Multiple sequence alignment - TraesCS7B01G013900

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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 TraesCS7B01G013900 chr7B 100.000 2336 0 0 1 2336 10242524 10240189 0.000000e+00 4314.0
1 TraesCS7B01G013900 chr7B 86.203 964 82 35 758 1683 7727668 7728618 0.000000e+00 996.0
2 TraesCS7B01G013900 chr7B 86.022 186 24 1 1831 2014 10103643 10103458 5.090000e-47 198.0
3 TraesCS7B01G013900 chr7B 88.387 155 14 4 1631 1782 7558545 7558698 1.430000e-42 183.0
4 TraesCS7B01G013900 chr7B 92.958 71 2 2 637 706 7725825 7725893 1.480000e-17 100.0
5 TraesCS7B01G013900 chr7B 93.548 62 4 0 758 819 8445984 8446045 2.470000e-15 93.5
6 TraesCS7B01G013900 chr7B 100.000 45 0 0 1324 1368 7728272 7728316 1.490000e-12 84.2
7 TraesCS7B01G013900 chr1D 84.917 842 57 25 976 1762 486922451 486923277 0.000000e+00 787.0
8 TraesCS7B01G013900 chr7A 90.988 577 23 11 758 1328 74610995 74610442 0.000000e+00 750.0
9 TraesCS7B01G013900 chr7A 93.056 360 23 1 971 1328 70894163 70894522 2.060000e-145 525.0
10 TraesCS7B01G013900 chr7A 91.977 349 26 1 971 1317 74596506 74596158 2.700000e-134 488.0
11 TraesCS7B01G013900 chr7A 93.980 299 18 0 1595 1893 74608670 74608372 9.840000e-124 453.0
12 TraesCS7B01G013900 chr7A 95.053 283 12 1 973 1253 71118688 71118970 5.920000e-121 444.0
13 TraesCS7B01G013900 chr7A 82.112 587 28 19 749 1328 71110043 71110559 4.610000e-117 431.0
14 TraesCS7B01G013900 chr7A 94.565 184 10 0 1831 2014 70895815 70895998 3.800000e-73 285.0
15 TraesCS7B01G013900 chr7A 93.976 166 9 1 1519 1683 71110824 71110989 1.390000e-62 250.0
16 TraesCS7B01G013900 chr7A 90.055 181 17 1 1583 1762 70780678 70780858 1.400000e-57 233.0
17 TraesCS7B01G013900 chr7A 91.772 158 12 1 1604 1760 74671216 74671059 3.910000e-53 219.0
18 TraesCS7B01G013900 chr7A 85.492 193 14 10 1578 1761 79551342 79551155 3.060000e-44 189.0
19 TraesCS7B01G013900 chr7A 91.818 110 4 2 635 739 71109878 71109987 5.200000e-32 148.0
20 TraesCS7B01G013900 chr7A 100.000 53 0 0 758 810 71118529 71118581 5.310000e-17 99.0
21 TraesCS7B01G013900 chr7A 93.548 62 1 3 1852 1911 74608478 74608418 3.200000e-14 89.8
22 TraesCS7B01G013900 chr7A 90.164 61 2 4 1312 1371 70894553 70894610 2.490000e-10 76.8
23 TraesCS7B01G013900 chr7D 90.189 581 28 6 749 1328 66484560 66485112 0.000000e+00 730.0
24 TraesCS7B01G013900 chr7D 90.357 560 25 6 770 1328 68935346 68934815 0.000000e+00 708.0
25 TraesCS7B01G013900 chr7D 91.335 427 25 6 221 635 66483320 66483746 7.240000e-160 573.0
26 TraesCS7B01G013900 chr7D 92.068 353 28 0 976 1328 68806005 68805653 4.480000e-137 497.0
27 TraesCS7B01G013900 chr7D 94.350 177 10 0 1606 1782 66514180 66514356 2.960000e-69 272.0
28 TraesCS7B01G013900 chr7D 92.727 165 9 2 1519 1683 66485386 66485547 3.880000e-58 235.0
29 TraesCS7B01G013900 chr7D 84.211 209 25 6 1578 1782 68911559 68911355 1.830000e-46 196.0
30 TraesCS7B01G013900 chr7D 85.484 186 24 2 1831 2014 68921715 68921531 8.520000e-45 191.0
31 TraesCS7B01G013900 chr7D 83.234 167 24 4 1654 1819 68804655 68804492 1.450000e-32 150.0
32 TraesCS7B01G013900 chr7D 93.023 86 1 1 148 233 66481927 66482007 1.130000e-23 121.0
33 TraesCS7B01G013900 chr7D 76.101 318 26 27 1312 1583 66513869 66514182 1.130000e-23 121.0
34 TraesCS7B01G013900 chr7D 81.507 146 13 7 758 896 68924364 68924226 8.830000e-20 108.0
35 TraesCS7B01G013900 chr7D 93.548 62 4 0 749 810 66513326 66513387 2.470000e-15 93.5
36 TraesCS7B01G013900 chr7D 100.000 43 0 0 661 703 66484415 66484457 1.920000e-11 80.5
37 TraesCS7B01G013900 chr1B 80.416 817 73 47 992 1760 678112516 678113293 2.040000e-150 542.0
38 TraesCS7B01G013900 chr2D 90.972 144 11 2 7 148 326250428 326250571 2.370000e-45 193.0
39 TraesCS7B01G013900 chr4A 90.909 143 12 1 7 148 734961229 734961371 8.520000e-45 191.0
40 TraesCS7B01G013900 chr5A 90.278 144 12 2 7 148 623930332 623930475 1.100000e-43 187.0
41 TraesCS7B01G013900 chr3A 89.510 143 14 1 7 148 316574125 316573983 1.840000e-41 180.0
42 TraesCS7B01G013900 chr3A 85.714 140 19 1 10 148 379665620 379665481 1.870000e-31 147.0


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 TraesCS7B01G013900 chr7B 10240189 10242524 2335 True 4314.000000 4314 100.000000 1 2336 1 chr7B.!!$R2 2335
1 TraesCS7B01G013900 chr7B 7725825 7728618 2793 False 393.400000 996 93.053667 637 1683 3 chr7B.!!$F3 1046
2 TraesCS7B01G013900 chr1D 486922451 486923277 826 False 787.000000 787 84.917000 976 1762 1 chr1D.!!$F1 786
3 TraesCS7B01G013900 chr7A 74608372 74610995 2623 True 430.933333 750 92.838667 758 1911 3 chr7A.!!$R4 1153
4 TraesCS7B01G013900 chr7A 70894163 70895998 1835 False 295.600000 525 92.595000 971 2014 3 chr7A.!!$F2 1043
5 TraesCS7B01G013900 chr7A 71109878 71110989 1111 False 276.333333 431 89.302000 635 1683 3 chr7A.!!$F3 1048
6 TraesCS7B01G013900 chr7D 68934815 68935346 531 True 708.000000 708 90.357000 770 1328 1 chr7D.!!$R2 558
7 TraesCS7B01G013900 chr7D 66481927 66485547 3620 False 347.900000 730 93.454800 148 1683 5 chr7D.!!$F1 1535
8 TraesCS7B01G013900 chr7D 68804492 68806005 1513 True 323.500000 497 87.651000 976 1819 2 chr7D.!!$R3 843
9 TraesCS7B01G013900 chr1B 678112516 678113293 777 False 542.000000 542 80.416000 992 1760 1 chr1B.!!$F1 768

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
956 4712 0.107945 GTGCTCCCAGAAGCTACCTG 60.108 60.0 8.61 8.61 42.94 4.0 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2101 8924 0.107703 TCAGAAATAGCGCCTGGTGG 60.108 55.0 2.29 0.0 0.0 4.61 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
19 20 2.994186 GTGTACGGGTACATGGGAAT 57.006 50.000 14.15 0.00 46.36 3.01
20 21 2.557317 GTGTACGGGTACATGGGAATG 58.443 52.381 14.15 0.00 46.36 2.67
21 22 1.487142 TGTACGGGTACATGGGAATGG 59.513 52.381 7.55 0.00 40.77 3.16
22 23 1.133363 TACGGGTACATGGGAATGGG 58.867 55.000 0.00 0.00 0.00 4.00
23 24 0.917333 ACGGGTACATGGGAATGGGT 60.917 55.000 0.00 0.00 0.00 4.51
24 25 0.257616 CGGGTACATGGGAATGGGTT 59.742 55.000 0.00 0.00 0.00 4.11
25 26 1.491332 CGGGTACATGGGAATGGGTTA 59.509 52.381 0.00 0.00 0.00 2.85
26 27 2.107552 CGGGTACATGGGAATGGGTTAT 59.892 50.000 0.00 0.00 0.00 1.89
27 28 3.328343 CGGGTACATGGGAATGGGTTATA 59.672 47.826 0.00 0.00 0.00 0.98
28 29 4.659115 GGGTACATGGGAATGGGTTATAC 58.341 47.826 0.00 0.00 0.00 1.47
29 30 4.352893 GGGTACATGGGAATGGGTTATACT 59.647 45.833 0.00 0.00 0.00 2.12
30 31 5.548836 GGGTACATGGGAATGGGTTATACTA 59.451 44.000 0.00 0.00 0.00 1.82
31 32 6.044637 GGGTACATGGGAATGGGTTATACTAA 59.955 42.308 0.00 0.00 0.00 2.24
32 33 7.421617 GGGTACATGGGAATGGGTTATACTAAA 60.422 40.741 0.00 0.00 0.00 1.85
33 34 7.446319 GGTACATGGGAATGGGTTATACTAAAC 59.554 40.741 0.00 0.00 0.00 2.01
34 35 6.370453 ACATGGGAATGGGTTATACTAAACC 58.630 40.000 0.00 0.00 46.90 3.27
47 48 8.828751 GGTTATACTAAACCATACCCATATCCA 58.171 37.037 0.94 0.00 46.85 3.41
48 49 9.662947 GTTATACTAAACCATACCCATATCCAC 57.337 37.037 0.00 0.00 0.00 4.02
49 50 9.624037 TTATACTAAACCATACCCATATCCACT 57.376 33.333 0.00 0.00 0.00 4.00
51 52 9.799223 ATACTAAACCATACCCATATCCACTAT 57.201 33.333 0.00 0.00 0.00 2.12
53 54 9.043548 ACTAAACCATACCCATATCCACTATAC 57.956 37.037 0.00 0.00 0.00 1.47
54 55 6.886178 AACCATACCCATATCCACTATACC 57.114 41.667 0.00 0.00 0.00 2.73
55 56 5.286221 ACCATACCCATATCCACTATACCC 58.714 45.833 0.00 0.00 0.00 3.69
56 57 4.344102 CCATACCCATATCCACTATACCCG 59.656 50.000 0.00 0.00 0.00 5.28
57 58 3.839323 ACCCATATCCACTATACCCGA 57.161 47.619 0.00 0.00 0.00 5.14
58 59 4.348020 ACCCATATCCACTATACCCGAT 57.652 45.455 0.00 0.00 0.00 4.18
59 60 4.030913 ACCCATATCCACTATACCCGATG 58.969 47.826 0.00 0.00 0.00 3.84
60 61 3.388024 CCCATATCCACTATACCCGATGG 59.612 52.174 0.00 0.00 37.80 3.51
75 76 5.852282 CCCGATGGGTATGAAAATTTTCT 57.148 39.130 26.73 16.63 38.25 2.52
76 77 6.952773 CCCGATGGGTATGAAAATTTTCTA 57.047 37.500 26.73 15.99 38.25 2.10
77 78 7.524717 CCCGATGGGTATGAAAATTTTCTAT 57.475 36.000 26.73 20.41 38.25 1.98
78 79 7.951591 CCCGATGGGTATGAAAATTTTCTATT 58.048 34.615 26.73 16.07 38.25 1.73
79 80 8.421002 CCCGATGGGTATGAAAATTTTCTATTT 58.579 33.333 26.73 14.08 38.25 1.40
92 93 9.563748 AAAATTTTCTATTTATGCATCCATGGG 57.436 29.630 13.02 0.00 32.85 4.00
93 94 7.860649 ATTTTCTATTTATGCATCCATGGGT 57.139 32.000 13.02 0.00 32.85 4.51
94 95 8.954834 ATTTTCTATTTATGCATCCATGGGTA 57.045 30.769 13.02 0.00 32.85 3.69
95 96 8.954834 TTTTCTATTTATGCATCCATGGGTAT 57.045 30.769 13.02 4.32 32.85 2.73
96 97 8.954834 TTTCTATTTATGCATCCATGGGTATT 57.045 30.769 13.02 0.00 32.85 1.89
97 98 8.954834 TTCTATTTATGCATCCATGGGTATTT 57.045 30.769 13.02 0.00 32.85 1.40
98 99 8.954834 TCTATTTATGCATCCATGGGTATTTT 57.045 30.769 13.02 0.00 32.85 1.82
99 100 9.378504 TCTATTTATGCATCCATGGGTATTTTT 57.621 29.630 13.02 0.00 32.85 1.94
122 123 8.934023 TTTTTATCCATACCTTGCCCTAATAG 57.066 34.615 0.00 0.00 0.00 1.73
123 124 6.636454 TTATCCATACCTTGCCCTAATAGG 57.364 41.667 0.00 0.00 34.30 2.57
170 171 7.056006 GGGCCTAGATATTCTCTACCTAGTAC 58.944 46.154 0.84 0.00 35.28 2.73
251 1577 1.623811 ACAACTTCGCCTACTCACCAT 59.376 47.619 0.00 0.00 0.00 3.55
269 1598 2.250924 CATGCCCTGGAAGACCTTTTT 58.749 47.619 0.00 0.00 34.07 1.94
294 1623 1.398390 CTTTCCTCCGAAATGAAGGCG 59.602 52.381 0.00 0.00 37.36 5.52
350 1680 3.456280 CCCATGGCGTAAAATCCAAATG 58.544 45.455 6.09 0.00 35.75 2.32
390 1720 6.938030 CGGGGGCTAACTATATCAAATTGTAA 59.062 38.462 0.00 0.00 0.00 2.41
404 1734 6.148948 TCAAATTGTAACTGAAAGGATTGCG 58.851 36.000 0.00 0.00 39.30 4.85
405 1735 5.705609 AATTGTAACTGAAAGGATTGCGT 57.294 34.783 0.00 0.00 39.30 5.24
407 1737 6.811253 ATTGTAACTGAAAGGATTGCGTAA 57.189 33.333 0.00 0.00 39.30 3.18
408 1738 6.811253 TTGTAACTGAAAGGATTGCGTAAT 57.189 33.333 0.00 0.00 39.30 1.89
410 1740 4.701956 AACTGAAAGGATTGCGTAATGG 57.298 40.909 2.57 0.00 39.30 3.16
411 1741 2.423538 ACTGAAAGGATTGCGTAATGGC 59.576 45.455 2.57 0.00 39.30 4.40
468 1805 3.646162 TGTTGAATATACATCTCGGCCCT 59.354 43.478 0.00 0.00 0.00 5.19
542 1880 3.018423 TCATGGAGGATTCAGACTCGA 57.982 47.619 0.00 0.00 34.58 4.04
605 1943 1.583495 GCCCCACAAAGTAACGAGGC 61.583 60.000 0.00 0.00 0.00 4.70
606 1944 0.958876 CCCCACAAAGTAACGAGGCC 60.959 60.000 0.00 0.00 0.00 5.19
609 1947 0.872388 CACAAAGTAACGAGGCCCAC 59.128 55.000 0.00 0.00 0.00 4.61
621 1959 3.134127 GCCCACTCGCCATTCACC 61.134 66.667 0.00 0.00 0.00 4.02
747 4460 1.617947 GGGAACAGAGCTCCCGTCAT 61.618 60.000 10.93 0.00 43.27 3.06
754 4498 3.148279 GCTCCCGTCATCTCCCGT 61.148 66.667 0.00 0.00 0.00 5.28
756 4500 2.827190 TCCCGTCATCTCCCGTCG 60.827 66.667 0.00 0.00 0.00 5.12
795 4539 1.033746 ATCCGGCTCCGACTCGTTAA 61.034 55.000 10.28 0.00 42.83 2.01
888 4637 2.244695 CACCCAACCCTTTTCCTTACC 58.755 52.381 0.00 0.00 0.00 2.85
950 4706 0.595095 CAAGTTGTGCTCCCAGAAGC 59.405 55.000 0.00 0.00 42.82 3.86
951 4707 0.475906 AAGTTGTGCTCCCAGAAGCT 59.524 50.000 0.00 0.00 42.94 3.74
952 4708 1.352083 AGTTGTGCTCCCAGAAGCTA 58.648 50.000 0.00 0.00 42.94 3.32
953 4709 1.002544 AGTTGTGCTCCCAGAAGCTAC 59.997 52.381 0.00 0.00 42.94 3.58
954 4710 0.324943 TTGTGCTCCCAGAAGCTACC 59.675 55.000 0.00 0.00 42.94 3.18
955 4711 0.545309 TGTGCTCCCAGAAGCTACCT 60.545 55.000 0.00 0.00 42.94 3.08
956 4712 0.107945 GTGCTCCCAGAAGCTACCTG 60.108 60.000 8.61 8.61 42.94 4.00
957 4713 0.252239 TGCTCCCAGAAGCTACCTGA 60.252 55.000 15.34 0.00 42.94 3.86
958 4714 0.463620 GCTCCCAGAAGCTACCTGAG 59.536 60.000 15.34 8.37 39.27 3.35
959 4715 1.962402 GCTCCCAGAAGCTACCTGAGA 60.962 57.143 15.34 8.39 39.27 3.27
960 4716 2.676748 CTCCCAGAAGCTACCTGAGAT 58.323 52.381 15.34 0.00 33.65 2.75
961 4717 2.627699 CTCCCAGAAGCTACCTGAGATC 59.372 54.545 15.34 0.00 33.65 2.75
962 4718 2.246067 TCCCAGAAGCTACCTGAGATCT 59.754 50.000 15.34 0.00 33.65 2.75
963 4719 2.364970 CCCAGAAGCTACCTGAGATCTG 59.635 54.545 15.34 8.77 39.01 2.90
964 4720 2.364970 CCAGAAGCTACCTGAGATCTGG 59.635 54.545 15.34 13.41 46.17 3.86
965 4721 4.196923 CCAGAAGCTACCTGAGATCTGGT 61.197 52.174 15.72 14.78 46.19 4.00
966 4722 3.030291 AGAAGCTACCTGAGATCTGGTG 58.970 50.000 18.58 11.04 45.91 4.17
967 4723 1.786937 AGCTACCTGAGATCTGGTGG 58.213 55.000 18.58 16.82 45.91 4.61
968 4724 1.007721 AGCTACCTGAGATCTGGTGGT 59.992 52.381 18.58 13.50 45.91 4.16
969 4725 1.137872 GCTACCTGAGATCTGGTGGTG 59.862 57.143 18.58 10.99 45.91 4.17
1295 5089 2.646117 TACCACAAACGACAGCGGCA 62.646 55.000 1.45 0.00 43.17 5.69
1317 5111 4.796231 GGCAGCGACCACGACGAT 62.796 66.667 0.00 0.00 42.66 3.73
1324 5121 0.509929 CGACCACGACGATAGCGATA 59.490 55.000 7.69 0.00 42.66 2.92
1400 5300 3.195610 TCGATCATGTACCTCTGTTGCTT 59.804 43.478 0.00 0.00 0.00 3.91
1401 5301 3.308053 CGATCATGTACCTCTGTTGCTTG 59.692 47.826 0.00 0.00 0.00 4.01
1402 5302 2.426522 TCATGTACCTCTGTTGCTTGC 58.573 47.619 0.00 0.00 0.00 4.01
1404 5304 1.882912 TGTACCTCTGTTGCTTGCTG 58.117 50.000 0.00 0.00 0.00 4.41
1405 5305 0.519077 GTACCTCTGTTGCTTGCTGC 59.481 55.000 0.00 0.00 43.25 5.25
1406 5306 0.950555 TACCTCTGTTGCTTGCTGCG 60.951 55.000 0.00 0.00 46.63 5.18
1407 5307 2.126965 CTCTGTTGCTTGCTGCGC 60.127 61.111 0.00 0.00 46.63 6.09
1408 5308 2.900167 CTCTGTTGCTTGCTGCGCA 61.900 57.895 10.98 10.98 46.63 6.09
1467 5367 6.883744 TCTTGTATAAGACCATGCATGTACA 58.116 36.000 24.58 20.30 37.99 2.90
1477 5377 3.943381 CCATGCATGTACAGAATCTGTGT 59.057 43.478 24.74 8.79 45.01 3.72
1490 5390 1.295792 TCTGTGTCTGGTTTCGTTGC 58.704 50.000 0.00 0.00 0.00 4.17
1498 5398 1.658409 GGTTTCGTTGCTGCAGTGC 60.658 57.895 16.64 8.58 0.00 4.40
1500 5400 0.658536 GTTTCGTTGCTGCAGTGCTC 60.659 55.000 17.60 8.77 0.00 4.26
1535 6694 3.247648 CCGACAAAGAGTACCTTGTTGTG 59.752 47.826 14.59 6.06 34.79 3.33
1638 7617 3.808466 TCCTGTCAGGAGAATGAATCG 57.192 47.619 18.15 0.00 40.06 3.34
1751 7751 2.357034 GGCGGCGACACTTCTGAA 60.357 61.111 12.98 0.00 0.00 3.02
1803 8626 3.785859 CAGCTCGGGCCTTGGCTA 61.786 66.667 2.00 0.00 39.73 3.93
1815 8638 4.503910 GGCCTTGGCTAAATTAAAACAGG 58.496 43.478 11.71 0.00 0.00 4.00
1839 8662 4.081406 AGCAAGGAAGTTATGCATTGACA 58.919 39.130 3.54 0.00 42.45 3.58
1843 8666 3.879295 AGGAAGTTATGCATTGACATCCG 59.121 43.478 21.41 0.00 36.54 4.18
1846 8669 2.172505 AGTTATGCATTGACATCCGGGA 59.827 45.455 3.54 0.00 0.00 5.14
1896 8719 6.803154 AAACAGACAGTAAGGAAGTTATGC 57.197 37.500 0.00 0.00 0.00 3.14
1897 8720 5.483685 ACAGACAGTAAGGAAGTTATGCA 57.516 39.130 0.00 0.00 0.00 3.96
1898 8721 6.054860 ACAGACAGTAAGGAAGTTATGCAT 57.945 37.500 3.79 3.79 0.00 3.96
1899 8722 6.476378 ACAGACAGTAAGGAAGTTATGCATT 58.524 36.000 3.54 0.00 0.00 3.56
1932 8755 2.158871 AGTGCAACGGTTTGAGAAGGTA 60.159 45.455 0.00 0.00 45.86 3.08
1988 8811 5.403246 ACGAAGAAGACAGCTTATGTACAG 58.597 41.667 0.33 0.00 44.17 2.74
1990 8813 5.741510 CGAAGAAGACAGCTTATGTACAGAG 59.258 44.000 0.33 3.16 44.17 3.35
1996 8819 3.708631 ACAGCTTATGTACAGAGCCTGAT 59.291 43.478 23.11 8.40 41.60 2.90
2025 8848 5.095691 CAATATATTGTTGTGGAGGACGC 57.904 43.478 16.03 0.00 33.22 5.19
2026 8849 2.779755 ATATTGTTGTGGAGGACGCA 57.220 45.000 0.00 0.00 37.93 5.24
2027 8850 1.803334 TATTGTTGTGGAGGACGCAC 58.197 50.000 0.00 0.00 39.78 5.34
2028 8851 0.108585 ATTGTTGTGGAGGACGCACT 59.891 50.000 0.00 0.00 39.78 4.40
2029 8852 0.531974 TTGTTGTGGAGGACGCACTC 60.532 55.000 0.00 0.00 39.78 3.51
2030 8853 1.069090 GTTGTGGAGGACGCACTCA 59.931 57.895 8.91 0.00 39.78 3.41
2031 8854 0.531974 GTTGTGGAGGACGCACTCAA 60.532 55.000 8.91 0.00 39.78 3.02
2032 8855 0.249868 TTGTGGAGGACGCACTCAAG 60.250 55.000 8.91 0.00 39.78 3.02
2033 8856 1.112916 TGTGGAGGACGCACTCAAGA 61.113 55.000 8.91 0.00 39.27 3.02
2034 8857 0.389166 GTGGAGGACGCACTCAAGAG 60.389 60.000 8.91 0.00 39.27 2.85
2035 8858 1.216710 GGAGGACGCACTCAAGAGG 59.783 63.158 8.91 0.00 39.27 3.69
2036 8859 1.216710 GAGGACGCACTCAAGAGGG 59.783 63.158 1.73 0.00 37.44 4.30
2037 8860 1.228894 AGGACGCACTCAAGAGGGA 60.229 57.895 2.96 0.00 32.29 4.20
2038 8861 1.216710 GGACGCACTCAAGAGGGAG 59.783 63.158 2.96 2.10 40.79 4.30
2039 8862 1.446966 GACGCACTCAAGAGGGAGC 60.447 63.158 2.96 2.76 38.50 4.70
2040 8863 2.159819 GACGCACTCAAGAGGGAGCA 62.160 60.000 2.96 0.00 38.50 4.26
2041 8864 1.447489 CGCACTCAAGAGGGAGCAG 60.447 63.158 2.96 0.00 38.50 4.24
2042 8865 1.078567 GCACTCAAGAGGGAGCAGG 60.079 63.158 2.96 0.00 38.50 4.85
2043 8866 1.548357 GCACTCAAGAGGGAGCAGGA 61.548 60.000 2.96 0.00 38.50 3.86
2044 8867 0.536260 CACTCAAGAGGGAGCAGGAG 59.464 60.000 1.73 0.00 38.50 3.69
2045 8868 1.264045 ACTCAAGAGGGAGCAGGAGC 61.264 60.000 1.73 0.00 38.50 4.70
2055 8878 4.292784 GCAGGAGCTTGACCAGAC 57.707 61.111 0.00 0.00 37.91 3.51
2056 8879 1.676384 GCAGGAGCTTGACCAGACT 59.324 57.895 0.00 0.00 37.91 3.24
2057 8880 0.673022 GCAGGAGCTTGACCAGACTG 60.673 60.000 0.00 0.00 37.91 3.51
2058 8881 0.673022 CAGGAGCTTGACCAGACTGC 60.673 60.000 0.00 0.00 0.00 4.40
2059 8882 1.376553 GGAGCTTGACCAGACTGCC 60.377 63.158 0.00 0.00 0.00 4.85
2060 8883 1.376553 GAGCTTGACCAGACTGCCC 60.377 63.158 0.00 0.00 0.00 5.36
2061 8884 2.743928 GCTTGACCAGACTGCCCG 60.744 66.667 0.00 0.00 0.00 6.13
2062 8885 2.743928 CTTGACCAGACTGCCCGC 60.744 66.667 0.00 0.00 0.00 6.13
2063 8886 4.680237 TTGACCAGACTGCCCGCG 62.680 66.667 0.00 0.00 0.00 6.46
2065 8888 4.803426 GACCAGACTGCCCGCGAG 62.803 72.222 8.23 0.00 0.00 5.03
2078 8901 3.169198 GCGAGGGCGACTTTTGAG 58.831 61.111 0.00 0.00 40.82 3.02
2079 8902 1.374252 GCGAGGGCGACTTTTGAGA 60.374 57.895 0.00 0.00 40.82 3.27
2080 8903 0.949105 GCGAGGGCGACTTTTGAGAA 60.949 55.000 0.00 0.00 40.82 2.87
2081 8904 1.726853 CGAGGGCGACTTTTGAGAAT 58.273 50.000 0.00 0.00 40.82 2.40
2082 8905 1.394917 CGAGGGCGACTTTTGAGAATG 59.605 52.381 0.00 0.00 40.82 2.67
2083 8906 1.131315 GAGGGCGACTTTTGAGAATGC 59.869 52.381 0.00 0.00 0.00 3.56
2084 8907 0.881118 GGGCGACTTTTGAGAATGCA 59.119 50.000 0.00 0.00 0.00 3.96
2085 8908 1.135575 GGGCGACTTTTGAGAATGCAG 60.136 52.381 0.00 0.00 0.00 4.41
2086 8909 1.611043 GCGACTTTTGAGAATGCAGC 58.389 50.000 0.00 0.00 0.00 5.25
2087 8910 1.730446 GCGACTTTTGAGAATGCAGCC 60.730 52.381 0.00 0.00 0.00 4.85
2088 8911 1.464687 CGACTTTTGAGAATGCAGCCG 60.465 52.381 0.00 0.00 0.00 5.52
2089 8912 1.537202 GACTTTTGAGAATGCAGCCGT 59.463 47.619 0.00 0.00 0.00 5.68
2090 8913 2.742053 GACTTTTGAGAATGCAGCCGTA 59.258 45.455 0.00 0.00 0.00 4.02
2091 8914 3.347216 ACTTTTGAGAATGCAGCCGTAT 58.653 40.909 0.00 0.00 0.00 3.06
2092 8915 3.375299 ACTTTTGAGAATGCAGCCGTATC 59.625 43.478 0.00 0.00 0.00 2.24
2093 8916 2.988010 TTGAGAATGCAGCCGTATCT 57.012 45.000 0.00 0.00 0.00 1.98
2094 8917 2.988010 TGAGAATGCAGCCGTATCTT 57.012 45.000 0.00 0.00 0.00 2.40
2095 8918 4.400529 TTGAGAATGCAGCCGTATCTTA 57.599 40.909 0.00 0.00 0.00 2.10
2096 8919 4.607293 TGAGAATGCAGCCGTATCTTAT 57.393 40.909 0.00 0.00 0.00 1.73
2097 8920 5.722021 TGAGAATGCAGCCGTATCTTATA 57.278 39.130 0.00 0.00 0.00 0.98
2098 8921 5.470368 TGAGAATGCAGCCGTATCTTATAC 58.530 41.667 0.00 0.00 0.00 1.47
2099 8922 5.010617 TGAGAATGCAGCCGTATCTTATACA 59.989 40.000 0.00 0.00 0.00 2.29
2100 8923 5.853936 AGAATGCAGCCGTATCTTATACAA 58.146 37.500 0.00 0.00 0.00 2.41
2101 8924 5.696724 AGAATGCAGCCGTATCTTATACAAC 59.303 40.000 0.00 0.00 0.00 3.32
2102 8925 3.724374 TGCAGCCGTATCTTATACAACC 58.276 45.455 0.00 0.00 0.00 3.77
2103 8926 3.133183 TGCAGCCGTATCTTATACAACCA 59.867 43.478 0.00 0.00 0.00 3.67
2104 8927 3.493503 GCAGCCGTATCTTATACAACCAC 59.506 47.826 0.00 0.00 0.00 4.16
2105 8928 4.056050 CAGCCGTATCTTATACAACCACC 58.944 47.826 0.00 0.00 0.00 4.61
2106 8929 3.707611 AGCCGTATCTTATACAACCACCA 59.292 43.478 0.00 0.00 0.00 4.17
2107 8930 4.056050 GCCGTATCTTATACAACCACCAG 58.944 47.826 0.00 0.00 0.00 4.00
2108 8931 4.628074 CCGTATCTTATACAACCACCAGG 58.372 47.826 0.00 0.00 42.21 4.45
2109 8932 4.056050 CGTATCTTATACAACCACCAGGC 58.944 47.826 0.00 0.00 39.06 4.85
2110 8933 2.684001 TCTTATACAACCACCAGGCG 57.316 50.000 0.00 0.00 39.06 5.52
2111 8934 1.014352 CTTATACAACCACCAGGCGC 58.986 55.000 0.00 0.00 39.06 6.53
2112 8935 0.616371 TTATACAACCACCAGGCGCT 59.384 50.000 7.64 0.00 39.06 5.92
2113 8936 1.487300 TATACAACCACCAGGCGCTA 58.513 50.000 7.64 0.00 39.06 4.26
2114 8937 0.837272 ATACAACCACCAGGCGCTAT 59.163 50.000 7.64 0.00 39.06 2.97
2115 8938 0.616371 TACAACCACCAGGCGCTATT 59.384 50.000 7.64 0.00 39.06 1.73
2116 8939 0.251165 ACAACCACCAGGCGCTATTT 60.251 50.000 7.64 0.00 39.06 1.40
2117 8940 0.451783 CAACCACCAGGCGCTATTTC 59.548 55.000 7.64 0.00 39.06 2.17
2118 8941 0.328258 AACCACCAGGCGCTATTTCT 59.672 50.000 7.64 0.00 39.06 2.52
2119 8942 0.392998 ACCACCAGGCGCTATTTCTG 60.393 55.000 7.64 5.38 39.06 3.02
2120 8943 0.107703 CCACCAGGCGCTATTTCTGA 60.108 55.000 7.64 0.00 0.00 3.27
2121 8944 1.678728 CCACCAGGCGCTATTTCTGAA 60.679 52.381 7.64 0.00 0.00 3.02
2122 8945 2.292267 CACCAGGCGCTATTTCTGAAT 58.708 47.619 7.64 0.00 0.00 2.57
2123 8946 2.684881 CACCAGGCGCTATTTCTGAATT 59.315 45.455 7.64 0.00 0.00 2.17
2124 8947 2.945668 ACCAGGCGCTATTTCTGAATTC 59.054 45.455 7.64 0.00 0.00 2.17
2125 8948 2.945008 CCAGGCGCTATTTCTGAATTCA 59.055 45.455 7.64 8.12 0.00 2.57
2126 8949 3.242870 CCAGGCGCTATTTCTGAATTCAC 60.243 47.826 7.64 0.00 0.00 3.18
2127 8950 3.374988 CAGGCGCTATTTCTGAATTCACA 59.625 43.478 7.64 0.00 0.00 3.58
2128 8951 4.009675 AGGCGCTATTTCTGAATTCACAA 58.990 39.130 7.64 0.00 0.00 3.33
2129 8952 4.458989 AGGCGCTATTTCTGAATTCACAAA 59.541 37.500 7.64 10.73 0.00 2.83
2130 8953 5.048083 AGGCGCTATTTCTGAATTCACAAAA 60.048 36.000 12.10 11.85 0.00 2.44
2131 8954 5.633182 GGCGCTATTTCTGAATTCACAAAAA 59.367 36.000 12.10 9.74 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 1.202722 CCCATTCCCATGTACCCGTAC 60.203 57.143 0.00 0.00 36.63 3.67
3 4 1.133363 CCCATTCCCATGTACCCGTA 58.867 55.000 0.00 0.00 0.00 4.02
4 5 0.917333 ACCCATTCCCATGTACCCGT 60.917 55.000 0.00 0.00 0.00 5.28
5 6 0.257616 AACCCATTCCCATGTACCCG 59.742 55.000 0.00 0.00 0.00 5.28
6 7 3.895704 ATAACCCATTCCCATGTACCC 57.104 47.619 0.00 0.00 0.00 3.69
7 8 5.578157 AGTATAACCCATTCCCATGTACC 57.422 43.478 0.00 0.00 0.00 3.34
8 9 7.446319 GGTTTAGTATAACCCATTCCCATGTAC 59.554 40.741 0.00 0.00 41.42 2.90
9 10 7.129038 TGGTTTAGTATAACCCATTCCCATGTA 59.871 37.037 0.00 0.00 45.69 2.29
10 11 6.068735 TGGTTTAGTATAACCCATTCCCATGT 60.069 38.462 0.00 0.00 45.69 3.21
11 12 6.369629 TGGTTTAGTATAACCCATTCCCATG 58.630 40.000 0.00 0.00 45.69 3.66
12 13 6.599986 TGGTTTAGTATAACCCATTCCCAT 57.400 37.500 0.00 0.00 45.69 4.00
13 14 6.599986 ATGGTTTAGTATAACCCATTCCCA 57.400 37.500 0.00 0.00 45.69 4.37
14 15 6.944290 GGTATGGTTTAGTATAACCCATTCCC 59.056 42.308 9.31 5.27 45.69 3.97
15 16 6.944290 GGGTATGGTTTAGTATAACCCATTCC 59.056 42.308 11.11 11.11 45.69 3.01
16 17 7.519927 TGGGTATGGTTTAGTATAACCCATTC 58.480 38.462 6.23 0.38 45.69 2.67
17 18 7.468752 TGGGTATGGTTTAGTATAACCCATT 57.531 36.000 6.23 0.00 45.69 3.16
18 19 7.657352 ATGGGTATGGTTTAGTATAACCCAT 57.343 36.000 15.65 15.65 46.84 4.00
19 20 8.760362 ATATGGGTATGGTTTAGTATAACCCA 57.240 34.615 12.39 12.39 45.69 4.51
20 21 8.270030 GGATATGGGTATGGTTTAGTATAACCC 58.730 40.741 0.00 0.00 45.69 4.11
21 22 8.828751 TGGATATGGGTATGGTTTAGTATAACC 58.171 37.037 0.00 0.00 46.31 2.85
22 23 9.662947 GTGGATATGGGTATGGTTTAGTATAAC 57.337 37.037 0.00 0.00 0.00 1.89
23 24 9.624037 AGTGGATATGGGTATGGTTTAGTATAA 57.376 33.333 0.00 0.00 0.00 0.98
25 26 9.799223 ATAGTGGATATGGGTATGGTTTAGTAT 57.201 33.333 0.00 0.00 0.00 2.12
27 28 9.043548 GTATAGTGGATATGGGTATGGTTTAGT 57.956 37.037 0.00 0.00 0.00 2.24
28 29 8.483758 GGTATAGTGGATATGGGTATGGTTTAG 58.516 40.741 0.00 0.00 0.00 1.85
29 30 7.403813 GGGTATAGTGGATATGGGTATGGTTTA 59.596 40.741 0.00 0.00 0.00 2.01
30 31 6.216868 GGGTATAGTGGATATGGGTATGGTTT 59.783 42.308 0.00 0.00 0.00 3.27
31 32 5.729718 GGGTATAGTGGATATGGGTATGGTT 59.270 44.000 0.00 0.00 0.00 3.67
32 33 5.286221 GGGTATAGTGGATATGGGTATGGT 58.714 45.833 0.00 0.00 0.00 3.55
33 34 4.344102 CGGGTATAGTGGATATGGGTATGG 59.656 50.000 0.00 0.00 0.00 2.74
34 35 5.205821 TCGGGTATAGTGGATATGGGTATG 58.794 45.833 0.00 0.00 0.00 2.39
35 36 5.476950 TCGGGTATAGTGGATATGGGTAT 57.523 43.478 0.00 0.00 0.00 2.73
36 37 4.951873 TCGGGTATAGTGGATATGGGTA 57.048 45.455 0.00 0.00 0.00 3.69
37 38 3.839323 TCGGGTATAGTGGATATGGGT 57.161 47.619 0.00 0.00 0.00 4.51
38 39 3.388024 CCATCGGGTATAGTGGATATGGG 59.612 52.174 0.00 0.00 33.53 4.00
39 40 3.388024 CCCATCGGGTATAGTGGATATGG 59.612 52.174 0.00 0.00 38.25 2.74
40 41 4.672587 CCCATCGGGTATAGTGGATATG 57.327 50.000 0.00 0.00 38.25 1.78
51 52 6.428295 AGAAAATTTTCATACCCATCGGGTA 58.572 36.000 28.00 14.18 46.18 3.69
52 53 5.592104 GAAAATTTTCATACCCATCGGGT 57.408 39.130 23.06 10.13 46.35 5.28
53 54 5.852282 AGAAAATTTTCATACCCATCGGG 57.148 39.130 28.00 0.00 43.33 5.14
66 67 9.563748 CCCATGGATGCATAAATAGAAAATTTT 57.436 29.630 15.22 2.28 0.00 1.82
67 68 8.716779 ACCCATGGATGCATAAATAGAAAATTT 58.283 29.630 15.22 0.00 0.00 1.82
68 69 8.266363 ACCCATGGATGCATAAATAGAAAATT 57.734 30.769 15.22 0.00 0.00 1.82
69 70 7.860649 ACCCATGGATGCATAAATAGAAAAT 57.139 32.000 15.22 0.00 0.00 1.82
70 71 8.954834 ATACCCATGGATGCATAAATAGAAAA 57.045 30.769 15.22 0.00 0.00 2.29
71 72 8.954834 AATACCCATGGATGCATAAATAGAAA 57.045 30.769 15.22 0.00 0.00 2.52
72 73 8.954834 AAATACCCATGGATGCATAAATAGAA 57.045 30.769 15.22 0.00 0.00 2.10
73 74 8.954834 AAAATACCCATGGATGCATAAATAGA 57.045 30.769 15.22 0.00 0.00 1.98
97 98 7.947890 CCTATTAGGGCAAGGTATGGATAAAAA 59.052 37.037 1.37 0.00 0.00 1.94
98 99 7.466804 CCTATTAGGGCAAGGTATGGATAAAA 58.533 38.462 1.37 0.00 0.00 1.52
99 100 7.027874 CCTATTAGGGCAAGGTATGGATAAA 57.972 40.000 1.37 0.00 0.00 1.40
100 101 6.636454 CCTATTAGGGCAAGGTATGGATAA 57.364 41.667 1.37 0.00 0.00 1.75
123 124 4.892002 CCCCTGCGGGTAAATACC 57.108 61.111 11.58 0.73 45.50 2.73
138 139 1.542187 AATATCTAGGCCCGCGTCCC 61.542 60.000 4.92 4.53 0.00 4.46
139 140 0.108756 GAATATCTAGGCCCGCGTCC 60.109 60.000 4.92 5.87 0.00 4.79
140 141 0.889306 AGAATATCTAGGCCCGCGTC 59.111 55.000 4.92 0.00 0.00 5.19
141 142 0.889306 GAGAATATCTAGGCCCGCGT 59.111 55.000 4.92 0.00 0.00 6.01
142 143 1.178276 AGAGAATATCTAGGCCCGCG 58.822 55.000 0.00 0.00 36.10 6.46
143 144 2.427812 GGTAGAGAATATCTAGGCCCGC 59.572 54.545 0.00 0.00 41.28 6.13
144 145 3.970842 AGGTAGAGAATATCTAGGCCCG 58.029 50.000 0.00 0.00 41.28 6.13
145 146 6.082228 ACTAGGTAGAGAATATCTAGGCCC 57.918 45.833 0.00 0.00 41.28 5.80
146 147 7.631933 TGTACTAGGTAGAGAATATCTAGGCC 58.368 42.308 0.00 0.00 41.28 5.19
186 187 5.236911 ACTTTCGATGCAATGCAACAAAATT 59.763 32.000 13.45 0.00 43.62 1.82
187 188 4.751098 ACTTTCGATGCAATGCAACAAAAT 59.249 33.333 13.45 0.00 43.62 1.82
188 189 4.118410 ACTTTCGATGCAATGCAACAAAA 58.882 34.783 13.45 6.73 43.62 2.44
189 190 3.715495 ACTTTCGATGCAATGCAACAAA 58.285 36.364 13.45 10.34 43.62 2.83
190 191 3.367992 ACTTTCGATGCAATGCAACAA 57.632 38.095 13.45 2.16 43.62 2.83
235 1561 0.811616 GGCATGGTGAGTAGGCGAAG 60.812 60.000 0.00 0.00 0.00 3.79
238 1564 2.203070 GGGCATGGTGAGTAGGCG 60.203 66.667 0.00 0.00 0.00 5.52
269 1598 4.943705 CCTTCATTTCGGAGGAAAGATGAA 59.056 41.667 0.00 0.00 44.81 2.57
270 1599 4.517285 CCTTCATTTCGGAGGAAAGATGA 58.483 43.478 0.00 0.00 44.81 2.92
272 1601 3.282885 GCCTTCATTTCGGAGGAAAGAT 58.717 45.455 0.00 0.00 44.81 2.40
274 1603 1.398390 CGCCTTCATTTCGGAGGAAAG 59.602 52.381 0.00 0.00 44.81 2.62
294 1623 4.491676 TCTAGTTTGTCTAATGACCACGC 58.508 43.478 0.00 0.00 42.28 5.34
350 1680 4.222847 CCGCCCCTTCTCGGCTAC 62.223 72.222 0.00 0.00 44.73 3.58
365 1695 5.313712 ACAATTTGATATAGTTAGCCCCCG 58.686 41.667 2.79 0.00 0.00 5.73
390 1720 2.423538 GCCATTACGCAATCCTTTCAGT 59.576 45.455 0.00 0.00 0.00 3.41
404 1734 6.456447 TGTAATTCGTATTAGCGCCATTAC 57.544 37.500 2.29 0.07 37.74 1.89
405 1735 6.073657 GGTTGTAATTCGTATTAGCGCCATTA 60.074 38.462 2.29 0.00 0.00 1.90
407 1737 4.212636 GGTTGTAATTCGTATTAGCGCCAT 59.787 41.667 2.29 0.00 0.00 4.40
408 1738 3.556775 GGTTGTAATTCGTATTAGCGCCA 59.443 43.478 2.29 0.00 0.00 5.69
410 1740 3.486841 TCGGTTGTAATTCGTATTAGCGC 59.513 43.478 0.00 0.00 0.00 5.92
411 1741 4.971830 TCTCGGTTGTAATTCGTATTAGCG 59.028 41.667 0.00 0.00 0.00 4.26
423 1760 9.857957 AACAAATTTTTAGTTTCTCGGTTGTAA 57.142 25.926 0.00 0.00 0.00 2.41
492 1829 2.232298 CTTCCTCGGGGACACTGCTC 62.232 65.000 1.51 0.00 42.05 4.26
497 1835 0.898789 TCAGACTTCCTCGGGGACAC 60.899 60.000 1.51 0.00 42.05 3.67
503 1841 2.493675 TGATTGAGTCAGACTTCCTCGG 59.506 50.000 4.05 0.00 31.80 4.63
542 1880 0.251922 ATGGCAAGCTTCACCATGGT 60.252 50.000 23.66 13.00 42.59 3.55
605 1943 1.450312 GAGGTGAATGGCGAGTGGG 60.450 63.158 0.00 0.00 0.00 4.61
606 1944 0.460987 GAGAGGTGAATGGCGAGTGG 60.461 60.000 0.00 0.00 0.00 4.00
609 1947 1.339610 CCTAGAGAGGTGAATGGCGAG 59.660 57.143 0.00 0.00 38.16 5.03
612 1950 2.549778 GCATCCTAGAGAGGTGAATGGC 60.550 54.545 0.00 0.00 44.19 4.40
621 1959 2.428236 CGCGCGCATCCTAGAGAG 60.428 66.667 32.61 6.38 0.00 3.20
739 2725 2.619941 ATCGACGGGAGATGACGGGA 62.620 60.000 0.00 0.00 0.00 5.14
742 2728 1.478137 GAAATCGACGGGAGATGACG 58.522 55.000 0.00 0.00 0.00 4.35
744 2730 1.385528 TCGAAATCGACGGGAGATGA 58.614 50.000 0.58 0.00 44.22 2.92
756 4500 2.435938 TGGCGGCCAGTCGAAATC 60.436 61.111 19.77 0.00 0.00 2.17
795 4539 3.737172 GCGGTGCAACGAAGCCAT 61.737 61.111 31.65 0.00 38.12 4.40
888 4637 2.469847 CGATGTCGCGGTGTGTTG 59.530 61.111 6.13 0.00 0.00 3.33
948 4704 1.007721 ACCACCAGATCTCAGGTAGCT 59.992 52.381 4.49 0.00 33.70 3.32
949 4705 1.137872 CACCACCAGATCTCAGGTAGC 59.862 57.143 4.49 0.00 33.70 3.58
950 4706 2.428890 GTCACCACCAGATCTCAGGTAG 59.571 54.545 4.49 0.74 33.70 3.18
951 4707 2.457598 GTCACCACCAGATCTCAGGTA 58.542 52.381 4.49 0.00 33.70 3.08
952 4708 1.270907 GTCACCACCAGATCTCAGGT 58.729 55.000 0.00 0.00 36.05 4.00
953 4709 0.539051 GGTCACCACCAGATCTCAGG 59.461 60.000 0.00 0.00 43.17 3.86
954 4710 1.566211 AGGTCACCACCAGATCTCAG 58.434 55.000 0.00 0.00 46.68 3.35
955 4711 2.457598 GTAGGTCACCACCAGATCTCA 58.542 52.381 0.00 0.00 46.68 3.27
967 4723 0.103208 CCAGATCGCAGGTAGGTCAC 59.897 60.000 0.00 0.00 0.00 3.67
968 4724 0.324368 ACCAGATCGCAGGTAGGTCA 60.324 55.000 5.84 0.00 36.07 4.02
969 4725 0.103208 CACCAGATCGCAGGTAGGTC 59.897 60.000 7.13 0.00 36.07 3.85
1309 5103 1.529865 TGAGGTATCGCTATCGTCGTG 59.470 52.381 0.00 0.00 36.96 4.35
1317 5111 5.105716 GCAGGATTAGATTGAGGTATCGCTA 60.106 44.000 0.00 0.00 0.00 4.26
1324 5121 3.961408 ACTACGCAGGATTAGATTGAGGT 59.039 43.478 0.00 0.00 0.00 3.85
1402 5302 0.798159 TGAGCTACACATTTGCGCAG 59.202 50.000 11.31 0.87 33.10 5.18
1404 5304 1.398041 TCATGAGCTACACATTTGCGC 59.602 47.619 0.00 0.00 0.00 6.09
1405 5305 2.674852 ACTCATGAGCTACACATTTGCG 59.325 45.455 22.83 0.00 0.00 4.85
1406 5306 4.394300 AGAACTCATGAGCTACACATTTGC 59.606 41.667 22.83 0.00 0.00 3.68
1407 5307 5.640783 TCAGAACTCATGAGCTACACATTTG 59.359 40.000 22.83 8.30 0.00 2.32
1408 5308 5.798132 TCAGAACTCATGAGCTACACATTT 58.202 37.500 22.83 6.64 0.00 2.32
1467 5367 3.753294 ACGAAACCAGACACAGATTCT 57.247 42.857 0.00 0.00 0.00 2.40
1477 5377 0.463654 ACTGCAGCAACGAAACCAGA 60.464 50.000 15.27 0.00 0.00 3.86
1509 5409 0.886563 AGGTACTCTTTGTCGGTCGG 59.113 55.000 0.00 0.00 0.00 4.79
1559 6719 3.058639 GCAGAGCGTCTTTGTTCTTGAAT 60.059 43.478 0.00 0.00 0.00 2.57
1638 7617 6.615088 TCTTGTGATTTTGCTAGCTGAAATC 58.385 36.000 29.91 29.91 39.21 2.17
1652 7631 1.542492 CCCAGCAGCTCTTGTGATTT 58.458 50.000 0.00 0.00 0.00 2.17
1685 7664 7.484007 CAGAACTACAATTTGCATTGAGACATC 59.516 37.037 7.04 0.05 42.35 3.06
1803 8626 4.953940 TCCTTGCTGCCTGTTTTAATTT 57.046 36.364 0.00 0.00 0.00 1.82
1815 8638 3.119388 TCAATGCATAACTTCCTTGCTGC 60.119 43.478 0.00 0.00 37.28 5.25
1859 8682 5.010012 ACTGTCTGTTTTAATTCAGCCAAGG 59.990 40.000 0.00 0.00 0.00 3.61
1863 8686 6.430000 TCCTTACTGTCTGTTTTAATTCAGCC 59.570 38.462 0.00 0.00 0.00 4.85
1932 8755 8.643324 TGCAAAACAGTGGTATTTTAGGTATTT 58.357 29.630 0.00 0.00 0.00 1.40
2010 8833 0.531974 GAGTGCGTCCTCCACAACAA 60.532 55.000 0.00 0.00 35.69 2.83
2014 8837 1.112916 TCTTGAGTGCGTCCTCCACA 61.113 55.000 1.78 0.00 35.69 4.17
2015 8838 0.389166 CTCTTGAGTGCGTCCTCCAC 60.389 60.000 1.78 0.00 0.00 4.02
2016 8839 1.536073 CCTCTTGAGTGCGTCCTCCA 61.536 60.000 1.78 0.00 0.00 3.86
2017 8840 1.216710 CCTCTTGAGTGCGTCCTCC 59.783 63.158 1.78 0.00 0.00 4.30
2018 8841 1.216710 CCCTCTTGAGTGCGTCCTC 59.783 63.158 0.00 0.00 0.00 3.71
2019 8842 1.228894 TCCCTCTTGAGTGCGTCCT 60.229 57.895 0.00 0.00 0.00 3.85
2020 8843 1.216710 CTCCCTCTTGAGTGCGTCC 59.783 63.158 0.00 0.00 0.00 4.79
2021 8844 1.446966 GCTCCCTCTTGAGTGCGTC 60.447 63.158 0.00 0.00 34.74 5.19
2022 8845 2.164865 CTGCTCCCTCTTGAGTGCGT 62.165 60.000 0.00 0.00 34.74 5.24
2023 8846 1.447489 CTGCTCCCTCTTGAGTGCG 60.447 63.158 0.00 0.00 34.74 5.34
2024 8847 1.078567 CCTGCTCCCTCTTGAGTGC 60.079 63.158 0.00 0.00 34.74 4.40
2025 8848 0.536260 CTCCTGCTCCCTCTTGAGTG 59.464 60.000 0.00 0.00 34.74 3.51
2026 8849 1.264045 GCTCCTGCTCCCTCTTGAGT 61.264 60.000 0.00 0.00 34.74 3.41
2027 8850 1.521616 GCTCCTGCTCCCTCTTGAG 59.478 63.158 0.00 0.00 36.03 3.02
2028 8851 3.719121 GCTCCTGCTCCCTCTTGA 58.281 61.111 0.00 0.00 36.03 3.02
2038 8861 0.673022 CAGTCTGGTCAAGCTCCTGC 60.673 60.000 0.00 0.00 40.05 4.85
2039 8862 0.673022 GCAGTCTGGTCAAGCTCCTG 60.673 60.000 1.14 0.00 0.00 3.86
2040 8863 1.676384 GCAGTCTGGTCAAGCTCCT 59.324 57.895 1.14 0.00 0.00 3.69
2041 8864 1.376553 GGCAGTCTGGTCAAGCTCC 60.377 63.158 1.14 0.00 0.00 4.70
2042 8865 1.376553 GGGCAGTCTGGTCAAGCTC 60.377 63.158 1.14 0.00 0.00 4.09
2043 8866 2.753029 GGGCAGTCTGGTCAAGCT 59.247 61.111 1.14 0.00 0.00 3.74
2044 8867 2.743928 CGGGCAGTCTGGTCAAGC 60.744 66.667 1.14 0.00 0.00 4.01
2045 8868 2.743928 GCGGGCAGTCTGGTCAAG 60.744 66.667 1.14 0.00 0.00 3.02
2046 8869 4.680237 CGCGGGCAGTCTGGTCAA 62.680 66.667 0.00 0.00 0.00 3.18
2048 8871 4.803426 CTCGCGGGCAGTCTGGTC 62.803 72.222 6.13 0.00 0.00 4.02
2061 8884 0.949105 TTCTCAAAAGTCGCCCTCGC 60.949 55.000 0.00 0.00 35.26 5.03
2062 8885 1.394917 CATTCTCAAAAGTCGCCCTCG 59.605 52.381 0.00 0.00 0.00 4.63
2063 8886 1.131315 GCATTCTCAAAAGTCGCCCTC 59.869 52.381 0.00 0.00 0.00 4.30
2064 8887 1.168714 GCATTCTCAAAAGTCGCCCT 58.831 50.000 0.00 0.00 0.00 5.19
2065 8888 0.881118 TGCATTCTCAAAAGTCGCCC 59.119 50.000 0.00 0.00 0.00 6.13
2066 8889 1.730446 GCTGCATTCTCAAAAGTCGCC 60.730 52.381 0.00 0.00 0.00 5.54
2067 8890 1.611043 GCTGCATTCTCAAAAGTCGC 58.389 50.000 0.00 0.00 0.00 5.19
2068 8891 1.464687 CGGCTGCATTCTCAAAAGTCG 60.465 52.381 0.50 0.00 0.00 4.18
2069 8892 1.537202 ACGGCTGCATTCTCAAAAGTC 59.463 47.619 0.50 0.00 0.00 3.01
2070 8893 1.609208 ACGGCTGCATTCTCAAAAGT 58.391 45.000 0.50 0.00 0.00 2.66
2071 8894 3.624861 AGATACGGCTGCATTCTCAAAAG 59.375 43.478 0.50 0.00 0.00 2.27
2072 8895 3.609853 AGATACGGCTGCATTCTCAAAA 58.390 40.909 0.50 0.00 0.00 2.44
2073 8896 3.266510 AGATACGGCTGCATTCTCAAA 57.733 42.857 0.50 0.00 0.00 2.69
2074 8897 2.988010 AGATACGGCTGCATTCTCAA 57.012 45.000 0.50 0.00 0.00 3.02
2075 8898 2.988010 AAGATACGGCTGCATTCTCA 57.012 45.000 0.50 0.00 0.00 3.27
2076 8899 5.470368 TGTATAAGATACGGCTGCATTCTC 58.530 41.667 0.50 0.00 0.00 2.87
2077 8900 5.468540 TGTATAAGATACGGCTGCATTCT 57.531 39.130 0.50 0.00 0.00 2.40
2078 8901 5.107065 GGTTGTATAAGATACGGCTGCATTC 60.107 44.000 0.50 0.00 0.00 2.67
2079 8902 4.755123 GGTTGTATAAGATACGGCTGCATT 59.245 41.667 0.50 0.00 0.00 3.56
2080 8903 4.202315 TGGTTGTATAAGATACGGCTGCAT 60.202 41.667 0.50 0.00 0.00 3.96
2081 8904 3.133183 TGGTTGTATAAGATACGGCTGCA 59.867 43.478 0.50 0.00 0.00 4.41
2082 8905 3.493503 GTGGTTGTATAAGATACGGCTGC 59.506 47.826 0.00 0.00 0.00 5.25
2083 8906 4.056050 GGTGGTTGTATAAGATACGGCTG 58.944 47.826 0.00 0.00 0.00 4.85
2084 8907 3.707611 TGGTGGTTGTATAAGATACGGCT 59.292 43.478 0.00 0.00 0.00 5.52
2085 8908 4.056050 CTGGTGGTTGTATAAGATACGGC 58.944 47.826 0.00 0.00 0.00 5.68
2086 8909 4.628074 CCTGGTGGTTGTATAAGATACGG 58.372 47.826 0.00 0.00 0.00 4.02
2087 8910 4.056050 GCCTGGTGGTTGTATAAGATACG 58.944 47.826 0.00 0.00 35.27 3.06
2088 8911 4.056050 CGCCTGGTGGTTGTATAAGATAC 58.944 47.826 0.00 0.00 35.27 2.24
2089 8912 3.493699 GCGCCTGGTGGTTGTATAAGATA 60.494 47.826 9.65 0.00 35.27 1.98
2090 8913 2.745152 GCGCCTGGTGGTTGTATAAGAT 60.745 50.000 9.65 0.00 35.27 2.40
2091 8914 1.406341 GCGCCTGGTGGTTGTATAAGA 60.406 52.381 9.65 0.00 35.27 2.10
2092 8915 1.014352 GCGCCTGGTGGTTGTATAAG 58.986 55.000 9.65 0.00 35.27 1.73
2093 8916 0.616371 AGCGCCTGGTGGTTGTATAA 59.384 50.000 2.29 0.00 35.27 0.98
2094 8917 1.487300 TAGCGCCTGGTGGTTGTATA 58.513 50.000 17.94 0.00 35.27 1.47
2095 8918 0.837272 ATAGCGCCTGGTGGTTGTAT 59.163 50.000 17.94 2.21 35.27 2.29
2096 8919 0.616371 AATAGCGCCTGGTGGTTGTA 59.384 50.000 17.94 0.00 35.27 2.41
2097 8920 0.251165 AAATAGCGCCTGGTGGTTGT 60.251 50.000 17.94 4.30 35.27 3.32
2098 8921 0.451783 GAAATAGCGCCTGGTGGTTG 59.548 55.000 17.94 0.00 35.27 3.77
2099 8922 0.328258 AGAAATAGCGCCTGGTGGTT 59.672 50.000 17.94 0.00 35.27 3.67
2100 8923 0.392998 CAGAAATAGCGCCTGGTGGT 60.393 55.000 16.89 16.89 35.27 4.16
2101 8924 0.107703 TCAGAAATAGCGCCTGGTGG 60.108 55.000 2.29 0.00 0.00 4.61
2102 8925 1.737838 TTCAGAAATAGCGCCTGGTG 58.262 50.000 2.29 2.05 0.00 4.17
2103 8926 2.717639 ATTCAGAAATAGCGCCTGGT 57.282 45.000 2.29 0.00 0.00 4.00
2104 8927 2.945008 TGAATTCAGAAATAGCGCCTGG 59.055 45.455 2.29 0.00 0.00 4.45
2105 8928 3.374988 TGTGAATTCAGAAATAGCGCCTG 59.625 43.478 8.80 3.63 0.00 4.85
2106 8929 3.609853 TGTGAATTCAGAAATAGCGCCT 58.390 40.909 8.80 0.00 0.00 5.52
2107 8930 4.355543 TTGTGAATTCAGAAATAGCGCC 57.644 40.909 15.11 0.00 0.00 6.53
2108 8931 6.689178 TTTTTGTGAATTCAGAAATAGCGC 57.311 33.333 25.95 0.00 38.61 5.92


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

AutoCloner maintained by Alex Coulton.