Multiple sequence alignment - TraesCS6A01G278400

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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 TraesCS6A01G278400 chr6A 100.000 4520 0 0 1 4520 506240101 506235582 0.000000e+00 8347.0
1 TraesCS6A01G278400 chr6A 94.968 616 29 2 1 616 120021356 120021969 0.000000e+00 965.0
2 TraesCS6A01G278400 chr6A 94.797 615 27 3 1 615 592641962 592641353 0.000000e+00 953.0
3 TraesCS6A01G278400 chr6A 94.290 613 30 4 1 613 505318757 505319364 0.000000e+00 933.0
4 TraesCS6A01G278400 chr6D 94.517 1459 67 7 1956 3407 365281169 365279717 0.000000e+00 2239.0
5 TraesCS6A01G278400 chr6D 91.835 1139 58 8 3396 4519 365279689 365278571 0.000000e+00 1555.0
6 TraesCS6A01G278400 chr6D 85.672 1012 64 44 978 1956 365282161 365281198 0.000000e+00 990.0
7 TraesCS6A01G278400 chr6D 78.853 279 28 12 685 958 365282473 365282221 4.680000e-35 159.0
8 TraesCS6A01G278400 chr6D 97.143 35 1 0 685 719 365283266 365283232 4.880000e-05 60.2
9 TraesCS6A01G278400 chr6B 92.847 1454 64 16 1960 3407 550079872 550078453 0.000000e+00 2073.0
10 TraesCS6A01G278400 chr6B 93.438 1143 52 10 3396 4519 550078425 550077287 0.000000e+00 1674.0
11 TraesCS6A01G278400 chr6B 84.277 1272 78 61 772 1963 550081130 550079901 0.000000e+00 1129.0
12 TraesCS6A01G278400 chr3A 95.455 616 26 2 1 616 60365783 60365170 0.000000e+00 981.0
13 TraesCS6A01G278400 chr3A 94.156 616 31 4 1 616 107883290 107883900 0.000000e+00 933.0
14 TraesCS6A01G278400 chr4A 95.447 615 26 1 1 615 187660202 187660814 0.000000e+00 979.0
15 TraesCS6A01G278400 chr5A 94.318 616 29 5 1 616 431684773 431684164 0.000000e+00 939.0
16 TraesCS6A01G278400 chr2A 94.156 616 34 2 1 615 652831185 652830571 0.000000e+00 937.0
17 TraesCS6A01G278400 chr2A 94.146 615 31 4 1 615 167505285 167504676 0.000000e+00 931.0


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 TraesCS6A01G278400 chr6A 506235582 506240101 4519 True 8347.000000 8347 100.000000 1 4520 1 chr6A.!!$R1 4519
1 TraesCS6A01G278400 chr6A 120021356 120021969 613 False 965.000000 965 94.968000 1 616 1 chr6A.!!$F1 615
2 TraesCS6A01G278400 chr6A 592641353 592641962 609 True 953.000000 953 94.797000 1 615 1 chr6A.!!$R2 614
3 TraesCS6A01G278400 chr6A 505318757 505319364 607 False 933.000000 933 94.290000 1 613 1 chr6A.!!$F2 612
4 TraesCS6A01G278400 chr6D 365278571 365283266 4695 True 1000.640000 2239 89.604000 685 4519 5 chr6D.!!$R1 3834
5 TraesCS6A01G278400 chr6B 550077287 550081130 3843 True 1625.333333 2073 90.187333 772 4519 3 chr6B.!!$R1 3747
6 TraesCS6A01G278400 chr3A 60365170 60365783 613 True 981.000000 981 95.455000 1 616 1 chr3A.!!$R1 615
7 TraesCS6A01G278400 chr3A 107883290 107883900 610 False 933.000000 933 94.156000 1 616 1 chr3A.!!$F1 615
8 TraesCS6A01G278400 chr4A 187660202 187660814 612 False 979.000000 979 95.447000 1 615 1 chr4A.!!$F1 614
9 TraesCS6A01G278400 chr5A 431684164 431684773 609 True 939.000000 939 94.318000 1 616 1 chr5A.!!$R1 615
10 TraesCS6A01G278400 chr2A 652830571 652831185 614 True 937.000000 937 94.156000 1 615 1 chr2A.!!$R2 614
11 TraesCS6A01G278400 chr2A 167504676 167505285 609 True 931.000000 931 94.146000 1 615 1 chr2A.!!$R1 614

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
683 685 0.107116 GGGGACGCTCTCTCACTCTA 60.107 60.0 0.0 0.0 0.00 2.43 F
1655 1896 0.102481 TAATCCCTCTTCGCTCACGC 59.898 55.0 0.0 0.0 39.84 5.34 F
1802 2043 0.105039 CTCCTCCCCCTTTCGATTCG 59.895 60.0 0.0 0.0 0.00 3.34 F
2341 2615 0.601311 GAGGCAGATATGGACGTGGC 60.601 60.0 0.0 0.0 35.78 5.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1781 2022 0.044244 AATCGAAAGGGGGAGGAGGA 59.956 55.0 0.0 0.0 0.00 3.71 R
2460 2734 0.384725 CAAGAAGAACAACGCCGCAG 60.385 55.0 0.0 0.0 0.00 5.18 R
3271 3556 0.392998 ATGCCCCTAACGAGCAACTG 60.393 55.0 0.0 0.0 40.46 3.16 R
3882 4209 0.324275 TCTTGCTGGGGTTAATGGCC 60.324 55.0 0.0 0.0 0.00 5.36 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
56 57 3.555966 CAACTCTTTCCCCACTCAAACT 58.444 45.455 0.00 0.00 0.00 2.66
111 112 2.723530 CCTAGGGTAGGGTCATGGAT 57.276 55.000 0.00 0.00 42.42 3.41
335 337 0.900421 GTTACCAGTAACGCCCCTCT 59.100 55.000 5.02 0.00 36.47 3.69
402 404 2.288825 GGCGCACTCTATATAAGCCACA 60.289 50.000 10.83 0.00 42.37 4.17
407 409 3.008049 CACTCTATATAAGCCACACCCCC 59.992 52.174 0.00 0.00 0.00 5.40
450 452 5.339990 GCACTTTTGTAAACTCACACACAT 58.660 37.500 0.00 0.00 0.00 3.21
504 506 4.501915 CCAAGACGTAGGGTTGTTACTTCA 60.502 45.833 0.00 0.00 0.00 3.02
535 537 1.126296 GCCTGAACTCGTAAAACTCGC 59.874 52.381 0.00 0.00 0.00 5.03
605 607 5.536916 CCCCTATTCTACTGTCAGTCTTAGG 59.463 48.000 9.26 14.09 0.00 2.69
606 608 6.366340 CCCTATTCTACTGTCAGTCTTAGGA 58.634 44.000 21.03 7.90 0.00 2.94
617 619 2.095161 CAGTCTTAGGACCACGACAGAC 60.095 54.545 0.61 5.80 43.05 3.51
618 620 1.135746 GTCTTAGGACCACGACAGACG 60.136 57.143 0.00 0.00 40.94 4.18
619 621 0.456312 CTTAGGACCACGACAGACGC 60.456 60.000 0.00 0.00 46.94 5.19
620 622 1.870055 TTAGGACCACGACAGACGCC 61.870 60.000 0.00 0.00 46.94 5.68
621 623 2.759641 TAGGACCACGACAGACGCCT 62.760 60.000 0.00 0.00 46.94 5.52
622 624 2.338015 GGACCACGACAGACGCCTA 61.338 63.158 0.00 0.00 46.94 3.93
623 625 1.154073 GACCACGACAGACGCCTAC 60.154 63.158 0.00 0.00 46.94 3.18
624 626 1.859427 GACCACGACAGACGCCTACA 61.859 60.000 0.00 0.00 46.94 2.74
626 628 1.579932 CACGACAGACGCCTACACT 59.420 57.895 0.00 0.00 46.94 3.55
627 629 0.729478 CACGACAGACGCCTACACTG 60.729 60.000 0.00 0.00 46.94 3.66
635 637 4.808649 GCCTACACTGCGAGGTAC 57.191 61.111 0.00 0.00 35.08 3.34
637 639 1.386533 GCCTACACTGCGAGGTACTA 58.613 55.000 0.00 0.00 41.55 1.82
639 641 1.674962 CCTACACTGCGAGGTACTACC 59.325 57.143 0.00 0.00 41.55 3.18
640 642 1.329906 CTACACTGCGAGGTACTACCG 59.670 57.143 0.00 0.00 44.90 4.02
645 647 2.772691 GCGAGGTACTACCGCTGCT 61.773 63.158 15.79 0.00 44.90 4.24
646 648 1.355916 CGAGGTACTACCGCTGCTC 59.644 63.158 7.32 0.00 44.90 4.26
648 650 0.382515 GAGGTACTACCGCTGCTCTG 59.617 60.000 1.85 0.00 44.90 3.35
649 651 1.038130 AGGTACTACCGCTGCTCTGG 61.038 60.000 0.00 0.00 44.90 3.86
650 652 1.035932 GGTACTACCGCTGCTCTGGA 61.036 60.000 0.00 0.00 0.00 3.86
651 653 1.033574 GTACTACCGCTGCTCTGGAT 58.966 55.000 0.00 0.00 0.00 3.41
652 654 2.228059 GTACTACCGCTGCTCTGGATA 58.772 52.381 0.00 0.00 0.00 2.59
653 655 1.033574 ACTACCGCTGCTCTGGATAC 58.966 55.000 0.00 0.00 0.00 2.24
655 657 1.452953 TACCGCTGCTCTGGATACCG 61.453 60.000 0.00 0.00 0.00 4.02
656 658 2.659897 CGCTGCTCTGGATACCGC 60.660 66.667 0.00 0.00 0.00 5.68
657 659 2.501128 GCTGCTCTGGATACCGCA 59.499 61.111 0.00 0.00 0.00 5.69
658 660 4.746361 CTGCTCTGGATACCGCAG 57.254 61.111 0.00 0.00 42.27 5.18
673 675 3.787001 CAGGGGAAGGGGACGCTC 61.787 72.222 0.00 0.00 0.00 5.03
674 676 4.012721 AGGGGAAGGGGACGCTCT 62.013 66.667 0.00 0.00 0.00 4.09
675 677 3.471806 GGGGAAGGGGACGCTCTC 61.472 72.222 0.00 0.00 0.00 3.20
677 679 2.428085 GGGAAGGGGACGCTCTCTC 61.428 68.421 0.00 0.00 0.00 3.20
678 680 1.682684 GGAAGGGGACGCTCTCTCA 60.683 63.158 0.00 0.00 0.00 3.27
679 681 1.513622 GAAGGGGACGCTCTCTCAC 59.486 63.158 0.00 0.00 0.00 3.51
682 684 1.379309 GGGGACGCTCTCTCACTCT 60.379 63.158 0.00 0.00 0.00 3.24
683 685 0.107116 GGGGACGCTCTCTCACTCTA 60.107 60.000 0.00 0.00 0.00 2.43
684 686 1.477923 GGGGACGCTCTCTCACTCTAT 60.478 57.143 0.00 0.00 0.00 1.98
685 687 1.877443 GGGACGCTCTCTCACTCTATC 59.123 57.143 0.00 0.00 0.00 2.08
686 688 2.486548 GGGACGCTCTCTCACTCTATCT 60.487 54.545 0.00 0.00 0.00 1.98
687 689 3.211045 GGACGCTCTCTCACTCTATCTT 58.789 50.000 0.00 0.00 0.00 2.40
688 690 4.382291 GGACGCTCTCTCACTCTATCTTA 58.618 47.826 0.00 0.00 0.00 2.10
719 829 8.859090 TCATAGGATGAACTTTTGTGAATTTGT 58.141 29.630 0.00 0.00 36.11 2.83
728 838 9.132521 GAACTTTTGTGAATTTGTGATCCTATG 57.867 33.333 0.00 0.00 0.00 2.23
730 840 8.641541 ACTTTTGTGAATTTGTGATCCTATGTT 58.358 29.630 0.00 0.00 0.00 2.71
732 842 6.421377 TGTGAATTTGTGATCCTATGTTCG 57.579 37.500 0.00 0.00 0.00 3.95
754 865 6.837992 TCGGTTAAACTTGCTATGTTTGATC 58.162 36.000 10.80 0.00 38.02 2.92
755 866 6.653320 TCGGTTAAACTTGCTATGTTTGATCT 59.347 34.615 10.80 0.00 38.02 2.75
757 868 7.807907 CGGTTAAACTTGCTATGTTTGATCTTT 59.192 33.333 10.80 0.00 38.02 2.52
758 869 9.476202 GGTTAAACTTGCTATGTTTGATCTTTT 57.524 29.630 10.80 0.00 38.02 2.27
825 936 8.569641 TGGTTATGTCATGTTGTAAGTTAAACC 58.430 33.333 0.00 0.00 0.00 3.27
924 1060 1.227176 GAGTTCGGATACACGGGGC 60.227 63.158 0.00 0.00 0.00 5.80
953 1089 2.159627 CAGGCACGACCAAATGAAGTAC 59.840 50.000 0.00 0.00 43.14 2.73
954 1090 2.038557 AGGCACGACCAAATGAAGTACT 59.961 45.455 0.00 0.00 43.14 2.73
955 1091 2.159627 GGCACGACCAAATGAAGTACTG 59.840 50.000 0.00 0.00 38.86 2.74
956 1092 3.064207 GCACGACCAAATGAAGTACTGA 58.936 45.455 0.00 0.00 0.00 3.41
957 1093 3.684788 GCACGACCAAATGAAGTACTGAT 59.315 43.478 0.00 0.00 0.00 2.90
973 1131 0.108186 TGATGACACGTCTGGATGCC 60.108 55.000 0.00 0.00 0.00 4.40
975 1133 0.615331 ATGACACGTCTGGATGCCTT 59.385 50.000 0.00 0.00 0.00 4.35
1005 1183 6.820656 ACGCTCTTGATACTTCTGAAATGAAT 59.179 34.615 0.00 0.00 0.00 2.57
1008 1186 7.008440 TCTTGATACTTCTGAAATGAATGCG 57.992 36.000 0.00 0.00 0.00 4.73
1025 1203 2.582498 GCGAACCATCCCGACGAG 60.582 66.667 0.00 0.00 0.00 4.18
1040 1218 1.531578 GACGAGGCAAAAGAGTCAACC 59.468 52.381 0.00 0.00 32.57 3.77
1041 1219 1.134220 ACGAGGCAAAAGAGTCAACCA 60.134 47.619 0.00 0.00 0.00 3.67
1191 1390 2.352915 CGGCGAACGCAAAGCAAA 60.353 55.556 20.16 0.00 44.11 3.68
1192 1391 2.356796 CGGCGAACGCAAAGCAAAG 61.357 57.895 20.16 0.00 44.11 2.77
1193 1392 1.299089 GGCGAACGCAAAGCAAAGT 60.299 52.632 20.16 0.00 44.11 2.66
1346 1576 2.780693 CAGTCCTCCTCCTCCCCA 59.219 66.667 0.00 0.00 0.00 4.96
1349 1579 4.075793 TCCTCCTCCTCCCCACCG 62.076 72.222 0.00 0.00 0.00 4.94
1606 1847 2.764547 CCCCCGTCTCCCTTCTCC 60.765 72.222 0.00 0.00 0.00 3.71
1607 1848 2.364961 CCCCGTCTCCCTTCTCCT 59.635 66.667 0.00 0.00 0.00 3.69
1608 1849 1.306226 CCCCGTCTCCCTTCTCCTT 60.306 63.158 0.00 0.00 0.00 3.36
1609 1850 0.910088 CCCCGTCTCCCTTCTCCTTT 60.910 60.000 0.00 0.00 0.00 3.11
1610 1851 0.537653 CCCGTCTCCCTTCTCCTTTC 59.462 60.000 0.00 0.00 0.00 2.62
1611 1852 1.267121 CCGTCTCCCTTCTCCTTTCA 58.733 55.000 0.00 0.00 0.00 2.69
1612 1853 1.066787 CCGTCTCCCTTCTCCTTTCAC 60.067 57.143 0.00 0.00 0.00 3.18
1613 1854 1.896465 CGTCTCCCTTCTCCTTTCACT 59.104 52.381 0.00 0.00 0.00 3.41
1614 1855 3.090037 CGTCTCCCTTCTCCTTTCACTA 58.910 50.000 0.00 0.00 0.00 2.74
1615 1856 3.702045 CGTCTCCCTTCTCCTTTCACTAT 59.298 47.826 0.00 0.00 0.00 2.12
1616 1857 4.202070 CGTCTCCCTTCTCCTTTCACTATC 60.202 50.000 0.00 0.00 0.00 2.08
1618 1859 4.959210 TCTCCCTTCTCCTTTCACTATCTG 59.041 45.833 0.00 0.00 0.00 2.90
1621 1862 4.440880 CCTTCTCCTTTCACTATCTGCTG 58.559 47.826 0.00 0.00 0.00 4.41
1624 1865 3.118847 TCTCCTTTCACTATCTGCTGCTG 60.119 47.826 0.00 0.00 0.00 4.41
1625 1866 2.568956 TCCTTTCACTATCTGCTGCTGT 59.431 45.455 0.00 0.00 0.00 4.40
1627 1868 3.373439 CCTTTCACTATCTGCTGCTGTTC 59.627 47.826 0.00 0.00 0.00 3.18
1641 1882 1.132453 GCTGTTCTTGCCGGTTAATCC 59.868 52.381 1.90 0.00 0.00 3.01
1642 1883 1.743394 CTGTTCTTGCCGGTTAATCCC 59.257 52.381 1.90 0.00 0.00 3.85
1643 1884 1.353022 TGTTCTTGCCGGTTAATCCCT 59.647 47.619 1.90 0.00 0.00 4.20
1644 1885 2.014857 GTTCTTGCCGGTTAATCCCTC 58.985 52.381 1.90 0.00 0.00 4.30
1646 1887 1.913419 TCTTGCCGGTTAATCCCTCTT 59.087 47.619 1.90 0.00 0.00 2.85
1647 1888 2.093128 TCTTGCCGGTTAATCCCTCTTC 60.093 50.000 1.90 0.00 0.00 2.87
1650 1891 0.464452 CCGGTTAATCCCTCTTCGCT 59.536 55.000 0.00 0.00 0.00 4.93
1652 1893 1.136305 CGGTTAATCCCTCTTCGCTCA 59.864 52.381 0.00 0.00 0.00 4.26
1654 1895 2.194271 GTTAATCCCTCTTCGCTCACG 58.806 52.381 0.00 0.00 42.01 4.35
1655 1896 0.102481 TAATCCCTCTTCGCTCACGC 59.898 55.000 0.00 0.00 39.84 5.34
1656 1897 1.608717 AATCCCTCTTCGCTCACGCT 61.609 55.000 0.00 0.00 39.84 5.07
1657 1898 2.010582 ATCCCTCTTCGCTCACGCTC 62.011 60.000 0.00 0.00 39.84 5.03
1658 1899 2.578178 CCTCTTCGCTCACGCTCG 60.578 66.667 0.00 0.00 39.84 5.03
1659 1900 2.177038 CTCTTCGCTCACGCTCGT 59.823 61.111 0.00 0.00 39.84 4.18
1667 1908 2.016704 CTCACGCTCGTGCTCGTTT 61.017 57.895 16.66 0.00 45.04 3.60
1802 2043 0.105039 CTCCTCCCCCTTTCGATTCG 59.895 60.000 0.00 0.00 0.00 3.34
1809 2050 0.804933 CCCTTTCGATTCGTCGTCCC 60.805 60.000 5.89 0.00 0.00 4.46
1956 2198 3.052181 GCTTACGGTGAGCTTCCTC 57.948 57.895 16.71 0.00 37.18 3.71
1958 2200 1.749634 GCTTACGGTGAGCTTCCTCTA 59.250 52.381 16.71 0.00 38.93 2.43
1989 2263 8.425237 TTTTGGGTCTACTAAAATAAAAGGGG 57.575 34.615 0.00 0.00 0.00 4.79
2044 2318 3.840437 TTTTTGTGCAGAGCCGCT 58.160 50.000 0.00 0.00 0.00 5.52
2156 2430 1.207570 GTTGGATTCATGCCATTGCCA 59.792 47.619 0.00 0.00 34.90 4.92
2168 2442 1.273327 CCATTGCCAAAGACCAAGGTC 59.727 52.381 11.29 11.29 44.86 3.85
2219 2493 5.880332 TCTCATTACCTTCCTAAATGTGCAC 59.120 40.000 10.75 10.75 33.35 4.57
2255 2529 6.934645 TGATTGAATTCAGTCTTTCGGTAAGT 59.065 34.615 25.68 0.00 34.22 2.24
2256 2530 6.539649 TTGAATTCAGTCTTTCGGTAAGTG 57.460 37.500 8.41 0.00 35.28 3.16
2268 2542 2.493278 TCGGTAAGTGGTTAGTAGGTGC 59.507 50.000 0.00 0.00 0.00 5.01
2341 2615 0.601311 GAGGCAGATATGGACGTGGC 60.601 60.000 0.00 0.00 35.78 5.01
2346 2620 1.071471 GATATGGACGTGGCTGGGG 59.929 63.158 0.00 0.00 0.00 4.96
2424 2698 1.079819 CGTAGTGCCTGGAGGTGTG 60.080 63.158 0.00 0.00 37.57 3.82
2454 2728 4.528920 TGCTTCACATGGATCATGATTCA 58.471 39.130 19.10 19.10 43.81 2.57
2460 2734 4.755629 CACATGGATCATGATTCAGAGGTC 59.244 45.833 21.16 1.62 43.81 3.85
2520 2798 9.844790 ACATGTTGTTATCAGTCAATTTATGTG 57.155 29.630 0.00 0.00 31.44 3.21
2619 2897 2.904434 GACAGGTTCTCCTTTAGTCCCA 59.096 50.000 0.00 0.00 43.07 4.37
2653 2931 0.763035 ACAGGTAACGCCACCTCTTT 59.237 50.000 5.59 0.00 46.34 2.52
2654 2932 1.972795 ACAGGTAACGCCACCTCTTTA 59.027 47.619 5.59 0.00 46.34 1.85
2674 2955 8.584063 TCTTTATGCCACATGATATGCAATAT 57.416 30.769 0.00 0.00 43.59 1.28
2910 3192 4.879545 GGAAATACGGGTAATGCTCTTGAA 59.120 41.667 0.00 0.00 0.00 2.69
2926 3208 8.320396 TGCTCTTGAATGCATATATCTTCTTC 57.680 34.615 0.00 0.00 33.94 2.87
2975 3257 8.725148 TGATTTGCGTAAATGCCAAATAATTTT 58.275 25.926 16.49 0.00 36.66 1.82
2977 3259 7.426929 TTGCGTAAATGCCAAATAATTTTGT 57.573 28.000 0.00 0.00 40.55 2.83
2988 3270 8.920665 TGCCAAATAATTTTGTTTCAGTATTCG 58.079 29.630 0.00 0.00 40.55 3.34
3271 3556 2.087646 GTCATTCTGGACCAAAGCCTC 58.912 52.381 0.00 0.00 0.00 4.70
3281 3566 0.886490 CCAAAGCCTCAGTTGCTCGT 60.886 55.000 0.00 0.00 38.34 4.18
3287 3572 0.108138 CCTCAGTTGCTCGTTAGGGG 60.108 60.000 0.00 0.00 0.00 4.79
3310 3595 7.285401 GGGGCATCATTTTCTAGATCTGTTTAA 59.715 37.037 5.18 0.00 0.00 1.52
3356 3641 4.681744 TCATGTTGGTTTCTTTGCAACTC 58.318 39.130 0.00 0.00 0.00 3.01
3391 3676 9.150348 AGTTTTGAAACCATGTTCTTGTTTAAG 57.850 29.630 3.14 0.00 39.71 1.85
3468 3792 4.604843 TGCGATGCAAGAACTATTTGAG 57.395 40.909 0.00 0.00 34.76 3.02
3574 3898 1.223187 AGTTGCGTTTACAGGGTTCG 58.777 50.000 0.00 0.00 0.00 3.95
3591 3915 2.107950 TCGGTAGCATTCAAACTGGG 57.892 50.000 0.00 0.00 0.00 4.45
3684 4008 3.060615 GCTCACCTGGCCTTGCAG 61.061 66.667 3.32 0.00 0.00 4.41
3696 4020 3.386078 TGGCCTTGCAGAACACATAAAAA 59.614 39.130 3.32 0.00 0.00 1.94
3741 4065 2.544685 GCTCATAAAGCGCTCAAGAGA 58.455 47.619 24.29 13.69 42.21 3.10
3760 4086 8.004801 TCAAGAGATAAGACATAGGATGTACCA 58.995 37.037 0.00 0.00 45.03 3.25
3873 4200 8.677300 GGATCAAACTTGACAACATGTATACAT 58.323 33.333 12.75 12.75 40.49 2.29
3883 4210 2.416747 CATGTATACATGTCGGCAGGG 58.583 52.381 29.91 8.31 46.40 4.45
3884 4211 0.105964 TGTATACATGTCGGCAGGGC 59.894 55.000 6.63 0.00 0.00 5.19
3885 4212 0.602905 GTATACATGTCGGCAGGGCC 60.603 60.000 6.63 0.00 46.75 5.80
3898 4240 2.362565 GGGCCATTAACCCCAGCA 59.637 61.111 4.39 0.00 42.01 4.41
3932 4274 1.879380 ACCACATGGACATTGTTCACG 59.121 47.619 4.53 0.00 38.94 4.35
3948 4290 9.232082 CATTGTTCACGAACTATTTTTCTTGAA 57.768 29.630 11.01 1.81 39.89 2.69
3969 4311 6.623486 TGAATTAACAGCACATCTCAATTGG 58.377 36.000 5.42 0.00 0.00 3.16
3997 4339 3.009723 AGTACATCTTTTCATGCCACCG 58.990 45.455 0.00 0.00 0.00 4.94
4050 4392 1.005748 CACTGGACTCGCAGCAGAA 60.006 57.895 0.00 0.00 0.00 3.02
4051 4393 0.390866 CACTGGACTCGCAGCAGAAT 60.391 55.000 0.00 0.00 0.00 2.40
4354 4712 2.235155 TCAATAGGCCTAGTGCGAAACA 59.765 45.455 30.87 13.34 42.61 2.83
4470 4828 6.046290 ACTCATCTCAGTGTCATCAAATCA 57.954 37.500 0.00 0.00 0.00 2.57
4519 4877 3.139025 CCATCATGACTAATCCCCTTGGT 59.861 47.826 0.00 0.00 0.00 3.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 1.200020 CTTCCGACCCATTCTTTGTGC 59.800 52.381 0.00 0.00 0.00 4.57
41 42 3.244911 GGATCAGAGTTTGAGTGGGGAAA 60.245 47.826 0.00 0.00 39.68 3.13
56 57 0.105194 TAGCCCCCGAATGGATCAGA 60.105 55.000 0.00 0.00 37.49 3.27
111 112 1.580059 GGGAGGGTATGTTGGACAGA 58.420 55.000 0.00 0.00 0.00 3.41
118 119 1.296002 GTCCTTGGGGAGGGTATGTT 58.704 55.000 0.00 0.00 46.31 2.71
335 337 6.723298 ACACAGGGTTCAATGTTCATAAAA 57.277 33.333 0.00 0.00 0.00 1.52
407 409 0.038310 GAACCCCTGTCCCAAAGGAG 59.962 60.000 0.00 0.00 45.21 3.69
450 452 3.192001 GGCGGTCGACTGGATTATATGTA 59.808 47.826 25.20 0.00 0.00 2.29
504 506 0.618968 AGTTCAGGCCCTTCTCGGAT 60.619 55.000 0.00 0.00 33.16 4.18
535 537 4.634184 AGCTATGGAGTAGTTGTACACG 57.366 45.455 0.00 0.00 32.72 4.49
605 607 1.154073 GTAGGCGTCTGTCGTGGTC 60.154 63.158 0.00 0.00 42.13 4.02
606 608 1.900016 TGTAGGCGTCTGTCGTGGT 60.900 57.895 0.00 0.00 42.13 4.16
618 620 1.065251 GTAGTACCTCGCAGTGTAGGC 59.935 57.143 12.17 0.10 36.24 3.93
619 621 1.674962 GGTAGTACCTCGCAGTGTAGG 59.325 57.143 12.41 11.01 38.93 3.18
620 622 1.329906 CGGTAGTACCTCGCAGTGTAG 59.670 57.143 17.29 0.00 35.66 2.74
621 623 1.372582 CGGTAGTACCTCGCAGTGTA 58.627 55.000 17.29 0.00 35.66 2.90
622 624 2.177950 CGGTAGTACCTCGCAGTGT 58.822 57.895 17.29 0.00 35.66 3.55
629 631 0.382515 CAGAGCAGCGGTAGTACCTC 59.617 60.000 17.29 9.55 35.66 3.85
630 632 1.038130 CCAGAGCAGCGGTAGTACCT 61.038 60.000 17.29 0.00 35.66 3.08
633 635 2.228059 GTATCCAGAGCAGCGGTAGTA 58.772 52.381 0.00 0.00 0.00 1.82
634 636 1.033574 GTATCCAGAGCAGCGGTAGT 58.966 55.000 0.00 0.00 0.00 2.73
635 637 0.315568 GGTATCCAGAGCAGCGGTAG 59.684 60.000 0.00 0.00 0.00 3.18
636 638 1.452953 CGGTATCCAGAGCAGCGGTA 61.453 60.000 0.00 0.00 0.00 4.02
637 639 2.786495 CGGTATCCAGAGCAGCGGT 61.786 63.158 0.00 0.00 0.00 5.68
639 641 2.659897 GCGGTATCCAGAGCAGCG 60.660 66.667 0.00 0.00 36.33 5.18
640 642 2.501128 TGCGGTATCCAGAGCAGC 59.499 61.111 0.00 0.00 34.39 5.25
642 644 2.434843 CCCTGCGGTATCCAGAGCA 61.435 63.158 0.00 0.00 38.03 4.26
643 645 2.423446 CCCTGCGGTATCCAGAGC 59.577 66.667 0.00 0.00 32.03 4.09
645 647 1.002403 TTCCCCTGCGGTATCCAGA 59.998 57.895 0.00 0.00 32.03 3.86
646 648 1.447643 CTTCCCCTGCGGTATCCAG 59.552 63.158 0.00 0.00 0.00 3.86
648 650 2.819284 CCCTTCCCCTGCGGTATCC 61.819 68.421 0.00 0.00 0.00 2.59
649 651 2.819284 CCCCTTCCCCTGCGGTATC 61.819 68.421 0.00 0.00 0.00 2.24
650 652 2.772622 CCCCTTCCCCTGCGGTAT 60.773 66.667 0.00 0.00 0.00 2.73
651 653 4.014075 TCCCCTTCCCCTGCGGTA 62.014 66.667 0.00 0.00 0.00 4.02
656 658 3.787001 GAGCGTCCCCTTCCCCTG 61.787 72.222 0.00 0.00 0.00 4.45
657 659 3.986116 GAGAGCGTCCCCTTCCCCT 62.986 68.421 0.00 0.00 0.00 4.79
658 660 3.471806 GAGAGCGTCCCCTTCCCC 61.472 72.222 0.00 0.00 0.00 4.81
660 662 1.682684 TGAGAGAGCGTCCCCTTCC 60.683 63.158 0.00 0.00 0.00 3.46
661 663 0.968393 AGTGAGAGAGCGTCCCCTTC 60.968 60.000 0.00 0.00 0.00 3.46
662 664 0.968393 GAGTGAGAGAGCGTCCCCTT 60.968 60.000 0.00 0.00 0.00 3.95
663 665 1.379309 GAGTGAGAGAGCGTCCCCT 60.379 63.158 0.00 0.00 0.00 4.79
665 667 1.877443 GATAGAGTGAGAGAGCGTCCC 59.123 57.143 0.00 0.00 0.00 4.46
667 669 5.932303 AGATAAGATAGAGTGAGAGAGCGTC 59.068 44.000 0.00 0.00 0.00 5.19
668 670 5.865085 AGATAAGATAGAGTGAGAGAGCGT 58.135 41.667 0.00 0.00 0.00 5.07
670 672 9.618890 ATGATAGATAAGATAGAGTGAGAGAGC 57.381 37.037 0.00 0.00 0.00 4.09
713 823 7.931578 TTAACCGAACATAGGATCACAAATT 57.068 32.000 0.00 0.00 0.00 1.82
719 829 5.353123 GCAAGTTTAACCGAACATAGGATCA 59.647 40.000 0.00 0.00 31.94 2.92
728 838 6.432107 TCAAACATAGCAAGTTTAACCGAAC 58.568 36.000 0.00 0.00 37.10 3.95
730 840 6.653320 AGATCAAACATAGCAAGTTTAACCGA 59.347 34.615 0.00 0.00 37.10 4.69
732 842 9.476202 AAAAGATCAAACATAGCAAGTTTAACC 57.524 29.630 0.00 0.00 37.10 2.85
757 868 9.549509 GAACATAGCATACGTTATTCACAAAAA 57.450 29.630 0.00 0.00 0.00 1.94
758 869 8.722394 TGAACATAGCATACGTTATTCACAAAA 58.278 29.630 0.00 0.00 0.00 2.44
759 870 8.257830 TGAACATAGCATACGTTATTCACAAA 57.742 30.769 0.00 0.00 0.00 2.83
760 871 7.547722 ACTGAACATAGCATACGTTATTCACAA 59.452 33.333 0.00 0.00 0.00 3.33
768 879 7.661127 TTTACAACTGAACATAGCATACGTT 57.339 32.000 0.00 0.00 0.00 3.99
769 880 7.843490 ATTTACAACTGAACATAGCATACGT 57.157 32.000 0.00 0.00 0.00 3.57
800 911 8.789762 AGGTTTAACTTACAACATGACATAACC 58.210 33.333 0.00 0.00 0.00 2.85
801 912 9.607285 CAGGTTTAACTTACAACATGACATAAC 57.393 33.333 0.00 0.00 36.94 1.89
802 913 8.293867 GCAGGTTTAACTTACAACATGACATAA 58.706 33.333 0.00 0.00 36.94 1.90
803 914 7.663905 AGCAGGTTTAACTTACAACATGACATA 59.336 33.333 0.00 0.00 36.94 2.29
804 915 6.490040 AGCAGGTTTAACTTACAACATGACAT 59.510 34.615 0.00 0.00 36.94 3.06
805 916 5.825679 AGCAGGTTTAACTTACAACATGACA 59.174 36.000 0.00 0.00 36.94 3.58
806 917 6.313744 AGCAGGTTTAACTTACAACATGAC 57.686 37.500 0.00 0.00 36.94 3.06
807 918 7.663905 ACATAGCAGGTTTAACTTACAACATGA 59.336 33.333 0.00 0.00 36.94 3.07
808 919 7.816640 ACATAGCAGGTTTAACTTACAACATG 58.183 34.615 0.00 0.00 37.66 3.21
809 920 7.883311 AGACATAGCAGGTTTAACTTACAACAT 59.117 33.333 0.00 0.00 0.00 2.71
810 921 7.172532 CAGACATAGCAGGTTTAACTTACAACA 59.827 37.037 0.00 0.00 0.00 3.33
818 929 8.144478 TCATAGATCAGACATAGCAGGTTTAAC 58.856 37.037 0.00 0.00 0.00 2.01
825 936 7.863877 GCATAGATCATAGATCAGACATAGCAG 59.136 40.741 9.43 0.00 0.00 4.24
924 1060 3.406361 GTCGTGCCTGCAGTCGTG 61.406 66.667 13.81 0.00 0.00 4.35
935 1071 3.064207 TCAGTACTTCATTTGGTCGTGC 58.936 45.455 0.00 0.00 0.00 5.34
938 1074 4.929211 TGTCATCAGTACTTCATTTGGTCG 59.071 41.667 0.00 0.00 0.00 4.79
940 1076 4.690748 CGTGTCATCAGTACTTCATTTGGT 59.309 41.667 0.00 0.00 0.00 3.67
953 1089 1.284657 GCATCCAGACGTGTCATCAG 58.715 55.000 0.00 0.00 0.00 2.90
954 1090 0.108186 GGCATCCAGACGTGTCATCA 60.108 55.000 0.00 0.00 0.00 3.07
955 1091 0.176680 AGGCATCCAGACGTGTCATC 59.823 55.000 0.00 0.00 0.00 2.92
956 1092 0.615331 AAGGCATCCAGACGTGTCAT 59.385 50.000 0.00 0.00 0.00 3.06
957 1093 0.320683 CAAGGCATCCAGACGTGTCA 60.321 55.000 0.00 0.00 29.18 3.58
973 1131 7.418408 TCAGAAGTATCAAGAGCGTATACAAG 58.582 38.462 3.32 0.00 0.00 3.16
975 1133 6.937436 TCAGAAGTATCAAGAGCGTATACA 57.063 37.500 3.32 0.00 0.00 2.29
1008 1186 2.582498 CTCGTCGGGATGGTTCGC 60.582 66.667 0.00 0.00 0.00 4.70
1025 1203 0.673985 GGGTGGTTGACTCTTTTGCC 59.326 55.000 0.00 0.00 0.00 4.52
1178 1377 3.914364 CCTGATTACTTTGCTTTGCGTTC 59.086 43.478 0.00 0.00 0.00 3.95
1191 1390 1.289160 TTCCTGCCAGCCTGATTACT 58.711 50.000 0.00 0.00 0.00 2.24
1192 1391 2.128771 TTTCCTGCCAGCCTGATTAC 57.871 50.000 0.00 0.00 0.00 1.89
1193 1392 2.897271 TTTTCCTGCCAGCCTGATTA 57.103 45.000 0.00 0.00 0.00 1.75
1324 1538 4.423209 AGGAGGAGGACTGGGGGC 62.423 72.222 0.00 0.00 0.00 5.80
1325 1539 2.041405 GAGGAGGAGGACTGGGGG 60.041 72.222 0.00 0.00 0.00 5.40
1326 1540 2.041405 GGAGGAGGAGGACTGGGG 60.041 72.222 0.00 0.00 0.00 4.96
1327 1541 2.041405 GGGAGGAGGAGGACTGGG 60.041 72.222 0.00 0.00 0.00 4.45
1328 1542 2.041405 GGGGAGGAGGAGGACTGG 60.041 72.222 0.00 0.00 0.00 4.00
1330 1544 2.781406 GTGGGGAGGAGGAGGACT 59.219 66.667 0.00 0.00 0.00 3.85
1331 1545 2.365768 GGTGGGGAGGAGGAGGAC 60.366 72.222 0.00 0.00 0.00 3.85
1595 1836 4.959210 CAGATAGTGAAAGGAGAAGGGAGA 59.041 45.833 0.00 0.00 0.00 3.71
1596 1837 4.442753 GCAGATAGTGAAAGGAGAAGGGAG 60.443 50.000 0.00 0.00 0.00 4.30
1597 1838 3.452627 GCAGATAGTGAAAGGAGAAGGGA 59.547 47.826 0.00 0.00 0.00 4.20
1598 1839 3.454082 AGCAGATAGTGAAAGGAGAAGGG 59.546 47.826 0.00 0.00 0.00 3.95
1599 1840 4.440880 CAGCAGATAGTGAAAGGAGAAGG 58.559 47.826 0.00 0.00 0.00 3.46
1600 1841 3.870419 GCAGCAGATAGTGAAAGGAGAAG 59.130 47.826 0.00 0.00 0.00 2.85
1601 1842 3.517100 AGCAGCAGATAGTGAAAGGAGAA 59.483 43.478 0.00 0.00 0.00 2.87
1602 1843 3.102972 AGCAGCAGATAGTGAAAGGAGA 58.897 45.455 0.00 0.00 0.00 3.71
1603 1844 3.196463 CAGCAGCAGATAGTGAAAGGAG 58.804 50.000 0.00 0.00 0.00 3.69
1604 1845 2.568956 ACAGCAGCAGATAGTGAAAGGA 59.431 45.455 0.00 0.00 0.00 3.36
1605 1846 2.983229 ACAGCAGCAGATAGTGAAAGG 58.017 47.619 0.00 0.00 0.00 3.11
1606 1847 4.252073 AGAACAGCAGCAGATAGTGAAAG 58.748 43.478 0.00 0.00 0.00 2.62
1607 1848 4.277515 AGAACAGCAGCAGATAGTGAAA 57.722 40.909 0.00 0.00 0.00 2.69
1608 1849 3.969287 AGAACAGCAGCAGATAGTGAA 57.031 42.857 0.00 0.00 0.00 3.18
1609 1850 3.593096 CAAGAACAGCAGCAGATAGTGA 58.407 45.455 0.00 0.00 0.00 3.41
1610 1851 2.095532 GCAAGAACAGCAGCAGATAGTG 59.904 50.000 0.00 0.00 0.00 2.74
1611 1852 2.354259 GCAAGAACAGCAGCAGATAGT 58.646 47.619 0.00 0.00 0.00 2.12
1612 1853 1.669779 GGCAAGAACAGCAGCAGATAG 59.330 52.381 0.00 0.00 0.00 2.08
1613 1854 1.742761 GGCAAGAACAGCAGCAGATA 58.257 50.000 0.00 0.00 0.00 1.98
1614 1855 1.303799 CGGCAAGAACAGCAGCAGAT 61.304 55.000 0.00 0.00 0.00 2.90
1615 1856 1.962822 CGGCAAGAACAGCAGCAGA 60.963 57.895 0.00 0.00 0.00 4.26
1616 1857 2.559840 CGGCAAGAACAGCAGCAG 59.440 61.111 0.00 0.00 0.00 4.24
1618 1859 1.234615 TAACCGGCAAGAACAGCAGC 61.235 55.000 0.00 0.00 0.00 5.25
1621 1862 1.132453 GGATTAACCGGCAAGAACAGC 59.868 52.381 0.00 0.00 0.00 4.40
1624 1865 2.014857 GAGGGATTAACCGGCAAGAAC 58.985 52.381 0.00 0.00 40.11 3.01
1625 1866 1.913419 AGAGGGATTAACCGGCAAGAA 59.087 47.619 0.00 0.00 40.11 2.52
1627 1868 2.289565 GAAGAGGGATTAACCGGCAAG 58.710 52.381 0.00 0.00 40.11 4.01
1654 1895 1.341802 CATCGAAACGAGCACGAGC 59.658 57.895 11.40 0.00 39.91 5.03
1655 1896 0.732880 ACCATCGAAACGAGCACGAG 60.733 55.000 11.40 0.00 39.91 4.18
1656 1897 1.006825 CACCATCGAAACGAGCACGA 61.007 55.000 11.40 0.00 39.91 4.35
1657 1898 1.416049 CACCATCGAAACGAGCACG 59.584 57.895 0.76 0.76 39.91 5.34
1658 1899 1.132640 GCACCATCGAAACGAGCAC 59.867 57.895 0.00 0.00 39.91 4.40
1659 1900 1.291184 CTGCACCATCGAAACGAGCA 61.291 55.000 0.00 0.00 39.91 4.26
1664 1905 1.875963 CACCCTGCACCATCGAAAC 59.124 57.895 0.00 0.00 0.00 2.78
1777 2018 0.692756 GAAAGGGGGAGGAGGAGGAG 60.693 65.000 0.00 0.00 0.00 3.69
1780 2021 0.399233 ATCGAAAGGGGGAGGAGGAG 60.399 60.000 0.00 0.00 0.00 3.69
1781 2022 0.044244 AATCGAAAGGGGGAGGAGGA 59.956 55.000 0.00 0.00 0.00 3.71
1782 2023 0.470341 GAATCGAAAGGGGGAGGAGG 59.530 60.000 0.00 0.00 0.00 4.30
1783 2024 0.105039 CGAATCGAAAGGGGGAGGAG 59.895 60.000 0.00 0.00 0.00 3.69
1784 2025 0.616679 ACGAATCGAAAGGGGGAGGA 60.617 55.000 10.55 0.00 0.00 3.71
1785 2026 0.179081 GACGAATCGAAAGGGGGAGG 60.179 60.000 10.55 0.00 0.00 4.30
1989 2263 5.531287 TCTTTCCTGCTCAACTTTTACTTCC 59.469 40.000 0.00 0.00 0.00 3.46
2044 2318 8.399425 ACACACAACAGTAAAATTACAAATCGA 58.601 29.630 6.13 0.00 36.12 3.59
2156 2430 2.310538 CTTGCAAGGACCTTGGTCTTT 58.689 47.619 30.87 14.41 41.31 2.52
2255 2529 1.263356 AAGAGCGCACCTACTAACCA 58.737 50.000 11.47 0.00 0.00 3.67
2256 2530 3.515330 TTAAGAGCGCACCTACTAACC 57.485 47.619 11.47 0.00 0.00 2.85
2268 2542 5.106157 ACCAGAAATTCACCAATTAAGAGCG 60.106 40.000 0.00 0.00 31.51 5.03
2346 2620 4.642429 TCTTTCTAGAAGCTGGAACCAAC 58.358 43.478 5.12 0.00 30.99 3.77
2374 2648 1.187087 CCAGCTCGAAGGTAGGAGTT 58.813 55.000 0.00 0.00 32.83 3.01
2454 2728 3.165160 AACAACGCCGCAGACCTCT 62.165 57.895 0.00 0.00 0.00 3.69
2460 2734 0.384725 CAAGAAGAACAACGCCGCAG 60.385 55.000 0.00 0.00 0.00 5.18
2586 2864 3.034635 AGAACCTGTCTCCATAGCGATT 58.965 45.455 0.00 0.00 0.00 3.34
2619 2897 1.141053 ACCTGTCCGAAGCAGAAAACT 59.859 47.619 0.00 0.00 0.00 2.66
2674 2955 6.223351 TGCATGAAATCAAGGATAATGCAA 57.777 33.333 15.71 6.00 38.88 4.08
2679 2961 5.069383 CACCCATGCATGAAATCAAGGATAA 59.931 40.000 28.31 0.00 0.00 1.75
2885 3167 2.140717 GAGCATTACCCGTATTTCCCG 58.859 52.381 0.00 0.00 0.00 5.14
2926 3208 8.737168 TCAGATCAGTGGAAATATACCAAAAG 57.263 34.615 0.00 0.00 39.22 2.27
2975 3257 6.372937 TGAATGCCAATACGAATACTGAAACA 59.627 34.615 0.00 0.00 0.00 2.83
2977 3259 6.993786 TGAATGCCAATACGAATACTGAAA 57.006 33.333 0.00 0.00 0.00 2.69
2987 3269 6.117911 TGTAAACTCATGAATGCCAATACG 57.882 37.500 0.00 0.00 0.00 3.06
2988 3270 7.433131 CACATGTAAACTCATGAATGCCAATAC 59.567 37.037 12.58 0.00 45.41 1.89
3241 3526 4.283978 TGGTCCAGAATGACAAAAATGCAT 59.716 37.500 0.00 0.00 39.69 3.96
3271 3556 0.392998 ATGCCCCTAACGAGCAACTG 60.393 55.000 0.00 0.00 40.46 3.16
3281 3566 6.101734 ACAGATCTAGAAAATGATGCCCCTAA 59.898 38.462 0.00 0.00 0.00 2.69
3315 3600 9.575783 CAACATGATAAAATCACACATTCATCA 57.424 29.630 0.00 0.00 43.01 3.07
3316 3601 9.027129 CCAACATGATAAAATCACACATTCATC 57.973 33.333 0.00 0.00 43.01 2.92
3325 3610 8.223100 GCAAAGAAACCAACATGATAAAATCAC 58.777 33.333 0.00 0.00 43.01 3.06
3329 3614 7.768120 AGTTGCAAAGAAACCAACATGATAAAA 59.232 29.630 0.00 0.00 40.85 1.52
3340 3625 3.011566 TCCAGAGTTGCAAAGAAACCA 57.988 42.857 0.00 0.00 0.00 3.67
3356 3641 5.874261 ACATGGTTTCAAAACTTGTTTCCAG 59.126 36.000 0.84 1.10 38.89 3.86
3391 3676 3.004752 ACACCAAGGCATGTTAGGATC 57.995 47.619 0.00 0.00 0.00 3.36
3465 3789 4.816385 CCAGCTTTTGTCTTGTACTTCTCA 59.184 41.667 0.00 0.00 0.00 3.27
3468 3792 5.948992 ATCCAGCTTTTGTCTTGTACTTC 57.051 39.130 0.00 0.00 0.00 3.01
3510 3834 1.134220 TGGAACGGCCATCATAGAACC 60.134 52.381 2.24 0.00 43.33 3.62
3574 3898 1.818674 CACCCCAGTTTGAATGCTACC 59.181 52.381 0.00 0.00 0.00 3.18
3591 3915 3.364964 CGAAGGCTTGACATAAACACACC 60.365 47.826 3.46 0.00 0.00 4.16
3665 3989 2.598394 GCAAGGCCAGGTGAGCAA 60.598 61.111 5.01 0.00 0.00 3.91
3696 4020 8.591312 GCACGCAAATGTATACAATTTTTACAT 58.409 29.630 10.14 0.00 37.99 2.29
3789 4115 4.692625 ACATGAATGTGAAGAAACTCCTCG 59.307 41.667 0.00 0.00 40.03 4.63
3878 4205 1.758122 CTGGGGTTAATGGCCCTGC 60.758 63.158 0.00 0.00 45.39 4.85
3879 4206 1.758122 GCTGGGGTTAATGGCCCTG 60.758 63.158 0.00 0.00 45.39 4.45
3880 4207 1.809939 TTGCTGGGGTTAATGGCCCT 61.810 55.000 0.00 0.00 45.39 5.19
3881 4208 1.305718 TTGCTGGGGTTAATGGCCC 60.306 57.895 0.00 0.00 45.35 5.80
3882 4209 0.324275 TCTTGCTGGGGTTAATGGCC 60.324 55.000 0.00 0.00 0.00 5.36
3883 4210 1.106285 CTCTTGCTGGGGTTAATGGC 58.894 55.000 0.00 0.00 0.00 4.40
3884 4211 1.686115 CCCTCTTGCTGGGGTTAATGG 60.686 57.143 0.00 0.00 40.97 3.16
3885 4212 1.767759 CCCTCTTGCTGGGGTTAATG 58.232 55.000 0.00 0.00 40.97 1.90
3948 4290 5.126061 GGTCCAATTGAGATGTGCTGTTAAT 59.874 40.000 7.12 0.00 0.00 1.40
3955 4297 2.557924 TGTTGGTCCAATTGAGATGTGC 59.442 45.455 7.77 0.00 0.00 4.57
3960 4302 4.698201 TGTACTGTTGGTCCAATTGAGA 57.302 40.909 7.77 0.00 0.00 3.27
3969 4311 5.393962 GCATGAAAAGATGTACTGTTGGTC 58.606 41.667 0.00 0.00 0.00 4.02
4021 4363 4.408821 TCCAGTGATGCGGTGCCC 62.409 66.667 0.00 0.00 0.00 5.36
4102 4444 9.788889 TCTAATTTACATTCATGATGCTCTGAT 57.211 29.630 0.00 0.00 39.47 2.90
4160 4502 4.857037 GCATTTTTATCCGTGTTCCAGAAC 59.143 41.667 3.52 3.52 41.50 3.01
4162 4504 4.075682 TGCATTTTTATCCGTGTTCCAGA 58.924 39.130 0.00 0.00 0.00 3.86
4166 4523 4.434713 AGGTGCATTTTTATCCGTGTTC 57.565 40.909 0.00 0.00 0.00 3.18
4176 4534 5.337009 GGTGATCAGATCAAGGTGCATTTTT 60.337 40.000 15.02 0.00 41.69 1.94
4354 4712 6.606796 AGTCAGTGTCATGATCTATCACTCTT 59.393 38.462 11.78 0.84 40.03 2.85
4460 4818 5.131475 TCAGGGATGAGTCATGATTTGATGA 59.869 40.000 11.20 2.47 36.54 2.92
4470 4828 6.614906 ACTCTTAAGAATCAGGGATGAGTCAT 59.385 38.462 4.98 4.98 35.60 3.06


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

AutoCloner maintained by Alex Coulton.