Multiple sequence alignment - TraesCS4D01G316100

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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 TraesCS4D01G316100 chr4D 100.000 2423 0 0 1 2423 481366287 481368709 0.000000e+00 4475.0
1 TraesCS4D01G316100 chr4D 94.082 997 56 2 1 996 7056247 7055253 0.000000e+00 1511.0
2 TraesCS4D01G316100 chr4D 94.245 973 53 3 1 972 53405180 53404210 0.000000e+00 1483.0
3 TraesCS4D01G316100 chr1D 95.067 973 46 2 1 972 404158375 404157404 0.000000e+00 1530.0
4 TraesCS4D01G316100 chr1D 93.982 997 58 2 1 996 452890772 452891767 0.000000e+00 1507.0
5 TraesCS4D01G316100 chr1D 93.806 1001 55 5 1 996 461480214 461481212 0.000000e+00 1498.0
6 TraesCS4D01G316100 chr3D 94.553 973 51 2 1 972 579935106 579936077 0.000000e+00 1502.0
7 TraesCS4D01G316100 chr5D 93.681 997 61 2 1 996 452544383 452545378 0.000000e+00 1491.0
8 TraesCS4D01G316100 chr5D 93.387 998 62 4 1 996 462368371 462367376 0.000000e+00 1474.0
9 TraesCS4D01G316100 chr5D 93.300 1000 62 3 1 996 515720241 515719243 0.000000e+00 1471.0
10 TraesCS4D01G316100 chr5D 86.255 1004 117 10 1 1001 20783461 20782476 0.000000e+00 1070.0
11 TraesCS4D01G316100 chr7D 86.853 1004 114 8 1 1001 37984818 37983830 0.000000e+00 1107.0
12 TraesCS4D01G316100 chr7D 86.687 999 113 9 1 996 622832977 622833958 0.000000e+00 1090.0
13 TraesCS4D01G316100 chr7D 93.333 60 4 0 2360 2419 124831955 124831896 3.320000e-14 89.8
14 TraesCS4D01G316100 chr5A 86.117 497 54 9 1873 2362 662051603 662051115 2.760000e-144 521.0
15 TraesCS4D01G316100 chr5A 87.589 419 36 8 993 1411 662053021 662052619 2.820000e-129 472.0
16 TraesCS4D01G316100 chr5A 90.968 155 14 0 1308 1462 662052623 662052469 2.440000e-50 209.0
17 TraesCS4D01G316100 chr5A 89.796 147 11 2 1472 1618 662052432 662052290 4.110000e-43 185.0
18 TraesCS4D01G316100 chr5A 88.889 108 11 1 1767 1873 662051753 662051646 5.440000e-27 132.0
19 TraesCS4D01G316100 chr4B 82.723 191 33 0 1037 1227 610098188 610097998 1.150000e-38 171.0
20 TraesCS4D01G316100 chrUn 75.315 397 61 28 1032 1426 60909902 60910263 3.230000e-34 156.0
21 TraesCS4D01G316100 chrUn 82.500 160 25 2 1035 1194 171662411 171662255 1.170000e-28 137.0
22 TraesCS4D01G316100 chr3B 96.296 54 2 0 2361 2414 64167997 64168050 3.320000e-14 89.8
23 TraesCS4D01G316100 chr6B 90.625 64 6 0 2360 2423 68326498 68326435 4.290000e-13 86.1
24 TraesCS4D01G316100 chr5B 90.323 62 6 0 2360 2421 230778877 230778816 5.550000e-12 82.4
25 TraesCS4D01G316100 chr7B 88.889 63 7 0 2360 2422 86647138 86647076 7.180000e-11 78.7


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 TraesCS4D01G316100 chr4D 481366287 481368709 2422 False 4475.0 4475 100.0000 1 2423 1 chr4D.!!$F1 2422
1 TraesCS4D01G316100 chr4D 7055253 7056247 994 True 1511.0 1511 94.0820 1 996 1 chr4D.!!$R1 995
2 TraesCS4D01G316100 chr4D 53404210 53405180 970 True 1483.0 1483 94.2450 1 972 1 chr4D.!!$R2 971
3 TraesCS4D01G316100 chr1D 404157404 404158375 971 True 1530.0 1530 95.0670 1 972 1 chr1D.!!$R1 971
4 TraesCS4D01G316100 chr1D 452890772 452891767 995 False 1507.0 1507 93.9820 1 996 1 chr1D.!!$F1 995
5 TraesCS4D01G316100 chr1D 461480214 461481212 998 False 1498.0 1498 93.8060 1 996 1 chr1D.!!$F2 995
6 TraesCS4D01G316100 chr3D 579935106 579936077 971 False 1502.0 1502 94.5530 1 972 1 chr3D.!!$F1 971
7 TraesCS4D01G316100 chr5D 452544383 452545378 995 False 1491.0 1491 93.6810 1 996 1 chr5D.!!$F1 995
8 TraesCS4D01G316100 chr5D 462367376 462368371 995 True 1474.0 1474 93.3870 1 996 1 chr5D.!!$R2 995
9 TraesCS4D01G316100 chr5D 515719243 515720241 998 True 1471.0 1471 93.3000 1 996 1 chr5D.!!$R3 995
10 TraesCS4D01G316100 chr5D 20782476 20783461 985 True 1070.0 1070 86.2550 1 1001 1 chr5D.!!$R1 1000
11 TraesCS4D01G316100 chr7D 37983830 37984818 988 True 1107.0 1107 86.8530 1 1001 1 chr7D.!!$R1 1000
12 TraesCS4D01G316100 chr7D 622832977 622833958 981 False 1090.0 1090 86.6870 1 996 1 chr7D.!!$F1 995
13 TraesCS4D01G316100 chr5A 662051115 662053021 1906 True 303.8 521 88.6718 993 2362 5 chr5A.!!$R1 1369

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
491 495 0.463295 AAGGAGCATCACCATCGCAG 60.463 55.0 0.0 0.0 36.25 5.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2208 2777 0.039618 AATGTTTGCTCCCCCATCGT 59.96 50.0 0.0 0.0 0.0 3.73 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
55 56 1.955208 GCCAACCGATTGAACCCATCT 60.955 52.381 0.00 0.00 38.15 2.90
107 108 3.344515 GGGTTCTTGTTAGGGACATGAC 58.655 50.000 0.00 0.00 40.80 3.06
232 233 0.543410 TTTCACCCTACCGCCAGAGA 60.543 55.000 0.00 0.00 0.00 3.10
238 239 1.123928 CCTACCGCCAGAGAAGGATT 58.876 55.000 0.00 0.00 0.00 3.01
271 275 5.396772 CCAGTTATAGAGCCATTGGTCAAGA 60.397 44.000 4.26 0.00 41.53 3.02
312 316 1.964223 GCGGATCTATTCAGGAGGTGA 59.036 52.381 0.00 0.00 0.00 4.02
491 495 0.463295 AAGGAGCATCACCATCGCAG 60.463 55.000 0.00 0.00 36.25 5.18
501 505 2.903855 CATCGCAGGGGGTCATGC 60.904 66.667 0.00 0.00 46.03 4.06
619 623 1.478105 GGACTTGGTTCTTCGGGGTTT 60.478 52.381 0.00 0.00 0.00 3.27
813 819 3.842923 CGAGGCACGCCAGGATCT 61.843 66.667 11.35 0.00 38.92 2.75
846 852 4.324991 GGGTTTCCCGACGCAGGT 62.325 66.667 0.00 0.00 32.13 4.00
859 865 1.777030 CGCAGGTGGTTACAAACGCA 61.777 55.000 0.00 0.00 0.00 5.24
866 872 1.141254 TGGTTACAAACGCAGGGAGAA 59.859 47.619 0.00 0.00 0.00 2.87
867 873 2.224670 TGGTTACAAACGCAGGGAGAAT 60.225 45.455 0.00 0.00 0.00 2.40
938 944 1.544691 AGCGCTAGAGGAACGAGAAAA 59.455 47.619 8.99 0.00 0.00 2.29
1038 1044 0.613292 ACGACTGTCAGCAGGAGGAT 60.613 55.000 8.73 0.00 46.62 3.24
1047 1053 0.540923 AGCAGGAGGATGAGCTCAAC 59.459 55.000 22.50 18.57 30.05 3.18
1064 1070 1.831652 AACCTTGAGCTCACCCTCCG 61.832 60.000 18.03 2.71 0.00 4.63
1065 1071 2.286523 CCTTGAGCTCACCCTCCGT 61.287 63.158 18.03 0.00 0.00 4.69
1110 1116 1.226717 CGGCTACTTCCTCTGCGTC 60.227 63.158 0.00 0.00 0.00 5.19
1119 1125 0.958876 TCCTCTGCGTCTACTGCGAA 60.959 55.000 0.00 0.00 34.24 4.70
1137 1143 4.891566 CGTAAGTTCCGCAGCTCT 57.108 55.556 0.00 0.00 0.00 4.09
1143 1149 4.087892 TTCCGCAGCTCTCAGGCC 62.088 66.667 0.00 0.00 0.00 5.19
1323 1329 1.675310 CATGTCTGCGGCTGGGAAA 60.675 57.895 7.03 0.00 0.00 3.13
1348 1453 1.271054 GGAAGACTGCTGCTGGAAAGA 60.271 52.381 11.29 0.00 0.00 2.52
1355 1460 1.571460 CTGCTGGAAAGACGCACAC 59.429 57.895 0.00 0.00 0.00 3.82
1440 1545 3.678056 TGATCGACCTGCTAGTTTGTT 57.322 42.857 0.00 0.00 0.00 2.83
1449 1554 3.274288 CTGCTAGTTTGTTCCAGATCCC 58.726 50.000 0.00 0.00 0.00 3.85
1462 1567 0.988678 AGATCCCCACCCAGCTTACC 60.989 60.000 0.00 0.00 0.00 2.85
1463 1568 0.988678 GATCCCCACCCAGCTTACCT 60.989 60.000 0.00 0.00 0.00 3.08
1464 1569 1.281925 ATCCCCACCCAGCTTACCTG 61.282 60.000 0.00 0.00 41.41 4.00
1514 1646 3.902261 TTACATGTGAAACTGCTGCTG 57.098 42.857 9.11 4.89 38.04 4.41
1517 1649 1.335810 CATGTGAAACTGCTGCTGTGT 59.664 47.619 13.03 7.54 38.04 3.72
1518 1650 1.462616 TGTGAAACTGCTGCTGTGTT 58.537 45.000 13.03 9.29 38.04 3.32
1519 1651 2.637947 TGTGAAACTGCTGCTGTGTTA 58.362 42.857 13.03 1.45 38.04 2.41
1561 1693 7.078228 GTGTGTGTTGGATTCTTATGTTCTTC 58.922 38.462 0.00 0.00 0.00 2.87
1565 1697 7.719193 TGTGTTGGATTCTTATGTTCTTCTTCA 59.281 33.333 0.00 0.00 0.00 3.02
1566 1698 8.734386 GTGTTGGATTCTTATGTTCTTCTTCAT 58.266 33.333 0.00 0.00 0.00 2.57
1567 1699 8.733458 TGTTGGATTCTTATGTTCTTCTTCATG 58.267 33.333 0.00 0.00 0.00 3.07
1568 1700 8.734386 GTTGGATTCTTATGTTCTTCTTCATGT 58.266 33.333 0.00 0.00 0.00 3.21
1602 1734 3.698040 CCTCATGAAATTCCTTGACCAGG 59.302 47.826 0.00 0.00 45.64 4.45
1614 1746 3.545703 CTTGACCAGGAAGACAGTTTGT 58.454 45.455 0.00 0.00 0.00 2.83
1615 1747 4.703897 CTTGACCAGGAAGACAGTTTGTA 58.296 43.478 0.00 0.00 0.00 2.41
1616 1748 4.974645 TGACCAGGAAGACAGTTTGTAT 57.025 40.909 0.00 0.00 0.00 2.29
1617 1749 4.894784 TGACCAGGAAGACAGTTTGTATC 58.105 43.478 0.00 0.00 0.00 2.24
1618 1750 3.926616 ACCAGGAAGACAGTTTGTATCG 58.073 45.455 0.00 0.00 0.00 2.92
1619 1751 2.673368 CCAGGAAGACAGTTTGTATCGC 59.327 50.000 0.00 0.00 0.00 4.58
1621 1753 3.614616 CAGGAAGACAGTTTGTATCGCTC 59.385 47.826 0.00 0.00 0.00 5.03
1622 1754 2.599082 GGAAGACAGTTTGTATCGCTCG 59.401 50.000 0.00 0.00 0.00 5.03
1623 1755 3.243336 GAAGACAGTTTGTATCGCTCGT 58.757 45.455 0.00 0.00 0.00 4.18
1624 1756 2.596452 AGACAGTTTGTATCGCTCGTG 58.404 47.619 0.00 0.00 0.00 4.35
1625 1757 1.654105 GACAGTTTGTATCGCTCGTGG 59.346 52.381 0.00 0.00 0.00 4.94
1626 1758 0.370273 CAGTTTGTATCGCTCGTGGC 59.630 55.000 0.00 0.00 37.64 5.01
1627 1759 0.037697 AGTTTGTATCGCTCGTGGCA 60.038 50.000 4.37 0.00 41.91 4.92
1628 1760 0.793861 GTTTGTATCGCTCGTGGCAA 59.206 50.000 0.00 0.00 41.91 4.52
1629 1761 1.195900 GTTTGTATCGCTCGTGGCAAA 59.804 47.619 0.00 0.00 41.91 3.68
1631 1763 1.514003 TGTATCGCTCGTGGCAAAAA 58.486 45.000 0.00 0.00 41.91 1.94
1633 1765 2.159585 TGTATCGCTCGTGGCAAAAATG 60.160 45.455 0.00 0.00 41.91 2.32
1634 1766 0.456653 ATCGCTCGTGGCAAAAATGC 60.457 50.000 0.00 0.00 41.91 3.56
1635 1767 1.371512 CGCTCGTGGCAAAAATGCA 60.372 52.632 2.97 0.00 41.91 3.96
1636 1768 1.608093 CGCTCGTGGCAAAAATGCAC 61.608 55.000 2.97 0.00 41.91 4.57
1638 1770 1.850377 CTCGTGGCAAAAATGCACAA 58.150 45.000 2.97 0.00 36.33 3.33
1640 1772 3.573598 CTCGTGGCAAAAATGCACAATA 58.426 40.909 2.97 0.00 36.33 1.90
1642 1774 4.564041 TCGTGGCAAAAATGCACAATATT 58.436 34.783 2.97 0.00 36.33 1.28
1644 1776 5.119898 TCGTGGCAAAAATGCACAATATTTC 59.880 36.000 2.97 0.00 36.33 2.17
1645 1777 5.107182 CGTGGCAAAAATGCACAATATTTCA 60.107 36.000 2.97 0.00 36.33 2.69
1646 1778 6.308675 GTGGCAAAAATGCACAATATTTCAG 58.691 36.000 2.97 0.00 36.33 3.02
1647 1779 6.147492 GTGGCAAAAATGCACAATATTTCAGA 59.853 34.615 2.97 0.00 36.33 3.27
1648 1780 6.147492 TGGCAAAAATGCACAATATTTCAGAC 59.853 34.615 2.97 0.00 36.33 3.51
1650 1782 7.148373 GGCAAAAATGCACAATATTTCAGACAT 60.148 33.333 2.97 0.00 36.33 3.06
1651 1783 7.690637 GCAAAAATGCACAATATTTCAGACATG 59.309 33.333 0.00 0.00 34.41 3.21
1653 1785 6.778834 AATGCACAATATTTCAGACATGGA 57.221 33.333 0.00 0.00 0.00 3.41
1655 1787 8.467963 AATGCACAATATTTCAGACATGGATA 57.532 30.769 0.00 0.00 0.00 2.59
1656 1788 7.263100 TGCACAATATTTCAGACATGGATAC 57.737 36.000 0.00 0.00 0.00 2.24
1657 1789 6.018016 TGCACAATATTTCAGACATGGATACG 60.018 38.462 0.00 0.00 42.51 3.06
1658 1790 6.202762 GCACAATATTTCAGACATGGATACGA 59.797 38.462 0.00 0.00 42.51 3.43
1660 1792 8.438513 CACAATATTTCAGACATGGATACGATC 58.561 37.037 0.00 0.00 42.51 3.69
1676 1985 6.985059 GGATACGATCCTAAAGCTGTAACTTT 59.015 38.462 0.00 0.00 46.19 2.66
1677 1986 7.042658 GGATACGATCCTAAAGCTGTAACTTTG 60.043 40.741 0.00 0.00 46.19 2.77
1678 1987 5.790593 ACGATCCTAAAGCTGTAACTTTGA 58.209 37.500 0.00 0.00 40.08 2.69
1681 1990 6.313905 CGATCCTAAAGCTGTAACTTTGATGT 59.686 38.462 0.00 0.00 40.08 3.06
1683 1992 7.817418 TCCTAAAGCTGTAACTTTGATGTTT 57.183 32.000 0.00 0.00 40.08 2.83
1684 1993 7.871853 TCCTAAAGCTGTAACTTTGATGTTTC 58.128 34.615 0.00 0.00 40.08 2.78
1685 1994 7.500892 TCCTAAAGCTGTAACTTTGATGTTTCA 59.499 33.333 0.00 0.00 40.08 2.69
1686 1995 8.299570 CCTAAAGCTGTAACTTTGATGTTTCAT 58.700 33.333 0.00 0.00 40.08 2.57
1690 1999 8.947055 AGCTGTAACTTTGATGTTTCATTTTT 57.053 26.923 0.00 0.00 29.46 1.94
1725 2186 7.973388 TGACTGTGTTGAGAAATAACCAAAAAG 59.027 33.333 0.00 0.00 0.00 2.27
1726 2187 8.062065 ACTGTGTTGAGAAATAACCAAAAAGA 57.938 30.769 0.00 0.00 0.00 2.52
1815 2334 0.615544 ACAATCTGGCATGGGGGTTG 60.616 55.000 0.00 0.00 0.00 3.77
1822 2341 2.658422 CATGGGGGTTGCAAGCAC 59.342 61.111 28.22 25.58 0.00 4.40
1852 2372 1.253116 CTCAATGCATTTCACACGCG 58.747 50.000 9.83 3.53 0.00 6.01
1868 2388 2.551912 GCGGGTGGGTCAACTGTTG 61.552 63.158 14.24 14.24 28.78 3.33
1891 2454 3.320884 CTTGAAGGAGTCGAGCTCG 57.679 57.895 30.03 30.03 45.03 5.03
1903 2466 0.821711 CGAGCTCGAAGGAGGAGGAT 60.822 60.000 32.06 0.00 43.02 3.24
1909 2472 1.036707 CGAAGGAGGAGGATGAGGAC 58.963 60.000 0.00 0.00 0.00 3.85
1982 2548 1.153061 ACCACAGGAGGAGACGACA 59.847 57.895 0.00 0.00 0.00 4.35
1984 2550 0.898320 CCACAGGAGGAGACGACATT 59.102 55.000 0.00 0.00 0.00 2.71
1987 2553 0.176680 CAGGAGGAGACGACATTGGG 59.823 60.000 0.00 0.00 0.00 4.12
1990 2557 0.250513 GAGGAGACGACATTGGGCTT 59.749 55.000 0.00 0.00 0.00 4.35
2028 2596 1.134159 GCCATCTGCTTCCTCTCATGT 60.134 52.381 0.00 0.00 36.87 3.21
2053 2621 4.155733 TGGAGGCGCCATACCACG 62.156 66.667 31.54 0.00 43.33 4.94
2062 2630 2.202557 CATACCACGCGACGCTCA 60.203 61.111 15.93 0.00 0.00 4.26
2065 2633 2.000215 ATACCACGCGACGCTCATCA 62.000 55.000 15.93 0.32 0.00 3.07
2069 2637 2.094659 ACGCGACGCTCATCAAAGG 61.095 57.895 15.93 0.91 0.00 3.11
2073 2641 1.078143 GACGCTCATCAAAGGGGCT 60.078 57.895 0.00 0.00 34.50 5.19
2100 2668 0.599991 TCGTTGCTGAGCGTGTCAAT 60.600 50.000 0.00 0.00 33.60 2.57
2108 2676 3.244105 GCGTGTCAATGCTGTCGT 58.756 55.556 0.00 0.00 35.29 4.34
2109 2677 1.569493 GCGTGTCAATGCTGTCGTT 59.431 52.632 0.00 0.00 35.29 3.85
2122 2690 1.666872 GTCGTTGACCCCACCTTCG 60.667 63.158 0.00 0.00 0.00 3.79
2130 2698 2.126580 CCCACCTTCGTCGTCGAC 60.127 66.667 15.51 15.51 46.03 4.20
2160 2729 3.068691 TCGAGCTCCCAAGGACGG 61.069 66.667 8.47 0.00 0.00 4.79
2169 2738 4.619227 CAAGGACGGGCACACGGT 62.619 66.667 0.00 0.00 38.39 4.83
2170 2739 4.619227 AAGGACGGGCACACGGTG 62.619 66.667 6.58 6.58 38.39 4.94
2206 2775 3.082165 GCTGCTGCTCATCTGTGAT 57.918 52.632 8.53 0.00 32.98 3.06
2208 2777 1.742750 GCTGCTGCTCATCTGTGATGA 60.743 52.381 8.53 9.50 32.98 2.92
2212 2781 2.802415 GCTGCTCATCTGTGATGACGAT 60.802 50.000 6.19 0.00 32.98 3.73
2213 2782 2.795470 CTGCTCATCTGTGATGACGATG 59.205 50.000 6.19 9.57 35.86 3.84
2214 2783 2.133553 GCTCATCTGTGATGACGATGG 58.866 52.381 13.69 8.26 35.55 3.51
2227 2796 0.039618 ACGATGGGGGAGCAAACATT 59.960 50.000 0.00 0.00 0.00 2.71
2240 2809 2.558359 GCAAACATTAGTGGAGGTTGCT 59.442 45.455 7.12 0.00 0.00 3.91
2242 2811 3.508845 AACATTAGTGGAGGTTGCTGT 57.491 42.857 0.00 0.00 0.00 4.40
2252 2821 0.540830 AGGTTGCTGTCGAGGACTCT 60.541 55.000 0.00 0.00 33.15 3.24
2255 2824 1.203523 GTTGCTGTCGAGGACTCTGAT 59.796 52.381 0.00 0.00 33.15 2.90
2261 2830 3.013219 TGTCGAGGACTCTGATGAGAAG 58.987 50.000 0.00 0.00 42.73 2.85
2264 2833 3.020274 CGAGGACTCTGATGAGAAGGAA 58.980 50.000 0.00 0.00 42.73 3.36
2268 2837 4.782156 AGGACTCTGATGAGAAGGAAATGT 59.218 41.667 0.00 0.00 42.73 2.71
2269 2838 5.960811 AGGACTCTGATGAGAAGGAAATGTA 59.039 40.000 0.00 0.00 42.73 2.29
2270 2839 6.441924 AGGACTCTGATGAGAAGGAAATGTAA 59.558 38.462 0.00 0.00 42.73 2.41
2272 2841 7.440856 GGACTCTGATGAGAAGGAAATGTAATC 59.559 40.741 0.00 0.00 42.73 1.75
2284 2853 7.072263 AGGAAATGTAATCGATTCTCCTCAT 57.928 36.000 15.25 9.74 0.00 2.90
2291 2860 1.688735 TCGATTCTCCTCATCGCCAAT 59.311 47.619 0.00 0.00 42.73 3.16
2292 2861 1.797046 CGATTCTCCTCATCGCCAATG 59.203 52.381 0.00 0.00 37.34 2.82
2302 2871 1.138859 CATCGCCAATGACCACTAGGA 59.861 52.381 0.00 0.00 37.59 2.94
2303 2872 1.496060 TCGCCAATGACCACTAGGAT 58.504 50.000 0.00 0.00 38.69 3.24
2306 2875 3.646162 TCGCCAATGACCACTAGGATAAT 59.354 43.478 0.00 0.00 38.69 1.28
2346 2915 0.735471 CGAGCTCTCATCCGACAAGA 59.265 55.000 12.85 0.00 0.00 3.02
2348 2917 2.794282 CGAGCTCTCATCCGACAAGAAG 60.794 54.545 12.85 0.00 0.00 2.85
2362 2931 8.976986 TCCGACAAGAAGTAGAAGTAATTTAC 57.023 34.615 0.00 0.00 0.00 2.01
2363 2932 8.800332 TCCGACAAGAAGTAGAAGTAATTTACT 58.200 33.333 3.16 3.16 41.73 2.24
2364 2933 9.074443 CCGACAAGAAGTAGAAGTAATTTACTC 57.926 37.037 9.45 4.25 38.26 2.59
2365 2934 9.074443 CGACAAGAAGTAGAAGTAATTTACTCC 57.926 37.037 9.45 0.00 38.26 3.85
2366 2935 9.368674 GACAAGAAGTAGAAGTAATTTACTCCC 57.631 37.037 9.45 5.43 38.26 4.30
2367 2936 9.102453 ACAAGAAGTAGAAGTAATTTACTCCCT 57.898 33.333 9.45 11.54 38.26 4.20
2368 2937 9.589111 CAAGAAGTAGAAGTAATTTACTCCCTC 57.411 37.037 9.45 4.43 38.26 4.30
2369 2938 8.308851 AGAAGTAGAAGTAATTTACTCCCTCC 57.691 38.462 9.45 2.49 38.26 4.30
2370 2939 6.712179 AGTAGAAGTAATTTACTCCCTCCG 57.288 41.667 9.45 0.00 38.26 4.63
2371 2940 6.193504 AGTAGAAGTAATTTACTCCCTCCGT 58.806 40.000 9.45 0.00 38.26 4.69
2372 2941 6.666980 AGTAGAAGTAATTTACTCCCTCCGTT 59.333 38.462 9.45 0.00 38.26 4.44
2373 2942 5.975282 AGAAGTAATTTACTCCCTCCGTTC 58.025 41.667 9.45 1.83 38.26 3.95
2374 2943 5.482878 AGAAGTAATTTACTCCCTCCGTTCA 59.517 40.000 9.45 0.00 38.26 3.18
2375 2944 5.952347 AGTAATTTACTCCCTCCGTTCAT 57.048 39.130 3.16 0.00 32.47 2.57
2376 2945 6.309389 AGTAATTTACTCCCTCCGTTCATT 57.691 37.500 3.16 0.00 32.47 2.57
2377 2946 6.718294 AGTAATTTACTCCCTCCGTTCATTT 58.282 36.000 3.16 0.00 32.47 2.32
2378 2947 7.173032 AGTAATTTACTCCCTCCGTTCATTTT 58.827 34.615 3.16 0.00 32.47 1.82
2379 2948 6.911250 AATTTACTCCCTCCGTTCATTTTT 57.089 33.333 0.00 0.00 0.00 1.94
2380 2949 5.699097 TTTACTCCCTCCGTTCATTTTTG 57.301 39.130 0.00 0.00 0.00 2.44
2381 2950 3.223674 ACTCCCTCCGTTCATTTTTGT 57.776 42.857 0.00 0.00 0.00 2.83
2382 2951 4.360951 ACTCCCTCCGTTCATTTTTGTA 57.639 40.909 0.00 0.00 0.00 2.41
2383 2952 4.721132 ACTCCCTCCGTTCATTTTTGTAA 58.279 39.130 0.00 0.00 0.00 2.41
2384 2953 4.760204 ACTCCCTCCGTTCATTTTTGTAAG 59.240 41.667 0.00 0.00 0.00 2.34
2385 2954 4.975631 TCCCTCCGTTCATTTTTGTAAGA 58.024 39.130 0.00 0.00 0.00 2.10
2386 2955 4.758165 TCCCTCCGTTCATTTTTGTAAGAC 59.242 41.667 0.00 0.00 0.00 3.01
2387 2956 4.517453 CCCTCCGTTCATTTTTGTAAGACA 59.483 41.667 0.00 0.00 0.00 3.41
2388 2957 5.183140 CCCTCCGTTCATTTTTGTAAGACAT 59.817 40.000 0.00 0.00 0.00 3.06
2389 2958 6.294508 CCCTCCGTTCATTTTTGTAAGACATT 60.295 38.462 0.00 0.00 0.00 2.71
2390 2959 7.145323 CCTCCGTTCATTTTTGTAAGACATTT 58.855 34.615 0.00 0.00 0.00 2.32
2391 2960 7.651704 CCTCCGTTCATTTTTGTAAGACATTTT 59.348 33.333 0.00 0.00 0.00 1.82
2392 2961 9.672086 CTCCGTTCATTTTTGTAAGACATTTTA 57.328 29.630 0.00 0.00 0.00 1.52
2393 2962 9.672086 TCCGTTCATTTTTGTAAGACATTTTAG 57.328 29.630 0.00 0.00 0.00 1.85
2394 2963 9.672086 CCGTTCATTTTTGTAAGACATTTTAGA 57.328 29.630 0.00 0.00 0.00 2.10
2409 2978 9.736023 AGACATTTTAGACATTCAAGAAAACAC 57.264 29.630 0.00 0.00 0.00 3.32
2410 2979 8.871686 ACATTTTAGACATTCAAGAAAACACC 57.128 30.769 0.00 0.00 0.00 4.16
2411 2980 8.695456 ACATTTTAGACATTCAAGAAAACACCT 58.305 29.630 0.00 0.00 0.00 4.00
2415 2984 8.740123 TTAGACATTCAAGAAAACACCTAACA 57.260 30.769 0.00 0.00 0.00 2.41
2416 2985 7.823745 AGACATTCAAGAAAACACCTAACAT 57.176 32.000 0.00 0.00 0.00 2.71
2417 2986 8.918202 AGACATTCAAGAAAACACCTAACATA 57.082 30.769 0.00 0.00 0.00 2.29
2418 2987 9.003658 AGACATTCAAGAAAACACCTAACATAG 57.996 33.333 0.00 0.00 0.00 2.23
2419 2988 8.691661 ACATTCAAGAAAACACCTAACATAGT 57.308 30.769 0.00 0.00 0.00 2.12
2420 2989 9.131791 ACATTCAAGAAAACACCTAACATAGTT 57.868 29.630 0.00 0.00 0.00 2.24
2421 2990 9.612620 CATTCAAGAAAACACCTAACATAGTTC 57.387 33.333 0.00 0.00 0.00 3.01
2422 2991 8.740123 TTCAAGAAAACACCTAACATAGTTCA 57.260 30.769 0.00 0.00 0.00 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
55 56 2.892852 CAGAAAATGCTTCCTTGGTCCA 59.107 45.455 0.00 0.00 0.00 4.02
107 108 2.111878 GGTGGATGCTGATCGGGG 59.888 66.667 3.14 0.00 0.00 5.73
135 136 2.826725 CTGAGGGTCTTCGTTCTTAGGT 59.173 50.000 0.00 0.00 0.00 3.08
232 233 1.280457 ACTGGCTTCTCCGAATCCTT 58.720 50.000 0.00 0.00 37.80 3.36
238 239 2.623889 GCTCTATAACTGGCTTCTCCGA 59.376 50.000 0.00 0.00 37.80 4.55
271 275 5.221342 CCGCCATCTTCTTAAGAGTATGAGT 60.221 44.000 21.77 2.33 41.61 3.41
312 316 7.603784 ACAAACTTTGTTTTCAGCTCATTCTTT 59.396 29.630 1.00 0.00 42.22 2.52
491 495 4.564110 GGTAGCCGCATGACCCCC 62.564 72.222 0.00 0.00 0.00 5.40
619 623 2.861974 GGGTCCAAGGTTCCCCCA 60.862 66.667 9.72 0.00 35.32 4.96
813 819 1.228124 CCCAGCCTTCCACGAAACA 60.228 57.895 0.00 0.00 0.00 2.83
846 852 0.759959 TCTCCCTGCGTTTGTAACCA 59.240 50.000 0.00 0.00 0.00 3.67
859 865 5.712446 GCTCCACTTTCTTTTTATTCTCCCT 59.288 40.000 0.00 0.00 0.00 4.20
866 872 4.767409 GGGTCTGCTCCACTTTCTTTTTAT 59.233 41.667 0.00 0.00 0.00 1.40
867 873 4.142038 GGGTCTGCTCCACTTTCTTTTTA 58.858 43.478 0.00 0.00 0.00 1.52
938 944 2.321213 GGTCGCTTGCTGTGAACTT 58.679 52.632 2.46 0.00 39.64 2.66
996 1002 4.133820 CACTGGTCAGTTGTTCCATTGTA 58.866 43.478 0.20 0.00 40.20 2.41
1047 1053 0.970937 TACGGAGGGTGAGCTCAAGG 60.971 60.000 20.19 6.68 0.00 3.61
1052 1058 1.982938 GTGGTACGGAGGGTGAGCT 60.983 63.158 0.00 0.00 0.00 4.09
1088 1094 1.935327 GCAGAGGAAGTAGCCGACGT 61.935 60.000 0.00 0.00 0.00 4.34
1097 1103 0.528470 GCAGTAGACGCAGAGGAAGT 59.472 55.000 0.00 0.00 0.00 3.01
1119 1125 0.109226 GAGAGCTGCGGAACTTACGT 60.109 55.000 0.00 0.00 0.00 3.57
1189 1195 2.959071 GATCAGCCGCTGACGCTC 60.959 66.667 25.18 15.13 43.63 5.03
1194 1200 4.166888 GCAGGGATCAGCCGCTGA 62.167 66.667 24.90 24.90 46.26 4.26
1302 1308 2.110967 CCCAGCCGCAGACATGAAG 61.111 63.158 0.00 0.00 0.00 3.02
1323 1329 2.264166 GCAGCAGTCTTCCTCGCT 59.736 61.111 0.00 0.00 34.29 4.93
1366 1471 2.584261 TAGCCGTACTCCGACGAGCT 62.584 60.000 13.58 13.58 45.82 4.09
1384 1489 4.840288 CACATCGTCGGCGCCGTA 62.840 66.667 44.16 31.31 40.74 4.02
1395 1500 2.416566 CCTGAGAGACAAGTCCACATCG 60.417 54.545 0.00 0.00 0.00 3.84
1398 1503 0.681733 GCCTGAGAGACAAGTCCACA 59.318 55.000 0.00 0.00 0.00 4.17
1399 1504 0.972883 AGCCTGAGAGACAAGTCCAC 59.027 55.000 0.00 0.00 0.00 4.02
1430 1535 2.026262 TGGGGATCTGGAACAAACTAGC 60.026 50.000 0.00 0.00 38.70 3.42
1440 1545 2.692368 GCTGGGTGGGGATCTGGA 60.692 66.667 0.00 0.00 0.00 3.86
1449 1554 0.112412 AAACCAGGTAAGCTGGGTGG 59.888 55.000 0.00 3.34 41.80 4.61
1462 1567 1.737793 GACCTCGGCATAACAAACCAG 59.262 52.381 0.00 0.00 0.00 4.00
1463 1568 1.349688 AGACCTCGGCATAACAAACCA 59.650 47.619 0.00 0.00 0.00 3.67
1464 1569 2.109425 AGACCTCGGCATAACAAACC 57.891 50.000 0.00 0.00 0.00 3.27
1465 1570 3.335579 AGAAGACCTCGGCATAACAAAC 58.664 45.455 0.00 0.00 0.00 2.93
1466 1571 3.695830 AGAAGACCTCGGCATAACAAA 57.304 42.857 0.00 0.00 0.00 2.83
1467 1572 3.695830 AAGAAGACCTCGGCATAACAA 57.304 42.857 0.00 0.00 0.00 2.83
1469 1574 2.678336 CCAAAGAAGACCTCGGCATAAC 59.322 50.000 0.00 0.00 0.00 1.89
1470 1575 2.304761 ACCAAAGAAGACCTCGGCATAA 59.695 45.455 0.00 0.00 0.00 1.90
1523 1655 0.504384 CACACACAGAGCTCGAAACG 59.496 55.000 8.37 0.90 0.00 3.60
1529 1661 2.175878 ATCCAACACACACAGAGCTC 57.824 50.000 5.27 5.27 0.00 4.09
1534 1666 5.947228 ACATAAGAATCCAACACACACAG 57.053 39.130 0.00 0.00 0.00 3.66
1561 1693 6.135290 TGAGGAAAAACTCAACACATGAAG 57.865 37.500 0.00 0.00 44.03 3.02
1602 1734 3.059570 CACGAGCGATACAAACTGTCTTC 59.940 47.826 0.00 0.00 0.00 2.87
1607 1739 0.370273 GCCACGAGCGATACAAACTG 59.630 55.000 0.00 0.00 0.00 3.16
1618 1750 0.597118 TGTGCATTTTTGCCACGAGC 60.597 50.000 0.00 0.00 44.14 5.03
1619 1751 1.850377 TTGTGCATTTTTGCCACGAG 58.150 45.000 0.00 0.00 0.00 4.18
1621 1753 4.925061 AATATTGTGCATTTTTGCCACG 57.075 36.364 0.00 0.00 0.00 4.94
1622 1754 6.147492 TCTGAAATATTGTGCATTTTTGCCAC 59.853 34.615 0.00 0.00 0.00 5.01
1623 1755 6.147492 GTCTGAAATATTGTGCATTTTTGCCA 59.853 34.615 0.00 0.00 0.00 4.92
1624 1756 6.147492 TGTCTGAAATATTGTGCATTTTTGCC 59.853 34.615 0.00 0.00 0.00 4.52
1625 1757 7.119605 TGTCTGAAATATTGTGCATTTTTGC 57.880 32.000 0.00 0.00 0.00 3.68
1626 1758 8.172484 CCATGTCTGAAATATTGTGCATTTTTG 58.828 33.333 0.00 0.00 0.00 2.44
1627 1759 8.095792 TCCATGTCTGAAATATTGTGCATTTTT 58.904 29.630 0.00 0.00 0.00 1.94
1628 1760 7.613585 TCCATGTCTGAAATATTGTGCATTTT 58.386 30.769 0.00 0.00 0.00 1.82
1629 1761 7.172868 TCCATGTCTGAAATATTGTGCATTT 57.827 32.000 0.00 0.00 0.00 2.32
1631 1763 6.971726 ATCCATGTCTGAAATATTGTGCAT 57.028 33.333 0.00 0.00 0.00 3.96
1633 1765 6.202762 TCGTATCCATGTCTGAAATATTGTGC 59.797 38.462 0.00 0.00 0.00 4.57
1634 1766 7.713764 TCGTATCCATGTCTGAAATATTGTG 57.286 36.000 0.00 0.00 0.00 3.33
1635 1767 8.539770 GATCGTATCCATGTCTGAAATATTGT 57.460 34.615 0.00 0.00 0.00 2.71
1650 1782 7.364408 AAAGTTACAGCTTTAGGATCGTATCCA 60.364 37.037 13.95 1.32 41.48 3.41
1651 1783 6.985059 AAAGTTACAGCTTTAGGATCGTATCC 59.015 38.462 5.94 5.94 39.13 2.59
1653 1785 7.553334 TCAAAGTTACAGCTTTAGGATCGTAT 58.447 34.615 0.00 0.00 36.64 3.06
1655 1787 5.790593 TCAAAGTTACAGCTTTAGGATCGT 58.209 37.500 0.00 0.00 36.64 3.73
1656 1788 6.313905 ACATCAAAGTTACAGCTTTAGGATCG 59.686 38.462 0.00 0.00 36.64 3.69
1657 1789 7.617041 ACATCAAAGTTACAGCTTTAGGATC 57.383 36.000 0.00 0.00 36.64 3.36
1658 1790 8.409358 AAACATCAAAGTTACAGCTTTAGGAT 57.591 30.769 0.00 0.00 36.64 3.24
1660 1792 7.648142 TGAAACATCAAAGTTACAGCTTTAGG 58.352 34.615 0.00 0.00 36.64 2.69
1661 1793 9.683069 AATGAAACATCAAAGTTACAGCTTTAG 57.317 29.630 0.00 0.00 36.64 1.85
1663 1795 8.947055 AAATGAAACATCAAAGTTACAGCTTT 57.053 26.923 0.00 0.00 39.05 3.51
1664 1796 8.947055 AAAATGAAACATCAAAGTTACAGCTT 57.053 26.923 0.00 0.00 0.00 3.74
1665 1797 8.947055 AAAAATGAAACATCAAAGTTACAGCT 57.053 26.923 0.00 0.00 0.00 4.24
1695 2004 9.952030 TTGGTTATTTCTCAACACAGTCATATA 57.048 29.630 0.00 0.00 0.00 0.86
1698 2007 7.581213 TTTGGTTATTTCTCAACACAGTCAT 57.419 32.000 0.00 0.00 0.00 3.06
1700 2009 8.188139 TCTTTTTGGTTATTTCTCAACACAGTC 58.812 33.333 0.00 0.00 0.00 3.51
1702 2011 8.925161 TTCTTTTTGGTTATTTCTCAACACAG 57.075 30.769 0.00 0.00 0.00 3.66
1746 2207 9.981460 AAGGAATAGTTATCATTGGTTTTCTCT 57.019 29.630 0.00 0.00 0.00 3.10
1782 2301 6.919721 TGCCAGATTGTTGGTTATTAGAAAC 58.080 36.000 0.00 0.00 40.49 2.78
1801 2320 2.604079 TTGCAACCCCCATGCCAG 60.604 61.111 0.00 0.00 43.16 4.85
1803 2322 4.086547 GCTTGCAACCCCCATGCC 62.087 66.667 0.00 0.00 43.16 4.40
1815 2334 2.293122 TGAGTTGTATTGGTGTGCTTGC 59.707 45.455 0.00 0.00 0.00 4.01
1822 2341 6.089820 GTGAAATGCATTGAGTTGTATTGGTG 59.910 38.462 13.82 0.00 33.08 4.17
1852 2372 0.395173 ACACAACAGTTGACCCACCC 60.395 55.000 20.56 0.00 0.00 4.61
1858 2378 3.429085 CTTCAAGCACACAACAGTTGAC 58.571 45.455 20.56 6.32 0.00 3.18
1863 2383 2.289002 GACTCCTTCAAGCACACAACAG 59.711 50.000 0.00 0.00 0.00 3.16
1868 2388 1.423395 CTCGACTCCTTCAAGCACAC 58.577 55.000 0.00 0.00 0.00 3.82
1891 2454 2.166907 TGTCCTCATCCTCCTCCTTC 57.833 55.000 0.00 0.00 0.00 3.46
1903 2466 2.619931 TCCATCTCCTTGTTGTCCTCA 58.380 47.619 0.00 0.00 0.00 3.86
1909 2472 2.295885 GCAGGATCCATCTCCTTGTTG 58.704 52.381 15.82 0.00 43.33 3.33
1939 2505 1.971167 CTTAAGGTTGGCAGCCGCA 60.971 57.895 15.06 3.76 41.24 5.69
1952 2518 1.697432 TCCTGTGGTGGTGACCTTAAG 59.303 52.381 2.11 0.00 43.58 1.85
1969 2535 1.617947 GCCCAATGTCGTCTCCTCCT 61.618 60.000 0.00 0.00 0.00 3.69
1982 2548 3.685435 CTTGACCGCAAGCCCAAT 58.315 55.556 0.00 0.00 44.41 3.16
1990 2557 2.434185 GTCATCGCCTTGACCGCA 60.434 61.111 2.91 0.00 40.11 5.69
2011 2579 3.372897 TCTCACATGAGAGGAAGCAGAT 58.627 45.455 18.49 0.00 45.48 2.90
2028 2596 3.706373 GGCGCCTCCACCTTCTCA 61.706 66.667 22.15 0.00 34.01 3.27
2047 2615 2.101575 GATGAGCGTCGCGTGGTA 59.898 61.111 12.30 0.00 0.00 3.25
2048 2616 3.567478 TTGATGAGCGTCGCGTGGT 62.567 57.895 12.30 5.65 0.00 4.16
2050 2618 1.057822 CTTTGATGAGCGTCGCGTG 59.942 57.895 12.30 0.52 0.00 5.34
2051 2619 2.094659 CCTTTGATGAGCGTCGCGT 61.095 57.895 12.30 1.70 0.00 6.01
2052 2620 2.697425 CCTTTGATGAGCGTCGCG 59.303 61.111 12.30 0.00 0.00 5.87
2053 2621 2.464459 CCCCTTTGATGAGCGTCGC 61.464 63.158 9.80 9.80 0.00 5.19
2054 2622 2.464459 GCCCCTTTGATGAGCGTCG 61.464 63.158 0.00 0.00 0.00 5.12
2057 2625 1.078214 TCAGCCCCTTTGATGAGCG 60.078 57.895 0.00 0.00 0.00 5.03
2085 2653 1.301953 AGCATTGACACGCTCAGCA 60.302 52.632 0.00 0.00 31.16 4.41
2096 2664 0.605319 GGGGTCAACGACAGCATTGA 60.605 55.000 0.00 0.00 33.68 2.57
2100 2668 2.110213 GTGGGGTCAACGACAGCA 59.890 61.111 0.00 0.00 33.68 4.41
2105 2673 2.091102 GACGAAGGTGGGGTCAACGA 62.091 60.000 0.00 0.00 35.31 3.85
2108 2676 2.091102 GACGACGAAGGTGGGGTCAA 62.091 60.000 0.00 0.00 0.00 3.18
2109 2677 2.522436 ACGACGAAGGTGGGGTCA 60.522 61.111 0.00 0.00 0.00 4.02
2122 2690 0.905839 GATGCGTTACTGTCGACGAC 59.094 55.000 20.97 20.97 41.53 4.34
2130 2698 0.101399 AGCTCGAGGATGCGTTACTG 59.899 55.000 15.58 0.00 0.00 2.74
2160 2729 4.555709 TCACCACCACCGTGTGCC 62.556 66.667 0.00 0.00 38.41 5.01
2167 2736 2.690778 GCAGCGATTCACCACCACC 61.691 63.158 0.00 0.00 0.00 4.61
2168 2737 1.514678 TTGCAGCGATTCACCACCAC 61.515 55.000 0.00 0.00 0.00 4.16
2169 2738 1.228094 TTGCAGCGATTCACCACCA 60.228 52.632 0.00 0.00 0.00 4.17
2170 2739 1.503542 CTTGCAGCGATTCACCACC 59.496 57.895 0.00 0.00 0.00 4.61
2171 2740 1.154150 GCTTGCAGCGATTCACCAC 60.154 57.895 0.00 0.00 0.00 4.16
2206 2775 1.002624 GTTTGCTCCCCCATCGTCA 60.003 57.895 0.00 0.00 0.00 4.35
2208 2777 0.039618 AATGTTTGCTCCCCCATCGT 59.960 50.000 0.00 0.00 0.00 3.73
2212 2781 1.272425 CCACTAATGTTTGCTCCCCCA 60.272 52.381 0.00 0.00 0.00 4.96
2213 2782 1.005450 TCCACTAATGTTTGCTCCCCC 59.995 52.381 0.00 0.00 0.00 5.40
2214 2783 2.369394 CTCCACTAATGTTTGCTCCCC 58.631 52.381 0.00 0.00 0.00 4.81
2227 2796 0.888619 CTCGACAGCAACCTCCACTA 59.111 55.000 0.00 0.00 0.00 2.74
2240 2809 2.789409 TCTCATCAGAGTCCTCGACA 57.211 50.000 0.00 0.00 42.66 4.35
2242 2811 2.239907 TCCTTCTCATCAGAGTCCTCGA 59.760 50.000 0.00 0.00 42.66 4.04
2252 2821 8.206867 AGAATCGATTACATTTCCTTCTCATCA 58.793 33.333 11.38 0.00 0.00 3.07
2255 2824 6.986817 GGAGAATCGATTACATTTCCTTCTCA 59.013 38.462 11.38 0.00 39.24 3.27
2261 2830 7.357951 GATGAGGAGAATCGATTACATTTCC 57.642 40.000 11.38 12.55 34.37 3.13
2272 2841 4.645905 GTCATTGGCGATGAGGAGAATCG 61.646 52.174 17.74 1.60 45.16 3.34
2284 2853 1.496060 ATCCTAGTGGTCATTGGCGA 58.504 50.000 0.00 0.00 34.23 5.54
2291 2860 2.972713 GGAGCCATTATCCTAGTGGTCA 59.027 50.000 0.00 0.00 37.81 4.02
2292 2861 2.028930 CGGAGCCATTATCCTAGTGGTC 60.029 54.545 0.00 0.00 37.81 4.02
2302 2871 2.281070 CTGCGCCGGAGCCATTAT 60.281 61.111 27.98 0.00 36.02 1.28
2303 2872 4.545706 CCTGCGCCGGAGCCATTA 62.546 66.667 27.98 7.81 36.02 1.90
2346 2915 6.666980 ACGGAGGGAGTAAATTACTTCTACTT 59.333 38.462 10.94 3.03 39.59 2.24
2348 2917 6.462552 ACGGAGGGAGTAAATTACTTCTAC 57.537 41.667 10.94 9.60 39.59 2.59
2362 2931 5.001232 TCTTACAAAAATGAACGGAGGGAG 58.999 41.667 0.00 0.00 0.00 4.30
2363 2932 4.758165 GTCTTACAAAAATGAACGGAGGGA 59.242 41.667 0.00 0.00 0.00 4.20
2364 2933 4.517453 TGTCTTACAAAAATGAACGGAGGG 59.483 41.667 0.00 0.00 0.00 4.30
2365 2934 5.682943 TGTCTTACAAAAATGAACGGAGG 57.317 39.130 0.00 0.00 0.00 4.30
2366 2935 8.574196 AAAATGTCTTACAAAAATGAACGGAG 57.426 30.769 0.00 0.00 0.00 4.63
2367 2936 9.672086 CTAAAATGTCTTACAAAAATGAACGGA 57.328 29.630 0.00 0.00 0.00 4.69
2368 2937 9.672086 TCTAAAATGTCTTACAAAAATGAACGG 57.328 29.630 0.00 0.00 0.00 4.44
2383 2952 9.736023 GTGTTTTCTTGAATGTCTAAAATGTCT 57.264 29.630 0.00 0.00 0.00 3.41
2384 2953 8.968242 GGTGTTTTCTTGAATGTCTAAAATGTC 58.032 33.333 0.00 0.00 0.00 3.06
2385 2954 8.695456 AGGTGTTTTCTTGAATGTCTAAAATGT 58.305 29.630 0.00 0.00 0.00 2.71
2389 2958 9.179909 TGTTAGGTGTTTTCTTGAATGTCTAAA 57.820 29.630 0.00 0.00 0.00 1.85
2390 2959 8.740123 TGTTAGGTGTTTTCTTGAATGTCTAA 57.260 30.769 0.00 0.00 0.00 2.10
2391 2960 8.918202 ATGTTAGGTGTTTTCTTGAATGTCTA 57.082 30.769 0.00 0.00 0.00 2.59
2392 2961 7.823745 ATGTTAGGTGTTTTCTTGAATGTCT 57.176 32.000 0.00 0.00 0.00 3.41
2393 2962 8.784043 ACTATGTTAGGTGTTTTCTTGAATGTC 58.216 33.333 0.00 0.00 0.00 3.06
2394 2963 8.691661 ACTATGTTAGGTGTTTTCTTGAATGT 57.308 30.769 0.00 0.00 0.00 2.71
2395 2964 9.612620 GAACTATGTTAGGTGTTTTCTTGAATG 57.387 33.333 0.00 0.00 0.00 2.67
2396 2965 9.349713 TGAACTATGTTAGGTGTTTTCTTGAAT 57.650 29.630 0.00 0.00 0.00 2.57
2397 2966 8.740123 TGAACTATGTTAGGTGTTTTCTTGAA 57.260 30.769 0.00 0.00 0.00 2.69


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

AutoCloner maintained by Alex Coulton.