Multiple sequence alignment - TraesCS6D01G255300

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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 TraesCS6D01G255300 chr6D 100.000 4592 0 0 1 4592 360686758 360682167 0.000000e+00 8480.0
1 TraesCS6D01G255300 chr6B 92.801 2903 131 28 1738 4592 542227780 542224908 0.000000e+00 4132.0
2 TraesCS6D01G255300 chr6B 87.809 1337 76 38 288 1588 542229114 542227829 0.000000e+00 1485.0
3 TraesCS6D01G255300 chr6B 89.231 260 13 5 1 258 542231142 542230896 1.240000e-80 311.0
4 TraesCS6D01G255300 chr6A 92.505 2922 147 32 1726 4592 501796019 501793115 0.000000e+00 4117.0
5 TraesCS6D01G255300 chr6A 89.776 802 41 8 819 1588 501796848 501796056 0.000000e+00 989.0
6 TraesCS6D01G255300 chr6A 82.399 767 59 35 1 751 501800543 501799837 2.360000e-167 599.0
7 TraesCS6D01G255300 chr6A 88.235 119 5 4 1608 1726 222554897 222555006 2.880000e-27 134.0
8 TraesCS6D01G255300 chr5D 82.927 492 44 21 4123 4592 458778518 458778045 1.540000e-109 407.0
9 TraesCS6D01G255300 chr5D 84.038 213 27 7 3778 3989 458778834 458778628 1.010000e-46 198.0
10 TraesCS6D01G255300 chr5D 81.295 139 11 6 1596 1730 414223048 414223175 1.050000e-16 99.0
11 TraesCS6D01G255300 chr5B 90.411 146 13 1 4447 4592 562454687 562454543 1.690000e-44 191.0
12 TraesCS6D01G255300 chr5B 80.833 240 27 10 4123 4360 562456474 562456252 2.200000e-38 171.0
13 TraesCS6D01G255300 chr7D 88.372 129 5 5 1608 1735 514658914 514658795 3.700000e-31 147.0
14 TraesCS6D01G255300 chr2D 86.508 126 7 2 1610 1734 625519656 625519540 3.730000e-26 130.0
15 TraesCS6D01G255300 chr3B 87.179 117 6 1 1609 1725 41018580 41018473 1.730000e-24 124.0
16 TraesCS6D01G255300 chr3B 100.000 47 0 0 1610 1656 41016694 41016740 2.280000e-13 87.9
17 TraesCS6D01G255300 chr3A 85.000 120 9 2 1608 1727 734786366 734786256 3.750000e-21 113.0
18 TraesCS6D01G255300 chr1D 82.787 122 9 7 1609 1729 24714461 24714571 1.050000e-16 99.0
19 TraesCS6D01G255300 chr4A 82.759 116 13 2 1610 1724 542273198 542273307 3.780000e-16 97.1
20 TraesCS6D01G255300 chr7A 94.737 38 2 0 1657 1694 189296888 189296925 4.960000e-05 60.2


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 TraesCS6D01G255300 chr6D 360682167 360686758 4591 True 8480.000000 8480 100.000000 1 4592 1 chr6D.!!$R1 4591
1 TraesCS6D01G255300 chr6B 542224908 542231142 6234 True 1976.000000 4132 89.947000 1 4592 3 chr6B.!!$R1 4591
2 TraesCS6D01G255300 chr6A 501793115 501800543 7428 True 1901.666667 4117 88.226667 1 4592 3 chr6A.!!$R1 4591
3 TraesCS6D01G255300 chr5D 458778045 458778834 789 True 302.500000 407 83.482500 3778 4592 2 chr5D.!!$R1 814

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
804 2633 0.031721 AAACGACCAGACCGACAGAC 59.968 55.0 0.00 0.0 0.0 3.51 F
812 2641 0.314302 AGACCGACAGACAAGGAACG 59.686 55.0 0.00 0.0 0.0 3.95 F
2654 7448 0.679505 TTGTAGTGCTGGACGAAGCT 59.320 50.0 10.05 0.0 43.9 3.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2238 7029 0.453950 GTGCAGCATTGACTGAAGCG 60.454 55.000 0.0 0.0 40.25 4.68 R
2723 7517 2.803386 TGCTCGTTTGCTAAATGTTCGA 59.197 40.909 0.0 0.0 0.00 3.71 R
4031 8860 2.666022 GTGTTGTGCAAAGGTTGTGTTC 59.334 45.455 0.0 0.0 0.00 3.18 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
29 30 6.326375 AGCAGTCTAGAAATAGTTCGAGTTG 58.674 40.000 11.87 12.06 37.64 3.16
62 63 1.410882 CTTCTCCGAACCTGATCCTCC 59.589 57.143 0.00 0.00 0.00 4.30
82 83 3.788937 CCGAGGAAACGGTTATGTATGT 58.211 45.455 0.00 0.00 46.70 2.29
141 144 4.853196 CCTCGTGTTGCTTTGTTCAATATG 59.147 41.667 0.00 0.00 0.00 1.78
169 173 9.554395 TTGGTTTGGATGTAGTATGTATGTATG 57.446 33.333 0.00 0.00 0.00 2.39
206 210 2.709999 CCCGTACGTGCGTTTCGTC 61.710 63.158 24.09 0.00 41.72 4.20
211 215 4.696172 CGTGCGTTTCGTCGTGCC 62.696 66.667 0.00 0.00 0.00 5.01
216 220 3.723348 GTTTCGTCGTGCCCCTGC 61.723 66.667 0.00 0.00 38.26 4.85
271 275 4.778143 GCCGGGCGGTTCATGACT 62.778 66.667 1.81 0.00 37.65 3.41
272 276 2.897207 CCGGGCGGTTCATGACTA 59.103 61.111 0.00 0.00 0.00 2.59
273 277 1.520787 CCGGGCGGTTCATGACTAC 60.521 63.158 0.00 0.00 0.00 2.73
274 278 1.520787 CGGGCGGTTCATGACTACC 60.521 63.158 6.51 6.51 0.00 3.18
283 287 0.170339 TCATGACTACCGTGACAGCG 59.830 55.000 0.00 0.00 35.96 5.18
287 291 0.179194 GACTACCGTGACAGCGACTC 60.179 60.000 0.00 0.00 0.00 3.36
291 295 1.079819 CCGTGACAGCGACTCCATT 60.080 57.895 0.00 0.00 0.00 3.16
303 307 0.824759 ACTCCATTCCGTAGCTGTCC 59.175 55.000 0.00 0.00 0.00 4.02
335 2112 2.178912 GCTTGTTGCCTACCACTACA 57.821 50.000 0.00 0.00 35.15 2.74
337 2114 2.484264 GCTTGTTGCCTACCACTACAAG 59.516 50.000 11.86 11.86 46.65 3.16
338 2115 2.178912 TGTTGCCTACCACTACAAGC 57.821 50.000 0.00 0.00 0.00 4.01
339 2116 1.697432 TGTTGCCTACCACTACAAGCT 59.303 47.619 0.00 0.00 0.00 3.74
340 2117 2.289444 TGTTGCCTACCACTACAAGCTC 60.289 50.000 0.00 0.00 0.00 4.09
341 2118 0.902531 TGCCTACCACTACAAGCTCC 59.097 55.000 0.00 0.00 0.00 4.70
342 2119 0.902531 GCCTACCACTACAAGCTCCA 59.097 55.000 0.00 0.00 0.00 3.86
343 2120 1.405661 GCCTACCACTACAAGCTCCAC 60.406 57.143 0.00 0.00 0.00 4.02
344 2121 1.135083 CCTACCACTACAAGCTCCACG 60.135 57.143 0.00 0.00 0.00 4.94
345 2122 1.816835 CTACCACTACAAGCTCCACGA 59.183 52.381 0.00 0.00 0.00 4.35
346 2123 0.603569 ACCACTACAAGCTCCACGAG 59.396 55.000 0.00 0.00 0.00 4.18
347 2124 0.603569 CCACTACAAGCTCCACGAGT 59.396 55.000 0.00 0.00 31.39 4.18
348 2125 1.402984 CCACTACAAGCTCCACGAGTC 60.403 57.143 0.00 0.00 31.39 3.36
349 2126 0.522180 ACTACAAGCTCCACGAGTCG 59.478 55.000 11.85 11.85 31.39 4.18
350 2127 0.522180 CTACAAGCTCCACGAGTCGT 59.478 55.000 13.56 13.56 42.36 4.34
397 2178 3.496130 AGATCAAGTCACGCAAAACTGAG 59.504 43.478 0.00 0.00 0.00 3.35
412 2193 2.202987 GAGACGCCTGCCTGATGG 60.203 66.667 0.00 0.00 0.00 3.51
444 2230 0.807667 ACTCTAAAGCAGCCGCGATG 60.808 55.000 8.23 7.39 45.49 3.84
485 2271 0.449388 CTTTGGCACGGAAGATGAGC 59.551 55.000 0.00 0.00 0.00 4.26
486 2272 0.250684 TTTGGCACGGAAGATGAGCA 60.251 50.000 0.00 0.00 0.00 4.26
487 2273 0.674581 TTGGCACGGAAGATGAGCAG 60.675 55.000 0.00 0.00 0.00 4.24
641 2444 2.892425 GCACGCAGAATCCCTCGG 60.892 66.667 0.00 0.00 0.00 4.63
707 2510 1.372087 GGCAGCCAGAATCCTTCGTG 61.372 60.000 6.55 0.00 34.02 4.35
738 2541 3.032609 GACGCCCGCATCTCATCG 61.033 66.667 0.00 0.00 0.00 3.84
802 2631 1.002250 CGAAACGACCAGACCGACAG 61.002 60.000 0.00 0.00 0.00 3.51
804 2633 0.031721 AAACGACCAGACCGACAGAC 59.968 55.000 0.00 0.00 0.00 3.51
812 2641 0.314302 AGACCGACAGACAAGGAACG 59.686 55.000 0.00 0.00 0.00 3.95
823 5547 4.699522 AGGAACGAACCCAGGCGC 62.700 66.667 0.00 0.00 0.00 6.53
1265 6002 1.271762 CGAGGTATCCCTATCCGTCCA 60.272 57.143 0.00 0.00 42.86 4.02
1289 6027 2.416162 GCTTAGACTCTCTTCACCGTGG 60.416 54.545 0.00 0.00 0.00 4.94
1360 6119 3.911868 TGCTTCGGGAATGAAATGTTTG 58.088 40.909 0.00 0.00 0.00 2.93
1370 6129 5.387342 GGAATGAAATGTTTGAAAACGAGCG 60.387 40.000 0.00 0.00 41.74 5.03
1398 6157 1.197721 CGTCTCAGCTTGCCGAATTTT 59.802 47.619 0.00 0.00 0.00 1.82
1401 6160 3.188460 GTCTCAGCTTGCCGAATTTTGTA 59.812 43.478 0.00 0.00 0.00 2.41
1415 6174 7.483691 GCCGAATTTTGTATCGAAGTTGTAATT 59.516 33.333 0.00 0.00 41.43 1.40
1421 6180 8.996988 TTTGTATCGAAGTTGTAATTTGTGAC 57.003 30.769 0.00 0.00 0.00 3.67
1422 6181 7.716768 TGTATCGAAGTTGTAATTTGTGACA 57.283 32.000 0.00 0.00 0.00 3.58
1439 6198 4.644234 TGTGACACCTTGATGTTGTTTGAT 59.356 37.500 2.45 0.00 31.24 2.57
1442 6201 5.186996 ACACCTTGATGTTGTTTGATCAC 57.813 39.130 0.00 0.00 0.00 3.06
1453 6213 7.769272 TGTTGTTTGATCACTTTGGAAATTC 57.231 32.000 0.00 0.00 0.00 2.17
1454 6214 6.760770 TGTTGTTTGATCACTTTGGAAATTCC 59.239 34.615 4.79 4.79 36.96 3.01
1470 6230 4.373156 AATTCCAACTCTTGCTAGGTGT 57.627 40.909 0.00 0.00 31.92 4.16
1487 6247 1.889573 GTTATCTGCTCGGCTGGGC 60.890 63.158 11.59 11.59 0.00 5.36
1514 6274 7.329717 CGTAAACCAGAGGATATAATCAAGCTC 59.670 40.741 0.00 0.00 0.00 4.09
1544 6304 3.550820 TGAAAATCCATATGGTCCACCG 58.449 45.455 21.28 0.00 39.43 4.94
1572 6332 2.601763 GTGCGTACTTCTAATTCCCGTG 59.398 50.000 0.00 0.00 0.00 4.94
1575 6335 3.061697 GCGTACTTCTAATTCCCGTGTTG 59.938 47.826 0.00 0.00 0.00 3.33
1607 6380 6.299922 TCTAATGAGTGATGACCTCTATCGT 58.700 40.000 0.00 0.00 0.00 3.73
1610 6383 4.777463 TGAGTGATGACCTCTATCGTGTA 58.223 43.478 0.00 0.00 0.00 2.90
1611 6384 4.575236 TGAGTGATGACCTCTATCGTGTAC 59.425 45.833 0.00 0.00 0.00 2.90
1613 6386 4.817464 AGTGATGACCTCTATCGTGTACTC 59.183 45.833 0.00 0.00 0.00 2.59
1615 6388 2.928334 TGACCTCTATCGTGTACTCCC 58.072 52.381 0.00 0.00 0.00 4.30
1617 6390 3.140623 GACCTCTATCGTGTACTCCCTC 58.859 54.545 0.00 0.00 0.00 4.30
1618 6391 2.158638 ACCTCTATCGTGTACTCCCTCC 60.159 54.545 0.00 0.00 0.00 4.30
1620 6393 1.487976 TCTATCGTGTACTCCCTCCGT 59.512 52.381 0.00 0.00 0.00 4.69
1621 6394 2.092753 TCTATCGTGTACTCCCTCCGTT 60.093 50.000 0.00 0.00 0.00 4.44
1622 6395 1.101331 ATCGTGTACTCCCTCCGTTC 58.899 55.000 0.00 0.00 0.00 3.95
1623 6396 0.962356 TCGTGTACTCCCTCCGTTCC 60.962 60.000 0.00 0.00 0.00 3.62
1624 6397 1.246056 CGTGTACTCCCTCCGTTCCA 61.246 60.000 0.00 0.00 0.00 3.53
1625 6398 1.192428 GTGTACTCCCTCCGTTCCAT 58.808 55.000 0.00 0.00 0.00 3.41
1627 6400 2.963782 GTGTACTCCCTCCGTTCCATAT 59.036 50.000 0.00 0.00 0.00 1.78
1628 6401 3.387050 GTGTACTCCCTCCGTTCCATATT 59.613 47.826 0.00 0.00 0.00 1.28
1629 6402 4.586001 GTGTACTCCCTCCGTTCCATATTA 59.414 45.833 0.00 0.00 0.00 0.98
1630 6403 4.831155 TGTACTCCCTCCGTTCCATATTAG 59.169 45.833 0.00 0.00 0.00 1.73
1631 6404 3.924922 ACTCCCTCCGTTCCATATTAGT 58.075 45.455 0.00 0.00 0.00 2.24
1632 6405 4.296056 ACTCCCTCCGTTCCATATTAGTT 58.704 43.478 0.00 0.00 0.00 2.24
1633 6406 4.101119 ACTCCCTCCGTTCCATATTAGTTG 59.899 45.833 0.00 0.00 0.00 3.16
1634 6407 4.035112 TCCCTCCGTTCCATATTAGTTGT 58.965 43.478 0.00 0.00 0.00 3.32
1635 6408 4.100498 TCCCTCCGTTCCATATTAGTTGTC 59.900 45.833 0.00 0.00 0.00 3.18
1636 6409 4.049186 CCTCCGTTCCATATTAGTTGTCG 58.951 47.826 0.00 0.00 0.00 4.35
1637 6410 3.450578 TCCGTTCCATATTAGTTGTCGC 58.549 45.455 0.00 0.00 0.00 5.19
1638 6411 3.131577 TCCGTTCCATATTAGTTGTCGCT 59.868 43.478 0.00 0.00 0.00 4.93
1639 6412 3.489785 CCGTTCCATATTAGTTGTCGCTC 59.510 47.826 0.00 0.00 0.00 5.03
1640 6413 4.109766 CGTTCCATATTAGTTGTCGCTCA 58.890 43.478 0.00 0.00 0.00 4.26
1641 6414 4.565166 CGTTCCATATTAGTTGTCGCTCAA 59.435 41.667 0.00 0.00 0.00 3.02
1642 6415 5.062934 CGTTCCATATTAGTTGTCGCTCAAA 59.937 40.000 0.00 0.00 37.81 2.69
1643 6416 6.248631 GTTCCATATTAGTTGTCGCTCAAAC 58.751 40.000 0.00 0.00 37.81 2.93
1644 6417 5.483811 TCCATATTAGTTGTCGCTCAAACA 58.516 37.500 0.00 0.00 37.81 2.83
1645 6418 5.580691 TCCATATTAGTTGTCGCTCAAACAG 59.419 40.000 0.00 0.00 37.81 3.16
1646 6419 5.580691 CCATATTAGTTGTCGCTCAAACAGA 59.419 40.000 0.00 0.00 37.81 3.41
1647 6420 6.258727 CCATATTAGTTGTCGCTCAAACAGAT 59.741 38.462 0.00 0.00 37.81 2.90
1648 6421 4.990543 TTAGTTGTCGCTCAAACAGATG 57.009 40.909 0.00 0.00 37.81 2.90
1649 6422 2.838736 AGTTGTCGCTCAAACAGATGT 58.161 42.857 0.00 0.00 37.81 3.06
1650 6423 3.990092 AGTTGTCGCTCAAACAGATGTA 58.010 40.909 0.00 0.00 37.81 2.29
1651 6424 4.569943 AGTTGTCGCTCAAACAGATGTAT 58.430 39.130 0.00 0.00 37.81 2.29
1652 6425 4.627467 AGTTGTCGCTCAAACAGATGTATC 59.373 41.667 0.00 0.00 37.81 2.24
1653 6426 4.456280 TGTCGCTCAAACAGATGTATCT 57.544 40.909 0.00 0.00 37.72 1.98
1654 6427 5.576447 TGTCGCTCAAACAGATGTATCTA 57.424 39.130 0.00 0.00 34.85 1.98
1655 6428 5.582550 TGTCGCTCAAACAGATGTATCTAG 58.417 41.667 0.00 0.00 34.85 2.43
1656 6429 5.125578 TGTCGCTCAAACAGATGTATCTAGT 59.874 40.000 0.00 0.00 34.85 2.57
1657 6430 5.457148 GTCGCTCAAACAGATGTATCTAGTG 59.543 44.000 0.00 0.00 34.85 2.74
1658 6431 5.125578 TCGCTCAAACAGATGTATCTAGTGT 59.874 40.000 0.00 0.00 34.85 3.55
1659 6432 6.317893 TCGCTCAAACAGATGTATCTAGTGTA 59.682 38.462 0.00 0.00 34.85 2.90
1660 6433 7.013369 TCGCTCAAACAGATGTATCTAGTGTAT 59.987 37.037 0.00 0.00 34.85 2.29
1661 6434 7.324856 CGCTCAAACAGATGTATCTAGTGTATC 59.675 40.741 0.00 0.00 34.85 2.24
1662 6435 8.356657 GCTCAAACAGATGTATCTAGTGTATCT 58.643 37.037 0.00 0.00 34.85 1.98
1665 6438 9.619316 CAAACAGATGTATCTAGTGTATCTAGC 57.381 37.037 0.00 0.00 44.10 3.42
1666 6439 8.926092 AACAGATGTATCTAGTGTATCTAGCA 57.074 34.615 0.00 0.00 44.10 3.49
1667 6440 8.330466 ACAGATGTATCTAGTGTATCTAGCAC 57.670 38.462 0.00 0.00 44.10 4.40
1669 6442 8.450180 CAGATGTATCTAGTGTATCTAGCACTG 58.550 40.741 10.68 0.00 45.59 3.66
1670 6443 8.379331 AGATGTATCTAGTGTATCTAGCACTGA 58.621 37.037 10.68 7.34 45.59 3.41
1671 6444 8.926092 ATGTATCTAGTGTATCTAGCACTGAA 57.074 34.615 10.68 1.36 45.59 3.02
1672 6445 8.747538 TGTATCTAGTGTATCTAGCACTGAAA 57.252 34.615 10.68 0.00 45.59 2.69
1673 6446 9.355916 TGTATCTAGTGTATCTAGCACTGAAAT 57.644 33.333 10.68 5.37 45.59 2.17
1676 6449 7.862648 TCTAGTGTATCTAGCACTGAAATACG 58.137 38.462 10.68 0.00 45.59 3.06
1677 6450 6.452494 AGTGTATCTAGCACTGAAATACGT 57.548 37.500 0.00 0.00 44.52 3.57
1678 6451 6.496571 AGTGTATCTAGCACTGAAATACGTC 58.503 40.000 0.00 0.00 44.52 4.34
1679 6452 6.319152 AGTGTATCTAGCACTGAAATACGTCT 59.681 38.462 0.00 0.00 44.52 4.18
1680 6453 6.415280 GTGTATCTAGCACTGAAATACGTCTG 59.585 42.308 0.00 0.00 34.30 3.51
1681 6454 4.371855 TCTAGCACTGAAATACGTCTGG 57.628 45.455 0.00 0.00 0.00 3.86
1682 6455 4.014406 TCTAGCACTGAAATACGTCTGGA 58.986 43.478 0.00 0.00 0.00 3.86
1683 6456 3.895232 AGCACTGAAATACGTCTGGAT 57.105 42.857 0.00 0.00 0.00 3.41
1684 6457 5.826208 TCTAGCACTGAAATACGTCTGGATA 59.174 40.000 0.00 0.00 0.00 2.59
1685 6458 4.683832 AGCACTGAAATACGTCTGGATAC 58.316 43.478 0.00 0.00 0.00 2.24
1703 6476 6.610741 GGATACATCCATTTCTGAGACAAC 57.389 41.667 3.26 0.00 46.38 3.32
1704 6477 5.529060 GGATACATCCATTTCTGAGACAACC 59.471 44.000 3.26 0.00 46.38 3.77
1705 6478 4.371624 ACATCCATTTCTGAGACAACCA 57.628 40.909 0.00 0.00 0.00 3.67
1706 6479 4.728772 ACATCCATTTCTGAGACAACCAA 58.271 39.130 0.00 0.00 0.00 3.67
1707 6480 5.327732 ACATCCATTTCTGAGACAACCAAT 58.672 37.500 0.00 0.00 0.00 3.16
1708 6481 6.484288 ACATCCATTTCTGAGACAACCAATA 58.516 36.000 0.00 0.00 0.00 1.90
1709 6482 7.121382 ACATCCATTTCTGAGACAACCAATAT 58.879 34.615 0.00 0.00 0.00 1.28
1710 6483 7.067859 ACATCCATTTCTGAGACAACCAATATG 59.932 37.037 0.00 0.00 0.00 1.78
1711 6484 5.887598 TCCATTTCTGAGACAACCAATATGG 59.112 40.000 0.00 0.00 45.02 2.74
1712 6485 5.887598 CCATTTCTGAGACAACCAATATGGA 59.112 40.000 2.85 0.00 40.96 3.41
1713 6486 6.377996 CCATTTCTGAGACAACCAATATGGAA 59.622 38.462 2.85 0.00 40.96 3.53
1714 6487 6.817765 TTTCTGAGACAACCAATATGGAAC 57.182 37.500 2.85 0.00 40.96 3.62
1715 6488 4.503910 TCTGAGACAACCAATATGGAACG 58.496 43.478 2.85 0.00 40.96 3.95
1716 6489 3.605634 TGAGACAACCAATATGGAACGG 58.394 45.455 2.85 0.00 40.96 4.44
1717 6490 3.262151 TGAGACAACCAATATGGAACGGA 59.738 43.478 2.85 0.00 40.96 4.69
1718 6491 3.871594 GAGACAACCAATATGGAACGGAG 59.128 47.826 2.85 0.00 40.96 4.63
1719 6492 2.943033 GACAACCAATATGGAACGGAGG 59.057 50.000 2.85 0.00 40.96 4.30
1720 6493 2.297701 CAACCAATATGGAACGGAGGG 58.702 52.381 2.85 0.00 40.96 4.30
1721 6494 1.887797 ACCAATATGGAACGGAGGGA 58.112 50.000 2.85 0.00 40.96 4.20
1722 6495 1.768870 ACCAATATGGAACGGAGGGAG 59.231 52.381 2.85 0.00 40.96 4.30
1723 6496 1.768870 CCAATATGGAACGGAGGGAGT 59.231 52.381 0.00 0.00 40.96 3.85
1724 6497 2.969950 CCAATATGGAACGGAGGGAGTA 59.030 50.000 0.00 0.00 40.96 2.59
1725 6498 3.006967 CCAATATGGAACGGAGGGAGTAG 59.993 52.174 0.00 0.00 40.96 2.57
1726 6499 3.614568 ATATGGAACGGAGGGAGTAGT 57.385 47.619 0.00 0.00 0.00 2.73
1727 6500 4.736611 ATATGGAACGGAGGGAGTAGTA 57.263 45.455 0.00 0.00 0.00 1.82
1728 6501 3.614568 ATGGAACGGAGGGAGTAGTAT 57.385 47.619 0.00 0.00 0.00 2.12
1729 6502 3.393426 TGGAACGGAGGGAGTAGTATT 57.607 47.619 0.00 0.00 0.00 1.89
1730 6503 3.716431 TGGAACGGAGGGAGTAGTATTT 58.284 45.455 0.00 0.00 0.00 1.40
1731 6504 4.870636 TGGAACGGAGGGAGTAGTATTTA 58.129 43.478 0.00 0.00 0.00 1.40
1732 6505 4.891756 TGGAACGGAGGGAGTAGTATTTAG 59.108 45.833 0.00 0.00 0.00 1.85
1733 6506 4.892345 GGAACGGAGGGAGTAGTATTTAGT 59.108 45.833 0.00 0.00 0.00 2.24
1734 6507 5.009510 GGAACGGAGGGAGTAGTATTTAGTC 59.990 48.000 0.00 0.00 0.00 2.59
1735 6508 5.121380 ACGGAGGGAGTAGTATTTAGTCA 57.879 43.478 0.00 0.00 0.00 3.41
1736 6509 4.886489 ACGGAGGGAGTAGTATTTAGTCAC 59.114 45.833 0.00 0.00 0.00 3.67
1737 6510 5.131784 CGGAGGGAGTAGTATTTAGTCACT 58.868 45.833 0.00 0.00 33.60 3.41
1738 6511 5.239087 CGGAGGGAGTAGTATTTAGTCACTC 59.761 48.000 11.20 11.20 43.35 3.51
1739 6512 6.127793 GGAGGGAGTAGTATTTAGTCACTCA 58.872 44.000 18.14 0.00 44.97 3.41
1740 6513 6.039605 GGAGGGAGTAGTATTTAGTCACTCAC 59.960 46.154 18.14 4.36 44.97 3.51
1751 6524 5.545063 TTAGTCACTCACAAGGACATGAA 57.455 39.130 0.00 0.00 34.04 2.57
1762 6535 3.996921 AGGACATGAAATCTCAGCAGT 57.003 42.857 0.00 0.00 34.23 4.40
1769 6542 6.849502 ACATGAAATCTCAGCAGTAACATTG 58.150 36.000 0.00 0.00 34.23 2.82
1784 6557 8.026607 GCAGTAACATTGCTAATTTGGTTAGAA 58.973 33.333 0.00 0.00 41.99 2.10
1785 6558 9.559958 CAGTAACATTGCTAATTTGGTTAGAAG 57.440 33.333 0.00 0.00 41.99 2.85
1786 6559 8.244113 AGTAACATTGCTAATTTGGTTAGAAGC 58.756 33.333 0.00 0.00 41.99 3.86
1792 6565 5.643777 TGCTAATTTGGTTAGAAGCAGTCTC 59.356 40.000 0.00 0.00 41.99 3.36
1874 6663 7.951530 ACAGAAAAATATGAGCAACAAAAGG 57.048 32.000 0.00 0.00 0.00 3.11
1875 6664 6.930722 ACAGAAAAATATGAGCAACAAAAGGG 59.069 34.615 0.00 0.00 0.00 3.95
1879 6668 1.412079 ATGAGCAACAAAAGGGCACA 58.588 45.000 0.00 0.00 32.93 4.57
1884 6673 1.933181 GCAACAAAAGGGCACAAAGAC 59.067 47.619 0.00 0.00 0.00 3.01
1887 6676 3.245518 ACAAAAGGGCACAAAGACAAC 57.754 42.857 0.00 0.00 0.00 3.32
1893 6682 2.042979 AGGGCACAAAGACAACCCATAT 59.957 45.455 0.00 0.00 43.47 1.78
1896 6686 3.763897 GGCACAAAGACAACCCATATCTT 59.236 43.478 0.00 0.00 34.11 2.40
1898 6688 4.702131 GCACAAAGACAACCCATATCTTCT 59.298 41.667 0.00 0.00 31.44 2.85
1997 6787 1.372087 CTGATCCTGAAAGCCGCCAC 61.372 60.000 0.00 0.00 0.00 5.01
2024 6814 1.738365 GCTGCTCTCGCTGAAGATTCA 60.738 52.381 0.00 0.00 37.28 2.57
2057 6847 4.005650 CTGAGCACATACTTGTTGGATGT 58.994 43.478 0.00 0.00 32.34 3.06
2063 6853 2.949177 TACTTGTTGGATGTGGTGCT 57.051 45.000 0.00 0.00 0.00 4.40
2072 6862 1.681166 GGATGTGGTGCTGATGAGCTT 60.681 52.381 5.57 0.00 46.39 3.74
2103 6893 8.420374 TTTGATTATGAGGTTAGTTTCTAGCG 57.580 34.615 0.00 0.00 0.00 4.26
2106 6896 3.232213 TGAGGTTAGTTTCTAGCGCAG 57.768 47.619 11.47 5.22 0.00 5.18
2190 6981 3.807209 GCAGATGTGTACTTGAACCAGGT 60.807 47.826 0.00 0.00 0.00 4.00
2238 7029 7.807907 CCAACTTTTACCATGTATGAGTTTGAC 59.192 37.037 0.00 0.00 0.00 3.18
2284 7075 8.250143 TGTCATCAAAGGTAGCTAATGATCTA 57.750 34.615 16.18 8.30 0.00 1.98
2289 7080 8.262601 TCAAAGGTAGCTAATGATCTATTGGA 57.737 34.615 0.00 0.00 29.36 3.53
2376 7167 9.841880 CTGATTTGATATGACATTCATCATTCC 57.158 33.333 0.00 0.00 39.97 3.01
2417 7208 5.728741 ACTTCCTGATTTCTCCCTAGACATT 59.271 40.000 0.00 0.00 0.00 2.71
2477 7268 7.549842 CCAAAATGCATATTTTTGACATCTCCA 59.450 33.333 20.41 0.00 42.33 3.86
2486 7277 3.593442 TTGACATCTCCAAACAACCCT 57.407 42.857 0.00 0.00 0.00 4.34
2513 7304 5.613358 GCAGGTATATCATTGCCACTAAC 57.387 43.478 0.00 0.00 0.00 2.34
2527 7320 3.429543 GCCACTAACGTCGTGTCAATTTA 59.570 43.478 14.44 0.00 0.00 1.40
2528 7321 4.092383 GCCACTAACGTCGTGTCAATTTAT 59.908 41.667 14.44 0.00 0.00 1.40
2529 7322 5.390145 GCCACTAACGTCGTGTCAATTTATT 60.390 40.000 14.44 0.00 0.00 1.40
2530 7323 6.595794 CCACTAACGTCGTGTCAATTTATTT 58.404 36.000 14.44 0.00 0.00 1.40
2531 7324 6.518395 CCACTAACGTCGTGTCAATTTATTTG 59.482 38.462 14.44 0.00 36.61 2.32
2532 7325 6.031003 CACTAACGTCGTGTCAATTTATTTGC 59.969 38.462 0.00 0.00 35.16 3.68
2648 7442 1.992170 CGGTACTTGTAGTGCTGGAC 58.008 55.000 0.00 0.00 34.16 4.02
2654 7448 0.679505 TTGTAGTGCTGGACGAAGCT 59.320 50.000 10.05 0.00 43.90 3.74
2663 7457 2.742053 GCTGGACGAAGCTTATGTTGAA 59.258 45.455 0.00 0.00 40.20 2.69
2723 7517 8.302515 AGAAGCATGATAATTTGATTGTCCTT 57.697 30.769 0.00 0.00 30.34 3.36
2751 7545 0.391228 TAGCAAACGAGCAGGTGTGA 59.609 50.000 1.83 0.00 36.85 3.58
2771 7565 6.792250 GTGTGAGATTTGTGTTCTATCGTTTG 59.208 38.462 0.00 0.00 0.00 2.93
2772 7566 6.481976 TGTGAGATTTGTGTTCTATCGTTTGT 59.518 34.615 0.00 0.00 0.00 2.83
2777 7571 6.905544 TTTGTGTTCTATCGTTTGTGTGTA 57.094 33.333 0.00 0.00 0.00 2.90
2780 7574 7.806149 TGTGTTCTATCGTTTGTGTGTATAG 57.194 36.000 0.00 0.00 0.00 1.31
2897 7693 7.013655 GGAGCATTTCCTCTAAGCATTATTGAA 59.986 37.037 0.00 0.00 43.16 2.69
2999 7795 6.477033 CAGTCTATTTGGAGGTACATCTTTCG 59.523 42.308 7.56 0.00 0.00 3.46
3051 7847 9.995003 TTTTGACAATTTGAACTTGGCTAATAT 57.005 25.926 2.79 0.00 32.61 1.28
3062 7858 5.815581 ACTTGGCTAATATGTCTGTTGGAA 58.184 37.500 0.00 0.00 0.00 3.53
3080 7876 6.603201 TGTTGGAACTTTCATTCTTGAAGAGT 59.397 34.615 0.00 0.00 42.60 3.24
3098 7894 6.767902 TGAAGAGTGTGAAAAATCTGCTACTT 59.232 34.615 0.00 0.00 0.00 2.24
3221 8017 8.712363 GGAAAAGATGCAAAGAAAATAAAGGTC 58.288 33.333 0.00 0.00 0.00 3.85
3229 8025 6.515832 CAAAGAAAATAAAGGTCTGGCTTGT 58.484 36.000 0.00 0.00 0.00 3.16
3330 8126 5.737063 CAAAATGTTGAGAACCTGGAACTGG 60.737 44.000 0.00 0.00 44.49 4.00
3348 8144 3.073062 ACTGGGATATGGGTTATCTGTGC 59.927 47.826 0.00 0.00 37.45 4.57
3373 8169 6.805713 TCGAGATCATTGCTATTCACACTTA 58.194 36.000 0.00 0.00 0.00 2.24
3374 8170 7.264947 TCGAGATCATTGCTATTCACACTTAA 58.735 34.615 0.00 0.00 0.00 1.85
3495 8292 1.620819 GGAGTGATGATCCGCCACTAT 59.379 52.381 10.47 0.00 40.80 2.12
3620 8417 6.795144 TGCCATGATTTACTTTGATGGAAT 57.205 33.333 0.00 0.00 36.45 3.01
3966 8764 6.668541 AAGTCGAATGTTCTATGGTGAATG 57.331 37.500 0.00 0.00 0.00 2.67
3980 8778 3.006940 GGTGAATGAAGACGCCATTACA 58.993 45.455 0.00 0.00 34.67 2.41
4031 8860 1.534595 GAGCTGCACTCTTCAAGGTTG 59.465 52.381 1.02 0.00 42.62 3.77
4105 8938 5.644636 ACAGTGAAGGACAGTTTACGAAAAA 59.355 36.000 0.00 0.00 0.00 1.94
4106 8939 6.317893 ACAGTGAAGGACAGTTTACGAAAAAT 59.682 34.615 0.00 0.00 0.00 1.82
4121 8954 8.973835 TTACGAAAAATAAATACAGCAAAGGG 57.026 30.769 0.00 0.00 0.00 3.95
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 1.410882 CGGAGAAGGATCAGGGTTCTC 59.589 57.143 13.81 13.81 43.68 2.87
62 63 5.232838 GGTTACATACATAACCGTTTCCTCG 59.767 44.000 0.00 0.00 43.53 4.63
80 81 0.824182 CCCCAAAAGGCGTGGTTACA 60.824 55.000 4.56 0.00 34.01 2.41
81 82 1.529152 CCCCCAAAAGGCGTGGTTAC 61.529 60.000 4.56 0.00 34.01 2.50
82 83 1.228613 CCCCCAAAAGGCGTGGTTA 60.229 57.895 4.56 0.00 34.01 2.85
141 144 6.542370 ACATACATACTACATCCAAACCAAGC 59.458 38.462 0.00 0.00 0.00 4.01
169 173 3.060000 GTACCGGGTGGGCAAAGC 61.060 66.667 10.66 0.00 40.62 3.51
211 215 4.969196 ACGACGTGCAGTGCAGGG 62.969 66.667 33.90 23.98 46.80 4.45
261 265 2.607187 CTGTCACGGTAGTCATGAACC 58.393 52.381 6.51 6.51 0.00 3.62
262 266 1.993370 GCTGTCACGGTAGTCATGAAC 59.007 52.381 0.00 0.00 0.00 3.18
263 267 1.402325 CGCTGTCACGGTAGTCATGAA 60.402 52.381 0.00 0.00 0.00 2.57
264 268 0.170339 CGCTGTCACGGTAGTCATGA 59.830 55.000 0.00 0.00 0.00 3.07
265 269 0.170339 TCGCTGTCACGGTAGTCATG 59.830 55.000 0.00 0.00 0.00 3.07
266 270 0.170561 GTCGCTGTCACGGTAGTCAT 59.829 55.000 0.00 0.00 0.00 3.06
267 271 0.887836 AGTCGCTGTCACGGTAGTCA 60.888 55.000 0.00 0.00 0.00 3.41
268 272 0.179194 GAGTCGCTGTCACGGTAGTC 60.179 60.000 0.00 0.00 0.00 2.59
269 273 1.584380 GGAGTCGCTGTCACGGTAGT 61.584 60.000 0.00 0.00 0.00 2.73
270 274 1.136984 GGAGTCGCTGTCACGGTAG 59.863 63.158 0.00 0.00 0.00 3.18
271 275 0.963856 ATGGAGTCGCTGTCACGGTA 60.964 55.000 0.00 0.00 0.00 4.02
272 276 1.816863 AATGGAGTCGCTGTCACGGT 61.817 55.000 0.00 0.00 0.00 4.83
273 277 1.078759 GAATGGAGTCGCTGTCACGG 61.079 60.000 0.00 0.00 0.00 4.94
274 278 1.078759 GGAATGGAGTCGCTGTCACG 61.079 60.000 0.00 0.00 0.00 4.35
275 279 1.078759 CGGAATGGAGTCGCTGTCAC 61.079 60.000 0.00 0.00 0.00 3.67
283 287 1.202428 GGACAGCTACGGAATGGAGTC 60.202 57.143 0.00 0.00 0.00 3.36
287 291 3.369381 CTGGACAGCTACGGAATGG 57.631 57.895 0.00 0.00 0.00 3.16
303 307 2.876091 CAACAAGCCAATCATCAGCTG 58.124 47.619 7.63 7.63 36.84 4.24
326 2103 1.816835 CTCGTGGAGCTTGTAGTGGTA 59.183 52.381 0.00 0.00 0.00 3.25
327 2104 0.603569 CTCGTGGAGCTTGTAGTGGT 59.396 55.000 0.00 0.00 0.00 4.16
331 2108 0.522180 ACGACTCGTGGAGCTTGTAG 59.478 55.000 2.53 0.00 39.18 2.74
332 2109 0.520404 GACGACTCGTGGAGCTTGTA 59.480 55.000 9.27 0.00 41.37 2.41
333 2110 1.286260 GACGACTCGTGGAGCTTGT 59.714 57.895 9.27 0.00 41.37 3.16
335 2112 1.964891 TCGACGACTCGTGGAGCTT 60.965 57.895 9.27 0.00 41.37 3.74
339 2116 2.378084 CGACTCGACGACTCGTGGA 61.378 63.158 9.27 12.40 41.37 4.02
340 2117 2.096030 CGACTCGACGACTCGTGG 59.904 66.667 9.27 8.14 41.37 4.94
341 2118 1.057514 CTCGACTCGACGACTCGTG 59.942 63.158 20.96 16.59 41.37 4.35
342 2119 1.080907 TCTCGACTCGACGACTCGT 60.081 57.895 20.96 3.08 45.10 4.18
343 2120 1.341133 GTCTCGACTCGACGACTCG 59.659 63.158 17.38 17.38 41.65 4.18
349 2126 2.462782 CCCCTCGTCTCGACTCGAC 61.463 68.421 0.00 0.00 32.65 4.20
350 2127 1.607801 TACCCCTCGTCTCGACTCGA 61.608 60.000 0.29 0.29 34.88 4.04
353 2130 1.449246 CGTACCCCTCGTCTCGACT 60.449 63.158 0.00 0.00 0.00 4.18
355 2132 0.460284 GTACGTACCCCTCGTCTCGA 60.460 60.000 15.00 0.00 41.72 4.04
412 2193 2.001361 TTAGAGTAGAGCGCGGTGGC 62.001 60.000 18.92 1.03 0.00 5.01
444 2230 1.942712 CCATACGCGTACGCCTGAC 60.943 63.158 32.64 7.22 45.53 3.51
485 2271 0.108615 AGATCTTCGTCCGGTTGCTG 60.109 55.000 0.00 0.00 0.00 4.41
486 2272 0.173708 GAGATCTTCGTCCGGTTGCT 59.826 55.000 0.00 0.00 0.00 3.91
487 2273 0.108804 TGAGATCTTCGTCCGGTTGC 60.109 55.000 0.00 0.00 0.00 4.17
627 2430 2.587194 CTGCCGAGGGATTCTGCG 60.587 66.667 0.00 0.00 38.72 5.18
791 2620 0.679505 TTCCTTGTCTGTCGGTCTGG 59.320 55.000 0.00 0.00 0.00 3.86
795 2624 0.748450 TTCGTTCCTTGTCTGTCGGT 59.252 50.000 0.00 0.00 0.00 4.69
802 2631 1.235281 GCCTGGGTTCGTTCCTTGTC 61.235 60.000 0.00 0.00 0.00 3.18
804 2633 2.325082 CGCCTGGGTTCGTTCCTTG 61.325 63.158 0.00 0.00 0.00 3.61
1052 5789 2.364448 GCCCCTCTCCGGAGAAGT 60.364 66.667 32.94 0.00 41.86 3.01
1265 6002 2.095161 CGGTGAAGAGAGTCTAAGCGTT 60.095 50.000 0.00 0.00 32.81 4.84
1360 6119 1.204312 GCCACAGACGCTCGTTTTC 59.796 57.895 0.00 0.00 0.00 2.29
1370 6129 1.005630 AAGCTGAGACGCCACAGAC 60.006 57.895 0.00 0.00 36.38 3.51
1398 6157 7.307514 GGTGTCACAAATTACAACTTCGATACA 60.308 37.037 5.12 0.00 30.45 2.29
1401 6160 5.763204 AGGTGTCACAAATTACAACTTCGAT 59.237 36.000 5.12 0.00 40.75 3.59
1421 6180 5.443185 AGTGATCAAACAACATCAAGGTG 57.557 39.130 0.00 0.00 42.09 4.00
1422 6181 6.275335 CAAAGTGATCAAACAACATCAAGGT 58.725 36.000 0.00 0.00 30.76 3.50
1453 6213 4.872691 CAGATAACACCTAGCAAGAGTTGG 59.127 45.833 0.00 0.00 0.00 3.77
1454 6214 4.331168 GCAGATAACACCTAGCAAGAGTTG 59.669 45.833 0.00 0.00 0.00 3.16
1470 6230 2.505982 GCCCAGCCGAGCAGATAA 59.494 61.111 0.00 0.00 0.00 1.75
1487 6247 6.369065 GCTTGATTATATCCTCTGGTTTACGG 59.631 42.308 0.00 0.00 0.00 4.02
1514 6274 2.849880 ATGGATTTTCATTGGCGTCG 57.150 45.000 0.00 0.00 0.00 5.12
1544 6304 1.660560 TAGAAGTACGCACCTCCGGC 61.661 60.000 0.00 0.00 0.00 6.13
1582 6342 6.429692 ACGATAGAGGTCATCACTCATTAGAG 59.570 42.308 0.00 0.00 43.65 2.43
1594 6367 3.138653 AGGGAGTACACGATAGAGGTCAT 59.861 47.826 0.00 0.00 41.38 3.06
1596 6369 3.140623 GAGGGAGTACACGATAGAGGTC 58.859 54.545 0.00 0.00 41.38 3.85
1607 6380 2.832643 TATGGAACGGAGGGAGTACA 57.167 50.000 0.00 0.00 0.00 2.90
1610 6383 3.924922 ACTAATATGGAACGGAGGGAGT 58.075 45.455 0.00 0.00 0.00 3.85
1611 6384 4.101119 ACAACTAATATGGAACGGAGGGAG 59.899 45.833 0.00 0.00 0.00 4.30
1613 6386 4.377897 GACAACTAATATGGAACGGAGGG 58.622 47.826 0.00 0.00 0.00 4.30
1615 6388 3.489785 GCGACAACTAATATGGAACGGAG 59.510 47.826 0.00 0.00 0.00 4.63
1617 6390 3.454375 AGCGACAACTAATATGGAACGG 58.546 45.455 0.00 0.00 0.00 4.44
1618 6391 4.109766 TGAGCGACAACTAATATGGAACG 58.890 43.478 0.00 0.00 0.00 3.95
1620 6393 5.935206 TGTTTGAGCGACAACTAATATGGAA 59.065 36.000 0.00 0.00 38.29 3.53
1621 6394 5.483811 TGTTTGAGCGACAACTAATATGGA 58.516 37.500 0.00 0.00 38.29 3.41
1622 6395 5.580691 TCTGTTTGAGCGACAACTAATATGG 59.419 40.000 0.00 0.00 38.29 2.74
1623 6396 6.647212 TCTGTTTGAGCGACAACTAATATG 57.353 37.500 0.00 0.00 38.29 1.78
1624 6397 6.818644 ACATCTGTTTGAGCGACAACTAATAT 59.181 34.615 0.00 0.00 38.29 1.28
1625 6398 6.163476 ACATCTGTTTGAGCGACAACTAATA 58.837 36.000 0.00 0.00 38.29 0.98
1627 6400 4.377021 ACATCTGTTTGAGCGACAACTAA 58.623 39.130 0.00 0.00 38.29 2.24
1628 6401 3.990092 ACATCTGTTTGAGCGACAACTA 58.010 40.909 0.00 0.00 38.29 2.24
1629 6402 2.838736 ACATCTGTTTGAGCGACAACT 58.161 42.857 0.00 0.00 38.29 3.16
1630 6403 4.627467 AGATACATCTGTTTGAGCGACAAC 59.373 41.667 0.00 0.00 35.47 3.32
1631 6404 4.820897 AGATACATCTGTTTGAGCGACAA 58.179 39.130 0.00 0.00 35.42 3.18
1632 6405 4.456280 AGATACATCTGTTTGAGCGACA 57.544 40.909 0.00 0.00 35.42 4.35
1633 6406 5.457148 CACTAGATACATCTGTTTGAGCGAC 59.543 44.000 0.00 0.00 37.76 5.19
1634 6407 5.125578 ACACTAGATACATCTGTTTGAGCGA 59.874 40.000 0.00 0.00 37.76 4.93
1635 6408 5.344066 ACACTAGATACATCTGTTTGAGCG 58.656 41.667 0.00 0.00 37.76 5.03
1636 6409 8.356657 AGATACACTAGATACATCTGTTTGAGC 58.643 37.037 0.00 0.00 37.76 4.26
1643 6416 8.450180 CAGTGCTAGATACACTAGATACATCTG 58.550 40.741 0.00 0.00 46.44 2.90
1644 6417 8.379331 TCAGTGCTAGATACACTAGATACATCT 58.621 37.037 0.00 1.76 46.44 2.90
1645 6418 8.554835 TCAGTGCTAGATACACTAGATACATC 57.445 38.462 0.00 0.00 46.44 3.06
1646 6419 8.926092 TTCAGTGCTAGATACACTAGATACAT 57.074 34.615 0.00 0.00 46.44 2.29
1647 6420 8.747538 TTTCAGTGCTAGATACACTAGATACA 57.252 34.615 0.00 0.00 46.44 2.29
1650 6423 8.508062 CGTATTTCAGTGCTAGATACACTAGAT 58.492 37.037 0.00 0.00 46.44 1.98
1651 6424 7.498239 ACGTATTTCAGTGCTAGATACACTAGA 59.502 37.037 0.00 0.00 46.44 2.43
1652 6425 7.640852 ACGTATTTCAGTGCTAGATACACTAG 58.359 38.462 0.00 0.00 46.44 2.57
1653 6426 7.498239 AGACGTATTTCAGTGCTAGATACACTA 59.502 37.037 0.00 0.00 46.44 2.74
1655 6428 6.415280 CAGACGTATTTCAGTGCTAGATACAC 59.585 42.308 0.00 0.00 38.35 2.90
1656 6429 6.459710 CCAGACGTATTTCAGTGCTAGATACA 60.460 42.308 0.00 0.00 0.00 2.29
1657 6430 5.915758 CCAGACGTATTTCAGTGCTAGATAC 59.084 44.000 0.00 0.00 0.00 2.24
1658 6431 5.826208 TCCAGACGTATTTCAGTGCTAGATA 59.174 40.000 0.00 0.00 0.00 1.98
1659 6432 4.645136 TCCAGACGTATTTCAGTGCTAGAT 59.355 41.667 0.00 0.00 0.00 1.98
1660 6433 4.014406 TCCAGACGTATTTCAGTGCTAGA 58.986 43.478 0.00 0.00 0.00 2.43
1661 6434 4.371855 TCCAGACGTATTTCAGTGCTAG 57.628 45.455 0.00 0.00 0.00 3.42
1662 6435 5.358725 TGTATCCAGACGTATTTCAGTGCTA 59.641 40.000 0.00 0.00 0.00 3.49
1663 6436 3.895232 ATCCAGACGTATTTCAGTGCT 57.105 42.857 0.00 0.00 0.00 4.40
1664 6437 4.430007 TGTATCCAGACGTATTTCAGTGC 58.570 43.478 0.00 0.00 0.00 4.40
1665 6438 5.692204 GGATGTATCCAGACGTATTTCAGTG 59.308 44.000 6.03 0.00 46.38 3.66
1666 6439 5.844004 GGATGTATCCAGACGTATTTCAGT 58.156 41.667 6.03 0.00 46.38 3.41
1681 6454 6.115446 TGGTTGTCTCAGAAATGGATGTATC 58.885 40.000 0.00 0.00 0.00 2.24
1682 6455 6.065976 TGGTTGTCTCAGAAATGGATGTAT 57.934 37.500 0.00 0.00 0.00 2.29
1683 6456 5.497464 TGGTTGTCTCAGAAATGGATGTA 57.503 39.130 0.00 0.00 0.00 2.29
1684 6457 4.371624 TGGTTGTCTCAGAAATGGATGT 57.628 40.909 0.00 0.00 0.00 3.06
1685 6458 5.909621 ATTGGTTGTCTCAGAAATGGATG 57.090 39.130 0.00 0.00 0.00 3.51
1686 6459 6.548622 CCATATTGGTTGTCTCAGAAATGGAT 59.451 38.462 0.00 0.00 31.35 3.41
1687 6460 5.887598 CCATATTGGTTGTCTCAGAAATGGA 59.112 40.000 0.00 0.00 31.35 3.41
1688 6461 5.887598 TCCATATTGGTTGTCTCAGAAATGG 59.112 40.000 0.00 0.00 39.03 3.16
1689 6462 7.253422 GTTCCATATTGGTTGTCTCAGAAATG 58.747 38.462 0.00 0.00 39.03 2.32
1690 6463 6.094048 CGTTCCATATTGGTTGTCTCAGAAAT 59.906 38.462 0.00 0.00 39.03 2.17
1691 6464 5.411361 CGTTCCATATTGGTTGTCTCAGAAA 59.589 40.000 0.00 0.00 39.03 2.52
1692 6465 4.935205 CGTTCCATATTGGTTGTCTCAGAA 59.065 41.667 0.00 0.00 39.03 3.02
1693 6466 4.503910 CGTTCCATATTGGTTGTCTCAGA 58.496 43.478 0.00 0.00 39.03 3.27
1694 6467 3.623060 CCGTTCCATATTGGTTGTCTCAG 59.377 47.826 0.00 0.00 39.03 3.35
1695 6468 3.262151 TCCGTTCCATATTGGTTGTCTCA 59.738 43.478 0.00 0.00 39.03 3.27
1696 6469 3.869065 TCCGTTCCATATTGGTTGTCTC 58.131 45.455 0.00 0.00 39.03 3.36
1697 6470 3.370527 CCTCCGTTCCATATTGGTTGTCT 60.371 47.826 0.00 0.00 39.03 3.41
1698 6471 2.943033 CCTCCGTTCCATATTGGTTGTC 59.057 50.000 0.00 0.00 39.03 3.18
1699 6472 2.356741 CCCTCCGTTCCATATTGGTTGT 60.357 50.000 0.00 0.00 39.03 3.32
1700 6473 2.092646 TCCCTCCGTTCCATATTGGTTG 60.093 50.000 0.00 0.00 39.03 3.77
1701 6474 2.172717 CTCCCTCCGTTCCATATTGGTT 59.827 50.000 0.00 0.00 39.03 3.67
1702 6475 1.768870 CTCCCTCCGTTCCATATTGGT 59.231 52.381 0.00 0.00 39.03 3.67
1703 6476 1.768870 ACTCCCTCCGTTCCATATTGG 59.231 52.381 0.00 0.00 39.43 3.16
1704 6477 3.641906 ACTACTCCCTCCGTTCCATATTG 59.358 47.826 0.00 0.00 0.00 1.90
1705 6478 3.924922 ACTACTCCCTCCGTTCCATATT 58.075 45.455 0.00 0.00 0.00 1.28
1706 6479 3.614568 ACTACTCCCTCCGTTCCATAT 57.385 47.619 0.00 0.00 0.00 1.78
1707 6480 4.736611 ATACTACTCCCTCCGTTCCATA 57.263 45.455 0.00 0.00 0.00 2.74
1708 6481 3.614568 ATACTACTCCCTCCGTTCCAT 57.385 47.619 0.00 0.00 0.00 3.41
1709 6482 3.393426 AATACTACTCCCTCCGTTCCA 57.607 47.619 0.00 0.00 0.00 3.53
1710 6483 4.892345 ACTAAATACTACTCCCTCCGTTCC 59.108 45.833 0.00 0.00 0.00 3.62
1711 6484 5.591877 TGACTAAATACTACTCCCTCCGTTC 59.408 44.000 0.00 0.00 0.00 3.95
1712 6485 5.359292 GTGACTAAATACTACTCCCTCCGTT 59.641 44.000 0.00 0.00 0.00 4.44
1713 6486 4.886489 GTGACTAAATACTACTCCCTCCGT 59.114 45.833 0.00 0.00 0.00 4.69
1714 6487 5.131784 AGTGACTAAATACTACTCCCTCCG 58.868 45.833 0.00 0.00 0.00 4.63
1715 6488 6.039605 GTGAGTGACTAAATACTACTCCCTCC 59.960 46.154 0.00 0.00 37.54 4.30
1716 6489 6.602406 TGTGAGTGACTAAATACTACTCCCTC 59.398 42.308 0.00 0.00 37.54 4.30
1717 6490 6.491383 TGTGAGTGACTAAATACTACTCCCT 58.509 40.000 0.00 0.00 37.54 4.20
1718 6491 6.770746 TGTGAGTGACTAAATACTACTCCC 57.229 41.667 0.00 0.00 37.54 4.30
1719 6492 7.122353 TCCTTGTGAGTGACTAAATACTACTCC 59.878 40.741 0.00 0.00 37.54 3.85
1720 6493 7.969508 GTCCTTGTGAGTGACTAAATACTACTC 59.030 40.741 0.00 0.00 38.52 2.59
1721 6494 7.450634 TGTCCTTGTGAGTGACTAAATACTACT 59.549 37.037 0.00 0.00 0.00 2.57
1722 6495 7.600065 TGTCCTTGTGAGTGACTAAATACTAC 58.400 38.462 0.00 0.00 0.00 2.73
1723 6496 7.770366 TGTCCTTGTGAGTGACTAAATACTA 57.230 36.000 0.00 0.00 0.00 1.82
1724 6497 6.665992 TGTCCTTGTGAGTGACTAAATACT 57.334 37.500 0.00 0.00 0.00 2.12
1725 6498 7.097192 TCATGTCCTTGTGAGTGACTAAATAC 58.903 38.462 0.00 0.00 0.00 1.89
1726 6499 7.239763 TCATGTCCTTGTGAGTGACTAAATA 57.760 36.000 0.00 0.00 0.00 1.40
1727 6500 6.114187 TCATGTCCTTGTGAGTGACTAAAT 57.886 37.500 0.00 0.00 0.00 1.40
1728 6501 5.545063 TCATGTCCTTGTGAGTGACTAAA 57.455 39.130 0.00 0.00 0.00 1.85
1729 6502 5.545063 TTCATGTCCTTGTGAGTGACTAA 57.455 39.130 0.00 0.00 0.00 2.24
1730 6503 5.545063 TTTCATGTCCTTGTGAGTGACTA 57.455 39.130 0.00 0.00 0.00 2.59
1731 6504 4.422073 TTTCATGTCCTTGTGAGTGACT 57.578 40.909 0.00 0.00 0.00 3.41
1732 6505 4.999950 AGATTTCATGTCCTTGTGAGTGAC 59.000 41.667 0.00 0.00 0.00 3.67
1733 6506 5.221702 TGAGATTTCATGTCCTTGTGAGTGA 60.222 40.000 0.00 0.00 0.00 3.41
1734 6507 4.999311 TGAGATTTCATGTCCTTGTGAGTG 59.001 41.667 0.00 0.00 0.00 3.51
1735 6508 5.233083 TGAGATTTCATGTCCTTGTGAGT 57.767 39.130 0.00 0.00 0.00 3.41
1736 6509 4.094590 GCTGAGATTTCATGTCCTTGTGAG 59.905 45.833 0.00 0.00 31.68 3.51
1737 6510 4.005650 GCTGAGATTTCATGTCCTTGTGA 58.994 43.478 0.00 0.00 31.68 3.58
1738 6511 3.754850 TGCTGAGATTTCATGTCCTTGTG 59.245 43.478 0.00 0.00 31.68 3.33
1739 6512 4.008330 CTGCTGAGATTTCATGTCCTTGT 58.992 43.478 0.00 0.00 31.68 3.16
1740 6513 4.008330 ACTGCTGAGATTTCATGTCCTTG 58.992 43.478 0.00 0.00 31.68 3.61
1762 6535 8.116651 TGCTTCTAACCAAATTAGCAATGTTA 57.883 30.769 0.00 0.00 40.29 2.41
1769 6542 5.643777 TGAGACTGCTTCTAACCAAATTAGC 59.356 40.000 0.00 0.00 40.29 3.09
1773 6546 6.959639 TTTTGAGACTGCTTCTAACCAAAT 57.040 33.333 0.00 0.00 33.22 2.32
1777 6550 6.560253 TGAATTTTGAGACTGCTTCTAACC 57.440 37.500 0.00 0.00 33.22 2.85
1784 6557 8.721019 TTTTTCAATTGAATTTTGAGACTGCT 57.279 26.923 21.10 0.00 34.76 4.24
1830 6606 5.012664 TCTGTTACAGGCTCAAAAGGATACA 59.987 40.000 12.79 0.00 32.71 2.29
1831 6607 5.488341 TCTGTTACAGGCTCAAAAGGATAC 58.512 41.667 12.79 0.00 31.51 2.24
1836 6612 9.132521 CATATTTTTCTGTTACAGGCTCAAAAG 57.867 33.333 12.79 0.00 31.51 2.27
1874 6663 3.356290 AGATATGGGTTGTCTTTGTGCC 58.644 45.455 0.00 0.00 0.00 5.01
1875 6664 4.702131 AGAAGATATGGGTTGTCTTTGTGC 59.298 41.667 0.00 0.00 32.67 4.57
1879 6668 8.166726 AGAAAAGAGAAGATATGGGTTGTCTTT 58.833 33.333 7.73 7.73 44.05 2.52
1884 6673 8.970859 ATACAGAAAAGAGAAGATATGGGTTG 57.029 34.615 0.00 0.00 0.00 3.77
1925 6715 1.066858 GCTGCAGCTACCTGTACAGAA 60.067 52.381 31.33 10.75 41.26 3.02
1973 6763 1.473434 CGGCTTTCAGGATCAGGGTAC 60.473 57.143 0.00 0.00 0.00 3.34
2024 6814 3.498774 ATGTGCTCAGTTTCAAGACCT 57.501 42.857 0.00 0.00 0.00 3.85
2027 6817 5.368145 ACAAGTATGTGCTCAGTTTCAAGA 58.632 37.500 0.00 0.00 38.69 3.02
2155 6946 4.562082 ACACATCTGCATTTGAACCATTG 58.438 39.130 3.26 0.00 0.00 2.82
2162 6953 5.048782 GGTTCAAGTACACATCTGCATTTGA 60.049 40.000 0.00 0.00 0.00 2.69
2168 6959 2.744202 CCTGGTTCAAGTACACATCTGC 59.256 50.000 0.00 0.00 0.00 4.26
2190 6981 4.462483 GGAGGGCAATCTACAATTTTGTCA 59.538 41.667 0.00 0.00 42.35 3.58
2238 7029 0.453950 GTGCAGCATTGACTGAAGCG 60.454 55.000 0.00 0.00 40.25 4.68
2331 7122 8.664798 CAAATCAGGTTCAGAAATTACGTATGA 58.335 33.333 0.00 0.00 0.00 2.15
2333 7124 8.786826 TCAAATCAGGTTCAGAAATTACGTAT 57.213 30.769 0.00 0.00 0.00 3.06
2336 7127 9.655769 CATATCAAATCAGGTTCAGAAATTACG 57.344 33.333 0.00 0.00 0.00 3.18
2417 7208 5.181009 TCAACCATTTTGACAATGTTTGCA 58.819 33.333 0.00 0.00 32.35 4.08
2511 7302 5.103290 AGCAAATAAATTGACACGACGTT 57.897 34.783 0.00 0.00 41.85 3.99
2513 7304 5.662815 GCAAAGCAAATAAATTGACACGACG 60.663 40.000 0.00 0.00 41.85 5.12
2528 7321 9.486497 TGAAATATGAACAATAAGCAAAGCAAA 57.514 25.926 0.00 0.00 0.00 3.68
2529 7322 9.142515 CTGAAATATGAACAATAAGCAAAGCAA 57.857 29.630 0.00 0.00 0.00 3.91
2530 7323 8.306038 ACTGAAATATGAACAATAAGCAAAGCA 58.694 29.630 0.00 0.00 0.00 3.91
2531 7324 8.589629 CACTGAAATATGAACAATAAGCAAAGC 58.410 33.333 0.00 0.00 0.00 3.51
2532 7325 9.630098 ACACTGAAATATGAACAATAAGCAAAG 57.370 29.630 0.00 0.00 0.00 2.77
2579 7373 7.284261 TCCTCATTGTTGATTACACTGACAAAA 59.716 33.333 0.00 0.00 40.33 2.44
2648 7442 5.225949 GCTCGAAAATTCAACATAAGCTTCG 59.774 40.000 0.00 0.00 36.62 3.79
2654 7448 6.567687 TGAAGGCTCGAAAATTCAACATAA 57.432 33.333 3.99 0.00 0.00 1.90
2663 7457 4.708726 CCTTGATTGAAGGCTCGAAAAT 57.291 40.909 0.00 0.00 45.17 1.82
2720 7514 4.394795 CTCGTTTGCTAAATGTTCGAAGG 58.605 43.478 0.00 0.00 0.00 3.46
2723 7517 2.803386 TGCTCGTTTGCTAAATGTTCGA 59.197 40.909 0.00 0.00 0.00 3.71
2751 7545 6.260050 ACACACAAACGATAGAACACAAATCT 59.740 34.615 0.00 0.00 41.38 2.40
2780 7574 9.994432 CTGATTCTTCATAACACATAACCTTTC 57.006 33.333 0.00 0.00 0.00 2.62
2829 7625 1.530323 AAACCTGCATCACCGGTAAC 58.470 50.000 6.87 0.00 0.00 2.50
2834 7630 0.729116 CAGCTAAACCTGCATCACCG 59.271 55.000 0.00 0.00 0.00 4.94
2897 7693 0.537371 GCTTGGCCCGCCATAAGTAT 60.537 55.000 9.70 0.00 46.64 2.12
2963 7759 4.019174 CCAAATAGACTGGGTTCTGCAAT 58.981 43.478 0.00 0.00 0.00 3.56
3023 7819 6.607735 AGCCAAGTTCAAATTGTCAAAATG 57.392 33.333 0.00 0.00 0.00 2.32
3025 7821 9.995003 ATATTAGCCAAGTTCAAATTGTCAAAA 57.005 25.926 0.00 0.00 0.00 2.44
3031 7827 8.246180 ACAGACATATTAGCCAAGTTCAAATTG 58.754 33.333 0.00 0.00 0.00 2.32
3051 7847 5.885352 TCAAGAATGAAAGTTCCAACAGACA 59.115 36.000 0.00 0.00 30.99 3.41
3062 7858 7.630242 TTTCACACTCTTCAAGAATGAAAGT 57.370 32.000 2.10 0.00 44.64 2.66
3080 7876 6.992123 TCTCTTGAAGTAGCAGATTTTTCACA 59.008 34.615 0.00 0.00 0.00 3.58
3098 7894 0.411452 ACAGCCTCTCCCTCTCTTGA 59.589 55.000 0.00 0.00 0.00 3.02
3146 7942 3.242011 AGCATGACTGGGAAATGGTTTT 58.758 40.909 0.00 0.00 0.00 2.43
3221 8017 5.713025 ACAGTGCAATAATAAACAAGCCAG 58.287 37.500 0.00 0.00 0.00 4.85
3229 8025 8.081633 CAGAAACTTGGACAGTGCAATAATAAA 58.918 33.333 8.09 0.00 35.12 1.40
3312 8108 1.420138 TCCCAGTTCCAGGTTCTCAAC 59.580 52.381 0.00 0.00 0.00 3.18
3330 8126 3.258372 TCGAGCACAGATAACCCATATCC 59.742 47.826 0.00 0.00 41.23 2.59
3348 8144 5.288015 AGTGTGAATAGCAATGATCTCGAG 58.712 41.667 5.93 5.93 0.00 4.04
3377 8173 8.965819 TCAATGGGCGTAAATTGCATATATATT 58.034 29.630 0.00 0.00 34.44 1.28
3379 8175 7.929941 TCAATGGGCGTAAATTGCATATATA 57.070 32.000 0.00 0.00 34.44 0.86
3495 8292 2.777692 ACCCTTCAGTTCCTTCTTGTCA 59.222 45.455 0.00 0.00 0.00 3.58
3620 8417 7.038048 CACATACTCAATAAGCTCTTCACTGA 58.962 38.462 0.00 0.00 0.00 3.41
3862 8660 3.244700 ACCAATCAGGAACTCAACCTCTG 60.245 47.826 0.00 0.00 41.22 3.35
3966 8764 8.798153 CAAAAAGATTATTGTAATGGCGTCTTC 58.202 33.333 0.00 0.00 0.00 2.87
4031 8860 2.666022 GTGTTGTGCAAAGGTTGTGTTC 59.334 45.455 0.00 0.00 0.00 3.18
4121 8954 4.627611 TGCTTTCATTTGCTATCAGCTC 57.372 40.909 0.00 0.00 42.97 4.09


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

AutoCloner maintained by Alex Coulton.