 3683 725003929 725004526 0.000000e+00 891.0
24 TraesCS5B01G304300 chr3B 91.518 224 10 1 1 215 532667262 532667039 2.150000e-77 300.0
25 TraesCS5B01G304300 chr3B 83.673 196 24 7 536 727 736674499 736674308 1.050000e-40 178.0
26 TraesCS5B01G304300 chr1B 94.333 600 34 0 3084 3683 449958101 449957502 0.000000e+00 920.0
27 TraesCS5B01G304300 chr7B 93.500 600 37 2 3084 3683 525944256 525943659 0.000000e+00 891.0
28 TraesCS5B01G304300 chr7B 100.000 475 0 0 1 475 712842027 712842501 0.000000e+00 878.0
29 TraesCS5B01G304300 chr7B 92.833 600 41 2 3084 3683 577844862 577844265 0.000000e+00 869.0
30 TraesCS5B01G304300 chr7B 90.618 437 10 9 319 726 712842512 712842946 5.380000e-153 551.0
31 TraesCS5B01G304300 chr7B 97.656 256 6 0 1 256 712841596 712841851 1.210000e-119 440.0
32 TraesCS5B01G304300 chr7B 91.457 199 11 5 530 726 169123891 169123697 6.060000e-68 268.0
33 TraesCS5B01G304300 chr7B 92.727 165 12 0 209 373 169124615 169124779 4.750000e-59 239.0
34 TraesCS5B01G304300 chr2B 93.178 601 38 3 3084 3683 713530854 713531452 0.000000e+00 880.0
35 TraesCS5B01G304300 chr2B 91.515 165 13 1 209 373 717629789 717629626 3.700000e-55 226.0
36 TraesCS5B01G304300 chr6B 93.167 600 38 2 3084 3683 180941541 180940945 0.000000e+00 878.0
37 TraesCS5B01G304300 chr6B 95.370 324 6 2 413 727 166592185 166591862 1.180000e-139 507.0
38 TraesCS5B01G304300 chr2D 77.852 1341 244 35 1141 2447 7997316 7995995 0.000000e+00 782.0
39 TraesCS5B01G304300 chr2D 91.768 328 16 4 413 731 166313584 166313259 2.610000e-121 446.0
40 TraesCS5B01G304300 chr2D 94.554 202 7 3 526 726 185368815 185369013 3.570000e-80 309.0
41 TraesCS5B01G304300 chr3D 74.742 1358 271 48 1141 2447 614883316 614884652 3.240000e-150 542.0
42 TraesCS5B01G304300 chr3D 88.546 227 14 1 1 215 406772584 406772358 7.840000e-67 265.0
43 TraesCS5B01G304300 chr4A 96.584 322 3 1 413 726 59318328 59318649 9.060000e-146 527.0
44 TraesCS5B01G304300 chr4A 96.573 321 3 1 415 727 58529934 58529614 3.260000e-145 525.0
45 TraesCS5B01G304300 chr4A 96.273 322 4 1 413 726 680563944 680563623 4.210000e-144 521.0
46 TraesCS5B01G304300 chr4A 89.347 291 23 4 209 494 680564187 680563900 3.500000e-95 359.0
47 TraesCS5B01G304300 chr4A 93.750 224 8 1 1 218 59318068 59318291 7.620000e-87 331.0
48 TraesCS5B01G304300 chr4A 92.576 229 8 1 2 221 58530198 58529970 1.650000e-83 320.0
49 TraesCS5B01G304300 chr4A 93.333 165 11 0 209 373 705627901 705627737 1.020000e-60 244.0
50 TraesCS5B01G304300 chr2A 96.273 322 4 1 413 726 164708370 164708691 4.210000e-144 521.0
51 TraesCS5B01G304300 chr2A 95.975 323 5 2 413 727 660516143 660515821 5.450000e-143 518.0
52 TraesCS5B01G304300 chr6A 95.031 322 8 1 413 726 575242075 575241754 1.970000e-137 499.0
53 TraesCS5B01G304300 chr3A 95.031 322 8 1 413 726 634124393 634124072 1.970000e-137 499.0
54 TraesCS5B01G304300 chr3A 92.202 218 11 1 1 212 544969776 544969993 1.660000e-78 303.0
55 TraesCS5B01G304300 chr1D 93.171 205 5 2 530 726 453606473 453606676 3.600000e-75 292.0
56 TraesCS5B01G304300 chr7A 94.545 165 9 0 209 373 23108467 23108631 4.720000e-64 255.0
57 TraesCS5B01G304300 chr7D 92.771 166 11 1 209 373 22650720 22650885 4.750000e-59 239.0
58 TraesCS5B01G304300 chr4B 92.727 165 12 0 209 373 90266738 90266902 4.750000e-59 239.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS5B01G304300 chr5B 488559933 488563615 3682 False 6802.00 6802 100.000000 1 3683 1 chr5B.!!$F1 3682
1 TraesCS5B01G304300 chr5B 520046519 520047827 1308 False 1426.00 1426 86.415000 1140 2454 1 chr5B.!!$F4 1314
2 TraesCS5B01G304300 chr5B 519451324 519452636 1312 False 1356.00 1356 85.392000 1136 2454 1 chr5B.!!$F3 1318
3 TraesCS5B01G304300 chr5B 488602043 488602639 596 False 965.00 965 95.812000 3084 3680 1 chr5B.!!$F2 596
4 TraesCS5B01G304300 chr5B 705897223 705897819 596 False 887.00 887 93.467000 3084 3680 1 chr5B.!!$F7 596
5 TraesCS5B01G304300 chr5D 407517218 407519701 2483 False 1626.50 2920 90.103000 867 3084 2 chr5D.!!$F4 2217
6 TraesCS5B01G304300 chr5D 430164055 430165367 1312 False 1373.00 1373 85.617000 1136 2454 1 chr5D.!!$F1 1318
7 TraesCS5B01G304300 chr5D 430511644 430512952 1308 False 1371.00 1371 85.660000 1140 2454 1 chr5D.!!$F3 1314
8 TraesCS5B01G304300 chr5D 430445541 430446849 1308 False 1365.00 1365 85.585000 1140 2454 1 chr5D.!!$F2 1314
9 TraesCS5B01G304300 chr5A 545984616 545985924 1308 False 1410.00 1410 86.189000 1140 2454 1 chr5A.!!$F4 1314
10 TraesCS5B01G304300 chr5A 546154213 546155521 1308 False 1382.00 1382 85.811000 1140 2454 1 chr5A.!!$F6 1314
11 TraesCS5B01G304300 chr5A 545870664 545871976 1312 False 1378.00 1378 85.693000 1136 2454 1 chr5A.!!$F3 1318
12 TraesCS5B01G304300 chr5A 546146219 546147526 1307 False 1363.00 1363 85.574000 1141 2454 1 chr5A.!!$F5 1313
13 TraesCS5B01G304300 chr5A 512799200 512800777 1577 False 1141.35 2228 93.555500 867 2535 2 chr5A.!!$F7 1668
14 TraesCS5B01G304300 chr3B 158085403 158085999 596 False 920.00 920 94.472000 3084 3680 1 chr3B.!!$F1 596
15 TraesCS5B01G304300 chr3B 725003929 725004526 597 False 891.00 891 93.500000 3084 3683 1 chr3B.!!$F2 599
16 TraesCS5B01G304300 chr1B 449957502 449958101 599 True 920.00 920 94.333000 3084 3683 1 chr1B.!!$R1 599
17 TraesCS5B01G304300 chr7B 525943659 525944256 597 True 891.00 891 93.500000 3084 3683 1 chr7B.!!$R2 599
18 TraesCS5B01G304300 chr7B 577844265 577844862 597 True 869.00 869 92.833000 3084 3683 1 chr7B.!!$R3 599
19 TraesCS5B01G304300 chr7B 712841596 712842946 1350 False 623.00 878 96.091333 1 726 3 chr7B.!!$F2 725
20 TraesCS5B01G304300 chr2B 713530854 713531452 598 False 880.00 880 93.178000 3084 3683 1 chr2B.!!$F1 599
21 TraesCS5B01G304300 chr6B 180940945 180941541 596 True 878.00 878 93.167000 3084 3683 1 chr6B.!!$R2 599
22 TraesCS5B01G304300 chr2D 7995995 7997316 1321 True 782.00 782 77.852000 1141 2447 1 chr2D.!!$R1 1306
23 TraesCS5B01G304300 chr3D 614883316 614884652 1336 False 542.00 542 74.742000 1141 2447 1 chr3D.!!$F1 1306
24 TraesCS5B01G304300 chr4A 680563623 680564187 564 True 440.00 521 92.810000 209 726 2 chr4A.!!$R3 517
25 TraesCS5B01G304300 chr4A 59318068 59318649 581 False 429.00 527 95.167000 1 726 2 chr4A.!!$F1 725
26 TraesCS5B01G304300 chr4A 58529614 58530198 584 True 422.50 525 94.574500 2 727 2 chr4A.!!$R2 725

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
797 1446 0.033504 GCCGGACAGTTGAGACTTGA 59.966 55.0 5.05 0.0 32.54 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2765 3823 0.033366 AACACAAGAATTTGCCGGCC 59.967 50.0 26.77 7.94 37.85 6.13 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
727 1376 5.221843 TGGTACTTCTGTGCAATTTACTCCT 60.222 40.000 0.00 0.00 0.00 3.69
728 1377 6.014070 TGGTACTTCTGTGCAATTTACTCCTA 60.014 38.462 0.00 0.00 0.00 2.94
729 1378 6.877322 GGTACTTCTGTGCAATTTACTCCTAA 59.123 38.462 0.00 0.00 0.00 2.69
730 1379 7.389607 GGTACTTCTGTGCAATTTACTCCTAAA 59.610 37.037 0.00 0.00 0.00 1.85
731 1380 7.203255 ACTTCTGTGCAATTTACTCCTAAAC 57.797 36.000 0.00 0.00 0.00 2.01
732 1381 6.770785 ACTTCTGTGCAATTTACTCCTAAACA 59.229 34.615 0.00 0.00 0.00 2.83
733 1382 7.448469 ACTTCTGTGCAATTTACTCCTAAACAT 59.552 33.333 0.00 0.00 0.00 2.71
734 1383 7.144722 TCTGTGCAATTTACTCCTAAACATG 57.855 36.000 0.00 0.00 0.00 3.21
735 1384 6.714810 TCTGTGCAATTTACTCCTAAACATGT 59.285 34.615 0.00 0.00 0.00 3.21
736 1385 6.676950 TGTGCAATTTACTCCTAAACATGTG 58.323 36.000 0.00 0.00 0.00 3.21
737 1386 6.264292 TGTGCAATTTACTCCTAAACATGTGT 59.736 34.615 0.00 0.00 0.00 3.72
738 1387 7.445707 TGTGCAATTTACTCCTAAACATGTGTA 59.554 33.333 0.00 0.00 0.00 2.90
739 1388 7.749126 GTGCAATTTACTCCTAAACATGTGTAC 59.251 37.037 0.00 0.00 0.00 2.90
740 1389 7.445707 TGCAATTTACTCCTAAACATGTGTACA 59.554 33.333 0.00 0.00 0.00 2.90
741 1390 8.293867 GCAATTTACTCCTAAACATGTGTACAA 58.706 33.333 0.00 0.00 0.00 2.41
742 1391 9.607285 CAATTTACTCCTAAACATGTGTACAAC 57.393 33.333 0.00 0.00 0.00 3.32
743 1392 9.569122 AATTTACTCCTAAACATGTGTACAACT 57.431 29.630 0.00 0.00 0.00 3.16
744 1393 8.967664 TTTACTCCTAAACATGTGTACAACTT 57.032 30.769 0.00 0.00 0.00 2.66
745 1394 6.861065 ACTCCTAAACATGTGTACAACTTG 57.139 37.500 0.00 3.73 39.32 3.16
746 1395 5.238650 ACTCCTAAACATGTGTACAACTTGC 59.761 40.000 0.00 0.00 37.43 4.01
747 1396 5.126779 TCCTAAACATGTGTACAACTTGCA 58.873 37.500 0.00 0.00 37.43 4.08
748 1397 5.590663 TCCTAAACATGTGTACAACTTGCAA 59.409 36.000 0.00 0.00 37.43 4.08
749 1398 6.095580 TCCTAAACATGTGTACAACTTGCAAA 59.904 34.615 0.00 0.00 37.43 3.68
764 1413 4.974591 CTTGCAAAGCCTCATGTACTTAC 58.025 43.478 0.00 0.00 36.98 2.34
765 1414 4.286297 TGCAAAGCCTCATGTACTTACT 57.714 40.909 0.00 0.00 0.00 2.24
766 1415 4.253685 TGCAAAGCCTCATGTACTTACTC 58.746 43.478 0.00 0.00 0.00 2.59
767 1416 3.623510 GCAAAGCCTCATGTACTTACTCC 59.376 47.826 0.00 0.00 0.00 3.85
768 1417 4.624125 GCAAAGCCTCATGTACTTACTCCT 60.624 45.833 0.00 0.00 0.00 3.69
769 1418 5.395324 GCAAAGCCTCATGTACTTACTCCTA 60.395 44.000 0.00 0.00 0.00 2.94
770 1419 5.855740 AAGCCTCATGTACTTACTCCTAC 57.144 43.478 0.00 0.00 0.00 3.18
771 1420 5.132043 AGCCTCATGTACTTACTCCTACT 57.868 43.478 0.00 0.00 0.00 2.57
772 1421 4.890581 AGCCTCATGTACTTACTCCTACTG 59.109 45.833 0.00 0.00 0.00 2.74
773 1422 4.888239 GCCTCATGTACTTACTCCTACTGA 59.112 45.833 0.00 0.00 0.00 3.41
774 1423 5.360144 GCCTCATGTACTTACTCCTACTGAA 59.640 44.000 0.00 0.00 0.00 3.02
775 1424 6.680872 GCCTCATGTACTTACTCCTACTGAAC 60.681 46.154 0.00 0.00 0.00 3.18
776 1425 6.183360 CCTCATGTACTTACTCCTACTGAACC 60.183 46.154 0.00 0.00 0.00 3.62
777 1426 5.356190 TCATGTACTTACTCCTACTGAACCG 59.644 44.000 0.00 0.00 0.00 4.44
778 1427 4.012374 TGTACTTACTCCTACTGAACCGG 58.988 47.826 0.00 0.00 0.00 5.28
779 1428 1.823610 ACTTACTCCTACTGAACCGGC 59.176 52.381 0.00 0.00 0.00 6.13
780 1429 1.136500 CTTACTCCTACTGAACCGGCC 59.864 57.143 0.00 0.00 0.00 6.13
781 1430 1.033746 TACTCCTACTGAACCGGCCG 61.034 60.000 21.04 21.04 0.00 6.13
782 1431 3.072468 TCCTACTGAACCGGCCGG 61.072 66.667 42.17 42.17 42.03 6.13
786 1435 2.558554 CTACTGAACCGGCCGGACAG 62.559 65.000 42.83 42.83 42.97 3.51
792 1441 3.691342 CCGGCCGGACAGTTGAGA 61.691 66.667 41.82 0.00 37.50 3.27
793 1442 2.432628 CGGCCGGACAGTTGAGAC 60.433 66.667 20.10 0.00 0.00 3.36
794 1443 2.932234 CGGCCGGACAGTTGAGACT 61.932 63.158 20.10 0.00 36.25 3.24
795 1444 1.371558 GGCCGGACAGTTGAGACTT 59.628 57.895 5.05 0.00 32.54 3.01
796 1445 0.951040 GGCCGGACAGTTGAGACTTG 60.951 60.000 5.05 0.00 32.54 3.16
797 1446 0.033504 GCCGGACAGTTGAGACTTGA 59.966 55.000 5.05 0.00 32.54 3.02
798 1447 1.937108 GCCGGACAGTTGAGACTTGAG 60.937 57.143 5.05 0.00 32.54 3.02
799 1448 1.613925 CCGGACAGTTGAGACTTGAGA 59.386 52.381 0.00 0.00 32.54 3.27
800 1449 2.352225 CCGGACAGTTGAGACTTGAGAG 60.352 54.545 0.00 0.00 32.54 3.20
801 1450 2.294791 CGGACAGTTGAGACTTGAGAGT 59.705 50.000 0.00 0.00 39.32 3.24
810 1459 2.235238 GACTTGAGAGTCGTGAGTCG 57.765 55.000 6.95 0.00 42.60 4.18
811 1460 1.532007 GACTTGAGAGTCGTGAGTCGT 59.468 52.381 6.95 0.00 42.60 4.34
812 1461 1.264557 ACTTGAGAGTCGTGAGTCGTG 59.735 52.381 0.00 0.00 40.80 4.35
813 1462 1.531578 CTTGAGAGTCGTGAGTCGTGA 59.468 52.381 0.00 0.00 40.80 4.35
814 1463 0.866427 TGAGAGTCGTGAGTCGTGAC 59.134 55.000 6.48 6.48 40.80 3.67
815 1464 0.179245 GAGAGTCGTGAGTCGTGACG 60.179 60.000 0.00 0.00 40.80 4.35
816 1465 0.599466 AGAGTCGTGAGTCGTGACGA 60.599 55.000 2.39 2.39 42.10 4.20
827 1476 2.622546 TCGTGACGACATTTGATCGA 57.377 45.000 2.39 0.00 42.25 3.59
828 1477 2.936316 TCGTGACGACATTTGATCGAA 58.064 42.857 2.39 0.00 42.25 3.71
829 1478 2.659757 TCGTGACGACATTTGATCGAAC 59.340 45.455 2.39 0.00 42.25 3.95
830 1479 2.407026 CGTGACGACATTTGATCGAACA 59.593 45.455 0.00 0.00 42.25 3.18
831 1480 3.718036 CGTGACGACATTTGATCGAACAC 60.718 47.826 0.00 9.55 42.25 3.32
832 1481 2.734606 TGACGACATTTGATCGAACACC 59.265 45.455 0.00 0.00 42.25 4.16
833 1482 2.993899 GACGACATTTGATCGAACACCT 59.006 45.455 0.00 0.00 42.25 4.00
834 1483 3.399330 ACGACATTTGATCGAACACCTT 58.601 40.909 0.00 0.00 42.25 3.50
835 1484 3.432252 ACGACATTTGATCGAACACCTTC 59.568 43.478 0.00 0.00 42.25 3.46
843 1492 3.491581 CGAACACCTTCGCACTACT 57.508 52.632 0.00 0.00 42.72 2.57
844 1493 2.624316 CGAACACCTTCGCACTACTA 57.376 50.000 0.00 0.00 42.72 1.82
845 1494 2.248487 CGAACACCTTCGCACTACTAC 58.752 52.381 0.00 0.00 42.72 2.73
846 1495 2.248487 GAACACCTTCGCACTACTACG 58.752 52.381 0.00 0.00 0.00 3.51
847 1496 1.242076 ACACCTTCGCACTACTACGT 58.758 50.000 0.00 0.00 0.00 3.57
848 1497 2.426522 ACACCTTCGCACTACTACGTA 58.573 47.619 0.00 0.00 0.00 3.57
849 1498 2.417933 ACACCTTCGCACTACTACGTAG 59.582 50.000 20.97 20.97 41.43 3.51
850 1499 2.752144 CCTTCGCACTACTACGTAGG 57.248 55.000 25.63 11.92 40.13 3.18
851 1500 2.283298 CCTTCGCACTACTACGTAGGA 58.717 52.381 25.63 17.52 46.21 2.94
852 1501 2.287373 CCTTCGCACTACTACGTAGGAG 59.713 54.545 29.57 29.57 46.21 3.69
853 1502 1.293924 TCGCACTACTACGTAGGAGC 58.706 55.000 30.80 19.67 40.13 4.70
854 1503 0.307146 CGCACTACTACGTAGGAGCC 59.693 60.000 30.80 21.43 40.13 4.70
855 1504 0.307146 GCACTACTACGTAGGAGCCG 59.693 60.000 30.80 23.34 40.13 5.52
856 1505 1.945387 CACTACTACGTAGGAGCCGA 58.055 55.000 30.80 6.99 40.13 5.54
857 1506 1.865970 CACTACTACGTAGGAGCCGAG 59.134 57.143 30.80 16.44 40.13 4.63
858 1507 1.484240 ACTACTACGTAGGAGCCGAGT 59.516 52.381 30.80 17.25 40.13 4.18
859 1508 2.134346 CTACTACGTAGGAGCCGAGTC 58.866 57.143 21.62 0.00 32.98 3.36
860 1509 0.251354 ACTACGTAGGAGCCGAGTCA 59.749 55.000 25.63 0.00 0.00 3.41
861 1510 1.339438 ACTACGTAGGAGCCGAGTCAA 60.339 52.381 25.63 0.00 0.00 3.18
862 1511 1.741706 CTACGTAGGAGCCGAGTCAAA 59.258 52.381 15.07 0.00 0.00 2.69
863 1512 0.243095 ACGTAGGAGCCGAGTCAAAC 59.757 55.000 0.00 0.00 0.00 2.93
864 1513 0.797249 CGTAGGAGCCGAGTCAAACG 60.797 60.000 0.00 0.00 0.00 3.60
865 1514 0.243095 GTAGGAGCCGAGTCAAACGT 59.757 55.000 0.00 0.00 0.00 3.99
871 1520 1.371267 CCGAGTCAAACGTGCGAGA 60.371 57.895 0.00 0.00 0.00 4.04
903 1552 2.490509 TCAAAAGTCTCAGCCATGCATG 59.509 45.455 20.19 20.19 0.00 4.06
906 1555 0.464013 AGTCTCAGCCATGCATGCTC 60.464 55.000 21.69 14.30 36.81 4.26
911 1560 2.117156 AGCCATGCATGCTCGGAAC 61.117 57.895 24.71 11.34 32.41 3.62
919 1568 3.081061 TGCATGCTCGGAACAGTAATTT 58.919 40.909 20.33 0.00 0.00 1.82
922 1571 4.570772 GCATGCTCGGAACAGTAATTTAGA 59.429 41.667 11.37 0.00 0.00 2.10
929 1578 5.872617 TCGGAACAGTAATTTAGACACATGG 59.127 40.000 0.00 0.00 0.00 3.66
961 1610 4.792521 TTAAATGGGATTTCACCAACCG 57.207 40.909 0.00 0.00 42.17 4.44
974 1623 1.542472 ACCAACCGCTTTAATTTCCCG 59.458 47.619 0.00 0.00 0.00 5.14
975 1624 1.542472 CCAACCGCTTTAATTTCCCGT 59.458 47.619 0.00 0.00 0.00 5.28
976 1625 2.748532 CCAACCGCTTTAATTTCCCGTA 59.251 45.455 0.00 0.00 0.00 4.02
983 1632 3.242316 GCTTTAATTTCCCGTAGTGCTCG 60.242 47.826 0.00 0.00 0.00 5.03
1038 1691 1.673760 CACCATCAAACGAGCAAACG 58.326 50.000 0.00 0.00 39.31 3.60
1042 1695 2.412325 CCATCAAACGAGCAAACGGTAC 60.412 50.000 0.00 0.00 37.61 3.34
1043 1696 1.937278 TCAAACGAGCAAACGGTACA 58.063 45.000 0.00 0.00 37.61 2.90
1044 1697 2.485903 TCAAACGAGCAAACGGTACAT 58.514 42.857 0.00 0.00 37.61 2.29
1057 1710 1.533625 GGTACATCAGGCAGCACAAA 58.466 50.000 0.00 0.00 0.00 2.83
1101 1754 2.594119 AAACTCCTCGTCGCCGATCG 62.594 60.000 8.51 8.51 43.27 3.69
1102 1755 3.270092 CTCCTCGTCGCCGATCGA 61.270 66.667 18.66 10.40 46.29 3.59
1109 1762 2.508439 TCGCCGATCGAACTTGGC 60.508 61.111 18.66 9.27 45.36 4.52
1126 1779 3.753434 CTGCACGGAGCTCGACCT 61.753 66.667 7.83 0.00 45.94 3.85
1127 1780 3.691744 CTGCACGGAGCTCGACCTC 62.692 68.421 7.83 0.00 45.94 3.85
1131 1784 2.895865 CGGAGCTCGACCTCGCTA 60.896 66.667 7.83 0.00 42.43 4.26
1320 1993 2.735772 GCCATCGAGAAGGGCCTCA 61.736 63.158 6.46 0.00 41.90 3.86
1622 2313 1.003839 CGCCACCAGCAACTTCCTA 60.004 57.895 0.00 0.00 44.04 2.94
1701 2398 2.759985 AAGGACCTCTTCAAGCCGA 58.240 52.632 0.00 0.00 0.00 5.54
2165 2899 1.275573 GCCTACTTCCAGTCCTTCGTT 59.724 52.381 0.00 0.00 0.00 3.85
2474 3220 2.797837 CCATGCATGAATGGTCGGT 58.202 52.632 28.31 0.00 41.98 4.69
2481 3239 1.522676 CATGAATGGTCGGTCGAATCG 59.477 52.381 0.00 0.00 0.00 3.34
2497 3255 1.358725 ATCGACCGGTGCAATGAACG 61.359 55.000 14.63 6.80 0.00 3.95
2515 3274 4.446385 TGAACGAGAAAGAATGTTACCGTG 59.554 41.667 0.00 0.00 0.00 4.94
2535 3294 0.863538 CGTGCGAGAGAGATGGAACG 60.864 60.000 0.00 0.00 0.00 3.95
2540 3299 1.746220 CGAGAGAGATGGAACGGAACT 59.254 52.381 0.00 0.00 0.00 3.01
2551 3310 0.031994 AACGGAACTGCATGCCAAAC 59.968 50.000 16.68 4.39 0.00 2.93
2592 3351 1.131303 TTGGTGAGGGGTGGTCGAAT 61.131 55.000 0.00 0.00 0.00 3.34
2593 3352 1.131303 TGGTGAGGGGTGGTCGAATT 61.131 55.000 0.00 0.00 0.00 2.17
2644 3403 2.577059 GTGGCGTCCTCCGATTGA 59.423 61.111 0.00 0.00 39.56 2.57
2718 3477 7.386059 TGGATTTTCTTAATCTTCCTTTTGGC 58.614 34.615 0.00 0.00 40.12 4.52
2740 3499 0.536006 GCTCCAGTGCACCTTTGAGT 60.536 55.000 14.63 0.00 0.00 3.41
2741 3500 1.270839 GCTCCAGTGCACCTTTGAGTA 60.271 52.381 14.63 0.00 0.00 2.59
2742 3501 2.693069 CTCCAGTGCACCTTTGAGTAG 58.307 52.381 14.63 0.79 0.00 2.57
2743 3502 1.160137 CCAGTGCACCTTTGAGTAGC 58.840 55.000 14.63 0.00 0.00 3.58
2744 3503 1.543208 CCAGTGCACCTTTGAGTAGCA 60.543 52.381 14.63 0.00 0.00 3.49
2765 3823 2.427575 CATCTCGCGATCGGACCG 60.428 66.667 18.30 7.84 36.13 4.79
2766 3824 3.661131 ATCTCGCGATCGGACCGG 61.661 66.667 18.30 0.00 36.13 5.28
2791 3849 3.547214 GGCAAATTCTTGTGTTTCGTCGA 60.547 43.478 0.00 0.00 34.79 4.20
2794 3852 5.263185 CAAATTCTTGTGTTTCGTCGAGTT 58.737 37.500 0.00 0.00 0.00 3.01
2801 3859 3.246699 TGTGTTTCGTCGAGTTTTGATCC 59.753 43.478 0.00 0.00 0.00 3.36
2806 3864 5.885230 TTCGTCGAGTTTTGATCCTAGTA 57.115 39.130 0.00 0.00 0.00 1.82
2809 3867 6.108687 TCGTCGAGTTTTGATCCTAGTACTA 58.891 40.000 1.89 1.89 0.00 1.82
2810 3868 6.257411 TCGTCGAGTTTTGATCCTAGTACTAG 59.743 42.308 21.11 21.11 0.00 2.57
2814 3872 8.263640 TCGAGTTTTGATCCTAGTACTAGTAGT 58.736 37.037 24.84 14.57 0.00 2.73
2825 3883 5.620738 AGTACTAGTAGTGATCCCGTACA 57.379 43.478 13.29 0.00 0.00 2.90
2830 3888 1.479323 GTAGTGATCCCGTACAAGCCA 59.521 52.381 0.00 0.00 0.00 4.75
2887 3945 3.748048 GTCAATGTGTGCAGTGTAGACAT 59.252 43.478 16.65 16.65 41.04 3.06
2888 3946 3.747529 TCAATGTGTGCAGTGTAGACATG 59.252 43.478 21.72 15.90 41.04 3.21
2889 3947 3.683365 ATGTGTGCAGTGTAGACATGA 57.317 42.857 20.63 0.00 31.69 3.07
2898 3957 8.515414 TGTGCAGTGTAGACATGATAGTATATC 58.485 37.037 0.00 0.00 0.00 1.63
2910 3969 7.898100 ACATGATAGTATATCTGTCCACTGGAT 59.102 37.037 0.00 0.00 34.10 3.41
2918 3977 0.530744 TGTCCACTGGATGTAGCGTC 59.469 55.000 0.00 0.00 32.73 5.19
2920 3979 0.613572 TCCACTGGATGTAGCGTCCA 60.614 55.000 9.42 9.42 46.01 4.02
2956 4015 1.300697 GCACGACCCAAGACTCGTT 60.301 57.895 0.00 0.00 41.13 3.85
2957 4016 1.557443 GCACGACCCAAGACTCGTTG 61.557 60.000 0.00 0.00 41.13 4.10
2958 4017 0.249322 CACGACCCAAGACTCGTTGT 60.249 55.000 0.00 0.00 41.13 3.32
2960 4019 0.944311 CGACCCAAGACTCGTTGTGG 60.944 60.000 0.00 0.00 0.00 4.17
2961 4020 0.391597 GACCCAAGACTCGTTGTGGA 59.608 55.000 0.00 0.00 32.54 4.02
2962 4021 0.106149 ACCCAAGACTCGTTGTGGAC 59.894 55.000 0.00 0.00 32.54 4.02
2999 4058 1.421268 ACTCACAAGATCCAACCAGCA 59.579 47.619 0.00 0.00 0.00 4.41
3016 4075 4.079787 ACCAGCACCAACCATATCATACTT 60.080 41.667 0.00 0.00 0.00 2.24
3020 4079 6.992123 CAGCACCAACCATATCATACTTCTAA 59.008 38.462 0.00 0.00 0.00 2.10
3022 4081 8.052748 AGCACCAACCATATCATACTTCTAAAA 58.947 33.333 0.00 0.00 0.00 1.52
3023 4082 8.682710 GCACCAACCATATCATACTTCTAAAAA 58.317 33.333 0.00 0.00 0.00 1.94
3051 4114 0.534652 GCCTAGCAGCCAGGAATCTG 60.535 60.000 11.67 0.00 40.59 2.90
3069 4132 2.508663 GCGCAGACCCGTCCTAAC 60.509 66.667 0.30 0.00 0.00 2.34
3079 4142 3.384532 GTCCTAACGCCGGGGTCA 61.385 66.667 25.87 10.00 0.00 4.02
3080 4143 3.384532 TCCTAACGCCGGGGTCAC 61.385 66.667 25.87 0.00 0.00 3.67
3081 4144 3.697747 CCTAACGCCGGGGTCACA 61.698 66.667 25.87 12.09 0.00 3.58
3082 4145 2.582436 CTAACGCCGGGGTCACAT 59.418 61.111 25.87 11.83 0.00 3.21
3138 4201 0.759346 AGAAGAACGCACTCACCCTT 59.241 50.000 0.00 0.00 0.00 3.95
3141 4204 0.318762 AGAACGCACTCACCCTTCTC 59.681 55.000 0.00 0.00 0.00 2.87
3153 4216 2.046507 CTTCTCAGGCTGCGGCTT 60.047 61.111 18.85 6.98 35.88 4.35
3443 4506 2.396157 AAACGCGGCGGAGAAATCC 61.396 57.895 27.37 0.00 0.00 3.01
3492 4558 0.033405 TGTTGAAAAACCCCCGTCCA 60.033 50.000 0.00 0.00 0.00 4.02
3506 4572 3.495753 CCCCGTCCAACGCTTTATATAAC 59.504 47.826 0.00 0.00 40.91 1.89
3564 4630 1.737793 CCTGTCAAATCCCGTAACAGC 59.262 52.381 0.00 0.00 36.79 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
727 1376 5.746245 GCTTTGCAAGTTGTACACATGTTTA 59.254 36.000 4.48 0.00 0.00 2.01
728 1377 4.566360 GCTTTGCAAGTTGTACACATGTTT 59.434 37.500 4.48 0.00 0.00 2.83
729 1378 4.111916 GCTTTGCAAGTTGTACACATGTT 58.888 39.130 4.48 0.00 0.00 2.71
730 1379 3.490761 GGCTTTGCAAGTTGTACACATGT 60.491 43.478 4.48 0.00 0.00 3.21
731 1380 3.052036 GGCTTTGCAAGTTGTACACATG 58.948 45.455 4.48 0.00 0.00 3.21
732 1381 2.958355 AGGCTTTGCAAGTTGTACACAT 59.042 40.909 4.48 0.00 0.00 3.21
733 1382 2.357637 GAGGCTTTGCAAGTTGTACACA 59.642 45.455 4.48 0.00 0.00 3.72
734 1383 2.357637 TGAGGCTTTGCAAGTTGTACAC 59.642 45.455 4.48 0.00 0.00 2.90
735 1384 2.649190 TGAGGCTTTGCAAGTTGTACA 58.351 42.857 4.48 0.00 0.00 2.90
736 1385 3.004734 ACATGAGGCTTTGCAAGTTGTAC 59.995 43.478 0.00 0.00 0.00 2.90
737 1386 3.221771 ACATGAGGCTTTGCAAGTTGTA 58.778 40.909 0.00 0.00 0.00 2.41
738 1387 2.034124 ACATGAGGCTTTGCAAGTTGT 58.966 42.857 0.00 0.00 0.00 3.32
739 1388 2.806608 ACATGAGGCTTTGCAAGTTG 57.193 45.000 0.00 0.00 0.00 3.16
740 1389 3.490348 AGTACATGAGGCTTTGCAAGTT 58.510 40.909 0.00 0.00 0.00 2.66
741 1390 3.146104 AGTACATGAGGCTTTGCAAGT 57.854 42.857 0.00 0.00 0.00 3.16
742 1391 4.697352 AGTAAGTACATGAGGCTTTGCAAG 59.303 41.667 0.00 0.00 0.00 4.01
743 1392 4.651778 AGTAAGTACATGAGGCTTTGCAA 58.348 39.130 0.00 0.00 0.00 4.08
744 1393 4.253685 GAGTAAGTACATGAGGCTTTGCA 58.746 43.478 0.00 0.00 0.00 4.08
745 1394 3.623510 GGAGTAAGTACATGAGGCTTTGC 59.376 47.826 0.00 0.00 0.00 3.68
746 1395 5.091261 AGGAGTAAGTACATGAGGCTTTG 57.909 43.478 0.00 0.00 0.00 2.77
747 1396 5.958987 AGTAGGAGTAAGTACATGAGGCTTT 59.041 40.000 0.00 0.00 0.00 3.51
748 1397 5.361285 CAGTAGGAGTAAGTACATGAGGCTT 59.639 44.000 0.00 3.14 0.00 4.35
749 1398 4.890581 CAGTAGGAGTAAGTACATGAGGCT 59.109 45.833 0.00 0.00 0.00 4.58
750 1399 4.888239 TCAGTAGGAGTAAGTACATGAGGC 59.112 45.833 0.00 0.00 0.00 4.70
751 1400 6.183360 GGTTCAGTAGGAGTAAGTACATGAGG 60.183 46.154 0.00 0.00 0.00 3.86
752 1401 6.458478 CGGTTCAGTAGGAGTAAGTACATGAG 60.458 46.154 0.00 0.00 0.00 2.90
753 1402 5.356190 CGGTTCAGTAGGAGTAAGTACATGA 59.644 44.000 0.00 0.00 0.00 3.07
754 1403 5.450137 CCGGTTCAGTAGGAGTAAGTACATG 60.450 48.000 0.00 0.00 0.00 3.21
755 1404 4.643784 CCGGTTCAGTAGGAGTAAGTACAT 59.356 45.833 0.00 0.00 0.00 2.29
756 1405 4.012374 CCGGTTCAGTAGGAGTAAGTACA 58.988 47.826 0.00 0.00 0.00 2.90
757 1406 3.181492 GCCGGTTCAGTAGGAGTAAGTAC 60.181 52.174 1.90 0.00 0.00 2.73
758 1407 3.019564 GCCGGTTCAGTAGGAGTAAGTA 58.980 50.000 1.90 0.00 0.00 2.24
759 1408 1.823610 GCCGGTTCAGTAGGAGTAAGT 59.176 52.381 1.90 0.00 0.00 2.24
760 1409 1.136500 GGCCGGTTCAGTAGGAGTAAG 59.864 57.143 1.90 0.00 0.00 2.34
761 1410 1.188863 GGCCGGTTCAGTAGGAGTAA 58.811 55.000 1.90 0.00 0.00 2.24
762 1411 1.033746 CGGCCGGTTCAGTAGGAGTA 61.034 60.000 20.10 0.00 0.00 2.59
763 1412 2.348888 CGGCCGGTTCAGTAGGAGT 61.349 63.158 20.10 0.00 0.00 3.85
764 1413 2.494918 CGGCCGGTTCAGTAGGAG 59.505 66.667 20.10 0.00 0.00 3.69
765 1414 3.072468 CCGGCCGGTTCAGTAGGA 61.072 66.667 36.64 0.00 0.00 2.94
766 1415 3.072468 TCCGGCCGGTTCAGTAGG 61.072 66.667 41.57 15.10 36.47 3.18
767 1416 2.183555 GTCCGGCCGGTTCAGTAG 59.816 66.667 41.57 15.89 36.47 2.57
768 1417 2.601067 TGTCCGGCCGGTTCAGTA 60.601 61.111 41.57 21.04 36.47 2.74
769 1418 4.003788 CTGTCCGGCCGGTTCAGT 62.004 66.667 38.11 0.00 35.49 3.41
770 1419 3.530910 AACTGTCCGGCCGGTTCAG 62.531 63.158 41.10 41.10 40.71 3.02
771 1420 3.552384 AACTGTCCGGCCGGTTCA 61.552 61.111 41.57 35.10 36.47 3.18
772 1421 3.047877 CAACTGTCCGGCCGGTTC 61.048 66.667 41.57 32.84 31.59 3.62
773 1422 3.530910 CTCAACTGTCCGGCCGGTT 62.531 63.158 41.57 26.89 34.25 4.44
774 1423 4.003788 CTCAACTGTCCGGCCGGT 62.004 66.667 41.57 22.30 36.47 5.28
775 1424 3.691342 TCTCAACTGTCCGGCCGG 61.691 66.667 39.13 39.13 0.00 6.13
776 1425 2.432628 GTCTCAACTGTCCGGCCG 60.433 66.667 21.04 21.04 0.00 6.13
777 1426 0.951040 CAAGTCTCAACTGTCCGGCC 60.951 60.000 0.00 0.00 35.36 6.13
778 1427 0.033504 TCAAGTCTCAACTGTCCGGC 59.966 55.000 0.00 0.00 35.36 6.13
779 1428 1.613925 TCTCAAGTCTCAACTGTCCGG 59.386 52.381 0.00 0.00 35.36 5.14
780 1429 2.294791 ACTCTCAAGTCTCAACTGTCCG 59.705 50.000 0.00 0.00 35.36 4.79
792 1441 1.264557 CACGACTCACGACTCTCAAGT 59.735 52.381 0.00 0.00 45.77 3.16
793 1442 1.531578 TCACGACTCACGACTCTCAAG 59.468 52.381 0.00 0.00 45.77 3.02
794 1443 1.263484 GTCACGACTCACGACTCTCAA 59.737 52.381 0.00 0.00 45.77 3.02
795 1444 0.866427 GTCACGACTCACGACTCTCA 59.134 55.000 0.00 0.00 45.77 3.27
796 1445 0.179245 CGTCACGACTCACGACTCTC 60.179 60.000 0.00 0.00 45.77 3.20
797 1446 0.599466 TCGTCACGACTCACGACTCT 60.599 55.000 0.00 0.00 45.77 3.24
798 1447 1.858041 TCGTCACGACTCACGACTC 59.142 57.895 0.00 0.00 45.77 3.36
799 1448 4.038521 TCGTCACGACTCACGACT 57.961 55.556 0.00 0.00 45.77 4.18
808 1457 2.622546 TCGATCAAATGTCGTCACGA 57.377 45.000 0.00 0.00 39.91 4.35
809 1458 2.407026 TGTTCGATCAAATGTCGTCACG 59.593 45.455 0.00 0.00 39.91 4.35
810 1459 3.423123 GGTGTTCGATCAAATGTCGTCAC 60.423 47.826 0.00 13.31 40.37 3.67
811 1460 2.734606 GGTGTTCGATCAAATGTCGTCA 59.265 45.455 0.00 0.00 39.91 4.35
812 1461 2.993899 AGGTGTTCGATCAAATGTCGTC 59.006 45.455 0.00 0.00 39.91 4.20
813 1462 3.040147 AGGTGTTCGATCAAATGTCGT 57.960 42.857 0.00 0.00 39.91 4.34
814 1463 3.991069 GAAGGTGTTCGATCAAATGTCG 58.009 45.455 0.00 0.00 40.30 4.35
826 1475 2.248487 CGTAGTAGTGCGAAGGTGTTC 58.752 52.381 1.31 0.00 32.81 3.18
827 1476 1.610522 ACGTAGTAGTGCGAAGGTGTT 59.389 47.619 15.27 0.00 41.94 3.32
828 1477 1.242076 ACGTAGTAGTGCGAAGGTGT 58.758 50.000 15.27 0.00 41.94 4.16
840 1489 1.482182 TGACTCGGCTCCTACGTAGTA 59.518 52.381 20.73 4.64 45.11 1.82
842 1491 1.376543 TTGACTCGGCTCCTACGTAG 58.623 55.000 15.92 15.92 0.00 3.51
843 1492 1.470098 GTTTGACTCGGCTCCTACGTA 59.530 52.381 0.00 0.00 0.00 3.57
844 1493 0.243095 GTTTGACTCGGCTCCTACGT 59.757 55.000 0.00 0.00 0.00 3.57
845 1494 0.797249 CGTTTGACTCGGCTCCTACG 60.797 60.000 0.00 0.00 0.00 3.51
846 1495 0.243095 ACGTTTGACTCGGCTCCTAC 59.757 55.000 0.00 0.00 0.00 3.18
847 1496 0.242825 CACGTTTGACTCGGCTCCTA 59.757 55.000 0.00 0.00 0.00 2.94
848 1497 1.006102 CACGTTTGACTCGGCTCCT 60.006 57.895 0.00 0.00 0.00 3.69
849 1498 2.668280 GCACGTTTGACTCGGCTCC 61.668 63.158 0.00 0.00 0.00 4.70
850 1499 2.853914 GCACGTTTGACTCGGCTC 59.146 61.111 0.00 0.00 0.00 4.70
851 1500 3.036084 CGCACGTTTGACTCGGCT 61.036 61.111 0.00 0.00 0.00 5.52
852 1501 3.000080 CTCGCACGTTTGACTCGGC 62.000 63.158 0.00 0.00 0.00 5.54
853 1502 1.337817 CTCTCGCACGTTTGACTCGG 61.338 60.000 0.00 0.00 0.00 4.63
854 1503 1.337817 CCTCTCGCACGTTTGACTCG 61.338 60.000 0.00 0.00 0.00 4.18
855 1504 1.618640 GCCTCTCGCACGTTTGACTC 61.619 60.000 0.00 0.00 37.47 3.36
856 1505 1.664965 GCCTCTCGCACGTTTGACT 60.665 57.895 0.00 0.00 37.47 3.41
857 1506 2.853914 GCCTCTCGCACGTTTGAC 59.146 61.111 0.00 0.00 37.47 3.18
858 1507 2.733218 CGCCTCTCGCACGTTTGA 60.733 61.111 0.00 0.00 37.30 2.69
859 1508 3.777925 CCGCCTCTCGCACGTTTG 61.778 66.667 0.00 0.00 37.30 2.93
903 1552 4.927425 TGTGTCTAAATTACTGTTCCGAGC 59.073 41.667 0.00 0.00 0.00 5.03
906 1555 5.872617 TCCATGTGTCTAAATTACTGTTCCG 59.127 40.000 0.00 0.00 0.00 4.30
911 1560 8.099364 ACTTGTTCCATGTGTCTAAATTACTG 57.901 34.615 0.00 0.00 0.00 2.74
919 1568 7.867305 TTAAACAACTTGTTCCATGTGTCTA 57.133 32.000 7.62 0.00 40.14 2.59
922 1571 6.760770 CCATTTAAACAACTTGTTCCATGTGT 59.239 34.615 7.62 0.00 40.14 3.72
929 1578 8.547894 GTGAAATCCCATTTAAACAACTTGTTC 58.452 33.333 7.62 0.00 34.21 3.18
961 1610 3.242316 CGAGCACTACGGGAAATTAAAGC 60.242 47.826 0.00 0.00 0.00 3.51
974 1623 0.729116 TACGTAGTGGCGAGCACTAC 59.271 55.000 17.13 17.13 46.82 2.73
975 1624 0.729116 GTACGTAGTGGCGAGCACTA 59.271 55.000 0.00 0.00 45.73 2.74
976 1625 1.505353 GTACGTAGTGGCGAGCACT 59.495 57.895 0.00 0.00 45.73 4.40
1038 1691 1.200020 GTTTGTGCTGCCTGATGTACC 59.800 52.381 0.00 0.00 0.00 3.34
1042 1695 2.333926 CAATGTTTGTGCTGCCTGATG 58.666 47.619 0.00 0.00 0.00 3.07
1043 1696 1.337447 GCAATGTTTGTGCTGCCTGAT 60.337 47.619 0.00 0.00 39.00 2.90
1044 1697 0.032403 GCAATGTTTGTGCTGCCTGA 59.968 50.000 0.00 0.00 39.00 3.86
1057 1710 0.179073 CTAGGTAGCTGCCGCAATGT 60.179 55.000 15.76 0.00 39.10 2.71
1078 1731 1.668151 GGCGACGAGGAGTTTGCTT 60.668 57.895 0.00 0.00 35.63 3.91
1101 1754 2.970974 GCTCCGTGCAGCCAAGTTC 61.971 63.158 0.00 0.00 42.31 3.01
1102 1755 2.980233 GCTCCGTGCAGCCAAGTT 60.980 61.111 0.00 0.00 42.31 2.66
1109 1762 3.691744 GAGGTCGAGCTCCGTGCAG 62.692 68.421 29.89 0.00 45.94 4.41
1212 1879 1.553690 AAGACGGACAGGGGGATGTG 61.554 60.000 0.00 0.00 32.25 3.21
1779 2491 4.796495 GTCCCCGTGATGGTGGCC 62.796 72.222 0.00 0.00 35.15 5.36
2474 3220 1.081556 CATTGCACCGGTCGATTCGA 61.082 55.000 2.59 4.29 0.00 3.71
2481 3239 0.669318 TCTCGTTCATTGCACCGGTC 60.669 55.000 2.59 0.00 0.00 4.79
2497 3255 2.735134 ACGCACGGTAACATTCTTTCTC 59.265 45.455 0.00 0.00 0.00 2.87
2515 3274 1.139734 TTCCATCTCTCTCGCACGC 59.860 57.895 0.00 0.00 0.00 5.34
2535 3294 1.080569 CGGTTTGGCATGCAGTTCC 60.081 57.895 21.36 14.56 0.00 3.62
2644 3403 7.226720 GGGCATATAAATAACCAATCGATCGAT 59.773 37.037 24.60 24.60 36.23 3.59
2663 3422 3.838244 TTAACTTCGAGCAGGGCATAT 57.162 42.857 0.00 0.00 0.00 1.78
2664 3423 3.838244 ATTAACTTCGAGCAGGGCATA 57.162 42.857 0.00 0.00 0.00 3.14
2665 3424 2.717639 ATTAACTTCGAGCAGGGCAT 57.282 45.000 0.00 0.00 0.00 4.40
2765 3823 0.033366 AACACAAGAATTTGCCGGCC 59.967 50.000 26.77 7.94 37.85 6.13
2766 3824 1.792367 GAAACACAAGAATTTGCCGGC 59.208 47.619 22.73 22.73 37.85 6.13
2767 3825 2.050691 CGAAACACAAGAATTTGCCGG 58.949 47.619 0.00 0.00 37.85 6.13
2768 3826 2.719046 GACGAAACACAAGAATTTGCCG 59.281 45.455 0.00 0.00 37.85 5.69
2769 3827 2.719046 CGACGAAACACAAGAATTTGCC 59.281 45.455 0.00 0.00 37.85 4.52
2773 3831 5.479716 AAACTCGACGAAACACAAGAATT 57.520 34.783 0.00 0.00 0.00 2.17
2791 3849 9.924010 ATCACTACTAGTACTAGGATCAAAACT 57.076 33.333 29.05 11.00 37.49 2.66
2794 3852 7.943447 GGGATCACTACTAGTACTAGGATCAAA 59.057 40.741 28.91 16.36 37.49 2.69
2801 3859 6.753180 TGTACGGGATCACTACTAGTACTAG 58.247 44.000 25.30 25.30 39.04 2.57
2806 3864 3.631227 GCTTGTACGGGATCACTACTAGT 59.369 47.826 0.00 0.00 0.00 2.57
2809 3867 1.755380 GGCTTGTACGGGATCACTACT 59.245 52.381 0.00 0.00 0.00 2.57
2810 3868 1.479323 TGGCTTGTACGGGATCACTAC 59.521 52.381 0.00 0.00 0.00 2.73
2814 3872 0.249120 CACTGGCTTGTACGGGATCA 59.751 55.000 0.00 0.00 0.00 2.92
2856 3914 1.762419 CACACATTGACTGCAACTGC 58.238 50.000 0.00 0.00 36.72 4.40
2857 3915 1.065851 TGCACACATTGACTGCAACTG 59.934 47.619 9.57 0.00 37.97 3.16
2858 3916 1.335810 CTGCACACATTGACTGCAACT 59.664 47.619 12.07 0.00 40.33 3.16
2859 3917 1.066002 ACTGCACACATTGACTGCAAC 59.934 47.619 12.07 0.00 40.33 4.17
2860 3918 1.065851 CACTGCACACATTGACTGCAA 59.934 47.619 12.07 0.00 40.33 4.08
2887 3945 7.241628 ACATCCAGTGGACAGATATACTATCA 58.758 38.462 15.86 0.00 32.98 2.15
2888 3946 7.710676 ACATCCAGTGGACAGATATACTATC 57.289 40.000 15.86 0.00 32.98 2.08
2889 3947 7.340743 GCTACATCCAGTGGACAGATATACTAT 59.659 40.741 15.86 0.00 32.98 2.12
2898 3957 0.532573 ACGCTACATCCAGTGGACAG 59.467 55.000 15.86 12.97 32.98 3.51
2910 3969 1.734377 CGTAACATGCTGGACGCTACA 60.734 52.381 0.00 0.00 40.11 2.74
2918 3977 1.398041 CATGGTCACGTAACATGCTGG 59.602 52.381 11.66 0.00 36.03 4.85
2956 4015 2.389809 CGACATGCATGCGTCCACA 61.390 57.895 26.53 0.00 0.00 4.17
2957 4016 2.400798 CGACATGCATGCGTCCAC 59.599 61.111 26.53 9.92 0.00 4.02
2958 4017 3.498834 GCGACATGCATGCGTCCA 61.499 61.111 30.17 0.00 45.45 4.02
2964 4023 3.444717 GAGTGGCGCGACATGCATG 62.445 63.158 22.20 25.09 46.97 4.06
2965 4024 3.197790 GAGTGGCGCGACATGCAT 61.198 61.111 22.20 4.40 46.97 3.96
2966 4025 4.678499 TGAGTGGCGCGACATGCA 62.678 61.111 22.20 17.60 46.97 3.96
2999 4058 9.185680 GGTTTTTAGAAGTATGATATGGTTGGT 57.814 33.333 0.00 0.00 0.00 3.67
3016 4075 3.687698 GCTAGGCGTTGATGGTTTTTAGA 59.312 43.478 0.00 0.00 0.00 2.10
3020 4079 1.812571 CTGCTAGGCGTTGATGGTTTT 59.187 47.619 0.00 0.00 0.00 2.43
3022 4081 1.026718 GCTGCTAGGCGTTGATGGTT 61.027 55.000 0.00 0.00 0.00 3.67
3023 4082 1.450312 GCTGCTAGGCGTTGATGGT 60.450 57.895 0.00 0.00 0.00 3.55
3024 4083 2.182842 GGCTGCTAGGCGTTGATGG 61.183 63.158 0.00 0.00 0.00 3.51
3051 4114 3.766691 TTAGGACGGGTCTGCGCC 61.767 66.667 4.18 0.00 0.00 6.53
3075 4138 1.926511 CTCTTTGCCGCCATGTGACC 61.927 60.000 0.00 0.00 0.00 4.02
3077 4140 0.250684 TTCTCTTTGCCGCCATGTGA 60.251 50.000 0.00 0.00 0.00 3.58
3079 4142 1.244019 GGTTCTCTTTGCCGCCATGT 61.244 55.000 0.00 0.00 0.00 3.21
3080 4143 1.508088 GGTTCTCTTTGCCGCCATG 59.492 57.895 0.00 0.00 0.00 3.66
3081 4144 1.678970 GGGTTCTCTTTGCCGCCAT 60.679 57.895 0.00 0.00 0.00 4.40
3082 4145 2.282180 GGGTTCTCTTTGCCGCCA 60.282 61.111 0.00 0.00 0.00 5.69
3117 4180 0.033504 GGGTGAGTGCGTTCTTCTGA 59.966 55.000 0.00 0.00 0.00 3.27
3138 4201 2.359107 CAAAGCCGCAGCCTGAGA 60.359 61.111 0.00 0.00 41.25 3.27
3141 4204 2.670934 AGTCAAAGCCGCAGCCTG 60.671 61.111 0.00 0.00 41.25 4.85
3443 4506 1.139853 CATTTCCCCCTCTCTTCTCCG 59.860 57.143 0.00 0.00 0.00 4.63
3492 4558 4.025145 GGAAGCAGCGTTATATAAAGCGTT 60.025 41.667 22.25 17.78 43.76 4.84
3506 4572 4.749310 AGCCACTCGGAAGCAGCG 62.749 66.667 0.00 0.00 0.00 5.18
3611 4677 2.111251 GACGGGATAAGGCAGGGC 59.889 66.667 0.00 0.00 0.00 5.19


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

AutoCloner maintained by Alex Coulton.