Multiple sequence alignment - TraesCS5B01G117300

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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 TraesCS5B01G117300 chr5B 100.000 5420 0 0 2678 8097 206762155 206756736 0.000000e+00 10009.0
1 TraesCS5B01G117300 chr5B 100.000 2394 0 0 1 2394 206764832 206762439 0.000000e+00 4421.0
2 TraesCS5B01G117300 chr5B 92.810 1057 62 12 1 1052 322256198 322257245 0.000000e+00 1519.0
3 TraesCS5B01G117300 chr5B 87.026 501 40 13 6632 7129 489222621 489222143 7.150000e-150 542.0
4 TraesCS5B01G117300 chr5B 85.185 162 20 4 6393 6551 489222780 489222620 6.500000e-36 163.0
5 TraesCS5B01G117300 chr5B 74.146 205 42 11 7789 7988 661531827 661532025 3.130000e-09 75.0
6 TraesCS5B01G117300 chr6B 97.720 5001 101 6 2687 7686 159092647 159087659 0.000000e+00 8591.0
7 TraesCS5B01G117300 chr6B 97.774 3369 68 4 4318 7685 125020328 125023690 0.000000e+00 5799.0
8 TraesCS5B01G117300 chr6B 96.572 1721 49 7 5970 7686 4150397 4152111 0.000000e+00 2843.0
9 TraesCS5B01G117300 chr6B 97.631 1646 35 3 2678 4322 125017619 125019261 0.000000e+00 2820.0
10 TraesCS5B01G117300 chr6B 95.720 1659 59 6 4318 5971 4147805 4149456 0.000000e+00 2660.0
11 TraesCS5B01G117300 chr6B 95.556 1350 24 11 1044 2389 159094132 159092815 0.000000e+00 2128.0
12 TraesCS5B01G117300 chr6B 92.431 1057 67 12 1 1052 320333356 320334404 0.000000e+00 1496.0
13 TraesCS5B01G117300 chr6B 95.349 43 0 2 1044 1084 125017146 125017188 5.240000e-07 67.6
14 TraesCS5B01G117300 chr6B 100.000 29 0 0 7961 7989 114401417 114401445 4.000000e-03 54.7
15 TraesCS5B01G117300 chr6B 100.000 28 0 0 7961 7988 679330639 679330612 1.500000e-02 52.8
16 TraesCS5B01G117300 chr7D 98.014 3373 60 6 4318 7686 64418940 64415571 0.000000e+00 5851.0
17 TraesCS5B01G117300 chr7D 97.014 3382 77 10 4318 7689 636156941 636153574 0.000000e+00 5664.0
18 TraesCS5B01G117300 chr7D 96.950 3377 83 10 4318 7689 636113781 636110420 0.000000e+00 5648.0
19 TraesCS5B01G117300 chr7D 97.456 2123 52 2 4318 6439 636196053 636193932 0.000000e+00 3620.0
20 TraesCS5B01G117300 chr7D 97.315 2123 54 3 4318 6439 636244528 636242408 0.000000e+00 3602.0
21 TraesCS5B01G117300 chr7D 97.357 1627 38 3 2697 4322 64430256 64428634 0.000000e+00 2761.0
22 TraesCS5B01G117300 chr7D 95.708 1631 35 9 2695 4322 636198716 636197118 0.000000e+00 2591.0
23 TraesCS5B01G117300 chr7D 95.524 1631 40 8 2695 4322 636247192 636245592 0.000000e+00 2577.0
24 TraesCS5B01G117300 chr7D 95.270 1628 42 10 2698 4322 636159599 636158004 0.000000e+00 2547.0
25 TraesCS5B01G117300 chr7D 95.577 1221 21 8 3105 4322 636065595 636064405 0.000000e+00 1925.0
26 TraesCS5B01G117300 chr7D 95.343 1224 21 9 3105 4322 636116037 636114844 0.000000e+00 1912.0
27 TraesCS5B01G117300 chr7D 96.000 100 4 0 2279 2378 636199348 636199249 6.500000e-36 163.0
28 TraesCS5B01G117300 chr7D 96.471 85 3 0 2273 2357 64430698 64430614 3.050000e-29 141.0
29 TraesCS5B01G117300 chr7D 88.525 122 5 1 2273 2394 636065921 636065809 1.100000e-28 139.0
30 TraesCS5B01G117300 chr7D 93.333 45 1 2 1044 1086 636066003 636065959 1.890000e-06 65.8
31 TraesCS5B01G117300 chr7D 93.333 45 1 2 1044 1086 636159943 636159899 1.890000e-06 65.8
32 TraesCS5B01G117300 chr7D 93.333 45 1 2 1044 1086 636199436 636199392 1.890000e-06 65.8
33 TraesCS5B01G117300 chr7D 93.333 45 1 2 1044 1086 636247671 636247627 1.890000e-06 65.8
34 TraesCS5B01G117300 chrUn 97.371 2206 56 2 5058 7262 349413175 349410971 0.000000e+00 3751.0
35 TraesCS5B01G117300 chrUn 97.691 1646 34 3 2679 4322 317272906 317271263 0.000000e+00 2826.0
36 TraesCS5B01G117300 chr1D 97.390 2107 50 3 5582 7685 360103583 360105687 0.000000e+00 3581.0
37 TraesCS5B01G117300 chr1D 97.112 1489 36 4 2681 4168 360099784 360101266 0.000000e+00 2505.0
38 TraesCS5B01G117300 chr1D 94.958 119 6 0 2273 2391 360099638 360099756 3.860000e-43 187.0
39 TraesCS5B01G117300 chr1D 74.634 205 41 11 7789 7988 53256894 53257092 6.740000e-11 80.5
40 TraesCS5B01G117300 chr2D 93.868 1060 47 16 1 1052 640600307 640601356 0.000000e+00 1581.0
41 TraesCS5B01G117300 chr2B 93.548 1054 58 8 1 1052 592734135 592735180 0.000000e+00 1561.0
42 TraesCS5B01G117300 chr2B 92.286 1063 66 11 1 1052 754974377 754975434 0.000000e+00 1495.0
43 TraesCS5B01G117300 chr2B 93.620 674 34 5 7015 7686 49613902 49614568 0.000000e+00 998.0
44 TraesCS5B01G117300 chr2B 92.437 119 9 0 2273 2391 49613587 49613705 3.890000e-38 171.0
45 TraesCS5B01G117300 chr2B 91.111 45 2 2 1044 1086 49613505 49613549 8.780000e-05 60.2
46 TraesCS5B01G117300 chr3B 92.925 1060 60 9 1 1053 81799089 81800140 0.000000e+00 1528.0
47 TraesCS5B01G117300 chr3B 92.533 1058 65 13 1 1052 188124041 188125090 0.000000e+00 1504.0
48 TraesCS5B01G117300 chr3B 92.431 1057 67 11 1 1052 217818914 217817866 0.000000e+00 1496.0
49 TraesCS5B01G117300 chr3B 88.462 494 36 11 1405 1894 617682172 617682648 1.960000e-160 577.0
50 TraesCS5B01G117300 chr3B 92.715 151 11 0 1573 1723 617887105 617887255 1.370000e-52 219.0
51 TraesCS5B01G117300 chr3B 92.053 151 12 0 1573 1723 617988539 617988689 6.370000e-51 213.0
52 TraesCS5B01G117300 chr3B 80.139 287 30 11 1091 1367 617681903 617682172 1.070000e-43 189.0
53 TraesCS5B01G117300 chr3B 94.828 116 4 2 3121 3236 798327118 798327005 6.460000e-41 180.0
54 TraesCS5B01G117300 chr3B 94.318 88 5 0 1287 1374 617886922 617887009 1.420000e-27 135.0
55 TraesCS5B01G117300 chr3B 95.122 82 4 0 1293 1374 618002505 618002586 6.590000e-26 130.0
56 TraesCS5B01G117300 chr3B 72.449 196 47 6 7796 7988 470522631 470522440 1.000000e-03 56.5
57 TraesCS5B01G117300 chr3A 92.743 1061 57 17 1 1053 505149246 505148198 0.000000e+00 1515.0
58 TraesCS5B01G117300 chr3A 87.385 650 51 12 6396 7031 652647637 652648269 0.000000e+00 717.0
59 TraesCS5B01G117300 chr3A 89.970 329 17 6 1405 1732 607448161 607448474 2.100000e-110 411.0
60 TraesCS5B01G117300 chr3A 92.053 151 12 0 1573 1723 607467396 607467546 6.370000e-51 213.0
61 TraesCS5B01G117300 chr3A 91.447 152 13 0 1573 1724 607487118 607487269 8.230000e-50 209.0
62 TraesCS5B01G117300 chr3A 78.351 291 36 17 1091 1367 607447884 607448161 6.500000e-36 163.0
63 TraesCS5B01G117300 chr3A 92.771 83 6 0 1292 1374 607486942 607487024 3.970000e-23 121.0
64 TraesCS5B01G117300 chr4A 94.328 670 30 4 7018 7685 663300369 663299706 0.000000e+00 1020.0
65 TraesCS5B01G117300 chr4A 89.362 94 10 0 2273 2366 663300906 663300813 1.430000e-22 119.0
66 TraesCS5B01G117300 chr4A 100.000 32 0 0 1055 1086 663300975 663300944 8.780000e-05 60.2
67 TraesCS5B01G117300 chr7B 94.056 673 32 4 7015 7685 702505842 702506508 0.000000e+00 1014.0
68 TraesCS5B01G117300 chr7B 91.743 109 9 0 2273 2381 702505356 702505464 1.410000e-32 152.0
69 TraesCS5B01G117300 chr7B 93.478 46 3 0 7944 7989 19118279 19118234 1.460000e-07 69.4
70 TraesCS5B01G117300 chr7B 91.111 45 2 2 1044 1086 702505274 702505318 8.780000e-05 60.2
71 TraesCS5B01G117300 chr7A 87.538 650 50 11 6396 7031 128721063 128721695 0.000000e+00 723.0
72 TraesCS5B01G117300 chr4B 93.028 459 30 2 2684 3142 466776740 466777196 0.000000e+00 669.0
73 TraesCS5B01G117300 chr3D 90.828 447 26 9 1405 1840 464310781 464311223 1.170000e-162 584.0
74 TraesCS5B01G117300 chr3D 92.053 151 12 0 1573 1723 464316657 464316807 6.370000e-51 213.0
75 TraesCS5B01G117300 chr3D 94.175 103 6 0 2173 2275 464311315 464311417 3.030000e-34 158.0
76 TraesCS5B01G117300 chr3D 93.976 83 5 0 1292 1374 464331131 464331213 8.530000e-25 126.0
77 TraesCS5B01G117300 chr3D 92.941 85 6 0 1283 1367 464310697 464310781 3.070000e-24 124.0
78 TraesCS5B01G117300 chr3D 89.773 88 9 0 1287 1374 464323951 464324038 6.640000e-21 113.0
79 TraesCS5B01G117300 chr3D 91.803 61 5 0 1091 1151 464310170 464310230 1.450000e-12 86.1
80 TraesCS5B01G117300 chr5D 96.739 276 8 1 7712 7987 282487380 282487654 7.410000e-125 459.0
81 TraesCS5B01G117300 chr5D 92.241 116 2 1 7982 8097 205596630 205596738 3.030000e-34 158.0
82 TraesCS5B01G117300 chr5D 100.000 33 0 0 7683 7715 282485962 282485994 2.440000e-05 62.1
83 TraesCS5B01G117300 chr2A 87.279 283 31 5 7125 7405 314851886 314851607 1.310000e-82 318.0
84 TraesCS5B01G117300 chr2A 88.646 229 18 5 7418 7641 557302854 557303079 1.040000e-68 272.0
85 TraesCS5B01G117300 chr2A 90.476 42 4 0 7947 7988 738061352 738061393 1.000000e-03 56.5
86 TraesCS5B01G117300 chr1B 94.872 117 5 1 3120 3236 435079343 435079458 1.800000e-41 182.0
87 TraesCS5B01G117300 chr1B 94.828 116 5 1 3121 3236 435084076 435084190 6.460000e-41 180.0
88 TraesCS5B01G117300 chr1B 92.437 119 9 0 2273 2391 417815215 417815333 3.890000e-38 171.0
89 TraesCS5B01G117300 chr1B 90.698 43 4 0 7946 7988 674376644 674376602 3.160000e-04 58.4
90 TraesCS5B01G117300 chr1A 94.828 116 5 1 3121 3236 365499364 365499478 6.460000e-41 180.0
91 TraesCS5B01G117300 chr5A 90.517 116 4 1 7982 8097 245502108 245502216 6.550000e-31 147.0
92 TraesCS5B01G117300 chr6D 89.773 88 9 0 1294 1381 58109569 58109482 6.640000e-21 113.0


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 TraesCS5B01G117300 chr5B 206756736 206764832 8096 True 7215.000000 10009 100.000000 1 8097 2 chr5B.!!$R1 8096
1 TraesCS5B01G117300 chr5B 322256198 322257245 1047 False 1519.000000 1519 92.810000 1 1052 1 chr5B.!!$F1 1051
2 TraesCS5B01G117300 chr5B 489222143 489222780 637 True 352.500000 542 86.105500 6393 7129 2 chr5B.!!$R2 736
3 TraesCS5B01G117300 chr6B 159087659 159094132 6473 True 5359.500000 8591 96.638000 1044 7686 2 chr6B.!!$R2 6642
4 TraesCS5B01G117300 chr6B 125017146 125023690 6544 False 2895.533333 5799 96.918000 1044 7685 3 chr6B.!!$F4 6641
5 TraesCS5B01G117300 chr6B 4147805 4152111 4306 False 2751.500000 2843 96.146000 4318 7686 2 chr6B.!!$F3 3368
6 TraesCS5B01G117300 chr6B 320333356 320334404 1048 False 1496.000000 1496 92.431000 1 1052 1 chr6B.!!$F2 1051
7 TraesCS5B01G117300 chr7D 64415571 64418940 3369 True 5851.000000 5851 98.014000 4318 7686 1 chr7D.!!$R1 3368
8 TraesCS5B01G117300 chr7D 636110420 636116037 5617 True 3780.000000 5648 96.146500 3105 7689 2 chr7D.!!$R4 4584
9 TraesCS5B01G117300 chr7D 636153574 636159943 6369 True 2758.933333 5664 95.205667 1044 7689 3 chr7D.!!$R5 6645
10 TraesCS5B01G117300 chr7D 636242408 636247671 5263 True 2081.600000 3602 95.390667 1044 6439 3 chr7D.!!$R7 5395
11 TraesCS5B01G117300 chr7D 636193932 636199436 5504 True 1609.950000 3620 95.624250 1044 6439 4 chr7D.!!$R6 5395
12 TraesCS5B01G117300 chr7D 64428634 64430698 2064 True 1451.000000 2761 96.914000 2273 4322 2 chr7D.!!$R2 2049
13 TraesCS5B01G117300 chr7D 636064405 636066003 1598 True 709.933333 1925 92.478333 1044 4322 3 chr7D.!!$R3 3278
14 TraesCS5B01G117300 chrUn 349410971 349413175 2204 True 3751.000000 3751 97.371000 5058 7262 1 chrUn.!!$R2 2204
15 TraesCS5B01G117300 chrUn 317271263 317272906 1643 True 2826.000000 2826 97.691000 2679 4322 1 chrUn.!!$R1 1643
16 TraesCS5B01G117300 chr1D 360099638 360105687 6049 False 2091.000000 3581 96.486667 2273 7685 3 chr1D.!!$F2 5412
17 TraesCS5B01G117300 chr2D 640600307 640601356 1049 False 1581.000000 1581 93.868000 1 1052 1 chr2D.!!$F1 1051
18 TraesCS5B01G117300 chr2B 592734135 592735180 1045 False 1561.000000 1561 93.548000 1 1052 1 chr2B.!!$F1 1051
19 TraesCS5B01G117300 chr2B 754974377 754975434 1057 False 1495.000000 1495 92.286000 1 1052 1 chr2B.!!$F2 1051
20 TraesCS5B01G117300 chr2B 49613505 49614568 1063 False 409.733333 998 92.389333 1044 7686 3 chr2B.!!$F3 6642
21 TraesCS5B01G117300 chr3B 81799089 81800140 1051 False 1528.000000 1528 92.925000 1 1053 1 chr3B.!!$F1 1052
22 TraesCS5B01G117300 chr3B 188124041 188125090 1049 False 1504.000000 1504 92.533000 1 1052 1 chr3B.!!$F2 1051
23 TraesCS5B01G117300 chr3B 217817866 217818914 1048 True 1496.000000 1496 92.431000 1 1052 1 chr3B.!!$R1 1051
24 TraesCS5B01G117300 chr3B 617681903 617682648 745 False 383.000000 577 84.300500 1091 1894 2 chr3B.!!$F5 803
25 TraesCS5B01G117300 chr3A 505148198 505149246 1048 True 1515.000000 1515 92.743000 1 1053 1 chr3A.!!$R1 1052
26 TraesCS5B01G117300 chr3A 652647637 652648269 632 False 717.000000 717 87.385000 6396 7031 1 chr3A.!!$F2 635
27 TraesCS5B01G117300 chr3A 607447884 607448474 590 False 287.000000 411 84.160500 1091 1732 2 chr3A.!!$F3 641
28 TraesCS5B01G117300 chr4A 663299706 663300975 1269 True 399.733333 1020 94.563333 1055 7685 3 chr4A.!!$R1 6630
29 TraesCS5B01G117300 chr7B 702505274 702506508 1234 False 408.733333 1014 92.303333 1044 7685 3 chr7B.!!$F1 6641
30 TraesCS5B01G117300 chr7A 128721063 128721695 632 False 723.000000 723 87.538000 6396 7031 1 chr7A.!!$F1 635
31 TraesCS5B01G117300 chr3D 464310170 464311417 1247 False 238.025000 584 92.436750 1091 2275 4 chr3D.!!$F4 1184
32 TraesCS5B01G117300 chr5D 282485962 282487654 1692 False 260.550000 459 98.369500 7683 7987 2 chr5D.!!$F2 304

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
486 489 1.595093 CGAATTGGACAAGGGGTGCC 61.595 60.000 0.00 0.0 36.96 5.01 F
1107 1127 2.082231 CTGGTTCTTGAGGTGCATCTG 58.918 52.381 2.86 0.0 0.00 2.90 F
2391 3045 1.269831 GCTCTTCGCAGGGTAGGTATG 60.270 57.143 0.00 0.0 38.92 2.39 F
3117 3989 2.882137 GGCATAAGCACCGCCTTTTATA 59.118 45.455 0.00 0.0 44.61 0.98 F
4905 6901 0.976641 AAGCGGGATGAGAAGTGTCA 59.023 50.000 0.00 0.0 0.00 3.58 F
5401 7405 0.321671 TGACCCGCTTGAAAGAGAGG 59.678 55.000 0.00 0.0 36.48 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1397 1767 0.391793 AAACTAGAAGCTGCGGAGGC 60.392 55.000 5.93 0.00 40.52 4.70 R
2992 3864 1.425066 AGCACCAGGATTTTCCTCACA 59.575 47.619 0.00 0.00 45.66 3.58 R
3333 4208 1.228769 ACACAGGACTCCCGCACTA 60.229 57.895 0.00 0.00 37.58 2.74 R
5087 7083 0.531657 GGGCACTACAATTGCATGCA 59.468 50.000 18.46 18.46 42.12 3.96 R
6848 9813 0.400213 CCGCCATCCCCTTATAGCAA 59.600 55.000 0.00 0.00 0.00 3.91 R
7589 10576 6.169557 TCGTACTAATCATGCTTACCCATT 57.830 37.500 0.00 0.00 0.00 3.16 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
99 101 5.312079 GAGCCAATATGAGCATCTAGGTTT 58.688 41.667 0.00 0.00 34.92 3.27
363 366 2.830923 TCGGGTATTTTTCGGAGTACCA 59.169 45.455 0.00 0.00 38.64 3.25
486 489 1.595093 CGAATTGGACAAGGGGTGCC 61.595 60.000 0.00 0.00 36.96 5.01
556 562 4.263506 CCAACAAGGAAAGGAGGTGAGTAT 60.264 45.833 0.00 0.00 41.22 2.12
622 632 4.246458 CCTCTTGCTCCTTTATATACGGC 58.754 47.826 0.00 0.00 0.00 5.68
624 634 3.570975 TCTTGCTCCTTTATATACGGCGA 59.429 43.478 16.62 0.00 0.00 5.54
1107 1127 2.082231 CTGGTTCTTGAGGTGCATCTG 58.918 52.381 2.86 0.00 0.00 2.90
1603 1973 1.627297 GGAGGAACCCGAGCTGGAAT 61.627 60.000 0.00 0.00 42.00 3.01
1884 2254 4.786994 ACCCCATCATGAGCTCATACATAT 59.213 41.667 28.27 16.03 34.26 1.78
2098 2468 9.962783 ATACTCCTACTACGTGATATTTTGTTC 57.037 33.333 0.00 0.00 0.00 3.18
2220 2590 2.751259 GTGTGATGCAGGATCAATGTGT 59.249 45.455 6.12 0.00 42.96 3.72
2391 3045 1.269831 GCTCTTCGCAGGGTAGGTATG 60.270 57.143 0.00 0.00 38.92 2.39
2866 3738 3.569250 TCCAACCTTTTTCTATTGCGC 57.431 42.857 0.00 0.00 0.00 6.09
2950 3822 4.450053 GCTTCAGATGATAAGCTGGAGTT 58.550 43.478 5.48 0.00 43.77 3.01
2992 3864 4.758674 GCTGTACAGTATGGCAATCATCAT 59.241 41.667 23.44 0.00 43.62 2.45
3117 3989 2.882137 GGCATAAGCACCGCCTTTTATA 59.118 45.455 0.00 0.00 44.61 0.98
3583 4458 5.263968 ACGTGTATAGCTAGATTGCTTGT 57.736 39.130 0.00 0.00 43.74 3.16
3729 4604 3.198409 TGATTATGACATTGCGAGGCT 57.802 42.857 0.00 0.00 0.00 4.58
4075 4998 9.273016 ACACCTTTTATTTCGTATATCAGATGG 57.727 33.333 0.00 0.00 0.00 3.51
4144 5067 6.537301 GGTTTGCTAAAGTTTAAAAAGTGCCT 59.463 34.615 0.00 0.00 0.00 4.75
4755 6751 3.440522 GGGTAGCAATTGAACAGGAAGAC 59.559 47.826 10.34 0.00 0.00 3.01
4905 6901 0.976641 AAGCGGGATGAGAAGTGTCA 59.023 50.000 0.00 0.00 0.00 3.58
5087 7083 4.751767 TTTTGTTGACCTGGAGCAAAAT 57.248 36.364 0.00 0.00 35.13 1.82
5227 7228 0.467290 GCACCAAGGTTTGTCCCAGA 60.467 55.000 0.00 0.00 36.75 3.86
5368 7369 7.875041 ACATTAGCTCCATGTAATCTCATGTAC 59.125 37.037 9.27 0.00 42.29 2.90
5400 7404 2.005451 CATGACCCGCTTGAAAGAGAG 58.995 52.381 0.00 0.00 0.00 3.20
5401 7405 0.321671 TGACCCGCTTGAAAGAGAGG 59.678 55.000 0.00 0.00 36.48 3.69
5402 7406 0.608640 GACCCGCTTGAAAGAGAGGA 59.391 55.000 7.81 0.00 38.73 3.71
5480 7487 1.209019 GAGGGAGAGCAGAAATGAGCA 59.791 52.381 0.00 0.00 0.00 4.26
5747 7754 1.741528 TGTCTTGTCATGATGCGCAT 58.258 45.000 25.66 25.66 37.85 4.73
5907 7920 3.585862 CGTTTTAGTGAGCTAGCAAGGA 58.414 45.455 18.83 0.00 0.00 3.36
5938 7952 9.028284 AGTGGATCTGTCATCATTTTGTTTAAT 57.972 29.630 0.00 0.00 0.00 1.40
6033 8989 9.939802 AAGTACAGTAGTTTCGGATTCTTTTAT 57.060 29.630 0.00 0.00 0.00 1.40
6146 9102 5.690865 ACTTGATGTGTGGTAAGGAAAAGA 58.309 37.500 0.00 0.00 0.00 2.52
6400 9356 5.374921 CTCCATGATTATGCTTCTGGTCTT 58.625 41.667 0.00 0.00 32.79 3.01
6848 9813 0.912486 GGAGTGCTTATGAGGGGTGT 59.088 55.000 0.00 0.00 0.00 4.16
6908 9873 6.027749 GCAATTTGGTGAAATAACTACCTCG 58.972 40.000 0.00 0.00 35.51 4.63
7363 10344 3.195396 GGATAGAGCAAATTGCCCACAAA 59.805 43.478 15.04 0.55 46.52 2.83
7657 10644 3.389329 CCACTGTCATATACAAGGAGCCT 59.611 47.826 0.00 0.00 37.74 4.58
7740 12116 4.895889 CCCCATAGAAAAGAAAGGAATCCC 59.104 45.833 0.00 0.00 0.00 3.85
7836 12212 3.305094 CCGTCATAATTGCGAAACGTACT 59.695 43.478 0.00 0.00 0.00 2.73
7862 12238 2.412325 GGTGATGGTTAGTTTTCGCGTG 60.412 50.000 5.77 0.00 0.00 5.34
7913 12289 2.417239 TCGTGCGGTGGTAATTCATTTC 59.583 45.455 0.00 0.00 0.00 2.17
7939 12315 1.890876 TCTGTGTACATGTGTTGGGC 58.109 50.000 9.11 0.00 0.00 5.36
7944 12320 0.953471 GTACATGTGTTGGGCTGCGA 60.953 55.000 9.11 0.00 0.00 5.10
7955 12331 0.106708 GGGCTGCGATTAGTGATGGA 59.893 55.000 0.00 0.00 0.00 3.41
7958 12334 2.996621 GGCTGCGATTAGTGATGGATAC 59.003 50.000 0.00 0.00 0.00 2.24
8003 12379 8.568794 AGTAGAGAAAAGTGAATTAAACCTTGC 58.431 33.333 0.00 0.00 0.00 4.01
8004 12380 7.588497 AGAGAAAAGTGAATTAAACCTTGCT 57.412 32.000 0.00 0.00 0.00 3.91
8005 12381 8.691661 AGAGAAAAGTGAATTAAACCTTGCTA 57.308 30.769 0.00 0.00 0.00 3.49
8006 12382 8.787852 AGAGAAAAGTGAATTAAACCTTGCTAG 58.212 33.333 0.00 0.00 0.00 3.42
8007 12383 8.691661 AGAAAAGTGAATTAAACCTTGCTAGA 57.308 30.769 0.00 0.00 0.00 2.43
8008 12384 9.131791 AGAAAAGTGAATTAAACCTTGCTAGAA 57.868 29.630 0.00 0.00 0.00 2.10
8009 12385 9.744468 GAAAAGTGAATTAAACCTTGCTAGAAA 57.256 29.630 0.00 0.00 0.00 2.52
8010 12386 9.750125 AAAAGTGAATTAAACCTTGCTAGAAAG 57.250 29.630 3.10 3.10 0.00 2.62
8011 12387 8.691661 AAGTGAATTAAACCTTGCTAGAAAGA 57.308 30.769 12.49 0.00 0.00 2.52
8012 12388 8.329203 AGTGAATTAAACCTTGCTAGAAAGAG 57.671 34.615 12.49 4.84 0.00 2.85
8013 12389 8.157476 AGTGAATTAAACCTTGCTAGAAAGAGA 58.843 33.333 12.49 0.00 0.00 3.10
8014 12390 8.447053 GTGAATTAAACCTTGCTAGAAAGAGAG 58.553 37.037 12.49 0.00 0.00 3.20
8015 12391 8.375506 TGAATTAAACCTTGCTAGAAAGAGAGA 58.624 33.333 12.49 0.00 0.00 3.10
8016 12392 8.554835 AATTAAACCTTGCTAGAAAGAGAGAC 57.445 34.615 12.49 0.00 0.00 3.36
8017 12393 5.816955 AAACCTTGCTAGAAAGAGAGACT 57.183 39.130 12.49 0.00 0.00 3.24
8018 12394 5.816955 AACCTTGCTAGAAAGAGAGACTT 57.183 39.130 12.49 0.00 40.98 3.01
8019 12395 5.146010 ACCTTGCTAGAAAGAGAGACTTG 57.854 43.478 12.49 0.00 38.98 3.16
8020 12396 4.591072 ACCTTGCTAGAAAGAGAGACTTGT 59.409 41.667 12.49 0.00 38.98 3.16
8021 12397 4.928615 CCTTGCTAGAAAGAGAGACTTGTG 59.071 45.833 12.49 0.00 38.98 3.33
8022 12398 5.279206 CCTTGCTAGAAAGAGAGACTTGTGA 60.279 44.000 12.49 0.00 38.98 3.58
8023 12399 5.384063 TGCTAGAAAGAGAGACTTGTGAG 57.616 43.478 0.00 0.00 38.98 3.51
8024 12400 4.830046 TGCTAGAAAGAGAGACTTGTGAGT 59.170 41.667 0.00 0.00 38.98 3.41
8025 12401 5.303078 TGCTAGAAAGAGAGACTTGTGAGTT 59.697 40.000 0.00 0.00 38.98 3.01
8026 12402 5.633182 GCTAGAAAGAGAGACTTGTGAGTTG 59.367 44.000 0.00 0.00 38.98 3.16
8027 12403 5.606348 AGAAAGAGAGACTTGTGAGTTGT 57.394 39.130 0.00 0.00 38.98 3.32
8028 12404 5.355596 AGAAAGAGAGACTTGTGAGTTGTG 58.644 41.667 0.00 0.00 38.98 3.33
8029 12405 5.127845 AGAAAGAGAGACTTGTGAGTTGTGA 59.872 40.000 0.00 0.00 38.98 3.58
8030 12406 4.314740 AGAGAGACTTGTGAGTTGTGAC 57.685 45.455 0.00 0.00 35.88 3.67
8031 12407 3.957497 AGAGAGACTTGTGAGTTGTGACT 59.043 43.478 0.00 0.00 35.88 3.41
8032 12408 4.047822 GAGAGACTTGTGAGTTGTGACTG 58.952 47.826 0.00 0.00 35.88 3.51
8033 12409 3.701542 AGAGACTTGTGAGTTGTGACTGA 59.298 43.478 0.00 0.00 35.88 3.41
8034 12410 4.160439 AGAGACTTGTGAGTTGTGACTGAA 59.840 41.667 0.00 0.00 35.88 3.02
8035 12411 4.832248 AGACTTGTGAGTTGTGACTGAAA 58.168 39.130 0.00 0.00 35.88 2.69
8036 12412 5.245531 AGACTTGTGAGTTGTGACTGAAAA 58.754 37.500 0.00 0.00 35.88 2.29
8037 12413 5.882557 AGACTTGTGAGTTGTGACTGAAAAT 59.117 36.000 0.00 0.00 35.88 1.82
8038 12414 7.047891 AGACTTGTGAGTTGTGACTGAAAATA 58.952 34.615 0.00 0.00 35.88 1.40
8039 12415 7.011482 AGACTTGTGAGTTGTGACTGAAAATAC 59.989 37.037 0.00 0.00 35.88 1.89
8040 12416 6.597672 ACTTGTGAGTTGTGACTGAAAATACA 59.402 34.615 0.00 0.00 35.88 2.29
8041 12417 6.993786 TGTGAGTTGTGACTGAAAATACAA 57.006 33.333 0.00 0.00 35.88 2.41
8042 12418 7.384439 TGTGAGTTGTGACTGAAAATACAAA 57.616 32.000 0.00 0.00 35.88 2.83
8043 12419 7.821652 TGTGAGTTGTGACTGAAAATACAAAA 58.178 30.769 0.00 0.00 35.88 2.44
8044 12420 8.300286 TGTGAGTTGTGACTGAAAATACAAAAA 58.700 29.630 0.00 0.00 35.88 1.94
8045 12421 9.301153 GTGAGTTGTGACTGAAAATACAAAAAT 57.699 29.630 0.00 0.00 35.88 1.82
8046 12422 9.299963 TGAGTTGTGACTGAAAATACAAAAATG 57.700 29.630 0.00 0.00 35.88 2.32
8047 12423 9.515020 GAGTTGTGACTGAAAATACAAAAATGA 57.485 29.630 0.00 0.00 35.88 2.57
8048 12424 9.868277 AGTTGTGACTGAAAATACAAAAATGAA 57.132 25.926 0.00 0.00 35.12 2.57
8049 12425 9.900264 GTTGTGACTGAAAATACAAAAATGAAC 57.100 29.630 0.00 0.00 35.12 3.18
8050 12426 9.645059 TTGTGACTGAAAATACAAAAATGAACA 57.355 25.926 0.00 0.00 30.81 3.18
8051 12427 9.814899 TGTGACTGAAAATACAAAAATGAACAT 57.185 25.926 0.00 0.00 0.00 2.71
8061 12437 6.214205 ACAAAAATGAACATGATTTCACGC 57.786 33.333 0.00 0.00 38.31 5.34
8062 12438 5.107913 ACAAAAATGAACATGATTTCACGCG 60.108 36.000 3.53 3.53 38.31 6.01
8063 12439 2.178474 ATGAACATGATTTCACGCGC 57.822 45.000 5.73 0.00 38.31 6.86
8064 12440 0.871057 TGAACATGATTTCACGCGCA 59.129 45.000 5.73 0.00 30.29 6.09
8065 12441 1.250476 GAACATGATTTCACGCGCAC 58.750 50.000 5.73 0.00 0.00 5.34
8066 12442 0.109781 AACATGATTTCACGCGCACC 60.110 50.000 5.73 0.00 0.00 5.01
8067 12443 1.226379 CATGATTTCACGCGCACCC 60.226 57.895 5.73 0.00 0.00 4.61
8068 12444 1.673993 ATGATTTCACGCGCACCCA 60.674 52.632 5.73 0.00 0.00 4.51
8069 12445 1.922135 ATGATTTCACGCGCACCCAC 61.922 55.000 5.73 0.00 0.00 4.61
8070 12446 3.645157 GATTTCACGCGCACCCACG 62.645 63.158 5.73 0.00 0.00 4.94
8075 12451 4.980805 ACGCGCACCCACGTGAAT 62.981 61.111 19.30 0.54 46.13 2.57
8076 12452 2.811747 CGCGCACCCACGTGAATA 60.812 61.111 19.30 0.00 46.13 1.75
8077 12453 2.798501 CGCGCACCCACGTGAATAG 61.799 63.158 19.30 5.19 46.13 1.73
8078 12454 1.740296 GCGCACCCACGTGAATAGT 60.740 57.895 19.30 5.88 43.14 2.12
8079 12455 0.458889 GCGCACCCACGTGAATAGTA 60.459 55.000 19.30 0.00 43.14 1.82
8080 12456 1.999048 CGCACCCACGTGAATAGTAA 58.001 50.000 19.30 0.00 43.14 2.24
8081 12457 2.546778 CGCACCCACGTGAATAGTAAT 58.453 47.619 19.30 0.00 43.14 1.89
8082 12458 2.933906 CGCACCCACGTGAATAGTAATT 59.066 45.455 19.30 0.00 43.14 1.40
8083 12459 3.372822 CGCACCCACGTGAATAGTAATTT 59.627 43.478 19.30 0.00 43.14 1.82
8084 12460 4.142773 CGCACCCACGTGAATAGTAATTTT 60.143 41.667 19.30 0.00 43.14 1.82
8085 12461 5.092781 GCACCCACGTGAATAGTAATTTTG 58.907 41.667 19.30 0.00 43.14 2.44
8086 12462 5.106475 GCACCCACGTGAATAGTAATTTTGA 60.106 40.000 19.30 0.00 43.14 2.69
8087 12463 6.404293 GCACCCACGTGAATAGTAATTTTGAT 60.404 38.462 19.30 0.00 43.14 2.57
8088 12464 7.201661 GCACCCACGTGAATAGTAATTTTGATA 60.202 37.037 19.30 0.00 43.14 2.15
8089 12465 8.670135 CACCCACGTGAATAGTAATTTTGATAA 58.330 33.333 19.30 0.00 43.14 1.75
8090 12466 9.403583 ACCCACGTGAATAGTAATTTTGATAAT 57.596 29.630 19.30 0.00 0.00 1.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
232 235 0.823769 CGATCTCATCCGGGACTCCA 60.824 60.000 0.00 0.00 0.00 3.86
294 297 8.618677 GTCCGAATATAGTCGTCCAATATATCA 58.381 37.037 19.91 0.00 39.43 2.15
363 366 1.136500 GGCGAATTCCCGTAACTCTCT 59.864 52.381 0.00 0.00 0.00 3.10
486 489 1.541310 GGGAAAAGGAAAAGGGGGCG 61.541 60.000 0.00 0.00 0.00 6.13
597 607 4.322801 CGTATATAAAGGAGCAAGAGGGGG 60.323 50.000 0.00 0.00 0.00 5.40
602 612 3.570975 TCGCCGTATATAAAGGAGCAAGA 59.429 43.478 9.11 0.00 0.00 3.02
978 994 2.481969 GGTGATGCATAGCAACGAGAGA 60.482 50.000 0.00 0.00 43.62 3.10
1107 1127 2.936032 AGGCCCTTGGAGTCCACC 60.936 66.667 12.69 10.07 30.78 4.61
1167 1202 1.032014 CCACCACCAGTTCCTTGTTG 58.968 55.000 0.00 0.00 0.00 3.33
1170 1205 0.823356 CCACCACCACCAGTTCCTTG 60.823 60.000 0.00 0.00 0.00 3.61
1394 1764 2.914777 CTAGAAGCTGCGGAGGCACC 62.915 65.000 5.93 0.00 46.21 5.01
1395 1765 1.520342 CTAGAAGCTGCGGAGGCAC 60.520 63.158 5.93 0.00 46.21 5.01
1397 1767 0.391793 AAACTAGAAGCTGCGGAGGC 60.392 55.000 5.93 0.00 40.52 4.70
1398 1768 1.734465 CAAAACTAGAAGCTGCGGAGG 59.266 52.381 5.93 0.00 0.00 4.30
1399 1769 2.417719 ACAAAACTAGAAGCTGCGGAG 58.582 47.619 0.00 0.00 0.00 4.63
1400 1770 2.543777 ACAAAACTAGAAGCTGCGGA 57.456 45.000 0.00 0.00 0.00 5.54
1401 1771 3.626028 AAACAAAACTAGAAGCTGCGG 57.374 42.857 0.00 0.00 0.00 5.69
1402 1772 3.975035 GGAAAACAAAACTAGAAGCTGCG 59.025 43.478 0.00 0.00 0.00 5.18
1403 1773 5.009110 AGAGGAAAACAAAACTAGAAGCTGC 59.991 40.000 0.00 0.00 0.00 5.25
1412 1782 6.544928 AACCATGAAGAGGAAAACAAAACT 57.455 33.333 0.00 0.00 0.00 2.66
1603 1973 0.761323 TCTGGAACCGGAACACCTCA 60.761 55.000 9.46 0.00 0.00 3.86
1783 2153 5.586243 CAGAAAAGTCACCACAGAAAGAGAA 59.414 40.000 0.00 0.00 0.00 2.87
1787 2157 4.199310 TCCAGAAAAGTCACCACAGAAAG 58.801 43.478 0.00 0.00 0.00 2.62
1789 2159 3.924114 TCCAGAAAAGTCACCACAGAA 57.076 42.857 0.00 0.00 0.00 3.02
1791 2161 3.743521 TGATCCAGAAAAGTCACCACAG 58.256 45.455 0.00 0.00 0.00 3.66
1794 2164 6.373005 TCTTATGATCCAGAAAAGTCACCA 57.627 37.500 0.00 0.00 0.00 4.17
1884 2254 5.941555 ATCCCCCGCAAACAAAATATTTA 57.058 34.783 0.01 0.00 0.00 1.40
1898 2268 6.655930 TGAAAATATTATAGGTATCCCCCGC 58.344 40.000 0.00 0.00 0.00 6.13
2098 2468 5.046529 AGCATGCGAGTAAGAAGAATACAG 58.953 41.667 13.01 0.00 0.00 2.74
2220 2590 1.487976 GCCAAGGGTGATCAGATCAGA 59.512 52.381 13.78 0.00 40.53 3.27
2743 3613 4.722535 AGGCAGCCCCTTCTCCGA 62.723 66.667 8.22 0.00 43.06 4.55
2866 3738 1.732941 TCGTCCCAAATCAATCCACG 58.267 50.000 0.00 0.00 0.00 4.94
2992 3864 1.425066 AGCACCAGGATTTTCCTCACA 59.575 47.619 0.00 0.00 45.66 3.58
3333 4208 1.228769 ACACAGGACTCCCGCACTA 60.229 57.895 0.00 0.00 37.58 2.74
4075 4998 4.689812 AGCGAGAGATGATTGTGCATTATC 59.310 41.667 0.00 0.00 0.00 1.75
4144 5067 6.487668 CCAATGCTGACATGACCTATCAATTA 59.512 38.462 0.00 0.00 38.69 1.40
4158 5081 3.364441 GCACGCCCAATGCTGACA 61.364 61.111 0.00 0.00 40.08 3.58
4661 6657 9.955102 AGATACACTATACGGACATTGTAGATA 57.045 33.333 0.00 0.00 0.00 1.98
4755 6751 8.913656 GTTAGCAATAGATTACCTTACTAAGCG 58.086 37.037 0.00 0.00 0.00 4.68
4905 6901 5.796424 ACCAGCAGAATTGATTCTTTTGT 57.204 34.783 3.54 0.00 44.28 2.83
5087 7083 0.531657 GGGCACTACAATTGCATGCA 59.468 50.000 18.46 18.46 42.12 3.96
5227 7228 8.421002 ACAACTCAAAATATGGTTAAGCAAAGT 58.579 29.630 12.00 0.00 0.00 2.66
5368 7369 0.458669 GGGTCATGGAGCTGCATTTG 59.541 55.000 19.19 10.35 0.00 2.32
5400 7404 2.677848 GGGAGGCAACCCTTCTCC 59.322 66.667 11.66 2.62 45.90 3.71
5518 7525 0.387367 CCCTTGACTGACACGTCGAG 60.387 60.000 0.00 12.11 42.54 4.04
5579 7586 1.559682 ACAACTATTCCATGGCCGACT 59.440 47.619 6.96 0.00 0.00 4.18
5747 7754 4.828072 TTGGTATGCCTATGTGTGTACA 57.172 40.909 0.16 0.00 37.11 2.90
5907 7920 2.379005 TGATGACAGATCCACTACGCT 58.621 47.619 0.00 0.00 0.00 5.07
5938 7952 6.434596 CAACGTTCAACATCTTTCAACCATA 58.565 36.000 0.00 0.00 0.00 2.74
6006 8962 7.653767 AAAGAATCCGAAACTACTGTACTTG 57.346 36.000 0.00 0.00 0.00 3.16
6033 8989 6.150976 CACAGGGTAAAATCATGAAGCACTTA 59.849 38.462 0.00 0.00 0.00 2.24
6146 9102 5.248870 AGCATCAAAAACTTTTCGACTGT 57.751 34.783 0.00 0.00 0.00 3.55
6400 9356 6.621316 TTTGGCGAAACAACAATTCTACTA 57.379 33.333 0.00 0.00 0.00 1.82
6758 9722 0.970640 TTCCTTGACGTCGGAATCCA 59.029 50.000 17.78 0.21 34.52 3.41
6848 9813 0.400213 CCGCCATCCCCTTATAGCAA 59.600 55.000 0.00 0.00 0.00 3.91
7589 10576 6.169557 TCGTACTAATCATGCTTACCCATT 57.830 37.500 0.00 0.00 0.00 3.16
7638 10625 4.679373 ACAGGCTCCTTGTATATGACAG 57.321 45.455 0.00 0.00 39.88 3.51
7657 10644 0.037139 AATACCCGTGCGTTGCTACA 60.037 50.000 0.00 0.00 0.00 2.74
7740 12116 0.175760 TTCGGAAGGAGGATTCAGCG 59.824 55.000 0.00 0.00 0.00 5.18
7836 12212 5.044558 GCGAAAACTAACCATCACCAAAAA 58.955 37.500 0.00 0.00 0.00 1.94
7862 12238 4.218852 CCACTCGATTAGATCTAACCCTCC 59.781 50.000 17.35 4.43 0.00 4.30
7913 12289 2.869801 ACACATGTACACAGAACAACGG 59.130 45.455 0.00 0.00 0.00 4.44
7939 12315 6.596703 CAAATGTATCCATCACTAATCGCAG 58.403 40.000 0.00 0.00 0.00 5.18
7944 12320 7.886629 ACAAGCAAATGTATCCATCACTAAT 57.113 32.000 0.00 0.00 0.00 1.73
7987 12363 8.157476 TCTCTTTCTAGCAAGGTTTAATTCACT 58.843 33.333 2.17 0.00 0.00 3.41
7988 12364 8.324163 TCTCTTTCTAGCAAGGTTTAATTCAC 57.676 34.615 2.17 0.00 0.00 3.18
7989 12365 8.375506 TCTCTCTTTCTAGCAAGGTTTAATTCA 58.624 33.333 2.17 0.00 0.00 2.57
7990 12366 8.661257 GTCTCTCTTTCTAGCAAGGTTTAATTC 58.339 37.037 2.17 0.00 0.00 2.17
7991 12367 8.379331 AGTCTCTCTTTCTAGCAAGGTTTAATT 58.621 33.333 2.17 0.00 0.00 1.40
7992 12368 7.912719 AGTCTCTCTTTCTAGCAAGGTTTAAT 58.087 34.615 2.17 0.00 0.00 1.40
7993 12369 7.304497 AGTCTCTCTTTCTAGCAAGGTTTAA 57.696 36.000 2.17 0.00 0.00 1.52
7994 12370 6.919775 AGTCTCTCTTTCTAGCAAGGTTTA 57.080 37.500 2.17 0.00 0.00 2.01
7995 12371 5.816955 AGTCTCTCTTTCTAGCAAGGTTT 57.183 39.130 2.17 0.00 0.00 3.27
7996 12372 5.071115 ACAAGTCTCTCTTTCTAGCAAGGTT 59.929 40.000 2.17 0.00 33.63 3.50
7997 12373 4.591072 ACAAGTCTCTCTTTCTAGCAAGGT 59.409 41.667 2.17 0.00 33.63 3.50
7998 12374 4.928615 CACAAGTCTCTCTTTCTAGCAAGG 59.071 45.833 2.17 0.00 33.63 3.61
7999 12375 5.777802 TCACAAGTCTCTCTTTCTAGCAAG 58.222 41.667 0.00 0.00 33.63 4.01
8000 12376 5.303078 ACTCACAAGTCTCTCTTTCTAGCAA 59.697 40.000 0.00 0.00 33.63 3.91
8001 12377 4.830046 ACTCACAAGTCTCTCTTTCTAGCA 59.170 41.667 0.00 0.00 33.63 3.49
8002 12378 5.385509 ACTCACAAGTCTCTCTTTCTAGC 57.614 43.478 0.00 0.00 33.63 3.42
8003 12379 6.640499 CACAACTCACAAGTCTCTCTTTCTAG 59.360 42.308 0.00 0.00 33.48 2.43
8004 12380 6.321435 TCACAACTCACAAGTCTCTCTTTCTA 59.679 38.462 0.00 0.00 33.48 2.10
8005 12381 5.127845 TCACAACTCACAAGTCTCTCTTTCT 59.872 40.000 0.00 0.00 33.48 2.52
8006 12382 5.233263 GTCACAACTCACAAGTCTCTCTTTC 59.767 44.000 0.00 0.00 33.48 2.62
8007 12383 5.105146 AGTCACAACTCACAAGTCTCTCTTT 60.105 40.000 0.00 0.00 33.48 2.52
8008 12384 4.404073 AGTCACAACTCACAAGTCTCTCTT 59.596 41.667 0.00 0.00 33.48 2.85
8009 12385 3.957497 AGTCACAACTCACAAGTCTCTCT 59.043 43.478 0.00 0.00 33.48 3.10
8010 12386 4.047822 CAGTCACAACTCACAAGTCTCTC 58.952 47.826 0.00 0.00 33.48 3.20
8011 12387 3.701542 TCAGTCACAACTCACAAGTCTCT 59.298 43.478 0.00 0.00 33.48 3.10
8012 12388 4.046938 TCAGTCACAACTCACAAGTCTC 57.953 45.455 0.00 0.00 33.48 3.36
8013 12389 4.471904 TTCAGTCACAACTCACAAGTCT 57.528 40.909 0.00 0.00 33.48 3.24
8014 12390 5.545658 TTTTCAGTCACAACTCACAAGTC 57.454 39.130 0.00 0.00 33.48 3.01
8015 12391 6.597672 TGTATTTTCAGTCACAACTCACAAGT 59.402 34.615 0.00 0.00 37.32 3.16
8016 12392 7.015226 TGTATTTTCAGTCACAACTCACAAG 57.985 36.000 0.00 0.00 31.71 3.16
8017 12393 6.993786 TGTATTTTCAGTCACAACTCACAA 57.006 33.333 0.00 0.00 31.71 3.33
8018 12394 6.993786 TTGTATTTTCAGTCACAACTCACA 57.006 33.333 0.00 0.00 31.71 3.58
8019 12395 8.682128 TTTTTGTATTTTCAGTCACAACTCAC 57.318 30.769 0.00 0.00 31.71 3.51
8020 12396 9.299963 CATTTTTGTATTTTCAGTCACAACTCA 57.700 29.630 0.00 0.00 31.71 3.41
8021 12397 9.515020 TCATTTTTGTATTTTCAGTCACAACTC 57.485 29.630 0.00 0.00 31.71 3.01
8022 12398 9.868277 TTCATTTTTGTATTTTCAGTCACAACT 57.132 25.926 0.00 0.00 35.60 3.16
8023 12399 9.900264 GTTCATTTTTGTATTTTCAGTCACAAC 57.100 29.630 0.00 0.00 31.00 3.32
8024 12400 9.645059 TGTTCATTTTTGTATTTTCAGTCACAA 57.355 25.926 0.00 0.00 0.00 3.33
8025 12401 9.814899 ATGTTCATTTTTGTATTTTCAGTCACA 57.185 25.926 0.00 0.00 0.00 3.58
8035 12411 8.434661 GCGTGAAATCATGTTCATTTTTGTATT 58.565 29.630 2.44 0.00 39.61 1.89
8036 12412 7.201342 CGCGTGAAATCATGTTCATTTTTGTAT 60.201 33.333 0.00 0.00 39.61 2.29
8037 12413 6.087423 CGCGTGAAATCATGTTCATTTTTGTA 59.913 34.615 0.00 0.00 39.61 2.41
8038 12414 5.107913 CGCGTGAAATCATGTTCATTTTTGT 60.108 36.000 0.00 0.00 39.61 2.83
8039 12415 5.299622 CGCGTGAAATCATGTTCATTTTTG 58.700 37.500 0.00 0.00 39.61 2.44
8040 12416 4.143347 GCGCGTGAAATCATGTTCATTTTT 60.143 37.500 8.43 0.00 39.61 1.94
8041 12417 3.364621 GCGCGTGAAATCATGTTCATTTT 59.635 39.130 8.43 0.00 39.61 1.82
8042 12418 2.916716 GCGCGTGAAATCATGTTCATTT 59.083 40.909 8.43 0.00 39.61 2.32
8043 12419 2.095314 TGCGCGTGAAATCATGTTCATT 60.095 40.909 8.43 0.00 39.61 2.57
8044 12420 1.468127 TGCGCGTGAAATCATGTTCAT 59.532 42.857 8.43 0.00 39.61 2.57
8045 12421 0.871057 TGCGCGTGAAATCATGTTCA 59.129 45.000 8.43 0.00 35.14 3.18
8046 12422 1.250476 GTGCGCGTGAAATCATGTTC 58.750 50.000 8.43 0.00 35.38 3.18
8047 12423 0.109781 GGTGCGCGTGAAATCATGTT 60.110 50.000 8.43 0.00 35.38 2.71
8048 12424 1.501741 GGTGCGCGTGAAATCATGT 59.498 52.632 8.43 0.00 35.38 3.21
8049 12425 1.226379 GGGTGCGCGTGAAATCATG 60.226 57.895 8.43 0.00 36.01 3.07
8050 12426 1.673993 TGGGTGCGCGTGAAATCAT 60.674 52.632 8.43 0.00 0.00 2.45
8051 12427 2.281139 TGGGTGCGCGTGAAATCA 60.281 55.556 8.43 0.00 0.00 2.57
8052 12428 2.175811 GTGGGTGCGCGTGAAATC 59.824 61.111 8.43 0.00 0.00 2.17
8053 12429 3.722295 CGTGGGTGCGCGTGAAAT 61.722 61.111 8.43 0.00 0.00 2.17
8058 12434 3.576932 TATTCACGTGGGTGCGCGT 62.577 57.895 17.00 0.00 44.03 6.01
8059 12435 2.798501 CTATTCACGTGGGTGCGCG 61.799 63.158 17.00 0.00 44.03 6.86
8060 12436 0.458889 TACTATTCACGTGGGTGCGC 60.459 55.000 17.00 0.00 44.03 6.09
8061 12437 1.999048 TTACTATTCACGTGGGTGCG 58.001 50.000 17.00 3.60 44.03 5.34
8062 12438 4.957759 AAATTACTATTCACGTGGGTGC 57.042 40.909 17.00 0.00 44.03 5.01
8063 12439 6.489127 TCAAAATTACTATTCACGTGGGTG 57.511 37.500 17.00 6.47 45.78 4.61
8064 12440 8.795842 TTATCAAAATTACTATTCACGTGGGT 57.204 30.769 17.00 11.87 0.00 4.51


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

AutoCloner maintained by Alex Coulton.