Multiple sequence alignment - TraesCS7B01G299000

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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 TraesCS7B01G299000 chr7B 100.000 4782 0 0 1 4782 535821557 535826338 0.000000e+00 8831
1 TraesCS7B01G299000 chr7D 92.764 4837 224 48 23 4782 507419301 507424088 0.000000e+00 6878
2 TraesCS7B01G299000 chr7A 93.496 4213 185 45 614 4782 577222660 577226827 0.000000e+00 6180
3 TraesCS7B01G299000 chr7A 91.810 525 32 11 1558 2075 93143659 93144179 0.000000e+00 721
4 TraesCS7B01G299000 chr7A 91.489 517 34 10 1565 2075 373293181 373292669 0.000000e+00 702
5 TraesCS7B01G299000 chr7A 88.571 350 20 8 1192 1524 373293529 373293183 1.600000e-109 407
6 TraesCS7B01G299000 chr7A 87.644 348 22 8 1192 1519 93143313 93143659 7.510000e-103 385
7 TraesCS7B01G299000 chr7A 96.721 61 2 0 2015 2075 94036296 94036356 8.470000e-18 102
8 TraesCS7B01G299000 chr4A 91.396 523 35 10 1559 2075 535417223 535417741 0.000000e+00 708
9 TraesCS7B01G299000 chr4A 90.909 330 24 5 1192 1517 613941632 613941959 5.680000e-119 438
10 TraesCS7B01G299000 chr4A 86.167 347 26 6 1192 1518 535416877 535417221 5.890000e-94 355
11 TraesCS7B01G299000 chr1A 91.396 523 36 9 1558 2075 465397066 465396548 0.000000e+00 708
12 TraesCS7B01G299000 chr1A 90.458 524 37 11 1558 2075 5950451 5950967 0.000000e+00 678
13 TraesCS7B01G299000 chr1A 88.506 348 19 8 1192 1519 5950105 5950451 7.450000e-108 401
14 TraesCS7B01G299000 chr1A 87.320 347 23 8 1193 1519 465397411 465397066 1.260000e-100 377
15 TraesCS7B01G299000 chr2A 91.221 524 36 10 1558 2075 736867100 736866581 0.000000e+00 704
16 TraesCS7B01G299000 chr3A 88.439 346 19 8 1192 1517 681734633 681734977 9.640000e-107 398
17 TraesCS7B01G299000 chr3A 88.514 296 25 8 1558 1847 681734979 681735271 2.740000e-92 350


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 TraesCS7B01G299000 chr7B 535821557 535826338 4781 False 8831.0 8831 100.0000 1 4782 1 chr7B.!!$F1 4781
1 TraesCS7B01G299000 chr7D 507419301 507424088 4787 False 6878.0 6878 92.7640 23 4782 1 chr7D.!!$F1 4759
2 TraesCS7B01G299000 chr7A 577222660 577226827 4167 False 6180.0 6180 93.4960 614 4782 1 chr7A.!!$F2 4168
3 TraesCS7B01G299000 chr7A 373292669 373293529 860 True 554.5 702 90.0300 1192 2075 2 chr7A.!!$R1 883
4 TraesCS7B01G299000 chr7A 93143313 93144179 866 False 553.0 721 89.7270 1192 2075 2 chr7A.!!$F3 883
5 TraesCS7B01G299000 chr4A 535416877 535417741 864 False 531.5 708 88.7815 1192 2075 2 chr4A.!!$F2 883
6 TraesCS7B01G299000 chr1A 465396548 465397411 863 True 542.5 708 89.3580 1193 2075 2 chr1A.!!$R1 882
7 TraesCS7B01G299000 chr1A 5950105 5950967 862 False 539.5 678 89.4820 1192 2075 2 chr1A.!!$F1 883
8 TraesCS7B01G299000 chr2A 736866581 736867100 519 True 704.0 704 91.2210 1558 2075 1 chr2A.!!$R1 517
9 TraesCS7B01G299000 chr3A 681734633 681735271 638 False 374.0 398 88.4765 1192 1847 2 chr3A.!!$F1 655

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
113 115 0.037303 CTCATTGGTGCTGGTGAGGT 59.963 55.0 0.00 0.00 35.58 3.85 F
171 173 0.106669 GGTCAGGGCTAAATGGTCCC 60.107 60.0 0.00 0.00 40.36 4.46 F
982 1029 0.107361 CTAGGGTTAGGGTTTGCGGG 60.107 60.0 0.00 0.00 0.00 6.13 F
2123 2260 0.391228 TGCTGCCTTGTAACTCACGA 59.609 50.0 0.00 0.00 0.00 4.35 F
2384 2521 0.607489 ACTGCTCATGAGTTGGTGGC 60.607 55.0 23.38 9.11 0.00 5.01 F
3029 3181 0.038159 ACTCGCAGGCTCTTGTGTAC 60.038 55.0 0.00 0.00 0.00 2.90 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1545 1635 0.736053 ACGAAAAACGAAGCTTGGCA 59.264 45.0 2.10 0.00 45.77 4.92 R
1546 1636 1.120437 CACGAAAAACGAAGCTTGGC 58.880 50.0 2.10 0.00 45.77 4.52 R
2705 2856 0.173708 GTGTCCATCGACCAGGAGTC 59.826 60.0 3.51 0.00 42.54 3.36 R
2997 3149 0.040058 TGCGAGTAGTTGTAGGGGGA 59.960 55.0 0.00 0.00 0.00 4.81 R
3733 3888 0.323816 TTGGTGGGAACTGTTGCACA 60.324 50.0 14.05 6.73 0.00 4.57 R
4573 4736 0.171903 ACTGCAATTCTTCCATGCGC 59.828 50.0 0.00 0.00 42.91 6.09 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
37 38 4.635324 CCATGGTTTAATTTGTGGATTGGC 59.365 41.667 2.57 0.00 0.00 4.52
39 40 3.258228 GGTTTAATTTGTGGATTGGCCG 58.742 45.455 0.00 0.00 40.66 6.13
59 60 2.152016 GTGGAGTTTGGGTTGCTCTAC 58.848 52.381 0.00 0.00 34.55 2.59
60 61 1.073284 TGGAGTTTGGGTTGCTCTACC 59.927 52.381 0.00 0.00 37.47 3.18
70 71 2.565841 GTTGCTCTACCAATGGCTAGG 58.434 52.381 0.00 0.00 0.00 3.02
71 72 2.170607 GTTGCTCTACCAATGGCTAGGA 59.829 50.000 0.00 0.00 0.00 2.94
84 86 3.845860 TGGCTAGGATAGTAGGGTTCAG 58.154 50.000 0.00 0.00 41.93 3.02
90 92 5.327737 AGGATAGTAGGGTTCAGTCTAGG 57.672 47.826 0.00 0.00 0.00 3.02
91 93 4.732957 AGGATAGTAGGGTTCAGTCTAGGT 59.267 45.833 0.00 0.00 0.00 3.08
104 106 2.234908 AGTCTAGGTGTCTCATTGGTGC 59.765 50.000 0.00 0.00 0.00 5.01
113 115 0.037303 CTCATTGGTGCTGGTGAGGT 59.963 55.000 0.00 0.00 35.58 3.85
131 133 3.365535 GCCAAAGGCGTGATTGGT 58.634 55.556 10.66 0.00 46.29 3.67
132 134 1.080569 GCCAAAGGCGTGATTGGTG 60.081 57.895 10.66 0.00 46.29 4.17
133 135 1.805428 GCCAAAGGCGTGATTGGTGT 61.805 55.000 10.66 0.00 46.29 4.16
134 136 0.673437 CCAAAGGCGTGATTGGTGTT 59.327 50.000 2.32 0.00 40.96 3.32
152 154 1.723608 TTGGTGCGTGTGGAGCTTTG 61.724 55.000 0.00 0.00 34.70 2.77
159 161 0.890996 GTGTGGAGCTTTGGTCAGGG 60.891 60.000 0.00 0.00 0.00 4.45
170 172 0.623723 TGGTCAGGGCTAAATGGTCC 59.376 55.000 0.00 0.00 0.00 4.46
171 173 0.106669 GGTCAGGGCTAAATGGTCCC 60.107 60.000 0.00 0.00 40.36 4.46
172 174 0.463833 GTCAGGGCTAAATGGTCCCG 60.464 60.000 0.00 0.00 44.70 5.14
180 182 2.817844 GCTAAATGGTCCCGTCTTTGTT 59.182 45.455 0.00 0.00 0.00 2.83
208 210 3.088789 AGTCTAGGTGGTCTTCGACAT 57.911 47.619 0.00 0.00 33.68 3.06
220 222 3.304559 GTCTTCGACATCATCCTTTCGTG 59.695 47.826 0.00 0.00 33.20 4.35
231 233 4.278170 TCATCCTTTCGTGTTTTGCTCATT 59.722 37.500 0.00 0.00 0.00 2.57
276 278 2.354510 GCACCATCAATTCCGATTTCGA 59.645 45.455 0.67 0.00 43.02 3.71
302 304 3.611025 AGCTAGTGAGATTAGGCCTCT 57.389 47.619 9.68 0.00 0.00 3.69
360 362 4.591072 AGCACTCCTCACTACTTTCTTCTT 59.409 41.667 0.00 0.00 0.00 2.52
381 383 2.038426 TGTGGACAAACGATGGTGATCT 59.962 45.455 0.00 0.00 0.00 2.75
387 389 4.578871 ACAAACGATGGTGATCTGATTCA 58.421 39.130 0.00 0.00 0.00 2.57
391 393 3.196469 ACGATGGTGATCTGATTCACAGT 59.804 43.478 16.49 10.46 46.32 3.55
395 397 3.006859 TGGTGATCTGATTCACAGTTCGT 59.993 43.478 16.49 0.00 46.32 3.85
402 404 2.032799 TGATTCACAGTTCGTTGTTGCC 59.967 45.455 0.00 0.00 0.00 4.52
407 409 1.225855 CAGTTCGTTGTTGCCAGCTA 58.774 50.000 0.00 0.00 0.00 3.32
408 410 1.806542 CAGTTCGTTGTTGCCAGCTAT 59.193 47.619 0.00 0.00 0.00 2.97
409 411 1.806542 AGTTCGTTGTTGCCAGCTATG 59.193 47.619 0.00 0.00 0.00 2.23
410 412 1.804151 GTTCGTTGTTGCCAGCTATGA 59.196 47.619 0.00 0.00 0.00 2.15
413 415 0.447801 GTTGTTGCCAGCTATGACCG 59.552 55.000 0.00 0.00 0.00 4.79
422 434 2.815308 CTATGACCGGCGGCTTCT 59.185 61.111 28.71 6.05 0.00 2.85
446 458 1.137872 CCGCTGGCTTAGAGAGTGATT 59.862 52.381 0.00 0.00 0.00 2.57
449 461 3.492309 CGCTGGCTTAGAGAGTGATTCAT 60.492 47.826 0.00 0.00 0.00 2.57
462 475 4.298626 AGTGATTCATAGGCCAAGAGGTA 58.701 43.478 5.01 0.00 37.19 3.08
471 484 0.461961 GCCAAGAGGTAGCATCGAGT 59.538 55.000 0.00 0.00 37.19 4.18
484 497 0.602638 ATCGAGTTTTGCTCACGCCA 60.603 50.000 0.00 0.00 44.33 5.69
493 506 4.838152 CTCACGCCATGACCCGGG 62.838 72.222 22.25 22.25 32.37 5.73
500 513 2.350895 CATGACCCGGGAAGTGCA 59.649 61.111 32.02 16.78 0.00 4.57
512 525 1.000955 GGAAGTGCAGGAGAAAGACGA 59.999 52.381 0.00 0.00 0.00 4.20
539 552 0.916086 ACACCCAAGGACTTGTGTCA 59.084 50.000 10.81 0.00 44.61 3.58
540 553 1.494721 ACACCCAAGGACTTGTGTCAT 59.505 47.619 10.81 0.00 44.61 3.06
545 558 3.506067 CCCAAGGACTTGTGTCATTTACC 59.494 47.826 10.81 0.00 43.53 2.85
588 602 4.590647 TGCAGGGGTTTGACATTTGAATTA 59.409 37.500 0.00 0.00 0.00 1.40
609 623 2.054453 GCATTGGCCTTGTCCTCCC 61.054 63.158 3.32 0.00 0.00 4.30
610 624 1.693640 CATTGGCCTTGTCCTCCCT 59.306 57.895 3.32 0.00 0.00 4.20
611 625 0.682209 CATTGGCCTTGTCCTCCCTG 60.682 60.000 3.32 0.00 0.00 4.45
612 626 0.846427 ATTGGCCTTGTCCTCCCTGA 60.846 55.000 3.32 0.00 0.00 3.86
613 627 1.492133 TTGGCCTTGTCCTCCCTGAG 61.492 60.000 3.32 0.00 0.00 3.35
653 667 1.579084 GGCAAACGTATTGCGGGTGA 61.579 55.000 21.03 0.00 45.78 4.02
746 760 4.514577 CTCGGCGCGTGATCCCTT 62.515 66.667 8.43 0.00 0.00 3.95
749 763 4.162690 GGCGCGTGATCCCTTCCT 62.163 66.667 8.43 0.00 0.00 3.36
782 796 0.895559 CCAACTTCCCCACTGGCTTC 60.896 60.000 0.00 0.00 0.00 3.86
783 797 1.073199 AACTTCCCCACTGGCTTCG 59.927 57.895 0.00 0.00 0.00 3.79
784 798 2.045926 CTTCCCCACTGGCTTCGG 60.046 66.667 0.00 0.00 0.00 4.30
785 799 4.344865 TTCCCCACTGGCTTCGGC 62.345 66.667 0.00 0.00 40.88 5.54
835 877 3.939592 GCCTGATTTTACTAACCGCTTCT 59.060 43.478 0.00 0.00 0.00 2.85
903 945 1.916181 ACTACCCAGTGGCTGCTTAAT 59.084 47.619 2.61 0.00 32.25 1.40
982 1029 0.107361 CTAGGGTTAGGGTTTGCGGG 60.107 60.000 0.00 0.00 0.00 6.13
1330 1416 2.760650 GTTCATGGGGAGGGTTTGATTC 59.239 50.000 0.00 0.00 0.00 2.52
1351 1437 2.670414 CTCGAGCTGGAGTTTTGTGATC 59.330 50.000 16.96 0.00 0.00 2.92
1381 1467 1.566231 GAGATTTGTGGGGATCAGGGT 59.434 52.381 0.00 0.00 0.00 4.34
1510 1600 1.254975 GGTTGCTTTGGGGCGGTAAT 61.255 55.000 0.00 0.00 34.52 1.89
1518 1608 1.525175 TGGGGCGGTAATAGGGAAAT 58.475 50.000 0.00 0.00 0.00 2.17
1519 1609 2.703947 TGGGGCGGTAATAGGGAAATA 58.296 47.619 0.00 0.00 0.00 1.40
1520 1610 3.054576 TGGGGCGGTAATAGGGAAATAA 58.945 45.455 0.00 0.00 0.00 1.40
1521 1611 3.658705 TGGGGCGGTAATAGGGAAATAAT 59.341 43.478 0.00 0.00 0.00 1.28
1522 1612 4.106663 TGGGGCGGTAATAGGGAAATAATT 59.893 41.667 0.00 0.00 0.00 1.40
1523 1613 5.081728 GGGGCGGTAATAGGGAAATAATTT 58.918 41.667 0.00 0.00 0.00 1.82
1524 1614 5.047590 GGGGCGGTAATAGGGAAATAATTTG 60.048 44.000 0.00 0.00 0.00 2.32
1525 1615 5.771165 GGGCGGTAATAGGGAAATAATTTGA 59.229 40.000 0.00 0.00 0.00 2.69
1526 1616 6.294342 GGGCGGTAATAGGGAAATAATTTGAC 60.294 42.308 0.00 0.00 0.00 3.18
1527 1617 6.489022 GGCGGTAATAGGGAAATAATTTGACT 59.511 38.462 0.00 0.00 0.00 3.41
1528 1618 7.308408 GGCGGTAATAGGGAAATAATTTGACTC 60.308 40.741 0.00 0.00 0.00 3.36
1529 1619 7.444487 GCGGTAATAGGGAAATAATTTGACTCT 59.556 37.037 0.00 0.00 0.00 3.24
1530 1620 8.774586 CGGTAATAGGGAAATAATTTGACTCTG 58.225 37.037 0.00 0.00 0.00 3.35
1531 1621 9.067986 GGTAATAGGGAAATAATTTGACTCTGG 57.932 37.037 0.00 0.00 0.00 3.86
1532 1622 7.588497 AATAGGGAAATAATTTGACTCTGGC 57.412 36.000 0.00 0.00 0.00 4.85
1533 1623 3.947834 AGGGAAATAATTTGACTCTGGCG 59.052 43.478 0.00 0.00 0.00 5.69
1534 1624 3.489229 GGGAAATAATTTGACTCTGGCGC 60.489 47.826 0.00 0.00 0.00 6.53
1535 1625 3.354397 GAAATAATTTGACTCTGGCGCG 58.646 45.455 0.00 0.00 0.00 6.86
1536 1626 1.299541 ATAATTTGACTCTGGCGCGG 58.700 50.000 8.83 0.00 0.00 6.46
1537 1627 0.742990 TAATTTGACTCTGGCGCGGG 60.743 55.000 8.83 0.00 0.00 6.13
1538 1628 3.976701 ATTTGACTCTGGCGCGGGG 62.977 63.158 8.83 0.00 0.00 5.73
1541 1631 4.162690 GACTCTGGCGCGGGGATT 62.163 66.667 8.83 0.00 0.00 3.01
1542 1632 4.473520 ACTCTGGCGCGGGGATTG 62.474 66.667 8.83 0.00 0.00 2.67
1543 1633 4.161295 CTCTGGCGCGGGGATTGA 62.161 66.667 8.83 0.00 0.00 2.57
1544 1634 3.466791 CTCTGGCGCGGGGATTGAT 62.467 63.158 8.83 0.00 0.00 2.57
1545 1635 2.516930 CTGGCGCGGGGATTGATT 60.517 61.111 8.83 0.00 0.00 2.57
1546 1636 2.828095 TGGCGCGGGGATTGATTG 60.828 61.111 8.83 0.00 0.00 2.67
1547 1637 4.270376 GGCGCGGGGATTGATTGC 62.270 66.667 8.83 0.00 0.00 3.56
1548 1638 4.270376 GCGCGGGGATTGATTGCC 62.270 66.667 8.83 0.00 34.39 4.52
1549 1639 2.828095 CGCGGGGATTGATTGCCA 60.828 61.111 0.00 0.00 37.63 4.92
1550 1640 2.413963 CGCGGGGATTGATTGCCAA 61.414 57.895 0.00 0.00 37.63 4.52
1551 1641 1.438814 GCGGGGATTGATTGCCAAG 59.561 57.895 0.00 0.00 37.63 3.61
1552 1642 1.438814 CGGGGATTGATTGCCAAGC 59.561 57.895 0.00 0.00 40.27 4.01
1553 1643 1.039233 CGGGGATTGATTGCCAAGCT 61.039 55.000 0.00 0.00 40.77 3.74
1554 1644 1.197812 GGGGATTGATTGCCAAGCTT 58.802 50.000 0.00 0.00 40.77 3.74
1555 1645 1.137675 GGGGATTGATTGCCAAGCTTC 59.862 52.381 0.00 0.00 40.77 3.86
1556 1646 1.202336 GGGATTGATTGCCAAGCTTCG 60.202 52.381 0.00 0.00 40.77 3.79
1635 1768 7.829706 AGTTTTTAGGCCTCTAAATTGGACTAG 59.170 37.037 9.68 0.00 44.00 2.57
1701 1835 4.116747 TGTGGAAGCAATTTCGTTTTGT 57.883 36.364 0.00 0.00 36.62 2.83
1705 1839 3.735746 GGAAGCAATTTCGTTTTGTGGAG 59.264 43.478 0.00 0.00 36.62 3.86
1720 1854 2.113414 TGTGGAGGGAAATTTGGGGAAT 59.887 45.455 0.00 0.00 0.00 3.01
1735 1870 3.055963 TGGGGAATTGTGTTTCATGATGC 60.056 43.478 0.00 0.00 0.00 3.91
1742 1877 8.938906 GGAATTGTGTTTCATGATGCTAATTTT 58.061 29.630 0.00 0.00 0.00 1.82
1743 1878 9.962759 GAATTGTGTTTCATGATGCTAATTTTC 57.037 29.630 0.00 0.00 0.00 2.29
1748 1883 8.857216 GTGTTTCATGATGCTAATTTTCTCTTG 58.143 33.333 0.00 0.00 0.00 3.02
1765 1900 5.132502 TCTCTTGATTTTGTGTGGACATGT 58.867 37.500 0.00 0.00 30.13 3.21
1919 2054 3.070159 TCAGTCTCTGACCTGGTTTTCTG 59.930 47.826 0.00 5.14 35.39 3.02
1982 2117 5.072741 TGAGTTCTTTCCTGCAGCTTAATT 58.927 37.500 8.66 0.00 0.00 1.40
2005 2140 5.552870 TTTTGGCCAGCTGGTTTAATTTA 57.447 34.783 32.81 9.38 37.57 1.40
2016 2151 9.260002 CAGCTGGTTTAATTTAAAAGTCAATGT 57.740 29.630 5.57 0.00 0.00 2.71
2040 2175 6.929606 GTCTGTTTCCAGTGTATTAGAGTTGT 59.070 38.462 0.00 0.00 39.82 3.32
2123 2260 0.391228 TGCTGCCTTGTAACTCACGA 59.609 50.000 0.00 0.00 0.00 4.35
2368 2505 4.866508 TTAGGTAACAGACAGTGGACTG 57.133 45.455 14.94 14.94 45.02 3.51
2384 2521 0.607489 ACTGCTCATGAGTTGGTGGC 60.607 55.000 23.38 9.11 0.00 5.01
2491 2628 6.545508 CAACTTGCGATGAAAGATGTTCATA 58.454 36.000 1.70 0.00 39.08 2.15
2701 2852 8.758715 GCCAAATTTTATGTTGAGATATTGCTC 58.241 33.333 0.00 0.00 35.46 4.26
2702 2853 9.252962 CCAAATTTTATGTTGAGATATTGCTCC 57.747 33.333 0.00 0.00 33.95 4.70
2705 2856 7.572523 TTTTATGTTGAGATATTGCTCCTGG 57.427 36.000 0.00 0.00 33.95 4.45
2706 2857 6.499106 TTATGTTGAGATATTGCTCCTGGA 57.501 37.500 0.00 0.00 33.95 3.86
2707 2858 4.142609 TGTTGAGATATTGCTCCTGGAC 57.857 45.455 0.00 0.00 33.95 4.02
2708 2859 3.776969 TGTTGAGATATTGCTCCTGGACT 59.223 43.478 0.00 0.00 33.95 3.85
2997 3149 2.696707 CCAAGCCCAACATATCAGCAAT 59.303 45.455 0.00 0.00 0.00 3.56
3029 3181 0.038159 ACTCGCAGGCTCTTGTGTAC 60.038 55.000 0.00 0.00 0.00 2.90
3077 3229 3.628005 CGATGCATCGTTGGCAAAT 57.372 47.368 35.19 0.00 45.60 2.32
3091 3243 2.100087 TGGCAAATATCATGCACAGCTG 59.900 45.455 13.48 13.48 45.60 4.24
3247 3399 5.769662 CCTGGCTACTGCAAATAATAATCCA 59.230 40.000 0.00 0.00 41.91 3.41
3275 3427 0.889994 GTCATTGCAGGCCATCAACA 59.110 50.000 5.01 0.00 0.00 3.33
3487 3639 1.302192 GCAGTTCGGCCAACCTGTA 60.302 57.895 2.24 0.00 35.28 2.74
3582 3734 4.166011 GCGTGCATCAGCGGTTCC 62.166 66.667 0.00 0.00 46.23 3.62
3620 3772 6.214615 TCCAGGTAAGAAATCAGTTGGTGATA 59.785 38.462 0.00 0.00 45.89 2.15
3702 3857 2.538790 TGGAAACAGGAGCTCCACA 58.461 52.632 33.90 18.51 38.89 4.17
3733 3888 2.977178 CTCTTGCTCCCTGCTCGT 59.023 61.111 0.00 0.00 43.37 4.18
3795 3950 1.619432 GGGATGACAAAAGGGATGCCA 60.619 52.381 5.86 0.00 0.00 4.92
3797 3952 1.135721 GATGACAAAAGGGATGCCAGC 59.864 52.381 5.86 0.00 0.00 4.85
3831 3986 0.948678 GCGTTAGCCTTGGTCAAACA 59.051 50.000 0.00 0.00 37.42 2.83
3839 3996 4.020543 AGCCTTGGTCAAACAAACTACAA 58.979 39.130 0.00 0.00 0.00 2.41
3850 4007 2.558359 ACAAACTACAATTCCTGCCTGC 59.442 45.455 0.00 0.00 0.00 4.85
3880 4037 1.067295 TGACATCCAGCCTTCCTTGT 58.933 50.000 0.00 0.00 0.00 3.16
3972 4129 6.949578 TTTCTTGCAAACTGTCTTCTTTTG 57.050 33.333 0.00 0.00 34.05 2.44
3989 4146 5.296748 TCTTTTGCATTCTTAAAGGTTGGC 58.703 37.500 7.73 0.00 31.45 4.52
3992 4149 2.298729 TGCATTCTTAAAGGTTGGCCAC 59.701 45.455 3.88 0.00 37.19 5.01
4019 4176 8.297470 ACATTGATCTTAACATTGCCATTAGT 57.703 30.769 0.00 0.00 0.00 2.24
4031 4188 6.611236 ACATTGCCATTAGTTAGCCCTTTTAT 59.389 34.615 0.00 0.00 0.00 1.40
4033 4190 6.463995 TGCCATTAGTTAGCCCTTTTATTG 57.536 37.500 0.00 0.00 0.00 1.90
4061 4218 4.202556 TGCTGCCTGGGCTGAATTATATTA 60.203 41.667 20.01 0.00 41.63 0.98
4127 4284 9.838975 TTGCAACACTTATAATGTGAATGTTAG 57.161 29.630 16.84 0.00 38.65 2.34
4195 4352 2.838736 TGAAACCACTCTTGCTCTGTC 58.161 47.619 0.00 0.00 0.00 3.51
4196 4353 2.147150 GAAACCACTCTTGCTCTGTCC 58.853 52.381 0.00 0.00 0.00 4.02
4197 4354 1.131638 AACCACTCTTGCTCTGTCCA 58.868 50.000 0.00 0.00 0.00 4.02
4198 4355 0.683973 ACCACTCTTGCTCTGTCCAG 59.316 55.000 0.00 0.00 0.00 3.86
4262 4423 4.351054 GGTGGTCTGTGCCTGGGG 62.351 72.222 0.00 0.00 0.00 4.96
4301 4462 1.348064 AGGAGTTCGGACATCCAACA 58.652 50.000 12.96 0.00 35.45 3.33
4332 4494 6.015991 AGTAGTAGTAGCTCATGTAGGGTT 57.984 41.667 0.00 0.00 0.00 4.11
4407 4569 1.472878 TCCATTCTCGTCCTTCTCGTG 59.527 52.381 0.00 0.00 0.00 4.35
4458 4621 8.082852 GTCTTTCAGTGTCATAGTGTCTTTCTA 58.917 37.037 0.00 0.00 0.00 2.10
4651 4820 5.937111 ACAGCTTACCTCCTGAAAAAGTAA 58.063 37.500 0.00 0.00 33.40 2.24
4694 4863 2.228822 CACCATGGTTTACTTGCACCTC 59.771 50.000 16.84 0.00 33.76 3.85
4699 4868 5.360714 CCATGGTTTACTTGCACCTCATATT 59.639 40.000 2.57 0.00 33.76 1.28
4713 4882 4.017499 ACCTCATATTACCCAGTTTTGGCT 60.017 41.667 0.00 0.00 43.58 4.75
4729 4898 0.108945 GGCTCAAAAGTGCATCCAGC 60.109 55.000 0.00 0.00 45.96 4.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 5.931724 CCACAAATTAAACCATGGTTTCTCC 59.068 40.000 39.37 0.00 43.95 3.71
8 9 6.754193 TCCACAAATTAAACCATGGTTTCTC 58.246 36.000 39.37 0.00 43.95 2.87
9 10 6.739331 TCCACAAATTAAACCATGGTTTCT 57.261 33.333 39.37 26.95 43.95 2.52
10 11 7.094848 CCAATCCACAAATTAAACCATGGTTTC 60.095 37.037 39.37 0.00 43.95 2.78
12 13 6.237154 CCAATCCACAAATTAAACCATGGTT 58.763 36.000 24.86 24.86 40.45 3.67
13 14 5.802821 GCCAATCCACAAATTAAACCATGGT 60.803 40.000 13.00 13.00 0.00 3.55
14 15 4.635324 GCCAATCCACAAATTAAACCATGG 59.365 41.667 11.19 11.19 0.00 3.66
15 16 4.635324 GGCCAATCCACAAATTAAACCATG 59.365 41.667 0.00 0.00 34.01 3.66
16 17 4.622695 CGGCCAATCCACAAATTAAACCAT 60.623 41.667 2.24 0.00 34.01 3.55
17 18 3.306364 CGGCCAATCCACAAATTAAACCA 60.306 43.478 2.24 0.00 34.01 3.67
18 19 3.258228 CGGCCAATCCACAAATTAAACC 58.742 45.455 2.24 0.00 34.01 3.27
19 20 3.677596 CACGGCCAATCCACAAATTAAAC 59.322 43.478 2.24 0.00 34.01 2.01
20 21 3.306364 CCACGGCCAATCCACAAATTAAA 60.306 43.478 2.24 0.00 34.01 1.52
21 22 2.232452 CCACGGCCAATCCACAAATTAA 59.768 45.455 2.24 0.00 34.01 1.40
22 23 1.821753 CCACGGCCAATCCACAAATTA 59.178 47.619 2.24 0.00 34.01 1.40
23 24 0.607620 CCACGGCCAATCCACAAATT 59.392 50.000 2.24 0.00 34.01 1.82
24 25 0.251564 TCCACGGCCAATCCACAAAT 60.252 50.000 2.24 0.00 34.01 2.32
37 38 1.515521 GAGCAACCCAAACTCCACGG 61.516 60.000 0.00 0.00 0.00 4.94
39 40 2.152016 GTAGAGCAACCCAAACTCCAC 58.848 52.381 0.00 0.00 0.00 4.02
59 60 3.521727 ACCCTACTATCCTAGCCATTGG 58.478 50.000 0.00 0.00 0.00 3.16
60 61 4.593206 TGAACCCTACTATCCTAGCCATTG 59.407 45.833 0.00 0.00 0.00 2.82
70 71 5.447757 ACACCTAGACTGAACCCTACTATC 58.552 45.833 0.00 0.00 0.00 2.08
71 72 5.194132 AGACACCTAGACTGAACCCTACTAT 59.806 44.000 0.00 0.00 0.00 2.12
84 86 2.234908 AGCACCAATGAGACACCTAGAC 59.765 50.000 0.00 0.00 0.00 2.59
90 92 0.877071 CACCAGCACCAATGAGACAC 59.123 55.000 0.00 0.00 0.00 3.67
91 93 0.764271 TCACCAGCACCAATGAGACA 59.236 50.000 0.00 0.00 0.00 3.41
104 106 4.085876 CCTTTGGCACCTCACCAG 57.914 61.111 0.00 0.00 38.73 4.00
122 124 1.082169 CGCACCAACACCAATCACG 60.082 57.895 0.00 0.00 0.00 4.35
131 133 2.884997 AAGCTCCACACGCACCAACA 62.885 55.000 0.00 0.00 0.00 3.33
132 134 1.724582 AAAGCTCCACACGCACCAAC 61.725 55.000 0.00 0.00 0.00 3.77
133 135 1.453015 AAAGCTCCACACGCACCAA 60.453 52.632 0.00 0.00 0.00 3.67
134 136 2.186160 CAAAGCTCCACACGCACCA 61.186 57.895 0.00 0.00 0.00 4.17
152 154 0.106669 GGGACCATTTAGCCCTGACC 60.107 60.000 0.00 0.00 38.85 4.02
159 161 2.433436 ACAAAGACGGGACCATTTAGC 58.567 47.619 0.00 0.00 0.00 3.09
170 172 5.895216 AGACTAAACGTAAACAAAGACGG 57.105 39.130 0.00 0.00 43.32 4.79
171 173 6.638468 ACCTAGACTAAACGTAAACAAAGACG 59.362 38.462 0.00 0.00 44.57 4.18
172 174 7.095899 CCACCTAGACTAAACGTAAACAAAGAC 60.096 40.741 0.00 0.00 0.00 3.01
180 182 5.106555 CGAAGACCACCTAGACTAAACGTAA 60.107 44.000 0.00 0.00 0.00 3.18
208 210 3.210227 TGAGCAAAACACGAAAGGATGA 58.790 40.909 0.00 0.00 0.00 2.92
220 222 4.625028 AGAAGAAGGCAAATGAGCAAAAC 58.375 39.130 0.00 0.00 35.83 2.43
231 233 2.755650 GTCGAACAGAGAAGAAGGCAA 58.244 47.619 0.00 0.00 0.00 4.52
276 278 3.316868 GCCTAATCTCACTAGCTTCTCGT 59.683 47.826 0.00 0.00 0.00 4.18
360 362 2.038426 AGATCACCATCGTTTGTCCACA 59.962 45.455 0.00 0.00 33.75 4.17
381 383 2.032799 GGCAACAACGAACTGTGAATCA 59.967 45.455 0.00 0.00 0.00 2.57
402 404 3.740128 AAGCCGCCGGTCATAGCTG 62.740 63.158 4.45 0.00 33.18 4.24
407 409 2.436646 CAAGAAGCCGCCGGTCAT 60.437 61.111 4.45 0.00 0.00 3.06
408 410 4.697756 CCAAGAAGCCGCCGGTCA 62.698 66.667 4.45 0.00 0.00 4.02
446 458 2.174685 TGCTACCTCTTGGCCTATGA 57.825 50.000 3.32 0.00 36.63 2.15
449 461 1.040646 CGATGCTACCTCTTGGCCTA 58.959 55.000 3.32 0.00 36.63 3.93
484 497 2.671070 CTGCACTTCCCGGGTCAT 59.329 61.111 22.86 3.49 0.00 3.06
493 506 2.062519 GTCGTCTTTCTCCTGCACTTC 58.937 52.381 0.00 0.00 0.00 3.01
494 507 1.603172 CGTCGTCTTTCTCCTGCACTT 60.603 52.381 0.00 0.00 0.00 3.16
500 513 1.451067 ATCGACGTCGTCTTTCTCCT 58.549 50.000 34.40 8.90 40.80 3.69
512 525 0.529378 GTCCTTGGGTGTATCGACGT 59.471 55.000 0.00 0.00 0.00 4.34
539 552 8.584063 ACACCATCCTTATAAAAACGGTAAAT 57.416 30.769 0.00 0.00 0.00 1.40
540 553 7.999450 ACACCATCCTTATAAAAACGGTAAA 57.001 32.000 0.00 0.00 0.00 2.01
545 558 5.704888 TGCAACACCATCCTTATAAAAACG 58.295 37.500 0.00 0.00 0.00 3.60
588 602 1.133668 GGAGGACAAGGCCAATGCTAT 60.134 52.381 5.01 0.00 37.74 2.97
620 634 8.382130 CAATACGTTTGCCTACTATACGAAAAA 58.618 33.333 0.00 0.00 36.21 1.94
626 640 4.149396 CCGCAATACGTTTGCCTACTATAC 59.851 45.833 21.51 1.73 42.10 1.47
628 642 3.128349 CCGCAATACGTTTGCCTACTAT 58.872 45.455 21.51 0.00 42.10 2.12
653 667 2.438434 CCCGGCGAAATGGCTCTT 60.438 61.111 9.30 0.00 42.02 2.85
704 718 2.283173 GGACAAGGCCAACTGGGG 60.283 66.667 5.01 0.00 37.04 4.96
745 759 1.372997 GTGCGAGACGAAGCAGGAA 60.373 57.895 0.00 0.00 44.70 3.36
746 760 2.258591 GTGCGAGACGAAGCAGGA 59.741 61.111 0.00 0.00 44.70 3.86
749 763 1.954146 GTTGGTGCGAGACGAAGCA 60.954 57.895 0.00 0.00 41.34 3.91
783 797 4.811364 GGGAGAAGCCAGCCAGCC 62.811 72.222 0.00 0.00 38.95 4.85
784 798 3.279504 AAGGGAGAAGCCAGCCAGC 62.280 63.158 0.00 0.00 38.95 4.85
785 799 1.077858 GAAGGGAGAAGCCAGCCAG 60.078 63.158 0.00 0.00 38.95 4.85
835 877 0.666274 CTCGCGCGCTAATAATCCCA 60.666 55.000 30.48 1.35 0.00 4.37
919 961 0.955428 CGCTAACAGCCAGGCAGAAA 60.955 55.000 15.80 0.00 38.18 2.52
1119 1178 0.856641 CGAACACCTTGGTGTACGTG 59.143 55.000 23.64 11.29 36.42 4.49
1276 1346 6.100424 AGGAAAGAAGAAACAGAGGAGAAAGA 59.900 38.462 0.00 0.00 0.00 2.52
1279 1349 5.615289 CAGGAAAGAAGAAACAGAGGAGAA 58.385 41.667 0.00 0.00 0.00 2.87
1330 1416 2.154854 TCACAAAACTCCAGCTCGAG 57.845 50.000 8.45 8.45 35.88 4.04
1351 1437 2.028748 CCCACAAATCTCTGGCCAAAAG 60.029 50.000 7.01 7.77 0.00 2.27
1381 1467 1.484065 CCTCCCCAATTGAACCCCAAA 60.484 52.381 7.12 0.00 38.43 3.28
1414 1501 2.100631 CAAGCCGATCACCACCGTC 61.101 63.158 0.00 0.00 0.00 4.79
1510 1600 5.123227 CGCCAGAGTCAAATTATTTCCCTA 58.877 41.667 0.00 0.00 0.00 3.53
1518 1608 0.742990 CCCGCGCCAGAGTCAAATTA 60.743 55.000 0.00 0.00 0.00 1.40
1519 1609 2.040544 CCCGCGCCAGAGTCAAATT 61.041 57.895 0.00 0.00 0.00 1.82
1520 1610 2.436646 CCCGCGCCAGAGTCAAAT 60.437 61.111 0.00 0.00 0.00 2.32
1521 1611 4.697756 CCCCGCGCCAGAGTCAAA 62.698 66.667 0.00 0.00 0.00 2.69
1524 1614 4.162690 AATCCCCGCGCCAGAGTC 62.163 66.667 0.00 0.00 0.00 3.36
1525 1615 4.473520 CAATCCCCGCGCCAGAGT 62.474 66.667 0.00 0.00 0.00 3.24
1526 1616 2.947938 AATCAATCCCCGCGCCAGAG 62.948 60.000 0.00 0.00 0.00 3.35
1527 1617 3.042733 AATCAATCCCCGCGCCAGA 62.043 57.895 0.00 0.00 0.00 3.86
1528 1618 2.516930 AATCAATCCCCGCGCCAG 60.517 61.111 0.00 0.00 0.00 4.85
1529 1619 2.828095 CAATCAATCCCCGCGCCA 60.828 61.111 0.00 0.00 0.00 5.69
1530 1620 4.270376 GCAATCAATCCCCGCGCC 62.270 66.667 0.00 0.00 0.00 6.53
1531 1621 4.270376 GGCAATCAATCCCCGCGC 62.270 66.667 0.00 0.00 0.00 6.86
1532 1622 2.340453 CTTGGCAATCAATCCCCGCG 62.340 60.000 0.00 0.00 34.45 6.46
1533 1623 1.438814 CTTGGCAATCAATCCCCGC 59.561 57.895 0.00 0.00 34.45 6.13
1534 1624 1.039233 AGCTTGGCAATCAATCCCCG 61.039 55.000 0.00 0.00 34.45 5.73
1535 1625 1.137675 GAAGCTTGGCAATCAATCCCC 59.862 52.381 2.10 0.00 34.45 4.81
1536 1626 1.202336 CGAAGCTTGGCAATCAATCCC 60.202 52.381 2.10 0.00 34.45 3.85
1537 1627 1.474077 ACGAAGCTTGGCAATCAATCC 59.526 47.619 2.10 0.00 34.45 3.01
1538 1628 2.927553 ACGAAGCTTGGCAATCAATC 57.072 45.000 2.10 0.00 34.45 2.67
1539 1629 3.665745 AAACGAAGCTTGGCAATCAAT 57.334 38.095 2.10 0.00 34.45 2.57
1540 1630 3.451141 AAAACGAAGCTTGGCAATCAA 57.549 38.095 2.10 0.00 0.00 2.57
1541 1631 3.380142 GAAAAACGAAGCTTGGCAATCA 58.620 40.909 2.10 0.00 0.00 2.57
1542 1632 2.405025 CGAAAAACGAAGCTTGGCAATC 59.595 45.455 2.10 0.00 45.77 2.67
1543 1633 2.223711 ACGAAAAACGAAGCTTGGCAAT 60.224 40.909 2.10 0.00 45.77 3.56
1544 1634 1.133407 ACGAAAAACGAAGCTTGGCAA 59.867 42.857 2.10 0.00 45.77 4.52
1545 1635 0.736053 ACGAAAAACGAAGCTTGGCA 59.264 45.000 2.10 0.00 45.77 4.92
1546 1636 1.120437 CACGAAAAACGAAGCTTGGC 58.880 50.000 2.10 0.00 45.77 4.52
1547 1637 2.286833 TCTCACGAAAAACGAAGCTTGG 59.713 45.455 2.10 4.94 45.77 3.61
1548 1638 3.280775 GTCTCACGAAAAACGAAGCTTG 58.719 45.455 2.10 0.00 45.77 4.01
1549 1639 2.287103 GGTCTCACGAAAAACGAAGCTT 59.713 45.455 0.00 0.00 45.77 3.74
1550 1640 1.865340 GGTCTCACGAAAAACGAAGCT 59.135 47.619 0.00 0.00 45.77 3.74
1551 1641 1.865340 AGGTCTCACGAAAAACGAAGC 59.135 47.619 0.00 0.00 45.77 3.86
1552 1642 2.221055 CCAGGTCTCACGAAAAACGAAG 59.779 50.000 0.00 0.00 45.77 3.79
1553 1643 2.206750 CCAGGTCTCACGAAAAACGAA 58.793 47.619 0.00 0.00 45.77 3.85
1554 1644 1.539496 CCCAGGTCTCACGAAAAACGA 60.539 52.381 0.00 0.00 45.77 3.85
1556 1646 1.235724 CCCCAGGTCTCACGAAAAAC 58.764 55.000 0.00 0.00 0.00 2.43
1648 1781 5.443185 AATAGTTCCGCAATTCATGATGG 57.557 39.130 0.00 0.00 0.00 3.51
1701 1835 3.180507 CAATTCCCCAAATTTCCCTCCA 58.819 45.455 0.00 0.00 35.32 3.86
1705 1839 4.365514 AACACAATTCCCCAAATTTCCC 57.634 40.909 0.00 0.00 35.32 3.97
1720 1854 8.579006 AGAGAAAATTAGCATCATGAAACACAA 58.421 29.630 0.00 0.00 0.00 3.33
1735 1870 9.185192 GTCCACACAAAATCAAGAGAAAATTAG 57.815 33.333 0.00 0.00 0.00 1.73
1742 1877 5.008911 CACATGTCCACACAAAATCAAGAGA 59.991 40.000 0.00 0.00 35.64 3.10
1743 1878 5.217393 CACATGTCCACACAAAATCAAGAG 58.783 41.667 0.00 0.00 35.64 2.85
1748 1883 5.431420 TGTACACATGTCCACACAAAATC 57.569 39.130 0.00 0.00 35.64 2.17
1982 2117 4.429854 AATTAAACCAGCTGGCCAAAAA 57.570 36.364 33.06 19.06 39.32 1.94
1988 2123 6.220201 TGACTTTTAAATTAAACCAGCTGGC 58.780 36.000 33.06 10.63 39.32 4.85
2368 2505 1.065854 ACTAGCCACCAACTCATGAGC 60.066 52.381 22.83 7.69 0.00 4.26
2429 2566 9.512588 AAAGATGTCTGACTTGTAATCAAAGAT 57.487 29.630 9.51 0.00 32.87 2.40
2436 2573 6.882610 TGCAAAAGATGTCTGACTTGTAAT 57.117 33.333 9.51 0.00 0.00 1.89
2437 2574 6.882610 ATGCAAAAGATGTCTGACTTGTAA 57.117 33.333 9.51 0.00 0.00 2.41
2491 2628 5.988561 ACTGTTTGTGTTTGTGTTTGTGATT 59.011 32.000 0.00 0.00 0.00 2.57
2611 2761 8.842358 TTCCAAGAAAACTAATAGTGGTACAG 57.158 34.615 0.00 0.00 41.80 2.74
2701 2852 1.680522 CCATCGACCAGGAGTCCAGG 61.681 65.000 18.76 18.76 43.08 4.45
2702 2853 0.684479 TCCATCGACCAGGAGTCCAG 60.684 60.000 12.86 2.60 43.08 3.86
2703 2854 0.970937 GTCCATCGACCAGGAGTCCA 60.971 60.000 12.86 0.00 43.08 4.02
2704 2855 0.970937 TGTCCATCGACCAGGAGTCC 60.971 60.000 0.00 0.00 43.08 3.85
2705 2856 0.173708 GTGTCCATCGACCAGGAGTC 59.826 60.000 3.51 0.00 42.54 3.36
2706 2857 0.251832 AGTGTCCATCGACCAGGAGT 60.252 55.000 3.51 0.00 38.32 3.85
2707 2858 0.457851 GAGTGTCCATCGACCAGGAG 59.542 60.000 3.51 0.00 38.32 3.69
2708 2859 0.251608 TGAGTGTCCATCGACCAGGA 60.252 55.000 0.00 0.00 38.32 3.86
2997 3149 0.040058 TGCGAGTAGTTGTAGGGGGA 59.960 55.000 0.00 0.00 0.00 4.81
3077 3229 2.896745 ATCGTCAGCTGTGCATGATA 57.103 45.000 14.67 0.00 0.00 2.15
3091 3243 5.048364 AGACAGCCTAACAGATCATATCGTC 60.048 44.000 0.00 0.00 0.00 4.20
3247 3399 3.140623 GGCCTGCAATGACAAAAACAAT 58.859 40.909 0.00 0.00 0.00 2.71
3275 3427 6.295719 GGATACAAGTATTCGGGTCCATAT 57.704 41.667 0.00 0.00 0.00 1.78
3487 3639 6.600822 CAGGTGAATAAGAATGATCACTTGGT 59.399 38.462 0.00 0.00 42.66 3.67
3582 3734 2.332063 ACCTGGAGGATATTGTTGCG 57.668 50.000 0.00 0.00 38.94 4.85
3620 3772 3.016031 TGTGTGCAAGACATTGTCAACT 58.984 40.909 18.57 0.31 33.92 3.16
3656 3811 3.589988 AGGCATGTGTTAGAACTTCGAG 58.410 45.455 0.00 0.00 0.00 4.04
3659 3814 5.948992 AAAGAGGCATGTGTTAGAACTTC 57.051 39.130 0.00 0.00 0.00 3.01
3733 3888 0.323816 TTGGTGGGAACTGTTGCACA 60.324 50.000 14.05 6.73 0.00 4.57
3795 3950 1.577328 CGCACCTCCAATTTGTCGCT 61.577 55.000 0.00 0.00 0.00 4.93
3797 3952 0.591170 AACGCACCTCCAATTTGTCG 59.409 50.000 0.00 0.00 0.00 4.35
3831 3986 2.171003 GGCAGGCAGGAATTGTAGTTT 58.829 47.619 0.00 0.00 0.00 2.66
3880 4037 3.133003 GCAGACTAGAGGATACCTGCAAA 59.867 47.826 0.00 0.00 44.40 3.68
3972 4129 2.562738 AGTGGCCAACCTTTAAGAATGC 59.437 45.455 7.24 0.00 36.63 3.56
3989 4146 6.095300 TGGCAATGTTAAGATCAATGTAGTGG 59.905 38.462 0.00 0.00 0.00 4.00
3992 4149 9.888878 CTAATGGCAATGTTAAGATCAATGTAG 57.111 33.333 0.00 0.00 0.00 2.74
4031 4188 2.115910 CCCAGGCAGCACTTCCAA 59.884 61.111 0.00 0.00 0.00 3.53
4033 4190 4.357279 AGCCCAGGCAGCACTTCC 62.357 66.667 12.03 0.00 44.88 3.46
4061 4218 6.881602 GGACAACCTGAAATAGAGTGAGAAAT 59.118 38.462 0.00 0.00 0.00 2.17
4179 4336 0.683973 CTGGACAGAGCAAGAGTGGT 59.316 55.000 0.00 0.00 38.47 4.16
4195 4352 4.887748 AGAATGTACAAGACACTGACTGG 58.112 43.478 0.00 0.00 42.17 4.00
4196 4353 4.926238 GGAGAATGTACAAGACACTGACTG 59.074 45.833 0.00 0.00 42.17 3.51
4197 4354 4.588951 TGGAGAATGTACAAGACACTGACT 59.411 41.667 0.00 0.00 42.17 3.41
4198 4355 4.883083 TGGAGAATGTACAAGACACTGAC 58.117 43.478 0.00 0.00 42.17 3.51
4262 4423 1.531739 TTTCGGGCATCCAGTTTGGC 61.532 55.000 0.00 0.00 37.47 4.52
4407 4569 3.988379 ACAACCACATTCACACATGAC 57.012 42.857 0.00 0.00 33.38 3.06
4458 4621 9.875708 TTAGGGATAATAATTTACACAGCCAAT 57.124 29.630 0.00 0.00 0.00 3.16
4495 4658 3.857052 ACACGGTGATGTAACTGGTATG 58.143 45.455 16.29 0.00 0.00 2.39
4573 4736 0.171903 ACTGCAATTCTTCCATGCGC 59.828 50.000 0.00 0.00 42.91 6.09
4677 4846 6.546034 GGTAATATGAGGTGCAAGTAAACCAT 59.454 38.462 0.00 0.00 39.05 3.55
4694 4863 5.913137 TTGAGCCAAAACTGGGTAATATG 57.087 39.130 0.00 0.00 40.15 1.78
4699 4868 3.383185 CACTTTTGAGCCAAAACTGGGTA 59.617 43.478 8.46 0.00 38.24 3.69
4713 4882 2.275134 TCAGCTGGATGCACTTTTGA 57.725 45.000 15.13 0.00 45.94 2.69
4729 4898 5.469373 TGCACGTAAAGCAGATAATTCAG 57.531 39.130 0.00 0.00 37.02 3.02


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

AutoCloner maintained by Alex Coulton.