Multiple sequence alignment - TraesCS2D01G284000

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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 TraesCS2D01G284000 chr2D 100.000 3635 0 0 1 3635 357977349 357980983 0.000000e+00 6713.0
1 TraesCS2D01G284000 chr2B 90.803 1544 71 28 1 1502 425438563 425440077 0.000000e+00 1999.0
2 TraesCS2D01G284000 chr2B 91.565 1067 68 11 1634 2688 425440133 425441189 0.000000e+00 1452.0
3 TraesCS2D01G284000 chr2B 92.873 463 17 4 3189 3635 425442806 425443268 0.000000e+00 658.0
4 TraesCS2D01G284000 chr2B 92.537 134 7 3 2753 2884 425441492 425441624 4.790000e-44 189.0
5 TraesCS2D01G284000 chr2A 92.465 1274 66 20 1634 2886 478908893 478910157 0.000000e+00 1794.0
6 TraesCS2D01G284000 chr2A 94.099 627 19 5 3025 3635 478910830 478911454 0.000000e+00 937.0
7 TraesCS2D01G284000 chr2A 86.756 521 36 14 700 1190 478907955 478908472 1.910000e-152 549.0
8 TraesCS2D01G284000 chr2A 89.412 425 32 7 54 475 478902806 478903220 1.160000e-144 523.0
9 TraesCS2D01G284000 chr2A 92.336 274 20 1 1227 1499 478908561 478908834 4.400000e-104 388.0
10 TraesCS2D01G284000 chr2A 93.333 105 6 1 2921 3024 478910561 478910665 1.750000e-33 154.0
11 TraesCS2D01G284000 chr5D 83.846 130 17 3 1061 1188 563967336 563967209 1.770000e-23 121.0
12 TraesCS2D01G284000 chr5B 82.270 141 18 5 1050 1188 706348854 706348719 8.250000e-22 115.0
13 TraesCS2D01G284000 chr4A 83.077 130 18 3 1061 1188 608560916 608561043 8.250000e-22 115.0
14 TraesCS2D01G284000 chr4A 95.918 49 2 0 1141 1189 623384977 623385025 3.010000e-11 80.5


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 TraesCS2D01G284000 chr2D 357977349 357980983 3634 False 6713.0 6713 100.0000 1 3635 1 chr2D.!!$F1 3634
1 TraesCS2D01G284000 chr2B 425438563 425443268 4705 False 1074.5 1999 91.9445 1 3635 4 chr2B.!!$F1 3634
2 TraesCS2D01G284000 chr2A 478907955 478911454 3499 False 764.4 1794 91.7978 700 3635 5 chr2A.!!$F2 2935

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
753 775 0.028902 TATCGACGATGCTCACGGTG 59.971 55.0 20.42 0.56 34.93 4.94 F
759 781 0.031314 CGATGCTCACGGTGATAGCT 59.969 55.0 19.16 8.32 37.16 3.32 F
960 1008 0.039035 GTTTGTGCCATGGTAGGGGA 59.961 55.0 14.67 0.00 0.00 4.81 F
1468 1580 0.319297 ACGACACGGTTGCCTACTTC 60.319 55.0 0.00 0.00 0.00 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1627 1750 0.032815 TCCGAATGCACACTCGTCAA 59.967 50.000 12.18 0.0 33.17 3.18 R
2416 2566 0.179169 GGCTCGAACACGTACCTCTC 60.179 60.000 0.00 0.0 0.00 3.20 R
2446 2596 0.250124 CTGAACAGGTACACCGCCAA 60.250 55.000 0.00 0.0 42.08 4.52 R
3346 5261 1.067915 TGCTCGGTTAATGCAAAAGCC 60.068 47.619 0.00 0.0 33.48 4.35 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
38 39 3.462483 TTCTGTAGAAGTTGTCGCCAA 57.538 42.857 0.00 0.00 0.00 4.52
71 72 3.520290 ACCATGCTCATGCTTGATTTG 57.480 42.857 2.33 1.97 44.17 2.32
72 73 2.201732 CCATGCTCATGCTTGATTTGC 58.798 47.619 2.33 4.26 44.17 3.68
73 74 2.418060 CCATGCTCATGCTTGATTTGCA 60.418 45.455 14.62 14.62 44.17 4.08
75 76 3.159353 TGCTCATGCTTGATTTGCATC 57.841 42.857 9.94 0.00 46.80 3.91
76 77 2.117137 GCTCATGCTTGATTTGCATCG 58.883 47.619 2.33 0.00 46.80 3.84
77 78 2.117137 CTCATGCTTGATTTGCATCGC 58.883 47.619 2.33 0.00 46.80 4.58
97 98 1.246056 GCAAATGCAGGCTCAGGTGA 61.246 55.000 0.00 0.00 41.59 4.02
105 106 4.292784 GCTCAGGTGAGGCTGTTC 57.707 61.111 9.03 0.00 42.29 3.18
150 151 2.353607 GAGGCTATCGTGGACGCG 60.354 66.667 3.53 3.53 39.60 6.01
153 154 2.654404 GCTATCGTGGACGCGGTC 60.654 66.667 12.47 5.53 39.60 4.79
216 217 2.948720 GCTGTTCCTCTGGCGGTCT 61.949 63.158 0.00 0.00 0.00 3.85
363 364 4.994201 TCGCTGCACACGTCGGAC 62.994 66.667 0.00 0.00 0.00 4.79
370 371 0.796312 GCACACGTCGGACATCAAAT 59.204 50.000 9.10 0.00 0.00 2.32
447 448 3.914426 AAGATAGAATGGCGAGGTGTT 57.086 42.857 0.00 0.00 0.00 3.32
448 449 6.665992 ATAAGATAGAATGGCGAGGTGTTA 57.334 37.500 0.00 0.00 0.00 2.41
449 450 4.592485 AGATAGAATGGCGAGGTGTTAG 57.408 45.455 0.00 0.00 0.00 2.34
450 451 3.961408 AGATAGAATGGCGAGGTGTTAGT 59.039 43.478 0.00 0.00 0.00 2.24
451 452 4.406003 AGATAGAATGGCGAGGTGTTAGTT 59.594 41.667 0.00 0.00 0.00 2.24
452 453 2.973945 AGAATGGCGAGGTGTTAGTTC 58.026 47.619 0.00 0.00 0.00 3.01
453 454 2.567615 AGAATGGCGAGGTGTTAGTTCT 59.432 45.455 0.00 0.00 0.00 3.01
454 455 3.767673 AGAATGGCGAGGTGTTAGTTCTA 59.232 43.478 0.00 0.00 0.00 2.10
455 456 3.802948 ATGGCGAGGTGTTAGTTCTAG 57.197 47.619 0.00 0.00 0.00 2.43
456 457 2.522185 TGGCGAGGTGTTAGTTCTAGT 58.478 47.619 0.00 0.00 0.00 2.57
457 458 2.230508 TGGCGAGGTGTTAGTTCTAGTG 59.769 50.000 0.00 0.00 0.00 2.74
458 459 2.490903 GGCGAGGTGTTAGTTCTAGTGA 59.509 50.000 0.00 0.00 0.00 3.41
459 460 3.057033 GGCGAGGTGTTAGTTCTAGTGAA 60.057 47.826 0.00 0.00 0.00 3.18
460 461 4.167268 GCGAGGTGTTAGTTCTAGTGAAG 58.833 47.826 0.00 0.00 32.15 3.02
461 462 4.082895 GCGAGGTGTTAGTTCTAGTGAAGA 60.083 45.833 0.00 0.00 32.15 2.87
462 463 5.632959 CGAGGTGTTAGTTCTAGTGAAGAG 58.367 45.833 0.00 0.00 35.05 2.85
463 464 5.181622 CGAGGTGTTAGTTCTAGTGAAGAGT 59.818 44.000 0.00 0.00 35.05 3.24
495 496 8.617761 TGGTTTGTGTAAATTTAAGTTTCGTC 57.382 30.769 0.00 0.00 0.00 4.20
496 497 7.428761 TGGTTTGTGTAAATTTAAGTTTCGTCG 59.571 33.333 0.00 0.00 0.00 5.12
497 498 7.639461 GGTTTGTGTAAATTTAAGTTTCGTCGA 59.361 33.333 0.00 0.00 0.00 4.20
555 556 8.970859 AAACTCTCTTCTTTTGAATCTCTCAA 57.029 30.769 0.00 0.00 42.48 3.02
568 577 7.630242 TGAATCTCTCAACAACAAGAAAACT 57.370 32.000 0.00 0.00 0.00 2.66
571 580 5.496556 TCTCTCAACAACAAGAAAACTCCA 58.503 37.500 0.00 0.00 0.00 3.86
601 610 2.881352 GAAGTTCTCGCGCTCCGG 60.881 66.667 5.56 0.00 37.59 5.14
602 611 4.436998 AAGTTCTCGCGCTCCGGG 62.437 66.667 5.56 0.00 41.10 5.73
604 613 4.736896 GTTCTCGCGCTCCGGGTT 62.737 66.667 5.56 0.00 40.60 4.11
605 614 3.998672 TTCTCGCGCTCCGGGTTT 61.999 61.111 5.56 0.00 40.60 3.27
606 615 2.638354 TTCTCGCGCTCCGGGTTTA 61.638 57.895 5.56 0.00 40.60 2.01
607 616 2.552585 TTCTCGCGCTCCGGGTTTAG 62.553 60.000 5.56 0.00 40.60 1.85
608 617 3.060020 CTCGCGCTCCGGGTTTAGA 62.060 63.158 5.56 0.00 40.60 2.10
609 618 2.125832 CGCGCTCCGGGTTTAGAA 60.126 61.111 5.56 0.00 35.14 2.10
671 680 4.101942 GTGTGCATTCGAAACTGAAACAA 58.898 39.130 0.00 0.00 0.00 2.83
675 684 3.182372 GCATTCGAAACTGAAACAAAGCC 59.818 43.478 0.00 0.00 0.00 4.35
688 700 3.429372 AAAGCCCCTCGCACACCAA 62.429 57.895 0.00 0.00 41.38 3.67
728 750 1.666189 GAGCATACAACGGGCTTCTTC 59.334 52.381 0.00 0.00 38.15 2.87
751 773 1.716050 CAATATCGACGATGCTCACGG 59.284 52.381 20.42 0.00 34.93 4.94
753 775 0.028902 TATCGACGATGCTCACGGTG 59.971 55.000 20.42 0.56 34.93 4.94
759 781 0.031314 CGATGCTCACGGTGATAGCT 59.969 55.000 19.16 8.32 37.16 3.32
950 998 4.026293 CATATATGCAACGTTTGTGCCA 57.974 40.909 8.16 0.00 0.00 4.92
951 999 4.609947 CATATATGCAACGTTTGTGCCAT 58.390 39.130 8.16 4.63 0.00 4.40
952 1000 2.344504 TATGCAACGTTTGTGCCATG 57.655 45.000 8.16 0.00 0.00 3.66
954 1002 1.067250 GCAACGTTTGTGCCATGGT 59.933 52.632 14.67 0.00 0.00 3.55
955 1003 0.312416 GCAACGTTTGTGCCATGGTA 59.688 50.000 14.67 5.86 0.00 3.25
956 1004 1.665735 GCAACGTTTGTGCCATGGTAG 60.666 52.381 14.67 0.00 0.00 3.18
957 1005 1.068610 CAACGTTTGTGCCATGGTAGG 60.069 52.381 14.67 2.81 0.00 3.18
959 1007 1.312371 CGTTTGTGCCATGGTAGGGG 61.312 60.000 14.67 0.00 0.00 4.79
960 1008 0.039035 GTTTGTGCCATGGTAGGGGA 59.961 55.000 14.67 0.00 0.00 4.81
961 1009 1.006813 TTTGTGCCATGGTAGGGGAT 58.993 50.000 14.67 0.00 0.00 3.85
962 1010 1.900254 TTGTGCCATGGTAGGGGATA 58.100 50.000 14.67 0.00 0.00 2.59
977 1036 2.825532 GGGGATACACACACTGCAAAAT 59.174 45.455 0.00 0.00 42.67 1.82
978 1037 3.119495 GGGGATACACACACTGCAAAATC 60.119 47.826 0.00 0.00 42.67 2.17
979 1038 3.119495 GGGATACACACACTGCAAAATCC 60.119 47.826 0.00 0.00 39.74 3.01
1021 1080 2.191375 CGATGCTGATGGGCAGGT 59.809 61.111 0.00 0.00 45.75 4.00
1096 1155 1.745141 CGCCCTACTACGTCTACAGGT 60.745 57.143 0.00 0.00 0.00 4.00
1133 1192 2.939261 GCTCCGTCTTCCCCGACAA 61.939 63.158 0.00 0.00 33.54 3.18
1196 1255 2.530177 CATAGGCGAGGTATGCATACG 58.470 52.381 26.38 18.18 30.74 3.06
1203 1262 3.364023 GCGAGGTATGCATACGTTACATC 59.636 47.826 27.59 15.33 34.11 3.06
1205 1264 4.381863 CGAGGTATGCATACGTTACATCAC 59.618 45.833 27.59 14.93 34.11 3.06
1225 1287 1.066303 CAGCATACGTCTCTCCAGGAC 59.934 57.143 0.00 0.00 0.00 3.85
1437 1549 4.379243 CAAGCCCGACGACTGCCT 62.379 66.667 0.00 0.00 0.00 4.75
1468 1580 0.319297 ACGACACGGTTGCCTACTTC 60.319 55.000 0.00 0.00 0.00 3.01
1486 1598 5.723672 ACTTCGGAAGATGTAAGTCTGAA 57.276 39.130 23.74 0.00 45.35 3.02
1502 1614 5.366460 AGTCTGAACTGAATGGCATCTATG 58.634 41.667 0.00 0.00 33.32 2.23
1503 1615 6.202439 AGTCTGAACTGAATGGCATCTATGC 61.202 44.000 0.00 6.38 42.99 3.14
1520 1643 6.169557 TCTATGCCACCGTAGACAAATATT 57.830 37.500 0.00 0.00 35.24 1.28
1522 1645 2.680841 TGCCACCGTAGACAAATATTGC 59.319 45.455 0.00 0.00 0.00 3.56
1531 1654 7.715249 ACCGTAGACAAATATTGCTACATGAAT 59.285 33.333 16.89 0.00 38.76 2.57
1536 1659 9.807649 AGACAAATATTGCTACATGAATTTTCC 57.192 29.630 0.00 0.00 0.00 3.13
1543 1666 7.945033 TTGCTACATGAATTTTCCTGAAAAC 57.055 32.000 7.18 0.00 42.32 2.43
1544 1667 7.048629 TGCTACATGAATTTTCCTGAAAACA 57.951 32.000 7.18 3.25 42.32 2.83
1545 1668 7.147312 TGCTACATGAATTTTCCTGAAAACAG 58.853 34.615 7.18 0.00 42.32 3.16
1546 1669 7.147976 GCTACATGAATTTTCCTGAAAACAGT 58.852 34.615 7.18 5.21 42.32 3.55
1547 1670 8.296713 GCTACATGAATTTTCCTGAAAACAGTA 58.703 33.333 7.18 5.91 42.32 2.74
1548 1671 9.831737 CTACATGAATTTTCCTGAAAACAGTAG 57.168 33.333 7.18 10.36 42.32 2.57
1549 1672 8.463930 ACATGAATTTTCCTGAAAACAGTAGA 57.536 30.769 7.18 0.00 42.32 2.59
1550 1673 9.082313 ACATGAATTTTCCTGAAAACAGTAGAT 57.918 29.630 7.18 0.00 42.32 1.98
1551 1674 9.918630 CATGAATTTTCCTGAAAACAGTAGATT 57.081 29.630 7.18 0.00 42.32 2.40
1600 1723 8.743085 ATTCATGTAAGTGCTTAATGATCACT 57.257 30.769 0.00 0.00 42.28 3.41
1601 1724 7.543947 TCATGTAAGTGCTTAATGATCACTG 57.456 36.000 0.00 0.00 40.54 3.66
1602 1725 6.539826 TCATGTAAGTGCTTAATGATCACTGG 59.460 38.462 0.00 0.00 40.54 4.00
1603 1726 5.185454 TGTAAGTGCTTAATGATCACTGGG 58.815 41.667 0.00 0.00 40.54 4.45
1604 1727 4.574674 AAGTGCTTAATGATCACTGGGA 57.425 40.909 0.00 0.00 40.54 4.37
1605 1728 4.785346 AGTGCTTAATGATCACTGGGAT 57.215 40.909 0.00 0.00 39.36 3.85
1606 1729 5.121380 AGTGCTTAATGATCACTGGGATT 57.879 39.130 0.00 0.00 39.36 3.01
1607 1730 5.513233 AGTGCTTAATGATCACTGGGATTT 58.487 37.500 0.00 0.00 39.36 2.17
1608 1731 5.954150 AGTGCTTAATGATCACTGGGATTTT 59.046 36.000 0.00 0.00 39.36 1.82
1609 1732 6.438425 AGTGCTTAATGATCACTGGGATTTTT 59.562 34.615 0.00 0.00 39.36 1.94
1610 1733 6.532657 GTGCTTAATGATCACTGGGATTTTTG 59.467 38.462 0.00 0.00 36.00 2.44
1611 1734 6.044682 GCTTAATGATCACTGGGATTTTTGG 58.955 40.000 0.00 0.00 36.00 3.28
1612 1735 6.351286 GCTTAATGATCACTGGGATTTTTGGT 60.351 38.462 0.00 0.00 36.00 3.67
1613 1736 5.410355 AATGATCACTGGGATTTTTGGTG 57.590 39.130 0.00 0.00 36.00 4.17
1614 1737 4.111255 TGATCACTGGGATTTTTGGTGA 57.889 40.909 0.00 0.00 40.43 4.02
1615 1738 4.478203 TGATCACTGGGATTTTTGGTGAA 58.522 39.130 0.00 0.00 39.75 3.18
1616 1739 5.085920 TGATCACTGGGATTTTTGGTGAAT 58.914 37.500 0.00 0.00 39.75 2.57
1617 1740 5.185635 TGATCACTGGGATTTTTGGTGAATC 59.814 40.000 0.00 0.00 39.75 2.52
1618 1741 4.478203 TCACTGGGATTTTTGGTGAATCA 58.522 39.130 0.00 0.00 35.66 2.57
1619 1742 5.085920 TCACTGGGATTTTTGGTGAATCAT 58.914 37.500 0.00 0.00 35.66 2.45
1620 1743 6.252233 TCACTGGGATTTTTGGTGAATCATA 58.748 36.000 0.00 0.00 35.66 2.15
1621 1744 6.896860 TCACTGGGATTTTTGGTGAATCATAT 59.103 34.615 0.00 0.00 35.66 1.78
1622 1745 7.068593 TCACTGGGATTTTTGGTGAATCATATC 59.931 37.037 0.00 0.00 35.66 1.63
1623 1746 6.896860 ACTGGGATTTTTGGTGAATCATATCA 59.103 34.615 0.00 0.00 35.66 2.15
1624 1747 7.399765 ACTGGGATTTTTGGTGAATCATATCAA 59.600 33.333 0.00 0.00 35.66 2.57
1625 1748 7.784037 TGGGATTTTTGGTGAATCATATCAAG 58.216 34.615 0.00 0.00 35.66 3.02
1626 1749 7.618907 TGGGATTTTTGGTGAATCATATCAAGA 59.381 33.333 0.00 0.00 35.66 3.02
1627 1750 8.645110 GGGATTTTTGGTGAATCATATCAAGAT 58.355 33.333 0.00 0.00 35.66 2.40
1631 1754 9.859427 TTTTTGGTGAATCATATCAAGATTGAC 57.141 29.630 0.00 0.00 40.49 3.18
1632 1755 6.849588 TGGTGAATCATATCAAGATTGACG 57.150 37.500 0.00 0.00 39.49 4.35
1667 1790 4.459337 GGATCACCGGAACTTTCTTTTGAT 59.541 41.667 9.46 1.81 0.00 2.57
1669 1792 4.204012 TCACCGGAACTTTCTTTTGATGT 58.796 39.130 9.46 0.00 0.00 3.06
1672 1795 3.308530 CGGAACTTTCTTTTGATGTGCC 58.691 45.455 0.00 0.00 31.60 5.01
1675 1798 3.375782 ACTTTCTTTTGATGTGCCTGC 57.624 42.857 0.00 0.00 0.00 4.85
1751 1874 0.528470 GAAGAGGTGGAGGACGTGAG 59.472 60.000 0.00 0.00 0.00 3.51
1775 1898 3.914312 ACTTCAGAACACTGATGGTACG 58.086 45.455 14.34 0.00 39.85 3.67
1778 1901 2.036604 TCAGAACACTGATGGTACGCAA 59.963 45.455 0.00 0.00 36.00 4.85
1816 1940 2.489971 TCTTCACACAAACTTAGGGCG 58.510 47.619 0.00 0.00 0.00 6.13
1817 1941 2.103432 TCTTCACACAAACTTAGGGCGA 59.897 45.455 0.00 0.00 0.00 5.54
1818 1942 1.873698 TCACACAAACTTAGGGCGAC 58.126 50.000 0.00 0.00 0.00 5.19
1819 1943 1.139256 TCACACAAACTTAGGGCGACA 59.861 47.619 0.00 0.00 0.00 4.35
1820 1944 1.944024 CACACAAACTTAGGGCGACAA 59.056 47.619 0.00 0.00 0.00 3.18
1821 1945 2.552315 CACACAAACTTAGGGCGACAAT 59.448 45.455 0.00 0.00 0.00 2.71
1822 1946 2.552315 ACACAAACTTAGGGCGACAATG 59.448 45.455 0.00 0.00 0.00 2.82
1823 1947 2.811431 CACAAACTTAGGGCGACAATGA 59.189 45.455 0.00 0.00 0.00 2.57
1824 1948 3.074412 ACAAACTTAGGGCGACAATGAG 58.926 45.455 0.00 0.00 0.00 2.90
1825 1949 3.074412 CAAACTTAGGGCGACAATGAGT 58.926 45.455 0.00 0.00 0.00 3.41
1826 1950 2.386661 ACTTAGGGCGACAATGAGTG 57.613 50.000 0.00 0.00 0.00 3.51
1827 1951 1.899814 ACTTAGGGCGACAATGAGTGA 59.100 47.619 0.00 0.00 0.00 3.41
1837 1965 4.742417 CGACAATGAGTGAGAATCTGACT 58.258 43.478 1.10 1.10 34.92 3.41
1839 1967 5.288232 CGACAATGAGTGAGAATCTGACTTC 59.712 44.000 3.49 0.00 34.92 3.01
1866 2000 1.747444 AGGACATCAACTTCTGGGGT 58.253 50.000 0.00 0.00 0.00 4.95
1926 2060 2.493273 AAACCCATGGCCGGATCGTT 62.493 55.000 5.05 0.00 0.00 3.85
1993 2132 3.217599 TCTACAATGTCTGTGACGAGC 57.782 47.619 0.00 0.00 39.20 5.03
2002 2141 3.692406 GTGACGAGCCCCTTCCGT 61.692 66.667 0.00 0.00 39.41 4.69
2047 2194 1.271652 TGCACGGGTACAATGTGGAAT 60.272 47.619 11.70 0.00 34.24 3.01
2066 2213 6.646240 GTGGAATTGTTGCTAATGTGAAATGT 59.354 34.615 0.00 0.00 0.00 2.71
2072 2219 7.503521 TGTTGCTAATGTGAAATGTCTGTTA 57.496 32.000 0.00 0.00 0.00 2.41
2115 2262 2.857618 CAGCGGCGCTAAATTTTTACA 58.142 42.857 35.90 0.00 36.40 2.41
2123 2270 4.201363 GCGCTAAATTTTTACAACACGCTC 60.201 41.667 0.00 0.00 39.52 5.03
2144 2291 4.115199 ATGGAGCTTGGCGGGGAC 62.115 66.667 0.00 0.00 0.00 4.46
2219 2366 1.661463 AGATGCTCACCAAGGAAGGA 58.339 50.000 0.00 0.00 0.00 3.36
2286 2434 5.238432 GCCACATGATATTATTGTTCGACCA 59.762 40.000 0.00 0.00 0.00 4.02
2303 2451 3.552068 CGACCACGGTAGCATCATATCAA 60.552 47.826 0.00 0.00 35.72 2.57
2318 2466 8.912658 GCATCATATCAATTCATGTTGTTGATC 58.087 33.333 18.91 0.00 40.61 2.92
2336 2486 6.704937 TGTTGATCTAGCTGATTGTGATCATC 59.295 38.462 0.00 6.23 41.73 2.92
2403 2553 0.673644 CAAAGACGGCGGTGAAGGAT 60.674 55.000 13.24 0.00 0.00 3.24
2446 2596 1.303888 TTCGAGCCGAGGTGGTACT 60.304 57.895 0.00 0.00 41.21 2.73
2478 2628 1.059584 TGTTCAGGGTCTGCTTCCCA 61.060 55.000 12.44 0.00 46.82 4.37
2520 2670 1.666011 GCTCCTGACCGTGAAGACA 59.334 57.895 0.00 0.00 0.00 3.41
2679 2830 1.471119 TGTAGGAAGCCCACTACGAG 58.529 55.000 0.00 0.00 41.84 4.18
2719 3029 4.828704 TGAAGCTTTGTCGAACTAAAACG 58.171 39.130 0.00 0.00 0.00 3.60
2814 3206 2.367241 TCGTCTGAAATCCAGTGGACAA 59.633 45.455 15.86 0.00 43.38 3.18
2886 3279 5.949354 TGAGTTACCGAATTGGGAATTTGAT 59.051 36.000 14.12 0.00 44.48 2.57
2899 3629 2.572191 ATTTGATGCGGCTTGTCATG 57.428 45.000 0.00 0.00 0.00 3.07
2901 3631 0.522626 TTGATGCGGCTTGTCATGTG 59.477 50.000 0.00 0.00 0.00 3.21
2910 3640 1.401552 GCTTGTCATGTGTGTGTGTGT 59.598 47.619 0.00 0.00 0.00 3.72
2911 3641 2.159393 GCTTGTCATGTGTGTGTGTGTT 60.159 45.455 0.00 0.00 0.00 3.32
2918 3648 1.379176 TGTGTGTGTGTTGGTGGGG 60.379 57.895 0.00 0.00 0.00 4.96
2966 3728 8.611051 ACCTAGACCTAATCACTATTTCAGTT 57.389 34.615 0.00 0.00 34.26 3.16
2985 3747 7.294676 TCAGTTCGACATACATTCATTTGAG 57.705 36.000 0.00 0.00 0.00 3.02
2987 3749 4.777140 TCGACATACATTCATTTGAGCG 57.223 40.909 0.00 0.00 0.00 5.03
3007 3769 3.120923 GCGTCGACTAATTTCGGACAAAA 60.121 43.478 14.70 0.00 39.58 2.44
3057 4805 1.550976 GACAGAGGGATTCTTGACGGT 59.449 52.381 0.00 0.00 32.41 4.83
3077 4825 4.488879 GGTCAGGTGAATTCTTGAATTGC 58.511 43.478 12.62 6.15 0.00 3.56
3079 4827 4.219288 GTCAGGTGAATTCTTGAATTGCCT 59.781 41.667 12.62 14.82 0.00 4.75
3159 4908 0.034863 TAGTTCCAATCCCCCAACGC 60.035 55.000 0.00 0.00 0.00 4.84
3170 4919 1.140852 CCCCCAACGCATAGAAGATGA 59.859 52.381 0.00 0.00 0.00 2.92
3181 4930 7.706159 ACGCATAGAAGATGAAAAATAATGCA 58.294 30.769 0.00 0.00 37.61 3.96
3234 5126 4.023279 AGCTACTGCGTGAATCAGAGATAG 60.023 45.833 0.00 0.00 45.42 2.08
3239 5131 5.072040 TGCGTGAATCAGAGATAGTGAAA 57.928 39.130 0.00 0.00 0.00 2.69
3259 5160 8.526147 AGTGAAAACATTTTATAGCAGAAGCAT 58.474 29.630 0.00 0.00 45.49 3.79
3274 5175 5.520288 GCAGAAGCATAGATGTAAAACGAGA 59.480 40.000 0.00 0.00 41.58 4.04
3346 5261 4.388165 GCATATCAAGATCAGGACGATGTG 59.612 45.833 0.00 0.00 33.17 3.21
3382 5297 2.096496 CGAGCAAAAAGGCTGACCATAG 59.904 50.000 0.00 0.00 45.99 2.23
3383 5298 3.347216 GAGCAAAAAGGCTGACCATAGA 58.653 45.455 0.00 0.00 45.99 1.98
3389 5304 1.144057 GGCTGACCATAGACACGGG 59.856 63.158 0.00 0.00 35.26 5.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 7.742089 CGACAACTTCTACAGAATCAAATCAAC 59.258 37.037 0.00 0.00 33.01 3.18
38 39 6.682113 GCATGAGCATGGTTTGATTCTGTAAT 60.682 38.462 12.00 0.00 41.58 1.89
72 73 2.952783 GCCTGCATTTGCGCGATG 60.953 61.111 12.10 16.58 45.83 3.84
73 74 3.117175 GAGCCTGCATTTGCGCGAT 62.117 57.895 12.10 0.00 45.83 4.58
74 75 3.803082 GAGCCTGCATTTGCGCGA 61.803 61.111 12.10 0.00 45.83 5.87
75 76 4.105733 TGAGCCTGCATTTGCGCG 62.106 61.111 0.00 0.00 45.83 6.86
76 77 2.202570 CTGAGCCTGCATTTGCGC 60.203 61.111 0.00 0.00 45.83 6.09
77 78 2.338015 ACCTGAGCCTGCATTTGCG 61.338 57.895 0.00 0.00 45.83 4.85
83 84 4.025858 GCCTCACCTGAGCCTGCA 62.026 66.667 0.00 0.00 40.75 4.41
97 98 3.953775 CACCACCGGGAACAGCCT 61.954 66.667 6.32 0.00 38.05 4.58
138 139 2.795973 CAGACCGCGTCCACGATA 59.204 61.111 4.92 0.00 43.02 2.92
197 198 3.959991 GACCGCCAGAGGAACAGCC 62.960 68.421 0.00 0.00 34.73 4.85
285 286 2.506061 CCTCCTCGCCCTCATCTGG 61.506 68.421 0.00 0.00 0.00 3.86
357 358 2.403252 ACTCCCATTTGATGTCCGAC 57.597 50.000 0.00 0.00 0.00 4.79
363 364 4.687948 CGTAGCATCTACTCCCATTTGATG 59.312 45.833 0.00 0.00 37.96 3.07
370 371 2.430248 TCACGTAGCATCTACTCCCA 57.570 50.000 0.00 0.00 0.00 4.37
447 448 6.322456 CCATCCATCACTCTTCACTAGAACTA 59.678 42.308 0.00 0.00 30.91 2.24
448 449 5.128499 CCATCCATCACTCTTCACTAGAACT 59.872 44.000 0.00 0.00 30.91 3.01
449 450 5.105146 ACCATCCATCACTCTTCACTAGAAC 60.105 44.000 0.00 0.00 30.91 3.01
450 451 5.026121 ACCATCCATCACTCTTCACTAGAA 58.974 41.667 0.00 0.00 30.91 2.10
451 452 4.614475 ACCATCCATCACTCTTCACTAGA 58.386 43.478 0.00 0.00 0.00 2.43
452 453 5.350504 AACCATCCATCACTCTTCACTAG 57.649 43.478 0.00 0.00 0.00 2.57
453 454 5.013079 ACAAACCATCCATCACTCTTCACTA 59.987 40.000 0.00 0.00 0.00 2.74
454 455 4.202503 ACAAACCATCCATCACTCTTCACT 60.203 41.667 0.00 0.00 0.00 3.41
455 456 4.074970 ACAAACCATCCATCACTCTTCAC 58.925 43.478 0.00 0.00 0.00 3.18
456 457 4.074259 CACAAACCATCCATCACTCTTCA 58.926 43.478 0.00 0.00 0.00 3.02
457 458 4.074970 ACACAAACCATCCATCACTCTTC 58.925 43.478 0.00 0.00 0.00 2.87
458 459 4.104383 ACACAAACCATCCATCACTCTT 57.896 40.909 0.00 0.00 0.00 2.85
459 460 3.795688 ACACAAACCATCCATCACTCT 57.204 42.857 0.00 0.00 0.00 3.24
460 461 5.957842 TTTACACAAACCATCCATCACTC 57.042 39.130 0.00 0.00 0.00 3.51
461 462 6.916360 AATTTACACAAACCATCCATCACT 57.084 33.333 0.00 0.00 0.00 3.41
462 463 9.139174 CTTAAATTTACACAAACCATCCATCAC 57.861 33.333 0.00 0.00 0.00 3.06
463 464 8.865090 ACTTAAATTTACACAAACCATCCATCA 58.135 29.630 0.00 0.00 0.00 3.07
495 496 9.409949 GAAACAAAATCATACTTAGTTCGATCG 57.590 33.333 9.36 9.36 0.00 3.69
528 529 9.401058 TGAGAGATTCAAAAGAAGAGAGTTTTT 57.599 29.630 0.00 0.00 31.34 1.94
555 556 7.610865 TCAAAAGAATGGAGTTTTCTTGTTGT 58.389 30.769 0.00 0.00 41.38 3.32
571 580 5.617751 CGCGAGAACTTCCATTCAAAAGAAT 60.618 40.000 0.00 0.00 0.00 2.40
589 598 3.060020 CTAAACCCGGAGCGCGAGA 62.060 63.158 12.10 0.00 0.00 4.04
608 617 9.956720 CACTGTGAACAAATCTTCTTTCTAATT 57.043 29.630 0.32 0.00 0.00 1.40
609 618 8.078596 GCACTGTGAACAAATCTTCTTTCTAAT 58.921 33.333 12.86 0.00 0.00 1.73
633 642 0.542467 ACACCCATCCATTTGCAGCA 60.542 50.000 0.00 0.00 0.00 4.41
671 680 2.920076 TTTTGGTGTGCGAGGGGCTT 62.920 55.000 0.00 0.00 44.05 4.35
728 750 2.983136 GTGAGCATCGTCGATATTGGAG 59.017 50.000 7.56 0.00 38.61 3.86
751 773 0.580578 CGCATGCACAGAGCTATCAC 59.419 55.000 19.57 0.00 45.94 3.06
753 775 1.839598 GCCGCATGCACAGAGCTATC 61.840 60.000 19.57 0.00 45.94 2.08
950 998 2.771943 CAGTGTGTGTATCCCCTACCAT 59.228 50.000 0.00 0.00 0.00 3.55
951 999 2.184533 CAGTGTGTGTATCCCCTACCA 58.815 52.381 0.00 0.00 0.00 3.25
952 1000 1.134491 GCAGTGTGTGTATCCCCTACC 60.134 57.143 0.00 0.00 0.00 3.18
954 1002 1.945580 TGCAGTGTGTGTATCCCCTA 58.054 50.000 0.00 0.00 0.00 3.53
955 1003 1.064003 TTGCAGTGTGTGTATCCCCT 58.936 50.000 0.00 0.00 0.00 4.79
956 1004 1.904287 TTTGCAGTGTGTGTATCCCC 58.096 50.000 0.00 0.00 0.00 4.81
957 1005 3.119495 GGATTTTGCAGTGTGTGTATCCC 60.119 47.826 0.00 0.00 0.00 3.85
959 1007 4.475944 GTGGATTTTGCAGTGTGTGTATC 58.524 43.478 0.00 0.00 0.00 2.24
960 1008 3.255642 GGTGGATTTTGCAGTGTGTGTAT 59.744 43.478 0.00 0.00 0.00 2.29
961 1009 2.621055 GGTGGATTTTGCAGTGTGTGTA 59.379 45.455 0.00 0.00 0.00 2.90
962 1010 1.408702 GGTGGATTTTGCAGTGTGTGT 59.591 47.619 0.00 0.00 0.00 3.72
977 1036 2.525629 TCCTTGCCGACAGGTGGA 60.526 61.111 0.00 0.00 40.50 4.02
978 1037 2.358737 GTCCTTGCCGACAGGTGG 60.359 66.667 0.00 0.00 40.50 4.61
979 1038 2.738521 CGTCCTTGCCGACAGGTG 60.739 66.667 0.00 0.00 40.50 4.00
1056 1115 1.153389 GAGGAAGAGCAGGAGCAGC 60.153 63.158 0.00 0.00 45.49 5.25
1063 1122 4.168291 GGGCGGGAGGAAGAGCAG 62.168 72.222 0.00 0.00 0.00 4.24
1096 1155 2.646175 CGAGGAAGGAGGCGGTGAA 61.646 63.158 0.00 0.00 0.00 3.18
1196 1255 4.673441 AGAGACGTATGCTGTGATGTAAC 58.327 43.478 0.00 0.00 0.00 2.50
1203 1262 1.202348 CCTGGAGAGACGTATGCTGTG 60.202 57.143 0.00 0.00 0.00 3.66
1205 1264 1.066303 GTCCTGGAGAGACGTATGCTG 59.934 57.143 0.00 0.00 0.00 4.41
1225 1287 5.235186 CCGTATAGAAAAGGTGAAGCATCTG 59.765 44.000 0.00 0.00 0.00 2.90
1257 1368 7.254795 GCTACACACACAAACAAGAAACTAGAT 60.255 37.037 0.00 0.00 0.00 1.98
1258 1369 6.036735 GCTACACACACAAACAAGAAACTAGA 59.963 38.462 0.00 0.00 0.00 2.43
1387 1499 1.071471 CAAGACAAGGACGCTGGGT 59.929 57.895 0.00 0.00 0.00 4.51
1437 1549 2.030893 ACCGTGTCGTCGATGAACTTTA 60.031 45.455 9.35 0.00 0.00 1.85
1468 1580 5.060662 TCAGTTCAGACTTACATCTTCCG 57.939 43.478 0.00 0.00 32.54 4.30
1502 1614 2.943033 AGCAATATTTGTCTACGGTGGC 59.057 45.455 0.00 0.00 0.00 5.01
1503 1615 5.113383 TGTAGCAATATTTGTCTACGGTGG 58.887 41.667 11.55 0.00 40.21 4.61
1504 1616 6.478673 TCATGTAGCAATATTTGTCTACGGTG 59.521 38.462 11.55 12.01 40.21 4.94
1505 1617 6.578944 TCATGTAGCAATATTTGTCTACGGT 58.421 36.000 11.55 0.00 40.21 4.83
1506 1618 7.477144 TTCATGTAGCAATATTTGTCTACGG 57.523 36.000 11.55 8.35 40.21 4.02
1512 1635 9.590451 CAGGAAAATTCATGTAGCAATATTTGT 57.410 29.630 0.00 0.00 34.54 2.83
1520 1643 7.048629 TGTTTTCAGGAAAATTCATGTAGCA 57.951 32.000 10.10 3.82 41.64 3.49
1536 1659 9.219603 TGGATTCAGTTAATCTACTGTTTTCAG 57.780 33.333 0.00 0.00 46.06 3.02
1574 1697 9.836864 AGTGATCATTAAGCACTTACATGAATA 57.163 29.630 0.00 7.75 39.69 1.75
1575 1698 8.618677 CAGTGATCATTAAGCACTTACATGAAT 58.381 33.333 0.00 7.52 40.63 2.57
1576 1699 7.066163 CCAGTGATCATTAAGCACTTACATGAA 59.934 37.037 0.00 0.00 40.63 2.57
1577 1700 6.539826 CCAGTGATCATTAAGCACTTACATGA 59.460 38.462 0.00 13.03 40.63 3.07
1578 1701 6.238566 CCCAGTGATCATTAAGCACTTACATG 60.239 42.308 0.00 0.00 40.63 3.21
1579 1702 5.824624 CCCAGTGATCATTAAGCACTTACAT 59.175 40.000 0.00 0.00 40.63 2.29
1580 1703 5.045942 TCCCAGTGATCATTAAGCACTTACA 60.046 40.000 0.00 0.00 40.63 2.41
1581 1704 5.428253 TCCCAGTGATCATTAAGCACTTAC 58.572 41.667 0.00 0.00 40.63 2.34
1582 1705 5.692115 TCCCAGTGATCATTAAGCACTTA 57.308 39.130 0.00 0.00 40.63 2.24
1583 1706 4.574674 TCCCAGTGATCATTAAGCACTT 57.425 40.909 0.00 0.00 40.63 3.16
1584 1707 4.785346 ATCCCAGTGATCATTAAGCACT 57.215 40.909 0.00 0.00 43.16 4.40
1585 1708 5.841957 AAATCCCAGTGATCATTAAGCAC 57.158 39.130 0.00 0.00 31.61 4.40
1586 1709 6.351202 CCAAAAATCCCAGTGATCATTAAGCA 60.351 38.462 0.00 0.00 31.61 3.91
1587 1710 6.044682 CCAAAAATCCCAGTGATCATTAAGC 58.955 40.000 0.00 0.00 31.61 3.09
1588 1711 7.037438 CACCAAAAATCCCAGTGATCATTAAG 58.963 38.462 0.00 0.00 31.61 1.85
1589 1712 6.723515 TCACCAAAAATCCCAGTGATCATTAA 59.276 34.615 0.00 0.00 32.75 1.40
1590 1713 6.252233 TCACCAAAAATCCCAGTGATCATTA 58.748 36.000 0.00 0.00 32.75 1.90
1591 1714 5.085920 TCACCAAAAATCCCAGTGATCATT 58.914 37.500 0.00 0.00 32.75 2.57
1592 1715 4.676109 TCACCAAAAATCCCAGTGATCAT 58.324 39.130 0.00 0.00 32.75 2.45
1593 1716 4.111255 TCACCAAAAATCCCAGTGATCA 57.889 40.909 0.00 0.00 32.75 2.92
1594 1717 5.185635 TGATTCACCAAAAATCCCAGTGATC 59.814 40.000 0.00 0.00 37.32 2.92
1595 1718 5.085920 TGATTCACCAAAAATCCCAGTGAT 58.914 37.500 0.00 0.00 37.32 3.06
1596 1719 4.478203 TGATTCACCAAAAATCCCAGTGA 58.522 39.130 0.00 0.00 35.75 3.41
1597 1720 4.870123 TGATTCACCAAAAATCCCAGTG 57.130 40.909 0.00 0.00 33.13 3.66
1598 1721 6.896860 TGATATGATTCACCAAAAATCCCAGT 59.103 34.615 0.00 0.00 33.13 4.00
1599 1722 7.350744 TGATATGATTCACCAAAAATCCCAG 57.649 36.000 0.00 0.00 33.13 4.45
1600 1723 7.618907 TCTTGATATGATTCACCAAAAATCCCA 59.381 33.333 0.00 0.00 33.13 4.37
1601 1724 8.010733 TCTTGATATGATTCACCAAAAATCCC 57.989 34.615 0.00 0.00 33.13 3.85
1605 1728 9.859427 GTCAATCTTGATATGATTCACCAAAAA 57.141 29.630 0.00 0.00 39.73 1.94
1606 1729 8.183536 CGTCAATCTTGATATGATTCACCAAAA 58.816 33.333 0.00 0.00 39.73 2.44
1607 1730 7.552330 TCGTCAATCTTGATATGATTCACCAAA 59.448 33.333 0.00 0.00 39.73 3.28
1608 1731 7.047271 TCGTCAATCTTGATATGATTCACCAA 58.953 34.615 0.00 0.00 39.73 3.67
1609 1732 6.581712 TCGTCAATCTTGATATGATTCACCA 58.418 36.000 0.00 0.00 39.73 4.17
1610 1733 6.703607 ACTCGTCAATCTTGATATGATTCACC 59.296 38.462 0.00 0.00 39.73 4.02
1611 1734 7.223582 ACACTCGTCAATCTTGATATGATTCAC 59.776 37.037 0.00 0.00 39.73 3.18
1612 1735 7.223387 CACACTCGTCAATCTTGATATGATTCA 59.777 37.037 0.00 0.00 39.73 2.57
1613 1736 7.562412 CACACTCGTCAATCTTGATATGATTC 58.438 38.462 0.00 0.00 39.73 2.52
1614 1737 6.018425 GCACACTCGTCAATCTTGATATGATT 60.018 38.462 0.00 0.00 39.73 2.57
1615 1738 5.464722 GCACACTCGTCAATCTTGATATGAT 59.535 40.000 0.00 0.00 39.73 2.45
1616 1739 4.805719 GCACACTCGTCAATCTTGATATGA 59.194 41.667 0.00 0.00 39.73 2.15
1617 1740 4.567959 TGCACACTCGTCAATCTTGATATG 59.432 41.667 0.00 0.00 39.73 1.78
1618 1741 4.758688 TGCACACTCGTCAATCTTGATAT 58.241 39.130 0.00 0.00 39.73 1.63
1619 1742 4.186856 TGCACACTCGTCAATCTTGATA 57.813 40.909 0.00 0.00 39.73 2.15
1620 1743 3.044235 TGCACACTCGTCAATCTTGAT 57.956 42.857 0.00 0.00 39.73 2.57
1621 1744 2.524569 TGCACACTCGTCAATCTTGA 57.475 45.000 0.00 0.00 34.20 3.02
1622 1745 3.722957 CGAATGCACACTCGTCAATCTTG 60.723 47.826 6.53 0.00 0.00 3.02
1623 1746 2.413112 CGAATGCACACTCGTCAATCTT 59.587 45.455 6.53 0.00 0.00 2.40
1624 1747 1.995484 CGAATGCACACTCGTCAATCT 59.005 47.619 6.53 0.00 0.00 2.40
1625 1748 1.061131 CCGAATGCACACTCGTCAATC 59.939 52.381 12.18 0.00 33.17 2.67
1626 1749 1.078709 CCGAATGCACACTCGTCAAT 58.921 50.000 12.18 0.00 33.17 2.57
1627 1750 0.032815 TCCGAATGCACACTCGTCAA 59.967 50.000 12.18 0.00 33.17 3.18
1628 1751 0.246360 ATCCGAATGCACACTCGTCA 59.754 50.000 12.18 1.51 33.17 4.35
1629 1752 0.924090 GATCCGAATGCACACTCGTC 59.076 55.000 12.18 2.91 33.17 4.20
1630 1753 0.246360 TGATCCGAATGCACACTCGT 59.754 50.000 12.18 0.00 33.17 4.18
1631 1754 0.647410 GTGATCCGAATGCACACTCG 59.353 55.000 7.52 7.52 32.96 4.18
1632 1755 1.009829 GGTGATCCGAATGCACACTC 58.990 55.000 0.00 0.00 34.33 3.51
1658 1781 5.472148 CAAATAGCAGGCACATCAAAAGAA 58.528 37.500 0.00 0.00 0.00 2.52
1675 1798 2.489329 CCAAGTGGTCCACTGCAAATAG 59.511 50.000 25.42 9.13 44.62 1.73
1775 1898 0.594796 CTGAAAACGGCCTGTGTTGC 60.595 55.000 0.00 0.00 0.00 4.17
1778 1901 1.021968 GAACTGAAAACGGCCTGTGT 58.978 50.000 0.00 0.00 0.00 3.72
1816 1940 6.310956 CAGAAGTCAGATTCTCACTCATTGTC 59.689 42.308 0.00 0.00 37.43 3.18
1817 1941 6.164876 CAGAAGTCAGATTCTCACTCATTGT 58.835 40.000 0.00 0.00 37.43 2.71
1818 1942 5.063691 GCAGAAGTCAGATTCTCACTCATTG 59.936 44.000 0.00 0.00 37.43 2.82
1819 1943 5.177326 GCAGAAGTCAGATTCTCACTCATT 58.823 41.667 0.00 0.00 37.43 2.57
1820 1944 4.222366 TGCAGAAGTCAGATTCTCACTCAT 59.778 41.667 0.00 0.00 37.43 2.90
1821 1945 3.575687 TGCAGAAGTCAGATTCTCACTCA 59.424 43.478 0.00 0.00 37.43 3.41
1822 1946 3.925913 GTGCAGAAGTCAGATTCTCACTC 59.074 47.826 0.00 0.00 37.43 3.51
1823 1947 3.613671 CGTGCAGAAGTCAGATTCTCACT 60.614 47.826 0.00 0.00 37.43 3.41
1824 1948 2.665537 CGTGCAGAAGTCAGATTCTCAC 59.334 50.000 0.00 0.00 37.43 3.51
1825 1949 2.297315 ACGTGCAGAAGTCAGATTCTCA 59.703 45.455 0.00 0.00 37.43 3.27
1826 1950 2.953020 ACGTGCAGAAGTCAGATTCTC 58.047 47.619 0.00 0.00 37.43 2.87
1827 1951 3.119316 CCTACGTGCAGAAGTCAGATTCT 60.119 47.826 0.00 0.00 40.17 2.40
1837 1965 2.299013 AGTTGATGTCCTACGTGCAGAA 59.701 45.455 0.00 0.00 0.00 3.02
1839 1967 2.370281 AGTTGATGTCCTACGTGCAG 57.630 50.000 0.00 0.00 0.00 4.41
1866 2000 0.973632 AGCGAGTTGGGTACACATGA 59.026 50.000 0.00 0.00 0.00 3.07
1993 2132 1.450312 CTAGCAAGCACGGAAGGGG 60.450 63.158 0.00 0.00 32.68 4.79
2002 2141 8.319737 CATTTCAATGGTTTATGCTAGCAAGCA 61.320 37.037 23.54 20.86 46.18 3.91
2019 2166 3.567576 TTGTACCCGTGCATTTCAATG 57.432 42.857 0.00 0.00 39.40 2.82
2020 2167 3.509575 ACATTGTACCCGTGCATTTCAAT 59.490 39.130 0.00 0.00 0.00 2.57
2047 2194 6.389830 ACAGACATTTCACATTAGCAACAA 57.610 33.333 0.00 0.00 0.00 2.83
2066 2213 1.477700 GCCTGCCATGCAAATAACAGA 59.522 47.619 0.00 0.00 38.41 3.41
2072 2219 3.072486 GCTCGCCTGCCATGCAAAT 62.072 57.895 0.00 0.00 38.41 2.32
2144 2291 1.268589 ACGATCTCTGTAATGCGGACG 60.269 52.381 0.00 0.00 0.00 4.79
2219 2366 4.039245 TCGTCTTGGTCAACTTTCATCTCT 59.961 41.667 0.00 0.00 0.00 3.10
2286 2434 6.233434 ACATGAATTGATATGATGCTACCGT 58.767 36.000 0.00 0.00 0.00 4.83
2303 2451 7.338703 ACAATCAGCTAGATCAACAACATGAAT 59.661 33.333 0.00 0.00 35.39 2.57
2318 2466 3.387397 TGCGATGATCACAATCAGCTAG 58.613 45.455 0.00 0.00 44.40 3.42
2364 2514 3.941657 GAAAGCGGCGACAGGCTCT 62.942 63.158 12.98 0.00 42.94 4.09
2416 2566 0.179169 GGCTCGAACACGTACCTCTC 60.179 60.000 0.00 0.00 0.00 3.20
2446 2596 0.250124 CTGAACAGGTACACCGCCAA 60.250 55.000 0.00 0.00 42.08 4.52
2478 2628 1.765657 GCTCCAGGCCAGGATCTCT 60.766 63.158 18.56 0.00 36.99 3.10
2679 2830 5.595133 AGCTTCATCTTACTACTACCAGACC 59.405 44.000 0.00 0.00 0.00 3.85
2719 3029 5.068234 TGGACATACTAGTACACAAGCAC 57.932 43.478 4.31 0.00 0.00 4.40
2814 3206 4.765856 ACCAAGTAGTGATGTCTTCTACGT 59.234 41.667 0.00 0.00 38.99 3.57
2886 3279 1.525765 ACACACATGACAAGCCGCA 60.526 52.632 0.00 0.00 0.00 5.69
2899 3629 1.662438 CCCCACCAACACACACACAC 61.662 60.000 0.00 0.00 0.00 3.82
2901 3631 2.124693 CCCCCACCAACACACACAC 61.125 63.158 0.00 0.00 0.00 3.82
2918 3648 3.139077 CCTGTAAACTGTCTGTGTTCCC 58.861 50.000 0.00 0.00 0.00 3.97
2927 3689 4.527427 AGGTCTAGGTTCCTGTAAACTGTC 59.473 45.833 1.12 0.00 35.32 3.51
2931 3693 7.040494 GTGATTAGGTCTAGGTTCCTGTAAAC 58.960 42.308 1.12 0.00 35.51 2.01
2966 3728 4.180817 ACGCTCAAATGAATGTATGTCGA 58.819 39.130 0.00 0.00 0.00 4.20
2985 3747 1.621107 TGTCCGAAATTAGTCGACGC 58.379 50.000 10.46 0.00 43.86 5.19
2987 3749 4.687483 TCCTTTTGTCCGAAATTAGTCGAC 59.313 41.667 7.70 7.70 43.86 4.20
3057 4805 4.410099 AGGCAATTCAAGAATTCACCTGA 58.590 39.130 18.76 4.63 38.84 3.86
3170 4919 9.798994 CATCTTCTAGCTCTTTGCATTATTTTT 57.201 29.630 0.00 0.00 45.94 1.94
3234 5126 8.693542 ATGCTTCTGCTATAAAATGTTTTCAC 57.306 30.769 0.00 0.00 40.48 3.18
3239 5131 9.347240 ACATCTATGCTTCTGCTATAAAATGTT 57.653 29.630 0.00 0.00 40.48 2.71
3259 5160 6.365247 GCACTCAGTTTCTCGTTTTACATCTA 59.635 38.462 0.00 0.00 0.00 1.98
3346 5261 1.067915 TGCTCGGTTAATGCAAAAGCC 60.068 47.619 0.00 0.00 33.48 4.35
3382 5297 1.416243 TATGGATACCACCCCGTGTC 58.584 55.000 0.00 0.00 35.80 3.67
3383 5298 1.882308 TTATGGATACCACCCCGTGT 58.118 50.000 0.00 0.00 35.80 4.49
3389 5304 7.418337 AAATTTGGACTTTATGGATACCACC 57.582 36.000 0.00 0.00 35.80 4.61
3558 5473 1.170442 GGTGTGTATGTTTTCCCCCG 58.830 55.000 0.00 0.00 0.00 5.73


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

AutoCloner maintained by Alex Coulton.