Multiple sequence alignment - TraesCS2D01G523800

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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 TraesCS2D01G523800 chr2D 100.000 2327 0 0 1 2327 612456378 612454052 0.000000e+00 4298.0
1 TraesCS2D01G523800 chr2D 84.731 1133 90 38 550 1635 612935903 612934807 0.000000e+00 1057.0
2 TraesCS2D01G523800 chr2D 84.371 787 88 19 872 1636 612697221 612696448 0.000000e+00 739.0
3 TraesCS2D01G523800 chr2D 81.890 762 84 26 839 1568 609639088 609639827 5.540000e-166 593.0
4 TraesCS2D01G523800 chr2D 81.491 751 75 21 815 1543 612982966 612982258 2.020000e-155 558.0
5 TraesCS2D01G523800 chr2D 86.463 458 57 5 1777 2231 612759253 612758798 4.470000e-137 497.0
6 TraesCS2D01G523800 chr2D 82.507 383 57 6 1779 2160 609636126 609636499 6.200000e-86 327.0
7 TraesCS2D01G523800 chr2D 85.185 243 11 10 7 226 612938754 612938514 2.330000e-55 226.0
8 TraesCS2D01G523800 chr2D 81.443 291 41 10 1952 2232 612979869 612979582 2.330000e-55 226.0
9 TraesCS2D01G523800 chr2D 83.684 190 23 4 1777 1966 612934732 612934551 3.070000e-39 172.0
10 TraesCS2D01G523800 chr2B 85.585 1325 83 34 294 1568 747822197 747820931 0.000000e+00 1290.0
11 TraesCS2D01G523800 chr2B 79.914 1160 134 53 478 1597 747603768 747602668 0.000000e+00 760.0
12 TraesCS2D01G523800 chr2B 83.438 797 85 26 791 1557 747786610 747785831 0.000000e+00 697.0
13 TraesCS2D01G523800 chr2B 80.083 964 114 42 670 1597 747574526 747573605 0.000000e+00 645.0
14 TraesCS2D01G523800 chr2B 83.360 631 62 14 815 1433 747855395 747854796 5.660000e-151 544.0
15 TraesCS2D01G523800 chr2B 88.757 169 18 1 2002 2170 747807730 747807563 3.030000e-49 206.0
16 TraesCS2D01G523800 chr2B 86.592 179 19 3 2055 2232 747854326 747854152 2.360000e-45 193.0
17 TraesCS2D01G523800 chr2B 85.475 179 19 4 1458 1635 747854729 747854557 1.840000e-41 180.0
18 TraesCS2D01G523800 chr2B 94.545 110 6 0 20 129 747822845 747822736 1.110000e-38 171.0
19 TraesCS2D01G523800 chr2B 84.118 170 27 0 1777 1946 747854515 747854346 5.140000e-37 165.0
20 TraesCS2D01G523800 chr2B 93.651 63 4 0 131 193 747822711 747822649 6.850000e-16 95.3
21 TraesCS2D01G523800 chr2B 76.623 154 32 4 1777 1927 747820032 747819880 5.330000e-12 82.4
22 TraesCS2D01G523800 chr2A 82.725 932 81 38 730 1635 744616452 744615575 0.000000e+00 756.0
23 TraesCS2D01G523800 chr2A 83.005 812 83 23 815 1594 744635766 744634978 0.000000e+00 684.0
24 TraesCS2D01G523800 chr2A 84.107 711 76 20 884 1570 742306488 742305791 0.000000e+00 652.0
25 TraesCS2D01G523800 chr2A 88.424 311 35 1 1768 2077 744619545 744619235 7.850000e-100 374.0
26 TraesCS2D01G523800 chr2A 93.478 184 10 2 441 622 744625260 744625077 2.950000e-69 272.0
27 TraesCS2D01G523800 chr2A 92.063 189 11 4 452 637 744628664 744628477 1.770000e-66 263.0
28 TraesCS2D01G523800 chr2A 81.200 250 28 9 1362 1593 744624982 744624734 1.420000e-42 183.0
29 TraesCS2D01G523800 chr2A 91.057 123 10 1 1627 1749 104990179 104990058 5.140000e-37 165.0
30 TraesCS2D01G523800 chr2A 94.030 67 3 1 755 820 744625062 744624996 1.470000e-17 100.0
31 TraesCS2D01G523800 chr6A 94.309 123 6 1 1631 1753 556533678 556533557 1.100000e-43 187.0
32 TraesCS2D01G523800 chr6A 91.597 119 10 0 1632 1750 447643846 447643728 5.140000e-37 165.0
33 TraesCS2D01G523800 chr1A 94.017 117 7 0 1633 1749 169166915 169166799 6.610000e-41 178.0
34 TraesCS2D01G523800 chr7B 93.277 119 7 1 1631 1749 5920252 5920135 8.550000e-40 174.0
35 TraesCS2D01G523800 chr3A 91.935 124 8 2 1633 1755 737944540 737944418 3.070000e-39 172.0
36 TraesCS2D01G523800 chr4A 91.667 120 10 0 1633 1752 47140902 47140783 1.430000e-37 167.0
37 TraesCS2D01G523800 chr6B 90.909 121 11 0 1633 1753 438623455 438623335 1.850000e-36 163.0
38 TraesCS2D01G523800 chr4B 90.984 122 9 2 1629 1749 630039390 630039270 1.850000e-36 163.0


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 TraesCS2D01G523800 chr2D 612454052 612456378 2326 True 4298.000 4298 100.000000 1 2327 1 chr2D.!!$R1 2326
1 TraesCS2D01G523800 chr2D 612696448 612697221 773 True 739.000 739 84.371000 872 1636 1 chr2D.!!$R2 764
2 TraesCS2D01G523800 chr2D 612934551 612938754 4203 True 485.000 1057 84.533333 7 1966 3 chr2D.!!$R4 1959
3 TraesCS2D01G523800 chr2D 609636126 609639827 3701 False 460.000 593 82.198500 839 2160 2 chr2D.!!$F1 1321
4 TraesCS2D01G523800 chr2D 612979582 612982966 3384 True 392.000 558 81.467000 815 2232 2 chr2D.!!$R5 1417
5 TraesCS2D01G523800 chr2B 747602668 747603768 1100 True 760.000 760 79.914000 478 1597 1 chr2B.!!$R2 1119
6 TraesCS2D01G523800 chr2B 747785831 747786610 779 True 697.000 697 83.438000 791 1557 1 chr2B.!!$R3 766
7 TraesCS2D01G523800 chr2B 747573605 747574526 921 True 645.000 645 80.083000 670 1597 1 chr2B.!!$R1 927
8 TraesCS2D01G523800 chr2B 747819880 747822845 2965 True 409.675 1290 87.601000 20 1927 4 chr2B.!!$R5 1907
9 TraesCS2D01G523800 chr2B 747854152 747855395 1243 True 270.500 544 84.886250 815 2232 4 chr2B.!!$R6 1417
10 TraesCS2D01G523800 chr2A 744634978 744635766 788 True 684.000 684 83.005000 815 1594 1 chr2A.!!$R3 779
11 TraesCS2D01G523800 chr2A 742305791 742306488 697 True 652.000 652 84.107000 884 1570 1 chr2A.!!$R2 686
12 TraesCS2D01G523800 chr2A 744615575 744619545 3970 True 565.000 756 85.574500 730 2077 2 chr2A.!!$R4 1347
13 TraesCS2D01G523800 chr2A 744624734 744628664 3930 True 204.500 272 90.192750 441 1593 4 chr2A.!!$R5 1152

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
300 2488 0.763035 ACCTCCAGCTTTACCGTGTT 59.237 50.0 0.0 0.0 0.0 3.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1726 6121 0.032813 TCCCTCCGTCCGGAAATACT 60.033 55.0 5.23 0.0 44.66 2.12 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
139 163 2.281761 GTATGCTGGGCCCATCCG 60.282 66.667 28.82 15.95 34.94 4.18
218 507 3.997400 CTCCGGCCTCTCTCGGTCA 62.997 68.421 0.00 0.00 45.79 4.02
228 517 3.287222 CTCTCTCGGTCATTTCTCTCCT 58.713 50.000 0.00 0.00 0.00 3.69
231 520 6.189036 TCTCTCGGTCATTTCTCTCCTATA 57.811 41.667 0.00 0.00 0.00 1.31
242 2360 4.650754 TCTCTCCTATAAACGGCTCAAC 57.349 45.455 0.00 0.00 0.00 3.18
293 2415 2.356125 GCATCCTTGACCTCCAGCTTTA 60.356 50.000 0.00 0.00 0.00 1.85
294 2416 3.274288 CATCCTTGACCTCCAGCTTTAC 58.726 50.000 0.00 0.00 0.00 2.01
300 2488 0.763035 ACCTCCAGCTTTACCGTGTT 59.237 50.000 0.00 0.00 0.00 3.32
315 2503 1.006571 TGTTCTCGTCTCCGTTGCC 60.007 57.895 0.00 0.00 35.01 4.52
352 2540 3.606662 AGCACGTCGAGCACCACT 61.607 61.111 16.93 0.00 0.00 4.00
373 2561 2.043852 ATCCTCGACAGCTCCGGT 60.044 61.111 0.00 0.00 0.00 5.28
618 4056 8.864087 TGAGGAATATAATATGATCCAGATCCG 58.136 37.037 5.22 0.00 37.02 4.18
636 4074 2.029623 CCGAGCTTTGCTAGGGTAGTA 58.970 52.381 10.23 0.00 45.47 1.82
637 4075 2.628657 CCGAGCTTTGCTAGGGTAGTAT 59.371 50.000 10.23 0.00 45.47 2.12
639 4077 4.082679 CCGAGCTTTGCTAGGGTAGTATAG 60.083 50.000 10.23 0.00 45.47 1.31
641 4079 5.563085 CGAGCTTTGCTAGGGTAGTATAGTG 60.563 48.000 0.00 0.00 39.88 2.74
642 4080 5.455872 AGCTTTGCTAGGGTAGTATAGTGA 58.544 41.667 0.00 0.00 36.99 3.41
643 4081 5.897824 AGCTTTGCTAGGGTAGTATAGTGAA 59.102 40.000 0.00 0.00 36.99 3.18
646 4084 7.484993 TTTGCTAGGGTAGTATAGTGAACAA 57.515 36.000 0.00 0.00 0.00 2.83
657 4095 6.323266 AGTATAGTGAACAAGTGATGTCGTC 58.677 40.000 0.00 0.00 42.99 4.20
693 4131 2.419673 TCACGCCATTCTGCAGTATTTG 59.580 45.455 14.67 7.22 0.00 2.32
798 4262 0.909133 TCAGCCACTGATAGCCCACA 60.909 55.000 0.00 0.00 35.39 4.17
854 4319 3.961408 GACTCCAGCTAGGACTCCAAATA 59.039 47.826 0.00 0.00 43.07 1.40
913 4394 5.241728 GGCAGACCTCTACAAGAAAAACAAT 59.758 40.000 0.00 0.00 0.00 2.71
950 4438 0.961753 AGTGAGTGAGTGCATCGACA 59.038 50.000 0.00 0.00 0.00 4.35
964 4452 2.481903 TCGACATTCGATCAGCTCAG 57.518 50.000 0.00 0.00 44.82 3.35
965 4453 0.851495 CGACATTCGATCAGCTCAGC 59.149 55.000 0.00 0.00 43.74 4.26
966 4454 1.535649 CGACATTCGATCAGCTCAGCT 60.536 52.381 0.00 0.00 43.74 4.24
993 4482 1.563435 GCATCGATCTGGTCATGGCG 61.563 60.000 0.00 0.00 0.00 5.69
1128 4626 2.263077 GATCAGAACGTCGTGAATGCT 58.737 47.619 0.00 0.00 0.00 3.79
1438 4972 4.152938 CCTGCTCCTTTTGCTTTTATTTGC 59.847 41.667 0.00 0.00 0.00 3.68
1443 5012 6.238456 GCTCCTTTTGCTTTTATTTGCTTGTT 60.238 34.615 0.00 0.00 0.00 2.83
1449 5018 6.734104 TGCTTTTATTTGCTTGTTTGTGTT 57.266 29.167 0.00 0.00 0.00 3.32
1450 5019 6.541086 TGCTTTTATTTGCTTGTTTGTGTTG 58.459 32.000 0.00 0.00 0.00 3.33
1451 5020 6.148480 TGCTTTTATTTGCTTGTTTGTGTTGT 59.852 30.769 0.00 0.00 0.00 3.32
1453 5022 8.334632 GCTTTTATTTGCTTGTTTGTGTTGTAT 58.665 29.630 0.00 0.00 0.00 2.29
1493 5089 2.349886 GAGCATTGATCGGTCAGTTGAC 59.650 50.000 13.20 3.67 44.04 3.18
1535 5134 6.780457 ATCAGAAATAAATGTGGGTGGAAG 57.220 37.500 0.00 0.00 0.00 3.46
1543 5142 4.447138 AATGTGGGTGGAAGTTCTTGTA 57.553 40.909 2.25 0.00 0.00 2.41
1550 5149 4.324254 GGGTGGAAGTTCTTGTATCATCCA 60.324 45.833 2.25 0.00 33.32 3.41
1560 5159 8.352942 AGTTCTTGTATCATCCAGTTTTGTTTC 58.647 33.333 0.00 0.00 0.00 2.78
1579 5971 8.759481 TTGTTTCTATATTATTCCATGCACCA 57.241 30.769 0.00 0.00 0.00 4.17
1585 5977 9.194972 TCTATATTATTCCATGCACCACAAAAA 57.805 29.630 0.00 0.00 0.00 1.94
1637 6032 8.848528 GTCAAATACGAAGTTAGTCAGTACTTC 58.151 37.037 0.00 0.00 37.78 3.01
1639 6034 7.700022 AATACGAAGTTAGTCAGTACTTCCT 57.300 36.000 8.82 0.00 44.63 3.36
1641 6036 4.458642 ACGAAGTTAGTCAGTACTTCCTCC 59.541 45.833 8.82 0.00 44.63 4.30
1644 6039 4.009002 AGTTAGTCAGTACTTCCTCCGTC 58.991 47.826 0.00 0.00 37.15 4.79
1645 6040 1.836802 AGTCAGTACTTCCTCCGTCC 58.163 55.000 0.00 0.00 29.00 4.79
1646 6041 0.450983 GTCAGTACTTCCTCCGTCCG 59.549 60.000 0.00 0.00 0.00 4.79
1647 6042 0.679002 TCAGTACTTCCTCCGTCCGG 60.679 60.000 0.00 0.00 0.00 5.14
1648 6043 0.679002 CAGTACTTCCTCCGTCCGGA 60.679 60.000 0.00 0.00 42.90 5.14
1649 6044 0.038744 AGTACTTCCTCCGTCCGGAA 59.961 55.000 5.23 0.00 44.66 4.30
1651 6046 1.479730 GTACTTCCTCCGTCCGGAAAT 59.520 52.381 5.23 0.00 44.66 2.17
1653 6048 1.479730 ACTTCCTCCGTCCGGAAATAC 59.520 52.381 5.23 0.00 44.66 1.89
1654 6049 1.755380 CTTCCTCCGTCCGGAAATACT 59.245 52.381 5.23 0.00 44.66 2.12
1655 6050 1.856629 TCCTCCGTCCGGAAATACTT 58.143 50.000 5.23 0.00 44.66 2.24
1658 6053 3.571401 TCCTCCGTCCGGAAATACTTATC 59.429 47.826 5.23 0.00 44.66 1.75
1661 6056 5.192327 TCCGTCCGGAAATACTTATCTTC 57.808 43.478 5.23 0.00 42.05 2.87
1662 6057 4.646040 TCCGTCCGGAAATACTTATCTTCA 59.354 41.667 5.23 0.00 42.05 3.02
1663 6058 5.127519 TCCGTCCGGAAATACTTATCTTCAA 59.872 40.000 5.23 0.00 42.05 2.69
1664 6059 5.813672 CCGTCCGGAAATACTTATCTTCAAA 59.186 40.000 5.23 0.00 37.50 2.69
1665 6060 6.314400 CCGTCCGGAAATACTTATCTTCAAAA 59.686 38.462 5.23 0.00 37.50 2.44
1666 6061 7.012044 CCGTCCGGAAATACTTATCTTCAAAAT 59.988 37.037 5.23 0.00 37.50 1.82
1667 6062 7.850982 CGTCCGGAAATACTTATCTTCAAAATG 59.149 37.037 5.23 0.00 0.00 2.32
1668 6063 8.129211 GTCCGGAAATACTTATCTTCAAAATGG 58.871 37.037 5.23 0.00 0.00 3.16
1669 6064 7.832187 TCCGGAAATACTTATCTTCAAAATGGT 59.168 33.333 0.00 0.00 0.00 3.55
1670 6065 8.466798 CCGGAAATACTTATCTTCAAAATGGTT 58.533 33.333 0.00 0.00 0.00 3.67
1671 6066 9.289303 CGGAAATACTTATCTTCAAAATGGTTG 57.711 33.333 0.00 0.00 0.00 3.77
1678 6073 8.090214 ACTTATCTTCAAAATGGTTGTGAATGG 58.910 33.333 0.00 0.00 31.21 3.16
1679 6074 6.669125 ATCTTCAAAATGGTTGTGAATGGA 57.331 33.333 0.00 0.00 31.21 3.41
1680 6075 6.669125 TCTTCAAAATGGTTGTGAATGGAT 57.331 33.333 0.00 0.00 31.21 3.41
1681 6076 6.457355 TCTTCAAAATGGTTGTGAATGGATG 58.543 36.000 0.00 0.00 31.21 3.51
1682 6077 5.804944 TCAAAATGGTTGTGAATGGATGT 57.195 34.783 0.00 0.00 0.00 3.06
1683 6078 6.907853 TCAAAATGGTTGTGAATGGATGTA 57.092 33.333 0.00 0.00 0.00 2.29
1684 6079 7.479352 TCAAAATGGTTGTGAATGGATGTAT 57.521 32.000 0.00 0.00 0.00 2.29
1685 6080 7.546358 TCAAAATGGTTGTGAATGGATGTATC 58.454 34.615 0.00 0.00 0.00 2.24
1686 6081 7.396907 TCAAAATGGTTGTGAATGGATGTATCT 59.603 33.333 0.00 0.00 0.00 1.98
1687 6082 8.685427 CAAAATGGTTGTGAATGGATGTATCTA 58.315 33.333 0.00 0.00 0.00 1.98
1688 6083 9.425248 AAAATGGTTGTGAATGGATGTATCTAT 57.575 29.630 0.00 0.00 0.00 1.98
1691 6086 8.902540 TGGTTGTGAATGGATGTATCTATAAC 57.097 34.615 0.00 0.00 0.00 1.89
1692 6087 8.713971 TGGTTGTGAATGGATGTATCTATAACT 58.286 33.333 0.00 0.00 0.00 2.24
1735 6130 7.611213 ACTATTTCAAGGACAAGTATTTCCG 57.389 36.000 0.00 0.00 36.95 4.30
1736 6131 5.897377 ATTTCAAGGACAAGTATTTCCGG 57.103 39.130 0.00 0.00 36.95 5.14
1737 6132 4.627284 TTCAAGGACAAGTATTTCCGGA 57.373 40.909 0.00 0.00 36.95 5.14
1738 6133 3.934068 TCAAGGACAAGTATTTCCGGAC 58.066 45.455 1.83 0.00 36.95 4.79
1739 6134 2.667473 AGGACAAGTATTTCCGGACG 57.333 50.000 1.83 0.00 36.95 4.79
1740 6135 1.206371 AGGACAAGTATTTCCGGACGG 59.794 52.381 1.83 3.96 36.95 4.79
1741 6136 1.205417 GGACAAGTATTTCCGGACGGA 59.795 52.381 1.83 9.76 43.52 4.69
1742 6137 2.537401 GACAAGTATTTCCGGACGGAG 58.463 52.381 13.64 3.15 46.06 4.63
1743 6138 1.206371 ACAAGTATTTCCGGACGGAGG 59.794 52.381 13.64 0.00 46.06 4.30
1744 6139 0.828677 AAGTATTTCCGGACGGAGGG 59.171 55.000 13.64 0.00 46.06 4.30
1746 6141 0.388294 GTATTTCCGGACGGAGGGAG 59.612 60.000 13.64 0.00 46.06 4.30
1759 6154 1.406069 GGAGGGAGTACATGCACACTG 60.406 57.143 0.00 0.00 0.00 3.66
1829 8036 5.233225 TCGCAAGATTCAGGATAGCTTATG 58.767 41.667 0.00 0.00 45.01 1.90
1844 8051 2.168521 GCTTATGTGTGCCCTGTCTCTA 59.831 50.000 0.00 0.00 0.00 2.43
1854 8061 1.000283 CCCTGTCTCTATCGACATGGC 60.000 57.143 0.00 0.00 40.91 4.40
1904 8428 1.661509 GCTGTTTGCAACTTCCGCC 60.662 57.895 0.00 0.00 42.31 6.13
1910 8434 1.975660 TTGCAACTTCCGCCTAGTTT 58.024 45.000 0.00 0.00 33.73 2.66
1936 8460 0.247537 GACGGGAATTTAACGCAGCG 60.248 55.000 14.82 14.82 0.00 5.18
2036 8560 3.200918 ATGAGCCATTCATGCAGCA 57.799 47.368 0.00 0.00 44.84 4.41
2043 8567 1.134907 CCATTCATGCAGCAAACCTCC 60.135 52.381 0.00 0.00 0.00 4.30
2045 8569 0.537143 TTCATGCAGCAAACCTCCGT 60.537 50.000 0.00 0.00 0.00 4.69
2046 8570 0.537143 TCATGCAGCAAACCTCCGTT 60.537 50.000 0.00 0.00 0.00 4.44
2050 8574 3.660111 AGCAAACCTCCGTTGCGC 61.660 61.111 0.00 0.00 33.75 6.09
2135 8659 2.584064 CCTGCCCTACATGACGCA 59.416 61.111 0.00 0.00 0.00 5.24
2145 8669 4.002506 ATGACGCAGGTCGGTGCA 62.003 61.111 6.22 0.00 46.49 4.57
2170 8703 0.250793 CACCCACGCCTACATTGGTA 59.749 55.000 0.00 0.00 0.00 3.25
2171 8704 0.985760 ACCCACGCCTACATTGGTAA 59.014 50.000 0.00 0.00 0.00 2.85
2191 8724 4.806640 AATCCGTGAGCCAAATTTTGAT 57.193 36.364 10.72 0.00 0.00 2.57
2193 8726 3.153130 TCCGTGAGCCAAATTTTGATCA 58.847 40.909 10.72 6.14 0.00 2.92
2239 8772 5.409643 GGTAACGTACTATAGACGAGCAA 57.590 43.478 22.83 8.92 42.98 3.91
2240 8773 5.201181 GGTAACGTACTATAGACGAGCAAC 58.799 45.833 22.83 15.93 42.98 4.17
2241 8774 3.582444 ACGTACTATAGACGAGCAACG 57.418 47.619 22.83 14.65 42.98 4.10
2242 8775 2.286067 ACGTACTATAGACGAGCAACGC 60.286 50.000 22.83 0.00 46.94 4.84
2243 8776 2.033065 CGTACTATAGACGAGCAACGCT 60.033 50.000 6.78 0.00 46.94 5.07
2244 8777 3.183172 CGTACTATAGACGAGCAACGCTA 59.817 47.826 6.78 6.59 46.94 4.26
2245 8778 3.605743 ACTATAGACGAGCAACGCTAC 57.394 47.619 6.78 0.00 46.94 3.58
2246 8779 2.941064 ACTATAGACGAGCAACGCTACA 59.059 45.455 6.78 0.00 46.94 2.74
2247 8780 2.190325 ATAGACGAGCAACGCTACAC 57.810 50.000 0.00 0.00 46.94 2.90
2248 8781 1.162698 TAGACGAGCAACGCTACACT 58.837 50.000 0.00 0.00 46.94 3.55
2249 8782 0.314302 AGACGAGCAACGCTACACTT 59.686 50.000 0.00 0.00 46.94 3.16
2250 8783 1.538512 AGACGAGCAACGCTACACTTA 59.461 47.619 0.00 0.00 46.94 2.24
2251 8784 1.647702 GACGAGCAACGCTACACTTAC 59.352 52.381 0.00 0.00 46.94 2.34
2252 8785 0.633733 CGAGCAACGCTACACTTACG 59.366 55.000 0.00 0.00 39.88 3.18
2253 8786 1.694639 GAGCAACGCTACACTTACGT 58.305 50.000 0.00 0.00 39.88 3.57
2254 8787 2.725759 CGAGCAACGCTACACTTACGTA 60.726 50.000 0.00 0.00 39.88 3.57
2255 8788 3.236816 GAGCAACGCTACACTTACGTAA 58.763 45.455 7.94 7.94 39.88 3.18
2256 8789 2.982470 AGCAACGCTACACTTACGTAAC 59.018 45.455 3.29 0.00 39.49 2.50
2257 8790 2.982470 GCAACGCTACACTTACGTAACT 59.018 45.455 3.29 0.00 39.49 2.24
2258 8791 3.426525 GCAACGCTACACTTACGTAACTT 59.573 43.478 3.29 0.00 39.49 2.66
2259 8792 4.616802 GCAACGCTACACTTACGTAACTTA 59.383 41.667 3.29 0.00 39.49 2.24
2260 8793 5.219914 GCAACGCTACACTTACGTAACTTAG 60.220 44.000 3.29 6.36 39.49 2.18
2261 8794 4.406943 ACGCTACACTTACGTAACTTAGC 58.593 43.478 19.23 19.23 38.45 3.09
2262 8795 3.476379 CGCTACACTTACGTAACTTAGCG 59.524 47.826 28.17 28.17 45.00 4.26
2263 8796 4.406943 GCTACACTTACGTAACTTAGCGT 58.593 43.478 16.47 6.20 44.02 5.07
2264 8797 5.560148 GCTACACTTACGTAACTTAGCGTA 58.440 41.667 16.47 7.24 41.77 4.42
2265 8798 5.449430 GCTACACTTACGTAACTTAGCGTAC 59.551 44.000 16.47 0.00 42.24 3.67
2266 8799 5.356882 ACACTTACGTAACTTAGCGTACA 57.643 39.130 3.29 0.00 42.24 2.90
2267 8800 5.942872 ACACTTACGTAACTTAGCGTACAT 58.057 37.500 3.29 0.00 42.24 2.29
2268 8801 7.072177 ACACTTACGTAACTTAGCGTACATA 57.928 36.000 3.29 0.00 42.24 2.29
2269 8802 7.697691 ACACTTACGTAACTTAGCGTACATAT 58.302 34.615 3.29 0.00 42.24 1.78
2270 8803 8.184192 ACACTTACGTAACTTAGCGTACATATT 58.816 33.333 3.29 0.00 42.24 1.28
2271 8804 9.013490 CACTTACGTAACTTAGCGTACATATTT 57.987 33.333 3.29 0.00 42.24 1.40
2274 8807 9.663904 TTACGTAACTTAGCGTACATATTTAGG 57.336 33.333 3.29 0.00 42.24 2.69
2275 8808 7.707104 ACGTAACTTAGCGTACATATTTAGGT 58.293 34.615 0.00 0.00 39.72 3.08
2276 8809 7.645340 ACGTAACTTAGCGTACATATTTAGGTG 59.355 37.037 0.00 0.00 39.72 4.00
2277 8810 7.113965 CGTAACTTAGCGTACATATTTAGGTGG 59.886 40.741 0.00 0.00 0.00 4.61
2278 8811 6.475596 ACTTAGCGTACATATTTAGGTGGT 57.524 37.500 0.00 0.00 0.00 4.16
2279 8812 6.510536 ACTTAGCGTACATATTTAGGTGGTC 58.489 40.000 0.00 0.00 0.00 4.02
2280 8813 6.323225 ACTTAGCGTACATATTTAGGTGGTCT 59.677 38.462 0.00 0.00 0.00 3.85
2281 8814 5.609533 AGCGTACATATTTAGGTGGTCTT 57.390 39.130 0.00 0.00 0.00 3.01
2282 8815 5.985911 AGCGTACATATTTAGGTGGTCTTT 58.014 37.500 0.00 0.00 0.00 2.52
2283 8816 6.412214 AGCGTACATATTTAGGTGGTCTTTT 58.588 36.000 0.00 0.00 0.00 2.27
2284 8817 7.558604 AGCGTACATATTTAGGTGGTCTTTTA 58.441 34.615 0.00 0.00 0.00 1.52
2285 8818 8.208903 AGCGTACATATTTAGGTGGTCTTTTAT 58.791 33.333 0.00 0.00 0.00 1.40
2286 8819 8.280497 GCGTACATATTTAGGTGGTCTTTTATG 58.720 37.037 0.00 0.00 0.00 1.90
2287 8820 8.770828 CGTACATATTTAGGTGGTCTTTTATGG 58.229 37.037 0.00 0.00 0.00 2.74
2288 8821 9.623000 GTACATATTTAGGTGGTCTTTTATGGT 57.377 33.333 0.00 0.00 0.00 3.55
2290 8823 8.966868 ACATATTTAGGTGGTCTTTTATGGTTG 58.033 33.333 0.00 0.00 0.00 3.77
2291 8824 6.850752 ATTTAGGTGGTCTTTTATGGTTGG 57.149 37.500 0.00 0.00 0.00 3.77
2292 8825 3.169512 AGGTGGTCTTTTATGGTTGGG 57.830 47.619 0.00 0.00 0.00 4.12
2293 8826 2.449345 AGGTGGTCTTTTATGGTTGGGT 59.551 45.455 0.00 0.00 0.00 4.51
2294 8827 2.560981 GGTGGTCTTTTATGGTTGGGTG 59.439 50.000 0.00 0.00 0.00 4.61
2295 8828 3.492337 GTGGTCTTTTATGGTTGGGTGA 58.508 45.455 0.00 0.00 0.00 4.02
2296 8829 3.892588 GTGGTCTTTTATGGTTGGGTGAA 59.107 43.478 0.00 0.00 0.00 3.18
2297 8830 4.342665 GTGGTCTTTTATGGTTGGGTGAAA 59.657 41.667 0.00 0.00 0.00 2.69
2298 8831 4.962995 TGGTCTTTTATGGTTGGGTGAAAA 59.037 37.500 0.00 0.00 0.00 2.29
2299 8832 5.604650 TGGTCTTTTATGGTTGGGTGAAAAT 59.395 36.000 0.00 0.00 0.00 1.82
2300 8833 6.100424 TGGTCTTTTATGGTTGGGTGAAAATT 59.900 34.615 0.00 0.00 0.00 1.82
2301 8834 7.290248 TGGTCTTTTATGGTTGGGTGAAAATTA 59.710 33.333 0.00 0.00 0.00 1.40
2302 8835 7.817478 GGTCTTTTATGGTTGGGTGAAAATTAG 59.183 37.037 0.00 0.00 0.00 1.73
2303 8836 7.817478 GTCTTTTATGGTTGGGTGAAAATTAGG 59.183 37.037 0.00 0.00 0.00 2.69
2304 8837 7.730784 TCTTTTATGGTTGGGTGAAAATTAGGA 59.269 33.333 0.00 0.00 0.00 2.94
2305 8838 7.857404 TTTATGGTTGGGTGAAAATTAGGAA 57.143 32.000 0.00 0.00 0.00 3.36
2306 8839 7.475137 TTATGGTTGGGTGAAAATTAGGAAG 57.525 36.000 0.00 0.00 0.00 3.46
2307 8840 5.068215 TGGTTGGGTGAAAATTAGGAAGA 57.932 39.130 0.00 0.00 0.00 2.87
2308 8841 5.650283 TGGTTGGGTGAAAATTAGGAAGAT 58.350 37.500 0.00 0.00 0.00 2.40
2309 8842 5.480073 TGGTTGGGTGAAAATTAGGAAGATG 59.520 40.000 0.00 0.00 0.00 2.90
2310 8843 5.105351 GGTTGGGTGAAAATTAGGAAGATGG 60.105 44.000 0.00 0.00 0.00 3.51
2311 8844 4.609301 TGGGTGAAAATTAGGAAGATGGG 58.391 43.478 0.00 0.00 0.00 4.00
2312 8845 3.384789 GGGTGAAAATTAGGAAGATGGGC 59.615 47.826 0.00 0.00 0.00 5.36
2313 8846 3.384789 GGTGAAAATTAGGAAGATGGGCC 59.615 47.826 0.00 0.00 0.00 5.80
2314 8847 3.384789 GTGAAAATTAGGAAGATGGGCCC 59.615 47.826 17.59 17.59 0.00 5.80
2315 8848 3.012274 TGAAAATTAGGAAGATGGGCCCA 59.988 43.478 30.92 30.92 0.00 5.36
2316 8849 3.999764 AAATTAGGAAGATGGGCCCAT 57.000 42.857 38.12 38.12 39.69 4.00
2317 8850 3.999764 AATTAGGAAGATGGGCCCATT 57.000 42.857 37.69 24.71 36.70 3.16
2318 8851 2.754012 TTAGGAAGATGGGCCCATTG 57.246 50.000 37.69 0.00 36.70 2.82
2319 8852 0.852842 TAGGAAGATGGGCCCATTGG 59.147 55.000 37.69 0.00 36.70 3.16
2320 8853 0.925720 AGGAAGATGGGCCCATTGGA 60.926 55.000 37.69 10.54 36.70 3.53
2321 8854 0.468771 GGAAGATGGGCCCATTGGAG 60.469 60.000 37.69 0.00 36.70 3.86
2322 8855 0.552848 GAAGATGGGCCCATTGGAGA 59.447 55.000 37.69 8.75 36.70 3.71
2323 8856 1.009997 AAGATGGGCCCATTGGAGAA 58.990 50.000 37.69 7.85 36.70 2.87
2324 8857 0.554792 AGATGGGCCCATTGGAGAAG 59.445 55.000 37.69 0.00 36.70 2.85
2325 8858 0.259938 GATGGGCCCATTGGAGAAGT 59.740 55.000 37.69 14.28 36.70 3.01
2326 8859 0.712380 ATGGGCCCATTGGAGAAGTT 59.288 50.000 32.75 6.38 31.82 2.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 5.467705 GTGGTGTTTCTGTCTCGTAGTAAT 58.532 41.667 0.00 0.00 0.00 1.89
3 4 3.254166 GGTGGTGTTTCTGTCTCGTAGTA 59.746 47.826 0.00 0.00 0.00 1.82
4 5 2.035576 GGTGGTGTTTCTGTCTCGTAGT 59.964 50.000 0.00 0.00 0.00 2.73
5 6 2.296471 AGGTGGTGTTTCTGTCTCGTAG 59.704 50.000 0.00 0.00 0.00 3.51
18 19 2.949177 TGCAGATTTGTAGGTGGTGT 57.051 45.000 0.00 0.00 0.00 4.16
72 73 4.873827 TGAGCCGTTGGATTTTGTATAGAC 59.126 41.667 0.00 0.00 0.00 2.59
139 163 4.293626 GCGTGCGTGTGTGTGGAC 62.294 66.667 0.00 0.00 0.00 4.02
218 507 5.871396 TGAGCCGTTTATAGGAGAGAAAT 57.129 39.130 0.00 0.00 0.00 2.17
263 2385 1.076559 TCAAGGATGCAGCCATGGG 60.077 57.895 24.56 10.27 0.00 4.00
315 2503 2.742372 CCGAGGTGGCAAACTCCG 60.742 66.667 0.00 0.00 37.80 4.63
333 2521 4.662961 TGGTGCTCGACGTGCTGG 62.663 66.667 21.05 0.00 0.00 4.85
352 2540 2.725312 GGAGCTGTCGAGGATGGCA 61.725 63.158 0.00 0.00 0.00 4.92
605 4043 2.809665 GCAAAGCTCGGATCTGGATCAT 60.810 50.000 11.93 0.00 39.54 2.45
606 4044 1.473965 GCAAAGCTCGGATCTGGATCA 60.474 52.381 11.93 0.00 39.54 2.92
618 4056 5.535406 TCACTATACTACCCTAGCAAAGCTC 59.465 44.000 0.00 0.00 40.44 4.09
636 4074 4.495422 GGACGACATCACTTGTTCACTAT 58.505 43.478 0.00 0.00 39.18 2.12
637 4075 3.305813 GGGACGACATCACTTGTTCACTA 60.306 47.826 0.00 0.00 39.18 2.74
639 4077 1.798813 GGGACGACATCACTTGTTCAC 59.201 52.381 0.00 0.00 39.18 3.18
657 4095 1.502231 CGTGATTAAGGATGAGCGGG 58.498 55.000 0.00 0.00 0.00 6.13
693 4131 1.550976 CTAGGCCATCTATCCGGGAAC 59.449 57.143 5.01 0.00 0.00 3.62
798 4262 3.070159 ACGTGGCTACTATGCTTGATCAT 59.930 43.478 0.00 0.00 0.00 2.45
854 4319 1.912417 CTAGCTAGATAGGCGTGGGT 58.088 55.000 16.15 0.00 34.52 4.51
913 4394 0.035152 CTGCTTATGGCTGGTGTGGA 60.035 55.000 0.00 0.00 42.39 4.02
950 4438 4.955450 AGGATATAGCTGAGCTGATCGAAT 59.045 41.667 18.79 3.61 40.10 3.34
962 4450 4.361420 CAGATCGATGCAGGATATAGCTG 58.639 47.826 0.54 0.00 0.00 4.24
963 4451 3.384146 CCAGATCGATGCAGGATATAGCT 59.616 47.826 0.54 0.00 0.00 3.32
964 4452 3.131933 ACCAGATCGATGCAGGATATAGC 59.868 47.826 0.54 0.00 0.00 2.97
965 4453 4.400567 TGACCAGATCGATGCAGGATATAG 59.599 45.833 0.54 0.00 0.00 1.31
966 4454 4.344104 TGACCAGATCGATGCAGGATATA 58.656 43.478 0.54 0.00 0.00 0.86
1103 4598 1.264826 TCACGACGTTCTGATCGACAA 59.735 47.619 14.43 0.00 40.86 3.18
1148 4646 3.429410 GGCAGTGGCAATTTTCATACCTC 60.429 47.826 12.58 0.00 43.71 3.85
1301 4811 2.626780 GCCTTTTCCCTGACGCACC 61.627 63.158 0.00 0.00 0.00 5.01
1335 4858 2.282958 ACGAAGAGACCTCCCGCA 60.283 61.111 0.00 0.00 32.10 5.69
1467 5063 2.801111 CTGACCGATCAATGCTCTCATG 59.199 50.000 0.00 0.00 33.30 3.07
1535 5134 8.352942 AGAAACAAAACTGGATGATACAAGAAC 58.647 33.333 0.00 0.00 0.00 3.01
1560 5159 9.248291 GTTTTTGTGGTGCATGGAATAATATAG 57.752 33.333 0.00 0.00 0.00 1.31
1585 5977 9.817365 CGTTTGCTAGTACGTACTATAATATGT 57.183 33.333 30.29 9.35 38.06 2.29
1598 5993 4.792949 CGTATTTGACGTTTGCTAGTACG 58.207 43.478 11.03 11.03 46.86 3.67
1621 6016 4.405548 ACGGAGGAAGTACTGACTAACTT 58.594 43.478 0.00 0.00 38.62 2.66
1629 6024 0.679002 TCCGGACGGAGGAAGTACTG 60.679 60.000 9.76 0.00 39.76 2.74
1637 6032 3.573110 AGATAAGTATTTCCGGACGGAGG 59.427 47.826 13.64 0.00 46.06 4.30
1639 6034 4.646040 TGAAGATAAGTATTTCCGGACGGA 59.354 41.667 1.83 9.76 43.52 4.69
1641 6036 6.897259 TTTGAAGATAAGTATTTCCGGACG 57.103 37.500 1.83 0.00 0.00 4.79
1644 6039 7.996385 ACCATTTTGAAGATAAGTATTTCCGG 58.004 34.615 0.00 0.00 0.00 5.14
1645 6040 9.289303 CAACCATTTTGAAGATAAGTATTTCCG 57.711 33.333 0.00 0.00 0.00 4.30
1653 6048 8.306038 TCCATTCACAACCATTTTGAAGATAAG 58.694 33.333 0.00 0.00 32.91 1.73
1654 6049 8.187913 TCCATTCACAACCATTTTGAAGATAA 57.812 30.769 0.00 0.00 32.91 1.75
1655 6050 7.773489 TCCATTCACAACCATTTTGAAGATA 57.227 32.000 0.00 0.00 32.91 1.98
1658 6053 6.225318 ACATCCATTCACAACCATTTTGAAG 58.775 36.000 0.00 0.00 32.91 3.02
1661 6056 7.549839 AGATACATCCATTCACAACCATTTTG 58.450 34.615 0.00 0.00 0.00 2.44
1662 6057 7.722949 AGATACATCCATTCACAACCATTTT 57.277 32.000 0.00 0.00 0.00 1.82
1665 6060 9.507329 GTTATAGATACATCCATTCACAACCAT 57.493 33.333 0.00 0.00 0.00 3.55
1666 6061 8.713971 AGTTATAGATACATCCATTCACAACCA 58.286 33.333 0.00 0.00 0.00 3.67
1709 6104 9.158233 CGGAAATACTTGTCCTTGAAATAGTTA 57.842 33.333 0.00 0.00 0.00 2.24
1710 6105 7.120726 CCGGAAATACTTGTCCTTGAAATAGTT 59.879 37.037 0.00 0.00 0.00 2.24
1711 6106 6.598064 CCGGAAATACTTGTCCTTGAAATAGT 59.402 38.462 0.00 0.00 0.00 2.12
1712 6107 6.821665 TCCGGAAATACTTGTCCTTGAAATAG 59.178 38.462 0.00 0.00 0.00 1.73
1713 6108 6.596497 GTCCGGAAATACTTGTCCTTGAAATA 59.404 38.462 5.23 0.00 0.00 1.40
1714 6109 5.414765 GTCCGGAAATACTTGTCCTTGAAAT 59.585 40.000 5.23 0.00 0.00 2.17
1715 6110 4.758165 GTCCGGAAATACTTGTCCTTGAAA 59.242 41.667 5.23 0.00 0.00 2.69
1716 6111 4.320870 GTCCGGAAATACTTGTCCTTGAA 58.679 43.478 5.23 0.00 0.00 2.69
1717 6112 3.615592 CGTCCGGAAATACTTGTCCTTGA 60.616 47.826 5.23 0.00 0.00 3.02
1718 6113 2.671396 CGTCCGGAAATACTTGTCCTTG 59.329 50.000 5.23 0.00 0.00 3.61
1719 6114 2.354403 CCGTCCGGAAATACTTGTCCTT 60.354 50.000 5.23 0.00 37.50 3.36
1720 6115 1.206371 CCGTCCGGAAATACTTGTCCT 59.794 52.381 5.23 0.00 37.50 3.85
1721 6116 1.205417 TCCGTCCGGAAATACTTGTCC 59.795 52.381 5.23 0.00 42.05 4.02
1722 6117 2.537401 CTCCGTCCGGAAATACTTGTC 58.463 52.381 5.23 0.00 44.66 3.18
1723 6118 1.206371 CCTCCGTCCGGAAATACTTGT 59.794 52.381 5.23 0.00 44.66 3.16
1724 6119 1.472728 CCCTCCGTCCGGAAATACTTG 60.473 57.143 5.23 0.00 44.66 3.16
1725 6120 0.828677 CCCTCCGTCCGGAAATACTT 59.171 55.000 5.23 0.00 44.66 2.24
1726 6121 0.032813 TCCCTCCGTCCGGAAATACT 60.033 55.000 5.23 0.00 44.66 2.12
1727 6122 0.388294 CTCCCTCCGTCCGGAAATAC 59.612 60.000 5.23 0.00 44.66 1.89
1728 6123 0.032813 ACTCCCTCCGTCCGGAAATA 60.033 55.000 5.23 0.00 44.66 1.40
1729 6124 0.032813 TACTCCCTCCGTCCGGAAAT 60.033 55.000 5.23 0.00 44.66 2.17
1730 6125 0.967380 GTACTCCCTCCGTCCGGAAA 60.967 60.000 5.23 0.00 44.66 3.13
1731 6126 1.379044 GTACTCCCTCCGTCCGGAA 60.379 63.158 5.23 0.00 44.66 4.30
1732 6127 1.929860 ATGTACTCCCTCCGTCCGGA 61.930 60.000 0.00 0.00 42.90 5.14
1733 6128 1.455217 ATGTACTCCCTCCGTCCGG 60.455 63.158 0.00 0.00 0.00 5.14
1734 6129 1.734137 CATGTACTCCCTCCGTCCG 59.266 63.158 0.00 0.00 0.00 4.79
1735 6130 1.327690 TGCATGTACTCCCTCCGTCC 61.328 60.000 0.00 0.00 0.00 4.79
1736 6131 0.179108 GTGCATGTACTCCCTCCGTC 60.179 60.000 6.69 0.00 0.00 4.79
1737 6132 0.902984 TGTGCATGTACTCCCTCCGT 60.903 55.000 15.25 0.00 0.00 4.69
1738 6133 0.460284 GTGTGCATGTACTCCCTCCG 60.460 60.000 15.25 0.00 0.00 4.63
1739 6134 0.905357 AGTGTGCATGTACTCCCTCC 59.095 55.000 15.25 0.00 0.00 4.30
1740 6135 2.009042 GCAGTGTGCATGTACTCCCTC 61.009 57.143 15.25 0.67 44.26 4.30
1741 6136 0.036010 GCAGTGTGCATGTACTCCCT 60.036 55.000 15.25 5.64 44.26 4.20
1742 6137 2.471255 GCAGTGTGCATGTACTCCC 58.529 57.895 15.25 3.46 44.26 4.30
1759 6154 0.097674 CTACAATGTGCGCTCAAGGC 59.902 55.000 16.95 0.00 37.64 4.35
1774 6178 7.050970 TGCTCAAGAGAAAGTAAGAACTACA 57.949 36.000 0.32 0.00 33.75 2.74
1775 6179 7.948278 TTGCTCAAGAGAAAGTAAGAACTAC 57.052 36.000 0.32 0.00 33.75 2.73
1824 8031 4.626042 GATAGAGACAGGGCACACATAAG 58.374 47.826 0.00 0.00 0.00 1.73
1829 8036 1.103803 TCGATAGAGACAGGGCACAC 58.896 55.000 0.00 0.00 42.67 3.82
1844 8051 0.390860 GCCACTAGAGCCATGTCGAT 59.609 55.000 0.00 0.00 0.00 3.59
1854 8061 3.971245 AGTTCTCTTTGGCCACTAGAG 57.029 47.619 27.36 27.36 37.37 2.43
1904 8428 5.941948 AATTCCCGTCAAGTTGAAACTAG 57.058 39.130 7.25 0.00 38.57 2.57
1910 8434 3.058777 GCGTTAAATTCCCGTCAAGTTGA 60.059 43.478 0.08 0.08 0.00 3.18
1936 8460 1.592081 CTGCTTCGATTGTGAGCTAGC 59.408 52.381 6.62 6.62 0.00 3.42
2011 8535 1.452953 ATGAATGGCTCATGGCGCAG 61.453 55.000 10.83 0.00 43.49 5.18
2012 8536 1.454295 ATGAATGGCTCATGGCGCA 60.454 52.632 10.83 0.00 43.49 6.09
2013 8537 3.440151 ATGAATGGCTCATGGCGC 58.560 55.556 0.00 0.00 43.49 6.53
2019 8543 1.067425 GTTTGCTGCATGAATGGCTCA 60.067 47.619 1.84 0.00 38.81 4.26
2025 8549 0.813184 CGGAGGTTTGCTGCATGAAT 59.187 50.000 1.84 0.00 0.00 2.57
2145 8669 2.203728 TAGGCGTGGGTGGTCTGT 60.204 61.111 0.00 0.00 0.00 3.41
2170 8703 4.220382 TGATCAAAATTTGGCTCACGGATT 59.780 37.500 5.83 0.00 0.00 3.01
2171 8704 3.763360 TGATCAAAATTTGGCTCACGGAT 59.237 39.130 5.83 0.00 0.00 4.18
2191 8724 1.269778 CGTCAACTGTTCAGCCTCTGA 60.270 52.381 0.00 0.00 38.87 3.27
2193 8726 0.601311 GCGTCAACTGTTCAGCCTCT 60.601 55.000 0.00 0.00 0.00 3.69
2218 8751 4.895116 CGTTGCTCGTCTATAGTACGTTAC 59.105 45.833 18.05 12.11 41.08 2.50
2232 8765 1.694639 GTAAGTGTAGCGTTGCTCGT 58.305 50.000 0.00 0.00 40.44 4.18
2233 8766 0.633733 CGTAAGTGTAGCGTTGCTCG 59.366 55.000 0.00 0.00 40.44 5.03
2248 8781 9.663904 CCTAAATATGTACGCTAAGTTACGTAA 57.336 33.333 3.29 3.29 45.38 3.18
2249 8782 8.836413 ACCTAAATATGTACGCTAAGTTACGTA 58.164 33.333 11.28 11.28 43.35 3.57
2250 8783 7.645340 CACCTAAATATGTACGCTAAGTTACGT 59.355 37.037 12.76 12.76 45.85 3.57
2251 8784 7.113965 CCACCTAAATATGTACGCTAAGTTACG 59.886 40.741 4.14 4.14 0.00 3.18
2252 8785 7.922811 ACCACCTAAATATGTACGCTAAGTTAC 59.077 37.037 0.00 0.00 0.00 2.50
2253 8786 8.010733 ACCACCTAAATATGTACGCTAAGTTA 57.989 34.615 0.00 0.00 0.00 2.24
2254 8787 6.881570 ACCACCTAAATATGTACGCTAAGTT 58.118 36.000 0.00 0.00 0.00 2.66
2255 8788 6.323225 AGACCACCTAAATATGTACGCTAAGT 59.677 38.462 0.00 0.00 0.00 2.24
2256 8789 6.746120 AGACCACCTAAATATGTACGCTAAG 58.254 40.000 0.00 0.00 0.00 2.18
2257 8790 6.720112 AGACCACCTAAATATGTACGCTAA 57.280 37.500 0.00 0.00 0.00 3.09
2258 8791 6.720112 AAGACCACCTAAATATGTACGCTA 57.280 37.500 0.00 0.00 0.00 4.26
2259 8792 5.609533 AAGACCACCTAAATATGTACGCT 57.390 39.130 0.00 0.00 0.00 5.07
2260 8793 6.673154 AAAAGACCACCTAAATATGTACGC 57.327 37.500 0.00 0.00 0.00 4.42
2261 8794 8.770828 CCATAAAAGACCACCTAAATATGTACG 58.229 37.037 0.00 0.00 0.00 3.67
2262 8795 9.623000 ACCATAAAAGACCACCTAAATATGTAC 57.377 33.333 0.00 0.00 0.00 2.90
2264 8797 8.966868 CAACCATAAAAGACCACCTAAATATGT 58.033 33.333 0.00 0.00 0.00 2.29
2265 8798 8.413229 CCAACCATAAAAGACCACCTAAATATG 58.587 37.037 0.00 0.00 0.00 1.78
2266 8799 7.563556 CCCAACCATAAAAGACCACCTAAATAT 59.436 37.037 0.00 0.00 0.00 1.28
2267 8800 6.893005 CCCAACCATAAAAGACCACCTAAATA 59.107 38.462 0.00 0.00 0.00 1.40
2268 8801 5.719563 CCCAACCATAAAAGACCACCTAAAT 59.280 40.000 0.00 0.00 0.00 1.40
2269 8802 5.081032 CCCAACCATAAAAGACCACCTAAA 58.919 41.667 0.00 0.00 0.00 1.85
2270 8803 4.106663 ACCCAACCATAAAAGACCACCTAA 59.893 41.667 0.00 0.00 0.00 2.69
2271 8804 3.658705 ACCCAACCATAAAAGACCACCTA 59.341 43.478 0.00 0.00 0.00 3.08
2272 8805 2.449345 ACCCAACCATAAAAGACCACCT 59.551 45.455 0.00 0.00 0.00 4.00
2273 8806 2.560981 CACCCAACCATAAAAGACCACC 59.439 50.000 0.00 0.00 0.00 4.61
2274 8807 3.492337 TCACCCAACCATAAAAGACCAC 58.508 45.455 0.00 0.00 0.00 4.16
2275 8808 3.885976 TCACCCAACCATAAAAGACCA 57.114 42.857 0.00 0.00 0.00 4.02
2276 8809 5.538849 TTTTCACCCAACCATAAAAGACC 57.461 39.130 0.00 0.00 0.00 3.85
2277 8810 7.817478 CCTAATTTTCACCCAACCATAAAAGAC 59.183 37.037 0.00 0.00 0.00 3.01
2278 8811 7.730784 TCCTAATTTTCACCCAACCATAAAAGA 59.269 33.333 0.00 0.00 0.00 2.52
2279 8812 7.902087 TCCTAATTTTCACCCAACCATAAAAG 58.098 34.615 0.00 0.00 0.00 2.27
2280 8813 7.857404 TCCTAATTTTCACCCAACCATAAAA 57.143 32.000 0.00 0.00 0.00 1.52
2281 8814 7.730784 TCTTCCTAATTTTCACCCAACCATAAA 59.269 33.333 0.00 0.00 0.00 1.40
2282 8815 7.242359 TCTTCCTAATTTTCACCCAACCATAA 58.758 34.615 0.00 0.00 0.00 1.90
2283 8816 6.795590 TCTTCCTAATTTTCACCCAACCATA 58.204 36.000 0.00 0.00 0.00 2.74
2284 8817 5.650283 TCTTCCTAATTTTCACCCAACCAT 58.350 37.500 0.00 0.00 0.00 3.55
2285 8818 5.068215 TCTTCCTAATTTTCACCCAACCA 57.932 39.130 0.00 0.00 0.00 3.67
2286 8819 5.105351 CCATCTTCCTAATTTTCACCCAACC 60.105 44.000 0.00 0.00 0.00 3.77
2287 8820 5.105351 CCCATCTTCCTAATTTTCACCCAAC 60.105 44.000 0.00 0.00 0.00 3.77
2288 8821 5.022787 CCCATCTTCCTAATTTTCACCCAA 58.977 41.667 0.00 0.00 0.00 4.12
2289 8822 4.609301 CCCATCTTCCTAATTTTCACCCA 58.391 43.478 0.00 0.00 0.00 4.51
2290 8823 3.384789 GCCCATCTTCCTAATTTTCACCC 59.615 47.826 0.00 0.00 0.00 4.61
2291 8824 3.384789 GGCCCATCTTCCTAATTTTCACC 59.615 47.826 0.00 0.00 0.00 4.02
2292 8825 3.384789 GGGCCCATCTTCCTAATTTTCAC 59.615 47.826 19.95 0.00 0.00 3.18
2293 8826 3.012274 TGGGCCCATCTTCCTAATTTTCA 59.988 43.478 24.45 0.00 0.00 2.69
2294 8827 3.642141 TGGGCCCATCTTCCTAATTTTC 58.358 45.455 24.45 0.00 0.00 2.29
2295 8828 3.774842 TGGGCCCATCTTCCTAATTTT 57.225 42.857 24.45 0.00 0.00 1.82
2296 8829 3.969312 CAATGGGCCCATCTTCCTAATTT 59.031 43.478 37.44 16.01 35.31 1.82
2297 8830 3.580039 CAATGGGCCCATCTTCCTAATT 58.420 45.455 37.44 16.82 35.31 1.40
2298 8831 2.158264 CCAATGGGCCCATCTTCCTAAT 60.158 50.000 37.44 16.85 35.31 1.73
2299 8832 1.217689 CCAATGGGCCCATCTTCCTAA 59.782 52.381 37.44 6.40 35.31 2.69
2300 8833 0.852842 CCAATGGGCCCATCTTCCTA 59.147 55.000 37.44 7.29 35.31 2.94
2301 8834 0.925720 TCCAATGGGCCCATCTTCCT 60.926 55.000 37.44 19.30 35.31 3.36
2302 8835 0.468771 CTCCAATGGGCCCATCTTCC 60.469 60.000 37.44 0.98 35.31 3.46
2303 8836 0.552848 TCTCCAATGGGCCCATCTTC 59.447 55.000 37.44 1.86 35.31 2.87
2304 8837 1.009997 TTCTCCAATGGGCCCATCTT 58.990 50.000 37.44 21.70 35.31 2.40
2305 8838 0.554792 CTTCTCCAATGGGCCCATCT 59.445 55.000 37.44 23.47 35.31 2.90
2306 8839 0.259938 ACTTCTCCAATGGGCCCATC 59.740 55.000 37.44 3.66 35.31 3.51
2307 8840 0.712380 AACTTCTCCAATGGGCCCAT 59.288 50.000 32.75 32.75 38.46 4.00
2308 8841 2.172900 AACTTCTCCAATGGGCCCA 58.827 52.632 30.92 30.92 0.00 5.36


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

AutoCloner maintained by Alex Coulton.