Multiple sequence alignment - TraesCS6D01G120000

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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 TraesCS6D01G120000 chr6D 100.000 2618 0 0 1 2618 85034676 85037293 0.000000e+00 4835
1 TraesCS6D01G120000 chr6B 94.239 677 29 3 929 1605 161593040 161592374 0.000000e+00 1026
2 TraesCS6D01G120000 chr6B 89.747 712 35 18 1665 2363 161592286 161591600 0.000000e+00 876
3 TraesCS6D01G120000 chr6B 94.196 224 12 1 2395 2618 161591608 161591386 8.970000e-90 340
4 TraesCS6D01G120000 chr5D 93.427 639 29 6 1 638 59229420 59230046 0.000000e+00 935
5 TraesCS6D01G120000 chr5D 91.775 231 16 3 632 862 59230087 59230314 4.200000e-83 318
6 TraesCS6D01G120000 chr4A 91.379 638 49 3 1 638 690226716 690227347 0.000000e+00 869
7 TraesCS6D01G120000 chr4A 87.755 245 26 2 631 875 690227388 690227628 1.530000e-72 283
8 TraesCS6D01G120000 chr7A 91.379 638 48 4 1 638 200609679 200609049 0.000000e+00 867
9 TraesCS6D01G120000 chr7A 87.550 249 25 6 627 875 200609011 200608769 1.530000e-72 283
10 TraesCS6D01G120000 chr3A 90.717 614 38 3 34 634 137585171 137585778 0.000000e+00 800
11 TraesCS6D01G120000 chr3A 87.003 377 45 2 263 638 646308112 646308485 3.120000e-114 422
12 TraesCS6D01G120000 chr3A 91.083 314 23 3 1 313 137585000 137585309 1.120000e-113 420
13 TraesCS6D01G120000 chr3A 91.579 95 7 1 2 96 646308012 646308105 2.110000e-26 130
14 TraesCS6D01G120000 chr6A 92.029 552 30 5 931 1478 102127588 102127047 0.000000e+00 763
15 TraesCS6D01G120000 chr6A 87.162 296 16 5 1668 1957 102110343 102110064 1.510000e-82 316
16 TraesCS6D01G120000 chr4D 90.227 440 28 6 1069 1508 196639382 196639806 6.330000e-156 560
17 TraesCS6D01G120000 chr4D 87.946 448 28 7 1073 1508 144436322 144436755 3.010000e-139 505
18 TraesCS6D01G120000 chr5B 87.330 442 36 6 1073 1508 570949327 570949754 3.030000e-134 488
19 TraesCS6D01G120000 chr4B 87.156 436 42 6 1073 1508 414687019 414687440 1.410000e-132 483
20 TraesCS6D01G120000 chr4B 81.443 291 39 11 318 596 237986018 237985731 9.430000e-55 224
21 TraesCS6D01G120000 chr2B 86.927 436 43 6 1073 1508 626799492 626799913 6.560000e-131 477
22 TraesCS6D01G120000 chr2A 86.468 436 45 7 1073 1508 396394253 396394674 1.420000e-127 466
23 TraesCS6D01G120000 chr2A 85.584 437 47 7 1073 1508 404688271 404687850 6.650000e-121 444
24 TraesCS6D01G120000 chr1A 88.889 369 36 3 275 642 523380150 523379786 1.430000e-122 449
25 TraesCS6D01G120000 chr1A 88.219 365 38 3 275 638 525145701 525145341 5.180000e-117 431
26 TraesCS6D01G120000 chr1A 86.472 377 46 3 263 638 272608460 272608832 2.430000e-110 409
27 TraesCS6D01G120000 chr1A 92.632 95 6 1 2 96 523380262 523380169 4.540000e-28 135
28 TraesCS6D01G120000 chr1A 91.579 95 7 1 2 96 272608360 272608453 2.110000e-26 130
29 TraesCS6D01G120000 chr3D 90.104 192 15 2 447 637 338553559 338553371 2.010000e-61 246
30 TraesCS6D01G120000 chr3D 88.571 175 16 3 2 176 338563903 338563733 2.640000e-50 209


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 TraesCS6D01G120000 chr6D 85034676 85037293 2617 False 4835.000000 4835 100.000000 1 2618 1 chr6D.!!$F1 2617
1 TraesCS6D01G120000 chr6B 161591386 161593040 1654 True 747.333333 1026 92.727333 929 2618 3 chr6B.!!$R1 1689
2 TraesCS6D01G120000 chr5D 59229420 59230314 894 False 626.500000 935 92.601000 1 862 2 chr5D.!!$F1 861
3 TraesCS6D01G120000 chr4A 690226716 690227628 912 False 576.000000 869 89.567000 1 875 2 chr4A.!!$F1 874
4 TraesCS6D01G120000 chr7A 200608769 200609679 910 True 575.000000 867 89.464500 1 875 2 chr7A.!!$R1 874
5 TraesCS6D01G120000 chr3A 137585000 137585778 778 False 610.000000 800 90.900000 1 634 2 chr3A.!!$F1 633
6 TraesCS6D01G120000 chr6A 102127047 102127588 541 True 763.000000 763 92.029000 931 1478 1 chr6A.!!$R2 547

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
886 1087 0.174617 CGCCCCAACTTCTCTCTCTC 59.825 60.0 0.0 0.0 0.0 3.2 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1964 2225 0.031857 CCAGCGAGAGGTATCTGCAG 59.968 60.0 7.63 7.63 41.81 4.41 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
74 75 0.535553 TGTTTCGGTGGCCAACTACC 60.536 55.000 20.91 9.88 0.00 3.18
78 79 4.218722 GGTGGCCAACTACCGATG 57.781 61.111 15.48 0.00 0.00 3.84
168 307 7.275341 CACAACTGTAAAGAAATGAAGTTGCAA 59.725 33.333 12.02 0.00 45.23 4.08
183 322 0.236187 TGCAATGTCGTACGGCAAAC 59.764 50.000 28.00 18.58 31.67 2.93
195 334 4.547587 CGTACGGCAAACTAATTTAGCTCG 60.548 45.833 7.57 3.88 0.00 5.03
207 346 1.823169 TTAGCTCGGTTTCGGTGGCT 61.823 55.000 0.00 0.00 39.10 4.75
304 443 5.770162 ACCCCATAGCTGTAAATAATGAAGC 59.230 40.000 0.00 0.00 0.00 3.86
443 596 4.340666 TGACATGGTTTGCAATGTTAGTGT 59.659 37.500 0.00 1.15 39.27 3.55
534 687 5.825593 ATGAAGGTCTTGAACTTCCACTA 57.174 39.130 21.32 7.16 41.78 2.74
708 909 9.524496 AATATATGAACCATGTACTGCATCAAT 57.476 29.630 0.00 0.00 35.19 2.57
736 937 3.073678 TGTAGATCGTGCTTGCAATTGT 58.926 40.909 7.40 0.00 0.00 2.71
747 948 3.708890 CTTGCAATTGTCTGAGCACAAA 58.291 40.909 7.40 0.00 39.69 2.83
763 964 7.935520 TGAGCACAAAAACAGTTGACATATTA 58.064 30.769 0.00 0.00 32.59 0.98
805 1006 6.647334 TTCATGTGCTAACCAAAATGAGAA 57.353 33.333 0.00 0.00 33.08 2.87
806 1007 6.258230 TCATGTGCTAACCAAAATGAGAAG 57.742 37.500 0.00 0.00 29.89 2.85
811 1012 7.551585 TGTGCTAACCAAAATGAGAAGAAAAA 58.448 30.769 0.00 0.00 0.00 1.94
834 1035 0.976641 TGATGAAACGGTCAGCCTCT 59.023 50.000 4.45 0.00 42.26 3.69
851 1052 2.031919 TTACCTGGCACCGCACAG 59.968 61.111 0.00 0.00 34.54 3.66
862 1063 2.031012 CGCACAGCCACCTCTCAA 59.969 61.111 0.00 0.00 0.00 3.02
875 1076 2.747855 CTCAAGAGGCGCCCCAAC 60.748 66.667 26.15 12.69 0.00 3.77
876 1077 3.249189 TCAAGAGGCGCCCCAACT 61.249 61.111 26.15 14.95 0.00 3.16
877 1078 2.282462 CAAGAGGCGCCCCAACTT 60.282 61.111 26.15 19.98 32.82 2.66
878 1079 2.034221 AAGAGGCGCCCCAACTTC 59.966 61.111 26.15 13.49 0.00 3.01
879 1080 2.529744 AAGAGGCGCCCCAACTTCT 61.530 57.895 26.15 15.90 0.00 2.85
880 1081 2.436824 GAGGCGCCCCAACTTCTC 60.437 66.667 26.15 7.69 0.00 2.87
881 1082 2.930562 AGGCGCCCCAACTTCTCT 60.931 61.111 26.15 0.00 0.00 3.10
882 1083 2.436824 GGCGCCCCAACTTCTCTC 60.437 66.667 18.11 0.00 0.00 3.20
883 1084 2.665603 GCGCCCCAACTTCTCTCT 59.334 61.111 0.00 0.00 0.00 3.10
884 1085 1.448717 GCGCCCCAACTTCTCTCTC 60.449 63.158 0.00 0.00 0.00 3.20
885 1086 1.893919 GCGCCCCAACTTCTCTCTCT 61.894 60.000 0.00 0.00 0.00 3.10
886 1087 0.174617 CGCCCCAACTTCTCTCTCTC 59.825 60.000 0.00 0.00 0.00 3.20
887 1088 1.270907 GCCCCAACTTCTCTCTCTCA 58.729 55.000 0.00 0.00 0.00 3.27
888 1089 1.625818 GCCCCAACTTCTCTCTCTCAA 59.374 52.381 0.00 0.00 0.00 3.02
889 1090 2.039084 GCCCCAACTTCTCTCTCTCAAA 59.961 50.000 0.00 0.00 0.00 2.69
890 1091 3.669536 CCCCAACTTCTCTCTCTCAAAC 58.330 50.000 0.00 0.00 0.00 2.93
891 1092 3.071602 CCCCAACTTCTCTCTCTCAAACA 59.928 47.826 0.00 0.00 0.00 2.83
892 1093 4.444876 CCCCAACTTCTCTCTCTCAAACAA 60.445 45.833 0.00 0.00 0.00 2.83
893 1094 5.126067 CCCAACTTCTCTCTCTCAAACAAA 58.874 41.667 0.00 0.00 0.00 2.83
894 1095 5.590259 CCCAACTTCTCTCTCTCAAACAAAA 59.410 40.000 0.00 0.00 0.00 2.44
895 1096 6.095440 CCCAACTTCTCTCTCTCAAACAAAAA 59.905 38.462 0.00 0.00 0.00 1.94
911 1112 3.455152 AAAAAGAGGCGCCCCAAC 58.545 55.556 26.15 12.69 0.00 3.77
912 1113 2.207229 AAAAAGAGGCGCCCCAACC 61.207 57.895 26.15 7.58 0.00 3.77
913 1114 2.937959 AAAAAGAGGCGCCCCAACCA 62.938 55.000 26.15 0.00 0.00 3.67
914 1115 4.660938 AAGAGGCGCCCCAACCAC 62.661 66.667 26.15 6.13 0.00 4.16
916 1117 3.712907 GAGGCGCCCCAACCACTA 61.713 66.667 26.15 0.00 0.00 2.74
917 1118 3.682292 GAGGCGCCCCAACCACTAG 62.682 68.421 26.15 0.00 0.00 2.57
918 1119 4.029809 GGCGCCCCAACCACTAGT 62.030 66.667 18.11 0.00 0.00 2.57
919 1120 2.746277 GCGCCCCAACCACTAGTG 60.746 66.667 16.34 16.34 0.00 2.74
920 1121 2.747686 CGCCCCAACCACTAGTGT 59.252 61.111 21.18 7.09 0.00 3.55
921 1122 1.976898 CGCCCCAACCACTAGTGTA 59.023 57.895 21.18 0.00 0.00 2.90
922 1123 0.390735 CGCCCCAACCACTAGTGTAC 60.391 60.000 21.18 2.22 0.00 2.90
923 1124 0.981943 GCCCCAACCACTAGTGTACT 59.018 55.000 21.18 2.61 0.00 2.73
924 1125 1.066358 GCCCCAACCACTAGTGTACTC 60.066 57.143 21.18 0.79 0.00 2.59
925 1126 1.203994 CCCCAACCACTAGTGTACTCG 59.796 57.143 21.18 8.20 0.00 4.18
926 1127 1.403780 CCCAACCACTAGTGTACTCGC 60.404 57.143 21.18 0.00 0.00 5.03
927 1128 1.614385 CAACCACTAGTGTACTCGCG 58.386 55.000 21.18 0.00 0.00 5.87
940 1141 1.138459 CTCGCGACAGAGTGCAGAT 59.862 57.895 3.71 0.00 33.75 2.90
1330 1535 1.680735 CAGGAGGAGAACGAGATGGAG 59.319 57.143 0.00 0.00 0.00 3.86
1395 1600 5.249393 AGGACAAATAGCCCAATCGATCTAT 59.751 40.000 0.00 0.00 0.00 1.98
1397 1602 5.491982 ACAAATAGCCCAATCGATCTATCC 58.508 41.667 0.00 0.00 0.00 2.59
1405 1610 3.085533 CAATCGATCTATCCCGTCTCCT 58.914 50.000 0.00 0.00 0.00 3.69
1413 1618 0.179000 ATCCCGTCTCCTGTTGATGC 59.821 55.000 0.00 0.00 0.00 3.91
1422 1627 2.941064 CTCCTGTTGATGCGATGTTCAT 59.059 45.455 0.00 0.00 0.00 2.57
1423 1628 2.938451 TCCTGTTGATGCGATGTTCATC 59.062 45.455 3.01 3.01 40.42 2.92
1424 1629 2.286008 CCTGTTGATGCGATGTTCATCG 60.286 50.000 24.77 24.77 42.32 3.84
1425 1630 1.665169 TGTTGATGCGATGTTCATCGG 59.335 47.619 28.11 15.10 42.32 4.18
1506 1711 4.649674 TCCCGCTAATCTTGTTAGTCATCT 59.350 41.667 0.00 0.00 0.00 2.90
1511 1716 5.921408 GCTAATCTTGTTAGTCATCTACGGG 59.079 44.000 0.00 0.00 0.00 5.28
1517 1722 4.858850 TGTTAGTCATCTACGGGGTAGAA 58.141 43.478 9.32 0.00 46.28 2.10
1528 1733 4.476628 ACGGGGTAGAACATTAATTCGT 57.523 40.909 0.00 0.00 33.57 3.85
1561 1766 7.656542 TGCTTGCAAAATAATCATGAGAAAACA 59.343 29.630 0.00 0.00 0.00 2.83
1601 1806 6.642707 ATTTTGTGGTTCGTCCTTCAAATA 57.357 33.333 15.67 11.13 38.87 1.40
1605 1810 5.067273 TGTGGTTCGTCCTTCAAATACAAT 58.933 37.500 1.80 0.00 37.07 2.71
1606 1811 5.049060 TGTGGTTCGTCCTTCAAATACAATG 60.049 40.000 1.80 0.00 37.07 2.82
1607 1812 4.083003 TGGTTCGTCCTTCAAATACAATGC 60.083 41.667 1.80 0.00 37.07 3.56
1635 1892 5.450592 TGCATGCTGTAGAATTTTGTTCA 57.549 34.783 20.33 0.00 0.00 3.18
1638 1895 6.930164 TGCATGCTGTAGAATTTTGTTCAAAT 59.070 30.769 20.33 0.00 36.57 2.32
1651 1908 8.961294 ATTTTGTTCAAATTCATGGACTGAAA 57.039 26.923 2.57 0.00 46.62 2.69
1652 1909 7.769272 TTTGTTCAAATTCATGGACTGAAAC 57.231 32.000 2.57 0.00 46.62 2.78
1653 1910 6.713762 TGTTCAAATTCATGGACTGAAACT 57.286 33.333 2.57 0.00 46.62 2.66
1654 1911 6.506147 TGTTCAAATTCATGGACTGAAACTG 58.494 36.000 2.57 0.00 46.62 3.16
1655 1912 6.096705 TGTTCAAATTCATGGACTGAAACTGT 59.903 34.615 2.57 0.00 46.62 3.55
1656 1913 7.284261 TGTTCAAATTCATGGACTGAAACTGTA 59.716 33.333 2.57 0.00 46.62 2.74
1657 1914 7.202016 TCAAATTCATGGACTGAAACTGTAC 57.798 36.000 0.00 0.00 46.62 2.90
1658 1915 5.862924 AATTCATGGACTGAAACTGTACG 57.137 39.130 0.00 0.00 46.62 3.67
1659 1916 4.330944 TTCATGGACTGAAACTGTACGT 57.669 40.909 0.00 0.00 40.92 3.57
1660 1917 3.649073 TCATGGACTGAAACTGTACGTG 58.351 45.455 0.00 0.00 35.41 4.49
1661 1918 1.860676 TGGACTGAAACTGTACGTGC 58.139 50.000 0.00 0.00 0.00 5.34
1662 1919 1.411246 TGGACTGAAACTGTACGTGCT 59.589 47.619 4.97 0.00 0.00 4.40
1663 1920 1.792949 GGACTGAAACTGTACGTGCTG 59.207 52.381 8.91 8.91 0.00 4.41
1675 1932 0.037882 ACGTGCTGTCATCCTGTGAG 60.038 55.000 0.00 0.00 37.56 3.51
1687 1944 3.639672 TCCTGTGAGATCATGCATTGT 57.360 42.857 0.00 0.00 0.00 2.71
1784 2045 4.320844 AGGACCAGCCTCTTGTGT 57.679 55.556 0.00 0.00 46.97 3.72
1785 2046 1.757306 AGGACCAGCCTCTTGTGTG 59.243 57.895 0.00 0.00 46.97 3.82
1786 2047 1.302832 GGACCAGCCTCTTGTGTGG 60.303 63.158 0.00 0.00 36.05 4.17
1787 2048 1.451936 GACCAGCCTCTTGTGTGGT 59.548 57.895 0.00 0.00 46.24 4.16
1934 2195 0.032952 AGGCGAAAACAGCGACAGTA 59.967 50.000 0.00 0.00 39.80 2.74
1942 2203 0.600255 ACAGCGACAGTAGCACCAAC 60.600 55.000 8.50 0.00 37.01 3.77
1956 2217 1.753649 CACCAACACCACCAACATCAA 59.246 47.619 0.00 0.00 0.00 2.57
1958 2219 2.031120 CCAACACCACCAACATCAAGT 58.969 47.619 0.00 0.00 0.00 3.16
1960 2221 3.490761 CCAACACCACCAACATCAAGTTC 60.491 47.826 0.00 0.00 38.74 3.01
1961 2222 3.011566 ACACCACCAACATCAAGTTCA 57.988 42.857 0.00 0.00 38.74 3.18
1964 2225 2.362077 ACCACCAACATCAAGTTCAAGC 59.638 45.455 0.00 0.00 38.74 4.01
1965 2226 2.624838 CCACCAACATCAAGTTCAAGCT 59.375 45.455 0.00 0.00 38.74 3.74
1966 2227 3.551454 CCACCAACATCAAGTTCAAGCTG 60.551 47.826 0.00 0.00 38.74 4.24
1968 2229 2.034939 CCAACATCAAGTTCAAGCTGCA 59.965 45.455 1.02 0.00 38.74 4.41
1969 2230 3.305964 CAACATCAAGTTCAAGCTGCAG 58.694 45.455 10.11 10.11 38.74 4.41
1970 2231 2.854963 ACATCAAGTTCAAGCTGCAGA 58.145 42.857 20.43 0.00 0.00 4.26
1971 2232 3.418995 ACATCAAGTTCAAGCTGCAGAT 58.581 40.909 20.43 8.90 0.00 2.90
1972 2233 4.582869 ACATCAAGTTCAAGCTGCAGATA 58.417 39.130 20.43 0.00 0.00 1.98
2052 2313 7.445121 AGCAATTTATACTGCTAGTGCTCATA 58.555 34.615 2.11 0.00 46.92 2.15
2062 2323 0.981183 AGTGCTCATACCGGACCAAA 59.019 50.000 9.46 0.00 0.00 3.28
2066 2327 3.013921 TGCTCATACCGGACCAAATTTC 58.986 45.455 9.46 0.00 0.00 2.17
2090 2351 4.891168 TCCTTTTCAGGTAAGGAAAACCAC 59.109 41.667 1.98 0.00 46.15 4.16
2106 2369 7.549488 AGGAAAACCACAGAGATTCGTATAAAG 59.451 37.037 0.00 0.00 0.00 1.85
2116 2379 7.863375 CAGAGATTCGTATAAAGGATCGAGTTT 59.137 37.037 0.00 0.00 33.98 2.66
2128 2391 3.555518 GATCGAGTTTGTGGTGCTTTTC 58.444 45.455 0.00 0.00 0.00 2.29
2129 2392 2.639065 TCGAGTTTGTGGTGCTTTTCT 58.361 42.857 0.00 0.00 0.00 2.52
2130 2393 2.354510 TCGAGTTTGTGGTGCTTTTCTG 59.645 45.455 0.00 0.00 0.00 3.02
2153 2418 1.858458 TCGACAACAGAGTTTTCAGCG 59.142 47.619 0.00 0.00 0.00 5.18
2154 2419 1.593006 CGACAACAGAGTTTTCAGCGT 59.407 47.619 0.00 0.00 0.00 5.07
2155 2420 2.597505 CGACAACAGAGTTTTCAGCGTG 60.598 50.000 0.00 0.00 0.00 5.34
2156 2421 2.351726 GACAACAGAGTTTTCAGCGTGT 59.648 45.455 0.00 0.00 0.00 4.49
2157 2422 2.351726 ACAACAGAGTTTTCAGCGTGTC 59.648 45.455 0.00 0.00 0.00 3.67
2158 2423 2.309528 ACAGAGTTTTCAGCGTGTCA 57.690 45.000 0.00 0.00 0.00 3.58
2159 2424 1.933853 ACAGAGTTTTCAGCGTGTCAC 59.066 47.619 0.00 0.00 0.00 3.67
2161 2426 2.219674 CAGAGTTTTCAGCGTGTCACTC 59.780 50.000 0.65 0.00 0.00 3.51
2162 2427 2.159099 AGAGTTTTCAGCGTGTCACTCA 60.159 45.455 0.65 0.00 34.33 3.41
2163 2428 1.933853 AGTTTTCAGCGTGTCACTCAC 59.066 47.619 0.65 0.00 43.03 3.51
2207 2474 2.218603 GAAAGAAGTTTCAGCGGTGGA 58.781 47.619 15.67 2.03 41.64 4.02
2227 2494 6.456501 GTGGAGGTGAGATATATAAACGCTT 58.543 40.000 0.00 0.00 0.00 4.68
2240 2507 9.826574 ATATATAAACGCTTAGGTTTTCAGTGA 57.173 29.630 4.66 0.00 40.41 3.41
2282 2554 6.315393 AGAATGAGTTTTCGGCGTGTTATTAT 59.685 34.615 6.85 0.00 0.00 1.28
2283 2555 7.493320 AGAATGAGTTTTCGGCGTGTTATTATA 59.507 33.333 6.85 0.00 0.00 0.98
2284 2556 6.578020 TGAGTTTTCGGCGTGTTATTATAG 57.422 37.500 6.85 0.00 0.00 1.31
2285 2557 6.101332 TGAGTTTTCGGCGTGTTATTATAGT 58.899 36.000 6.85 0.00 0.00 2.12
2286 2558 7.257003 TGAGTTTTCGGCGTGTTATTATAGTA 58.743 34.615 6.85 0.00 0.00 1.82
2287 2559 7.922278 TGAGTTTTCGGCGTGTTATTATAGTAT 59.078 33.333 6.85 0.00 0.00 2.12
2288 2560 8.652810 AGTTTTCGGCGTGTTATTATAGTATT 57.347 30.769 6.85 0.00 0.00 1.89
2289 2561 9.748708 AGTTTTCGGCGTGTTATTATAGTATTA 57.251 29.630 6.85 0.00 0.00 0.98
2322 2594 5.469479 CACAATATTTGGTCACAGTTTCCC 58.531 41.667 0.00 0.00 34.12 3.97
2329 2601 0.605319 GTCACAGTTTCCCGGATGCA 60.605 55.000 0.73 0.00 0.00 3.96
2363 2635 7.187480 CACATCTTGCAGACTTTATTCTGATG 58.813 38.462 4.29 0.00 45.19 3.07
2364 2636 6.883217 ACATCTTGCAGACTTTATTCTGATGT 59.117 34.615 4.29 0.00 45.19 3.06
2365 2637 7.392673 ACATCTTGCAGACTTTATTCTGATGTT 59.607 33.333 4.29 0.00 45.19 2.71
2366 2638 7.750229 TCTTGCAGACTTTATTCTGATGTTT 57.250 32.000 4.29 0.00 45.19 2.83
2367 2639 7.587629 TCTTGCAGACTTTATTCTGATGTTTG 58.412 34.615 4.29 0.00 45.19 2.93
2368 2640 6.882610 TGCAGACTTTATTCTGATGTTTGT 57.117 33.333 4.29 0.00 45.19 2.83
2369 2641 6.902341 TGCAGACTTTATTCTGATGTTTGTC 58.098 36.000 4.29 0.00 45.19 3.18
2370 2642 6.486320 TGCAGACTTTATTCTGATGTTTGTCA 59.514 34.615 4.29 0.00 45.19 3.58
2371 2643 7.175467 TGCAGACTTTATTCTGATGTTTGTCAT 59.825 33.333 4.29 0.00 45.19 3.06
2372 2644 8.025445 GCAGACTTTATTCTGATGTTTGTCATT 58.975 33.333 4.29 0.00 45.19 2.57
2381 2653 6.845302 TCTGATGTTTGTCATTACAATCTGC 58.155 36.000 0.00 0.00 44.85 4.26
2382 2654 6.430616 TCTGATGTTTGTCATTACAATCTGCA 59.569 34.615 0.00 0.00 44.85 4.41
2383 2655 6.380995 TGATGTTTGTCATTACAATCTGCAC 58.619 36.000 0.00 0.00 44.85 4.57
2384 2656 4.782156 TGTTTGTCATTACAATCTGCACG 58.218 39.130 0.00 0.00 44.85 5.34
2385 2657 4.274705 TGTTTGTCATTACAATCTGCACGT 59.725 37.500 0.00 0.00 44.85 4.49
2386 2658 4.403015 TTGTCATTACAATCTGCACGTG 57.597 40.909 12.28 12.28 40.69 4.49
2387 2659 2.159430 TGTCATTACAATCTGCACGTGC 59.841 45.455 33.11 33.11 35.39 5.34
2388 2660 2.416547 GTCATTACAATCTGCACGTGCT 59.583 45.455 37.59 21.07 42.66 4.40
2389 2661 3.073678 TCATTACAATCTGCACGTGCTT 58.926 40.909 37.59 23.13 42.66 3.91
2390 2662 3.125146 TCATTACAATCTGCACGTGCTTC 59.875 43.478 37.59 13.26 42.66 3.86
2391 2663 2.162319 TACAATCTGCACGTGCTTCA 57.838 45.000 37.59 22.91 42.66 3.02
2392 2664 1.527034 ACAATCTGCACGTGCTTCAT 58.473 45.000 37.59 24.00 42.66 2.57
2393 2665 1.466167 ACAATCTGCACGTGCTTCATC 59.534 47.619 37.59 11.74 42.66 2.92
2394 2666 1.736126 CAATCTGCACGTGCTTCATCT 59.264 47.619 37.59 16.72 42.66 2.90
2395 2667 2.931969 CAATCTGCACGTGCTTCATCTA 59.068 45.455 37.59 17.41 42.66 1.98
2396 2668 2.967599 TCTGCACGTGCTTCATCTAT 57.032 45.000 37.59 0.00 42.66 1.98
2397 2669 2.543641 TCTGCACGTGCTTCATCTATG 58.456 47.619 37.59 17.11 42.66 2.23
2398 2670 2.166254 TCTGCACGTGCTTCATCTATGA 59.834 45.455 37.59 18.78 42.66 2.15
2399 2671 3.129109 CTGCACGTGCTTCATCTATGAT 58.871 45.455 37.59 0.00 42.66 2.45
2400 2672 2.867975 TGCACGTGCTTCATCTATGATG 59.132 45.455 37.59 1.45 42.66 3.07
2401 2673 3.126073 GCACGTGCTTCATCTATGATGA 58.874 45.455 32.55 6.19 36.56 2.92
2402 2674 3.744942 GCACGTGCTTCATCTATGATGAT 59.255 43.478 32.55 0.00 36.56 2.45
2414 2686 7.925622 TCATCTATGATGATAGGCTCCAATTT 58.074 34.615 6.19 0.00 33.48 1.82
2446 2718 6.972328 TGCAACTGTTTAACATTCTTCTGAAC 59.028 34.615 0.00 0.00 34.71 3.18
2491 2763 3.762823 CCTCTCTAACTGGGACGTTTACT 59.237 47.826 0.00 0.00 0.00 2.24
2515 2787 9.559732 ACTTGATAATTTGATATGGTCGATGAA 57.440 29.630 0.00 0.00 0.00 2.57
2543 2815 1.014352 ACCTTGTGTTGACGTCTTGC 58.986 50.000 17.92 7.33 0.00 4.01
2565 2837 1.515954 CCGCTAGAAAGGCCGAGAA 59.484 57.895 0.00 0.00 0.00 2.87
2574 2846 3.817647 AGAAAGGCCGAGAATGCATTATC 59.182 43.478 21.50 21.50 31.69 1.75
2585 2857 5.374921 AGAATGCATTATCTGAAGTCCCTG 58.625 41.667 12.97 0.00 26.69 4.45
2597 2869 6.385443 TCTGAAGTCCCTGACAATCCTATAT 58.615 40.000 0.00 0.00 34.60 0.86
2599 2871 6.385443 TGAAGTCCCTGACAATCCTATATCT 58.615 40.000 0.00 0.00 34.60 1.98
2605 2877 4.248859 CTGACAATCCTATATCTTGCCCG 58.751 47.826 0.00 0.00 0.00 6.13
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
74 75 6.040247 TGTTCTAGCCACTAATAACACATCG 58.960 40.000 0.00 0.00 0.00 3.84
78 79 5.064834 GCCTTGTTCTAGCCACTAATAACAC 59.935 44.000 0.00 0.00 28.44 3.32
168 307 5.220529 GCTAAATTAGTTTGCCGTACGACAT 60.221 40.000 18.76 0.00 0.00 3.06
183 322 3.308866 CCACCGAAACCGAGCTAAATTAG 59.691 47.826 0.00 0.00 0.00 1.73
195 334 1.873863 GCAGTTAGCCACCGAAACC 59.126 57.895 0.00 0.00 37.23 3.27
207 346 6.049149 GCCACTAATAAGATGTCAGCAGTTA 58.951 40.000 0.00 0.00 0.00 2.24
398 550 5.248477 TCAGATAACCCTGCTAACAAGAGTT 59.752 40.000 0.00 0.00 36.66 3.01
417 570 4.877378 AACATTGCAAACCATGTCAGAT 57.123 36.364 1.71 0.00 0.00 2.90
443 596 4.757149 GCTTCTAGAAAAGCTTCAGACCAA 59.243 41.667 6.63 0.00 46.51 3.67
515 668 6.441088 AGATTAGTGGAAGTTCAAGACCTT 57.559 37.500 5.01 0.00 0.00 3.50
516 669 6.271159 AGAAGATTAGTGGAAGTTCAAGACCT 59.729 38.462 5.01 0.00 0.00 3.85
517 670 6.468543 AGAAGATTAGTGGAAGTTCAAGACC 58.531 40.000 5.01 0.00 0.00 3.85
687 888 6.359804 AGTATTGATGCAGTACATGGTTCAT 58.640 36.000 0.00 0.00 39.84 2.57
708 909 4.112634 GCAAGCACGATCTACATTGAGTA 58.887 43.478 0.00 0.00 0.00 2.59
736 937 3.755905 TGTCAACTGTTTTTGTGCTCAGA 59.244 39.130 0.00 0.00 0.00 3.27
747 948 9.679661 TGGTGATACATAATATGTCAACTGTTT 57.320 29.630 9.43 0.00 43.67 2.83
763 964 8.953313 CACATGAATATGCTATTGGTGATACAT 58.047 33.333 0.00 0.00 37.85 2.29
811 1012 3.157087 AGGCTGACCGTTTCATCAATTT 58.843 40.909 0.00 0.00 42.76 1.82
834 1035 2.031919 CTGTGCGGTGCCAGGTAA 59.968 61.111 0.00 0.00 0.00 2.85
862 1063 2.930562 AGAAGTTGGGGCGCCTCT 60.931 61.111 29.93 18.10 0.00 3.69
894 1095 2.207229 GGTTGGGGCGCCTCTTTTT 61.207 57.895 29.93 0.00 0.00 1.94
895 1096 2.600470 GGTTGGGGCGCCTCTTTT 60.600 61.111 29.93 0.00 0.00 2.27
896 1097 3.897122 TGGTTGGGGCGCCTCTTT 61.897 61.111 29.93 0.00 0.00 2.52
897 1098 4.660938 GTGGTTGGGGCGCCTCTT 62.661 66.667 29.93 0.00 0.00 2.85
899 1100 3.682292 CTAGTGGTTGGGGCGCCTC 62.682 68.421 28.56 25.91 0.00 4.70
900 1101 3.717294 CTAGTGGTTGGGGCGCCT 61.717 66.667 28.56 6.02 0.00 5.52
901 1102 4.029809 ACTAGTGGTTGGGGCGCC 62.030 66.667 21.18 21.18 0.00 6.53
902 1103 2.175035 TACACTAGTGGTTGGGGCGC 62.175 60.000 26.12 0.00 34.19 6.53
903 1104 0.390735 GTACACTAGTGGTTGGGGCG 60.391 60.000 26.12 0.00 34.19 6.13
904 1105 0.981943 AGTACACTAGTGGTTGGGGC 59.018 55.000 26.12 8.27 34.19 5.80
905 1106 1.203994 CGAGTACACTAGTGGTTGGGG 59.796 57.143 26.12 7.63 34.19 4.96
906 1107 1.403780 GCGAGTACACTAGTGGTTGGG 60.404 57.143 26.12 13.25 34.19 4.12
907 1108 1.731424 CGCGAGTACACTAGTGGTTGG 60.731 57.143 26.12 13.05 34.19 3.77
908 1109 1.198408 TCGCGAGTACACTAGTGGTTG 59.802 52.381 26.12 14.66 34.19 3.77
909 1110 1.198637 GTCGCGAGTACACTAGTGGTT 59.801 52.381 26.12 11.35 34.19 3.67
910 1111 0.801251 GTCGCGAGTACACTAGTGGT 59.199 55.000 26.12 14.18 34.19 4.16
911 1112 0.800631 TGTCGCGAGTACACTAGTGG 59.199 55.000 26.12 9.55 34.19 4.00
912 1113 1.730612 TCTGTCGCGAGTACACTAGTG 59.269 52.381 21.44 21.44 0.00 2.74
913 1114 2.001159 CTCTGTCGCGAGTACACTAGT 58.999 52.381 10.24 0.00 0.00 2.57
914 1115 2.001159 ACTCTGTCGCGAGTACACTAG 58.999 52.381 10.24 5.81 42.19 2.57
915 1116 1.730612 CACTCTGTCGCGAGTACACTA 59.269 52.381 10.24 0.00 42.10 2.74
916 1117 0.517755 CACTCTGTCGCGAGTACACT 59.482 55.000 10.24 0.00 42.10 3.55
917 1118 1.066114 GCACTCTGTCGCGAGTACAC 61.066 60.000 10.24 0.00 42.10 2.90
918 1119 1.209383 GCACTCTGTCGCGAGTACA 59.791 57.895 10.24 3.48 42.10 2.90
919 1120 0.794981 CTGCACTCTGTCGCGAGTAC 60.795 60.000 10.24 0.00 42.10 2.73
920 1121 0.953960 TCTGCACTCTGTCGCGAGTA 60.954 55.000 10.24 0.00 42.10 2.59
921 1122 1.590610 ATCTGCACTCTGTCGCGAGT 61.591 55.000 10.24 0.00 44.72 4.18
922 1123 1.138459 ATCTGCACTCTGTCGCGAG 59.862 57.895 10.24 0.00 37.07 5.03
923 1124 1.153958 CATCTGCACTCTGTCGCGA 60.154 57.895 3.71 3.71 0.00 5.87
924 1125 2.796425 GCATCTGCACTCTGTCGCG 61.796 63.158 0.00 0.00 41.59 5.87
925 1126 3.088044 GCATCTGCACTCTGTCGC 58.912 61.111 0.00 0.00 41.59 5.19
938 1139 3.141398 TGTGTTGAGTCCTCTTTGCATC 58.859 45.455 0.00 0.00 0.00 3.91
940 1141 2.708216 TGTGTTGAGTCCTCTTTGCA 57.292 45.000 0.00 0.00 0.00 4.08
1042 1247 1.712018 CGTCGACGGTGCTCTCCATA 61.712 60.000 29.70 0.00 35.37 2.74
1048 1253 2.809601 ATTGCGTCGACGGTGCTC 60.810 61.111 36.13 20.92 40.23 4.26
1330 1535 0.735471 GAGGGCGATTCTTTTCCTGC 59.265 55.000 0.00 0.00 0.00 4.85
1395 1600 1.596934 GCATCAACAGGAGACGGGA 59.403 57.895 0.00 0.00 0.00 5.14
1397 1602 0.179100 ATCGCATCAACAGGAGACGG 60.179 55.000 0.00 0.00 0.00 4.79
1506 1711 5.591099 GACGAATTAATGTTCTACCCCGTA 58.409 41.667 0.00 0.00 0.00 4.02
1511 1716 4.117685 AGGCGACGAATTAATGTTCTACC 58.882 43.478 0.00 0.00 0.00 3.18
1517 1722 1.933853 GCAGAGGCGACGAATTAATGT 59.066 47.619 0.00 0.00 0.00 2.71
1561 1766 3.864789 AAATACATGAGCCCCTCGATT 57.135 42.857 0.00 0.00 32.35 3.34
1638 1895 4.055360 CACGTACAGTTTCAGTCCATGAA 58.945 43.478 0.00 0.00 46.31 2.57
1640 1897 2.157668 GCACGTACAGTTTCAGTCCATG 59.842 50.000 0.00 0.00 0.00 3.66
1641 1898 2.037251 AGCACGTACAGTTTCAGTCCAT 59.963 45.455 0.00 0.00 0.00 3.41
1642 1899 1.411246 AGCACGTACAGTTTCAGTCCA 59.589 47.619 0.00 0.00 0.00 4.02
1643 1900 1.792949 CAGCACGTACAGTTTCAGTCC 59.207 52.381 0.00 0.00 0.00 3.85
1644 1901 2.470821 ACAGCACGTACAGTTTCAGTC 58.529 47.619 0.00 0.00 0.00 3.51
1645 1902 2.159156 TGACAGCACGTACAGTTTCAGT 60.159 45.455 0.00 0.00 0.00 3.41
1646 1903 2.469826 TGACAGCACGTACAGTTTCAG 58.530 47.619 0.00 0.00 0.00 3.02
1647 1904 2.588027 TGACAGCACGTACAGTTTCA 57.412 45.000 0.00 0.00 0.00 2.69
1648 1905 2.412089 GGATGACAGCACGTACAGTTTC 59.588 50.000 0.00 0.00 0.00 2.78
1649 1906 2.037251 AGGATGACAGCACGTACAGTTT 59.963 45.455 0.00 0.00 0.00 2.66
1650 1907 1.618837 AGGATGACAGCACGTACAGTT 59.381 47.619 0.00 0.00 0.00 3.16
1651 1908 1.067565 CAGGATGACAGCACGTACAGT 60.068 52.381 0.00 0.00 39.69 3.55
1652 1909 1.067565 ACAGGATGACAGCACGTACAG 60.068 52.381 0.00 0.00 39.69 2.74
1653 1910 0.966179 ACAGGATGACAGCACGTACA 59.034 50.000 0.00 0.00 39.69 2.90
1654 1911 1.067846 TCACAGGATGACAGCACGTAC 60.068 52.381 0.00 0.00 39.69 3.67
1655 1912 1.202348 CTCACAGGATGACAGCACGTA 59.798 52.381 0.00 0.00 39.69 3.57
1656 1913 0.037882 CTCACAGGATGACAGCACGT 60.038 55.000 0.00 0.00 39.69 4.49
1657 1914 0.244721 TCTCACAGGATGACAGCACG 59.755 55.000 0.00 0.00 39.69 5.34
1658 1915 2.093816 TGATCTCACAGGATGACAGCAC 60.094 50.000 0.00 0.00 39.69 4.40
1659 1916 2.181975 TGATCTCACAGGATGACAGCA 58.818 47.619 0.00 0.00 39.69 4.41
1660 1917 2.975732 TGATCTCACAGGATGACAGC 57.024 50.000 0.00 0.00 39.69 4.40
1661 1918 3.132160 GCATGATCTCACAGGATGACAG 58.868 50.000 0.00 0.00 39.69 3.51
1662 1919 2.502538 TGCATGATCTCACAGGATGACA 59.497 45.455 0.00 0.00 39.69 3.58
1663 1920 3.189618 TGCATGATCTCACAGGATGAC 57.810 47.619 0.00 0.00 39.69 3.06
1687 1944 2.034179 CACTAATCTCGTGGACGGCATA 59.966 50.000 0.00 0.00 40.29 3.14
1777 2038 2.034048 TACGCTGGCACCACACAAGA 62.034 55.000 0.00 0.00 0.00 3.02
1778 2039 1.568612 CTACGCTGGCACCACACAAG 61.569 60.000 0.00 0.00 0.00 3.16
1779 2040 1.596752 CTACGCTGGCACCACACAA 60.597 57.895 0.00 0.00 0.00 3.33
1780 2041 2.030412 CTACGCTGGCACCACACA 59.970 61.111 0.00 0.00 0.00 3.72
1781 2042 3.423154 GCTACGCTGGCACCACAC 61.423 66.667 0.00 0.00 0.00 3.82
1803 2064 0.958822 GCCACCAAACCAAGACGAAT 59.041 50.000 0.00 0.00 0.00 3.34
1907 2168 2.539547 CGCTGTTTTCGCCTTATCCATG 60.540 50.000 0.00 0.00 0.00 3.66
1934 2195 0.396974 ATGTTGGTGGTGTTGGTGCT 60.397 50.000 0.00 0.00 0.00 4.40
1942 2203 3.796504 GCTTGAACTTGATGTTGGTGGTG 60.797 47.826 0.00 0.00 39.30 4.17
1956 2217 2.836981 AGAGGTATCTGCAGCTTGAACT 59.163 45.455 9.47 1.22 33.30 3.01
1958 2219 2.159184 CGAGAGGTATCTGCAGCTTGAA 60.159 50.000 9.47 0.00 35.30 2.69
1960 2221 1.850377 CGAGAGGTATCTGCAGCTTG 58.150 55.000 9.47 0.00 35.30 4.01
1961 2222 0.103937 GCGAGAGGTATCTGCAGCTT 59.896 55.000 9.47 1.05 35.30 3.74
1964 2225 0.031857 CCAGCGAGAGGTATCTGCAG 59.968 60.000 7.63 7.63 41.81 4.41
1965 2226 2.021068 GCCAGCGAGAGGTATCTGCA 62.021 60.000 0.00 0.00 41.81 4.41
1966 2227 1.300542 GCCAGCGAGAGGTATCTGC 60.301 63.158 0.00 0.00 41.81 4.26
1968 2229 0.397816 AAGGCCAGCGAGAGGTATCT 60.398 55.000 5.01 0.00 41.81 1.98
1969 2230 0.466124 AAAGGCCAGCGAGAGGTATC 59.534 55.000 5.01 0.00 41.81 2.24
1970 2231 0.466124 GAAAGGCCAGCGAGAGGTAT 59.534 55.000 5.01 0.00 41.81 2.73
1971 2232 1.898154 GAAAGGCCAGCGAGAGGTA 59.102 57.895 5.01 0.00 41.81 3.08
1972 2233 2.665603 GAAAGGCCAGCGAGAGGT 59.334 61.111 5.01 0.00 46.81 3.85
2045 2306 2.799126 AATTTGGTCCGGTATGAGCA 57.201 45.000 0.00 0.00 40.73 4.26
2052 2313 2.971901 AAGGAGAAATTTGGTCCGGT 57.028 45.000 0.00 0.00 35.33 5.28
2090 2351 6.904498 ACTCGATCCTTTATACGAATCTCTG 58.096 40.000 0.00 0.00 34.50 3.35
2106 2369 1.523758 AAGCACCACAAACTCGATCC 58.476 50.000 0.00 0.00 0.00 3.36
2116 2379 2.096819 GTCGAAACAGAAAAGCACCACA 59.903 45.455 0.00 0.00 0.00 4.17
2128 2391 5.216566 TGAAAACTCTGTTGTCGAAACAG 57.783 39.130 23.24 23.24 46.67 3.16
2129 2392 4.436852 GCTGAAAACTCTGTTGTCGAAACA 60.437 41.667 11.07 11.07 0.00 2.83
2130 2393 4.029043 GCTGAAAACTCTGTTGTCGAAAC 58.971 43.478 0.00 0.00 0.00 2.78
2154 2419 3.157087 TCTGATGCTACAGTGAGTGACA 58.843 45.455 0.00 0.00 38.79 3.58
2155 2420 3.857549 TCTGATGCTACAGTGAGTGAC 57.142 47.619 0.00 0.00 38.79 3.67
2156 2421 3.573967 TGTTCTGATGCTACAGTGAGTGA 59.426 43.478 0.00 0.00 38.79 3.41
2157 2422 3.917988 TGTTCTGATGCTACAGTGAGTG 58.082 45.455 0.00 0.00 38.79 3.51
2158 2423 4.310769 GTTGTTCTGATGCTACAGTGAGT 58.689 43.478 0.00 0.00 38.79 3.41
2159 2424 3.366121 CGTTGTTCTGATGCTACAGTGAG 59.634 47.826 0.00 0.00 38.79 3.51
2161 2426 2.159787 GCGTTGTTCTGATGCTACAGTG 60.160 50.000 9.67 0.00 38.79 3.66
2162 2427 2.069273 GCGTTGTTCTGATGCTACAGT 58.931 47.619 9.67 0.00 38.79 3.55
2163 2428 2.068519 TGCGTTGTTCTGATGCTACAG 58.931 47.619 4.74 4.74 39.02 2.74
2201 2468 5.399858 CGTTTATATATCTCACCTCCACCG 58.600 45.833 0.00 0.00 0.00 4.94
2207 2474 7.778185 ACCTAAGCGTTTATATATCTCACCT 57.222 36.000 0.00 0.00 0.00 4.00
2227 2494 9.408648 AGAAAGAAAAAGATCACTGAAAACCTA 57.591 29.630 0.00 0.00 0.00 3.08
2252 2519 3.058914 ACGCCGAAAACTCATTCTCAAAG 60.059 43.478 0.00 0.00 0.00 2.77
2291 2563 9.845740 ACTGTGACCAAATATTGTGCTATAATA 57.154 29.630 0.00 0.00 0.00 0.98
2292 2564 8.752005 ACTGTGACCAAATATTGTGCTATAAT 57.248 30.769 0.00 0.00 0.00 1.28
2329 2601 3.049674 CAAGATGTGCGGCGGTGT 61.050 61.111 9.78 0.00 0.00 4.16
2363 2635 6.835811 GCACGTGCAGATTGTAATGACAAAC 61.836 44.000 34.52 0.00 43.95 2.93
2364 2636 4.846965 GCACGTGCAGATTGTAATGACAAA 60.847 41.667 34.52 0.00 43.95 2.83
2365 2637 3.364864 GCACGTGCAGATTGTAATGACAA 60.365 43.478 34.52 0.00 44.43 3.18
2366 2638 2.159430 GCACGTGCAGATTGTAATGACA 59.841 45.455 34.52 0.00 41.59 3.58
2367 2639 2.416547 AGCACGTGCAGATTGTAATGAC 59.583 45.455 39.21 7.60 45.16 3.06
2368 2640 2.698803 AGCACGTGCAGATTGTAATGA 58.301 42.857 39.21 0.00 45.16 2.57
2369 2641 3.120234 TGAAGCACGTGCAGATTGTAATG 60.120 43.478 39.21 0.00 45.16 1.90
2370 2642 3.073678 TGAAGCACGTGCAGATTGTAAT 58.926 40.909 39.21 15.19 45.16 1.89
2371 2643 2.488952 TGAAGCACGTGCAGATTGTAA 58.511 42.857 39.21 14.75 45.16 2.41
2372 2644 2.162319 TGAAGCACGTGCAGATTGTA 57.838 45.000 39.21 16.79 45.16 2.41
2373 2645 1.466167 GATGAAGCACGTGCAGATTGT 59.534 47.619 39.21 20.89 45.16 2.71
2374 2646 1.736126 AGATGAAGCACGTGCAGATTG 59.264 47.619 39.21 2.50 45.16 2.67
2375 2647 2.105006 AGATGAAGCACGTGCAGATT 57.895 45.000 39.21 26.22 45.16 2.40
2376 2648 2.967599 TAGATGAAGCACGTGCAGAT 57.032 45.000 39.21 26.95 45.16 2.90
2377 2649 2.166254 TCATAGATGAAGCACGTGCAGA 59.834 45.455 39.21 23.66 45.16 4.26
2378 2650 2.543641 TCATAGATGAAGCACGTGCAG 58.456 47.619 39.21 17.67 45.16 4.41
2379 2651 2.671130 TCATAGATGAAGCACGTGCA 57.329 45.000 39.21 21.91 45.16 4.57
2380 2652 3.126073 TCATCATAGATGAAGCACGTGC 58.874 45.455 32.79 32.79 40.69 5.34
2381 2653 5.575995 CCTATCATCATAGATGAAGCACGTG 59.424 44.000 12.28 12.28 40.69 4.49
2382 2654 5.718146 CCTATCATCATAGATGAAGCACGT 58.282 41.667 13.07 0.00 40.69 4.49
2383 2655 4.565962 GCCTATCATCATAGATGAAGCACG 59.434 45.833 13.07 2.40 40.69 5.34
2384 2656 5.732633 AGCCTATCATCATAGATGAAGCAC 58.267 41.667 21.42 11.26 40.69 4.40
2385 2657 5.105023 GGAGCCTATCATCATAGATGAAGCA 60.105 44.000 21.42 9.38 40.69 3.91
2386 2658 5.105023 TGGAGCCTATCATCATAGATGAAGC 60.105 44.000 13.07 14.82 40.69 3.86
2387 2659 6.541934 TGGAGCCTATCATCATAGATGAAG 57.458 41.667 13.07 11.18 40.69 3.02
2388 2660 6.940430 TTGGAGCCTATCATCATAGATGAA 57.060 37.500 13.07 3.59 40.69 2.57
2389 2661 7.506361 AATTGGAGCCTATCATCATAGATGA 57.494 36.000 11.65 11.65 41.70 2.92
2390 2662 8.577048 AAAATTGGAGCCTATCATCATAGATG 57.423 34.615 0.62 0.62 34.82 2.90
2391 2663 7.833183 GGAAAATTGGAGCCTATCATCATAGAT 59.167 37.037 0.00 0.00 34.82 1.98
2392 2664 7.170965 GGAAAATTGGAGCCTATCATCATAGA 58.829 38.462 0.00 0.00 34.82 1.98
2393 2665 6.376581 GGGAAAATTGGAGCCTATCATCATAG 59.623 42.308 0.00 0.00 32.86 2.23
2394 2666 6.183361 TGGGAAAATTGGAGCCTATCATCATA 60.183 38.462 0.00 0.00 0.00 2.15
2395 2667 5.082425 GGGAAAATTGGAGCCTATCATCAT 58.918 41.667 0.00 0.00 0.00 2.45
2396 2668 4.079269 TGGGAAAATTGGAGCCTATCATCA 60.079 41.667 0.00 0.00 0.00 3.07
2397 2669 4.473444 TGGGAAAATTGGAGCCTATCATC 58.527 43.478 0.00 0.00 0.00 2.92
2398 2670 4.541250 TGGGAAAATTGGAGCCTATCAT 57.459 40.909 0.00 0.00 0.00 2.45
2399 2671 4.329638 TTGGGAAAATTGGAGCCTATCA 57.670 40.909 0.00 0.00 0.00 2.15
2400 2672 4.502087 GCATTGGGAAAATTGGAGCCTATC 60.502 45.833 0.00 0.00 0.00 2.08
2401 2673 3.389002 GCATTGGGAAAATTGGAGCCTAT 59.611 43.478 0.00 0.00 0.00 2.57
2402 2674 2.765699 GCATTGGGAAAATTGGAGCCTA 59.234 45.455 0.00 0.00 0.00 3.93
2414 2686 5.543507 ATGTTAAACAGTTGCATTGGGAA 57.456 34.783 0.00 0.00 0.00 3.97
2464 2736 2.018515 GTCCCAGTTAGAGAGGACGAG 58.981 57.143 0.00 0.00 39.47 4.18
2491 2763 9.336171 TGTTCATCGACCATATCAAATTATCAA 57.664 29.630 0.00 0.00 0.00 2.57
2515 2787 5.790593 ACGTCAACACAAGGTTATAGATGT 58.209 37.500 0.00 0.00 37.72 3.06
2565 2837 4.164796 TGTCAGGGACTTCAGATAATGCAT 59.835 41.667 0.00 0.00 34.60 3.96
2574 2846 6.496565 AGATATAGGATTGTCAGGGACTTCAG 59.503 42.308 0.00 0.00 34.60 3.02
2585 2857 4.537135 TCGGGCAAGATATAGGATTGTC 57.463 45.455 0.00 0.00 0.00 3.18


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

AutoCloner maintained by Alex Coulton.