Multiple sequence alignment - TraesCS3D01G037100

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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 TraesCS3D01G037100 chr3D 100.000 8199 0 0 1 8199 13315413 13307215 0.000000e+00 15141.0
1 TraesCS3D01G037100 chr3D 90.826 327 24 3 1 322 13316207 13315882 4.550000e-117 433.0
2 TraesCS3D01G037100 chr3D 86.477 281 30 8 5250 5525 13310113 13309836 1.340000e-77 302.0
3 TraesCS3D01G037100 chr3D 86.477 281 30 8 5301 5578 13310164 13309889 1.340000e-77 302.0
4 TraesCS3D01G037100 chr3D 91.534 189 11 4 2324 2508 13312995 13312808 1.060000e-63 255.0
5 TraesCS3D01G037100 chr3D 91.534 189 11 4 2419 2606 13313090 13312906 1.060000e-63 255.0
6 TraesCS3D01G037100 chr3D 96.117 103 3 1 333 435 13315757 13315656 5.090000e-37 167.0
7 TraesCS3D01G037100 chr3A 90.928 1929 119 40 5353 7242 23827325 23829236 0.000000e+00 2542.0
8 TraesCS3D01G037100 chr3A 88.378 1523 86 35 731 2204 23822775 23824255 0.000000e+00 1748.0
9 TraesCS3D01G037100 chr3A 87.471 870 58 22 886 1736 691207845 691208682 0.000000e+00 955.0
10 TraesCS3D01G037100 chr3A 88.187 728 70 13 4804 5520 23826878 23827600 0.000000e+00 854.0
11 TraesCS3D01G037100 chr3A 81.971 893 123 21 3023 3894 23825365 23826240 0.000000e+00 723.0
12 TraesCS3D01G037100 chr3A 86.009 436 35 14 3937 4346 23826423 23826858 2.100000e-120 444.0
13 TraesCS3D01G037100 chr3A 85.755 351 41 5 1 346 23821978 23822324 6.050000e-96 363.0
14 TraesCS3D01G037100 chr3A 82.124 386 35 18 331 713 23822436 23822790 4.810000e-77 300.0
15 TraesCS3D01G037100 chr3A 82.368 380 24 13 7786 8158 23830055 23830398 2.890000e-74 291.0
16 TraesCS3D01G037100 chr3A 72.654 991 158 55 2508 3456 23824197 23825116 2.980000e-54 224.0
17 TraesCS3D01G037100 chr3A 88.344 163 15 4 2249 2408 23824130 23824291 8.400000e-45 193.0
18 TraesCS3D01G037100 chr3A 81.481 243 28 13 7559 7796 23829543 23829773 5.050000e-42 183.0
19 TraesCS3D01G037100 chr3A 91.262 103 4 3 7270 7372 23829229 23829326 1.440000e-27 135.0
20 TraesCS3D01G037100 chr3A 91.304 69 3 1 7896 7964 357504550 357504485 3.150000e-14 91.6
21 TraesCS3D01G037100 chr3A 74.030 335 34 28 7634 7964 118413214 118413499 4.080000e-13 87.9
22 TraesCS3D01G037100 chr3A 97.500 40 1 0 7634 7673 328661172 328661133 1.480000e-07 69.4
23 TraesCS3D01G037100 chr3A 90.000 50 5 0 7563 7612 357504812 357504763 1.910000e-06 65.8
24 TraesCS3D01G037100 chr3B 91.690 1805 71 26 644 2408 19270550 19268785 0.000000e+00 2429.0
25 TraesCS3D01G037100 chr3B 87.806 2001 174 32 2507 4455 19268489 19266507 0.000000e+00 2279.0
26 TraesCS3D01G037100 chr3B 87.896 1198 103 31 5353 6518 19265618 19264431 0.000000e+00 1371.0
27 TraesCS3D01G037100 chr3B 86.667 1110 95 29 4471 5535 19266428 19265327 0.000000e+00 1181.0
28 TraesCS3D01G037100 chr3B 92.769 733 24 10 6659 7372 19264140 19263418 0.000000e+00 1033.0
29 TraesCS3D01G037100 chr3B 91.824 477 33 5 5848 6319 759965510 759965035 0.000000e+00 660.0
30 TraesCS3D01G037100 chr3B 88.439 346 32 6 1 346 19271624 19271287 2.130000e-110 411.0
31 TraesCS3D01G037100 chr3B 91.809 293 22 2 6659 6950 137278590 137278881 2.750000e-109 407.0
32 TraesCS3D01G037100 chr3B 85.345 348 39 6 1 346 19272416 19272079 4.710000e-92 350.0
33 TraesCS3D01G037100 chr3B 87.189 281 17 6 7544 7822 19263159 19262896 1.340000e-77 302.0
34 TraesCS3D01G037100 chr3B 89.109 101 8 1 7683 7783 385854118 385854215 1.120000e-23 122.0
35 TraesCS3D01G037100 chr3B 85.586 111 7 3 333 435 19271976 19271867 3.130000e-19 108.0
36 TraesCS3D01G037100 chr1D 91.109 866 38 19 3248 4111 453048005 453048833 0.000000e+00 1136.0
37 TraesCS3D01G037100 chr1D 94.737 247 9 3 4138 4384 453048817 453049059 1.670000e-101 381.0
38 TraesCS3D01G037100 chr4B 91.824 477 33 5 5848 6319 1728893 1728418 0.000000e+00 660.0
39 TraesCS3D01G037100 chr4B 91.275 298 23 3 6659 6955 609789286 609788991 3.560000e-108 403.0
40 TraesCS3D01G037100 chr4B 87.705 122 14 1 6485 6606 609789421 609789301 3.090000e-29 141.0
41 TraesCS3D01G037100 chr4B 87.013 77 7 2 7685 7761 230638780 230638707 5.270000e-12 84.2
42 TraesCS3D01G037100 chr4B 100.000 33 0 0 7634 7666 587712211 587712243 2.470000e-05 62.1
43 TraesCS3D01G037100 chr5B 91.614 477 34 5 5848 6319 609163454 609162979 0.000000e+00 654.0
44 TraesCS3D01G037100 chr5B 88.028 142 15 2 6466 6606 591954633 591954493 5.090000e-37 167.0
45 TraesCS3D01G037100 chr7B 91.250 480 36 5 5845 6319 738629615 738630093 0.000000e+00 649.0
46 TraesCS3D01G037100 chr7B 91.042 480 37 5 5845 6319 738760155 738760633 1.930000e-180 643.0
47 TraesCS3D01G037100 chr7B 90.753 292 26 1 6664 6955 636064485 636064195 9.980000e-104 388.0
48 TraesCS3D01G037100 chr7B 87.129 101 10 2 7683 7783 576358554 576358651 2.420000e-20 111.0
49 TraesCS3D01G037100 chr7B 87.500 64 8 0 8095 8158 575752222 575752159 3.170000e-09 75.0
50 TraesCS3D01G037100 chr1B 87.209 602 38 16 1144 1736 661298496 661297925 0.000000e+00 649.0
51 TraesCS3D01G037100 chr1B 90.604 298 26 2 6659 6955 599470399 599470695 2.140000e-105 394.0
52 TraesCS3D01G037100 chr1B 89.109 101 8 1 7683 7783 303874431 303874334 1.120000e-23 122.0
53 TraesCS3D01G037100 chr1B 91.071 56 5 0 7555 7610 80098539 80098484 8.820000e-10 76.8
54 TraesCS3D01G037100 chr2B 90.985 477 37 5 5848 6319 785631556 785631081 8.970000e-179 638.0
55 TraesCS3D01G037100 chr2B 87.324 142 16 2 6466 6606 558684358 558684498 2.370000e-35 161.0
56 TraesCS3D01G037100 chr6B 90.417 480 40 5 5845 6319 107630394 107630872 1.940000e-175 627.0
57 TraesCS3D01G037100 chr6B 85.211 142 19 2 6466 6606 104306328 104306468 2.380000e-30 145.0
58 TraesCS3D01G037100 chr2D 92.617 298 20 2 6659 6955 99507274 99506978 2.110000e-115 427.0
59 TraesCS3D01G037100 chr2D 87.342 158 16 3 6466 6622 99507427 99507273 2.350000e-40 178.0
60 TraesCS3D01G037100 chr2D 95.349 43 2 0 7570 7612 220707872 220707830 1.480000e-07 69.4
61 TraesCS3D01G037100 chr6D 92.282 298 21 2 6659 6955 36710250 36709954 9.840000e-114 422.0
62 TraesCS3D01G037100 chr6D 89.051 137 14 1 6486 6622 36710384 36710249 1.420000e-37 169.0
63 TraesCS3D01G037100 chr6D 88.596 114 10 1 7683 7796 201578617 201578507 1.440000e-27 135.0
64 TraesCS3D01G037100 chr6A 89.933 298 28 2 6659 6955 542012791 542013087 4.640000e-102 383.0
65 TraesCS3D01G037100 chr6A 88.028 142 15 2 6466 6606 542012636 542012776 5.090000e-37 167.0
66 TraesCS3D01G037100 chr6A 88.679 53 6 0 7560 7612 341650179 341650231 1.910000e-06 65.8
67 TraesCS3D01G037100 chr2A 87.826 115 10 2 7683 7797 377020453 377020343 1.860000e-26 132.0
68 TraesCS3D01G037100 chr2A 88.235 68 8 0 7730 7797 379386163 379386096 1.900000e-11 82.4
69 TraesCS3D01G037100 chr2A 92.000 50 4 0 7563 7612 283479231 283479182 4.110000e-08 71.3
70 TraesCS3D01G037100 chr2A 90.000 50 5 0 7563 7612 211194033 211193984 1.910000e-06 65.8
71 TraesCS3D01G037100 chr7A 91.304 69 3 1 7896 7964 145758870 145758935 3.150000e-14 91.6
72 TraesCS3D01G037100 chr7A 88.679 53 6 0 7560 7612 145758602 145758654 1.910000e-06 65.8
73 TraesCS3D01G037100 chr5A 78.659 164 11 6 7634 7797 460849673 460849534 4.080000e-13 87.9
74 TraesCS3D01G037100 chr5A 90.566 53 5 0 7560 7612 202427517 202427569 4.110000e-08 71.3
75 TraesCS3D01G037100 chr5A 90.000 50 5 0 7563 7612 460849718 460849669 1.910000e-06 65.8
76 TraesCS3D01G037100 chr1A 92.188 64 2 2 7901 7964 422685286 422685346 4.080000e-13 87.9
77 TraesCS3D01G037100 chr4A 97.500 40 1 0 7634 7673 472339111 472339072 1.480000e-07 69.4


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 TraesCS3D01G037100 chr3D 13307215 13315413 8198 True 15141.000000 15141 100.000000 1 8199 1 chr3D.!!$R1 8198
1 TraesCS3D01G037100 chr3D 13309836 13316207 6371 True 285.666667 433 90.494167 1 5578 6 chr3D.!!$R2 5577
2 TraesCS3D01G037100 chr3A 691207845 691208682 837 False 955.000000 955 87.471000 886 1736 1 chr3A.!!$F2 850
3 TraesCS3D01G037100 chr3A 23821978 23830398 8420 False 666.666667 2542 84.955083 1 8158 12 chr3A.!!$F3 8157
4 TraesCS3D01G037100 chr3B 19262896 19272416 9520 True 1051.555556 2429 88.154111 1 7822 9 chr3B.!!$R2 7821
5 TraesCS3D01G037100 chr1D 453048005 453049059 1054 False 758.500000 1136 92.923000 3248 4384 2 chr1D.!!$F1 1136
6 TraesCS3D01G037100 chr1B 661297925 661298496 571 True 649.000000 649 87.209000 1144 1736 1 chr1B.!!$R3 592

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
5585 7910 9.109393 ACTGTGAATATGTGTACAATTCATACC 57.891 33.333 19.35 10.79 40.61 2.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
7253 9826 0.112995 ACCAACATGGCATGACAGGT 59.887 50.0 32.74 28.59 42.67 4.0 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
5585 7910 9.109393 ACTGTGAATATGTGTACAATTCATACC 57.891 33.333 19.35 10.79 40.61 2.73
5586 7911 9.330063 CTGTGAATATGTGTACAATTCATACCT 57.670 33.333 19.35 6.47 40.61 3.08
5587 7912 9.679661 TGTGAATATGTGTACAATTCATACCTT 57.320 29.630 19.35 7.33 40.61 3.50
5594 7919 9.959721 ATGTGTACAATTCATACCTTAGTTCTT 57.040 29.630 0.00 0.00 0.00 2.52
5642 7967 9.890629 TTAACACTTTGTGATTATATCTGAGCT 57.109 29.630 4.61 0.00 36.96 4.09
5643 7968 8.430801 AACACTTTGTGATTATATCTGAGCTC 57.569 34.615 6.82 6.82 36.96 4.09
5644 7969 7.790027 ACACTTTGTGATTATATCTGAGCTCT 58.210 34.615 16.19 0.00 36.96 4.09
5645 7970 8.263640 ACACTTTGTGATTATATCTGAGCTCTT 58.736 33.333 16.19 2.44 36.96 2.85
5646 7971 9.107177 CACTTTGTGATTATATCTGAGCTCTTT 57.893 33.333 16.19 2.07 35.23 2.52
5662 7987 7.671302 TGAGCTCTTTATTACTTCAGAAGTGT 58.329 34.615 23.92 15.10 42.84 3.55
5676 8001 9.956720 ACTTCAGAAGTGTTTAATGAGATTTTG 57.043 29.630 15.41 0.00 41.01 2.44
5684 8009 6.917477 GTGTTTAATGAGATTTTGTGTGCAGA 59.083 34.615 0.00 0.00 0.00 4.26
5688 8013 9.545105 TTTAATGAGATTTTGTGTGCAGATTTT 57.455 25.926 0.00 0.00 0.00 1.82
5691 8016 6.571605 TGAGATTTTGTGTGCAGATTTTTGA 58.428 32.000 0.00 0.00 0.00 2.69
5699 8024 2.492088 GTGCAGATTTTTGACTACCCCC 59.508 50.000 0.00 0.00 0.00 5.40
5705 8030 2.990740 TTTTGACTACCCCCAATGCT 57.009 45.000 0.00 0.00 0.00 3.79
5735 8060 1.070758 CGGGCTATGCTACTGAATGGT 59.929 52.381 0.00 0.00 0.00 3.55
5738 8063 2.564771 GCTATGCTACTGAATGGTGCA 58.435 47.619 0.00 0.00 38.05 4.57
5744 8069 2.939103 GCTACTGAATGGTGCAGTTAGG 59.061 50.000 0.00 0.00 43.67 2.69
5843 8168 6.040504 GTGTCAAGGTTTGTTAAATTCTCCCT 59.959 38.462 0.00 0.00 0.00 4.20
5851 8176 6.911250 TTGTTAAATTCTCCCTTCCTTTCC 57.089 37.500 0.00 0.00 0.00 3.13
5856 8181 0.473117 TCTCCCTTCCTTTCCGTGGT 60.473 55.000 0.00 0.00 0.00 4.16
5995 8320 0.520404 AAGCTGTGAAGCAAGCATCG 59.480 50.000 0.00 0.00 37.25 3.84
6025 8350 3.010413 GCCATTGGCTGTGAAGGCC 62.010 63.158 20.66 0.00 46.69 5.19
6083 8408 8.165239 TGCAATACAGAGTCAGTTAATTTTGT 57.835 30.769 0.00 0.00 0.00 2.83
6108 8435 9.946165 GTTTTACAAATTCAGTTAGCTTACTGT 57.054 29.630 27.06 13.74 44.62 3.55
6119 8446 9.938280 TCAGTTAGCTTACTGTTGTATTATGTT 57.062 29.630 27.06 0.00 44.62 2.71
6210 8537 0.250295 TACAAGCTGTGGGTGAGTGC 60.250 55.000 0.00 0.00 0.00 4.40
6256 8586 5.971763 ACAGCTCTGTCCTATACAAGAAAG 58.028 41.667 0.00 0.00 40.24 2.62
6280 8610 7.168219 AGTGGCTCAGACTGATGTTTAATTTA 58.832 34.615 5.42 0.00 0.00 1.40
6361 8691 0.315251 TCACTGCTGACTGGAAGACG 59.685 55.000 0.00 0.00 37.43 4.18
6443 8773 2.092838 GTGAGCTTATGTGCACGACTTC 59.907 50.000 13.13 5.72 34.99 3.01
6535 9059 8.950208 AATGCTCTATAGAAAGTAGGTTCAAC 57.050 34.615 3.57 0.00 0.00 3.18
6555 9079 2.622942 ACCTGTTGTGATGCGAAAATGT 59.377 40.909 0.00 0.00 0.00 2.71
6579 9103 5.942826 TGACATATGTGGCATTGACACTTTA 59.057 36.000 22.68 14.54 42.96 1.85
6616 9140 9.624697 TGCAAAGCTAATTTACTTGTTTATCAG 57.375 29.630 0.00 0.00 0.00 2.90
6638 9162 4.526262 AGAGATACTCCTGTATGTGGCATC 59.474 45.833 0.00 0.00 39.29 3.91
6655 9179 3.058224 GGCATCGACACTTTTTAAGCTGT 60.058 43.478 0.00 0.00 0.00 4.40
6673 9197 9.778993 TTAAGCTGTAGTAGTATTTACTGAACG 57.221 33.333 0.45 0.00 37.10 3.95
6718 9242 4.945543 TCTGCATGTTCTAATCTTGTGCAT 59.054 37.500 0.00 0.00 39.94 3.96
6724 9249 7.682741 GCATGTTCTAATCTTGTGCATATTGGT 60.683 37.037 0.00 0.00 0.00 3.67
7032 9557 1.217689 CTGAGAGTGGAGAGGGGAGAT 59.782 57.143 0.00 0.00 0.00 2.75
7217 9759 2.348472 TGAGGATGAGAAGGTTTGGGT 58.652 47.619 0.00 0.00 0.00 4.51
7241 9814 3.311110 GCCCGACCTGTGGACTGA 61.311 66.667 0.00 0.00 0.00 3.41
7242 9815 2.660064 GCCCGACCTGTGGACTGAT 61.660 63.158 0.00 0.00 0.00 2.90
7243 9816 1.983224 CCCGACCTGTGGACTGATT 59.017 57.895 0.00 0.00 0.00 2.57
7244 9817 1.191535 CCCGACCTGTGGACTGATTA 58.808 55.000 0.00 0.00 0.00 1.75
7245 9818 1.137086 CCCGACCTGTGGACTGATTAG 59.863 57.143 0.00 0.00 0.00 1.73
7246 9819 2.100197 CCGACCTGTGGACTGATTAGA 58.900 52.381 0.00 0.00 0.00 2.10
7247 9820 2.496070 CCGACCTGTGGACTGATTAGAA 59.504 50.000 0.00 0.00 0.00 2.10
7248 9821 3.056107 CCGACCTGTGGACTGATTAGAAA 60.056 47.826 0.00 0.00 0.00 2.52
7249 9822 4.383118 CCGACCTGTGGACTGATTAGAAAT 60.383 45.833 0.00 0.00 0.00 2.17
7250 9823 4.806247 CGACCTGTGGACTGATTAGAAATC 59.194 45.833 0.00 0.00 0.00 2.17
7251 9824 5.104259 ACCTGTGGACTGATTAGAAATCC 57.896 43.478 0.00 0.00 0.00 3.01
7252 9825 4.785376 ACCTGTGGACTGATTAGAAATCCT 59.215 41.667 0.00 0.00 0.00 3.24
7253 9826 5.964477 ACCTGTGGACTGATTAGAAATCCTA 59.036 40.000 0.00 0.00 0.00 2.94
7254 9827 6.127026 ACCTGTGGACTGATTAGAAATCCTAC 60.127 42.308 0.00 0.00 0.00 3.18
7255 9828 6.235231 TGTGGACTGATTAGAAATCCTACC 57.765 41.667 0.00 0.00 0.00 3.18
7256 9829 5.964477 TGTGGACTGATTAGAAATCCTACCT 59.036 40.000 0.00 0.00 0.00 3.08
7257 9830 6.127054 TGTGGACTGATTAGAAATCCTACCTG 60.127 42.308 0.00 0.00 0.00 4.00
7258 9831 5.964477 TGGACTGATTAGAAATCCTACCTGT 59.036 40.000 0.00 0.00 0.00 4.00
7259 9832 6.098409 TGGACTGATTAGAAATCCTACCTGTC 59.902 42.308 0.00 0.00 0.00 3.51
7260 9833 6.098409 GGACTGATTAGAAATCCTACCTGTCA 59.902 42.308 0.00 0.00 0.00 3.58
7261 9834 7.202047 GGACTGATTAGAAATCCTACCTGTCAT 60.202 40.741 0.00 0.00 0.00 3.06
7262 9835 7.504403 ACTGATTAGAAATCCTACCTGTCATG 58.496 38.462 0.00 0.00 0.00 3.07
7263 9836 6.291377 TGATTAGAAATCCTACCTGTCATGC 58.709 40.000 0.00 0.00 0.00 4.06
7264 9837 3.567478 AGAAATCCTACCTGTCATGCC 57.433 47.619 0.00 0.00 0.00 4.40
7265 9838 2.846206 AGAAATCCTACCTGTCATGCCA 59.154 45.455 0.00 0.00 0.00 4.92
7266 9839 3.461085 AGAAATCCTACCTGTCATGCCAT 59.539 43.478 0.00 0.00 0.00 4.40
7267 9840 2.945080 ATCCTACCTGTCATGCCATG 57.055 50.000 0.00 0.00 0.00 3.66
7268 9841 1.583556 TCCTACCTGTCATGCCATGT 58.416 50.000 4.31 0.00 0.00 3.21
7269 9842 1.915489 TCCTACCTGTCATGCCATGTT 59.085 47.619 4.31 0.00 0.00 2.71
7270 9843 2.019249 CCTACCTGTCATGCCATGTTG 58.981 52.381 4.31 0.00 0.00 3.33
7271 9844 2.019249 CTACCTGTCATGCCATGTTGG 58.981 52.381 4.31 7.98 41.55 3.77
7272 9845 0.112995 ACCTGTCATGCCATGTTGGT 59.887 50.000 4.31 8.57 40.46 3.67
7273 9846 0.813184 CCTGTCATGCCATGTTGGTC 59.187 55.000 4.31 0.00 40.46 4.02
7274 9847 1.615116 CCTGTCATGCCATGTTGGTCT 60.615 52.381 4.31 0.00 40.46 3.85
7275 9848 1.471287 CTGTCATGCCATGTTGGTCTG 59.529 52.381 4.31 0.00 40.46 3.51
7329 9903 8.784043 GTTGTTGAAACTTATTACCATGTCTCT 58.216 33.333 0.00 0.00 0.00 3.10
7330 9904 8.322906 TGTTGAAACTTATTACCATGTCTCTG 57.677 34.615 0.00 0.00 0.00 3.35
7331 9905 7.936847 TGTTGAAACTTATTACCATGTCTCTGT 59.063 33.333 0.00 0.00 0.00 3.41
7365 9939 7.032580 TGTGTTTTATCCACTTTCACTTTGTG 58.967 34.615 0.00 0.00 33.92 3.33
7366 9940 7.094162 TGTGTTTTATCCACTTTCACTTTGTGA 60.094 33.333 0.00 0.00 35.95 3.58
7367 9941 7.920682 GTGTTTTATCCACTTTCACTTTGTGAT 59.079 33.333 1.05 0.00 42.40 3.06
7368 9942 7.920151 TGTTTTATCCACTTTCACTTTGTGATG 59.080 33.333 1.05 1.44 42.40 3.07
7369 9943 3.988379 TCCACTTTCACTTTGTGATGC 57.012 42.857 1.05 0.00 42.40 3.91
7370 9944 3.554934 TCCACTTTCACTTTGTGATGCT 58.445 40.909 1.05 0.00 42.40 3.79
7371 9945 3.316029 TCCACTTTCACTTTGTGATGCTG 59.684 43.478 1.05 0.00 42.40 4.41
7372 9946 3.047796 CACTTTCACTTTGTGATGCTGC 58.952 45.455 1.05 0.00 42.40 5.25
7373 9947 2.689471 ACTTTCACTTTGTGATGCTGCA 59.311 40.909 4.13 4.13 42.40 4.41
7376 10023 1.068125 TCACTTTGTGATGCTGCATGC 60.068 47.619 21.53 11.82 37.67 4.06
7389 10036 2.159544 GCTGCATGCTGTTCTTCTCTTC 60.160 50.000 23.42 1.72 38.95 2.87
7420 10109 2.292103 TTTTTGCAGGCAGTGTGTTC 57.708 45.000 0.00 0.00 0.00 3.18
7427 10116 0.753262 AGGCAGTGTGTTCGTCTCTT 59.247 50.000 0.00 0.00 0.00 2.85
7428 10117 1.140816 GGCAGTGTGTTCGTCTCTTC 58.859 55.000 0.00 0.00 0.00 2.87
7429 10118 1.269831 GGCAGTGTGTTCGTCTCTTCT 60.270 52.381 0.00 0.00 0.00 2.85
7430 10119 2.055100 GCAGTGTGTTCGTCTCTTCTC 58.945 52.381 0.00 0.00 0.00 2.87
7431 10120 2.287909 GCAGTGTGTTCGTCTCTTCTCT 60.288 50.000 0.00 0.00 0.00 3.10
7432 10121 3.560503 CAGTGTGTTCGTCTCTTCTCTC 58.439 50.000 0.00 0.00 0.00 3.20
7433 10122 3.252215 CAGTGTGTTCGTCTCTTCTCTCT 59.748 47.826 0.00 0.00 0.00 3.10
7434 10123 3.886505 AGTGTGTTCGTCTCTTCTCTCTT 59.113 43.478 0.00 0.00 0.00 2.85
7435 10124 3.978217 GTGTGTTCGTCTCTTCTCTCTTG 59.022 47.826 0.00 0.00 0.00 3.02
7436 10125 2.983803 GTGTTCGTCTCTTCTCTCTTGC 59.016 50.000 0.00 0.00 0.00 4.01
7437 10126 2.029828 TGTTCGTCTCTTCTCTCTTGCC 60.030 50.000 0.00 0.00 0.00 4.52
7438 10127 2.208132 TCGTCTCTTCTCTCTTGCCT 57.792 50.000 0.00 0.00 0.00 4.75
7470 10162 2.224305 ACTAACTGTGGGTTGCAGAGTC 60.224 50.000 0.00 0.00 38.75 3.36
7484 10176 0.680280 AGAGTCGTGCGGGTATCTGT 60.680 55.000 0.00 0.00 0.00 3.41
7487 10179 1.082117 GTCGTGCGGGTATCTGTTGG 61.082 60.000 0.00 0.00 0.00 3.77
7488 10180 1.216977 CGTGCGGGTATCTGTTGGA 59.783 57.895 0.00 0.00 0.00 3.53
7499 10191 0.532573 TCTGTTGGAGATGACGGCTC 59.467 55.000 0.00 0.00 0.00 4.70
7500 10192 0.803768 CTGTTGGAGATGACGGCTCG 60.804 60.000 0.00 0.00 33.19 5.03
7501 10193 1.519455 GTTGGAGATGACGGCTCGG 60.519 63.158 0.00 0.00 33.19 4.63
7502 10194 1.680989 TTGGAGATGACGGCTCGGA 60.681 57.895 0.00 0.00 33.19 4.55
7504 10196 2.026879 GAGATGACGGCTCGGAGC 59.973 66.667 21.57 21.57 41.46 4.70
7545 10248 4.144727 GGCGGAGAGAGGAGGGGA 62.145 72.222 0.00 0.00 0.00 4.81
7546 10249 2.520741 GCGGAGAGAGGAGGGGAG 60.521 72.222 0.00 0.00 0.00 4.30
7547 10250 2.197324 CGGAGAGAGGAGGGGAGG 59.803 72.222 0.00 0.00 0.00 4.30
7548 10251 2.612251 GGAGAGAGGAGGGGAGGG 59.388 72.222 0.00 0.00 0.00 4.30
7549 10252 2.612251 GAGAGAGGAGGGGAGGGG 59.388 72.222 0.00 0.00 0.00 4.79
7550 10253 3.039526 AGAGAGGAGGGGAGGGGG 61.040 72.222 0.00 0.00 0.00 5.40
7604 10307 2.391389 GCTACAGTTGCCAGCGACC 61.391 63.158 6.39 0.00 0.00 4.79
7615 10318 1.444553 CAGCGACCGAGGTGAGAAC 60.445 63.158 0.00 0.00 41.72 3.01
7629 10334 7.041508 CCGAGGTGAGAACGTACTACTATAATT 60.042 40.741 0.00 0.00 0.00 1.40
7657 10374 4.373116 CTGGACGGACGGTGGTGG 62.373 72.222 0.00 0.00 0.00 4.61
7681 10398 3.706373 CCACCGTCCAGGGTCCAG 61.706 72.222 0.00 0.00 46.96 3.86
7799 10809 1.138266 CCTTCCTACCATACCACACCG 59.862 57.143 0.00 0.00 0.00 4.94
7840 10850 1.888436 CTGCTTCGCCACTCCCACTA 61.888 60.000 0.00 0.00 0.00 2.74
7841 10851 1.153549 GCTTCGCCACTCCCACTAG 60.154 63.158 0.00 0.00 0.00 2.57
7842 10852 1.517832 CTTCGCCACTCCCACTAGG 59.482 63.158 0.00 0.00 0.00 3.02
7843 10853 0.970937 CTTCGCCACTCCCACTAGGA 60.971 60.000 0.00 0.00 44.91 2.94
7927 10944 2.517166 GAAATGGCGGCCTCCTCC 60.517 66.667 21.46 3.26 0.00 4.30
7969 10986 3.385749 CTCCACGCGGGTAAGCCAT 62.386 63.158 12.47 0.00 38.11 4.40
7970 10987 2.895372 CCACGCGGGTAAGCCATC 60.895 66.667 12.47 0.00 36.17 3.51
7976 10993 1.227674 CGGGTAAGCCATCTCAGCC 60.228 63.158 0.00 0.00 36.17 4.85
7990 11007 1.109920 TCAGCCTCGCTACCATCCTC 61.110 60.000 0.00 0.00 36.40 3.71
7991 11008 2.196925 AGCCTCGCTACCATCCTCG 61.197 63.158 0.00 0.00 36.99 4.63
7992 11009 2.194212 GCCTCGCTACCATCCTCGA 61.194 63.158 0.00 0.00 0.00 4.04
7993 11010 1.528292 GCCTCGCTACCATCCTCGAT 61.528 60.000 0.00 0.00 0.00 3.59
7994 11011 0.962489 CCTCGCTACCATCCTCGATT 59.038 55.000 0.00 0.00 0.00 3.34
7995 11012 1.068194 CCTCGCTACCATCCTCGATTC 60.068 57.143 0.00 0.00 0.00 2.52
7996 11013 0.959553 TCGCTACCATCCTCGATTCC 59.040 55.000 0.00 0.00 0.00 3.01
7997 11014 0.962489 CGCTACCATCCTCGATTCCT 59.038 55.000 0.00 0.00 0.00 3.36
7998 11015 1.068194 CGCTACCATCCTCGATTCCTC 60.068 57.143 0.00 0.00 0.00 3.71
8016 11033 0.944386 TCGTGCCTTTGCTTGACTTC 59.056 50.000 0.00 0.00 38.71 3.01
8025 11042 4.535116 CTTTGCTTGACTTCTTTCTGCTC 58.465 43.478 0.00 0.00 0.00 4.26
8026 11043 2.138320 TGCTTGACTTCTTTCTGCTCG 58.862 47.619 0.00 0.00 0.00 5.03
8027 11044 2.139118 GCTTGACTTCTTTCTGCTCGT 58.861 47.619 0.00 0.00 0.00 4.18
8035 11052 1.000163 TCTTTCTGCTCGTTTCTCGCT 60.000 47.619 0.00 0.00 39.67 4.93
8036 11053 1.795286 CTTTCTGCTCGTTTCTCGCTT 59.205 47.619 0.00 0.00 39.67 4.68
8037 11054 1.139989 TTCTGCTCGTTTCTCGCTTG 58.860 50.000 0.00 0.00 39.67 4.01
8038 11055 1.131420 CTGCTCGTTTCTCGCTTGC 59.869 57.895 0.00 0.00 39.67 4.01
8039 11056 1.287730 CTGCTCGTTTCTCGCTTGCT 61.288 55.000 0.00 0.00 39.67 3.91
8040 11057 1.131420 GCTCGTTTCTCGCTTGCTG 59.869 57.895 0.00 0.00 39.67 4.41
8041 11058 1.131420 CTCGTTTCTCGCTTGCTGC 59.869 57.895 0.00 0.00 39.67 5.25
8042 11059 1.287730 CTCGTTTCTCGCTTGCTGCT 61.288 55.000 0.00 0.00 40.11 4.24
8043 11060 1.154525 CGTTTCTCGCTTGCTGCTG 60.155 57.895 0.00 0.00 40.11 4.41
8044 11061 1.441682 GTTTCTCGCTTGCTGCTGC 60.442 57.895 8.89 8.89 40.11 5.25
8045 11062 1.598962 TTTCTCGCTTGCTGCTGCT 60.599 52.632 17.00 0.00 40.48 4.24
8046 11063 1.848932 TTTCTCGCTTGCTGCTGCTG 61.849 55.000 17.00 10.41 40.48 4.41
8047 11064 4.462417 CTCGCTTGCTGCTGCTGC 62.462 66.667 22.51 22.51 40.48 5.25
8049 11066 4.760840 CGCTTGCTGCTGCTGCTG 62.761 66.667 27.67 21.23 40.48 4.41
8070 11087 3.072476 CTGCAGGTGGTAGCTGGT 58.928 61.111 5.57 0.00 43.49 4.00
8071 11088 1.078848 CTGCAGGTGGTAGCTGGTC 60.079 63.158 5.57 0.00 43.49 4.02
8077 11094 2.682494 TGGTAGCTGGTCCGTCCC 60.682 66.667 0.00 0.00 34.77 4.46
8085 11102 4.021925 GGTCCGTCCCTGCTGCTT 62.022 66.667 0.00 0.00 0.00 3.91
8088 11105 4.711949 CCGTCCCTGCTGCTTGCT 62.712 66.667 0.00 0.00 43.37 3.91
8089 11106 3.429141 CGTCCCTGCTGCTTGCTG 61.429 66.667 0.00 3.59 43.37 4.41
8093 11110 1.900016 CCCTGCTGCTTGCTGTGAA 60.900 57.895 0.00 0.00 43.37 3.18
8161 11178 4.120755 CCTGCTCTTGGGGCCCTC 62.121 72.222 25.93 12.89 0.00 4.30
8162 11179 3.013932 CTGCTCTTGGGGCCCTCT 61.014 66.667 25.93 0.00 0.00 3.69
8163 11180 3.011517 TGCTCTTGGGGCCCTCTC 61.012 66.667 25.93 5.48 0.00 3.20
8164 11181 3.803162 GCTCTTGGGGCCCTCTCC 61.803 72.222 25.93 5.04 0.00 3.71
8165 11182 3.474570 CTCTTGGGGCCCTCTCCG 61.475 72.222 25.93 7.44 0.00 4.63
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5616 7941 9.890629 AGCTCAGATATAATCACAAAGTGTTAA 57.109 29.630 0.00 0.00 34.79 2.01
5617 7942 9.534565 GAGCTCAGATATAATCACAAAGTGTTA 57.465 33.333 9.40 0.00 34.79 2.41
5618 7943 8.263640 AGAGCTCAGATATAATCACAAAGTGTT 58.736 33.333 17.77 0.00 34.79 3.32
5619 7944 7.790027 AGAGCTCAGATATAATCACAAAGTGT 58.210 34.615 17.77 0.00 34.79 3.55
5620 7945 8.659925 AAGAGCTCAGATATAATCACAAAGTG 57.340 34.615 17.77 0.00 34.45 3.16
5634 7959 8.757877 ACTTCTGAAGTAATAAAGAGCTCAGAT 58.242 33.333 20.85 2.69 40.69 2.90
5635 7960 8.031864 CACTTCTGAAGTAATAAAGAGCTCAGA 58.968 37.037 21.65 3.05 40.46 3.27
5636 7961 7.816995 ACACTTCTGAAGTAATAAAGAGCTCAG 59.183 37.037 21.65 7.76 40.46 3.35
5637 7962 7.671302 ACACTTCTGAAGTAATAAAGAGCTCA 58.329 34.615 21.65 0.00 40.46 4.26
5638 7963 8.541133 AACACTTCTGAAGTAATAAAGAGCTC 57.459 34.615 21.65 5.27 40.46 4.09
5639 7964 8.910351 AAACACTTCTGAAGTAATAAAGAGCT 57.090 30.769 21.65 0.00 40.46 4.09
5650 7975 9.956720 CAAAATCTCATTAAACACTTCTGAAGT 57.043 29.630 17.00 17.00 44.06 3.01
5651 7976 9.956720 ACAAAATCTCATTAAACACTTCTGAAG 57.043 29.630 15.59 15.59 0.00 3.02
5652 7977 9.734620 CACAAAATCTCATTAAACACTTCTGAA 57.265 29.630 0.00 0.00 0.00 3.02
5653 7978 8.902806 ACACAAAATCTCATTAAACACTTCTGA 58.097 29.630 0.00 0.00 0.00 3.27
5662 7987 9.545105 AAAATCTGCACACAAAATCTCATTAAA 57.455 25.926 0.00 0.00 0.00 1.52
5675 8000 3.568007 GGGTAGTCAAAAATCTGCACACA 59.432 43.478 0.00 0.00 0.00 3.72
5676 8001 3.057526 GGGGTAGTCAAAAATCTGCACAC 60.058 47.826 0.00 0.00 0.00 3.82
5684 8009 3.790126 AGCATTGGGGGTAGTCAAAAAT 58.210 40.909 0.00 0.00 0.00 1.82
5688 8013 1.005450 GGAAGCATTGGGGGTAGTCAA 59.995 52.381 0.00 0.00 0.00 3.18
5691 8016 1.080638 TTGGAAGCATTGGGGGTAGT 58.919 50.000 0.00 0.00 0.00 2.73
5735 8060 1.562672 GCTCCCCCTTCCTAACTGCA 61.563 60.000 0.00 0.00 0.00 4.41
5738 8063 2.368011 GCGCTCCCCCTTCCTAACT 61.368 63.158 0.00 0.00 0.00 2.24
5843 8168 6.313411 CGTATTAAACATACCACGGAAAGGAA 59.687 38.462 0.00 0.00 0.00 3.36
5851 8176 5.265477 TCGTCTCGTATTAAACATACCACG 58.735 41.667 0.00 0.00 0.00 4.94
6025 8350 5.981315 ACATTTCAACTCACTTTCTTGCATG 59.019 36.000 0.00 0.00 0.00 4.06
6106 8433 9.612066 TCTGCATTATCTGAACATAATACAACA 57.388 29.630 0.00 0.00 29.39 3.33
6108 8435 8.777413 GCTCTGCATTATCTGAACATAATACAA 58.223 33.333 0.00 0.00 29.39 2.41
6119 8446 1.269988 GGCGAGCTCTGCATTATCTGA 60.270 52.381 24.72 0.00 0.00 3.27
6256 8586 5.886960 AATTAAACATCAGTCTGAGCCAC 57.113 39.130 8.82 0.00 0.00 5.01
6280 8610 3.228188 TGAAGCTTGTCCTGGAAACAT 57.772 42.857 2.10 0.00 41.51 2.71
6361 8691 0.612744 AGTTGAGCTTGGGAGAGAGC 59.387 55.000 0.00 0.00 39.17 4.09
6528 9052 1.334960 CGCATCACAACAGGTTGAACC 60.335 52.381 18.28 6.16 42.93 3.62
6535 9059 2.981805 CACATTTTCGCATCACAACAGG 59.018 45.455 0.00 0.00 0.00 4.00
6555 9079 3.954200 AGTGTCAATGCCACATATGTCA 58.046 40.909 5.07 2.25 35.24 3.58
6616 9140 4.617067 CGATGCCACATACAGGAGTATCTC 60.617 50.000 0.00 0.00 38.88 2.75
6638 9162 8.684973 ATACTACTACAGCTTAAAAAGTGTCG 57.315 34.615 0.00 0.00 0.00 4.35
6673 9197 2.556144 TATGCAGGGATGTGCTGATC 57.444 50.000 0.00 0.00 44.32 2.92
6718 9242 6.096705 CCTCATTCTGCAATACCAAACCAATA 59.903 38.462 0.00 0.00 0.00 1.90
6724 9249 3.444742 CAGCCTCATTCTGCAATACCAAA 59.555 43.478 0.00 0.00 0.00 3.28
6796 9321 0.602638 TGGCCTTGCAGTACTTGTCG 60.603 55.000 3.32 0.00 0.00 4.35
7032 9557 4.040755 CTCCCCTCTTTATTTCTCTCCCA 58.959 47.826 0.00 0.00 0.00 4.37
7078 9603 7.549147 AACCAACTCAGACCAACTAAGTATA 57.451 36.000 0.00 0.00 0.00 1.47
7089 9618 2.538512 AACGGTAACCAACTCAGACC 57.461 50.000 0.00 0.00 0.00 3.85
7217 9759 1.303236 CACAGGTCGGGCCATTTGA 60.303 57.895 4.39 0.00 40.61 2.69
7241 9814 5.132648 TGGCATGACAGGTAGGATTTCTAAT 59.867 40.000 0.00 0.00 0.00 1.73
7242 9815 4.473196 TGGCATGACAGGTAGGATTTCTAA 59.527 41.667 0.00 0.00 0.00 2.10
7243 9816 4.037222 TGGCATGACAGGTAGGATTTCTA 58.963 43.478 0.00 0.00 0.00 2.10
7244 9817 2.846206 TGGCATGACAGGTAGGATTTCT 59.154 45.455 0.00 0.00 0.00 2.52
7245 9818 3.281727 TGGCATGACAGGTAGGATTTC 57.718 47.619 0.00 0.00 0.00 2.17
7246 9819 3.053395 ACATGGCATGACAGGTAGGATTT 60.053 43.478 32.74 3.47 33.06 2.17
7247 9820 2.511218 ACATGGCATGACAGGTAGGATT 59.489 45.455 32.74 3.68 33.06 3.01
7248 9821 2.130193 ACATGGCATGACAGGTAGGAT 58.870 47.619 32.74 4.23 33.06 3.24
7249 9822 1.583556 ACATGGCATGACAGGTAGGA 58.416 50.000 32.74 0.00 33.06 2.94
7250 9823 2.019249 CAACATGGCATGACAGGTAGG 58.981 52.381 32.74 11.39 33.80 3.18
7251 9824 2.019249 CCAACATGGCATGACAGGTAG 58.981 52.381 32.74 10.64 33.80 3.18
7252 9825 1.354031 ACCAACATGGCATGACAGGTA 59.646 47.619 32.74 0.00 42.67 3.08
7253 9826 0.112995 ACCAACATGGCATGACAGGT 59.887 50.000 32.74 28.59 42.67 4.00
7254 9827 0.813184 GACCAACATGGCATGACAGG 59.187 55.000 32.74 28.01 42.67 4.00
7255 9828 1.471287 CAGACCAACATGGCATGACAG 59.529 52.381 32.74 20.84 42.67 3.51
7256 9829 1.073603 TCAGACCAACATGGCATGACA 59.926 47.619 32.74 2.18 42.67 3.58
7257 9830 1.741706 CTCAGACCAACATGGCATGAC 59.258 52.381 32.74 16.89 42.67 3.06
7258 9831 1.629861 TCTCAGACCAACATGGCATGA 59.370 47.619 32.74 8.71 42.67 3.07
7259 9832 1.741706 GTCTCAGACCAACATGGCATG 59.258 52.381 25.31 25.31 42.67 4.06
7260 9833 1.352017 TGTCTCAGACCAACATGGCAT 59.648 47.619 1.24 0.00 42.67 4.40
7261 9834 0.764271 TGTCTCAGACCAACATGGCA 59.236 50.000 1.24 0.00 42.67 4.92
7262 9835 1.271054 ACTGTCTCAGACCAACATGGC 60.271 52.381 1.24 0.00 36.53 4.40
7263 9836 2.847327 ACTGTCTCAGACCAACATGG 57.153 50.000 1.24 0.00 38.04 3.66
7264 9837 4.261322 CCAAAACTGTCTCAGACCAACATG 60.261 45.833 1.24 0.00 35.18 3.21
7265 9838 3.885297 CCAAAACTGTCTCAGACCAACAT 59.115 43.478 1.24 0.00 35.18 2.71
7266 9839 3.278574 CCAAAACTGTCTCAGACCAACA 58.721 45.455 1.24 0.00 35.18 3.33
7267 9840 3.279434 ACCAAAACTGTCTCAGACCAAC 58.721 45.455 1.24 0.00 35.18 3.77
7268 9841 3.644966 ACCAAAACTGTCTCAGACCAA 57.355 42.857 1.24 0.00 35.18 3.67
7269 9842 3.644966 AACCAAAACTGTCTCAGACCA 57.355 42.857 1.24 0.00 35.18 4.02
7270 9843 4.983671 AAAACCAAAACTGTCTCAGACC 57.016 40.909 1.24 0.00 35.18 3.85
7271 9844 8.188139 TGATTTAAAACCAAAACTGTCTCAGAC 58.812 33.333 0.00 0.00 35.18 3.51
7272 9845 8.287439 TGATTTAAAACCAAAACTGTCTCAGA 57.713 30.769 3.70 0.00 35.18 3.27
7273 9846 8.925161 TTGATTTAAAACCAAAACTGTCTCAG 57.075 30.769 0.00 0.00 37.52 3.35
7274 9847 9.712305 TTTTGATTTAAAACCAAAACTGTCTCA 57.288 25.926 19.33 2.76 35.59 3.27
7329 9903 5.869888 GTGGATAAAACACAAACCAACAACA 59.130 36.000 0.00 0.00 38.67 3.33
7330 9904 6.103330 AGTGGATAAAACACAAACCAACAAC 58.897 36.000 0.00 0.00 41.21 3.32
7331 9905 6.287589 AGTGGATAAAACACAAACCAACAA 57.712 33.333 0.00 0.00 41.21 2.83
7368 9942 1.451067 AGAGAAGAACAGCATGCAGC 58.549 50.000 21.98 5.73 42.53 5.25
7369 9943 2.419324 GGAAGAGAAGAACAGCATGCAG 59.581 50.000 21.98 15.38 42.53 4.41
7370 9944 2.039480 AGGAAGAGAAGAACAGCATGCA 59.961 45.455 21.98 0.00 42.53 3.96
7371 9945 2.709213 AGGAAGAGAAGAACAGCATGC 58.291 47.619 10.51 10.51 42.53 4.06
7372 9946 5.702349 AAAAGGAAGAGAAGAACAGCATG 57.298 39.130 0.00 0.00 46.00 4.06
7420 10109 2.605030 CAAGGCAAGAGAGAAGAGACG 58.395 52.381 0.00 0.00 0.00 4.18
7427 10116 1.593787 CTCGGCAAGGCAAGAGAGA 59.406 57.895 7.00 0.00 37.14 3.10
7428 10117 1.449246 CCTCGGCAAGGCAAGAGAG 60.449 63.158 12.40 5.35 38.67 3.20
7429 10118 2.665000 CCTCGGCAAGGCAAGAGA 59.335 61.111 12.40 0.00 38.67 3.10
7447 10136 2.549754 CTCTGCAACCCACAGTTAGTTG 59.450 50.000 7.76 7.76 42.95 3.16
7470 10162 0.806102 CTCCAACAGATACCCGCACG 60.806 60.000 0.00 0.00 0.00 5.34
7484 10176 1.667154 CTCCGAGCCGTCATCTCCAA 61.667 60.000 0.00 0.00 0.00 3.53
7487 10179 2.026879 GCTCCGAGCCGTCATCTC 59.973 66.667 9.42 0.00 34.48 2.75
7488 10180 2.755876 TGCTCCGAGCCGTCATCT 60.756 61.111 17.81 0.00 41.51 2.90
7529 10232 2.520741 CTCCCCTCCTCTCTCCGC 60.521 72.222 0.00 0.00 0.00 5.54
7531 10234 2.612251 CCCTCCCCTCCTCTCTCC 59.388 72.222 0.00 0.00 0.00 3.71
7532 10235 2.612251 CCCCTCCCCTCCTCTCTC 59.388 72.222 0.00 0.00 0.00 3.20
7533 10236 3.039526 CCCCCTCCCCTCCTCTCT 61.040 72.222 0.00 0.00 0.00 3.10
7549 10252 2.034221 GCCTTCACTGGGACACCC 59.966 66.667 0.00 0.00 45.71 4.61
7550 10253 1.003233 GAGCCTTCACTGGGACACC 60.003 63.158 0.00 0.00 37.24 4.16
7551 10254 1.374758 CGAGCCTTCACTGGGACAC 60.375 63.158 0.00 0.00 0.00 3.67
7552 10255 2.583441 CCGAGCCTTCACTGGGACA 61.583 63.158 0.00 0.00 37.73 4.02
7561 10264 2.825836 CCCATGTGCCGAGCCTTC 60.826 66.667 0.00 0.00 0.00 3.46
7598 10301 2.963371 GTTCTCACCTCGGTCGCT 59.037 61.111 0.00 0.00 0.00 4.93
7604 10307 6.834959 TTATAGTAGTACGTTCTCACCTCG 57.165 41.667 0.00 0.00 0.00 4.63
7615 10318 6.698766 GGTTCACCACCAATTATAGTAGTACG 59.301 42.308 0.00 0.00 46.42 3.67
7713 10430 2.665603 GGCAGGTCAGGTCAGGTC 59.334 66.667 0.00 0.00 0.00 3.85
7714 10431 2.930562 GGGCAGGTCAGGTCAGGT 60.931 66.667 0.00 0.00 0.00 4.00
7717 10434 2.224159 GGAAGGGCAGGTCAGGTCA 61.224 63.158 0.00 0.00 0.00 4.02
7840 10850 3.309994 CCCCTTTGTACTAGTCCTCTCCT 60.310 52.174 0.00 0.00 0.00 3.69
7841 10851 3.032459 CCCCTTTGTACTAGTCCTCTCC 58.968 54.545 0.00 0.00 0.00 3.71
7842 10852 3.978610 TCCCCTTTGTACTAGTCCTCTC 58.021 50.000 0.00 0.00 0.00 3.20
7843 10853 4.354662 CTTCCCCTTTGTACTAGTCCTCT 58.645 47.826 0.00 0.00 0.00 3.69
7844 10854 3.451540 CCTTCCCCTTTGTACTAGTCCTC 59.548 52.174 0.00 0.00 0.00 3.71
7845 10855 3.078612 TCCTTCCCCTTTGTACTAGTCCT 59.921 47.826 0.00 0.00 0.00 3.85
7846 10856 3.447950 TCCTTCCCCTTTGTACTAGTCC 58.552 50.000 0.00 0.00 0.00 3.85
7847 10857 3.451540 CCTCCTTCCCCTTTGTACTAGTC 59.548 52.174 0.00 0.00 0.00 2.59
7848 10858 3.451890 CCTCCTTCCCCTTTGTACTAGT 58.548 50.000 0.00 0.00 0.00 2.57
7849 10859 2.772515 CCCTCCTTCCCCTTTGTACTAG 59.227 54.545 0.00 0.00 0.00 2.57
7850 10860 2.563596 CCCCTCCTTCCCCTTTGTACTA 60.564 54.545 0.00 0.00 0.00 1.82
7881 10891 1.934341 TCGGGAGGAGAAGGGGAGA 60.934 63.158 0.00 0.00 0.00 3.71
7883 10893 2.363361 GTCGGGAGGAGAAGGGGA 59.637 66.667 0.00 0.00 0.00 4.81
7908 10925 3.338250 AGGAGGCCGCCATTTCCA 61.338 61.111 28.68 0.00 32.02 3.53
7952 10969 3.379865 GATGGCTTACCCGCGTGGA 62.380 63.158 18.79 0.00 37.49 4.02
7969 10986 1.109920 GGATGGTAGCGAGGCTGAGA 61.110 60.000 0.00 0.00 40.10 3.27
7970 10987 1.112315 AGGATGGTAGCGAGGCTGAG 61.112 60.000 0.00 0.00 40.10 3.35
7976 10993 1.068194 GGAATCGAGGATGGTAGCGAG 60.068 57.143 0.00 0.00 36.12 5.03
7990 11007 1.021390 AGCAAAGGCACGAGGAATCG 61.021 55.000 0.00 0.00 44.61 3.34
7991 11008 1.135575 CAAGCAAAGGCACGAGGAATC 60.136 52.381 0.00 0.00 44.61 2.52
7992 11009 0.883833 CAAGCAAAGGCACGAGGAAT 59.116 50.000 0.00 0.00 44.61 3.01
7993 11010 0.179032 TCAAGCAAAGGCACGAGGAA 60.179 50.000 0.00 0.00 44.61 3.36
7994 11011 0.884704 GTCAAGCAAAGGCACGAGGA 60.885 55.000 0.00 0.00 44.61 3.71
7995 11012 0.886490 AGTCAAGCAAAGGCACGAGG 60.886 55.000 0.00 0.00 44.61 4.63
7996 11013 0.947244 AAGTCAAGCAAAGGCACGAG 59.053 50.000 0.00 0.00 44.61 4.18
7997 11014 0.944386 GAAGTCAAGCAAAGGCACGA 59.056 50.000 0.00 0.00 44.61 4.35
7998 11015 0.947244 AGAAGTCAAGCAAAGGCACG 59.053 50.000 0.00 0.00 44.61 5.34
8016 11033 1.423395 AGCGAGAAACGAGCAGAAAG 58.577 50.000 0.00 0.00 45.77 2.62
8049 11066 3.130160 GCTACCACCTGCAGCAGC 61.130 66.667 17.81 7.41 42.57 5.25
8057 11074 1.982938 GACGGACCAGCTACCACCT 60.983 63.158 0.00 0.00 0.00 4.00
8059 11076 2.577593 GGACGGACCAGCTACCAC 59.422 66.667 0.00 0.00 38.79 4.16
8060 11077 2.682494 GGGACGGACCAGCTACCA 60.682 66.667 0.00 0.00 41.20 3.25
8070 11087 4.704833 GCAAGCAGCAGGGACGGA 62.705 66.667 0.00 0.00 44.79 4.69
8077 11094 1.081376 GCTTCACAGCAAGCAGCAG 60.081 57.895 0.00 0.00 46.93 4.24


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

AutoCloner maintained by Alex Coulton.