Multiple sequence alignment - TraesCS7A01G314600

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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 TraesCS7A01G314600 chr7A 100.000 3271 0 0 1 3271 448472241 448475511 0.000000e+00 6041.0
1 TraesCS7A01G314600 chr7A 92.791 1304 81 9 903 2199 450092734 450091437 0.000000e+00 1875.0
2 TraesCS7A01G314600 chr7A 89.354 263 20 7 2769 3026 450283797 450283538 1.130000e-84 324.0
3 TraesCS7A01G314600 chr7A 83.333 252 28 11 3030 3271 450095531 450095284 1.530000e-53 220.0
4 TraesCS7A01G314600 chr7A 86.400 125 10 5 2387 2508 450286451 450286331 2.650000e-26 130.0
5 TraesCS7A01G314600 chr7A 87.368 95 12 0 242 336 572239663 572239757 3.450000e-20 110.0
6 TraesCS7A01G314600 chr7B 91.813 1478 98 12 1053 2512 394825411 394826883 0.000000e+00 2037.0
7 TraesCS7A01G314600 chr7B 93.008 1330 80 8 909 2235 399804058 399802739 0.000000e+00 1929.0
8 TraesCS7A01G314600 chr7B 93.323 1303 78 7 900 2198 394864213 394865510 0.000000e+00 1916.0
9 TraesCS7A01G314600 chr7B 93.323 1303 78 7 900 2198 394912378 394913675 0.000000e+00 1916.0
10 TraesCS7A01G314600 chr7B 91.367 1309 92 9 912 2214 399872584 399871291 0.000000e+00 1772.0
11 TraesCS7A01G314600 chr7B 91.266 458 33 3 336 787 484271438 484271894 4.640000e-173 617.0
12 TraesCS7A01G314600 chr7B 82.482 548 38 24 2769 3271 399875837 399875303 8.390000e-116 427.0
13 TraesCS7A01G314600 chr7B 89.919 248 18 3 1 243 484270142 484270387 2.450000e-81 313.0
14 TraesCS7A01G314600 chr7B 86.878 221 15 3 2560 2768 394831577 394831795 5.460000e-58 235.0
15 TraesCS7A01G314600 chr7B 96.748 123 3 1 215 336 484271026 484271148 1.540000e-48 204.0
16 TraesCS7A01G314600 chr7B 86.822 129 9 6 2387 2512 399876331 399876208 1.580000e-28 137.0
17 TraesCS7A01G314600 chr7B 92.000 50 3 1 834 882 394864181 394864230 5.860000e-08 69.4
18 TraesCS7A01G314600 chr7B 92.000 50 3 1 834 882 394912346 394912395 5.860000e-08 69.4
19 TraesCS7A01G314600 chr5B 91.161 1482 103 16 1053 2512 58757990 58756515 0.000000e+00 1986.0
20 TraesCS7A01G314600 chr5B 89.689 805 62 8 1 787 688044093 688044894 0.000000e+00 1007.0
21 TraesCS7A01G314600 chr5B 93.822 437 26 1 2836 3271 58755786 58755350 0.000000e+00 656.0
22 TraesCS7A01G314600 chr5B 87.129 303 16 4 2549 2830 58756402 58756102 4.070000e-84 322.0
23 TraesCS7A01G314600 chr7D 91.769 1385 96 13 903 2276 396445113 396443736 0.000000e+00 1910.0
24 TraesCS7A01G314600 chr7D 91.215 1309 78 21 898 2198 395295458 395296737 0.000000e+00 1746.0
25 TraesCS7A01G314600 chr7D 92.875 1193 74 5 1053 2235 395076467 395077658 0.000000e+00 1722.0
26 TraesCS7A01G314600 chr7D 86.047 129 9 7 2387 2512 396446124 396446002 2.650000e-26 130.0
27 TraesCS7A01G314600 chr2B 90.361 498 33 5 304 787 646130501 646130997 9.900000e-180 640.0
28 TraesCS7A01G314600 chr2B 90.278 504 25 7 215 703 730179280 730179774 3.560000e-179 638.0
29 TraesCS7A01G314600 chr2B 92.500 360 13 3 218 564 92800895 92800537 1.350000e-138 503.0
30 TraesCS7A01G314600 chr2B 90.361 249 13 5 1 241 646129409 646129654 1.890000e-82 316.0
31 TraesCS7A01G314600 chr2B 95.604 91 4 0 215 305 646130297 646130387 2.630000e-31 147.0
32 TraesCS7A01G314600 chr2B 79.397 199 32 6 147 336 299318541 299318343 7.360000e-27 132.0
33 TraesCS7A01G314600 chr6B 87.755 343 14 8 1 337 718341505 718341825 3.080000e-100 375.0
34 TraesCS7A01G314600 chr6B 88.028 284 29 4 507 787 718342480 718342761 6.760000e-87 331.0
35 TraesCS7A01G314600 chr1B 80.723 166 25 4 155 315 645101424 645101261 4.430000e-24 122.0


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 TraesCS7A01G314600 chr7A 448472241 448475511 3270 False 6041.000000 6041 100.000000 1 3271 1 chr7A.!!$F1 3270
1 TraesCS7A01G314600 chr7A 450091437 450095531 4094 True 1047.500000 1875 88.062000 903 3271 2 chr7A.!!$R1 2368
2 TraesCS7A01G314600 chr7A 450283538 450286451 2913 True 227.000000 324 87.877000 2387 3026 2 chr7A.!!$R2 639
3 TraesCS7A01G314600 chr7B 394825411 394826883 1472 False 2037.000000 2037 91.813000 1053 2512 1 chr7B.!!$F1 1459
4 TraesCS7A01G314600 chr7B 399802739 399804058 1319 True 1929.000000 1929 93.008000 909 2235 1 chr7B.!!$R1 1326
5 TraesCS7A01G314600 chr7B 394864181 394865510 1329 False 992.700000 1916 92.661500 834 2198 2 chr7B.!!$F3 1364
6 TraesCS7A01G314600 chr7B 394912346 394913675 1329 False 992.700000 1916 92.661500 834 2198 2 chr7B.!!$F4 1364
7 TraesCS7A01G314600 chr7B 399871291 399876331 5040 True 778.666667 1772 86.890333 912 3271 3 chr7B.!!$R2 2359
8 TraesCS7A01G314600 chr7B 484270142 484271894 1752 False 378.000000 617 92.644333 1 787 3 chr7B.!!$F5 786
9 TraesCS7A01G314600 chr5B 688044093 688044894 801 False 1007.000000 1007 89.689000 1 787 1 chr5B.!!$F1 786
10 TraesCS7A01G314600 chr5B 58755350 58757990 2640 True 988.000000 1986 90.704000 1053 3271 3 chr5B.!!$R1 2218
11 TraesCS7A01G314600 chr7D 395295458 395296737 1279 False 1746.000000 1746 91.215000 898 2198 1 chr7D.!!$F2 1300
12 TraesCS7A01G314600 chr7D 395076467 395077658 1191 False 1722.000000 1722 92.875000 1053 2235 1 chr7D.!!$F1 1182
13 TraesCS7A01G314600 chr7D 396443736 396446124 2388 True 1020.000000 1910 88.908000 903 2512 2 chr7D.!!$R1 1609
14 TraesCS7A01G314600 chr2B 646129409 646130997 1588 False 367.666667 640 92.108667 1 787 3 chr2B.!!$F2 786
15 TraesCS7A01G314600 chr6B 718341505 718342761 1256 False 353.000000 375 87.891500 1 787 2 chr6B.!!$F1 786

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
689 1664 0.108329 CAGGCGTATTCAGGACCGTT 60.108 55.0 0.0 0.0 0.0 4.44 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2668 5997 0.681175 AGCACAAAATGACCCTTGGC 59.319 50.0 0.0 0.0 0.0 4.52 R

All possible primers

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

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
141 147 1.331756 GACCACAAGCACTCACAGTTG 59.668 52.381 0.00 0.00 0.00 3.16
443 1418 1.134699 ACGTGATGGAGGCACACTATG 60.135 52.381 0.00 0.00 36.06 2.23
460 1435 6.251163 CACACTATGTGTTGTTTTCTGTGTTG 59.749 38.462 0.12 0.00 45.08 3.33
464 1439 4.541779 TGTGTTGTTTTCTGTGTTGTGTC 58.458 39.130 0.00 0.00 0.00 3.67
479 1454 8.250143 TGTGTTGTGTCATATATAGGTCAGAT 57.750 34.615 0.00 0.00 0.00 2.90
529 1504 2.505866 GTTAGCTTGTGCGCACATTAC 58.494 47.619 40.78 30.71 45.42 1.89
555 1530 1.600413 GCGAGCAAAGGTTTCAGGTTG 60.600 52.381 0.00 0.00 0.00 3.77
557 1532 2.306847 GAGCAAAGGTTTCAGGTTGGA 58.693 47.619 0.00 0.00 0.00 3.53
558 1533 2.693074 GAGCAAAGGTTTCAGGTTGGAA 59.307 45.455 0.00 0.00 0.00 3.53
559 1534 2.430694 AGCAAAGGTTTCAGGTTGGAAC 59.569 45.455 0.00 0.00 0.00 3.62
570 1545 2.509052 GGTTGGAACCTCTGTTTTGC 57.491 50.000 0.98 0.00 45.75 3.68
571 1546 1.754226 GGTTGGAACCTCTGTTTTGCA 59.246 47.619 0.98 0.00 45.75 4.08
572 1547 2.167487 GGTTGGAACCTCTGTTTTGCAA 59.833 45.455 0.00 0.00 45.75 4.08
573 1548 3.181466 GGTTGGAACCTCTGTTTTGCAAT 60.181 43.478 0.00 0.00 45.75 3.56
574 1549 4.441792 GTTGGAACCTCTGTTTTGCAATT 58.558 39.130 0.00 0.00 35.78 2.32
575 1550 4.751767 TGGAACCTCTGTTTTGCAATTT 57.248 36.364 0.00 0.00 33.97 1.82
576 1551 5.860941 TGGAACCTCTGTTTTGCAATTTA 57.139 34.783 0.00 0.00 33.97 1.40
577 1552 6.418057 TGGAACCTCTGTTTTGCAATTTAT 57.582 33.333 0.00 0.00 33.97 1.40
578 1553 6.825610 TGGAACCTCTGTTTTGCAATTTATT 58.174 32.000 0.00 0.00 33.97 1.40
579 1554 7.278875 TGGAACCTCTGTTTTGCAATTTATTT 58.721 30.769 0.00 0.00 33.97 1.40
580 1555 7.772757 TGGAACCTCTGTTTTGCAATTTATTTT 59.227 29.630 0.00 0.00 33.97 1.82
582 1557 7.587392 GAACCTCTGTTTTGCAATTTATTTTGC 59.413 33.333 0.00 2.33 42.55 3.68
614 1589 2.500098 TCCTCTGTACTAACATGTGGGC 59.500 50.000 0.00 0.00 34.37 5.36
616 1591 2.501723 CTCTGTACTAACATGTGGGCCT 59.498 50.000 4.53 0.00 34.37 5.19
617 1592 2.500098 TCTGTACTAACATGTGGGCCTC 59.500 50.000 4.53 0.49 34.37 4.70
618 1593 2.236146 CTGTACTAACATGTGGGCCTCA 59.764 50.000 11.19 11.19 34.37 3.86
619 1594 2.843730 TGTACTAACATGTGGGCCTCAT 59.156 45.455 15.12 15.12 0.00 2.90
620 1595 2.425143 ACTAACATGTGGGCCTCATG 57.575 50.000 35.11 35.11 45.41 3.07
627 1602 0.253044 TGTGGGCCTCATGCTTCTAC 59.747 55.000 4.53 0.00 40.92 2.59
629 1604 0.543277 TGGGCCTCATGCTTCTACTG 59.457 55.000 4.53 0.00 40.92 2.74
633 1608 3.397482 GGCCTCATGCTTCTACTGTATG 58.603 50.000 0.00 0.00 40.92 2.39
637 1612 4.202192 CCTCATGCTTCTACTGTATGCTGA 60.202 45.833 0.00 8.22 0.00 4.26
638 1613 4.686972 TCATGCTTCTACTGTATGCTGAC 58.313 43.478 0.00 0.00 0.00 3.51
639 1614 4.160252 TCATGCTTCTACTGTATGCTGACA 59.840 41.667 0.00 0.00 0.00 3.58
641 1616 4.436332 TGCTTCTACTGTATGCTGACATG 58.564 43.478 0.00 0.00 37.04 3.21
650 1625 1.107538 ATGCTGACATGGCATCAGGC 61.108 55.000 17.35 7.40 45.85 4.85
651 1626 1.453379 GCTGACATGGCATCAGGCT 60.453 57.895 17.35 0.00 43.26 4.58
653 1628 1.748244 GCTGACATGGCATCAGGCTAA 60.748 52.381 17.35 0.00 43.26 3.09
654 1629 2.219458 CTGACATGGCATCAGGCTAAG 58.781 52.381 0.00 0.00 44.01 2.18
656 1631 0.549950 ACATGGCATCAGGCTAAGCT 59.450 50.000 0.00 0.00 44.01 3.74
657 1632 0.952280 CATGGCATCAGGCTAAGCTG 59.048 55.000 0.00 0.00 44.01 4.24
658 1633 0.549950 ATGGCATCAGGCTAAGCTGT 59.450 50.000 0.00 0.00 44.01 4.40
661 1636 1.542108 GGCATCAGGCTAAGCTGTAGG 60.542 57.143 0.00 0.00 44.01 3.18
662 1637 1.876322 CATCAGGCTAAGCTGTAGGC 58.124 55.000 16.47 16.47 40.02 3.93
676 1651 0.179119 GTAGGCGTATTGTCAGGCGT 60.179 55.000 0.00 0.00 35.47 5.68
682 1657 2.218759 GCGTATTGTCAGGCGTATTCAG 59.781 50.000 0.00 0.00 0.00 3.02
686 1661 0.535335 TGTCAGGCGTATTCAGGACC 59.465 55.000 0.00 0.00 0.00 4.46
687 1662 0.527817 GTCAGGCGTATTCAGGACCG 60.528 60.000 0.00 0.00 0.00 4.79
688 1663 0.968901 TCAGGCGTATTCAGGACCGT 60.969 55.000 0.00 0.00 0.00 4.83
689 1664 0.108329 CAGGCGTATTCAGGACCGTT 60.108 55.000 0.00 0.00 0.00 4.44
691 1666 1.002773 AGGCGTATTCAGGACCGTTTT 59.997 47.619 0.00 0.00 0.00 2.43
692 1667 1.129811 GGCGTATTCAGGACCGTTTTG 59.870 52.381 0.00 0.00 0.00 2.44
695 1670 2.671396 CGTATTCAGGACCGTTTTGGAG 59.329 50.000 0.00 0.00 42.00 3.86
696 1671 1.534729 ATTCAGGACCGTTTTGGAGC 58.465 50.000 0.00 0.00 42.00 4.70
699 1674 0.320073 CAGGACCGTTTTGGAGCGTA 60.320 55.000 0.00 0.00 42.00 4.42
701 1676 1.004595 GGACCGTTTTGGAGCGTATC 58.995 55.000 0.00 0.00 42.00 2.24
715 1690 3.296854 AGCGTATCCACATACTTGAGGA 58.703 45.455 0.00 0.00 45.15 3.71
716 1691 3.068307 AGCGTATCCACATACTTGAGGAC 59.932 47.826 0.00 0.00 44.09 3.85
717 1692 3.799232 GCGTATCCACATACTTGAGGACC 60.799 52.174 0.00 0.00 44.09 4.46
718 1693 3.383505 CGTATCCACATACTTGAGGACCA 59.616 47.826 0.00 0.00 44.09 4.02
720 1695 5.243060 CGTATCCACATACTTGAGGACCATA 59.757 44.000 0.00 0.00 44.09 2.74
723 1698 5.928976 TCCACATACTTGAGGACCATAATG 58.071 41.667 0.00 0.00 37.65 1.90
725 1700 5.163205 CCACATACTTGAGGACCATAATGGA 60.163 44.000 0.00 0.00 41.78 3.41
726 1701 5.994054 CACATACTTGAGGACCATAATGGAG 59.006 44.000 0.00 0.00 40.96 3.86
728 1703 2.846206 ACTTGAGGACCATAATGGAGCA 59.154 45.455 0.00 0.00 40.96 4.26
732 1707 4.464008 TGAGGACCATAATGGAGCATTTC 58.536 43.478 0.00 0.00 40.96 2.17
734 1709 4.210331 AGGACCATAATGGAGCATTTCAC 58.790 43.478 0.00 0.00 40.96 3.18
737 1712 5.471456 GGACCATAATGGAGCATTTCACTAG 59.529 44.000 0.00 0.00 40.96 2.57
738 1713 6.006275 ACCATAATGGAGCATTTCACTAGT 57.994 37.500 0.00 0.00 40.96 2.57
740 1715 6.891908 ACCATAATGGAGCATTTCACTAGTTT 59.108 34.615 0.00 0.00 40.96 2.66
741 1716 7.148018 ACCATAATGGAGCATTTCACTAGTTTG 60.148 37.037 0.00 0.00 40.96 2.93
742 1717 7.067372 CCATAATGGAGCATTTCACTAGTTTGA 59.933 37.037 0.00 0.00 40.96 2.69
746 1721 4.393371 GGAGCATTTCACTAGTTTGAGGAC 59.607 45.833 0.00 0.00 0.00 3.85
748 1723 4.999950 AGCATTTCACTAGTTTGAGGACTG 59.000 41.667 0.00 0.00 0.00 3.51
750 1725 5.106908 GCATTTCACTAGTTTGAGGACTGTC 60.107 44.000 0.00 0.00 0.00 3.51
751 1726 3.917329 TCACTAGTTTGAGGACTGTCG 57.083 47.619 1.07 0.00 0.00 4.35
754 1729 2.957006 ACTAGTTTGAGGACTGTCGTGT 59.043 45.455 7.85 0.00 0.00 4.49
755 1730 2.981859 AGTTTGAGGACTGTCGTGTT 57.018 45.000 7.85 0.00 0.00 3.32
757 1732 3.714391 AGTTTGAGGACTGTCGTGTTAC 58.286 45.455 7.85 3.12 0.00 2.50
758 1733 3.131577 AGTTTGAGGACTGTCGTGTTACA 59.868 43.478 7.85 0.00 0.00 2.41
759 1734 2.787601 TGAGGACTGTCGTGTTACAC 57.212 50.000 7.85 5.27 0.00 2.90
770 1745 2.260434 GTTACACGCCGGAGAGCA 59.740 61.111 13.83 0.00 0.00 4.26
771 1746 1.805945 GTTACACGCCGGAGAGCAG 60.806 63.158 13.83 0.99 0.00 4.24
775 1750 3.137459 ACGCCGGAGAGCAGAGAG 61.137 66.667 13.83 0.00 0.00 3.20
776 1751 2.826287 CGCCGGAGAGCAGAGAGA 60.826 66.667 5.05 0.00 0.00 3.10
778 1753 1.752694 GCCGGAGAGCAGAGAGACT 60.753 63.158 5.05 0.00 0.00 3.24
790 1765 4.073169 CAGAGAGACTGTACGTGTTCTC 57.927 50.000 0.00 3.91 41.30 2.87
794 1769 3.191581 AGAGACTGTACGTGTTCTCATGG 59.808 47.826 15.56 0.00 35.12 3.66
796 1771 3.572682 AGACTGTACGTGTTCTCATGGAA 59.427 43.478 0.00 0.00 35.12 3.53
816 1791 1.873591 ACTTTGATCCAACTCACGCAC 59.126 47.619 0.00 0.00 0.00 5.34
817 1792 0.865111 TTTGATCCAACTCACGCACG 59.135 50.000 0.00 0.00 0.00 5.34
819 1794 1.080093 GATCCAACTCACGCACGGA 60.080 57.895 0.00 0.00 0.00 4.69
820 1795 1.352156 GATCCAACTCACGCACGGAC 61.352 60.000 0.00 0.00 0.00 4.79
822 1797 3.403057 CAACTCACGCACGGACCG 61.403 66.667 13.61 13.61 0.00 4.79
832 1807 2.675075 ACGGACCGGCCCAAATTG 60.675 61.111 20.00 0.00 0.00 2.32
833 1808 4.128388 CGGACCGGCCCAAATTGC 62.128 66.667 7.85 0.00 0.00 3.56
834 1809 4.128388 GGACCGGCCCAAATTGCG 62.128 66.667 0.00 0.00 0.00 4.85
836 1811 2.034376 ACCGGCCCAAATTGCGTA 59.966 55.556 0.00 0.00 0.00 4.42
837 1812 1.587933 GACCGGCCCAAATTGCGTAA 61.588 55.000 0.00 0.00 0.00 3.18
838 1813 0.968393 ACCGGCCCAAATTGCGTAAT 60.968 50.000 0.00 0.00 0.00 1.89
839 1814 1.025812 CCGGCCCAAATTGCGTAATA 58.974 50.000 0.00 0.00 0.00 0.98
840 1815 1.001815 CCGGCCCAAATTGCGTAATAG 60.002 52.381 0.00 0.00 0.00 1.73
841 1816 1.001815 CGGCCCAAATTGCGTAATAGG 60.002 52.381 0.00 5.00 0.00 2.57
842 1817 1.339929 GGCCCAAATTGCGTAATAGGG 59.660 52.381 23.69 23.69 41.36 3.53
843 1818 2.028876 GCCCAAATTGCGTAATAGGGT 58.971 47.619 26.38 1.30 40.90 4.34
844 1819 2.429250 GCCCAAATTGCGTAATAGGGTT 59.571 45.455 26.38 6.76 40.90 4.11
845 1820 3.736740 GCCCAAATTGCGTAATAGGGTTG 60.737 47.826 26.38 15.88 40.90 3.77
847 1822 4.340950 CCCAAATTGCGTAATAGGGTTGAT 59.659 41.667 21.24 0.00 37.16 2.57
848 1823 5.507315 CCCAAATTGCGTAATAGGGTTGATC 60.507 44.000 21.24 0.00 37.16 2.92
849 1824 5.067153 CCAAATTGCGTAATAGGGTTGATCA 59.933 40.000 9.18 0.00 0.00 2.92
851 1826 6.767524 AATTGCGTAATAGGGTTGATCAAA 57.232 33.333 10.35 0.00 0.00 2.69
854 1829 7.867305 TTGCGTAATAGGGTTGATCAAATTA 57.133 32.000 10.35 7.86 0.00 1.40
855 1830 7.867305 TGCGTAATAGGGTTGATCAAATTAA 57.133 32.000 10.35 0.00 0.00 1.40
857 1832 8.564574 TGCGTAATAGGGTTGATCAAATTAATC 58.435 33.333 10.35 6.57 0.00 1.75
862 1837 6.855763 AGGGTTGATCAAATTAATCAGCAA 57.144 33.333 10.35 0.00 36.43 3.91
863 1838 6.870769 AGGGTTGATCAAATTAATCAGCAAG 58.129 36.000 10.35 0.00 36.43 4.01
864 1839 5.521372 GGGTTGATCAAATTAATCAGCAAGC 59.479 40.000 10.35 11.09 36.43 4.01
865 1840 6.101332 GGTTGATCAAATTAATCAGCAAGCA 58.899 36.000 10.35 0.00 36.43 3.91
866 1841 6.591062 GGTTGATCAAATTAATCAGCAAGCAA 59.409 34.615 10.35 2.11 36.43 3.91
868 1843 9.304731 GTTGATCAAATTAATCAGCAAGCAATA 57.695 29.630 10.35 0.00 35.26 1.90
876 1851 8.767478 ATTAATCAGCAAGCAATATAATTGGC 57.233 30.769 2.11 0.00 0.00 4.52
877 1852 4.589216 TCAGCAAGCAATATAATTGGCC 57.411 40.909 0.00 0.00 0.00 5.36
879 1854 4.650588 TCAGCAAGCAATATAATTGGCCTT 59.349 37.500 3.32 0.00 0.00 4.35
880 1855 4.748102 CAGCAAGCAATATAATTGGCCTTG 59.252 41.667 3.32 12.10 0.00 3.61
884 1859 6.484308 GCAAGCAATATAATTGGCCTTGATTT 59.516 34.615 17.10 0.00 0.00 2.17
885 1860 7.307573 GCAAGCAATATAATTGGCCTTGATTTC 60.308 37.037 17.10 0.00 0.00 2.17
886 1861 6.449698 AGCAATATAATTGGCCTTGATTTCG 58.550 36.000 3.32 0.00 0.00 3.46
889 1864 4.734398 ATAATTGGCCTTGATTTCGCAA 57.266 36.364 3.32 0.00 0.00 4.85
891 1866 2.898729 TTGGCCTTGATTTCGCAAAA 57.101 40.000 3.32 0.00 0.00 2.44
892 1867 2.898729 TGGCCTTGATTTCGCAAAAA 57.101 40.000 3.32 0.00 0.00 1.94
893 1868 3.399440 TGGCCTTGATTTCGCAAAAAT 57.601 38.095 3.32 0.00 0.00 1.82
895 1870 4.887748 TGGCCTTGATTTCGCAAAAATAA 58.112 34.783 3.32 0.00 0.00 1.40
897 1872 5.760253 TGGCCTTGATTTCGCAAAAATAAAA 59.240 32.000 3.32 0.00 0.00 1.52
898 1873 6.429385 TGGCCTTGATTTCGCAAAAATAAAAT 59.571 30.769 3.32 0.00 0.00 1.82
900 1875 8.447053 GGCCTTGATTTCGCAAAAATAAAATAA 58.553 29.630 0.00 0.00 0.00 1.40
966 3805 3.900892 CGCCCGCAGTCCGTATCT 61.901 66.667 0.00 0.00 34.38 1.98
972 3812 2.460918 CCGCAGTCCGTATCTTAACAG 58.539 52.381 0.00 0.00 34.38 3.16
990 3830 3.283751 ACAGATCAACGTTTTCCCAACA 58.716 40.909 0.00 0.00 0.00 3.33
1121 3972 1.923227 GCTTCCGCCGGAAAGAAAGG 61.923 60.000 20.54 8.09 41.54 3.11
1416 4267 3.428999 CCTTCATCGTGATGGACTACGTT 60.429 47.826 9.81 0.00 42.46 3.99
1419 4270 1.536940 TCGTGATGGACTACGTTGGA 58.463 50.000 0.00 0.00 40.87 3.53
1485 4336 2.772691 GCCGTTCTCCGAGGACGAT 61.773 63.158 27.60 0.00 42.66 3.73
1662 4516 4.162690 GGCGAGGTCAAGGGCGAT 62.163 66.667 0.00 0.00 0.00 4.58
1713 4567 1.925972 GTCCCAGAAGAAGGGGCCT 60.926 63.158 0.84 0.00 45.42 5.19
1988 5154 2.987125 GAAGCTGCCGGGTAAGGA 59.013 61.111 2.18 0.00 0.00 3.36
2169 5341 2.948979 TGGTTTCTTCAAGTCGTGCATT 59.051 40.909 0.00 0.00 0.00 3.56
2226 5456 1.538512 CCACTCCACATGCTTTGTCTG 59.461 52.381 0.00 0.00 36.00 3.51
2258 5491 5.625150 AGGTCTTCTGCAAAAATGTACTCT 58.375 37.500 0.00 0.00 0.00 3.24
2261 5494 6.348050 GGTCTTCTGCAAAAATGTACTCTCTG 60.348 42.308 0.00 0.00 0.00 3.35
2276 5509 7.500992 TGTACTCTCTGCTTCCCAAAATATAG 58.499 38.462 0.00 0.00 0.00 1.31
2329 5565 6.883217 ACAGACAGCTTTGACTATGATTTCAT 59.117 34.615 0.00 0.00 40.22 2.57
2434 5670 3.146218 TGGTTGGCCATGAAAGCTT 57.854 47.368 6.09 0.00 40.46 3.74
2448 5685 3.687212 TGAAAGCTTTCAGACGACAAACA 59.313 39.130 32.86 10.73 41.88 2.83
2449 5686 4.335315 TGAAAGCTTTCAGACGACAAACAT 59.665 37.500 32.86 0.00 41.88 2.71
2493 5730 4.846367 AGATGCTAGGCCTCCATACATTTA 59.154 41.667 9.68 0.00 0.00 1.40
2495 5732 5.582950 TGCTAGGCCTCCATACATTTAAT 57.417 39.130 9.68 0.00 0.00 1.40
2500 5737 9.025041 GCTAGGCCTCCATACATTTAATTAAAT 57.975 33.333 9.68 16.15 36.39 1.40
2529 5825 9.289303 GTACAATGATGTGCTTTATACTTTTGG 57.711 33.333 0.00 0.00 40.84 3.28
2530 5826 8.121305 ACAATGATGTGCTTTATACTTTTGGA 57.879 30.769 0.00 0.00 38.69 3.53
2531 5827 8.584157 ACAATGATGTGCTTTATACTTTTGGAA 58.416 29.630 0.00 0.00 38.69 3.53
2532 5828 8.863049 CAATGATGTGCTTTATACTTTTGGAAC 58.137 33.333 0.00 0.00 0.00 3.62
2533 5829 6.607689 TGATGTGCTTTATACTTTTGGAACG 58.392 36.000 0.00 0.00 0.00 3.95
2534 5830 6.205853 TGATGTGCTTTATACTTTTGGAACGT 59.794 34.615 0.00 0.00 0.00 3.99
2627 5956 5.221244 ACCCAGTGCTCAACTAATTTTTGTC 60.221 40.000 0.00 0.00 36.83 3.18
2668 5997 6.662414 TTTCGTTGCTAAGATCAAGTATGG 57.338 37.500 0.00 0.00 0.00 2.74
2670 5999 3.248602 CGTTGCTAAGATCAAGTATGGCC 59.751 47.826 0.00 0.00 0.00 5.36
2732 6062 0.322456 AGGCTGCGGCTTATGTTTCA 60.322 50.000 18.85 0.00 33.67 2.69
2734 6064 1.946768 GGCTGCGGCTTATGTTTCATA 59.053 47.619 18.85 0.00 38.73 2.15
2738 6068 5.278266 GGCTGCGGCTTATGTTTCATATTTA 60.278 40.000 18.85 0.00 38.73 1.40
2739 6069 5.625311 GCTGCGGCTTATGTTTCATATTTAC 59.375 40.000 11.21 0.00 35.22 2.01
2747 8424 9.997482 GCTTATGTTTCATATTTACCGAGAAAA 57.003 29.630 0.00 0.00 30.91 2.29
2763 8440 4.229876 GAGAAAATGTTCCTTTTGCGAGG 58.770 43.478 0.00 0.00 38.20 4.63
2831 8517 7.286087 TCTGTTTGCATGATAAATTAGGATGCT 59.714 33.333 15.59 0.00 40.11 3.79
2834 8520 6.321848 TGCATGATAAATTAGGATGCTGTG 57.678 37.500 15.59 0.00 40.11 3.66
2882 8959 6.968131 TCATGTACAGAAAGCTACACATTC 57.032 37.500 0.33 0.00 29.86 2.67
2889 8966 5.468072 ACAGAAAGCTACACATTCTTCACAG 59.532 40.000 0.00 0.00 31.26 3.66
2997 9807 4.569719 TCACTGTATTTTCTCCCCCTTC 57.430 45.455 0.00 0.00 0.00 3.46
3039 9850 0.956633 ATCGATGCCATGTTCATGCC 59.043 50.000 0.00 0.00 0.00 4.40
3093 9904 6.128715 CGATAGCGATCAGTTTATTCAAGCAT 60.129 38.462 7.61 0.00 40.82 3.79
3143 9954 5.875359 GTGGAGACGACCTAAAAGATTGATT 59.125 40.000 0.00 0.00 0.00 2.57
3244 10055 9.209175 GGTATTATCAGGAGTTTATTAGTGCTG 57.791 37.037 0.00 0.00 44.54 4.41
3245 10056 9.209175 GTATTATCAGGAGTTTATTAGTGCTGG 57.791 37.037 0.00 0.00 43.66 4.85
3257 10068 0.322277 AGTGCTGGAGTGAAGGCATG 60.322 55.000 0.00 0.00 37.05 4.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
164 170 7.024768 TGTCAACTTTTTAAGCAACTGTGTAC 58.975 34.615 0.00 0.00 0.00 2.90
308 988 6.862711 TCAAAACATGTTCGTGGTGTATTA 57.137 33.333 12.39 0.00 0.00 0.98
443 1418 4.541779 TGACACAACACAGAAAACAACAC 58.458 39.130 0.00 0.00 0.00 3.32
529 1504 2.030893 TGAAACCTTTGCTCGCTGATTG 60.031 45.455 0.00 0.00 0.00 2.67
555 1530 7.728847 AAATAAATTGCAAAACAGAGGTTCC 57.271 32.000 1.71 0.00 35.82 3.62
589 1564 6.001460 CCCACATGTTAGTACAGAGGAAAAA 58.999 40.000 0.00 0.00 37.77 1.94
590 1565 5.556915 CCCACATGTTAGTACAGAGGAAAA 58.443 41.667 0.00 0.00 37.77 2.29
591 1566 4.564821 GCCCACATGTTAGTACAGAGGAAA 60.565 45.833 0.00 0.00 37.77 3.13
592 1567 3.055385 GCCCACATGTTAGTACAGAGGAA 60.055 47.826 0.00 0.00 37.77 3.36
594 1569 2.420129 GGCCCACATGTTAGTACAGAGG 60.420 54.545 0.00 0.00 37.77 3.69
595 1570 2.501723 AGGCCCACATGTTAGTACAGAG 59.498 50.000 0.00 0.00 37.77 3.35
596 1571 2.500098 GAGGCCCACATGTTAGTACAGA 59.500 50.000 0.00 0.00 37.77 3.41
597 1572 2.236146 TGAGGCCCACATGTTAGTACAG 59.764 50.000 0.00 0.00 37.77 2.74
600 1575 2.421388 GCATGAGGCCCACATGTTAGTA 60.421 50.000 28.91 0.00 44.52 1.82
602 1577 1.027357 GCATGAGGCCCACATGTTAG 58.973 55.000 28.91 13.56 44.52 2.34
603 1578 0.625316 AGCATGAGGCCCACATGTTA 59.375 50.000 28.91 0.00 46.50 2.41
604 1579 0.251922 AAGCATGAGGCCCACATGTT 60.252 50.000 28.91 24.21 46.50 2.71
605 1580 0.682209 GAAGCATGAGGCCCACATGT 60.682 55.000 28.91 17.59 46.50 3.21
606 1581 0.395311 AGAAGCATGAGGCCCACATG 60.395 55.000 26.39 26.39 46.50 3.21
609 1584 0.543749 AGTAGAAGCATGAGGCCCAC 59.456 55.000 0.00 0.00 46.50 4.61
611 1586 0.543749 ACAGTAGAAGCATGAGGCCC 59.456 55.000 0.00 0.00 46.50 5.80
612 1587 3.397482 CATACAGTAGAAGCATGAGGCC 58.603 50.000 0.00 0.00 46.50 5.19
614 1589 4.056740 CAGCATACAGTAGAAGCATGAGG 58.943 47.826 0.00 0.00 0.00 3.86
616 1591 4.160252 TGTCAGCATACAGTAGAAGCATGA 59.840 41.667 0.00 4.10 0.00 3.07
617 1592 4.436332 TGTCAGCATACAGTAGAAGCATG 58.564 43.478 5.53 0.00 0.00 4.06
618 1593 4.743057 TGTCAGCATACAGTAGAAGCAT 57.257 40.909 5.53 0.00 0.00 3.79
619 1594 4.436332 CATGTCAGCATACAGTAGAAGCA 58.564 43.478 5.53 0.00 33.30 3.91
620 1595 3.806521 CCATGTCAGCATACAGTAGAAGC 59.193 47.826 0.00 0.00 33.30 3.86
633 1608 0.179037 TAGCCTGATGCCATGTCAGC 60.179 55.000 6.34 0.00 41.33 4.26
637 1612 0.549950 AGCTTAGCCTGATGCCATGT 59.450 50.000 0.00 0.00 42.71 3.21
638 1613 0.952280 CAGCTTAGCCTGATGCCATG 59.048 55.000 0.00 0.00 42.71 3.66
639 1614 0.549950 ACAGCTTAGCCTGATGCCAT 59.450 50.000 0.00 0.00 42.71 4.40
641 1616 1.542108 CCTACAGCTTAGCCTGATGCC 60.542 57.143 0.00 0.00 42.71 4.40
650 1625 4.041740 TGACAATACGCCTACAGCTTAG 57.958 45.455 0.00 0.00 40.39 2.18
651 1626 3.181479 CCTGACAATACGCCTACAGCTTA 60.181 47.826 0.00 0.00 40.39 3.09
653 1628 1.137086 CCTGACAATACGCCTACAGCT 59.863 52.381 0.00 0.00 40.39 4.24
654 1629 1.571919 CCTGACAATACGCCTACAGC 58.428 55.000 0.00 0.00 38.52 4.40
656 1631 0.179121 CGCCTGACAATACGCCTACA 60.179 55.000 0.00 0.00 0.00 2.74
657 1632 0.179119 ACGCCTGACAATACGCCTAC 60.179 55.000 0.00 0.00 0.00 3.18
658 1633 1.391577 TACGCCTGACAATACGCCTA 58.608 50.000 0.00 0.00 0.00 3.93
661 1636 2.198406 TGAATACGCCTGACAATACGC 58.802 47.619 0.00 0.00 0.00 4.42
662 1637 2.794910 CCTGAATACGCCTGACAATACG 59.205 50.000 0.00 0.00 0.00 3.06
663 1638 3.802685 GTCCTGAATACGCCTGACAATAC 59.197 47.826 0.00 0.00 0.00 1.89
665 1640 2.420129 GGTCCTGAATACGCCTGACAAT 60.420 50.000 0.00 0.00 0.00 2.71
668 1643 0.527817 CGGTCCTGAATACGCCTGAC 60.528 60.000 0.00 0.00 0.00 3.51
676 1651 2.706890 GCTCCAAAACGGTCCTGAATA 58.293 47.619 0.00 0.00 35.57 1.75
682 1657 1.004595 GATACGCTCCAAAACGGTCC 58.995 55.000 0.00 0.00 35.57 4.46
695 1670 3.728076 TCCTCAAGTATGTGGATACGC 57.272 47.619 0.00 0.00 42.71 4.42
701 1676 5.065914 CCATTATGGTCCTCAAGTATGTGG 58.934 45.833 2.48 0.00 40.78 4.17
702 1677 5.928976 TCCATTATGGTCCTCAAGTATGTG 58.071 41.667 11.39 0.00 39.03 3.21
703 1678 5.455326 GCTCCATTATGGTCCTCAAGTATGT 60.455 44.000 11.39 0.00 39.03 2.29
704 1679 4.999950 GCTCCATTATGGTCCTCAAGTATG 59.000 45.833 11.39 0.00 39.03 2.39
706 1681 4.037222 TGCTCCATTATGGTCCTCAAGTA 58.963 43.478 11.39 0.00 39.03 2.24
708 1683 3.565764 TGCTCCATTATGGTCCTCAAG 57.434 47.619 11.39 1.17 39.03 3.02
709 1684 4.524802 AATGCTCCATTATGGTCCTCAA 57.475 40.909 11.39 0.00 39.03 3.02
711 1686 4.276926 GTGAAATGCTCCATTATGGTCCTC 59.723 45.833 11.39 2.19 39.03 3.71
713 1688 4.210331 AGTGAAATGCTCCATTATGGTCC 58.790 43.478 11.39 4.25 39.03 4.46
715 1690 6.006275 ACTAGTGAAATGCTCCATTATGGT 57.994 37.500 11.39 0.00 39.03 3.55
716 1691 6.949352 AACTAGTGAAATGCTCCATTATGG 57.051 37.500 4.57 4.57 39.43 2.74
717 1692 7.988737 TCAAACTAGTGAAATGCTCCATTATG 58.011 34.615 0.00 0.00 32.43 1.90
718 1693 7.284034 CCTCAAACTAGTGAAATGCTCCATTAT 59.716 37.037 0.00 0.00 32.43 1.28
720 1695 5.416952 CCTCAAACTAGTGAAATGCTCCATT 59.583 40.000 0.00 0.00 35.39 3.16
723 1698 4.393371 GTCCTCAAACTAGTGAAATGCTCC 59.607 45.833 0.00 0.00 0.00 4.70
725 1700 4.999950 CAGTCCTCAAACTAGTGAAATGCT 59.000 41.667 0.00 0.00 0.00 3.79
726 1701 4.757149 ACAGTCCTCAAACTAGTGAAATGC 59.243 41.667 0.00 0.00 0.00 3.56
728 1703 5.221461 ACGACAGTCCTCAAACTAGTGAAAT 60.221 40.000 0.00 0.00 0.00 2.17
732 1707 3.243434 ACACGACAGTCCTCAAACTAGTG 60.243 47.826 0.00 0.00 35.89 2.74
734 1709 3.644884 ACACGACAGTCCTCAAACTAG 57.355 47.619 0.00 0.00 0.00 2.57
737 1712 3.244579 GTGTAACACGACAGTCCTCAAAC 59.755 47.826 0.00 0.00 36.32 2.93
738 1713 3.450578 GTGTAACACGACAGTCCTCAAA 58.549 45.455 0.00 0.00 36.32 2.69
740 1715 2.787601 GTGTAACACGACAGTCCTCA 57.212 50.000 0.00 0.00 36.32 3.86
751 1726 2.092882 GCTCTCCGGCGTGTAACAC 61.093 63.158 6.01 0.00 35.74 3.32
754 1729 1.934220 CTCTGCTCTCCGGCGTGTAA 61.934 60.000 6.01 0.00 34.52 2.41
755 1730 2.360726 TCTGCTCTCCGGCGTGTA 60.361 61.111 6.01 0.00 34.52 2.90
757 1732 3.408501 CTCTCTGCTCTCCGGCGTG 62.409 68.421 6.01 0.00 34.52 5.34
758 1733 3.137459 CTCTCTGCTCTCCGGCGT 61.137 66.667 6.01 0.00 34.52 5.68
759 1734 2.826287 TCTCTCTGCTCTCCGGCG 60.826 66.667 0.00 0.00 34.52 6.46
761 1736 2.105984 CAGTCTCTCTGCTCTCCGG 58.894 63.158 0.00 0.00 37.36 5.14
770 1745 3.741249 TGAGAACACGTACAGTCTCTCT 58.259 45.455 14.37 7.45 38.63 3.10
771 1746 4.407818 CATGAGAACACGTACAGTCTCTC 58.592 47.826 14.37 12.57 38.46 3.20
775 1750 3.570926 TCCATGAGAACACGTACAGTC 57.429 47.619 0.00 0.00 0.00 3.51
787 1762 5.221904 TGAGTTGGATCAAAGTTCCATGAGA 60.222 40.000 0.00 0.00 42.69 3.27
788 1763 5.005740 TGAGTTGGATCAAAGTTCCATGAG 58.994 41.667 0.00 0.00 42.69 2.90
789 1764 4.761739 GTGAGTTGGATCAAAGTTCCATGA 59.238 41.667 0.00 0.00 42.69 3.07
790 1765 4.378770 CGTGAGTTGGATCAAAGTTCCATG 60.379 45.833 0.00 0.00 42.69 3.66
794 1769 2.548057 TGCGTGAGTTGGATCAAAGTTC 59.452 45.455 0.00 0.00 0.00 3.01
796 1771 1.873591 GTGCGTGAGTTGGATCAAAGT 59.126 47.619 0.00 0.00 0.00 2.66
800 1775 1.374125 CCGTGCGTGAGTTGGATCA 60.374 57.895 0.00 0.00 0.00 2.92
801 1776 1.080093 TCCGTGCGTGAGTTGGATC 60.080 57.895 0.00 0.00 0.00 3.36
805 1780 3.403057 CGGTCCGTGCGTGAGTTG 61.403 66.667 2.08 0.00 0.00 3.16
816 1791 4.128388 GCAATTTGGGCCGGTCCG 62.128 66.667 22.68 6.58 34.94 4.79
817 1792 4.128388 CGCAATTTGGGCCGGTCC 62.128 66.667 21.35 21.35 0.00 4.46
819 1794 0.968393 ATTACGCAATTTGGGCCGGT 60.968 50.000 12.88 0.00 33.10 5.28
820 1795 1.001815 CTATTACGCAATTTGGGCCGG 60.002 52.381 12.88 0.00 33.10 6.13
822 1797 1.339929 CCCTATTACGCAATTTGGGCC 59.660 52.381 12.88 0.00 33.09 5.80
824 1799 3.697045 TCAACCCTATTACGCAATTTGGG 59.303 43.478 11.53 11.53 40.11 4.12
825 1800 4.974368 TCAACCCTATTACGCAATTTGG 57.026 40.909 0.00 0.00 0.00 3.28
826 1801 6.130298 TGATCAACCCTATTACGCAATTTG 57.870 37.500 0.00 0.00 0.00 2.32
832 1807 8.564574 TGATTAATTTGATCAACCCTATTACGC 58.435 33.333 7.89 5.17 30.96 4.42
834 1809 9.899226 GCTGATTAATTTGATCAACCCTATTAC 57.101 33.333 7.89 0.49 33.45 1.89
836 1811 8.537728 TGCTGATTAATTTGATCAACCCTATT 57.462 30.769 7.89 7.91 33.45 1.73
837 1812 8.537728 TTGCTGATTAATTTGATCAACCCTAT 57.462 30.769 7.89 0.00 33.45 2.57
838 1813 7.416664 GCTTGCTGATTAATTTGATCAACCCTA 60.417 37.037 7.89 0.00 33.45 3.53
839 1814 6.628844 GCTTGCTGATTAATTTGATCAACCCT 60.629 38.462 7.89 0.00 33.45 4.34
840 1815 5.521372 GCTTGCTGATTAATTTGATCAACCC 59.479 40.000 7.89 0.00 33.45 4.11
841 1816 6.101332 TGCTTGCTGATTAATTTGATCAACC 58.899 36.000 7.89 1.48 33.45 3.77
842 1817 7.585286 TTGCTTGCTGATTAATTTGATCAAC 57.415 32.000 7.89 2.28 33.45 3.18
851 1826 7.820872 GGCCAATTATATTGCTTGCTGATTAAT 59.179 33.333 0.00 0.00 0.00 1.40
854 1829 5.306160 AGGCCAATTATATTGCTTGCTGATT 59.694 36.000 5.01 0.00 0.00 2.57
855 1830 4.836736 AGGCCAATTATATTGCTTGCTGAT 59.163 37.500 5.01 0.00 0.00 2.90
857 1832 4.595762 AGGCCAATTATATTGCTTGCTG 57.404 40.909 5.01 0.00 0.00 4.41
862 1837 6.449698 CGAAATCAAGGCCAATTATATTGCT 58.550 36.000 5.01 0.00 0.00 3.91
863 1838 5.119125 GCGAAATCAAGGCCAATTATATTGC 59.881 40.000 5.01 0.00 0.00 3.56
864 1839 6.215121 TGCGAAATCAAGGCCAATTATATTG 58.785 36.000 5.01 0.00 0.00 1.90
865 1840 6.403866 TGCGAAATCAAGGCCAATTATATT 57.596 33.333 5.01 0.00 0.00 1.28
866 1841 6.403866 TTGCGAAATCAAGGCCAATTATAT 57.596 33.333 5.01 0.00 0.00 0.86
868 1843 4.734398 TTGCGAAATCAAGGCCAATTAT 57.266 36.364 5.01 0.00 0.00 1.28
869 1844 4.527509 TTTGCGAAATCAAGGCCAATTA 57.472 36.364 5.01 0.00 0.00 1.40
872 1847 2.898729 TTTTGCGAAATCAAGGCCAA 57.101 40.000 5.01 0.00 0.00 4.52
875 1850 9.818796 TTTATTTTATTTTTGCGAAATCAAGGC 57.181 25.926 0.00 0.00 0.00 4.35
895 1870 7.123547 TCGGAGTCAAGGCCAATTATTTTATTT 59.876 33.333 5.01 0.00 0.00 1.40
897 1872 6.126409 TCGGAGTCAAGGCCAATTATTTTAT 58.874 36.000 5.01 0.00 0.00 1.40
898 1873 5.502079 TCGGAGTCAAGGCCAATTATTTTA 58.498 37.500 5.01 0.00 0.00 1.52
900 1875 3.947834 CTCGGAGTCAAGGCCAATTATTT 59.052 43.478 5.01 0.00 0.00 1.40
903 1878 1.906574 ACTCGGAGTCAAGGCCAATTA 59.093 47.619 5.01 0.00 0.00 1.40
905 1880 0.250513 GACTCGGAGTCAAGGCCAAT 59.749 55.000 28.54 0.00 44.45 3.16
906 1881 1.671742 GACTCGGAGTCAAGGCCAA 59.328 57.895 28.54 0.00 44.45 4.52
908 1883 2.182030 CGACTCGGAGTCAAGGCC 59.818 66.667 31.17 10.00 45.30 5.19
966 3805 5.357314 TGTTGGGAAAACGTTGATCTGTTAA 59.643 36.000 0.00 0.00 0.00 2.01
972 3812 4.237349 ACATGTTGGGAAAACGTTGATC 57.763 40.909 0.00 3.47 0.00 2.92
1296 4147 4.827087 AGGCACATGCTCTCGCGG 62.827 66.667 6.13 0.00 41.70 6.46
1416 4267 1.216178 GCGTAGGTTTAGGCGTCCA 59.784 57.895 0.00 0.00 31.79 4.02
1425 4276 1.087771 GCATGTAGCCGCGTAGGTTT 61.088 55.000 4.92 0.00 43.70 3.27
1485 4336 1.815003 CTTCATGATCCGGCGCACA 60.815 57.895 10.83 0.83 0.00 4.57
1662 4516 2.353889 GCCGATCTTGTAGACTACACGA 59.646 50.000 20.39 20.39 40.54 4.35
2258 5491 3.747388 CGCCCTATATTTTGGGAAGCAGA 60.747 47.826 6.85 0.00 46.15 4.26
2261 5494 2.583143 ACGCCCTATATTTTGGGAAGC 58.417 47.619 6.85 0.00 46.15 3.86
2381 5617 8.724229 CATTCAGAGTTTCAGACAACATTCATA 58.276 33.333 0.00 0.00 0.00 2.15
2427 5663 4.273005 TGTTTGTCGTCTGAAAGCTTTC 57.727 40.909 28.61 28.61 37.69 2.62
2429 5665 6.183360 GCTATATGTTTGTCGTCTGAAAGCTT 60.183 38.462 0.00 0.00 0.00 3.74
2432 5668 6.893958 AGCTATATGTTTGTCGTCTGAAAG 57.106 37.500 0.00 0.00 0.00 2.62
2434 5670 8.248253 TCTAAAGCTATATGTTTGTCGTCTGAA 58.752 33.333 0.00 0.00 0.00 3.02
2511 5807 6.016610 ACACGTTCCAAAAGTATAAAGCACAT 60.017 34.615 0.00 0.00 0.00 3.21
2523 5819 9.458374 AGAAATTGTAAATACACGTTCCAAAAG 57.542 29.630 9.92 0.00 35.64 2.27
2557 5853 7.201679 GCAACTCAGCAAGTAATGATATCACTT 60.202 37.037 7.78 4.41 37.17 3.16
2627 5956 8.227791 GCAACGAAATACATATATTACACAGGG 58.772 37.037 0.00 0.00 30.42 4.45
2640 5969 7.849804 ACTTGATCTTAGCAACGAAATACAT 57.150 32.000 0.00 0.00 0.00 2.29
2641 5970 8.817100 CATACTTGATCTTAGCAACGAAATACA 58.183 33.333 0.00 0.00 0.00 2.29
2668 5997 0.681175 AGCACAAAATGACCCTTGGC 59.319 50.000 0.00 0.00 0.00 4.52
2670 5999 5.241506 TCTTTCTAGCACAAAATGACCCTTG 59.758 40.000 0.00 0.00 0.00 3.61
2720 6050 7.724305 TCTCGGTAAATATGAAACATAAGCC 57.276 36.000 0.00 0.00 0.00 4.35
2732 6062 9.855021 CAAAAGGAACATTTTCTCGGTAAATAT 57.145 29.630 0.00 0.00 30.01 1.28
2734 6064 6.645003 GCAAAAGGAACATTTTCTCGGTAAAT 59.355 34.615 0.00 0.00 30.01 1.40
2738 6068 3.550030 CGCAAAAGGAACATTTTCTCGGT 60.550 43.478 0.00 0.00 30.01 4.69
2739 6069 2.979813 CGCAAAAGGAACATTTTCTCGG 59.020 45.455 0.00 0.00 30.01 4.63
2747 8424 0.251341 AGGCCTCGCAAAAGGAACAT 60.251 50.000 0.00 0.00 38.87 2.71
2763 8440 0.548510 AGGTCCCAGCAAGAATAGGC 59.451 55.000 0.00 0.00 0.00 3.93
2805 8491 7.286087 AGCATCCTAATTTATCATGCAAACAGA 59.714 33.333 16.33 0.00 41.98 3.41
2811 8497 5.278610 GCACAGCATCCTAATTTATCATGCA 60.279 40.000 16.33 0.00 41.98 3.96
2831 8517 7.517614 TTTCCACTGAATTATAAACTGCACA 57.482 32.000 0.00 0.00 0.00 4.57
2834 8520 6.620678 TGCTTTCCACTGAATTATAAACTGC 58.379 36.000 0.00 0.00 0.00 4.40
2882 8959 5.533482 ACTGTCTTAACTGTAGCTGTGAAG 58.467 41.667 0.00 0.00 35.98 3.02
2889 8966 7.422878 AAGCTTTTACTGTCTTAACTGTAGC 57.577 36.000 0.00 0.00 39.86 3.58
3093 9904 6.408035 TGCTCGGTCAATAACAACCTTATAA 58.592 36.000 0.00 0.00 33.14 0.98
3111 9922 3.062466 TCGTCTCCACCTGCTCGG 61.062 66.667 0.00 0.00 39.35 4.63
3120 9931 5.677319 ATCAATCTTTTAGGTCGTCTCCA 57.323 39.130 0.00 0.00 0.00 3.86
3121 9932 6.986904 AAATCAATCTTTTAGGTCGTCTCC 57.013 37.500 0.00 0.00 0.00 3.71
3217 10028 8.088981 AGCACTAATAAACTCCTGATAATACCG 58.911 37.037 0.00 0.00 0.00 4.02
3218 10029 9.209175 CAGCACTAATAAACTCCTGATAATACC 57.791 37.037 0.00 0.00 0.00 2.73
3244 10055 0.607489 AGTGCACATGCCTTCACTCC 60.607 55.000 21.04 0.00 41.18 3.85
3245 10056 1.734465 GTAGTGCACATGCCTTCACTC 59.266 52.381 21.04 0.00 40.01 3.51


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

AutoCloner maintained by Alex Coulton.