Multiple sequence alignment - TraesCS6B01G116000

Loading Multiple Alignment...

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 TraesCS6B01G116000 chr6B 100.000 2597 0 0 1 2597 101326677 101324081 0.000000e+00 4796.0
1 TraesCS6B01G116000 chr6B 89.333 975 68 18 823 1786 101166809 101167758 0.000000e+00 1192.0
2 TraesCS6B01G116000 chr6B 97.260 657 13 4 1944 2597 76290685 76291339 0.000000e+00 1109.0
3 TraesCS6B01G116000 chr6B 97.844 603 8 4 1997 2597 24696682 24696083 0.000000e+00 1037.0
4 TraesCS6B01G116000 chr6B 94.253 435 20 4 1060 1491 35818871 35818439 0.000000e+00 660.0
5 TraesCS6B01G116000 chr6B 87.879 66 6 2 1606 1670 101198704 101198768 2.770000e-10 76.8
6 TraesCS6B01G116000 chr6B 100.000 28 0 0 1955 1982 76290724 76290697 5.000000e-03 52.8
7 TraesCS6B01G116000 chr6B 100.000 28 0 0 1955 1982 101324696 101324723 5.000000e-03 52.8
8 TraesCS6B01G116000 chrUn 90.402 969 83 7 823 1786 69362096 69363059 0.000000e+00 1266.0
9 TraesCS6B01G116000 chrUn 91.689 746 52 5 824 1569 69444697 69443962 0.000000e+00 1026.0
10 TraesCS6B01G116000 chrUn 96.651 418 9 3 2181 2597 77759960 77759547 0.000000e+00 689.0
11 TraesCS6B01G116000 chrUn 86.216 399 30 9 1 388 69445843 69445459 2.410000e-110 409.0
12 TraesCS6B01G116000 chrUn 80.876 502 81 9 159 646 50399718 50399218 5.240000e-102 381.0
13 TraesCS6B01G116000 chrUn 91.026 234 18 3 415 647 69445222 69444991 1.940000e-81 313.0
14 TraesCS6B01G116000 chrUn 92.350 183 7 2 648 826 69444914 69444735 1.190000e-63 254.0
15 TraesCS6B01G116000 chr6A 89.038 967 92 12 823 1786 55033271 55032316 0.000000e+00 1186.0
16 TraesCS6B01G116000 chr6A 88.199 966 97 11 824 1786 54777963 54778914 0.000000e+00 1136.0
17 TraesCS6B01G116000 chr6A 87.067 750 55 15 89 826 54777206 54777925 0.000000e+00 809.0
18 TraesCS6B01G116000 chr6A 97.674 43 1 0 1606 1648 55025812 55025770 9.970000e-10 75.0
19 TraesCS6B01G116000 chr6A 86.154 65 5 1 1524 1588 54779644 54779704 1.670000e-07 67.6
20 TraesCS6B01G116000 chr7B 96.347 657 14 4 1948 2597 606403068 606402415 0.000000e+00 1072.0
21 TraesCS6B01G116000 chr7B 88.210 229 23 4 421 646 138447168 138447395 1.180000e-68 270.0
22 TraesCS6B01G116000 chr5B 95.969 645 20 5 1947 2588 332949864 332949223 0.000000e+00 1042.0
23 TraesCS6B01G116000 chr3B 95.745 423 18 0 1053 1475 59323789 59324211 0.000000e+00 682.0
24 TraesCS6B01G116000 chr3B 94.305 439 25 0 1043 1481 80658949 80658511 0.000000e+00 673.0
25 TraesCS6B01G116000 chr3B 82.456 114 17 1 169 279 404620867 404620980 2.130000e-16 97.1
26 TraesCS6B01G116000 chr3D 94.725 436 20 2 1043 1475 36822395 36822830 0.000000e+00 675.0
27 TraesCS6B01G116000 chr3D 79.769 519 80 13 145 643 340701234 340701747 1.140000e-93 353.0
28 TraesCS6B01G116000 chr7A 82.466 519 67 9 149 646 684733232 684733747 1.430000e-117 433.0
29 TraesCS6B01G116000 chr7A 80.080 502 79 10 159 646 82620907 82620413 1.140000e-93 353.0
30 TraesCS6B01G116000 chr4B 90.031 321 23 9 2275 2589 459064977 459064660 8.650000e-110 407.0
31 TraesCS6B01G116000 chr4B 95.349 43 2 0 2163 2205 459065297 459065255 4.640000e-08 69.4
32 TraesCS6B01G116000 chr4D 80.990 505 78 6 159 646 397076042 397076545 4.050000e-103 385.0
33 TraesCS6B01G116000 chr4D 79.572 514 76 17 159 646 80147470 80146960 8.900000e-90 340.0
34 TraesCS6B01G116000 chr4D 79.430 491 71 11 159 644 312750254 312749789 1.160000e-83 320.0
35 TraesCS6B01G116000 chr4D 76.087 414 71 16 150 560 477029879 477029491 9.490000e-45 191.0
36 TraesCS6B01G116000 chr6D 77.732 485 85 6 177 646 24015753 24016229 2.550000e-70 276.0
37 TraesCS6B01G116000 chr3A 77.033 492 82 13 174 650 376317885 376318360 1.190000e-63 254.0


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 TraesCS6B01G116000 chr6B 101324081 101326677 2596 True 4796.000000 4796 100.00000 1 2597 1 chr6B.!!$R4 2596
1 TraesCS6B01G116000 chr6B 101166809 101167758 949 False 1192.000000 1192 89.33300 823 1786 1 chr6B.!!$F2 963
2 TraesCS6B01G116000 chr6B 76290685 76291339 654 False 1109.000000 1109 97.26000 1944 2597 1 chr6B.!!$F1 653
3 TraesCS6B01G116000 chr6B 24696083 24696682 599 True 1037.000000 1037 97.84400 1997 2597 1 chr6B.!!$R1 600
4 TraesCS6B01G116000 chrUn 69362096 69363059 963 False 1266.000000 1266 90.40200 823 1786 1 chrUn.!!$F1 963
5 TraesCS6B01G116000 chrUn 69443962 69445843 1881 True 500.500000 1026 90.32025 1 1569 4 chrUn.!!$R3 1568
6 TraesCS6B01G116000 chrUn 50399218 50399718 500 True 381.000000 381 80.87600 159 646 1 chrUn.!!$R1 487
7 TraesCS6B01G116000 chr6A 55032316 55033271 955 True 1186.000000 1186 89.03800 823 1786 1 chr6A.!!$R2 963
8 TraesCS6B01G116000 chr6A 54777206 54779704 2498 False 670.866667 1136 87.14000 89 1786 3 chr6A.!!$F1 1697
9 TraesCS6B01G116000 chr7B 606402415 606403068 653 True 1072.000000 1072 96.34700 1948 2597 1 chr7B.!!$R1 649
10 TraesCS6B01G116000 chr5B 332949223 332949864 641 True 1042.000000 1042 95.96900 1947 2588 1 chr5B.!!$R1 641
11 TraesCS6B01G116000 chr3D 340701234 340701747 513 False 353.000000 353 79.76900 145 643 1 chr3D.!!$F2 498
12 TraesCS6B01G116000 chr7A 684733232 684733747 515 False 433.000000 433 82.46600 149 646 1 chr7A.!!$F1 497
13 TraesCS6B01G116000 chr4B 459064660 459065297 637 True 238.200000 407 92.69000 2163 2589 2 chr4B.!!$R1 426
14 TraesCS6B01G116000 chr4D 397076042 397076545 503 False 385.000000 385 80.99000 159 646 1 chr4D.!!$F1 487
15 TraesCS6B01G116000 chr4D 80146960 80147470 510 True 340.000000 340 79.57200 159 646 1 chr4D.!!$R1 487

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
875 1279 0.397675 TGCATCCTCTCCGTCCATCT 60.398 55.0 0.0 0.0 0.0 2.9 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1789 2218 0.522626 CCATTCACGCAGCAACATCA 59.477 50.0 0.0 0.0 0.0 3.07 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
38 39 1.131928 ACGGTTAGGCAAAGGGAGGT 61.132 55.000 0.00 0.00 0.00 3.85
110 111 5.221362 TGTTACCTTGTTGAATCGAGACTGA 60.221 40.000 0.00 0.00 0.00 3.41
486 751 8.065407 TGACTATGTTACACGAAAAATGAACAC 58.935 33.333 0.00 0.00 30.24 3.32
490 755 2.981875 ACACGAAAAATGAACACGCTC 58.018 42.857 0.00 0.00 0.00 5.03
545 810 1.065358 AACTCATACGGTTGTTCGCG 58.935 50.000 0.00 0.00 0.00 5.87
696 1055 1.906574 GTGACTACAACATCCCTCCCA 59.093 52.381 0.00 0.00 0.00 4.37
754 1117 3.295093 TCACATCCCTTGCTCAAAACAA 58.705 40.909 0.00 0.00 0.00 2.83
755 1118 3.896888 TCACATCCCTTGCTCAAAACAAT 59.103 39.130 0.00 0.00 0.00 2.71
756 1119 5.076182 TCACATCCCTTGCTCAAAACAATA 58.924 37.500 0.00 0.00 0.00 1.90
816 1179 2.278332 ACCTCCAGGCTTTCAAAGTC 57.722 50.000 0.00 0.00 39.32 3.01
875 1279 0.397675 TGCATCCTCTCCGTCCATCT 60.398 55.000 0.00 0.00 0.00 2.90
880 1284 1.825474 TCCTCTCCGTCCATCTGAAAC 59.175 52.381 0.00 0.00 0.00 2.78
881 1285 1.469940 CCTCTCCGTCCATCTGAAACG 60.470 57.143 4.30 4.30 36.22 3.60
955 1359 3.818787 CAATCAGCGCCCACCTGC 61.819 66.667 2.29 0.00 0.00 4.85
1475 1891 0.105964 CCGTCACCAAGTTCACCTCA 59.894 55.000 0.00 0.00 0.00 3.86
1489 1905 1.133199 CACCTCATCCTAGGCTCCTCT 60.133 57.143 2.96 0.00 40.62 3.69
1492 1908 2.676748 CTCATCCTAGGCTCCTCTTGT 58.323 52.381 2.96 0.00 0.00 3.16
1602 2018 3.248602 GGTGCTGCCTGAATAAATAGTCG 59.751 47.826 0.00 0.00 0.00 4.18
1625 2041 0.955428 TGCTGCTTGAATGGACGACC 60.955 55.000 0.00 0.00 0.00 4.79
1626 2042 0.674895 GCTGCTTGAATGGACGACCT 60.675 55.000 5.33 0.00 37.04 3.85
1627 2043 1.405526 GCTGCTTGAATGGACGACCTA 60.406 52.381 5.33 0.00 37.04 3.08
1628 2044 2.544685 CTGCTTGAATGGACGACCTAG 58.455 52.381 5.33 0.00 37.04 3.02
1629 2045 1.899814 TGCTTGAATGGACGACCTAGT 59.100 47.619 5.33 0.00 37.04 2.57
1630 2046 3.093814 TGCTTGAATGGACGACCTAGTA 58.906 45.455 5.33 0.00 37.04 1.82
1631 2047 3.704566 TGCTTGAATGGACGACCTAGTAT 59.295 43.478 5.33 0.00 37.04 2.12
1632 2048 4.051922 GCTTGAATGGACGACCTAGTATG 58.948 47.826 5.33 0.00 37.04 2.39
1633 2049 3.728076 TGAATGGACGACCTAGTATGC 57.272 47.619 5.33 0.00 37.04 3.14
1634 2050 3.296854 TGAATGGACGACCTAGTATGCT 58.703 45.455 5.33 0.00 37.04 3.79
1635 2051 3.704566 TGAATGGACGACCTAGTATGCTT 59.295 43.478 5.33 0.00 37.04 3.91
1636 2052 3.735237 ATGGACGACCTAGTATGCTTG 57.265 47.619 5.33 0.00 37.04 4.01
1637 2053 2.730382 TGGACGACCTAGTATGCTTGA 58.270 47.619 5.33 0.00 37.04 3.02
1638 2054 2.426024 TGGACGACCTAGTATGCTTGAC 59.574 50.000 5.33 0.00 37.04 3.18
1643 2059 3.128764 CGACCTAGTATGCTTGACTGTCA 59.871 47.826 6.36 6.36 0.00 3.58
1650 2066 0.179020 TGCTTGACTGTCACCTTGGG 60.179 55.000 10.56 0.00 0.00 4.12
1661 2077 3.288092 GTCACCTTGGGTTCTTGTTTCT 58.712 45.455 0.00 0.00 31.02 2.52
1662 2078 3.066760 GTCACCTTGGGTTCTTGTTTCTG 59.933 47.826 0.00 0.00 31.02 3.02
1671 2097 4.202020 GGGTTCTTGTTTCTGACAGTTTCC 60.202 45.833 1.59 0.00 39.94 3.13
1678 2104 4.200092 GTTTCTGACAGTTTCCTCTTGGT 58.800 43.478 1.59 0.00 34.23 3.67
1682 2108 3.808728 TGACAGTTTCCTCTTGGTCTTG 58.191 45.455 0.00 0.00 34.23 3.02
1704 2133 4.534500 TGGAGCTAGGAAGATGGTTTTGTA 59.466 41.667 0.00 0.00 0.00 2.41
1725 2154 8.715191 TTGTATCTGAAAGTTTTGCACAAATT 57.285 26.923 0.00 0.00 33.76 1.82
1732 2161 8.539770 TGAAAGTTTTGCACAAATTCTTGTTA 57.460 26.923 0.00 3.70 43.45 2.41
1735 2164 7.755582 AGTTTTGCACAAATTCTTGTTAGAC 57.244 32.000 0.00 0.00 43.45 2.59
1751 2180 8.783093 TCTTGTTAGACACAAATAGTTTGATGG 58.217 33.333 9.21 1.92 45.11 3.51
1754 2183 8.349245 TGTTAGACACAAATAGTTTGATGGTTG 58.651 33.333 9.21 0.12 43.26 3.77
1786 2215 1.019805 GCTCCACTCGGGCAGTAAAC 61.020 60.000 0.00 0.00 36.21 2.01
1788 2217 0.320374 TCCACTCGGGCAGTAAACAG 59.680 55.000 0.00 0.00 36.21 3.16
1789 2218 0.034896 CCACTCGGGCAGTAAACAGT 59.965 55.000 0.00 0.00 32.21 3.55
1791 2220 1.045407 ACTCGGGCAGTAAACAGTGA 58.955 50.000 0.00 0.00 31.37 3.41
1792 2221 1.623811 ACTCGGGCAGTAAACAGTGAT 59.376 47.619 0.00 0.00 31.37 3.06
1793 2222 2.002586 CTCGGGCAGTAAACAGTGATG 58.997 52.381 0.00 0.00 0.00 3.07
1794 2223 1.346395 TCGGGCAGTAAACAGTGATGT 59.654 47.619 0.00 0.00 0.00 3.06
1795 2224 2.151202 CGGGCAGTAAACAGTGATGTT 58.849 47.619 0.00 0.00 0.00 2.71
1796 2225 2.095768 CGGGCAGTAAACAGTGATGTTG 60.096 50.000 0.00 0.00 31.64 3.33
1797 2226 2.351738 GGGCAGTAAACAGTGATGTTGC 60.352 50.000 0.00 0.02 31.64 4.17
1798 2227 2.554032 GGCAGTAAACAGTGATGTTGCT 59.446 45.455 0.00 0.00 31.64 3.91
1799 2228 3.558505 GCAGTAAACAGTGATGTTGCTG 58.441 45.455 15.58 15.58 37.99 4.41
1800 2229 3.558505 CAGTAAACAGTGATGTTGCTGC 58.441 45.455 0.00 0.00 36.26 5.25
1801 2230 2.224079 AGTAAACAGTGATGTTGCTGCG 59.776 45.455 0.00 0.00 36.26 5.18
1802 2231 1.024271 AAACAGTGATGTTGCTGCGT 58.976 45.000 0.00 0.00 36.26 5.24
1803 2232 0.308684 AACAGTGATGTTGCTGCGTG 59.691 50.000 0.00 0.00 36.26 5.34
1804 2233 0.532640 ACAGTGATGTTGCTGCGTGA 60.533 50.000 0.00 0.00 36.26 4.35
1805 2234 0.587768 CAGTGATGTTGCTGCGTGAA 59.412 50.000 0.00 0.00 0.00 3.18
1806 2235 1.198408 CAGTGATGTTGCTGCGTGAAT 59.802 47.619 0.00 0.00 0.00 2.57
1807 2236 1.198408 AGTGATGTTGCTGCGTGAATG 59.802 47.619 0.00 0.00 0.00 2.67
1808 2237 0.522626 TGATGTTGCTGCGTGAATGG 59.477 50.000 0.00 0.00 0.00 3.16
1809 2238 0.804364 GATGTTGCTGCGTGAATGGA 59.196 50.000 0.00 0.00 0.00 3.41
1810 2239 0.523072 ATGTTGCTGCGTGAATGGAC 59.477 50.000 0.00 0.00 0.00 4.02
1811 2240 1.154413 GTTGCTGCGTGAATGGACG 60.154 57.895 0.00 0.00 42.42 4.79
1812 2241 1.301322 TTGCTGCGTGAATGGACGA 60.301 52.632 0.00 0.00 42.10 4.20
1813 2242 0.882484 TTGCTGCGTGAATGGACGAA 60.882 50.000 0.00 0.00 42.10 3.85
1814 2243 1.291184 TGCTGCGTGAATGGACGAAG 61.291 55.000 0.00 0.00 46.31 3.79
1831 2260 4.740185 CGAAGTCGTATGCTTTACTGTC 57.260 45.455 0.00 0.00 34.11 3.51
1832 2261 4.163552 CGAAGTCGTATGCTTTACTGTCA 58.836 43.478 0.00 0.00 34.11 3.58
1833 2262 4.030306 CGAAGTCGTATGCTTTACTGTCAC 59.970 45.833 0.00 0.00 34.11 3.67
1834 2263 3.846360 AGTCGTATGCTTTACTGTCACC 58.154 45.455 0.00 0.00 0.00 4.02
1835 2264 3.510360 AGTCGTATGCTTTACTGTCACCT 59.490 43.478 0.00 0.00 0.00 4.00
1836 2265 4.021368 AGTCGTATGCTTTACTGTCACCTT 60.021 41.667 0.00 0.00 0.00 3.50
1837 2266 4.091509 GTCGTATGCTTTACTGTCACCTTG 59.908 45.833 0.00 0.00 0.00 3.61
1838 2267 3.370978 CGTATGCTTTACTGTCACCTTGG 59.629 47.826 0.00 0.00 0.00 3.61
1839 2268 3.508845 ATGCTTTACTGTCACCTTGGT 57.491 42.857 0.00 0.00 0.00 3.67
1840 2269 3.290948 TGCTTTACTGTCACCTTGGTT 57.709 42.857 0.00 0.00 0.00 3.67
1841 2270 3.626930 TGCTTTACTGTCACCTTGGTTT 58.373 40.909 0.00 0.00 0.00 3.27
1842 2271 3.630312 TGCTTTACTGTCACCTTGGTTTC 59.370 43.478 0.00 0.00 0.00 2.78
1843 2272 3.883489 GCTTTACTGTCACCTTGGTTTCT 59.117 43.478 0.00 0.00 0.00 2.52
1844 2273 4.338400 GCTTTACTGTCACCTTGGTTTCTT 59.662 41.667 0.00 0.00 0.00 2.52
1845 2274 5.733373 GCTTTACTGTCACCTTGGTTTCTTG 60.733 44.000 0.00 0.00 0.00 3.02
1846 2275 2.024414 ACTGTCACCTTGGTTTCTTGC 58.976 47.619 0.00 0.00 0.00 4.01
1847 2276 2.301346 CTGTCACCTTGGTTTCTTGCT 58.699 47.619 0.00 0.00 0.00 3.91
1848 2277 2.689983 CTGTCACCTTGGTTTCTTGCTT 59.310 45.455 0.00 0.00 0.00 3.91
1849 2278 2.687935 TGTCACCTTGGTTTCTTGCTTC 59.312 45.455 0.00 0.00 0.00 3.86
1850 2279 2.952310 GTCACCTTGGTTTCTTGCTTCT 59.048 45.455 0.00 0.00 0.00 2.85
1851 2280 2.951642 TCACCTTGGTTTCTTGCTTCTG 59.048 45.455 0.00 0.00 0.00 3.02
1852 2281 2.951642 CACCTTGGTTTCTTGCTTCTGA 59.048 45.455 0.00 0.00 0.00 3.27
1853 2282 3.381272 CACCTTGGTTTCTTGCTTCTGAA 59.619 43.478 0.00 0.00 0.00 3.02
1854 2283 4.023291 ACCTTGGTTTCTTGCTTCTGAAA 58.977 39.130 0.00 0.00 0.00 2.69
1855 2284 4.651045 ACCTTGGTTTCTTGCTTCTGAAAT 59.349 37.500 0.00 0.00 35.13 2.17
1856 2285 5.129320 ACCTTGGTTTCTTGCTTCTGAAATT 59.871 36.000 0.00 0.00 35.13 1.82
1857 2286 6.051074 CCTTGGTTTCTTGCTTCTGAAATTT 58.949 36.000 0.00 0.00 35.13 1.82
1858 2287 6.539826 CCTTGGTTTCTTGCTTCTGAAATTTT 59.460 34.615 0.00 0.00 35.13 1.82
1859 2288 7.066163 CCTTGGTTTCTTGCTTCTGAAATTTTT 59.934 33.333 0.00 0.00 35.13 1.94
1860 2289 9.097257 CTTGGTTTCTTGCTTCTGAAATTTTTA 57.903 29.630 0.00 0.00 35.13 1.52
1861 2290 9.612066 TTGGTTTCTTGCTTCTGAAATTTTTAT 57.388 25.926 0.00 0.00 35.13 1.40
1862 2291 9.612066 TGGTTTCTTGCTTCTGAAATTTTTATT 57.388 25.926 0.00 0.00 35.13 1.40
1875 2304 9.415544 CTGAAATTTTTATTCAGTTTCTCCTGG 57.584 33.333 7.86 0.00 45.53 4.45
1876 2305 8.923270 TGAAATTTTTATTCAGTTTCTCCTGGT 58.077 29.630 0.00 0.00 33.15 4.00
1877 2306 9.411801 GAAATTTTTATTCAGTTTCTCCTGGTC 57.588 33.333 0.00 0.00 33.14 4.02
1878 2307 8.712228 AATTTTTATTCAGTTTCTCCTGGTCT 57.288 30.769 0.00 0.00 33.14 3.85
1879 2308 8.712228 ATTTTTATTCAGTTTCTCCTGGTCTT 57.288 30.769 0.00 0.00 33.14 3.01
1880 2309 7.510549 TTTTATTCAGTTTCTCCTGGTCTTG 57.489 36.000 0.00 0.00 33.14 3.02
1881 2310 4.982241 ATTCAGTTTCTCCTGGTCTTGA 57.018 40.909 0.00 0.00 33.14 3.02
1882 2311 4.771114 TTCAGTTTCTCCTGGTCTTGAA 57.229 40.909 0.00 0.00 33.14 2.69
1883 2312 4.342862 TCAGTTTCTCCTGGTCTTGAAG 57.657 45.455 0.00 0.00 33.14 3.02
1884 2313 2.810852 CAGTTTCTCCTGGTCTTGAAGC 59.189 50.000 0.00 0.00 0.00 3.86
1885 2314 2.155279 GTTTCTCCTGGTCTTGAAGCC 58.845 52.381 0.00 0.00 0.00 4.35
1886 2315 1.434188 TTCTCCTGGTCTTGAAGCCA 58.566 50.000 7.84 7.84 0.00 4.75
1887 2316 1.661463 TCTCCTGGTCTTGAAGCCAT 58.339 50.000 8.42 0.00 33.84 4.40
1888 2317 1.280133 TCTCCTGGTCTTGAAGCCATG 59.720 52.381 8.42 6.68 33.84 3.66
1889 2318 1.280133 CTCCTGGTCTTGAAGCCATGA 59.720 52.381 8.42 9.87 33.84 3.07
1890 2319 1.704628 TCCTGGTCTTGAAGCCATGAA 59.295 47.619 8.42 0.00 33.84 2.57
1891 2320 2.089980 CCTGGTCTTGAAGCCATGAAG 58.910 52.381 8.42 0.00 33.84 3.02
1892 2321 2.290514 CCTGGTCTTGAAGCCATGAAGA 60.291 50.000 8.42 0.00 33.84 2.87
1893 2322 3.618351 CTGGTCTTGAAGCCATGAAGAT 58.382 45.455 8.42 0.00 33.84 2.40
1894 2323 3.349927 TGGTCTTGAAGCCATGAAGATG 58.650 45.455 4.58 0.00 0.00 2.90
1895 2324 3.245016 TGGTCTTGAAGCCATGAAGATGT 60.245 43.478 4.58 0.00 0.00 3.06
1896 2325 3.760684 GGTCTTGAAGCCATGAAGATGTT 59.239 43.478 0.00 0.00 0.00 2.71
1897 2326 4.219288 GGTCTTGAAGCCATGAAGATGTTT 59.781 41.667 0.00 0.00 0.00 2.83
1898 2327 5.279156 GGTCTTGAAGCCATGAAGATGTTTT 60.279 40.000 0.00 0.00 0.00 2.43
1899 2328 6.218746 GTCTTGAAGCCATGAAGATGTTTTT 58.781 36.000 0.00 0.00 0.00 1.94
1900 2329 6.145048 GTCTTGAAGCCATGAAGATGTTTTTG 59.855 38.462 0.00 0.00 0.00 2.44
1901 2330 4.309099 TGAAGCCATGAAGATGTTTTTGC 58.691 39.130 0.00 0.00 0.00 3.68
1902 2331 4.202233 TGAAGCCATGAAGATGTTTTTGCA 60.202 37.500 0.00 0.00 0.00 4.08
1903 2332 3.656559 AGCCATGAAGATGTTTTTGCAC 58.343 40.909 0.00 0.00 0.00 4.57
1904 2333 2.738314 GCCATGAAGATGTTTTTGCACC 59.262 45.455 0.00 0.00 0.00 5.01
1905 2334 3.555586 GCCATGAAGATGTTTTTGCACCT 60.556 43.478 0.00 0.00 0.00 4.00
1906 2335 4.240096 CCATGAAGATGTTTTTGCACCTC 58.760 43.478 0.00 0.00 0.00 3.85
1907 2336 4.021719 CCATGAAGATGTTTTTGCACCTCT 60.022 41.667 0.00 0.00 0.00 3.69
1908 2337 4.836125 TGAAGATGTTTTTGCACCTCTC 57.164 40.909 0.00 0.00 0.00 3.20
1909 2338 4.206375 TGAAGATGTTTTTGCACCTCTCA 58.794 39.130 0.00 0.00 0.00 3.27
1910 2339 4.828939 TGAAGATGTTTTTGCACCTCTCAT 59.171 37.500 0.00 0.00 0.00 2.90
1911 2340 6.003326 TGAAGATGTTTTTGCACCTCTCATA 58.997 36.000 0.00 0.00 0.00 2.15
1912 2341 6.660521 TGAAGATGTTTTTGCACCTCTCATAT 59.339 34.615 0.00 0.00 0.00 1.78
1913 2342 7.177216 TGAAGATGTTTTTGCACCTCTCATATT 59.823 33.333 0.00 0.00 0.00 1.28
1914 2343 7.472334 AGATGTTTTTGCACCTCTCATATTT 57.528 32.000 0.00 0.00 0.00 1.40
1915 2344 7.318141 AGATGTTTTTGCACCTCTCATATTTG 58.682 34.615 0.00 0.00 0.00 2.32
1916 2345 5.782047 TGTTTTTGCACCTCTCATATTTGG 58.218 37.500 0.00 0.00 0.00 3.28
1917 2346 5.304101 TGTTTTTGCACCTCTCATATTTGGT 59.696 36.000 0.00 0.00 0.00 3.67
1918 2347 5.643379 TTTTGCACCTCTCATATTTGGTC 57.357 39.130 0.00 0.00 0.00 4.02
1919 2348 4.574674 TTGCACCTCTCATATTTGGTCT 57.425 40.909 0.00 0.00 0.00 3.85
1920 2349 3.877559 TGCACCTCTCATATTTGGTCTG 58.122 45.455 0.00 0.00 0.00 3.51
1921 2350 3.519107 TGCACCTCTCATATTTGGTCTGA 59.481 43.478 0.00 0.00 0.00 3.27
1922 2351 4.164796 TGCACCTCTCATATTTGGTCTGAT 59.835 41.667 0.00 0.00 0.00 2.90
1923 2352 5.128919 GCACCTCTCATATTTGGTCTGATT 58.871 41.667 0.00 0.00 0.00 2.57
1924 2353 5.238214 GCACCTCTCATATTTGGTCTGATTC 59.762 44.000 0.00 0.00 0.00 2.52
1925 2354 6.590068 CACCTCTCATATTTGGTCTGATTCT 58.410 40.000 0.00 0.00 0.00 2.40
1926 2355 7.052873 CACCTCTCATATTTGGTCTGATTCTT 58.947 38.462 0.00 0.00 0.00 2.52
1927 2356 7.012138 CACCTCTCATATTTGGTCTGATTCTTG 59.988 40.741 0.00 0.00 0.00 3.02
1928 2357 7.052873 CCTCTCATATTTGGTCTGATTCTTGT 58.947 38.462 0.00 0.00 0.00 3.16
1929 2358 7.012138 CCTCTCATATTTGGTCTGATTCTTGTG 59.988 40.741 0.00 0.00 0.00 3.33
1930 2359 6.317140 TCTCATATTTGGTCTGATTCTTGTGC 59.683 38.462 0.00 0.00 0.00 4.57
1931 2360 5.945191 TCATATTTGGTCTGATTCTTGTGCA 59.055 36.000 0.00 0.00 0.00 4.57
1932 2361 4.778534 ATTTGGTCTGATTCTTGTGCAG 57.221 40.909 0.00 0.00 0.00 4.41
1933 2362 3.490439 TTGGTCTGATTCTTGTGCAGA 57.510 42.857 0.00 0.00 36.40 4.26
2160 2596 6.348498 CATGACCAGATAATTGAGGTGTACA 58.652 40.000 0.00 0.00 33.77 2.90
2484 3163 6.050454 TGCGAATAACACGGTATTTTATGG 57.950 37.500 0.00 0.00 0.00 2.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 1.545841 CAACCTCCCTTTGCCTAACC 58.454 55.000 0.00 0.00 0.00 2.85
50 51 1.480212 TTCCCAGCACTCGACCACAT 61.480 55.000 0.00 0.00 0.00 3.21
51 52 1.480212 ATTCCCAGCACTCGACCACA 61.480 55.000 0.00 0.00 0.00 4.17
110 111 6.072008 TGTGCAATGTACACATTTCTTAGCAT 60.072 34.615 15.66 0.00 43.48 3.79
239 241 3.019933 TGTACCAAAACCGTACCGTAC 57.980 47.619 0.00 0.00 36.13 3.67
404 667 5.252969 CCACCAAGGTATGAATTCATGTG 57.747 43.478 27.59 23.12 37.15 3.21
482 747 2.679837 CAGATTGCCTAATGAGCGTGTT 59.320 45.455 0.00 0.00 0.00 3.32
486 751 0.590195 GCCAGATTGCCTAATGAGCG 59.410 55.000 0.00 0.00 0.00 5.03
490 755 3.220110 ACATGAGCCAGATTGCCTAATG 58.780 45.455 0.00 0.00 0.00 1.90
604 879 7.232188 TGAACTTTGGGTTTATGGTACATACA 58.768 34.615 0.00 0.00 40.29 2.29
696 1055 8.746530 TGATAGAAAGTACTCCGTCACTAATTT 58.253 33.333 0.00 0.00 0.00 1.82
754 1117 6.551601 AGCTGCCAGTGATAGTAGTACTTTAT 59.448 38.462 8.40 0.00 0.00 1.40
755 1118 5.892119 AGCTGCCAGTGATAGTAGTACTTTA 59.108 40.000 8.40 0.00 0.00 1.85
756 1119 4.712337 AGCTGCCAGTGATAGTAGTACTTT 59.288 41.667 8.40 0.00 0.00 2.66
804 1167 2.636412 GGCGGGGACTTTGAAAGCC 61.636 63.158 4.57 7.29 36.08 4.35
805 1168 1.901464 TGGCGGGGACTTTGAAAGC 60.901 57.895 4.57 0.00 0.00 3.51
811 1174 0.966179 GAAAATGTGGCGGGGACTTT 59.034 50.000 0.00 0.00 0.00 2.66
816 1179 4.128388 GGCGAAAATGTGGCGGGG 62.128 66.667 0.00 0.00 0.00 5.73
850 1253 1.067821 GACGGAGAGGATGCACTTAGG 59.932 57.143 0.00 0.00 0.00 2.69
852 1255 1.112113 GGACGGAGAGGATGCACTTA 58.888 55.000 0.00 0.00 0.00 2.24
875 1279 3.955101 CCGTTTGCCGCCGTTTCA 61.955 61.111 0.00 0.00 34.38 2.69
881 1285 1.724582 AATATCAGCCGTTTGCCGCC 61.725 55.000 0.00 0.00 42.71 6.13
955 1359 5.326900 GGAGTCTTTATAGGTAGGAGGAGG 58.673 50.000 0.00 0.00 0.00 4.30
994 1398 2.102252 GAGAGACAGAGGCGATGGATTT 59.898 50.000 0.00 0.00 0.00 2.17
1172 1588 3.560239 CCTTCTTCTTCCCCTTCTTGTCC 60.560 52.174 0.00 0.00 0.00 4.02
1436 1852 2.525629 TTGGTGCCCTCGGAGACA 60.526 61.111 6.58 1.41 0.00 3.41
1475 1891 2.503356 CAACACAAGAGGAGCCTAGGAT 59.497 50.000 14.75 5.88 0.00 3.24
1489 1905 6.811170 GGAAAGAAACACAAGAATCAACACAA 59.189 34.615 0.00 0.00 0.00 3.33
1492 1908 6.603201 AGAGGAAAGAAACACAAGAATCAACA 59.397 34.615 0.00 0.00 0.00 3.33
1602 2018 1.664016 CGTCCATTCAAGCAGCAACAC 60.664 52.381 0.00 0.00 0.00 3.32
1625 2041 4.727507 AGGTGACAGTCAAGCATACTAG 57.272 45.455 4.32 0.00 0.00 2.57
1626 2042 4.322725 CCAAGGTGACAGTCAAGCATACTA 60.323 45.833 4.32 0.00 0.00 1.82
1627 2043 3.557898 CCAAGGTGACAGTCAAGCATACT 60.558 47.826 4.32 0.00 0.00 2.12
1628 2044 2.744202 CCAAGGTGACAGTCAAGCATAC 59.256 50.000 4.32 0.00 0.00 2.39
1629 2045 2.290260 CCCAAGGTGACAGTCAAGCATA 60.290 50.000 4.32 0.00 0.00 3.14
1630 2046 1.546323 CCCAAGGTGACAGTCAAGCAT 60.546 52.381 4.32 0.00 0.00 3.79
1631 2047 0.179020 CCCAAGGTGACAGTCAAGCA 60.179 55.000 4.32 0.00 0.00 3.91
1632 2048 0.179018 ACCCAAGGTGACAGTCAAGC 60.179 55.000 4.32 0.00 32.98 4.01
1633 2049 2.158755 AGAACCCAAGGTGACAGTCAAG 60.159 50.000 4.32 0.00 35.34 3.02
1634 2050 1.843851 AGAACCCAAGGTGACAGTCAA 59.156 47.619 4.32 0.00 35.34 3.18
1635 2051 1.507140 AGAACCCAAGGTGACAGTCA 58.493 50.000 0.00 0.00 35.34 3.41
1636 2052 2.222027 CAAGAACCCAAGGTGACAGTC 58.778 52.381 0.00 0.00 35.34 3.51
1637 2053 1.564348 ACAAGAACCCAAGGTGACAGT 59.436 47.619 0.00 0.00 35.34 3.55
1638 2054 2.348411 ACAAGAACCCAAGGTGACAG 57.652 50.000 0.00 0.00 35.34 3.51
1643 2059 3.288092 GTCAGAAACAAGAACCCAAGGT 58.712 45.455 0.00 0.00 37.65 3.50
1650 2066 5.586643 AGAGGAAACTGTCAGAAACAAGAAC 59.413 40.000 6.91 0.00 44.43 3.01
1661 2077 3.433598 CCAAGACCAAGAGGAAACTGTCA 60.434 47.826 0.00 0.00 44.43 3.58
1662 2078 3.142174 CCAAGACCAAGAGGAAACTGTC 58.858 50.000 0.00 0.00 44.43 3.51
1671 2097 2.461695 TCCTAGCTCCAAGACCAAGAG 58.538 52.381 0.00 0.00 0.00 2.85
1678 2104 3.121929 ACCATCTTCCTAGCTCCAAGA 57.878 47.619 0.00 0.00 0.00 3.02
1682 2108 3.956744 ACAAAACCATCTTCCTAGCTCC 58.043 45.455 0.00 0.00 0.00 4.70
1704 2133 7.550196 ACAAGAATTTGTGCAAAACTTTCAGAT 59.450 29.630 11.99 0.00 45.54 2.90
1732 2161 6.959639 ACAACCATCAAACTATTTGTGTCT 57.040 33.333 1.50 0.00 41.36 3.41
1735 2164 7.424803 TCTCAACAACCATCAAACTATTTGTG 58.575 34.615 1.50 0.62 41.36 3.33
1750 2179 2.147150 GAGCTCCACTTCTCAACAACC 58.853 52.381 0.87 0.00 0.00 3.77
1751 2180 2.147150 GGAGCTCCACTTCTCAACAAC 58.853 52.381 28.43 0.00 35.64 3.32
1779 2208 3.558505 GCAGCAACATCACTGTTTACTG 58.441 45.455 11.29 11.29 43.05 2.74
1786 2215 0.587768 TTCACGCAGCAACATCACTG 59.412 50.000 0.00 0.00 36.96 3.66
1788 2217 1.609932 CATTCACGCAGCAACATCAC 58.390 50.000 0.00 0.00 0.00 3.06
1789 2218 0.522626 CCATTCACGCAGCAACATCA 59.477 50.000 0.00 0.00 0.00 3.07
1791 2220 0.523072 GTCCATTCACGCAGCAACAT 59.477 50.000 0.00 0.00 0.00 2.71
1792 2221 1.840630 CGTCCATTCACGCAGCAACA 61.841 55.000 0.00 0.00 31.96 3.33
1793 2222 1.154413 CGTCCATTCACGCAGCAAC 60.154 57.895 0.00 0.00 31.96 4.17
1794 2223 0.882484 TTCGTCCATTCACGCAGCAA 60.882 50.000 0.00 0.00 39.74 3.91
1795 2224 1.291184 CTTCGTCCATTCACGCAGCA 61.291 55.000 0.00 0.00 39.74 4.41
1796 2225 1.291877 ACTTCGTCCATTCACGCAGC 61.292 55.000 0.00 0.00 36.62 5.25
1797 2226 0.716108 GACTTCGTCCATTCACGCAG 59.284 55.000 0.00 0.00 38.75 5.18
1798 2227 1.006825 CGACTTCGTCCATTCACGCA 61.007 55.000 0.00 0.00 39.74 5.24
1799 2228 1.702299 CGACTTCGTCCATTCACGC 59.298 57.895 0.00 0.00 39.74 5.34
1810 2239 4.030306 GTGACAGTAAAGCATACGACTTCG 59.970 45.833 0.00 0.00 46.33 3.79
1811 2240 4.326548 GGTGACAGTAAAGCATACGACTTC 59.673 45.833 0.00 0.00 0.00 3.01
1812 2241 4.021368 AGGTGACAGTAAAGCATACGACTT 60.021 41.667 0.00 0.00 0.00 3.01
1813 2242 3.510360 AGGTGACAGTAAAGCATACGACT 59.490 43.478 0.00 0.00 0.00 4.18
1814 2243 3.846360 AGGTGACAGTAAAGCATACGAC 58.154 45.455 0.00 0.00 0.00 4.34
1815 2244 4.242475 CAAGGTGACAGTAAAGCATACGA 58.758 43.478 0.00 0.00 0.00 3.43
1816 2245 3.370978 CCAAGGTGACAGTAAAGCATACG 59.629 47.826 0.00 0.00 0.00 3.06
1817 2246 4.324267 ACCAAGGTGACAGTAAAGCATAC 58.676 43.478 0.00 0.00 0.00 2.39
1818 2247 4.634012 ACCAAGGTGACAGTAAAGCATA 57.366 40.909 0.00 0.00 0.00 3.14
1819 2248 3.508845 ACCAAGGTGACAGTAAAGCAT 57.491 42.857 0.00 0.00 0.00 3.79
1820 2249 3.290948 AACCAAGGTGACAGTAAAGCA 57.709 42.857 0.00 0.00 0.00 3.91
1821 2250 3.883489 AGAAACCAAGGTGACAGTAAAGC 59.117 43.478 0.00 0.00 0.00 3.51
1822 2251 5.733373 GCAAGAAACCAAGGTGACAGTAAAG 60.733 44.000 0.00 0.00 0.00 1.85
1823 2252 4.097286 GCAAGAAACCAAGGTGACAGTAAA 59.903 41.667 0.00 0.00 0.00 2.01
1824 2253 3.630312 GCAAGAAACCAAGGTGACAGTAA 59.370 43.478 0.00 0.00 0.00 2.24
1825 2254 3.118038 AGCAAGAAACCAAGGTGACAGTA 60.118 43.478 0.00 0.00 0.00 2.74
1826 2255 2.024414 GCAAGAAACCAAGGTGACAGT 58.976 47.619 0.00 0.00 0.00 3.55
1827 2256 2.301346 AGCAAGAAACCAAGGTGACAG 58.699 47.619 0.00 0.00 0.00 3.51
1828 2257 2.435372 AGCAAGAAACCAAGGTGACA 57.565 45.000 0.00 0.00 0.00 3.58
1829 2258 2.952310 AGAAGCAAGAAACCAAGGTGAC 59.048 45.455 0.00 0.00 0.00 3.67
1830 2259 2.951642 CAGAAGCAAGAAACCAAGGTGA 59.048 45.455 0.00 0.00 0.00 4.02
1831 2260 2.951642 TCAGAAGCAAGAAACCAAGGTG 59.048 45.455 0.00 0.00 0.00 4.00
1832 2261 3.297134 TCAGAAGCAAGAAACCAAGGT 57.703 42.857 0.00 0.00 0.00 3.50
1833 2262 4.654091 TTTCAGAAGCAAGAAACCAAGG 57.346 40.909 0.00 0.00 0.00 3.61
1834 2263 7.543947 AAAATTTCAGAAGCAAGAAACCAAG 57.456 32.000 0.00 0.00 36.65 3.61
1835 2264 7.920160 AAAAATTTCAGAAGCAAGAAACCAA 57.080 28.000 0.00 0.00 36.65 3.67
1836 2265 9.612066 AATAAAAATTTCAGAAGCAAGAAACCA 57.388 25.926 0.00 0.00 36.65 3.67
1850 2279 8.923270 ACCAGGAGAAACTGAATAAAAATTTCA 58.077 29.630 0.00 0.00 40.97 2.69
1851 2280 9.411801 GACCAGGAGAAACTGAATAAAAATTTC 57.588 33.333 0.00 0.00 40.97 2.17
1852 2281 9.147732 AGACCAGGAGAAACTGAATAAAAATTT 57.852 29.630 0.00 0.00 40.97 1.82
1853 2282 8.712228 AGACCAGGAGAAACTGAATAAAAATT 57.288 30.769 0.00 0.00 40.97 1.82
1854 2283 8.579863 CAAGACCAGGAGAAACTGAATAAAAAT 58.420 33.333 0.00 0.00 40.97 1.82
1855 2284 7.777910 TCAAGACCAGGAGAAACTGAATAAAAA 59.222 33.333 0.00 0.00 40.97 1.94
1856 2285 7.287061 TCAAGACCAGGAGAAACTGAATAAAA 58.713 34.615 0.00 0.00 40.97 1.52
1857 2286 6.837312 TCAAGACCAGGAGAAACTGAATAAA 58.163 36.000 0.00 0.00 40.97 1.40
1858 2287 6.433847 TCAAGACCAGGAGAAACTGAATAA 57.566 37.500 0.00 0.00 40.97 1.40
1859 2288 6.433847 TTCAAGACCAGGAGAAACTGAATA 57.566 37.500 0.00 0.00 40.97 1.75
1860 2289 4.982241 TCAAGACCAGGAGAAACTGAAT 57.018 40.909 0.00 0.00 40.97 2.57
1861 2290 4.708177 CTTCAAGACCAGGAGAAACTGAA 58.292 43.478 0.00 0.00 40.97 3.02
1862 2291 3.495100 GCTTCAAGACCAGGAGAAACTGA 60.495 47.826 0.00 0.00 40.97 3.41
1863 2292 2.810852 GCTTCAAGACCAGGAGAAACTG 59.189 50.000 0.00 0.00 38.21 3.16
1864 2293 2.224646 GGCTTCAAGACCAGGAGAAACT 60.225 50.000 0.00 0.00 0.00 2.66
1865 2294 2.155279 GGCTTCAAGACCAGGAGAAAC 58.845 52.381 0.00 0.00 0.00 2.78
1866 2295 1.774254 TGGCTTCAAGACCAGGAGAAA 59.226 47.619 0.00 0.00 0.00 2.52
1867 2296 1.434188 TGGCTTCAAGACCAGGAGAA 58.566 50.000 0.00 0.00 0.00 2.87
1868 2297 1.280133 CATGGCTTCAAGACCAGGAGA 59.720 52.381 6.67 0.00 40.12 3.71
1869 2298 1.280133 TCATGGCTTCAAGACCAGGAG 59.720 52.381 10.10 2.74 41.52 3.69
1870 2299 1.361204 TCATGGCTTCAAGACCAGGA 58.639 50.000 10.10 10.10 43.97 3.86
1871 2300 2.089980 CTTCATGGCTTCAAGACCAGG 58.910 52.381 6.27 6.27 39.88 4.45
1872 2301 3.063510 TCTTCATGGCTTCAAGACCAG 57.936 47.619 6.69 0.00 39.88 4.00
1873 2302 3.245016 ACATCTTCATGGCTTCAAGACCA 60.245 43.478 3.40 3.40 41.06 4.02
1874 2303 3.350833 ACATCTTCATGGCTTCAAGACC 58.649 45.455 0.00 0.00 33.82 3.85
1875 2304 5.382618 AAACATCTTCATGGCTTCAAGAC 57.617 39.130 0.00 0.00 33.82 3.01
1876 2305 6.218019 CAAAAACATCTTCATGGCTTCAAGA 58.782 36.000 0.00 0.00 33.82 3.02
1877 2306 5.107220 GCAAAAACATCTTCATGGCTTCAAG 60.107 40.000 0.00 0.00 33.82 3.02
1878 2307 4.751098 GCAAAAACATCTTCATGGCTTCAA 59.249 37.500 0.00 0.00 33.82 2.69
1879 2308 4.202233 TGCAAAAACATCTTCATGGCTTCA 60.202 37.500 0.00 0.00 33.82 3.02
1880 2309 4.151157 GTGCAAAAACATCTTCATGGCTTC 59.849 41.667 0.00 0.00 33.82 3.86
1881 2310 4.060205 GTGCAAAAACATCTTCATGGCTT 58.940 39.130 0.00 0.00 33.82 4.35
1882 2311 3.555586 GGTGCAAAAACATCTTCATGGCT 60.556 43.478 0.00 0.00 33.82 4.75
1883 2312 2.738314 GGTGCAAAAACATCTTCATGGC 59.262 45.455 0.00 0.00 33.82 4.40
1884 2313 4.021719 AGAGGTGCAAAAACATCTTCATGG 60.022 41.667 0.00 0.00 37.95 3.66
1885 2314 5.130292 AGAGGTGCAAAAACATCTTCATG 57.870 39.130 0.00 0.00 37.95 3.07
1886 2315 4.828939 TGAGAGGTGCAAAAACATCTTCAT 59.171 37.500 0.00 0.00 41.04 2.57
1887 2316 4.206375 TGAGAGGTGCAAAAACATCTTCA 58.794 39.130 0.00 0.00 41.04 3.02
1888 2317 4.836125 TGAGAGGTGCAAAAACATCTTC 57.164 40.909 0.00 0.00 41.04 2.87
1889 2318 7.472334 AATATGAGAGGTGCAAAAACATCTT 57.528 32.000 0.00 0.00 41.04 2.40
1890 2319 7.318141 CAAATATGAGAGGTGCAAAAACATCT 58.682 34.615 0.00 0.00 43.49 2.90
1891 2320 6.532657 CCAAATATGAGAGGTGCAAAAACATC 59.467 38.462 0.00 0.00 0.00 3.06
1892 2321 6.014327 ACCAAATATGAGAGGTGCAAAAACAT 60.014 34.615 0.00 0.00 32.04 2.71
1893 2322 5.304101 ACCAAATATGAGAGGTGCAAAAACA 59.696 36.000 0.00 0.00 32.04 2.83
1894 2323 5.783111 ACCAAATATGAGAGGTGCAAAAAC 58.217 37.500 0.00 0.00 32.04 2.43
1895 2324 5.774690 AGACCAAATATGAGAGGTGCAAAAA 59.225 36.000 0.00 0.00 33.77 1.94
1896 2325 5.183713 CAGACCAAATATGAGAGGTGCAAAA 59.816 40.000 0.00 0.00 33.77 2.44
1897 2326 4.701651 CAGACCAAATATGAGAGGTGCAAA 59.298 41.667 0.00 0.00 33.77 3.68
1898 2327 4.019411 TCAGACCAAATATGAGAGGTGCAA 60.019 41.667 0.00 0.00 33.77 4.08
1899 2328 3.519107 TCAGACCAAATATGAGAGGTGCA 59.481 43.478 0.00 0.00 33.77 4.57
1900 2329 4.142609 TCAGACCAAATATGAGAGGTGC 57.857 45.455 0.00 0.00 33.77 5.01
1901 2330 6.590068 AGAATCAGACCAAATATGAGAGGTG 58.410 40.000 0.00 0.00 30.38 4.00
1902 2331 6.821616 AGAATCAGACCAAATATGAGAGGT 57.178 37.500 0.00 0.00 30.38 3.85
1903 2332 7.012138 CACAAGAATCAGACCAAATATGAGAGG 59.988 40.741 0.00 0.00 30.38 3.69
1904 2333 7.466996 GCACAAGAATCAGACCAAATATGAGAG 60.467 40.741 0.00 0.00 30.38 3.20
1905 2334 6.317140 GCACAAGAATCAGACCAAATATGAGA 59.683 38.462 0.00 0.00 30.38 3.27
1906 2335 6.094464 TGCACAAGAATCAGACCAAATATGAG 59.906 38.462 0.00 0.00 30.38 2.90
1907 2336 5.945191 TGCACAAGAATCAGACCAAATATGA 59.055 36.000 0.00 0.00 31.75 2.15
1908 2337 6.094464 TCTGCACAAGAATCAGACCAAATATG 59.906 38.462 0.00 0.00 32.48 1.78
1909 2338 6.094603 GTCTGCACAAGAATCAGACCAAATAT 59.905 38.462 9.70 0.00 46.56 1.28
1910 2339 5.412594 GTCTGCACAAGAATCAGACCAAATA 59.587 40.000 9.70 0.00 46.56 1.40
1911 2340 4.217118 GTCTGCACAAGAATCAGACCAAAT 59.783 41.667 9.70 0.00 46.56 2.32
1912 2341 3.565482 GTCTGCACAAGAATCAGACCAAA 59.435 43.478 9.70 0.00 46.56 3.28
1913 2342 3.141398 GTCTGCACAAGAATCAGACCAA 58.859 45.455 9.70 0.00 46.56 3.67
1914 2343 2.771089 GTCTGCACAAGAATCAGACCA 58.229 47.619 9.70 0.00 46.56 4.02
1927 2356 3.987868 TCGTTTAGAGATTGTGTCTGCAC 59.012 43.478 0.00 0.00 45.44 4.57
1928 2357 3.987868 GTCGTTTAGAGATTGTGTCTGCA 59.012 43.478 0.00 0.00 37.29 4.41
1929 2358 3.987868 TGTCGTTTAGAGATTGTGTCTGC 59.012 43.478 0.00 0.00 37.29 4.26
1930 2359 6.525121 TTTGTCGTTTAGAGATTGTGTCTG 57.475 37.500 0.00 0.00 37.29 3.51
1931 2360 5.177696 GCTTTGTCGTTTAGAGATTGTGTCT 59.822 40.000 0.00 0.00 40.81 3.41
1932 2361 5.177696 AGCTTTGTCGTTTAGAGATTGTGTC 59.822 40.000 0.00 0.00 0.00 3.67
1933 2362 5.057149 AGCTTTGTCGTTTAGAGATTGTGT 58.943 37.500 0.00 0.00 0.00 3.72
1934 2363 5.597813 AGCTTTGTCGTTTAGAGATTGTG 57.402 39.130 0.00 0.00 0.00 3.33
1935 2364 7.724305 TTTAGCTTTGTCGTTTAGAGATTGT 57.276 32.000 0.00 0.00 0.00 2.71
1936 2365 9.267096 GATTTTAGCTTTGTCGTTTAGAGATTG 57.733 33.333 0.00 0.00 0.00 2.67
1937 2366 8.451748 GGATTTTAGCTTTGTCGTTTAGAGATT 58.548 33.333 0.00 0.00 0.00 2.40
1938 2367 7.606456 TGGATTTTAGCTTTGTCGTTTAGAGAT 59.394 33.333 0.00 0.00 0.00 2.75
1939 2368 6.932400 TGGATTTTAGCTTTGTCGTTTAGAGA 59.068 34.615 0.00 0.00 0.00 3.10
1940 2369 7.095187 ACTGGATTTTAGCTTTGTCGTTTAGAG 60.095 37.037 0.00 0.00 0.00 2.43
1941 2370 6.708949 ACTGGATTTTAGCTTTGTCGTTTAGA 59.291 34.615 0.00 0.00 0.00 2.10
1942 2371 6.899114 ACTGGATTTTAGCTTTGTCGTTTAG 58.101 36.000 0.00 0.00 0.00 1.85
1943 2372 6.347079 CGACTGGATTTTAGCTTTGTCGTTTA 60.347 38.462 0.00 0.00 40.40 2.01
1944 2373 5.560183 CGACTGGATTTTAGCTTTGTCGTTT 60.560 40.000 0.00 0.00 40.40 3.60
1945 2374 4.084013 CGACTGGATTTTAGCTTTGTCGTT 60.084 41.667 0.00 0.00 40.40 3.85
1946 2375 3.432252 CGACTGGATTTTAGCTTTGTCGT 59.568 43.478 0.00 0.00 40.40 4.34
2138 2573 5.626809 GCTGTACACCTCAATTATCTGGTCA 60.627 44.000 0.00 0.00 0.00 4.02
2160 2596 0.602905 GTGCTGAGTTGGTTACGGCT 60.603 55.000 0.00 0.00 0.00 5.52
2484 3163 0.739813 AAGTTATCAGGTGCGCCGTC 60.740 55.000 11.42 0.00 40.50 4.79


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

AutoCloner maintained by Alex Coulton.