Multiple sequence alignment - TraesCS7D01G014700

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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 TraesCS7D01G014700 chr7D 100.000 3688 0 0 1 3688 6472339 6468652 0.000000e+00 6811.0
1 TraesCS7D01G014700 chr7A 86.920 2156 156 61 1 2070 7587055 7584940 0.000000e+00 2303.0
2 TraesCS7D01G014700 chr7A 91.628 1075 56 15 2080 3138 7584851 7583795 0.000000e+00 1456.0
3 TraesCS7D01G014700 chr7A 96.889 225 6 1 3338 3562 7583623 7583400 3.480000e-100 375.0
4 TraesCS7D01G014700 chr7A 85.714 315 38 3 1847 2161 519849213 519848906 3.550000e-85 326.0
5 TraesCS7D01G014700 chr7A 92.568 148 8 2 3205 3350 7583790 7583644 3.730000e-50 209.0
6 TraesCS7D01G014700 chr7A 89.855 138 14 0 3551 3688 7582576 7582439 1.050000e-40 178.0
7 TraesCS7D01G014700 chr4A 90.746 1059 62 18 2080 3113 733713610 733714657 0.000000e+00 1380.0
8 TraesCS7D01G014700 chr4A 85.473 1363 88 49 755 2070 733712150 733713449 0.000000e+00 1319.0
9 TraesCS7D01G014700 chr4A 89.678 746 44 21 1 717 733711244 733711985 0.000000e+00 920.0
10 TraesCS7D01G014700 chr4A 80.000 135 22 5 3529 3660 643705876 643705744 1.090000e-15 95.3
11 TraesCS7D01G014700 chr4A 87.654 81 7 3 3400 3479 733738443 733738521 1.410000e-14 91.6
12 TraesCS7D01G014700 chr5B 87.675 357 33 4 1787 2137 629626198 629625847 4.430000e-109 405.0
13 TraesCS7D01G014700 chr5B 87.115 357 36 4 1786 2137 31699743 31700094 2.670000e-106 396.0
14 TraesCS7D01G014700 chr5B 78.261 161 28 7 3530 3685 636349467 636349625 3.030000e-16 97.1
15 TraesCS7D01G014700 chr5B 77.632 152 30 4 3530 3678 700905677 700905527 5.070000e-14 89.8
16 TraesCS7D01G014700 chr1A 87.640 356 34 3 1787 2137 491736029 491736379 4.430000e-109 405.0
17 TraesCS7D01G014700 chr3A 87.640 356 33 6 1787 2137 23811623 23811972 1.600000e-108 403.0
18 TraesCS7D01G014700 chr1D 86.798 356 37 3 1787 2137 277136887 277136537 4.470000e-104 388.0
19 TraesCS7D01G014700 chr6A 86.111 360 34 6 1786 2137 564003940 564004291 1.250000e-99 374.0
20 TraesCS7D01G014700 chr6A 89.956 229 23 0 1787 2015 84372512 84372284 2.780000e-76 296.0
21 TraesCS7D01G014700 chr3B 85.590 229 23 3 1914 2137 3705036 3704813 7.970000e-57 231.0
22 TraesCS7D01G014700 chr6B 81.325 166 30 1 3521 3685 101171364 101171529 2.310000e-27 134.0
23 TraesCS7D01G014700 chr7B 80.233 172 28 6 3521 3688 193720270 193720101 1.390000e-24 124.0
24 TraesCS7D01G014700 chr4D 80.986 142 20 6 3529 3668 505978574 505978438 5.040000e-19 106.0
25 TraesCS7D01G014700 chr4D 77.976 168 34 3 3523 3688 67236004 67235838 6.520000e-18 102.0
26 TraesCS7D01G014700 chrUn 80.000 135 22 5 3529 3660 243042985 243043117 1.090000e-15 95.3
27 TraesCS7D01G014700 chr2D 90.000 70 5 1 1149 1216 118357780 118357849 5.070000e-14 89.8


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 TraesCS7D01G014700 chr7D 6468652 6472339 3687 True 6811.000000 6811 100.000000 1 3688 1 chr7D.!!$R1 3687
1 TraesCS7D01G014700 chr7A 7582439 7587055 4616 True 904.200000 2303 91.572000 1 3688 5 chr7A.!!$R2 3687
2 TraesCS7D01G014700 chr4A 733711244 733714657 3413 False 1206.333333 1380 88.632333 1 3113 3 chr4A.!!$F2 3112

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
526 562 0.038166 TGCATTTGGTCCCCTCTGAC 59.962 55.0 0.00 0.0 34.42 3.51 F
2211 2635 0.311790 CATGCAGTTGCCTGAAACGT 59.688 50.0 3.66 0.0 41.50 3.99 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2220 2644 0.111253 AAGACCAAGTTCAGCAGGGG 59.889 55.0 0.0 0.0 0.0 4.79 R
3252 3690 0.250510 TATTGTTGCACGCCCTGACA 60.251 50.0 0.0 0.0 0.0 3.58 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
173 175 5.250235 TGAGATACAGATGAAGAACGACC 57.750 43.478 0.00 0.00 0.00 4.79
188 190 1.148273 GACCCTGTTGTGCCTGTCA 59.852 57.895 0.00 0.00 0.00 3.58
195 211 1.271325 TGTTGTGCCTGTCATACCCAG 60.271 52.381 0.00 0.00 0.00 4.45
257 277 4.611807 CGTTTGCGGTTGCTACAAGATAAA 60.612 41.667 0.00 0.00 43.34 1.40
360 380 3.470645 TGCTGATGATGATCTGGTGAG 57.529 47.619 1.53 0.00 0.00 3.51
361 381 2.104281 TGCTGATGATGATCTGGTGAGG 59.896 50.000 1.53 0.00 0.00 3.86
362 382 2.367894 GCTGATGATGATCTGGTGAGGA 59.632 50.000 1.53 0.00 0.00 3.71
363 383 3.008157 GCTGATGATGATCTGGTGAGGAT 59.992 47.826 1.53 0.00 0.00 3.24
364 384 4.570930 CTGATGATGATCTGGTGAGGATG 58.429 47.826 0.00 0.00 0.00 3.51
365 385 3.326880 TGATGATGATCTGGTGAGGATGG 59.673 47.826 0.00 0.00 0.00 3.51
366 386 3.050523 TGATGATCTGGTGAGGATGGA 57.949 47.619 0.00 0.00 0.00 3.41
379 410 1.556561 GATGGAGGGAGGGAGGGAT 59.443 63.158 0.00 0.00 0.00 3.85
431 462 1.676014 GCCACATCTGTACCTGTGTCC 60.676 57.143 15.16 6.22 40.89 4.02
445 480 0.597637 GTGTCCGTGTCTGTGTCTGG 60.598 60.000 0.00 0.00 0.00 3.86
521 557 3.723325 ACATATTTGCATTTGGTCCCCT 58.277 40.909 0.00 0.00 0.00 4.79
522 558 3.706086 ACATATTTGCATTTGGTCCCCTC 59.294 43.478 0.00 0.00 0.00 4.30
523 559 2.629017 ATTTGCATTTGGTCCCCTCT 57.371 45.000 0.00 0.00 0.00 3.69
524 560 1.631405 TTTGCATTTGGTCCCCTCTG 58.369 50.000 0.00 0.00 0.00 3.35
525 561 0.776810 TTGCATTTGGTCCCCTCTGA 59.223 50.000 0.00 0.00 0.00 3.27
526 562 0.038166 TGCATTTGGTCCCCTCTGAC 59.962 55.000 0.00 0.00 34.42 3.51
527 563 1.026718 GCATTTGGTCCCCTCTGACG 61.027 60.000 0.00 0.00 36.07 4.35
533 569 1.621814 TGGTCCCCTCTGACGTTTTAG 59.378 52.381 0.00 0.00 36.07 1.85
585 622 3.131046 CACATCAACTGGGATAAAAGGCC 59.869 47.826 0.00 0.00 0.00 5.19
602 639 2.616842 AGGCCGTGACACAAAGTTAAAG 59.383 45.455 6.37 0.00 0.00 1.85
604 641 3.181494 GGCCGTGACACAAAGTTAAAGTT 60.181 43.478 6.37 0.00 0.00 2.66
608 645 5.510323 CCGTGACACAAAGTTAAAGTTCAAC 59.490 40.000 6.37 0.00 0.00 3.18
659 706 7.545615 GGATTTCATCCCTACACAATGTTTTTC 59.454 37.037 0.00 0.00 43.88 2.29
669 716 5.104374 ACACAATGTTTTTCAGCTCAACAG 58.896 37.500 0.00 0.00 34.00 3.16
678 725 2.125350 GCTCAACAGAGCGGGAGG 60.125 66.667 1.33 0.00 44.62 4.30
687 734 4.115199 AGCGGGAGGAATGCACCC 62.115 66.667 0.00 0.00 40.17 4.61
709 756 3.006110 CCATGCTGAACTTGATGGTGTTT 59.994 43.478 0.00 0.00 32.20 2.83
736 896 7.493743 TCAGTTTGTTGCGGTAAAATACTTA 57.506 32.000 0.00 0.00 0.00 2.24
744 904 8.569641 TGTTGCGGTAAAATACTTACTGAAATT 58.430 29.630 7.50 0.00 32.91 1.82
748 908 9.058424 GCGGTAAAATACTTACTGAAATTTGTC 57.942 33.333 0.00 0.00 34.10 3.18
757 917 8.394971 ACTTACTGAAATTTGTCACATGATCA 57.605 30.769 0.00 0.00 0.00 2.92
759 919 9.850628 CTTACTGAAATTTGTCACATGATCATT 57.149 29.630 5.16 0.00 0.00 2.57
770 943 7.764331 TGTCACATGATCATTACAAATCCAAG 58.236 34.615 5.16 0.00 0.00 3.61
785 958 8.606040 ACAAATCCAAGATTTGTATGTTTTGG 57.394 30.769 26.22 7.02 46.63 3.28
809 986 9.959749 TGGTCAATCTTAAAGAACAAATGTTAC 57.040 29.630 0.00 0.00 38.56 2.50
833 1010 7.667557 ACCTTATAACCAAGAAAAGAAAAGGC 58.332 34.615 0.00 0.00 34.46 4.35
834 1011 7.509318 ACCTTATAACCAAGAAAAGAAAAGGCT 59.491 33.333 0.00 0.00 34.46 4.58
909 1088 0.320247 CTGAACTCTGAAGCAGCGGT 60.320 55.000 0.00 0.00 0.00 5.68
922 1101 1.004918 AGCGGTACTGTGTTGGAGC 60.005 57.895 3.10 0.00 0.00 4.70
934 1114 1.134340 TGTTGGAGCGTAGTGTGGTTT 60.134 47.619 0.00 0.00 0.00 3.27
937 1117 0.320697 GGAGCGTAGTGTGGTTTCCT 59.679 55.000 0.00 0.00 0.00 3.36
994 1183 4.770874 GAAACCCTAGCCGCCGCA 62.771 66.667 0.00 0.00 37.52 5.69
1540 1756 1.405105 CGTGAATTCCGCATTCCCATT 59.595 47.619 2.27 0.00 40.80 3.16
1546 1763 3.539791 CGCATTCCCATTGCCCCC 61.540 66.667 0.00 0.00 36.75 5.40
1563 1780 1.627864 CCCCAAAGAATCCAAACCGT 58.372 50.000 0.00 0.00 0.00 4.83
1566 1783 3.057104 CCCCAAAGAATCCAAACCGTAAC 60.057 47.826 0.00 0.00 0.00 2.50
1567 1784 3.057104 CCCAAAGAATCCAAACCGTAACC 60.057 47.826 0.00 0.00 0.00 2.85
1569 1786 4.038162 CCAAAGAATCCAAACCGTAACCAA 59.962 41.667 0.00 0.00 0.00 3.67
1570 1787 5.279256 CCAAAGAATCCAAACCGTAACCAAT 60.279 40.000 0.00 0.00 0.00 3.16
1575 1792 4.775058 TCCAAACCGTAACCAATTCATG 57.225 40.909 0.00 0.00 0.00 3.07
1582 1802 4.764823 ACCGTAACCAATTCATGTCAACAT 59.235 37.500 0.00 0.00 36.96 2.71
1595 1815 4.681074 TGTCAACATGGTCTTGTCAGTA 57.319 40.909 0.00 0.00 0.00 2.74
1596 1816 5.227569 TGTCAACATGGTCTTGTCAGTAT 57.772 39.130 0.00 0.00 0.00 2.12
1597 1817 4.996758 TGTCAACATGGTCTTGTCAGTATG 59.003 41.667 0.00 0.00 37.54 2.39
1622 1842 9.457436 TGATGATTCTACCATGAATCCATTATG 57.543 33.333 12.73 0.00 46.97 1.90
1637 1864 6.406692 TCCATTATGTTCTCTAGTGTAGCC 57.593 41.667 0.00 0.00 0.00 3.93
1638 1865 5.897250 TCCATTATGTTCTCTAGTGTAGCCA 59.103 40.000 0.00 0.00 0.00 4.75
1640 1867 7.071196 TCCATTATGTTCTCTAGTGTAGCCAAT 59.929 37.037 0.00 0.00 0.00 3.16
1641 1868 7.386299 CCATTATGTTCTCTAGTGTAGCCAATC 59.614 40.741 0.00 0.00 0.00 2.67
1642 1869 5.939764 ATGTTCTCTAGTGTAGCCAATCA 57.060 39.130 0.00 0.00 0.00 2.57
1643 1870 5.738619 TGTTCTCTAGTGTAGCCAATCAA 57.261 39.130 0.00 0.00 0.00 2.57
1644 1871 6.299805 TGTTCTCTAGTGTAGCCAATCAAT 57.700 37.500 0.00 0.00 0.00 2.57
1645 1872 6.711277 TGTTCTCTAGTGTAGCCAATCAATT 58.289 36.000 0.00 0.00 0.00 2.32
1646 1873 7.847096 TGTTCTCTAGTGTAGCCAATCAATTA 58.153 34.615 0.00 0.00 0.00 1.40
1647 1874 7.764443 TGTTCTCTAGTGTAGCCAATCAATTAC 59.236 37.037 0.00 0.00 0.00 1.89
1648 1875 7.661536 TCTCTAGTGTAGCCAATCAATTACT 57.338 36.000 0.00 0.00 0.00 2.24
1649 1876 7.717568 TCTCTAGTGTAGCCAATCAATTACTC 58.282 38.462 0.00 0.00 0.00 2.59
1650 1877 7.342026 TCTCTAGTGTAGCCAATCAATTACTCA 59.658 37.037 0.00 0.00 0.00 3.41
1651 1878 8.023021 TCTAGTGTAGCCAATCAATTACTCAT 57.977 34.615 0.00 0.00 0.00 2.90
1655 1882 8.893727 AGTGTAGCCAATCAATTACTCATTTAC 58.106 33.333 0.00 0.00 0.00 2.01
1691 1921 5.009631 ACCGTAATACCTACACTGTGTACA 58.990 41.667 16.26 5.72 0.00 2.90
1692 1922 5.476599 ACCGTAATACCTACACTGTGTACAA 59.523 40.000 16.26 5.71 0.00 2.41
1716 1946 7.573968 AATTACTCTTATGAAATGGACAGCC 57.426 36.000 0.00 0.00 0.00 4.85
1717 1947 3.891049 ACTCTTATGAAATGGACAGCCC 58.109 45.455 0.00 0.00 0.00 5.19
1721 1951 0.916086 ATGAAATGGACAGCCCCGTA 59.084 50.000 0.00 0.00 0.00 4.02
1752 1982 7.334421 AGCTAGTATGGTTAATTGTCAGTGTTG 59.666 37.037 0.00 0.00 0.00 3.33
1755 1985 7.648142 AGTATGGTTAATTGTCAGTGTTGTTG 58.352 34.615 0.00 0.00 0.00 3.33
1756 1986 5.906113 TGGTTAATTGTCAGTGTTGTTGT 57.094 34.783 0.00 0.00 0.00 3.32
1757 1987 6.274157 TGGTTAATTGTCAGTGTTGTTGTT 57.726 33.333 0.00 0.00 0.00 2.83
1758 1988 6.692486 TGGTTAATTGTCAGTGTTGTTGTTT 58.308 32.000 0.00 0.00 0.00 2.83
1759 1989 6.587990 TGGTTAATTGTCAGTGTTGTTGTTTG 59.412 34.615 0.00 0.00 0.00 2.93
1760 1990 6.588373 GGTTAATTGTCAGTGTTGTTGTTTGT 59.412 34.615 0.00 0.00 0.00 2.83
1762 1992 6.704512 AATTGTCAGTGTTGTTGTTTGTTC 57.295 33.333 0.00 0.00 0.00 3.18
1763 1993 4.837896 TGTCAGTGTTGTTGTTTGTTCA 57.162 36.364 0.00 0.00 0.00 3.18
1764 1994 4.541779 TGTCAGTGTTGTTGTTTGTTCAC 58.458 39.130 0.00 0.00 0.00 3.18
1765 1995 3.917985 GTCAGTGTTGTTGTTTGTTCACC 59.082 43.478 0.00 0.00 0.00 4.02
1766 1996 3.057174 TCAGTGTTGTTGTTTGTTCACCC 60.057 43.478 0.00 0.00 0.00 4.61
1785 2015 2.027929 CCCATTTGCTTGAGGAATGCAA 60.028 45.455 0.00 0.00 43.69 4.08
1789 2019 5.394883 CCATTTGCTTGAGGAATGCAACTAT 60.395 40.000 0.00 0.00 44.81 2.12
1792 2022 4.081406 TGCTTGAGGAATGCAACTATTGT 58.919 39.130 0.00 0.00 33.48 2.71
1816 2046 2.661176 TGTTCACCCCTCCCTAGATT 57.339 50.000 0.00 0.00 0.00 2.40
1852 2082 2.746362 GCCAGGACTTGTTCTGAATCTG 59.254 50.000 10.43 0.00 33.11 2.90
1855 2085 3.750130 CAGGACTTGTTCTGAATCTGTGG 59.250 47.826 3.02 0.00 33.11 4.17
1871 2101 4.650734 TCTGTGGTTGTTTCATGATGCTA 58.349 39.130 0.00 0.00 0.00 3.49
1874 2104 4.455533 TGTGGTTGTTTCATGATGCTAGTC 59.544 41.667 0.00 0.00 0.00 2.59
1882 2112 5.675684 TTCATGATGCTAGTCCACACTTA 57.324 39.130 0.00 0.00 33.62 2.24
1888 2126 4.730949 TGCTAGTCCACACTTATGGTAC 57.269 45.455 0.00 0.00 40.95 3.34
1890 2128 3.379372 GCTAGTCCACACTTATGGTACGA 59.621 47.826 0.00 0.00 40.95 3.43
1945 2198 7.349711 CCATTTATCGGGTTATTCTTACAACG 58.650 38.462 0.00 0.00 0.00 4.10
1978 2233 5.906073 AGTTGCATTTTCTTACTGCTGTTT 58.094 33.333 0.09 0.00 36.84 2.83
1995 2250 4.145876 TGTTTTCAAGCAGCATTACTCG 57.854 40.909 0.00 0.00 0.00 4.18
2010 2265 1.871080 ACTCGAGTTTCACTGCTTGG 58.129 50.000 13.58 0.00 0.00 3.61
2021 2276 4.350368 TCACTGCTTGGACTTGTCATAA 57.650 40.909 3.08 0.00 0.00 1.90
2023 2278 4.515191 TCACTGCTTGGACTTGTCATAAAC 59.485 41.667 3.08 0.00 0.00 2.01
2024 2279 4.516698 CACTGCTTGGACTTGTCATAAACT 59.483 41.667 3.08 0.00 0.00 2.66
2025 2280 5.700832 CACTGCTTGGACTTGTCATAAACTA 59.299 40.000 3.08 0.00 0.00 2.24
2066 2321 5.047943 CCTGGTGGCTAGTAGTATCATGTAC 60.048 48.000 0.00 0.00 0.00 2.90
2067 2322 5.702266 TGGTGGCTAGTAGTATCATGTACT 58.298 41.667 11.17 11.17 33.92 2.73
2068 2323 5.768662 TGGTGGCTAGTAGTATCATGTACTC 59.231 44.000 10.12 4.91 31.79 2.59
2069 2324 6.005198 GGTGGCTAGTAGTATCATGTACTCT 58.995 44.000 10.12 9.89 31.79 3.24
2070 2325 7.166851 GGTGGCTAGTAGTATCATGTACTCTA 58.833 42.308 10.12 10.31 31.79 2.43
2071 2326 7.830201 GGTGGCTAGTAGTATCATGTACTCTAT 59.170 40.741 10.12 3.35 31.79 1.98
2072 2327 8.885722 GTGGCTAGTAGTATCATGTACTCTATC 58.114 40.741 10.12 8.14 31.79 2.08
2093 2499 9.131791 TCTATCTGTAATGTAGCAGTGAACATA 57.868 33.333 10.82 0.00 35.30 2.29
2094 2500 9.404348 CTATCTGTAATGTAGCAGTGAACATAG 57.596 37.037 10.82 6.51 35.30 2.23
2095 2501 6.042777 TCTGTAATGTAGCAGTGAACATAGC 58.957 40.000 10.82 8.15 35.30 2.97
2096 2502 5.729510 TGTAATGTAGCAGTGAACATAGCA 58.270 37.500 10.82 9.99 35.30 3.49
2097 2503 6.348498 TGTAATGTAGCAGTGAACATAGCAT 58.652 36.000 10.82 0.91 35.30 3.79
2098 2504 7.496747 TGTAATGTAGCAGTGAACATAGCATA 58.503 34.615 10.82 0.15 35.30 3.14
2099 2505 7.984617 TGTAATGTAGCAGTGAACATAGCATAA 59.015 33.333 10.82 0.00 35.30 1.90
2100 2506 8.993121 GTAATGTAGCAGTGAACATAGCATAAT 58.007 33.333 10.82 0.00 35.30 1.28
2102 2508 7.482654 TGTAGCAGTGAACATAGCATAATTC 57.517 36.000 0.00 0.00 0.00 2.17
2103 2509 7.275183 TGTAGCAGTGAACATAGCATAATTCT 58.725 34.615 0.00 0.00 0.00 2.40
2134 2544 9.577110 AATTTGCATCATTATCAGTAACAACAG 57.423 29.630 0.00 0.00 0.00 3.16
2135 2545 7.686438 TTGCATCATTATCAGTAACAACAGT 57.314 32.000 0.00 0.00 0.00 3.55
2136 2546 7.686438 TGCATCATTATCAGTAACAACAGTT 57.314 32.000 0.00 0.00 0.00 3.16
2211 2635 0.311790 CATGCAGTTGCCTGAAACGT 59.688 50.000 3.66 0.00 41.50 3.99
2219 2643 0.592637 TGCCTGAAACGTGCATCTTG 59.407 50.000 0.00 0.00 0.00 3.02
2220 2644 0.730494 GCCTGAAACGTGCATCTTGC 60.730 55.000 0.00 0.00 45.29 4.01
2222 2646 0.109597 CTGAAACGTGCATCTTGCCC 60.110 55.000 0.00 0.00 44.23 5.36
2228 2652 2.361992 TGCATCTTGCCCCTGCTG 60.362 61.111 0.00 0.00 44.23 4.41
2237 2661 1.973812 GCCCCTGCTGAACTTGGTC 60.974 63.158 0.00 0.00 33.53 4.02
2267 2692 0.035820 TAGGTGTTGATGCCGGGTTC 60.036 55.000 2.18 0.00 0.00 3.62
2348 2773 3.112075 CGTGATGCAGACCGCGTT 61.112 61.111 4.92 0.00 46.97 4.84
2372 2797 4.056125 CTGCTGGAGTGCGACGGA 62.056 66.667 0.00 0.00 35.36 4.69
2411 2836 2.280797 GTGAACAGAGTGCGGCCA 60.281 61.111 2.24 0.00 0.00 5.36
2507 2932 2.289882 TGTGCCAGAAGATTCAGAGGTG 60.290 50.000 0.00 0.00 0.00 4.00
2781 3211 4.259253 CGTTTTTCGGTTTGTTTTGCTCTC 60.259 41.667 0.00 0.00 35.71 3.20
2860 3295 7.043391 CGGTCTTTTCTTTGTTCTTCCAAATTC 60.043 37.037 0.00 0.00 34.07 2.17
2914 3349 6.463995 AGTTTTGTGGTTGATTGCTTCTTA 57.536 33.333 0.00 0.00 0.00 2.10
2922 3360 4.022849 GGTTGATTGCTTCTTACTGTTGCT 60.023 41.667 0.00 0.00 0.00 3.91
2924 3362 3.058016 TGATTGCTTCTTACTGTTGCTGC 60.058 43.478 0.00 0.00 0.00 5.25
2926 3364 0.166814 GCTTCTTACTGTTGCTGCGG 59.833 55.000 0.00 0.00 0.00 5.69
2927 3365 1.512926 CTTCTTACTGTTGCTGCGGT 58.487 50.000 0.00 0.00 0.00 5.68
2928 3366 1.873591 CTTCTTACTGTTGCTGCGGTT 59.126 47.619 0.00 0.00 0.00 4.44
2939 3377 1.680735 TGCTGCGGTTTCATCTTGTTT 59.319 42.857 0.00 0.00 0.00 2.83
2961 3399 3.066621 TGAGTGTTGTTGTTCATGGCTTC 59.933 43.478 0.00 0.00 0.00 3.86
2964 3402 4.826733 AGTGTTGTTGTTCATGGCTTCATA 59.173 37.500 0.00 0.00 0.00 2.15
3022 3460 4.587891 AGAAGAGGAGCAGAGAAAATTGG 58.412 43.478 0.00 0.00 0.00 3.16
3180 3618 9.918630 AATTAAAAGTGAATCAAGAACTCCATG 57.081 29.630 0.00 0.00 0.00 3.66
3181 3619 8.690203 TTAAAAGTGAATCAAGAACTCCATGA 57.310 30.769 0.00 0.00 0.00 3.07
3182 3620 6.566197 AAAGTGAATCAAGAACTCCATGAC 57.434 37.500 0.00 0.00 0.00 3.06
3183 3621 5.233083 AGTGAATCAAGAACTCCATGACA 57.767 39.130 0.00 0.00 0.00 3.58
3184 3622 5.813383 AGTGAATCAAGAACTCCATGACAT 58.187 37.500 0.00 0.00 0.00 3.06
3185 3623 6.243900 AGTGAATCAAGAACTCCATGACATT 58.756 36.000 0.00 0.00 0.00 2.71
3186 3624 6.373774 AGTGAATCAAGAACTCCATGACATTC 59.626 38.462 0.00 0.00 0.00 2.67
3187 3625 5.352293 TGAATCAAGAACTCCATGACATTCG 59.648 40.000 0.00 0.00 0.00 3.34
3188 3626 4.535526 TCAAGAACTCCATGACATTCGA 57.464 40.909 0.00 0.00 0.00 3.71
3189 3627 4.893608 TCAAGAACTCCATGACATTCGAA 58.106 39.130 0.00 0.00 0.00 3.71
3190 3628 5.304778 TCAAGAACTCCATGACATTCGAAA 58.695 37.500 0.00 0.00 0.00 3.46
3191 3629 5.939883 TCAAGAACTCCATGACATTCGAAAT 59.060 36.000 0.00 0.00 0.00 2.17
3192 3630 7.102993 TCAAGAACTCCATGACATTCGAAATA 58.897 34.615 0.00 0.00 0.00 1.40
3193 3631 6.910536 AGAACTCCATGACATTCGAAATAC 57.089 37.500 0.00 0.00 0.00 1.89
3194 3632 5.817816 AGAACTCCATGACATTCGAAATACC 59.182 40.000 0.00 0.00 0.00 2.73
3195 3633 5.097742 ACTCCATGACATTCGAAATACCA 57.902 39.130 0.00 0.00 0.00 3.25
3196 3634 5.496556 ACTCCATGACATTCGAAATACCAA 58.503 37.500 0.00 0.00 0.00 3.67
3197 3635 5.586243 ACTCCATGACATTCGAAATACCAAG 59.414 40.000 0.00 0.00 0.00 3.61
3198 3636 5.496556 TCCATGACATTCGAAATACCAAGT 58.503 37.500 0.00 0.00 0.00 3.16
3199 3637 5.943416 TCCATGACATTCGAAATACCAAGTT 59.057 36.000 0.00 0.00 0.00 2.66
3200 3638 6.093495 TCCATGACATTCGAAATACCAAGTTC 59.907 38.462 0.00 0.00 0.00 3.01
3201 3639 6.094048 CCATGACATTCGAAATACCAAGTTCT 59.906 38.462 0.00 0.00 0.00 3.01
3202 3640 7.362056 CCATGACATTCGAAATACCAAGTTCTT 60.362 37.037 0.00 0.00 0.00 2.52
3203 3641 8.664798 CATGACATTCGAAATACCAAGTTCTTA 58.335 33.333 0.00 0.00 0.00 2.10
3261 3699 1.078214 ATCATGGTGTGTCAGGGCG 60.078 57.895 0.00 0.00 0.00 6.13
3311 3751 3.301794 AAAACCGAACCTAAACCCAGT 57.698 42.857 0.00 0.00 0.00 4.00
3318 3758 2.361085 ACCTAAACCCAGTCCCTCAT 57.639 50.000 0.00 0.00 0.00 2.90
3326 3766 1.517832 CAGTCCCTCATGACCGTCC 59.482 63.158 0.00 0.00 35.83 4.79
3345 3785 2.434185 TTCACGTGATCTGGCCGC 60.434 61.111 20.80 0.00 0.00 6.53
3419 3892 2.371841 TGGCAGCTACTCCAGAAGAAAA 59.628 45.455 0.00 0.00 0.00 2.29
3454 3927 6.415573 TCTAGTTATTTGGGCCTTTTCTCTC 58.584 40.000 4.53 0.00 0.00 3.20
3489 3962 5.382303 CAATTTGCTAACTACAGTCCGTTG 58.618 41.667 0.00 0.00 0.00 4.10
3492 3965 0.989890 CTAACTACAGTCCGTTGCGC 59.010 55.000 0.00 0.00 0.00 6.09
3562 4035 4.093952 CTGCGGCAAGTTGCGGAG 62.094 66.667 32.35 25.72 46.21 4.63
3625 4933 1.859080 CCGTTATAGGTTTCAGCGCTC 59.141 52.381 7.13 0.00 0.00 5.03
3635 4943 1.172180 TTCAGCGCTCCTGGTTTTGG 61.172 55.000 7.13 0.00 42.05 3.28
3636 4944 1.898574 CAGCGCTCCTGGTTTTGGT 60.899 57.895 7.13 0.00 37.93 3.67
3654 4962 4.261578 TGGTAAGTTTCTAGGTGGTTCG 57.738 45.455 0.00 0.00 0.00 3.95
3655 4963 2.998670 GGTAAGTTTCTAGGTGGTTCGC 59.001 50.000 0.00 0.00 0.00 4.70
3668 4976 2.981350 TTCGCAGCCGGGGTTTTC 60.981 61.111 2.18 0.00 34.56 2.29
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
171 173 1.064003 TATGACAGGCACAACAGGGT 58.936 50.000 0.00 0.00 0.00 4.34
173 175 1.453155 GGTATGACAGGCACAACAGG 58.547 55.000 0.00 0.00 0.00 4.00
188 190 2.378547 ACATGGTGGTTTGTCTGGGTAT 59.621 45.455 0.00 0.00 0.00 2.73
195 211 2.687935 ACACAGAACATGGTGGTTTGTC 59.312 45.455 0.00 0.00 39.31 3.18
257 277 0.396695 TTCCTCCCCGACGAGCTATT 60.397 55.000 0.00 0.00 0.00 1.73
360 380 2.054834 ATCCCTCCCTCCCTCCATCC 62.055 65.000 0.00 0.00 0.00 3.51
361 381 0.839853 CATCCCTCCCTCCCTCCATC 60.840 65.000 0.00 0.00 0.00 3.51
362 382 1.241327 CATCCCTCCCTCCCTCCAT 59.759 63.158 0.00 0.00 0.00 3.41
363 383 2.705410 CATCCCTCCCTCCCTCCA 59.295 66.667 0.00 0.00 0.00 3.86
364 384 2.122189 CCATCCCTCCCTCCCTCC 60.122 72.222 0.00 0.00 0.00 4.30
365 385 1.152139 CTCCATCCCTCCCTCCCTC 60.152 68.421 0.00 0.00 0.00 4.30
366 386 2.731461 CCTCCATCCCTCCCTCCCT 61.731 68.421 0.00 0.00 0.00 4.20
379 410 1.212688 CAGCACCCAATGTATCCTCCA 59.787 52.381 0.00 0.00 0.00 3.86
431 462 2.370281 AATAGCCAGACACAGACACG 57.630 50.000 0.00 0.00 0.00 4.49
543 580 8.134895 TGATGTGAATGGTTAGTTTTTCTTCAC 58.865 33.333 0.00 0.00 40.67 3.18
547 584 8.137437 CAGTTGATGTGAATGGTTAGTTTTTCT 58.863 33.333 0.00 0.00 0.00 2.52
585 622 6.081049 TGTTGAACTTTAACTTTGTGTCACG 58.919 36.000 0.00 0.00 0.00 4.35
602 639 9.744468 ATGTACTGGTCTTTTTATTTGTTGAAC 57.256 29.630 0.00 0.00 0.00 3.18
604 641 8.356657 CCATGTACTGGTCTTTTTATTTGTTGA 58.643 33.333 0.00 0.00 40.49 3.18
608 645 7.975616 CCATCCATGTACTGGTCTTTTTATTTG 59.024 37.037 10.08 0.00 46.08 2.32
637 679 6.516527 GCTGAAAAACATTGTGTAGGGATGAA 60.517 38.462 0.00 0.00 0.00 2.57
644 686 6.264832 TGTTGAGCTGAAAAACATTGTGTAG 58.735 36.000 0.00 0.00 0.00 2.74
669 716 2.514824 GGTGCATTCCTCCCGCTC 60.515 66.667 0.00 0.00 0.00 5.03
672 719 3.060614 ATGGGGTGCATTCCTCCCG 62.061 63.158 3.40 0.00 46.27 5.14
687 734 2.165167 ACACCATCAAGTTCAGCATGG 58.835 47.619 0.00 0.00 41.52 3.66
709 756 7.259161 AGTATTTTACCGCAACAAACTGAAAA 58.741 30.769 0.00 0.00 0.00 2.29
712 759 6.380095 AAGTATTTTACCGCAACAAACTGA 57.620 33.333 0.00 0.00 0.00 3.41
713 760 7.322699 CAGTAAGTATTTTACCGCAACAAACTG 59.677 37.037 0.00 0.00 0.00 3.16
718 878 7.493743 TTTCAGTAAGTATTTTACCGCAACA 57.506 32.000 0.00 0.00 0.00 3.33
732 892 8.394971 TGATCATGTGACAAATTTCAGTAAGT 57.605 30.769 0.00 0.00 0.00 2.24
736 896 8.795513 TGTAATGATCATGTGACAAATTTCAGT 58.204 29.630 9.46 0.00 0.00 3.41
744 904 7.700022 TGGATTTGTAATGATCATGTGACAA 57.300 32.000 19.55 19.55 0.00 3.18
748 908 9.811995 AAATCTTGGATTTGTAATGATCATGTG 57.188 29.630 9.46 0.00 0.00 3.21
765 938 6.968263 TGACCAAAACATACAAATCTTGGA 57.032 33.333 5.69 0.00 37.38 3.53
778 951 9.883142 ATTTGTTCTTTAAGATTGACCAAAACA 57.117 25.926 0.00 0.00 0.00 2.83
783 956 9.959749 GTAACATTTGTTCTTTAAGATTGACCA 57.040 29.630 0.00 0.00 39.31 4.02
809 986 7.814587 CAGCCTTTTCTTTTCTTGGTTATAAGG 59.185 37.037 0.00 0.00 33.33 2.69
818 995 3.126073 GGCACAGCCTTTTCTTTTCTTG 58.874 45.455 0.00 0.00 46.69 3.02
834 1011 8.949339 CACAAAAACAGAGTGAAAAATGGCACA 61.949 37.037 0.00 0.00 38.01 4.57
850 1027 5.296748 CCCATTTTACCCTCACAAAAACAG 58.703 41.667 0.00 0.00 0.00 3.16
909 1088 1.958579 ACACTACGCTCCAACACAGTA 59.041 47.619 0.00 0.00 0.00 2.74
922 1101 1.798813 GCTGAAGGAAACCACACTACG 59.201 52.381 0.00 0.00 0.00 3.51
934 1114 2.268920 GCGACCATGGCTGAAGGA 59.731 61.111 13.04 0.00 0.00 3.36
937 1117 2.747460 GCTGCGACCATGGCTGAA 60.747 61.111 13.04 0.00 0.00 3.02
1251 1451 2.031516 CAGCAGCAGGTCGAGGTTG 61.032 63.158 0.00 0.00 0.00 3.77
1546 1763 3.570550 TGGTTACGGTTTGGATTCTTTGG 59.429 43.478 0.00 0.00 0.00 3.28
1547 1764 4.839668 TGGTTACGGTTTGGATTCTTTG 57.160 40.909 0.00 0.00 0.00 2.77
1548 1765 6.041069 TGAATTGGTTACGGTTTGGATTCTTT 59.959 34.615 0.00 0.00 0.00 2.52
1549 1766 5.536916 TGAATTGGTTACGGTTTGGATTCTT 59.463 36.000 0.00 0.00 0.00 2.52
1550 1767 5.074115 TGAATTGGTTACGGTTTGGATTCT 58.926 37.500 0.00 0.00 0.00 2.40
1560 1777 4.757799 TGTTGACATGAATTGGTTACGG 57.242 40.909 0.00 0.00 0.00 4.02
1575 1792 5.237815 TCATACTGACAAGACCATGTTGAC 58.762 41.667 1.85 0.00 32.57 3.18
1582 1802 6.550938 AGAATCATCATACTGACAAGACCA 57.449 37.500 0.00 0.00 0.00 4.02
1584 1804 7.492524 TGGTAGAATCATCATACTGACAAGAC 58.507 38.462 0.00 0.00 0.00 3.01
1622 1842 7.982354 AGTAATTGATTGGCTACACTAGAGAAC 59.018 37.037 0.00 0.00 0.00 3.01
1646 1873 8.790718 ACGGTATAATCATACGAGTAAATGAGT 58.209 33.333 0.00 0.00 38.35 3.41
1691 1921 7.068716 GGGCTGTCCATTTCATAAGAGTAATTT 59.931 37.037 0.00 0.00 35.00 1.82
1692 1922 6.547510 GGGCTGTCCATTTCATAAGAGTAATT 59.452 38.462 0.00 0.00 35.00 1.40
1752 1982 3.530535 AGCAAATGGGTGAACAAACAAC 58.469 40.909 0.00 0.00 0.00 3.32
1755 1985 3.791245 TCAAGCAAATGGGTGAACAAAC 58.209 40.909 0.00 0.00 0.00 2.93
1756 1986 3.181467 CCTCAAGCAAATGGGTGAACAAA 60.181 43.478 0.00 0.00 0.00 2.83
1757 1987 2.364970 CCTCAAGCAAATGGGTGAACAA 59.635 45.455 0.00 0.00 0.00 2.83
1758 1988 1.962807 CCTCAAGCAAATGGGTGAACA 59.037 47.619 0.00 0.00 0.00 3.18
1759 1989 2.238521 TCCTCAAGCAAATGGGTGAAC 58.761 47.619 0.00 0.00 0.00 3.18
1760 1990 2.673775 TCCTCAAGCAAATGGGTGAA 57.326 45.000 0.00 0.00 0.00 3.18
1762 1992 2.675889 GCATTCCTCAAGCAAATGGGTG 60.676 50.000 0.00 0.00 32.31 4.61
1763 1993 1.551883 GCATTCCTCAAGCAAATGGGT 59.448 47.619 0.00 0.00 32.31 4.51
1764 1994 1.551430 TGCATTCCTCAAGCAAATGGG 59.449 47.619 0.00 0.00 34.97 4.00
1765 1995 3.322211 TTGCATTCCTCAAGCAAATGG 57.678 42.857 0.00 0.00 44.39 3.16
1785 2015 4.542697 AGGGGTGAACAAACAACAATAGT 58.457 39.130 0.00 0.00 0.00 2.12
1789 2019 2.104170 GGAGGGGTGAACAAACAACAA 58.896 47.619 0.00 0.00 0.00 2.83
1792 2022 0.930726 AGGGAGGGGTGAACAAACAA 59.069 50.000 0.00 0.00 0.00 2.83
1816 2046 5.219739 AGTCCTGGCTCTGAAATCCTTATA 58.780 41.667 0.00 0.00 0.00 0.98
1852 2082 4.142600 GGACTAGCATCATGAAACAACCAC 60.143 45.833 0.00 0.00 0.00 4.16
1855 2085 4.455533 TGTGGACTAGCATCATGAAACAAC 59.544 41.667 0.00 0.00 0.00 3.32
1871 2101 2.758979 CCTCGTACCATAAGTGTGGACT 59.241 50.000 0.53 0.00 42.02 3.85
1874 2104 3.492656 CCATCCTCGTACCATAAGTGTGG 60.493 52.174 0.00 0.00 45.04 4.17
1882 2112 3.165875 CCAGATACCATCCTCGTACCAT 58.834 50.000 0.00 0.00 0.00 3.55
1888 2126 4.202253 TGACAAATCCAGATACCATCCTCG 60.202 45.833 0.00 0.00 0.00 4.63
1890 2128 4.971282 TCTGACAAATCCAGATACCATCCT 59.029 41.667 0.00 0.00 35.89 3.24
1945 2198 8.947115 AGTAAGAAAATGCAACTAAGATACACC 58.053 33.333 0.00 0.00 0.00 4.16
1978 2233 3.319137 ACTCGAGTAATGCTGCTTGAA 57.681 42.857 18.46 0.00 28.28 2.69
2066 2321 7.484140 TGTTCACTGCTACATTACAGATAGAG 58.516 38.462 0.00 0.00 37.35 2.43
2067 2322 7.404671 TGTTCACTGCTACATTACAGATAGA 57.595 36.000 0.00 0.00 37.35 1.98
2068 2323 9.404348 CTATGTTCACTGCTACATTACAGATAG 57.596 37.037 0.00 0.00 36.46 2.08
2069 2324 7.867909 GCTATGTTCACTGCTACATTACAGATA 59.132 37.037 0.00 0.00 36.46 1.98
2070 2325 6.703607 GCTATGTTCACTGCTACATTACAGAT 59.296 38.462 0.00 0.00 36.46 2.90
2071 2326 6.042777 GCTATGTTCACTGCTACATTACAGA 58.957 40.000 0.00 0.00 36.46 3.41
2072 2327 5.812127 TGCTATGTTCACTGCTACATTACAG 59.188 40.000 0.00 0.00 36.46 2.74
2077 2332 7.935755 AGAATTATGCTATGTTCACTGCTACAT 59.064 33.333 0.00 0.00 38.46 2.29
2129 2539 7.471721 TCAAACATCTTGTAGAACAACTGTTG 58.528 34.615 18.44 18.44 38.15 3.33
2130 2540 7.624360 TCAAACATCTTGTAGAACAACTGTT 57.376 32.000 0.00 0.00 39.00 3.16
2131 2541 7.498900 TCATCAAACATCTTGTAGAACAACTGT 59.501 33.333 0.00 0.00 33.96 3.55
2132 2542 7.864686 TCATCAAACATCTTGTAGAACAACTG 58.135 34.615 0.00 0.00 33.96 3.16
2133 2543 8.627208 ATCATCAAACATCTTGTAGAACAACT 57.373 30.769 0.00 0.00 33.96 3.16
2134 2544 9.334693 GAATCATCAAACATCTTGTAGAACAAC 57.665 33.333 0.00 0.00 33.96 3.32
2135 2545 8.514594 GGAATCATCAAACATCTTGTAGAACAA 58.485 33.333 0.00 0.00 36.54 2.83
2136 2546 7.121168 GGGAATCATCAAACATCTTGTAGAACA 59.879 37.037 0.00 0.00 0.00 3.18
2182 2594 1.336240 GCAACTGCATGAAACAGGGTC 60.336 52.381 0.00 0.00 39.55 4.46
2219 2643 1.973812 GACCAAGTTCAGCAGGGGC 60.974 63.158 0.00 0.00 41.61 5.80
2220 2644 0.111253 AAGACCAAGTTCAGCAGGGG 59.889 55.000 0.00 0.00 0.00 4.79
2222 2646 2.544486 GCAAAAGACCAAGTTCAGCAGG 60.544 50.000 0.00 0.00 0.00 4.85
2228 2652 3.801114 ACAAGGCAAAAGACCAAGTTC 57.199 42.857 0.00 0.00 0.00 3.01
2237 2661 4.549458 CATCAACACCTACAAGGCAAAAG 58.451 43.478 0.00 0.00 39.63 2.27
2288 2713 1.301716 GACAAGCACCGCCTCTTCA 60.302 57.895 0.00 0.00 0.00 3.02
2372 2797 5.526479 CACGATGATCTTGATGTCCTTGATT 59.474 40.000 0.00 0.00 0.00 2.57
2507 2932 1.503542 CCTGTTTGTGCTGCGGATC 59.496 57.895 0.00 0.00 0.00 3.36
2719 3147 1.135083 GCAGCTCTATACACACCACGT 60.135 52.381 0.00 0.00 0.00 4.49
2781 3211 1.058695 CGTGCTACGCTAGGAAAAACG 59.941 52.381 0.00 0.00 33.65 3.60
2860 3295 2.341257 ACTCTGCTAATGTTCAGCGTG 58.659 47.619 0.00 0.00 42.13 5.34
2914 3349 0.593128 GATGAAACCGCAGCAACAGT 59.407 50.000 0.00 0.00 0.00 3.55
2922 3360 2.948979 ACTCAAACAAGATGAAACCGCA 59.051 40.909 0.00 0.00 0.00 5.69
2924 3362 4.552166 ACACTCAAACAAGATGAAACCG 57.448 40.909 0.00 0.00 0.00 4.44
2926 3364 6.586082 ACAACAACACTCAAACAAGATGAAAC 59.414 34.615 0.00 0.00 0.00 2.78
2927 3365 6.686630 ACAACAACACTCAAACAAGATGAAA 58.313 32.000 0.00 0.00 0.00 2.69
2928 3366 6.266168 ACAACAACACTCAAACAAGATGAA 57.734 33.333 0.00 0.00 0.00 2.57
2939 3377 2.653726 AGCCATGAACAACAACACTCA 58.346 42.857 0.00 0.00 0.00 3.41
2961 3399 8.217131 TCCATCTCAGTTCAACAATCAATATG 57.783 34.615 0.00 0.00 0.00 1.78
2964 3402 6.479006 TCTCCATCTCAGTTCAACAATCAAT 58.521 36.000 0.00 0.00 0.00 2.57
3154 3592 9.918630 CATGGAGTTCTTGATTCACTTTTAATT 57.081 29.630 0.00 0.00 0.00 1.40
3155 3593 9.300681 TCATGGAGTTCTTGATTCACTTTTAAT 57.699 29.630 0.00 0.00 0.00 1.40
3156 3594 8.567948 GTCATGGAGTTCTTGATTCACTTTTAA 58.432 33.333 0.00 0.00 33.08 1.52
3157 3595 7.719193 TGTCATGGAGTTCTTGATTCACTTTTA 59.281 33.333 0.00 0.00 33.08 1.52
3158 3596 6.547141 TGTCATGGAGTTCTTGATTCACTTTT 59.453 34.615 0.00 0.00 33.08 2.27
3159 3597 6.064060 TGTCATGGAGTTCTTGATTCACTTT 58.936 36.000 0.00 0.00 33.08 2.66
3160 3598 5.624159 TGTCATGGAGTTCTTGATTCACTT 58.376 37.500 0.00 0.00 33.08 3.16
3161 3599 5.233083 TGTCATGGAGTTCTTGATTCACT 57.767 39.130 0.00 0.00 33.08 3.41
3162 3600 6.506500 AATGTCATGGAGTTCTTGATTCAC 57.493 37.500 0.00 0.00 33.08 3.18
3163 3601 5.352293 CGAATGTCATGGAGTTCTTGATTCA 59.648 40.000 0.00 0.00 33.08 2.57
3164 3602 5.582269 TCGAATGTCATGGAGTTCTTGATTC 59.418 40.000 0.00 0.00 33.08 2.52
3165 3603 5.491070 TCGAATGTCATGGAGTTCTTGATT 58.509 37.500 0.00 0.00 33.08 2.57
3166 3604 5.089970 TCGAATGTCATGGAGTTCTTGAT 57.910 39.130 0.00 0.00 33.08 2.57
3167 3605 4.535526 TCGAATGTCATGGAGTTCTTGA 57.464 40.909 0.00 0.00 0.00 3.02
3168 3606 5.611796 TTTCGAATGTCATGGAGTTCTTG 57.388 39.130 0.00 0.00 0.00 3.02
3169 3607 6.316390 GGTATTTCGAATGTCATGGAGTTCTT 59.684 38.462 0.00 0.00 0.00 2.52
3170 3608 5.817816 GGTATTTCGAATGTCATGGAGTTCT 59.182 40.000 0.00 0.00 0.00 3.01
3171 3609 5.584649 TGGTATTTCGAATGTCATGGAGTTC 59.415 40.000 0.00 0.00 0.00 3.01
3172 3610 5.496556 TGGTATTTCGAATGTCATGGAGTT 58.503 37.500 0.00 0.00 0.00 3.01
3173 3611 5.097742 TGGTATTTCGAATGTCATGGAGT 57.902 39.130 0.00 0.00 0.00 3.85
3174 3612 5.586243 ACTTGGTATTTCGAATGTCATGGAG 59.414 40.000 0.00 0.00 0.00 3.86
3175 3613 5.496556 ACTTGGTATTTCGAATGTCATGGA 58.503 37.500 0.00 0.00 0.00 3.41
3176 3614 5.818136 ACTTGGTATTTCGAATGTCATGG 57.182 39.130 0.00 0.00 0.00 3.66
3177 3615 7.076842 AGAACTTGGTATTTCGAATGTCATG 57.923 36.000 0.00 1.36 0.00 3.07
3178 3616 7.687941 AAGAACTTGGTATTTCGAATGTCAT 57.312 32.000 0.00 0.00 0.00 3.06
3179 3617 7.658167 TGTAAGAACTTGGTATTTCGAATGTCA 59.342 33.333 0.00 0.00 0.00 3.58
3180 3618 8.025243 TGTAAGAACTTGGTATTTCGAATGTC 57.975 34.615 0.00 0.00 0.00 3.06
3181 3619 7.972832 TGTAAGAACTTGGTATTTCGAATGT 57.027 32.000 0.00 0.00 0.00 2.71
3182 3620 9.277565 CAATGTAAGAACTTGGTATTTCGAATG 57.722 33.333 0.00 0.00 0.00 2.67
3183 3621 9.010029 ACAATGTAAGAACTTGGTATTTCGAAT 57.990 29.630 0.00 0.00 0.00 3.34
3184 3622 8.286800 CACAATGTAAGAACTTGGTATTTCGAA 58.713 33.333 0.00 0.00 0.00 3.71
3185 3623 7.094975 CCACAATGTAAGAACTTGGTATTTCGA 60.095 37.037 0.00 0.00 0.00 3.71
3186 3624 7.021196 CCACAATGTAAGAACTTGGTATTTCG 58.979 38.462 0.00 0.00 0.00 3.46
3187 3625 7.312899 CCCACAATGTAAGAACTTGGTATTTC 58.687 38.462 0.00 0.00 0.00 2.17
3188 3626 6.295067 GCCCACAATGTAAGAACTTGGTATTT 60.295 38.462 0.00 0.00 0.00 1.40
3189 3627 5.185056 GCCCACAATGTAAGAACTTGGTATT 59.815 40.000 0.00 0.00 0.00 1.89
3190 3628 4.705023 GCCCACAATGTAAGAACTTGGTAT 59.295 41.667 0.00 0.00 0.00 2.73
3191 3629 4.076394 GCCCACAATGTAAGAACTTGGTA 58.924 43.478 0.00 0.00 0.00 3.25
3192 3630 2.890945 GCCCACAATGTAAGAACTTGGT 59.109 45.455 0.00 0.00 0.00 3.67
3193 3631 2.890311 TGCCCACAATGTAAGAACTTGG 59.110 45.455 0.00 0.00 0.00 3.61
3194 3632 4.582701 TTGCCCACAATGTAAGAACTTG 57.417 40.909 0.00 0.00 0.00 3.16
3195 3633 5.806654 ATTTGCCCACAATGTAAGAACTT 57.193 34.783 0.00 0.00 35.21 2.66
3196 3634 5.806654 AATTTGCCCACAATGTAAGAACT 57.193 34.783 0.00 0.00 35.21 3.01
3197 3635 5.757808 ACAAATTTGCCCACAATGTAAGAAC 59.242 36.000 18.12 0.00 35.21 3.01
3198 3636 5.923204 ACAAATTTGCCCACAATGTAAGAA 58.077 33.333 18.12 0.00 35.21 2.52
3199 3637 5.543507 ACAAATTTGCCCACAATGTAAGA 57.456 34.783 18.12 0.00 35.21 2.10
3200 3638 5.560567 GCAACAAATTTGCCCACAATGTAAG 60.561 40.000 18.12 0.00 39.38 2.34
3201 3639 4.274459 GCAACAAATTTGCCCACAATGTAA 59.726 37.500 18.12 0.00 39.38 2.41
3202 3640 3.812053 GCAACAAATTTGCCCACAATGTA 59.188 39.130 18.12 0.00 39.38 2.29
3203 3641 2.617774 GCAACAAATTTGCCCACAATGT 59.382 40.909 18.12 0.00 39.38 2.71
3235 3673 5.185635 CCCTGACACACCATGATGTTTAAAT 59.814 40.000 0.00 0.00 0.00 1.40
3236 3674 4.522405 CCCTGACACACCATGATGTTTAAA 59.478 41.667 0.00 0.00 0.00 1.52
3237 3675 4.078537 CCCTGACACACCATGATGTTTAA 58.921 43.478 0.00 0.00 0.00 1.52
3252 3690 0.250510 TATTGTTGCACGCCCTGACA 60.251 50.000 0.00 0.00 0.00 3.58
3311 3751 1.601419 GAACGGACGGTCATGAGGGA 61.601 60.000 10.76 0.00 0.00 4.20
3318 3758 1.798234 ATCACGTGAACGGACGGTCA 61.798 55.000 24.13 8.56 43.84 4.02
3326 3766 2.444624 CGGCCAGATCACGTGAACG 61.445 63.158 24.13 15.20 46.33 3.95
3345 3785 5.468072 AGAACAAAACTGACAGCACATCTAG 59.532 40.000 1.25 0.00 0.00 2.43
3419 3892 5.501156 CCAAATAACTAGAGGGCTCAGTTT 58.499 41.667 0.00 0.00 34.87 2.66
3454 3927 1.895131 AGCAAATTGGTAACTGGGCTG 59.105 47.619 0.00 0.00 37.61 4.85
3489 3962 2.508891 CGACTGGACTCATTCGCGC 61.509 63.158 0.00 0.00 38.76 6.86
3492 3965 1.598183 CGGATCGACTGGACTCATTCG 60.598 57.143 0.00 0.00 44.17 3.34
3520 3993 1.203758 CGGCAAATAGGAAAACACCCC 59.796 52.381 0.00 0.00 0.00 4.95
3559 4032 2.358247 TTCCCTTTGCGTCGCTCC 60.358 61.111 19.50 0.00 0.00 4.70
3562 4035 1.019278 TGATCTTCCCTTTGCGTCGC 61.019 55.000 11.10 11.10 0.00 5.19
3563 4036 1.128692 GTTGATCTTCCCTTTGCGTCG 59.871 52.381 0.00 0.00 0.00 5.12
3564 4037 1.128692 CGTTGATCTTCCCTTTGCGTC 59.871 52.381 0.00 0.00 0.00 5.19
3570 4878 3.274288 GAATGCTCGTTGATCTTCCCTT 58.726 45.455 0.00 0.00 0.00 3.95
3605 4913 1.859080 GAGCGCTGAAACCTATAACGG 59.141 52.381 18.48 0.00 0.00 4.44
3607 4915 2.866762 CAGGAGCGCTGAAACCTATAAC 59.133 50.000 18.48 0.00 0.00 1.89
3611 4919 1.192146 ACCAGGAGCGCTGAAACCTA 61.192 55.000 18.48 0.00 0.00 3.08
3625 4933 5.240844 CACCTAGAAACTTACCAAAACCAGG 59.759 44.000 0.00 0.00 0.00 4.45
3635 4943 3.656559 TGCGAACCACCTAGAAACTTAC 58.343 45.455 0.00 0.00 0.00 2.34
3636 4944 3.863400 GCTGCGAACCACCTAGAAACTTA 60.863 47.826 0.00 0.00 0.00 2.24
3663 4971 3.504520 TGAAGGTTCCATAAGCGGAAAAC 59.495 43.478 0.00 0.00 46.51 2.43


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

AutoCloner maintained by Alex Coulton.