Multiple sequence alignment - TraesCS1A01G439600

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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 TraesCS1A01G439600 chr1A 100.000 2655 0 0 1 2655 589037812 589040466 0.000000e+00 4903
1 TraesCS1A01G439600 chr1A 85.714 119 15 2 2504 2622 589053976 589054092 9.980000e-25 124
2 TraesCS1A01G439600 chr3B 99.050 947 8 1 1 946 501982042 501981096 0.000000e+00 1698
3 TraesCS1A01G439600 chr3B 98.944 947 9 1 1 946 60268224 60269170 0.000000e+00 1692
4 TraesCS1A01G439600 chr3B 98.418 948 13 2 1 946 581680474 581679527 0.000000e+00 1666
5 TraesCS1A01G439600 chr1B 99.050 947 8 1 1 946 95486144 95485198 0.000000e+00 1698
6 TraesCS1A01G439600 chr1B 86.104 734 41 29 946 1655 683472104 683472800 0.000000e+00 734
7 TraesCS1A01G439600 chr1B 88.442 597 45 14 2081 2653 683473153 683473749 0.000000e+00 699
8 TraesCS1A01G439600 chr1B 89.270 233 14 4 1509 1741 683476010 683476231 5.600000e-72 281
9 TraesCS1A01G439600 chr1B 82.796 186 19 6 1734 1910 683472907 683473088 1.270000e-33 154
10 TraesCS1A01G439600 chr5A 98.733 947 6 2 1 946 23170141 23169200 0.000000e+00 1677
11 TraesCS1A01G439600 chr3A 98.627 947 12 1 1 946 605250244 605251190 0.000000e+00 1676
12 TraesCS1A01G439600 chr2B 98.522 947 13 1 1 946 445270267 445271213 0.000000e+00 1670
13 TraesCS1A01G439600 chr2A 97.404 963 22 2 1 960 249757092 249756130 0.000000e+00 1637
14 TraesCS1A01G439600 chr6B 97.782 947 17 2 1 946 145012683 145011740 0.000000e+00 1629
15 TraesCS1A01G439600 chr1D 82.146 1025 76 57 946 1910 491040866 491041843 0.000000e+00 780
16 TraesCS1A01G439600 chr1D 91.228 399 21 7 1953 2343 491041967 491042359 5.030000e-147 531
17 TraesCS1A01G439600 chr1D 88.496 226 22 3 2432 2655 491042712 491042935 1.210000e-68 270
18 TraesCS1A01G439600 chr7B 82.042 284 19 15 979 1262 604637827 604637576 2.070000e-51 213
19 TraesCS1A01G439600 chr7B 91.852 135 8 1 1281 1415 604628231 604628100 4.510000e-43 185
20 TraesCS1A01G439600 chr6A 92.857 98 7 0 1497 1594 159242937 159242840 2.750000e-30 143


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 TraesCS1A01G439600 chr1A 589037812 589040466 2654 False 4903 4903 100.000 1 2655 1 chr1A.!!$F1 2654
1 TraesCS1A01G439600 chr3B 501981096 501982042 946 True 1698 1698 99.050 1 946 1 chr3B.!!$R1 945
2 TraesCS1A01G439600 chr3B 60268224 60269170 946 False 1692 1692 98.944 1 946 1 chr3B.!!$F1 945
3 TraesCS1A01G439600 chr3B 581679527 581680474 947 True 1666 1666 98.418 1 946 1 chr3B.!!$R2 945
4 TraesCS1A01G439600 chr1B 95485198 95486144 946 True 1698 1698 99.050 1 946 1 chr1B.!!$R1 945
5 TraesCS1A01G439600 chr1B 683472104 683476231 4127 False 467 734 86.653 946 2653 4 chr1B.!!$F1 1707
6 TraesCS1A01G439600 chr5A 23169200 23170141 941 True 1677 1677 98.733 1 946 1 chr5A.!!$R1 945
7 TraesCS1A01G439600 chr3A 605250244 605251190 946 False 1676 1676 98.627 1 946 1 chr3A.!!$F1 945
8 TraesCS1A01G439600 chr2B 445270267 445271213 946 False 1670 1670 98.522 1 946 1 chr2B.!!$F1 945
9 TraesCS1A01G439600 chr2A 249756130 249757092 962 True 1637 1637 97.404 1 960 1 chr2A.!!$R1 959
10 TraesCS1A01G439600 chr6B 145011740 145012683 943 True 1629 1629 97.782 1 946 1 chr6B.!!$R1 945
11 TraesCS1A01G439600 chr1D 491040866 491042935 2069 False 527 780 87.290 946 2655 3 chr1D.!!$F1 1709

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
215 216 0.652592 CCAGCCGAATCTAAACTGCG 59.347 55.0 0.0 0.0 0.0 5.18 F
1193 1226 0.683973 CCCTCCTGCTATACTGCCAG 59.316 60.0 0.0 0.0 0.0 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1216 1249 0.602372 GCCGGCATCTTGGATCTCTC 60.602 60.000 24.8 0.0 0.00 3.20 R
2463 3045 1.004560 CTCGCCTCCAGCACAAGAA 60.005 57.895 0.0 0.0 44.04 2.52 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
44 45 5.786311 TCCTACATACACCACAACTACAAC 58.214 41.667 0.00 0.00 0.00 3.32
215 216 0.652592 CCAGCCGAATCTAAACTGCG 59.347 55.000 0.00 0.00 0.00 5.18
238 239 1.195442 TCCACGGCTGACATACCCAA 61.195 55.000 0.00 0.00 0.00 4.12
953 956 4.376146 GCTTGCATTTTACTCCACCAAAA 58.624 39.130 0.00 0.00 0.00 2.44
973 976 2.806945 TCCACATCCACCATTCTTCC 57.193 50.000 0.00 0.00 0.00 3.46
990 993 1.750193 TCCGTTGCCCTGATTGATTC 58.250 50.000 0.00 0.00 0.00 2.52
992 995 1.672881 CCGTTGCCCTGATTGATTCTC 59.327 52.381 0.00 0.00 0.00 2.87
1170 1183 2.737180 CACCCCATCCCGATCTCG 59.263 66.667 0.00 0.00 39.44 4.04
1193 1226 0.683973 CCCTCCTGCTATACTGCCAG 59.316 60.000 0.00 0.00 0.00 4.85
1201 1234 2.104792 TGCTATACTGCCAGTGGATTCC 59.895 50.000 15.20 0.00 0.00 3.01
1216 1249 3.386078 TGGATTCCATCTTCTTCTCTCGG 59.614 47.826 0.00 0.00 0.00 4.63
1262 1301 1.271597 GGTCTCCCACTGTTGCAATCT 60.272 52.381 0.59 0.00 0.00 2.40
1265 1304 4.141711 GGTCTCCCACTGTTGCAATCTATA 60.142 45.833 0.59 0.00 0.00 1.31
1266 1305 5.455326 GGTCTCCCACTGTTGCAATCTATAT 60.455 44.000 0.59 0.00 0.00 0.86
1267 1306 6.058183 GTCTCCCACTGTTGCAATCTATATT 58.942 40.000 0.59 0.00 0.00 1.28
1269 1308 6.767902 TCTCCCACTGTTGCAATCTATATTTC 59.232 38.462 0.59 0.00 0.00 2.17
1270 1309 5.827797 TCCCACTGTTGCAATCTATATTTCC 59.172 40.000 0.59 0.00 0.00 3.13
1274 1313 5.136068 TGTTGCAATCTATATTTCCCCCA 57.864 39.130 0.59 0.00 0.00 4.96
1275 1314 5.714863 TGTTGCAATCTATATTTCCCCCAT 58.285 37.500 0.59 0.00 0.00 4.00
1276 1315 5.539574 TGTTGCAATCTATATTTCCCCCATG 59.460 40.000 0.59 0.00 0.00 3.66
1277 1316 4.676109 TGCAATCTATATTTCCCCCATGG 58.324 43.478 4.14 4.14 0.00 3.66
1337 1376 3.667497 TCACTCTTCACCATCTCACAC 57.333 47.619 0.00 0.00 0.00 3.82
1353 1392 4.974721 ACCCCCTGCTTGGCAACG 62.975 66.667 0.00 0.00 38.41 4.10
1462 1516 2.363147 GTCGAGTCCCAGGAGCCT 60.363 66.667 0.00 0.00 0.00 4.58
1463 1517 2.363018 TCGAGTCCCAGGAGCCTG 60.363 66.667 9.59 9.59 43.26 4.85
1464 1518 2.681778 CGAGTCCCAGGAGCCTGT 60.682 66.667 14.97 0.00 42.15 4.00
1465 1519 2.286523 CGAGTCCCAGGAGCCTGTT 61.287 63.158 14.97 0.00 42.15 3.16
1467 1521 2.360475 GTCCCAGGAGCCTGTTGC 60.360 66.667 14.97 1.52 42.15 4.17
1468 1522 3.650950 TCCCAGGAGCCTGTTGCC 61.651 66.667 14.97 0.00 42.15 4.52
1594 1648 0.248843 CCGCAGAGAAGAAGAGGCTT 59.751 55.000 0.00 0.00 0.00 4.35
1603 1657 0.523966 AGAAGAGGCTTGACGACGAG 59.476 55.000 0.00 0.00 0.00 4.18
1655 1709 3.003173 CCCTCCCGGTGCTCTGAA 61.003 66.667 0.00 0.00 0.00 3.02
1658 1712 1.738099 CTCCCGGTGCTCTGAAACG 60.738 63.158 0.00 0.00 0.00 3.60
1659 1713 2.154798 CTCCCGGTGCTCTGAAACGA 62.155 60.000 0.00 0.00 0.00 3.85
1662 1716 0.734253 CCGGTGCTCTGAAACGAGAG 60.734 60.000 0.00 0.00 42.24 3.20
1663 1717 0.241213 CGGTGCTCTGAAACGAGAGA 59.759 55.000 3.19 0.00 41.95 3.10
1664 1718 1.730772 CGGTGCTCTGAAACGAGAGAG 60.731 57.143 3.19 0.00 41.95 3.20
1668 1722 2.559998 CTCTGAAACGAGAGAGCCTC 57.440 55.000 0.00 0.00 41.95 4.70
1670 1724 1.542030 TCTGAAACGAGAGAGCCTCAC 59.458 52.381 0.00 0.00 42.06 3.51
1671 1725 0.603569 TGAAACGAGAGAGCCTCACC 59.396 55.000 0.00 0.00 42.06 4.02
1672 1726 0.603569 GAAACGAGAGAGCCTCACCA 59.396 55.000 0.00 0.00 42.06 4.17
1673 1727 0.318762 AAACGAGAGAGCCTCACCAC 59.681 55.000 0.00 0.00 42.06 4.16
1674 1728 0.827925 AACGAGAGAGCCTCACCACA 60.828 55.000 0.00 0.00 42.06 4.17
1675 1729 1.214062 CGAGAGAGCCTCACCACAC 59.786 63.158 0.00 0.00 42.06 3.82
1686 1749 1.525995 CACCACACCACCACCAGAC 60.526 63.158 0.00 0.00 0.00 3.51
1689 1752 1.227943 CACACCACCACCAGACTGG 60.228 63.158 20.45 20.45 45.02 4.00
1690 1753 1.383943 ACACCACCACCAGACTGGA 60.384 57.895 28.56 0.00 40.96 3.86
1692 1755 1.074471 ACCACCACCAGACTGGACT 60.074 57.895 28.56 3.29 40.96 3.85
1693 1756 1.372683 CCACCACCAGACTGGACTG 59.627 63.158 28.56 16.11 40.96 3.51
1694 1757 1.302033 CACCACCAGACTGGACTGC 60.302 63.158 28.56 0.00 40.96 4.40
1695 1758 1.460305 ACCACCAGACTGGACTGCT 60.460 57.895 28.56 1.60 40.96 4.24
1696 1759 1.294780 CCACCAGACTGGACTGCTC 59.705 63.158 28.56 0.00 40.96 4.26
1704 1767 0.250209 ACTGGACTGCTCTGCTGTTG 60.250 55.000 3.78 1.67 40.59 3.33
1706 1769 1.372683 GGACTGCTCTGCTGTTGGA 59.627 57.895 3.78 0.00 40.59 3.53
1707 1770 0.250467 GGACTGCTCTGCTGTTGGAA 60.250 55.000 3.78 0.00 40.59 3.53
1709 1772 2.355108 GGACTGCTCTGCTGTTGGAATA 60.355 50.000 3.78 0.00 40.59 1.75
1710 1773 3.338249 GACTGCTCTGCTGTTGGAATAA 58.662 45.455 3.78 0.00 40.59 1.40
1711 1774 3.944015 GACTGCTCTGCTGTTGGAATAAT 59.056 43.478 3.78 0.00 40.59 1.28
1713 1776 5.500234 ACTGCTCTGCTGTTGGAATAATTA 58.500 37.500 0.00 0.00 37.43 1.40
1715 1778 6.094603 ACTGCTCTGCTGTTGGAATAATTAAG 59.905 38.462 0.00 0.00 37.43 1.85
1716 1779 5.163622 TGCTCTGCTGTTGGAATAATTAAGC 60.164 40.000 0.00 0.00 0.00 3.09
1717 1780 5.067023 GCTCTGCTGTTGGAATAATTAAGCT 59.933 40.000 5.05 0.00 0.00 3.74
1718 1781 6.441093 TCTGCTGTTGGAATAATTAAGCTG 57.559 37.500 0.00 4.74 0.00 4.24
1719 1782 5.357878 TCTGCTGTTGGAATAATTAAGCTGG 59.642 40.000 8.95 2.36 0.00 4.85
1720 1783 4.142182 TGCTGTTGGAATAATTAAGCTGGC 60.142 41.667 0.00 0.00 0.00 4.85
1721 1784 4.142182 GCTGTTGGAATAATTAAGCTGGCA 60.142 41.667 0.00 0.00 0.00 4.92
1722 1785 5.323371 TGTTGGAATAATTAAGCTGGCAC 57.677 39.130 0.00 0.00 0.00 5.01
1723 1786 5.016173 TGTTGGAATAATTAAGCTGGCACT 58.984 37.500 0.00 0.00 0.00 4.40
1724 1787 5.105797 TGTTGGAATAATTAAGCTGGCACTG 60.106 40.000 0.00 0.00 0.00 3.66
1741 1823 2.821378 CACTGCCTGATTGATGGTTTGA 59.179 45.455 0.00 0.00 0.00 2.69
1777 1862 3.021269 TGATTGTGTCGTGTGGTACTC 57.979 47.619 0.00 0.00 0.00 2.59
1783 1868 5.204409 TGTGTCGTGTGGTACTCTTATTT 57.796 39.130 0.00 0.00 0.00 1.40
1789 1874 7.546667 TGTCGTGTGGTACTCTTATTTTTATCC 59.453 37.037 0.00 0.00 0.00 2.59
1814 1901 9.369672 CCTCTTATAAGGTACTCCTAGTTTGAT 57.630 37.037 12.54 0.00 44.35 2.57
1818 1905 3.450904 AGGTACTCCTAGTTTGATGCCA 58.549 45.455 0.00 0.00 43.12 4.92
1858 1950 5.518848 TGCTTTATTTATGTGGATGCAGG 57.481 39.130 0.00 0.00 0.00 4.85
1862 1954 2.804986 TTTATGTGGATGCAGGCAGA 57.195 45.000 0.00 0.00 0.00 4.26
1953 2085 3.018856 TGGATGTGGATGCAAACTGATC 58.981 45.455 0.00 0.00 0.00 2.92
1957 2089 3.499338 TGTGGATGCAAACTGATCCTTT 58.501 40.909 3.57 0.00 39.23 3.11
1958 2090 4.661222 TGTGGATGCAAACTGATCCTTTA 58.339 39.130 3.57 0.00 39.23 1.85
1959 2091 4.458989 TGTGGATGCAAACTGATCCTTTAC 59.541 41.667 3.57 0.00 39.23 2.01
1960 2092 4.702131 GTGGATGCAAACTGATCCTTTACT 59.298 41.667 3.57 0.00 39.23 2.24
1961 2093 5.183904 GTGGATGCAAACTGATCCTTTACTT 59.816 40.000 3.57 0.00 39.23 2.24
1962 2094 5.774690 TGGATGCAAACTGATCCTTTACTTT 59.225 36.000 3.57 0.00 39.23 2.66
1963 2095 6.267471 TGGATGCAAACTGATCCTTTACTTTT 59.733 34.615 3.57 0.00 39.23 2.27
1964 2096 6.808704 GGATGCAAACTGATCCTTTACTTTTC 59.191 38.462 0.00 0.00 36.04 2.29
1965 2097 6.959639 TGCAAACTGATCCTTTACTTTTCT 57.040 33.333 0.00 0.00 0.00 2.52
1966 2098 6.970484 TGCAAACTGATCCTTTACTTTTCTC 58.030 36.000 0.00 0.00 0.00 2.87
1967 2099 6.772716 TGCAAACTGATCCTTTACTTTTCTCT 59.227 34.615 0.00 0.00 0.00 3.10
1968 2100 7.041098 TGCAAACTGATCCTTTACTTTTCTCTC 60.041 37.037 0.00 0.00 0.00 3.20
1969 2101 7.174080 GCAAACTGATCCTTTACTTTTCTCTCT 59.826 37.037 0.00 0.00 0.00 3.10
1970 2102 9.061435 CAAACTGATCCTTTACTTTTCTCTCTT 57.939 33.333 0.00 0.00 0.00 2.85
1971 2103 8.840833 AACTGATCCTTTACTTTTCTCTCTTC 57.159 34.615 0.00 0.00 0.00 2.87
1972 2104 8.201242 ACTGATCCTTTACTTTTCTCTCTTCT 57.799 34.615 0.00 0.00 0.00 2.85
1973 2105 8.093927 ACTGATCCTTTACTTTTCTCTCTTCTG 58.906 37.037 0.00 0.00 0.00 3.02
1974 2106 7.967908 TGATCCTTTACTTTTCTCTCTTCTGT 58.032 34.615 0.00 0.00 0.00 3.41
1975 2107 8.091449 TGATCCTTTACTTTTCTCTCTTCTGTC 58.909 37.037 0.00 0.00 0.00 3.51
1976 2108 7.604657 TCCTTTACTTTTCTCTCTTCTGTCT 57.395 36.000 0.00 0.00 0.00 3.41
1977 2109 8.024145 TCCTTTACTTTTCTCTCTTCTGTCTT 57.976 34.615 0.00 0.00 0.00 3.01
1978 2110 8.145122 TCCTTTACTTTTCTCTCTTCTGTCTTC 58.855 37.037 0.00 0.00 0.00 2.87
1979 2111 8.147704 CCTTTACTTTTCTCTCTTCTGTCTTCT 58.852 37.037 0.00 0.00 0.00 2.85
1980 2112 9.541143 CTTTACTTTTCTCTCTTCTGTCTTCTT 57.459 33.333 0.00 0.00 0.00 2.52
1988 2120 8.871629 TCTCTCTTCTGTCTTCTTATTACAGT 57.128 34.615 0.00 0.00 41.12 3.55
1989 2121 8.735315 TCTCTCTTCTGTCTTCTTATTACAGTG 58.265 37.037 0.00 0.00 41.12 3.66
1990 2122 8.637196 TCTCTTCTGTCTTCTTATTACAGTGA 57.363 34.615 0.00 0.00 41.12 3.41
1991 2123 9.249053 TCTCTTCTGTCTTCTTATTACAGTGAT 57.751 33.333 0.00 0.00 41.12 3.06
1992 2124 9.299963 CTCTTCTGTCTTCTTATTACAGTGATG 57.700 37.037 0.00 0.00 41.12 3.07
1993 2125 8.807118 TCTTCTGTCTTCTTATTACAGTGATGT 58.193 33.333 0.00 0.00 41.12 3.06
1994 2126 8.763049 TTCTGTCTTCTTATTACAGTGATGTG 57.237 34.615 0.00 0.00 41.12 3.21
1995 2127 7.896811 TCTGTCTTCTTATTACAGTGATGTGT 58.103 34.615 0.00 0.00 41.12 3.72
1996 2128 8.029522 TCTGTCTTCTTATTACAGTGATGTGTC 58.970 37.037 0.00 0.00 41.12 3.67
1997 2129 6.806739 TGTCTTCTTATTACAGTGATGTGTCG 59.193 38.462 0.00 0.00 31.46 4.35
1998 2130 6.253727 GTCTTCTTATTACAGTGATGTGTCGG 59.746 42.308 0.00 0.00 31.46 4.79
1999 2131 4.430007 TCTTATTACAGTGATGTGTCGGC 58.570 43.478 0.00 0.00 31.46 5.54
2000 2132 2.024176 ATTACAGTGATGTGTCGGCC 57.976 50.000 0.00 0.00 31.46 6.13
2001 2133 0.682292 TTACAGTGATGTGTCGGCCA 59.318 50.000 2.24 0.00 31.46 5.36
2002 2134 0.682292 TACAGTGATGTGTCGGCCAA 59.318 50.000 2.24 0.00 31.46 4.52
2003 2135 0.603707 ACAGTGATGTGTCGGCCAAG 60.604 55.000 2.24 0.00 0.00 3.61
2004 2136 1.672356 AGTGATGTGTCGGCCAAGC 60.672 57.895 2.24 0.00 0.00 4.01
2005 2137 2.359850 TGATGTGTCGGCCAAGCC 60.360 61.111 2.24 0.00 46.75 4.35
2019 2151 3.689649 GGCCAAGCCTATATATTTCCACG 59.310 47.826 0.00 0.00 46.69 4.94
2020 2152 3.127030 GCCAAGCCTATATATTTCCACGC 59.873 47.826 0.00 0.00 0.00 5.34
2021 2153 3.689649 CCAAGCCTATATATTTCCACGCC 59.310 47.826 0.00 0.00 0.00 5.68
2022 2154 4.323417 CAAGCCTATATATTTCCACGCCA 58.677 43.478 0.00 0.00 0.00 5.69
2023 2155 4.207891 AGCCTATATATTTCCACGCCAG 57.792 45.455 0.00 0.00 0.00 4.85
2024 2156 2.678336 GCCTATATATTTCCACGCCAGC 59.322 50.000 0.00 0.00 0.00 4.85
2025 2157 3.868369 GCCTATATATTTCCACGCCAGCA 60.868 47.826 0.00 0.00 0.00 4.41
2026 2158 4.323417 CCTATATATTTCCACGCCAGCAA 58.677 43.478 0.00 0.00 0.00 3.91
2027 2159 4.759693 CCTATATATTTCCACGCCAGCAAA 59.240 41.667 0.00 0.00 0.00 3.68
2028 2160 5.240623 CCTATATATTTCCACGCCAGCAAAA 59.759 40.000 0.00 0.00 0.00 2.44
2029 2161 5.789643 ATATATTTCCACGCCAGCAAAAT 57.210 34.783 0.00 0.00 0.00 1.82
2030 2162 2.837532 ATTTCCACGCCAGCAAAATT 57.162 40.000 0.00 0.00 0.00 1.82
2031 2163 3.951775 ATTTCCACGCCAGCAAAATTA 57.048 38.095 0.00 0.00 0.00 1.40
2032 2164 3.735237 TTTCCACGCCAGCAAAATTAA 57.265 38.095 0.00 0.00 0.00 1.40
2033 2165 3.735237 TTCCACGCCAGCAAAATTAAA 57.265 38.095 0.00 0.00 0.00 1.52
2034 2166 3.735237 TCCACGCCAGCAAAATTAAAA 57.265 38.095 0.00 0.00 0.00 1.52
2035 2167 4.264460 TCCACGCCAGCAAAATTAAAAT 57.736 36.364 0.00 0.00 0.00 1.82
2036 2168 5.392767 TCCACGCCAGCAAAATTAAAATA 57.607 34.783 0.00 0.00 0.00 1.40
2037 2169 5.164954 TCCACGCCAGCAAAATTAAAATAC 58.835 37.500 0.00 0.00 0.00 1.89
2038 2170 4.926238 CCACGCCAGCAAAATTAAAATACA 59.074 37.500 0.00 0.00 0.00 2.29
2039 2171 5.406780 CCACGCCAGCAAAATTAAAATACAA 59.593 36.000 0.00 0.00 0.00 2.41
2040 2172 6.091986 CCACGCCAGCAAAATTAAAATACAAT 59.908 34.615 0.00 0.00 0.00 2.71
2041 2173 6.954852 CACGCCAGCAAAATTAAAATACAATG 59.045 34.615 0.00 0.00 0.00 2.82
2042 2174 5.958949 CGCCAGCAAAATTAAAATACAATGC 59.041 36.000 0.00 0.00 0.00 3.56
2043 2175 6.401903 CGCCAGCAAAATTAAAATACAATGCA 60.402 34.615 0.00 0.00 35.11 3.96
2044 2176 6.742264 GCCAGCAAAATTAAAATACAATGCAC 59.258 34.615 0.00 0.00 35.11 4.57
2045 2177 7.361116 GCCAGCAAAATTAAAATACAATGCACT 60.361 33.333 0.00 0.00 35.11 4.40
2046 2178 8.170553 CCAGCAAAATTAAAATACAATGCACTC 58.829 33.333 0.00 0.00 35.11 3.51
2047 2179 8.928733 CAGCAAAATTAAAATACAATGCACTCT 58.071 29.630 0.00 0.00 35.11 3.24
2048 2180 9.492973 AGCAAAATTAAAATACAATGCACTCTT 57.507 25.926 0.00 0.00 35.11 2.85
2049 2181 9.532697 GCAAAATTAAAATACAATGCACTCTTG 57.467 29.630 0.00 0.00 33.00 3.02
2061 2193 3.698029 GCACTCTTGCTGAAACTTTCA 57.302 42.857 4.16 4.16 46.17 2.69
2075 2207 7.810766 TGAAACTTTCAGCACAAAAACTAAG 57.189 32.000 0.00 0.00 34.08 2.18
2076 2208 7.598278 TGAAACTTTCAGCACAAAAACTAAGA 58.402 30.769 0.00 0.00 34.08 2.10
2077 2209 8.085296 TGAAACTTTCAGCACAAAAACTAAGAA 58.915 29.630 0.00 0.00 34.08 2.52
2078 2210 8.825667 AAACTTTCAGCACAAAAACTAAGAAA 57.174 26.923 0.00 0.00 0.00 2.52
2079 2211 7.812309 ACTTTCAGCACAAAAACTAAGAAAC 57.188 32.000 0.00 0.00 0.00 2.78
2166 2460 5.358160 TGGTCAGTGTCTATATGAGTGTGAG 59.642 44.000 0.00 0.00 0.00 3.51
2275 2576 2.176364 ACATCCAAGCTGCCCTGAATAT 59.824 45.455 0.00 0.00 0.00 1.28
2300 2601 2.757508 TAGCTCGGCTGCTGCTCT 60.758 61.111 15.64 11.48 43.87 4.09
2301 2602 2.682256 CTAGCTCGGCTGCTGCTCTC 62.682 65.000 15.64 3.01 43.87 3.20
2303 2604 3.459965 CTCGGCTGCTGCTCTCCT 61.460 66.667 15.64 0.00 39.59 3.69
2305 2606 1.670949 CTCGGCTGCTGCTCTCCTTA 61.671 60.000 15.64 0.00 39.59 2.69
2306 2607 1.219124 CGGCTGCTGCTCTCCTTAA 59.781 57.895 15.64 0.00 39.59 1.85
2307 2608 0.809241 CGGCTGCTGCTCTCCTTAAG 60.809 60.000 15.64 0.00 39.59 1.85
2308 2609 0.463474 GGCTGCTGCTCTCCTTAAGG 60.463 60.000 15.98 15.98 39.59 2.69
2310 2611 0.540923 CTGCTGCTCTCCTTAAGGCT 59.459 55.000 17.32 0.00 34.44 4.58
2359 2665 2.433838 CACCAGGCAGTCGCTCAG 60.434 66.667 0.00 0.00 38.60 3.35
2392 2698 0.179065 CAGCATCCGAATCTCAGGCA 60.179 55.000 0.00 0.00 0.00 4.75
2403 2711 1.225704 CTCAGGCAAGTCATCCCCC 59.774 63.158 0.00 0.00 0.00 5.40
2429 3011 7.043059 CCTCTCTCTTACGATTTGCAATACTTC 60.043 40.741 0.00 0.00 0.00 3.01
2430 3012 6.757010 TCTCTCTTACGATTTGCAATACTTCC 59.243 38.462 0.00 0.00 0.00 3.46
2433 3015 7.552687 TCTCTTACGATTTGCAATACTTCCATT 59.447 33.333 0.00 0.00 0.00 3.16
2441 3023 7.945033 TTTGCAATACTTCCATTCAAAACTC 57.055 32.000 0.00 0.00 0.00 3.01
2590 3174 8.831550 GTGTCTTCTGATTTCACTCTACTTTTT 58.168 33.333 0.00 0.00 0.00 1.94
2593 3177 7.661847 TCTTCTGATTTCACTCTACTTTTTCCC 59.338 37.037 0.00 0.00 0.00 3.97
2596 3180 7.445402 TCTGATTTCACTCTACTTTTTCCCTTG 59.555 37.037 0.00 0.00 0.00 3.61
2601 3185 4.821805 CACTCTACTTTTTCCCTTGCTTCA 59.178 41.667 0.00 0.00 0.00 3.02
2625 3213 3.498397 ACTTCCTGTTTGCTAATGTCGTG 59.502 43.478 0.00 0.00 0.00 4.35
2626 3214 3.120321 TCCTGTTTGCTAATGTCGTGT 57.880 42.857 0.00 0.00 0.00 4.49
2627 3215 3.064207 TCCTGTTTGCTAATGTCGTGTC 58.936 45.455 0.00 0.00 0.00 3.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
215 216 0.657840 GTATGTCAGCCGTGGATTGC 59.342 55.000 0.00 0.00 0.00 3.56
953 956 2.421952 CGGAAGAATGGTGGATGTGGAT 60.422 50.000 0.00 0.00 0.00 3.41
973 976 2.353889 CAGAGAATCAATCAGGGCAACG 59.646 50.000 0.00 0.00 37.82 4.10
1170 1183 0.972883 CAGTATAGCAGGAGGGGAGC 59.027 60.000 0.00 0.00 0.00 4.70
1216 1249 0.602372 GCCGGCATCTTGGATCTCTC 60.602 60.000 24.80 0.00 0.00 3.20
1244 1283 5.894298 ATATAGATTGCAACAGTGGGAGA 57.106 39.130 0.00 0.00 0.00 3.71
1262 1301 3.471430 CATGGCCATGGGGGAAATATA 57.529 47.619 34.31 0.00 40.01 0.86
1265 1304 4.733057 CATGGCCATGGGGGAAAT 57.267 55.556 34.31 0.00 40.01 2.17
1274 1313 3.301222 AAGCGAACCCCATGGCCAT 62.301 57.895 14.09 14.09 33.59 4.40
1275 1314 3.978193 AAGCGAACCCCATGGCCA 61.978 61.111 8.56 8.56 33.59 5.36
1276 1315 3.451894 CAAGCGAACCCCATGGCC 61.452 66.667 6.09 0.00 33.59 5.36
1277 1316 1.815817 AAACAAGCGAACCCCATGGC 61.816 55.000 6.09 0.00 33.59 4.40
1337 1376 4.974721 ACGTTGCCAAGCAGGGGG 62.975 66.667 0.00 0.00 40.61 5.40
1353 1392 1.424493 GACGAGCATGTAGGCTGCAC 61.424 60.000 7.65 0.00 45.99 4.57
1446 1500 2.363018 CAGGCTCCTGGGACTCGA 60.363 66.667 8.03 0.00 40.17 4.04
1493 1547 4.286320 CTCGGGGATCGGCGGAAG 62.286 72.222 7.21 0.00 39.77 3.46
1579 1633 2.230266 GTCGTCAAGCCTCTTCTTCTCT 59.770 50.000 0.00 0.00 0.00 3.10
1594 1648 2.282958 AGGGCCTTCTCGTCGTCA 60.283 61.111 0.00 0.00 0.00 4.35
1655 1709 0.827925 TGTGGTGAGGCTCTCTCGTT 60.828 55.000 16.72 0.00 45.32 3.85
1658 1712 1.188219 TGGTGTGGTGAGGCTCTCTC 61.188 60.000 16.72 9.35 42.74 3.20
1659 1713 1.152247 TGGTGTGGTGAGGCTCTCT 60.152 57.895 16.72 0.00 0.00 3.10
1662 1716 2.032681 GGTGGTGTGGTGAGGCTC 59.967 66.667 7.79 7.79 0.00 4.70
1663 1717 2.772191 TGGTGGTGTGGTGAGGCT 60.772 61.111 0.00 0.00 0.00 4.58
1664 1718 2.594592 GTGGTGGTGTGGTGAGGC 60.595 66.667 0.00 0.00 0.00 4.70
1665 1719 2.113139 GGTGGTGGTGTGGTGAGG 59.887 66.667 0.00 0.00 0.00 3.86
1666 1720 1.227943 CTGGTGGTGGTGTGGTGAG 60.228 63.158 0.00 0.00 0.00 3.51
1667 1721 1.690985 TCTGGTGGTGGTGTGGTGA 60.691 57.895 0.00 0.00 0.00 4.02
1668 1722 1.525995 GTCTGGTGGTGGTGTGGTG 60.526 63.158 0.00 0.00 0.00 4.17
1670 1724 1.227943 CAGTCTGGTGGTGGTGTGG 60.228 63.158 0.00 0.00 0.00 4.17
1671 1725 1.227943 CCAGTCTGGTGGTGGTGTG 60.228 63.158 11.09 0.00 31.35 3.82
1672 1726 1.383943 TCCAGTCTGGTGGTGGTGT 60.384 57.895 18.65 0.00 39.03 4.16
1673 1727 1.071471 GTCCAGTCTGGTGGTGGTG 59.929 63.158 18.65 0.00 39.03 4.17
1674 1728 1.074471 AGTCCAGTCTGGTGGTGGT 60.074 57.895 18.65 0.00 39.03 4.16
1675 1729 1.372683 CAGTCCAGTCTGGTGGTGG 59.627 63.158 18.65 2.11 39.03 4.61
1686 1749 0.954449 CCAACAGCAGAGCAGTCCAG 60.954 60.000 0.00 0.00 0.00 3.86
1689 1752 1.818642 ATTCCAACAGCAGAGCAGTC 58.181 50.000 0.00 0.00 0.00 3.51
1690 1753 3.423539 TTATTCCAACAGCAGAGCAGT 57.576 42.857 0.00 0.00 0.00 4.40
1692 1755 5.163622 GCTTAATTATTCCAACAGCAGAGCA 60.164 40.000 0.00 0.00 0.00 4.26
1693 1756 5.067023 AGCTTAATTATTCCAACAGCAGAGC 59.933 40.000 5.99 0.00 0.00 4.09
1694 1757 6.459298 CCAGCTTAATTATTCCAACAGCAGAG 60.459 42.308 5.99 0.00 0.00 3.35
1695 1758 5.357878 CCAGCTTAATTATTCCAACAGCAGA 59.642 40.000 5.99 0.00 0.00 4.26
1696 1759 5.585390 CCAGCTTAATTATTCCAACAGCAG 58.415 41.667 5.99 0.00 0.00 4.24
1704 1767 3.969899 GCAGTGCCAGCTTAATTATTCC 58.030 45.455 2.85 0.00 0.00 3.01
1719 1782 1.180029 AACCATCAATCAGGCAGTGC 58.820 50.000 6.55 6.55 0.00 4.40
1720 1783 2.821378 TCAAACCATCAATCAGGCAGTG 59.179 45.455 0.00 0.00 0.00 3.66
1721 1784 3.159213 TCAAACCATCAATCAGGCAGT 57.841 42.857 0.00 0.00 0.00 4.40
1722 1785 4.430007 CAATCAAACCATCAATCAGGCAG 58.570 43.478 0.00 0.00 0.00 4.85
1723 1786 3.196039 CCAATCAAACCATCAATCAGGCA 59.804 43.478 0.00 0.00 0.00 4.75
1724 1787 3.448301 TCCAATCAAACCATCAATCAGGC 59.552 43.478 0.00 0.00 0.00 4.85
1725 1788 5.864418 ATCCAATCAAACCATCAATCAGG 57.136 39.130 0.00 0.00 0.00 3.86
1727 1790 8.365060 ACTAAATCCAATCAAACCATCAATCA 57.635 30.769 0.00 0.00 0.00 2.57
1731 1794 8.877864 ACTAACTAAATCCAATCAAACCATCA 57.122 30.769 0.00 0.00 0.00 3.07
1732 1795 9.573133 CAACTAACTAAATCCAATCAAACCATC 57.427 33.333 0.00 0.00 0.00 3.51
1741 1823 8.450964 CGACACAATCAACTAACTAAATCCAAT 58.549 33.333 0.00 0.00 0.00 3.16
1799 1886 5.086104 TCTTGGCATCAAACTAGGAGTAC 57.914 43.478 0.00 0.00 31.77 2.73
1800 1887 4.162320 CCTCTTGGCATCAAACTAGGAGTA 59.838 45.833 0.00 0.00 33.01 2.59
1801 1888 3.054802 CCTCTTGGCATCAAACTAGGAGT 60.055 47.826 0.00 0.00 33.01 3.85
1802 1889 3.539604 CCTCTTGGCATCAAACTAGGAG 58.460 50.000 0.00 0.00 33.01 3.69
1803 1890 3.634397 CCTCTTGGCATCAAACTAGGA 57.366 47.619 0.00 0.00 33.01 2.94
1818 1905 1.382420 AGCTCGAGATGGGCCTCTT 60.382 57.895 18.75 0.00 0.00 2.85
1858 1950 1.002033 CAAGCAACAAGACCAGTCTGC 60.002 52.381 0.05 1.47 40.36 4.26
1862 1954 2.128771 ACACAAGCAACAAGACCAGT 57.871 45.000 0.00 0.00 0.00 4.00
1910 2003 5.277974 CCACAGAAAACAATGAGTTCGACAT 60.278 40.000 0.00 0.00 40.26 3.06
1911 2004 4.035091 CCACAGAAAACAATGAGTTCGACA 59.965 41.667 0.00 0.00 40.26 4.35
1912 2005 4.272504 TCCACAGAAAACAATGAGTTCGAC 59.727 41.667 0.00 0.00 40.26 4.20
1920 2030 4.852134 TCCACATCCACAGAAAACAATG 57.148 40.909 0.00 0.00 0.00 2.82
1953 2085 8.147704 AGAAGACAGAAGAGAGAAAAGTAAAGG 58.852 37.037 0.00 0.00 0.00 3.11
1962 2094 9.303116 ACTGTAATAAGAAGACAGAAGAGAGAA 57.697 33.333 8.18 0.00 42.65 2.87
1963 2095 8.735315 CACTGTAATAAGAAGACAGAAGAGAGA 58.265 37.037 8.18 0.00 42.65 3.10
1964 2096 8.735315 TCACTGTAATAAGAAGACAGAAGAGAG 58.265 37.037 8.18 0.00 42.65 3.20
1965 2097 8.637196 TCACTGTAATAAGAAGACAGAAGAGA 57.363 34.615 8.18 0.00 42.65 3.10
1966 2098 9.299963 CATCACTGTAATAAGAAGACAGAAGAG 57.700 37.037 8.18 0.00 42.65 2.85
1967 2099 8.807118 ACATCACTGTAATAAGAAGACAGAAGA 58.193 33.333 8.18 6.08 42.65 2.87
1968 2100 8.867935 CACATCACTGTAATAAGAAGACAGAAG 58.132 37.037 8.18 1.28 42.65 2.85
1969 2101 8.367911 ACACATCACTGTAATAAGAAGACAGAA 58.632 33.333 8.18 0.00 42.65 3.02
1970 2102 7.896811 ACACATCACTGTAATAAGAAGACAGA 58.103 34.615 8.18 0.00 42.65 3.41
1971 2103 7.008719 CGACACATCACTGTAATAAGAAGACAG 59.991 40.741 0.00 0.00 44.98 3.51
1972 2104 6.806739 CGACACATCACTGTAATAAGAAGACA 59.193 38.462 0.00 0.00 33.14 3.41
1973 2105 6.253727 CCGACACATCACTGTAATAAGAAGAC 59.746 42.308 0.00 0.00 33.14 3.01
1974 2106 6.330278 CCGACACATCACTGTAATAAGAAGA 58.670 40.000 0.00 0.00 33.14 2.87
1975 2107 5.005779 GCCGACACATCACTGTAATAAGAAG 59.994 44.000 0.00 0.00 33.14 2.85
1976 2108 4.868171 GCCGACACATCACTGTAATAAGAA 59.132 41.667 0.00 0.00 33.14 2.52
1977 2109 4.430007 GCCGACACATCACTGTAATAAGA 58.570 43.478 0.00 0.00 33.14 2.10
1978 2110 3.555956 GGCCGACACATCACTGTAATAAG 59.444 47.826 0.00 0.00 33.14 1.73
1979 2111 3.055747 TGGCCGACACATCACTGTAATAA 60.056 43.478 0.00 0.00 33.14 1.40
1980 2112 2.498078 TGGCCGACACATCACTGTAATA 59.502 45.455 0.00 0.00 33.14 0.98
1981 2113 1.277842 TGGCCGACACATCACTGTAAT 59.722 47.619 0.00 0.00 33.14 1.89
1982 2114 0.682292 TGGCCGACACATCACTGTAA 59.318 50.000 0.00 0.00 33.14 2.41
1983 2115 0.682292 TTGGCCGACACATCACTGTA 59.318 50.000 0.00 0.00 33.14 2.74
1984 2116 0.603707 CTTGGCCGACACATCACTGT 60.604 55.000 0.00 0.00 35.44 3.55
1985 2117 1.915614 GCTTGGCCGACACATCACTG 61.916 60.000 0.00 0.00 0.00 3.66
1986 2118 1.672356 GCTTGGCCGACACATCACT 60.672 57.895 0.00 0.00 0.00 3.41
1987 2119 2.690778 GGCTTGGCCGACACATCAC 61.691 63.158 0.00 0.00 39.62 3.06
1988 2120 2.359850 GGCTTGGCCGACACATCA 60.360 61.111 0.00 0.00 39.62 3.07
1998 2130 3.127030 GCGTGGAAATATATAGGCTTGGC 59.873 47.826 0.00 0.00 0.00 4.52
1999 2131 3.689649 GGCGTGGAAATATATAGGCTTGG 59.310 47.826 0.00 0.00 0.00 3.61
2000 2132 4.323417 TGGCGTGGAAATATATAGGCTTG 58.677 43.478 0.00 0.00 0.00 4.01
2001 2133 4.579869 CTGGCGTGGAAATATATAGGCTT 58.420 43.478 0.00 0.00 0.00 4.35
2002 2134 3.619979 GCTGGCGTGGAAATATATAGGCT 60.620 47.826 0.00 0.00 0.00 4.58
2003 2135 2.678336 GCTGGCGTGGAAATATATAGGC 59.322 50.000 0.00 0.00 0.00 3.93
2004 2136 3.937814 TGCTGGCGTGGAAATATATAGG 58.062 45.455 0.00 0.00 0.00 2.57
2005 2137 5.940192 TTTGCTGGCGTGGAAATATATAG 57.060 39.130 0.00 0.00 0.00 1.31
2006 2138 6.892658 ATTTTGCTGGCGTGGAAATATATA 57.107 33.333 0.00 0.00 0.00 0.86
2007 2139 5.789643 ATTTTGCTGGCGTGGAAATATAT 57.210 34.783 0.00 0.00 0.00 0.86
2008 2140 5.590530 AATTTTGCTGGCGTGGAAATATA 57.409 34.783 0.00 0.00 0.00 0.86
2009 2141 4.470334 AATTTTGCTGGCGTGGAAATAT 57.530 36.364 0.00 0.00 0.00 1.28
2010 2142 3.951775 AATTTTGCTGGCGTGGAAATA 57.048 38.095 0.00 0.00 0.00 1.40
2011 2143 2.837532 AATTTTGCTGGCGTGGAAAT 57.162 40.000 0.00 0.00 0.00 2.17
2012 2144 3.735237 TTAATTTTGCTGGCGTGGAAA 57.265 38.095 0.00 0.00 0.00 3.13
2013 2145 3.735237 TTTAATTTTGCTGGCGTGGAA 57.265 38.095 0.00 0.00 0.00 3.53
2014 2146 3.735237 TTTTAATTTTGCTGGCGTGGA 57.265 38.095 0.00 0.00 0.00 4.02
2015 2147 4.926238 TGTATTTTAATTTTGCTGGCGTGG 59.074 37.500 0.00 0.00 0.00 4.94
2016 2148 6.459257 TTGTATTTTAATTTTGCTGGCGTG 57.541 33.333 0.00 0.00 0.00 5.34
2017 2149 6.402011 GCATTGTATTTTAATTTTGCTGGCGT 60.402 34.615 0.00 0.00 0.00 5.68
2018 2150 5.958949 GCATTGTATTTTAATTTTGCTGGCG 59.041 36.000 0.00 0.00 0.00 5.69
2019 2151 6.742264 GTGCATTGTATTTTAATTTTGCTGGC 59.258 34.615 0.00 0.00 0.00 4.85
2020 2152 8.031848 AGTGCATTGTATTTTAATTTTGCTGG 57.968 30.769 0.00 0.00 0.00 4.85
2021 2153 8.928733 AGAGTGCATTGTATTTTAATTTTGCTG 58.071 29.630 0.00 0.00 0.00 4.41
2022 2154 9.492973 AAGAGTGCATTGTATTTTAATTTTGCT 57.507 25.926 0.00 0.00 0.00 3.91
2023 2155 9.532697 CAAGAGTGCATTGTATTTTAATTTTGC 57.467 29.630 0.00 0.00 0.00 3.68
2051 2183 7.598278 TCTTAGTTTTTGTGCTGAAAGTTTCA 58.402 30.769 17.16 17.16 38.17 2.69
2052 2184 8.460831 TTCTTAGTTTTTGTGCTGAAAGTTTC 57.539 30.769 8.75 8.75 35.30 2.78
2053 2185 8.708742 GTTTCTTAGTTTTTGTGCTGAAAGTTT 58.291 29.630 0.00 0.00 35.30 2.66
2054 2186 8.088365 AGTTTCTTAGTTTTTGTGCTGAAAGTT 58.912 29.630 0.00 0.00 35.30 2.66
2055 2187 7.542130 CAGTTTCTTAGTTTTTGTGCTGAAAGT 59.458 33.333 0.00 0.00 35.30 2.66
2056 2188 7.463251 GCAGTTTCTTAGTTTTTGTGCTGAAAG 60.463 37.037 0.00 0.00 0.00 2.62
2057 2189 6.310224 GCAGTTTCTTAGTTTTTGTGCTGAAA 59.690 34.615 0.00 0.00 0.00 2.69
2058 2190 5.804979 GCAGTTTCTTAGTTTTTGTGCTGAA 59.195 36.000 0.00 0.00 0.00 3.02
2059 2191 5.105957 TGCAGTTTCTTAGTTTTTGTGCTGA 60.106 36.000 0.00 0.00 0.00 4.26
2060 2192 5.101628 TGCAGTTTCTTAGTTTTTGTGCTG 58.898 37.500 0.00 0.00 0.00 4.41
2061 2193 5.323371 TGCAGTTTCTTAGTTTTTGTGCT 57.677 34.783 0.00 0.00 0.00 4.40
2062 2194 4.026558 GCTGCAGTTTCTTAGTTTTTGTGC 60.027 41.667 16.64 0.00 0.00 4.57
2063 2195 5.230726 CAGCTGCAGTTTCTTAGTTTTTGTG 59.769 40.000 16.64 0.00 0.00 3.33
2064 2196 5.343249 CAGCTGCAGTTTCTTAGTTTTTGT 58.657 37.500 16.64 0.00 0.00 2.83
2074 2206 2.282745 GGGCCAGCTGCAGTTTCT 60.283 61.111 16.64 0.34 43.89 2.52
2075 2207 3.741476 CGGGCCAGCTGCAGTTTC 61.741 66.667 16.64 3.27 43.89 2.78
2166 2460 2.135933 GTTGCTGTCACAGACCTACAC 58.864 52.381 9.70 0.00 32.44 2.90
2231 2531 1.209504 GGCTATCTGTAACCACCAGCA 59.790 52.381 0.00 0.00 0.00 4.41
2275 2576 2.021068 GCAGCCGAGCTAGTGGATGA 62.021 60.000 18.46 0.00 44.30 2.92
2300 2601 5.965033 ATTCTGATCTTGAGCCTTAAGGA 57.035 39.130 26.21 2.96 37.39 3.36
2301 2602 5.298777 CCAATTCTGATCTTGAGCCTTAAGG 59.701 44.000 17.81 17.81 38.53 2.69
2303 2604 6.065976 TCCAATTCTGATCTTGAGCCTTAA 57.934 37.500 0.00 0.00 0.00 1.85
2305 2606 4.525024 CTCCAATTCTGATCTTGAGCCTT 58.475 43.478 0.00 0.00 0.00 4.35
2306 2607 3.117963 CCTCCAATTCTGATCTTGAGCCT 60.118 47.826 0.00 0.00 0.00 4.58
2307 2608 3.212685 CCTCCAATTCTGATCTTGAGCC 58.787 50.000 0.00 0.00 0.00 4.70
2308 2609 3.212685 CCCTCCAATTCTGATCTTGAGC 58.787 50.000 0.00 0.00 0.00 4.26
2310 2611 2.848694 AGCCCTCCAATTCTGATCTTGA 59.151 45.455 0.00 0.00 0.00 3.02
2429 3011 9.656040 TTTGATTCATATTGGAGTTTTGAATGG 57.344 29.630 1.53 0.00 37.20 3.16
2463 3045 1.004560 CTCGCCTCCAGCACAAGAA 60.005 57.895 0.00 0.00 44.04 2.52
2465 3047 1.004560 TTCTCGCCTCCAGCACAAG 60.005 57.895 0.00 0.00 44.04 3.16
2539 3123 2.689983 CAAACCTTGCAAGAAGAGTGGT 59.310 45.455 28.05 13.13 0.00 4.16
2590 3174 1.140312 AGGAAGTGTGAAGCAAGGGA 58.860 50.000 0.00 0.00 0.00 4.20
2593 3177 3.699067 CAAACAGGAAGTGTGAAGCAAG 58.301 45.455 0.00 0.00 40.26 4.01
2596 3180 1.678101 AGCAAACAGGAAGTGTGAAGC 59.322 47.619 0.00 0.00 40.26 3.86
2601 3185 3.498397 CGACATTAGCAAACAGGAAGTGT 59.502 43.478 0.00 0.00 43.24 3.55


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

AutoCloner maintained by Alex Coulton.