Multiple sequence alignment - TraesCS2B01G550800

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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 TraesCS2B01G550800 chr2B 100.000 2413 0 0 1 2413 746679516 746681928 0.000000e+00 4457
1 TraesCS2B01G550800 chr2B 86.552 1517 103 35 1 1477 747076238 747077693 0.000000e+00 1578
2 TraesCS2B01G550800 chr2D 84.447 1556 134 45 802 2275 612184455 612185984 0.000000e+00 1434
3 TraesCS2B01G550800 chr2D 88.717 904 41 13 568 1438 612324930 612325805 0.000000e+00 1048
4 TraesCS2B01G550800 chr2D 84.152 448 31 15 1 412 612183832 612184275 4.830000e-107 398
5 TraesCS2B01G550800 chr2D 85.867 375 32 9 55 412 612324562 612324932 1.750000e-101 379
6 TraesCS2B01G550800 chr2D 90.968 155 12 2 421 573 591561448 591561294 8.740000e-50 207
7 TraesCS2B01G550800 chr2D 91.912 136 11 0 2276 2411 9630990 9630855 8.810000e-45 191
8 TraesCS2B01G550800 chr2D 89.130 138 14 1 2276 2413 618688518 618688654 1.150000e-38 171
9 TraesCS2B01G550800 chr2D 83.571 140 8 3 568 707 612184273 612184397 1.520000e-22 117
10 TraesCS2B01G550800 chr2A 81.620 642 52 29 802 1413 744408440 744409045 2.810000e-129 472
11 TraesCS2B01G550800 chr2A 89.937 159 15 1 412 569 2922125 2921967 1.130000e-48 204
12 TraesCS2B01G550800 chr7B 91.083 157 13 1 414 569 462515588 462515744 6.760000e-51 211
13 TraesCS2B01G550800 chr7B 89.809 157 15 1 414 569 664489250 664489094 1.460000e-47 200
14 TraesCS2B01G550800 chr7B 89.286 140 13 2 2276 2413 655685272 655685411 8.870000e-40 174
15 TraesCS2B01G550800 chr3D 90.260 154 13 2 421 572 372414075 372413922 1.460000e-47 200
16 TraesCS2B01G550800 chr3D 92.647 136 10 0 2276 2411 418715772 418715907 1.890000e-46 196
17 TraesCS2B01G550800 chr3D 91.176 136 12 0 2276 2411 46969962 46970097 4.100000e-43 185
18 TraesCS2B01G550800 chr5D 88.485 165 18 1 406 569 437799939 437799775 5.260000e-47 198
19 TraesCS2B01G550800 chr4D 89.308 159 16 1 412 569 97930471 97930629 5.260000e-47 198
20 TraesCS2B01G550800 chr4D 89.308 159 16 1 412 569 416867834 416867676 5.260000e-47 198
21 TraesCS2B01G550800 chr4D 90.698 86 8 0 1273 1358 458091185 458091100 5.450000e-22 115
22 TraesCS2B01G550800 chr1B 88.024 167 18 2 406 570 438036037 438035871 1.890000e-46 196
23 TraesCS2B01G550800 chr6A 90.441 136 13 0 2276 2411 609304637 609304502 1.910000e-41 180
24 TraesCS2B01G550800 chr7D 90.299 134 11 2 2276 2408 161408401 161408533 8.870000e-40 174
25 TraesCS2B01G550800 chr5A 89.130 138 15 0 2276 2413 473299760 473299897 3.190000e-39 172
26 TraesCS2B01G550800 chr6D 89.209 139 12 1 2276 2411 464395961 464395823 1.150000e-38 171
27 TraesCS2B01G550800 chr4A 91.566 83 7 0 1273 1355 10939078 10939160 5.450000e-22 115
28 TraesCS2B01G550800 chr4B 89.535 86 9 0 1273 1358 572157228 572157143 2.540000e-20 110


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 TraesCS2B01G550800 chr2B 746679516 746681928 2412 False 4457.000000 4457 100.000000 1 2413 1 chr2B.!!$F1 2412
1 TraesCS2B01G550800 chr2B 747076238 747077693 1455 False 1578.000000 1578 86.552000 1 1477 1 chr2B.!!$F2 1476
2 TraesCS2B01G550800 chr2D 612324562 612325805 1243 False 713.500000 1048 87.292000 55 1438 2 chr2D.!!$F3 1383
3 TraesCS2B01G550800 chr2D 612183832 612185984 2152 False 649.666667 1434 84.056667 1 2275 3 chr2D.!!$F2 2274
4 TraesCS2B01G550800 chr2A 744408440 744409045 605 False 472.000000 472 81.620000 802 1413 1 chr2A.!!$F1 611

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
707 752 0.042731 CCCACCTCTTCCTCCTACCA 59.957 60.0 0.0 0.0 0.0 3.25 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2319 2511 0.031616 AGAAGGAGGTGCTAGAGGGG 60.032 60.0 0.0 0.0 0.0 4.79 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
79 94 9.189156 CTATTTGGATTCAGAAATGAACCCTTA 57.811 33.333 3.15 0.00 32.61 2.69
96 111 7.502226 TGAACCCTTATCCATTGATACATGTTC 59.498 37.037 2.30 2.28 36.26 3.18
99 114 8.006564 ACCCTTATCCATTGATACATGTTCATT 58.993 33.333 2.30 2.02 33.19 2.57
100 115 8.863086 CCCTTATCCATTGATACATGTTCATTT 58.137 33.333 2.30 0.00 33.19 2.32
154 169 9.638239 GGAGACATTGATGATCTCTTAATCTAC 57.362 37.037 16.10 0.00 36.31 2.59
218 239 4.441356 GCAGATCTAGAGAAACCTCCACAG 60.441 50.000 0.00 0.00 0.00 3.66
219 240 4.709397 CAGATCTAGAGAAACCTCCACAGT 59.291 45.833 0.00 0.00 0.00 3.55
220 241 4.953579 AGATCTAGAGAAACCTCCACAGTC 59.046 45.833 0.00 0.00 0.00 3.51
221 242 3.432378 TCTAGAGAAACCTCCACAGTCC 58.568 50.000 0.00 0.00 0.00 3.85
222 243 2.103153 AGAGAAACCTCCACAGTCCA 57.897 50.000 0.00 0.00 0.00 4.02
223 244 1.694696 AGAGAAACCTCCACAGTCCAC 59.305 52.381 0.00 0.00 0.00 4.02
224 245 1.416401 GAGAAACCTCCACAGTCCACA 59.584 52.381 0.00 0.00 0.00 4.17
260 301 1.318158 GCCAAATCCAGAGGCCACAG 61.318 60.000 5.01 0.00 42.58 3.66
328 373 2.768253 TCCAACTCGTACGTCCTAGA 57.232 50.000 16.05 5.62 0.00 2.43
343 388 1.001248 TAGACCTACGGCCCAAGCT 59.999 57.895 0.00 0.00 39.73 3.74
346 391 1.972660 GACCTACGGCCCAAGCTCAT 61.973 60.000 0.00 0.00 39.73 2.90
395 440 0.108138 GTACTCACCTCGGCTGCAAT 60.108 55.000 0.50 0.00 0.00 3.56
414 459 5.874810 TGCAATTGTCACTGAATACTACTCC 59.125 40.000 7.40 0.00 0.00 3.85
415 460 5.874810 GCAATTGTCACTGAATACTACTCCA 59.125 40.000 7.40 0.00 0.00 3.86
417 462 7.066284 GCAATTGTCACTGAATACTACTCCATT 59.934 37.037 7.40 0.00 0.00 3.16
418 463 8.950210 CAATTGTCACTGAATACTACTCCATTT 58.050 33.333 0.00 0.00 0.00 2.32
419 464 9.520515 AATTGTCACTGAATACTACTCCATTTT 57.479 29.630 0.00 0.00 0.00 1.82
420 465 8.918202 TTGTCACTGAATACTACTCCATTTTT 57.082 30.769 0.00 0.00 0.00 1.94
485 530 6.902341 TGAAGCAAAATGAGTGAATCTACAC 58.098 36.000 0.00 0.00 40.60 2.90
595 640 5.222089 ACTCAGTACCACTGGTAGTAGAGTT 60.222 44.000 24.85 16.77 45.94 3.01
597 642 4.158025 CAGTACCACTGGTAGTAGAGTTGG 59.842 50.000 14.26 0.00 42.35 3.77
632 677 1.442857 GCTCACCACGTCGTCTCTG 60.443 63.158 0.00 0.00 0.00 3.35
633 678 1.950007 CTCACCACGTCGTCTCTGT 59.050 57.895 0.00 0.00 0.00 3.41
634 679 0.110147 CTCACCACGTCGTCTCTGTC 60.110 60.000 0.00 0.00 0.00 3.51
635 680 1.081376 CACCACGTCGTCTCTGTCC 60.081 63.158 0.00 0.00 0.00 4.02
636 681 2.176055 CCACGTCGTCTCTGTCCG 59.824 66.667 0.00 0.00 0.00 4.79
637 682 2.614446 CCACGTCGTCTCTGTCCGT 61.614 63.158 0.00 0.00 0.00 4.69
638 683 1.281960 CACGTCGTCTCTGTCCGTT 59.718 57.895 0.00 0.00 0.00 4.44
639 684 0.997226 CACGTCGTCTCTGTCCGTTG 60.997 60.000 0.00 0.00 0.00 4.10
640 685 1.281960 CGTCGTCTCTGTCCGTTGT 59.718 57.895 0.00 0.00 0.00 3.32
641 686 0.725118 CGTCGTCTCTGTCCGTTGTC 60.725 60.000 0.00 0.00 0.00 3.18
642 687 0.592148 GTCGTCTCTGTCCGTTGTCT 59.408 55.000 0.00 0.00 0.00 3.41
643 688 0.873054 TCGTCTCTGTCCGTTGTCTC 59.127 55.000 0.00 0.00 0.00 3.36
644 689 0.875728 CGTCTCTGTCCGTTGTCTCT 59.124 55.000 0.00 0.00 0.00 3.10
663 708 3.997021 CTCTCCCTGTCACACATTTACAC 59.003 47.826 0.00 0.00 0.00 2.90
691 736 3.195825 GCTGTCTTTCTAACTAGCTCCCA 59.804 47.826 0.00 0.00 0.00 4.37
705 750 1.783071 CTCCCACCTCTTCCTCCTAC 58.217 60.000 0.00 0.00 0.00 3.18
706 751 0.338814 TCCCACCTCTTCCTCCTACC 59.661 60.000 0.00 0.00 0.00 3.18
707 752 0.042731 CCCACCTCTTCCTCCTACCA 59.957 60.000 0.00 0.00 0.00 3.25
708 753 1.196012 CCACCTCTTCCTCCTACCAC 58.804 60.000 0.00 0.00 0.00 4.16
709 754 1.196012 CACCTCTTCCTCCTACCACC 58.804 60.000 0.00 0.00 0.00 4.61
710 755 1.094269 ACCTCTTCCTCCTACCACCT 58.906 55.000 0.00 0.00 0.00 4.00
711 756 1.273324 ACCTCTTCCTCCTACCACCTG 60.273 57.143 0.00 0.00 0.00 4.00
712 757 0.827368 CTCTTCCTCCTACCACCTGC 59.173 60.000 0.00 0.00 0.00 4.85
713 758 0.413832 TCTTCCTCCTACCACCTGCT 59.586 55.000 0.00 0.00 0.00 4.24
714 759 1.644337 TCTTCCTCCTACCACCTGCTA 59.356 52.381 0.00 0.00 0.00 3.49
715 760 2.043939 TCTTCCTCCTACCACCTGCTAA 59.956 50.000 0.00 0.00 0.00 3.09
716 761 2.160721 TCCTCCTACCACCTGCTAAG 57.839 55.000 0.00 0.00 0.00 2.18
717 762 0.466124 CCTCCTACCACCTGCTAAGC 59.534 60.000 0.00 0.00 0.00 3.09
718 763 1.490574 CTCCTACCACCTGCTAAGCT 58.509 55.000 0.00 0.00 0.00 3.74
719 764 2.667470 CTCCTACCACCTGCTAAGCTA 58.333 52.381 0.00 0.00 0.00 3.32
720 765 2.625790 CTCCTACCACCTGCTAAGCTAG 59.374 54.545 0.00 0.00 0.00 3.42
859 930 2.166254 CTCACCTGCACCAAAAACAAGT 59.834 45.455 0.00 0.00 0.00 3.16
860 931 2.564947 TCACCTGCACCAAAAACAAGTT 59.435 40.909 0.00 0.00 0.00 2.66
901 981 3.644265 TCACCCAACTGTTAGTCTGCTAA 59.356 43.478 0.00 0.00 35.04 3.09
902 982 3.997021 CACCCAACTGTTAGTCTGCTAAG 59.003 47.826 0.00 0.00 37.82 2.18
926 1031 4.314440 GCTGCGTGTGGGAGTGGA 62.314 66.667 0.00 0.00 36.30 4.02
962 1069 5.178996 CAGCTCGATAGGTACGTACATAAGT 59.821 44.000 26.02 10.38 0.00 2.24
994 1108 4.724602 TGTGAGCCAGCGAGCGAC 62.725 66.667 0.00 0.00 38.01 5.19
1059 1177 2.755876 AGCTCGCCGTCCATCTCA 60.756 61.111 0.00 0.00 0.00 3.27
1152 1272 2.648304 TCACAGGGTGAGTAGAGTACCT 59.352 50.000 0.00 0.00 37.67 3.08
1190 1324 3.448301 TGCTTTTTCCATGAATAGGCAGG 59.552 43.478 0.00 0.00 32.87 4.85
1235 1380 0.950555 GCATGCACGGAGTCACTGAA 60.951 55.000 14.21 0.00 41.61 3.02
1241 1386 3.128349 GCACGGAGTCACTGAAAGTTAA 58.872 45.455 0.00 0.00 44.74 2.01
1413 1564 0.464870 CAGGAGCCTCCTCATGTGAG 59.535 60.000 11.26 3.01 45.66 3.51
1414 1565 0.337773 AGGAGCCTCCTCATGTGAGA 59.662 55.000 7.68 2.32 45.66 3.27
1415 1566 1.062275 AGGAGCCTCCTCATGTGAGAT 60.062 52.381 7.68 5.06 45.66 2.75
1416 1567 1.070445 GGAGCCTCCTCATGTGAGATG 59.930 57.143 11.47 3.93 44.74 2.90
1417 1568 1.761784 GAGCCTCCTCATGTGAGATGT 59.238 52.381 11.47 1.78 44.74 3.06
1418 1569 1.485480 AGCCTCCTCATGTGAGATGTG 59.515 52.381 11.47 0.00 44.74 3.21
1419 1570 1.483827 GCCTCCTCATGTGAGATGTGA 59.516 52.381 11.47 0.00 44.74 3.58
1420 1571 2.741228 GCCTCCTCATGTGAGATGTGAC 60.741 54.545 11.47 0.00 44.74 3.67
1421 1572 2.158986 CCTCCTCATGTGAGATGTGACC 60.159 54.545 11.47 0.00 44.74 4.02
1422 1573 1.833630 TCCTCATGTGAGATGTGACCC 59.166 52.381 11.47 0.00 44.74 4.46
1423 1574 1.556451 CCTCATGTGAGATGTGACCCA 59.444 52.381 11.47 0.00 44.74 4.51
1497 1655 3.503363 GTGAGCATGCCCGTGAGC 61.503 66.667 15.66 0.00 0.00 4.26
1501 1659 2.817834 GCATGCCCGTGAGCGTTA 60.818 61.111 6.36 0.00 36.15 3.18
1502 1660 3.089784 CATGCCCGTGAGCGTTAC 58.910 61.111 0.00 0.00 36.15 2.50
1503 1661 1.739929 CATGCCCGTGAGCGTTACA 60.740 57.895 0.00 0.00 36.15 2.41
1506 1671 2.674084 GCCCGTGAGCGTTACAACC 61.674 63.158 0.00 0.00 36.15 3.77
1518 1683 2.486918 GTTACAACCAGTACCTGCGTT 58.513 47.619 0.00 0.00 30.91 4.84
1526 1691 2.033194 GTACCTGCGTTGTGAGCCC 61.033 63.158 0.00 0.00 0.00 5.19
1532 1697 1.212751 GCGTTGTGAGCCCAATTCC 59.787 57.895 0.00 0.00 0.00 3.01
1533 1698 1.883021 CGTTGTGAGCCCAATTCCC 59.117 57.895 0.00 0.00 0.00 3.97
1562 1727 4.937201 AAAATTCCAACTCTGTTGACCC 57.063 40.909 11.47 0.00 0.00 4.46
1563 1728 3.593442 AATTCCAACTCTGTTGACCCA 57.407 42.857 11.47 0.00 0.00 4.51
1564 1729 3.593442 ATTCCAACTCTGTTGACCCAA 57.407 42.857 11.47 0.85 0.00 4.12
1565 1730 3.593442 TTCCAACTCTGTTGACCCAAT 57.407 42.857 11.47 0.00 0.00 3.16
1566 1731 3.593442 TCCAACTCTGTTGACCCAATT 57.407 42.857 11.47 0.00 0.00 2.32
1567 1732 3.909732 TCCAACTCTGTTGACCCAATTT 58.090 40.909 11.47 0.00 0.00 1.82
1574 1739 1.062886 TGTTGACCCAATTTCACCCCA 60.063 47.619 0.00 0.00 0.00 4.96
1583 1748 5.133221 CCCAATTTCACCCCATAAGACTAG 58.867 45.833 0.00 0.00 0.00 2.57
1597 1762 8.784043 CCCATAAGACTAGGCAATGTTTTATAC 58.216 37.037 0.00 0.00 0.00 1.47
1630 1795 2.674796 AGGTGATAGCAAACCGTCTC 57.325 50.000 0.00 0.00 41.61 3.36
1633 1798 3.071479 GGTGATAGCAAACCGTCTCAAA 58.929 45.455 0.00 0.00 0.00 2.69
1634 1799 3.120304 GGTGATAGCAAACCGTCTCAAAC 60.120 47.826 0.00 0.00 0.00 2.93
1652 1817 3.640761 TGGTGCGCCCAGATATCA 58.359 55.556 15.15 0.00 38.72 2.15
1653 1818 2.144952 TGGTGCGCCCAGATATCAT 58.855 52.632 15.15 0.00 38.72 2.45
1661 1826 2.483106 CGCCCAGATATCATTTCAGCTG 59.517 50.000 7.63 7.63 0.00 4.24
1663 1828 3.752222 GCCCAGATATCATTTCAGCTGAG 59.248 47.826 17.43 5.77 0.00 3.35
1669 1834 1.718396 TCATTTCAGCTGAGCAGTCG 58.282 50.000 17.43 4.10 0.00 4.18
1670 1835 1.273327 TCATTTCAGCTGAGCAGTCGA 59.727 47.619 17.43 6.40 0.00 4.20
1686 1851 2.104111 AGTCGACATTTGTTCCAGGACA 59.896 45.455 19.50 0.00 0.00 4.02
1687 1852 2.480419 GTCGACATTTGTTCCAGGACAG 59.520 50.000 11.55 0.00 0.00 3.51
1688 1853 2.367241 TCGACATTTGTTCCAGGACAGA 59.633 45.455 0.00 0.00 0.00 3.41
1690 1855 4.221924 TCGACATTTGTTCCAGGACAGATA 59.778 41.667 0.00 0.00 0.00 1.98
1692 1857 5.163854 CGACATTTGTTCCAGGACAGATAAC 60.164 44.000 0.00 0.00 0.00 1.89
1703 1870 6.951778 TCCAGGACAGATAACGGATGATATTA 59.048 38.462 0.00 0.00 0.00 0.98
1710 1877 8.375506 ACAGATAACGGATGATATTATTGTGGT 58.624 33.333 0.00 0.00 0.00 4.16
1716 1885 7.279615 ACGGATGATATTATTGTGGTTTCTGA 58.720 34.615 0.00 0.00 0.00 3.27
1736 1905 3.503363 TGAGTGCTTGCACTTTATGAAGG 59.497 43.478 26.08 0.00 37.19 3.46
1737 1906 2.821969 AGTGCTTGCACTTTATGAAGGG 59.178 45.455 20.95 0.00 39.38 3.95
1743 1912 5.567423 GCTTGCACTTTATGAAGGGAAACAT 60.567 40.000 3.18 0.00 38.64 2.71
1744 1913 6.350110 GCTTGCACTTTATGAAGGGAAACATA 60.350 38.462 3.18 0.00 38.64 2.29
1771 1940 1.006086 TAAGCATCGTCATTGTGCCG 58.994 50.000 0.00 0.00 39.62 5.69
1772 1941 0.955428 AAGCATCGTCATTGTGCCGT 60.955 50.000 0.00 0.00 39.62 5.68
1773 1942 1.226101 GCATCGTCATTGTGCCGTG 60.226 57.895 0.00 0.00 32.88 4.94
1786 1955 2.401766 GCCGTGAAGCTCCACATGG 61.402 63.158 3.28 12.25 43.58 3.66
1796 1965 1.171308 CTCCACATGGTGAAGGCTTG 58.829 55.000 3.46 0.00 35.23 4.01
1802 1971 0.896940 ATGGTGAAGGCTTGTGGCAG 60.897 55.000 3.46 0.00 44.01 4.85
1813 1982 1.470996 TTGTGGCAGGGTTGAATGGC 61.471 55.000 0.00 0.00 42.01 4.40
1823 1992 3.153919 GGGTTGAATGGCACTACTTTGA 58.846 45.455 0.00 0.00 0.00 2.69
1824 1993 3.191371 GGGTTGAATGGCACTACTTTGAG 59.809 47.826 0.00 0.00 0.00 3.02
1827 1996 2.375174 TGAATGGCACTACTTTGAGGGT 59.625 45.455 0.00 0.00 0.00 4.34
1830 1999 3.412237 TGGCACTACTTTGAGGGTAAC 57.588 47.619 0.00 0.00 0.00 2.50
1857 2026 4.322198 GCTCAAATTGGGATTTTCTGAGCA 60.322 41.667 14.89 0.00 42.50 4.26
1897 2066 2.293677 GAGTCTTGTCAACTCGGTCTCA 59.706 50.000 0.00 0.00 34.33 3.27
1904 2073 3.440522 TGTCAACTCGGTCTCATACTCAG 59.559 47.826 0.00 0.00 0.00 3.35
1921 2090 9.295825 TCATACTCAGTTTTGTTCAATGGTAAT 57.704 29.630 0.00 0.00 0.00 1.89
1970 2139 3.392066 TCCGACAGGGAGATCCAAA 57.608 52.632 0.47 0.00 40.94 3.28
1973 2142 2.576191 TCCGACAGGGAGATCCAAATTT 59.424 45.455 0.47 0.00 40.94 1.82
1974 2143 3.010138 TCCGACAGGGAGATCCAAATTTT 59.990 43.478 0.47 0.00 40.94 1.82
2007 2182 3.776347 TTCGGCGGGCCTTTTGTGA 62.776 57.895 7.21 0.00 0.00 3.58
2008 2183 3.061848 CGGCGGGCCTTTTGTGAT 61.062 61.111 0.84 0.00 0.00 3.06
2016 2201 2.229784 GGGCCTTTTGTGATCAGAGTTG 59.770 50.000 0.84 0.00 0.00 3.16
2020 2205 4.276926 GCCTTTTGTGATCAGAGTTGAGTT 59.723 41.667 0.00 0.00 36.61 3.01
2021 2206 5.755813 CCTTTTGTGATCAGAGTTGAGTTG 58.244 41.667 0.00 0.00 36.61 3.16
2025 2210 4.876125 TGTGATCAGAGTTGAGTTGTCTC 58.124 43.478 0.00 0.00 40.79 3.36
2037 2222 3.070018 GAGTTGTCTCAGATTGGTGTGG 58.930 50.000 0.00 0.00 40.18 4.17
2039 2224 2.808543 GTTGTCTCAGATTGGTGTGGTC 59.191 50.000 0.00 0.00 0.00 4.02
2047 2232 3.717842 TTGGTGTGGTCCAAGTAGC 57.282 52.632 0.00 0.00 41.79 3.58
2048 2233 0.250124 TTGGTGTGGTCCAAGTAGCG 60.250 55.000 0.00 0.00 41.79 4.26
2049 2234 2.033194 GGTGTGGTCCAAGTAGCGC 61.033 63.158 0.00 0.00 0.00 5.92
2067 2252 0.792640 GCCATCGGCGTCATCTATTG 59.207 55.000 6.85 0.00 39.62 1.90
2131 2321 2.847234 TGTTGGGGCGACTGAGGT 60.847 61.111 0.00 0.00 0.00 3.85
2134 2324 3.177194 TTGGGGCGACTGAGGTGTG 62.177 63.158 0.00 0.00 0.00 3.82
2158 2348 8.573035 GTGAACCAGTTGGATGTTTATTTCTAA 58.427 33.333 4.92 0.00 38.94 2.10
2166 2356 7.630242 TGGATGTTTATTTCTAAGCTTCTGG 57.370 36.000 0.00 0.00 0.00 3.86
2170 2360 5.415701 TGTTTATTTCTAAGCTTCTGGCCAG 59.584 40.000 27.87 27.87 43.05 4.85
2190 2382 7.669304 TGGCCAGCATATTAATTCTAGCAAATA 59.331 33.333 0.00 0.00 0.00 1.40
2228 2420 1.064003 AGGATGCACAACCACTACCA 58.936 50.000 8.71 0.00 0.00 3.25
2231 2423 2.228822 GGATGCACAACCACTACCAAAG 59.771 50.000 0.00 0.00 0.00 2.77
2252 2444 9.927668 CCAAAGAGGAAATTAAGATTTTGCTAA 57.072 29.630 0.00 0.00 41.22 3.09
2258 2450 9.875691 AGGAAATTAAGATTTTGCTAAATGTCC 57.124 29.630 10.91 3.82 35.65 4.02
2259 2451 9.651913 GGAAATTAAGATTTTGCTAAATGTCCA 57.348 29.630 10.91 0.00 35.65 4.02
2271 2463 5.827797 TGCTAAATGTCCAAAACAAGACTCT 59.172 36.000 0.00 0.00 42.37 3.24
2275 2467 5.757850 ATGTCCAAAACAAGACTCTCAAC 57.242 39.130 0.00 0.00 42.37 3.18
2276 2468 3.945285 TGTCCAAAACAAGACTCTCAACC 59.055 43.478 0.00 0.00 34.03 3.77
2277 2469 3.315470 GTCCAAAACAAGACTCTCAACCC 59.685 47.826 0.00 0.00 0.00 4.11
2278 2470 2.623416 CCAAAACAAGACTCTCAACCCC 59.377 50.000 0.00 0.00 0.00 4.95
2279 2471 3.555966 CAAAACAAGACTCTCAACCCCT 58.444 45.455 0.00 0.00 0.00 4.79
2280 2472 2.938956 AACAAGACTCTCAACCCCTG 57.061 50.000 0.00 0.00 0.00 4.45
2281 2473 1.059913 ACAAGACTCTCAACCCCTGG 58.940 55.000 0.00 0.00 0.00 4.45
2282 2474 0.326264 CAAGACTCTCAACCCCTGGG 59.674 60.000 5.50 5.50 42.03 4.45
2283 2475 1.492993 AAGACTCTCAACCCCTGGGC 61.493 60.000 7.39 0.00 39.32 5.36
2284 2476 3.316573 GACTCTCAACCCCTGGGCG 62.317 68.421 7.39 3.20 39.32 6.13
2285 2477 3.003173 CTCTCAACCCCTGGGCGA 61.003 66.667 7.39 2.25 39.32 5.54
2286 2478 3.316573 CTCTCAACCCCTGGGCGAC 62.317 68.421 7.39 0.00 39.32 5.19
2287 2479 4.760047 CTCAACCCCTGGGCGACG 62.760 72.222 7.39 0.00 39.32 5.12
2308 2500 3.805497 GGGGCCCCGAAACCCTAG 61.805 72.222 29.50 0.00 46.19 3.02
2309 2501 4.501285 GGGCCCCGAAACCCTAGC 62.501 72.222 12.23 0.00 43.36 3.42
2310 2502 3.723922 GGCCCCGAAACCCTAGCA 61.724 66.667 0.00 0.00 0.00 3.49
2311 2503 2.437895 GCCCCGAAACCCTAGCAC 60.438 66.667 0.00 0.00 0.00 4.40
2312 2504 2.271173 CCCCGAAACCCTAGCACC 59.729 66.667 0.00 0.00 0.00 5.01
2313 2505 2.125269 CCCGAAACCCTAGCACCG 60.125 66.667 0.00 0.00 0.00 4.94
2314 2506 2.818274 CCGAAACCCTAGCACCGC 60.818 66.667 0.00 0.00 0.00 5.68
2315 2507 2.818274 CGAAACCCTAGCACCGCC 60.818 66.667 0.00 0.00 0.00 6.13
2316 2508 2.349755 GAAACCCTAGCACCGCCA 59.650 61.111 0.00 0.00 0.00 5.69
2317 2509 1.745489 GAAACCCTAGCACCGCCAG 60.745 63.158 0.00 0.00 0.00 4.85
2318 2510 3.920093 AAACCCTAGCACCGCCAGC 62.920 63.158 0.00 0.00 0.00 4.85
2330 2522 4.182433 GCCAGCCCCCTCTAGCAC 62.182 72.222 0.00 0.00 0.00 4.40
2331 2523 3.483869 CCAGCCCCCTCTAGCACC 61.484 72.222 0.00 0.00 0.00 5.01
2332 2524 2.366167 CAGCCCCCTCTAGCACCT 60.366 66.667 0.00 0.00 0.00 4.00
2333 2525 2.041405 AGCCCCCTCTAGCACCTC 60.041 66.667 0.00 0.00 0.00 3.85
2334 2526 3.164977 GCCCCCTCTAGCACCTCC 61.165 72.222 0.00 0.00 0.00 4.30
2335 2527 2.699496 CCCCCTCTAGCACCTCCT 59.301 66.667 0.00 0.00 0.00 3.69
2336 2528 1.003573 CCCCCTCTAGCACCTCCTT 59.996 63.158 0.00 0.00 0.00 3.36
2337 2529 1.051556 CCCCCTCTAGCACCTCCTTC 61.052 65.000 0.00 0.00 0.00 3.46
2338 2530 0.031616 CCCCTCTAGCACCTCCTTCT 60.032 60.000 0.00 0.00 0.00 2.85
2339 2531 1.118838 CCCTCTAGCACCTCCTTCTG 58.881 60.000 0.00 0.00 0.00 3.02
2340 2532 0.463620 CCTCTAGCACCTCCTTCTGC 59.536 60.000 0.00 0.00 0.00 4.26
2341 2533 0.463620 CTCTAGCACCTCCTTCTGCC 59.536 60.000 0.00 0.00 33.57 4.85
2342 2534 1.142748 CTAGCACCTCCTTCTGCCG 59.857 63.158 0.00 0.00 33.57 5.69
2343 2535 2.914777 CTAGCACCTCCTTCTGCCGC 62.915 65.000 0.00 0.00 33.57 6.53
2344 2536 4.400961 GCACCTCCTTCTGCCGCT 62.401 66.667 0.00 0.00 0.00 5.52
2345 2537 2.435586 CACCTCCTTCTGCCGCTG 60.436 66.667 0.00 0.00 0.00 5.18
2346 2538 4.400961 ACCTCCTTCTGCCGCTGC 62.401 66.667 0.00 0.00 38.26 5.25
2347 2539 4.093291 CCTCCTTCTGCCGCTGCT 62.093 66.667 0.70 0.00 38.71 4.24
2348 2540 2.818714 CTCCTTCTGCCGCTGCTG 60.819 66.667 0.70 0.54 38.71 4.41
2403 2595 2.987125 CGAAGGTACCTGGGTGGG 59.013 66.667 17.14 0.00 41.11 4.61
2404 2596 1.916777 CGAAGGTACCTGGGTGGGT 60.917 63.158 17.14 0.00 42.86 4.51
2405 2597 1.683441 GAAGGTACCTGGGTGGGTG 59.317 63.158 17.14 0.00 40.22 4.61
2406 2598 1.848886 GAAGGTACCTGGGTGGGTGG 61.849 65.000 17.14 0.00 40.22 4.61
2407 2599 2.204029 GGTACCTGGGTGGGTGGA 60.204 66.667 4.06 0.00 40.22 4.02
2408 2600 2.599757 GGTACCTGGGTGGGTGGAC 61.600 68.421 4.06 0.00 40.22 4.02
2409 2601 2.605295 TACCTGGGTGGGTGGACG 60.605 66.667 2.07 0.00 40.22 4.79
2412 2604 4.704833 CTGGGTGGGTGGACGCTG 62.705 72.222 0.00 0.00 0.00 5.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 14 3.314357 GTCTAAGTTGACTGCGGGTTTTT 59.686 43.478 0.00 0.00 34.39 1.94
16 19 2.386661 ATGTCTAAGTTGACTGCGGG 57.613 50.000 0.00 0.00 37.79 6.13
74 89 8.413309 AATGAACATGTATCAATGGATAAGGG 57.587 34.615 0.00 0.00 37.73 3.95
101 116 8.915057 AGTGCATAATCAAGCATAGACTAATT 57.085 30.769 0.00 0.00 43.44 1.40
102 117 9.650539 CTAGTGCATAATCAAGCATAGACTAAT 57.349 33.333 0.00 0.00 43.44 1.73
106 121 6.459066 TCCTAGTGCATAATCAAGCATAGAC 58.541 40.000 0.00 0.00 43.44 2.59
114 129 6.888105 TCAATGTCTCCTAGTGCATAATCAA 58.112 36.000 0.00 0.00 0.00 2.57
297 338 2.303022 ACGAGTTGGATCCAGTGAATGT 59.697 45.455 15.53 7.50 0.00 2.71
302 343 1.201647 ACGTACGAGTTGGATCCAGTG 59.798 52.381 24.41 8.64 0.00 3.66
343 388 1.001020 ACCGCTCAATTGGGCATGA 60.001 52.632 28.95 0.00 0.00 3.07
346 391 0.392461 GTAGACCGCTCAATTGGGCA 60.392 55.000 28.95 7.16 34.89 5.36
395 440 8.918202 AAAAATGGAGTAGTATTCAGTGACAA 57.082 30.769 0.00 0.00 0.00 3.18
461 506 6.712095 AGTGTAGATTCACTCATTTTGCTTCA 59.288 34.615 0.00 0.00 44.07 3.02
463 508 7.516198 AAGTGTAGATTCACTCATTTTGCTT 57.484 32.000 0.00 0.00 46.25 3.91
542 587 7.677892 ACTCCCTCCGTTCCTAAATATTTATC 58.322 38.462 8.34 0.61 0.00 1.75
543 588 7.628501 ACTCCCTCCGTTCCTAAATATTTAT 57.371 36.000 8.34 0.00 0.00 1.40
544 589 7.015584 GGTACTCCCTCCGTTCCTAAATATTTA 59.984 40.741 7.66 7.66 0.00 1.40
555 600 0.816373 GAGTGGTACTCCCTCCGTTC 59.184 60.000 0.00 0.00 39.28 3.95
558 603 0.323542 ACTGAGTGGTACTCCCTCCG 60.324 60.000 6.52 0.00 44.44 4.63
632 677 0.244178 GACAGGGAGAGACAACGGAC 59.756 60.000 0.00 0.00 0.00 4.79
633 678 0.178973 TGACAGGGAGAGACAACGGA 60.179 55.000 0.00 0.00 0.00 4.69
634 679 0.038159 GTGACAGGGAGAGACAACGG 60.038 60.000 0.00 0.00 0.00 4.44
635 680 0.673985 TGTGACAGGGAGAGACAACG 59.326 55.000 0.00 0.00 0.00 4.10
636 681 1.412710 TGTGTGACAGGGAGAGACAAC 59.587 52.381 0.00 0.00 0.00 3.32
637 682 1.788229 TGTGTGACAGGGAGAGACAA 58.212 50.000 0.00 0.00 0.00 3.18
638 683 2.015456 ATGTGTGACAGGGAGAGACA 57.985 50.000 0.00 0.00 0.00 3.41
639 684 3.409026 AAATGTGTGACAGGGAGAGAC 57.591 47.619 0.00 0.00 0.00 3.36
640 685 3.901222 TGTAAATGTGTGACAGGGAGAGA 59.099 43.478 0.00 0.00 0.00 3.10
641 686 3.997021 GTGTAAATGTGTGACAGGGAGAG 59.003 47.826 0.00 0.00 0.00 3.20
642 687 3.244422 GGTGTAAATGTGTGACAGGGAGA 60.244 47.826 0.00 0.00 0.00 3.71
643 688 3.074412 GGTGTAAATGTGTGACAGGGAG 58.926 50.000 0.00 0.00 0.00 4.30
644 689 2.224670 GGGTGTAAATGTGTGACAGGGA 60.225 50.000 0.00 0.00 0.00 4.20
663 708 1.550976 AGTTAGAAAGACAGCGAGGGG 59.449 52.381 0.00 0.00 0.00 4.79
691 736 1.094269 AGGTGGTAGGAGGAAGAGGT 58.906 55.000 0.00 0.00 0.00 3.85
716 761 1.153066 GGGGAGGAAGCAAGCTAGC 60.153 63.158 6.62 6.62 0.00 3.42
717 762 0.467804 GAGGGGAGGAAGCAAGCTAG 59.532 60.000 0.00 0.00 0.00 3.42
718 763 0.043334 AGAGGGGAGGAAGCAAGCTA 59.957 55.000 0.00 0.00 0.00 3.32
719 764 1.229788 AGAGGGGAGGAAGCAAGCT 60.230 57.895 0.00 0.00 0.00 3.74
720 765 1.223211 GAGAGGGGAGGAAGCAAGC 59.777 63.158 0.00 0.00 0.00 4.01
902 982 3.494336 CCACACGCAGCTAGCAGC 61.494 66.667 21.21 21.21 46.13 5.25
984 1098 4.862092 ATGCTCGGTCGCTCGCTG 62.862 66.667 0.00 0.00 0.00 5.18
1235 1380 3.488553 GCAAACAGCACGAAGGTTAACTT 60.489 43.478 5.42 0.00 44.79 2.66
1294 1441 1.685765 TGCAGGCTCCGGATGTAGT 60.686 57.895 3.57 0.00 0.00 2.73
1413 1564 1.923395 TGGGAGGGTGGGTCACATC 60.923 63.158 0.38 0.00 35.86 3.06
1414 1565 2.209809 TGGGAGGGTGGGTCACAT 59.790 61.111 0.38 0.00 35.86 3.21
1415 1566 2.852075 GTGGGAGGGTGGGTCACA 60.852 66.667 0.38 0.00 35.86 3.58
1416 1567 3.647771 GGTGGGAGGGTGGGTCAC 61.648 72.222 0.00 0.00 0.00 3.67
1490 1648 0.599204 ACTGGTTGTAACGCTCACGG 60.599 55.000 0.00 0.00 46.04 4.94
1518 1683 0.251742 CCTTGGGAATTGGGCTCACA 60.252 55.000 0.00 0.00 0.00 3.58
1544 1709 3.593442 TTGGGTCAACAGAGTTGGAAT 57.407 42.857 9.72 0.00 0.00 3.01
1546 1711 3.593442 AATTGGGTCAACAGAGTTGGA 57.407 42.857 9.72 0.00 0.00 3.53
1548 1713 4.499696 GGTGAAATTGGGTCAACAGAGTTG 60.500 45.833 3.58 3.58 32.68 3.16
1550 1715 3.222603 GGTGAAATTGGGTCAACAGAGT 58.777 45.455 0.00 0.00 32.68 3.24
1552 1717 2.593026 GGGTGAAATTGGGTCAACAGA 58.407 47.619 0.00 0.00 34.18 3.41
1554 1719 1.062886 TGGGGTGAAATTGGGTCAACA 60.063 47.619 0.00 0.00 34.18 3.33
1555 1720 1.710816 TGGGGTGAAATTGGGTCAAC 58.289 50.000 0.00 0.00 31.55 3.18
1556 1721 2.711895 ATGGGGTGAAATTGGGTCAA 57.288 45.000 0.00 0.00 0.00 3.18
1558 1723 3.699538 GTCTTATGGGGTGAAATTGGGTC 59.300 47.826 0.00 0.00 0.00 4.46
1559 1724 3.336694 AGTCTTATGGGGTGAAATTGGGT 59.663 43.478 0.00 0.00 0.00 4.51
1560 1725 3.981212 AGTCTTATGGGGTGAAATTGGG 58.019 45.455 0.00 0.00 0.00 4.12
1561 1726 5.133221 CCTAGTCTTATGGGGTGAAATTGG 58.867 45.833 0.00 0.00 0.00 3.16
1562 1727 4.580580 GCCTAGTCTTATGGGGTGAAATTG 59.419 45.833 0.00 0.00 0.00 2.32
1563 1728 4.229582 TGCCTAGTCTTATGGGGTGAAATT 59.770 41.667 0.00 0.00 0.00 1.82
1564 1729 3.785887 TGCCTAGTCTTATGGGGTGAAAT 59.214 43.478 0.00 0.00 0.00 2.17
1565 1730 3.186283 TGCCTAGTCTTATGGGGTGAAA 58.814 45.455 0.00 0.00 0.00 2.69
1566 1731 2.840511 TGCCTAGTCTTATGGGGTGAA 58.159 47.619 0.00 0.00 0.00 3.18
1567 1732 2.561209 TGCCTAGTCTTATGGGGTGA 57.439 50.000 0.00 0.00 0.00 4.02
1583 1748 8.449397 TGATGCAATTTTGTATAAAACATTGCC 58.551 29.630 26.00 16.94 43.93 4.52
1597 1762 5.870433 TGCTATCACCTTTGATGCAATTTTG 59.130 36.000 0.00 0.00 42.79 2.44
1646 1811 4.150274 CGACTGCTCAGCTGAAATGATATC 59.850 45.833 18.85 8.14 0.00 1.63
1650 1815 1.273327 TCGACTGCTCAGCTGAAATGA 59.727 47.619 18.85 7.20 0.00 2.57
1651 1816 1.392853 GTCGACTGCTCAGCTGAAATG 59.607 52.381 18.85 12.27 0.00 2.32
1652 1817 1.001293 TGTCGACTGCTCAGCTGAAAT 59.999 47.619 18.85 3.03 0.00 2.17
1653 1818 0.389025 TGTCGACTGCTCAGCTGAAA 59.611 50.000 18.85 8.22 0.00 2.69
1661 1826 2.143122 TGGAACAAATGTCGACTGCTC 58.857 47.619 17.92 7.57 31.92 4.26
1663 1828 1.197721 CCTGGAACAAATGTCGACTGC 59.802 52.381 17.92 0.60 38.70 4.40
1669 1834 5.163854 CGTTATCTGTCCTGGAACAAATGTC 60.164 44.000 0.00 0.00 38.70 3.06
1670 1835 4.695455 CGTTATCTGTCCTGGAACAAATGT 59.305 41.667 0.00 0.00 38.70 2.71
1686 1851 9.793259 AAACCACAATAATATCATCCGTTATCT 57.207 29.630 0.00 0.00 0.00 1.98
1688 1853 9.793259 AGAAACCACAATAATATCATCCGTTAT 57.207 29.630 0.00 0.00 0.00 1.89
1690 1855 7.773224 TCAGAAACCACAATAATATCATCCGTT 59.227 33.333 0.00 0.00 0.00 4.44
1692 1857 7.442364 ACTCAGAAACCACAATAATATCATCCG 59.558 37.037 0.00 0.00 0.00 4.18
1703 1870 2.035066 GCAAGCACTCAGAAACCACAAT 59.965 45.455 0.00 0.00 0.00 2.71
1771 1940 1.808945 CTTCACCATGTGGAGCTTCAC 59.191 52.381 18.94 18.94 32.01 3.18
1772 1941 1.271543 CCTTCACCATGTGGAGCTTCA 60.272 52.381 5.96 0.00 37.81 3.02
1773 1942 1.457346 CCTTCACCATGTGGAGCTTC 58.543 55.000 5.96 0.00 37.81 3.86
1786 1955 2.270986 CCCTGCCACAAGCCTTCAC 61.271 63.158 0.00 0.00 42.71 3.18
1796 1965 1.907807 TGCCATTCAACCCTGCCAC 60.908 57.895 0.00 0.00 0.00 5.01
1802 1971 3.153919 TCAAAGTAGTGCCATTCAACCC 58.846 45.455 0.00 0.00 0.00 4.11
1813 1982 5.978814 AGCATAGTTACCCTCAAAGTAGTG 58.021 41.667 0.00 0.00 0.00 2.74
1823 1992 4.229582 TCCCAATTTGAGCATAGTTACCCT 59.770 41.667 0.00 0.00 0.00 4.34
1824 1993 4.532834 TCCCAATTTGAGCATAGTTACCC 58.467 43.478 0.00 0.00 0.00 3.69
1827 1996 8.469200 CAGAAAATCCCAATTTGAGCATAGTTA 58.531 33.333 0.00 0.00 35.27 2.24
1830 1999 7.104043 TCAGAAAATCCCAATTTGAGCATAG 57.896 36.000 0.00 0.00 35.27 2.23
1857 2026 4.016444 ACTCATTACAATGTTCGCCCAAT 58.984 39.130 0.00 0.00 37.65 3.16
1921 2090 9.151471 CTCGATCCTTTGTATTCTTCAAGTTTA 57.849 33.333 0.00 0.00 0.00 2.01
1941 2110 0.878416 CCTGTCGGATCCTCTCGATC 59.122 60.000 10.75 0.00 45.91 3.69
1945 2114 0.183971 TCTCCCTGTCGGATCCTCTC 59.816 60.000 10.75 0.48 41.00 3.20
1953 2122 2.717639 AATTTGGATCTCCCTGTCGG 57.282 50.000 0.00 0.00 35.38 4.79
1970 2139 6.806739 CGCCGAAAAGAATAGGAAAAGAAAAT 59.193 34.615 0.00 0.00 0.00 1.82
1973 2142 4.155280 CCGCCGAAAAGAATAGGAAAAGAA 59.845 41.667 0.00 0.00 0.00 2.52
1974 2143 3.687698 CCGCCGAAAAGAATAGGAAAAGA 59.312 43.478 0.00 0.00 0.00 2.52
1991 2160 3.051392 GATCACAAAAGGCCCGCCG 62.051 63.158 0.00 0.00 41.95 6.46
2016 2201 3.070018 CCACACCAATCTGAGACAACTC 58.930 50.000 0.00 0.00 42.88 3.01
2020 2205 1.347707 GGACCACACCAATCTGAGACA 59.652 52.381 0.00 0.00 0.00 3.41
2021 2206 1.347707 TGGACCACACCAATCTGAGAC 59.652 52.381 0.00 0.00 36.96 3.36
2025 2210 2.276732 ACTTGGACCACACCAATCTG 57.723 50.000 0.00 0.00 46.77 2.90
2034 2219 1.078426 ATGGCGCTACTTGGACCAC 60.078 57.895 7.64 0.00 32.13 4.16
2037 2222 1.883084 CCGATGGCGCTACTTGGAC 60.883 63.158 7.64 0.00 35.83 4.02
2039 2224 3.272334 GCCGATGGCGCTACTTGG 61.272 66.667 7.64 5.27 39.62 3.61
2048 2233 0.792640 CAATAGATGACGCCGATGGC 59.207 55.000 0.00 0.00 46.75 4.40
2049 2234 0.792640 GCAATAGATGACGCCGATGG 59.207 55.000 0.00 0.00 0.00 3.51
2097 2287 6.478129 CCCCAACACCATTACTAGTCTTTAA 58.522 40.000 0.00 0.00 0.00 1.52
2099 2289 4.809691 GCCCCAACACCATTACTAGTCTTT 60.810 45.833 0.00 0.00 0.00 2.52
2102 2292 2.640184 GCCCCAACACCATTACTAGTC 58.360 52.381 0.00 0.00 0.00 2.59
2103 2293 1.065709 CGCCCCAACACCATTACTAGT 60.066 52.381 0.00 0.00 0.00 2.57
2104 2294 1.208535 TCGCCCCAACACCATTACTAG 59.791 52.381 0.00 0.00 0.00 2.57
2105 2295 1.065998 GTCGCCCCAACACCATTACTA 60.066 52.381 0.00 0.00 0.00 1.82
2106 2296 0.322187 GTCGCCCCAACACCATTACT 60.322 55.000 0.00 0.00 0.00 2.24
2107 2297 0.322187 AGTCGCCCCAACACCATTAC 60.322 55.000 0.00 0.00 0.00 1.89
2118 2308 2.879233 TTCACACCTCAGTCGCCCC 61.879 63.158 0.00 0.00 0.00 5.80
2131 2321 6.549364 AGAAATAAACATCCAACTGGTTCACA 59.451 34.615 0.00 0.00 36.34 3.58
2134 2324 7.755373 GCTTAGAAATAAACATCCAACTGGTTC 59.245 37.037 0.00 0.00 36.34 3.62
2158 2348 3.582998 TTAATATGCTGGCCAGAAGCT 57.417 42.857 37.21 15.10 43.05 3.74
2193 2385 7.568349 TGTGCATCCTTTACTGAAGAAGATAT 58.432 34.615 0.00 0.00 37.57 1.63
2198 2390 4.518970 GGTTGTGCATCCTTTACTGAAGAA 59.481 41.667 0.00 0.00 37.57 2.52
2210 2402 1.904287 TTGGTAGTGGTTGTGCATCC 58.096 50.000 0.00 0.00 0.00 3.51
2252 2444 5.067805 GGTTGAGAGTCTTGTTTTGGACATT 59.932 40.000 0.00 0.00 38.26 2.71
2258 2450 3.316308 CAGGGGTTGAGAGTCTTGTTTTG 59.684 47.826 0.00 0.00 0.00 2.44
2259 2451 3.555966 CAGGGGTTGAGAGTCTTGTTTT 58.444 45.455 0.00 0.00 0.00 2.43
2291 2483 3.805497 CTAGGGTTTCGGGGCCCC 61.805 72.222 33.22 33.22 45.95 5.80
2292 2484 4.501285 GCTAGGGTTTCGGGGCCC 62.501 72.222 15.76 15.76 45.16 5.80
2293 2485 3.723922 TGCTAGGGTTTCGGGGCC 61.724 66.667 0.00 0.00 0.00 5.80
2294 2486 2.437895 GTGCTAGGGTTTCGGGGC 60.438 66.667 0.00 0.00 0.00 5.80
2295 2487 2.271173 GGTGCTAGGGTTTCGGGG 59.729 66.667 0.00 0.00 0.00 5.73
2296 2488 2.125269 CGGTGCTAGGGTTTCGGG 60.125 66.667 0.00 0.00 0.00 5.14
2297 2489 2.818274 GCGGTGCTAGGGTTTCGG 60.818 66.667 0.00 0.00 0.00 4.30
2298 2490 2.818274 GGCGGTGCTAGGGTTTCG 60.818 66.667 0.00 0.00 0.00 3.46
2299 2491 1.745489 CTGGCGGTGCTAGGGTTTC 60.745 63.158 0.00 0.00 33.47 2.78
2300 2492 2.351276 CTGGCGGTGCTAGGGTTT 59.649 61.111 0.00 0.00 33.47 3.27
2301 2493 4.410400 GCTGGCGGTGCTAGGGTT 62.410 66.667 4.32 0.00 37.62 4.11
2313 2505 4.182433 GTGCTAGAGGGGGCTGGC 62.182 72.222 0.00 0.00 42.07 4.85
2314 2506 3.483869 GGTGCTAGAGGGGGCTGG 61.484 72.222 0.00 0.00 0.00 4.85
2315 2507 2.366167 AGGTGCTAGAGGGGGCTG 60.366 66.667 0.00 0.00 0.00 4.85
2316 2508 2.041405 GAGGTGCTAGAGGGGGCT 60.041 66.667 0.00 0.00 0.00 5.19
2317 2509 3.164977 GGAGGTGCTAGAGGGGGC 61.165 72.222 0.00 0.00 0.00 5.80
2318 2510 1.003573 AAGGAGGTGCTAGAGGGGG 59.996 63.158 0.00 0.00 0.00 5.40
2319 2511 0.031616 AGAAGGAGGTGCTAGAGGGG 60.032 60.000 0.00 0.00 0.00 4.79
2320 2512 1.118838 CAGAAGGAGGTGCTAGAGGG 58.881 60.000 0.00 0.00 0.00 4.30
2321 2513 0.463620 GCAGAAGGAGGTGCTAGAGG 59.536 60.000 0.00 0.00 36.71 3.69
2322 2514 0.463620 GGCAGAAGGAGGTGCTAGAG 59.536 60.000 0.00 0.00 39.76 2.43
2323 2515 1.323271 CGGCAGAAGGAGGTGCTAGA 61.323 60.000 0.00 0.00 39.76 2.43
2324 2516 1.142748 CGGCAGAAGGAGGTGCTAG 59.857 63.158 0.00 0.00 39.76 3.42
2325 2517 3.019003 GCGGCAGAAGGAGGTGCTA 62.019 63.158 0.00 0.00 39.76 3.49
2326 2518 4.400961 GCGGCAGAAGGAGGTGCT 62.401 66.667 0.00 0.00 39.76 4.40
2327 2519 4.400961 AGCGGCAGAAGGAGGTGC 62.401 66.667 1.45 0.00 39.08 5.01
2328 2520 2.435586 CAGCGGCAGAAGGAGGTG 60.436 66.667 1.45 0.00 0.00 4.00
2329 2521 4.400961 GCAGCGGCAGAAGGAGGT 62.401 66.667 3.18 0.00 40.72 3.85
2330 2522 4.093291 AGCAGCGGCAGAAGGAGG 62.093 66.667 12.44 0.00 44.61 4.30
2331 2523 2.818714 CAGCAGCGGCAGAAGGAG 60.819 66.667 12.44 0.00 44.61 3.69
2377 2569 2.588034 GTACCTTCGGCATCGGGC 60.588 66.667 0.00 0.00 43.74 6.13
2378 2570 2.108362 GGTACCTTCGGCATCGGG 59.892 66.667 4.06 0.00 36.95 5.14
2379 2571 1.227263 CAGGTACCTTCGGCATCGG 60.227 63.158 13.15 0.00 36.95 4.18
2380 2572 1.227263 CCAGGTACCTTCGGCATCG 60.227 63.158 13.15 0.00 37.82 3.84
2381 2573 1.146263 CCCAGGTACCTTCGGCATC 59.854 63.158 13.15 0.00 0.00 3.91
2382 2574 1.615424 ACCCAGGTACCTTCGGCAT 60.615 57.895 20.55 6.18 0.00 4.40
2383 2575 2.203877 ACCCAGGTACCTTCGGCA 60.204 61.111 20.55 0.00 0.00 5.69
2384 2576 2.267961 CACCCAGGTACCTTCGGC 59.732 66.667 20.55 0.00 0.00 5.54
2385 2577 2.666098 CCCACCCAGGTACCTTCGG 61.666 68.421 13.15 17.08 34.66 4.30
2386 2578 1.916777 ACCCACCCAGGTACCTTCG 60.917 63.158 13.15 7.61 38.79 3.79
2387 2579 1.683441 CACCCACCCAGGTACCTTC 59.317 63.158 13.15 0.00 38.39 3.46
2388 2580 1.850755 CCACCCACCCAGGTACCTT 60.851 63.158 13.15 0.00 38.39 3.50
2389 2581 2.204090 CCACCCACCCAGGTACCT 60.204 66.667 9.21 9.21 38.39 3.08
2390 2582 2.204029 TCCACCCACCCAGGTACC 60.204 66.667 2.73 2.73 38.39 3.34
2391 2583 2.951101 CGTCCACCCACCCAGGTAC 61.951 68.421 0.00 0.00 38.39 3.34
2392 2584 2.605295 CGTCCACCCACCCAGGTA 60.605 66.667 0.00 0.00 38.39 3.08
2395 2587 4.704833 CAGCGTCCACCCACCCAG 62.705 72.222 0.00 0.00 0.00 4.45


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

AutoCloner maintained by Alex Coulton.