Multiple sequence alignment - TraesCS2B01G528700

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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 TraesCS2B01G528700 chr2B 100.000 6518 0 0 1 6518 723130501 723137018 0.000000e+00 12037.0
1 TraesCS2B01G528700 chr2B 85.783 3137 373 37 2217 5301 723331025 723334140 0.000000e+00 3254.0
2 TraesCS2B01G528700 chr2B 85.465 1947 237 21 2298 4204 723298338 723300278 0.000000e+00 1986.0
3 TraesCS2B01G528700 chr2B 80.700 1829 261 29 3528 5286 723430991 723432797 0.000000e+00 1338.0
4 TraesCS2B01G528700 chr2B 85.657 1241 135 18 859 2085 723329713 723330924 0.000000e+00 1266.0
5 TraesCS2B01G528700 chr2B 80.599 1536 239 31 1952 3438 723429442 723430967 0.000000e+00 1131.0
6 TraesCS2B01G528700 chr2B 82.835 1171 139 28 4187 5301 723301707 723302871 0.000000e+00 992.0
7 TraesCS2B01G528700 chr2B 88.746 622 62 4 5904 6518 263816780 263817400 0.000000e+00 754.0
8 TraesCS2B01G528700 chr2B 82.875 800 64 28 159 916 723328952 723329720 0.000000e+00 651.0
9 TraesCS2B01G528700 chr2B 77.281 1074 189 34 4268 5301 122266571 122265513 1.220000e-161 580.0
10 TraesCS2B01G528700 chr2B 92.549 255 15 4 159 412 723314424 723314675 4.800000e-96 363.0
11 TraesCS2B01G528700 chr2B 84.407 295 46 0 1635 1929 723429083 723429377 2.300000e-74 291.0
12 TraesCS2B01G528700 chr2B 75.641 546 78 34 1274 1808 723266130 723266631 3.060000e-53 220.0
13 TraesCS2B01G528700 chr2B 79.018 224 42 3 3271 3490 122267777 122267555 1.460000e-31 148.0
14 TraesCS2B01G528700 chr2B 83.168 101 17 0 1264 1364 723332256 723332356 6.960000e-15 93.5
15 TraesCS2B01G528700 chr2A 96.578 4413 106 16 919 5318 729529473 729533853 0.000000e+00 7271.0
16 TraesCS2B01G528700 chr2A 85.074 3169 365 53 2217 5301 729560107 729563251 0.000000e+00 3133.0
17 TraesCS2B01G528700 chr2A 78.313 3426 581 95 1965 5286 727609864 727613231 0.000000e+00 2061.0
18 TraesCS2B01G528700 chr2A 80.704 1819 253 34 3541 5286 729569371 729571164 0.000000e+00 1325.0
19 TraesCS2B01G528700 chr2A 86.064 1184 136 10 919 2085 729558819 729559990 0.000000e+00 1245.0
20 TraesCS2B01G528700 chr2A 83.172 1135 168 13 2203 3325 729568255 729569378 0.000000e+00 1016.0
21 TraesCS2B01G528700 chr2A 82.887 970 120 15 4374 5301 729527439 729528404 0.000000e+00 830.0
22 TraesCS2B01G528700 chr2A 90.753 584 49 4 5904 6482 727178067 727178650 0.000000e+00 774.0
23 TraesCS2B01G528700 chr2A 89.371 461 32 13 144 599 729528690 729529138 1.230000e-156 564.0
24 TraesCS2B01G528700 chr2A 86.765 476 35 15 144 599 729557014 729557481 7.540000e-139 505.0
25 TraesCS2B01G528700 chr2A 75.095 1048 171 48 4268 5269 732281694 732280691 2.190000e-109 407.0
26 TraesCS2B01G528700 chr2A 84.068 295 47 0 1635 1929 729567588 729567882 1.070000e-72 285.0
27 TraesCS2B01G528700 chr2A 80.712 337 37 15 592 924 729558486 729558798 3.040000e-58 237.0
28 TraesCS2B01G528700 chr2A 71.082 453 108 16 1633 2083 732519847 732520278 9.000000e-14 89.8
29 TraesCS2B01G528700 chr2A 84.000 75 11 1 4622 4695 668530556 668530482 3.260000e-08 71.3
30 TraesCS2B01G528700 chr2D 84.076 4132 485 82 1274 5301 595428114 595432176 0.000000e+00 3825.0
31 TraesCS2B01G528700 chr2D 86.424 3138 348 40 2217 5301 595436814 595439926 0.000000e+00 3363.0
32 TraesCS2B01G528700 chr2D 84.953 1369 158 25 745 2085 595435349 595436697 0.000000e+00 1343.0
33 TraesCS2B01G528700 chr2D 80.401 1847 270 31 3509 5286 595509868 595511691 0.000000e+00 1321.0
34 TraesCS2B01G528700 chr2D 80.637 1539 237 30 1952 3438 595508334 595509863 0.000000e+00 1134.0
35 TraesCS2B01G528700 chr2D 82.650 732 58 29 144 834 595432475 595433178 9.420000e-163 584.0
36 TraesCS2B01G528700 chr2D 75.560 1027 162 48 4268 5248 597630550 597631533 2.170000e-114 424.0
37 TraesCS2B01G528700 chr2D 84.746 295 45 0 1635 1929 595507969 595508263 4.940000e-76 296.0
38 TraesCS2B01G528700 chr2D 97.059 68 2 0 1 68 636480554 636480621 1.490000e-21 115.0
39 TraesCS2B01G528700 chr2D 80.734 109 21 0 1264 1372 595438045 595438153 1.160000e-12 86.1
40 TraesCS2B01G528700 chr2D 89.474 57 5 1 4622 4677 523162340 523162396 3.260000e-08 71.3
41 TraesCS2B01G528700 chr7B 87.653 1061 94 16 5431 6482 742115051 742114019 0.000000e+00 1199.0
42 TraesCS2B01G528700 chr7B 90.048 623 54 4 5904 6518 701156469 701155847 0.000000e+00 800.0
43 TraesCS2B01G528700 chr7B 91.152 486 38 3 5420 5905 323204974 323204494 0.000000e+00 654.0
44 TraesCS2B01G528700 chr7B 90.965 487 38 4 5419 5905 457410837 457411317 0.000000e+00 651.0
45 TraesCS2B01G528700 chr7B 93.578 109 4 2 5310 5416 270172067 270171960 6.760000e-35 159.0
46 TraesCS2B01G528700 chr7B 90.678 118 8 2 5301 5416 109433219 109433103 3.150000e-33 154.0
47 TraesCS2B01G528700 chr7B 95.385 65 3 0 1 65 662960112 662960048 3.210000e-18 104.0
48 TraesCS2B01G528700 chr7B 93.056 72 3 2 1 71 749589870 749589800 3.210000e-18 104.0
49 TraesCS2B01G528700 chr6B 90.193 622 52 4 5904 6518 673944132 673944751 0.000000e+00 802.0
50 TraesCS2B01G528700 chr6B 89.694 621 57 4 5904 6518 548816772 548817391 0.000000e+00 785.0
51 TraesCS2B01G528700 chr6B 96.875 64 2 0 1 64 599981164 599981101 2.490000e-19 108.0
52 TraesCS2B01G528700 chr6B 91.139 79 4 3 1 76 221748367 221748289 3.210000e-18 104.0
53 TraesCS2B01G528700 chr3B 91.638 574 44 4 5906 6477 635345270 635345841 0.000000e+00 791.0
54 TraesCS2B01G528700 chr3B 89.677 620 53 6 5907 6518 819490554 819489938 0.000000e+00 780.0
55 TraesCS2B01G528700 chr3B 89.068 622 61 3 5904 6518 342498346 342497725 0.000000e+00 765.0
56 TraesCS2B01G528700 chr3B 91.463 492 36 3 5419 5905 424123520 424124010 0.000000e+00 671.0
57 TraesCS2B01G528700 chr3D 91.057 492 37 4 5419 5905 246593792 246593303 0.000000e+00 658.0
58 TraesCS2B01G528700 chr3D 90.669 493 39 4 5419 5905 132166731 132166240 0.000000e+00 649.0
59 TraesCS2B01G528700 chr3D 93.846 65 3 1 4 68 572657842 572657779 5.380000e-16 97.1
60 TraesCS2B01G528700 chr4B 91.458 480 35 3 5431 5905 315735005 315734527 0.000000e+00 654.0
61 TraesCS2B01G528700 chr4B 93.519 108 5 1 5311 5416 182238715 182238822 6.760000e-35 159.0
62 TraesCS2B01G528700 chr4B 94.286 105 4 1 5314 5416 315733359 315733255 6.760000e-35 159.0
63 TraesCS2B01G528700 chr4A 90.854 492 38 4 5419 5905 327258430 327257941 0.000000e+00 652.0
64 TraesCS2B01G528700 chr1D 90.854 492 38 4 5419 5905 212716183 212715694 0.000000e+00 652.0
65 TraesCS2B01G528700 chr1D 96.721 61 2 0 1 61 40863273 40863333 1.160000e-17 102.0
66 TraesCS2B01G528700 chr1D 90.411 73 5 2 1 72 241231521 241231450 1.930000e-15 95.3
67 TraesCS2B01G528700 chr1B 75.584 942 168 39 4301 5204 540341647 540342564 6.080000e-110 409.0
68 TraesCS2B01G528700 chr1B 73.872 842 187 22 2202 3019 540339546 540338714 8.210000e-79 305.0
69 TraesCS2B01G528700 chr1B 94.393 107 4 1 5312 5416 331132430 331132536 5.230000e-36 163.0
70 TraesCS2B01G528700 chr4D 95.146 103 5 0 5314 5416 451043253 451043151 5.230000e-36 163.0
71 TraesCS2B01G528700 chr5B 94.286 105 4 1 5314 5416 94094321 94094217 6.760000e-35 159.0
72 TraesCS2B01G528700 chr5B 98.387 62 1 0 1 62 545812088 545812149 6.910000e-20 110.0
73 TraesCS2B01G528700 chr5B 94.203 69 3 1 1 68 65534832 65534900 3.210000e-18 104.0
74 TraesCS2B01G528700 chr5B 96.774 62 2 0 1 62 706485323 706485262 3.210000e-18 104.0
75 TraesCS2B01G528700 chr3A 94.286 105 4 1 5314 5416 309346262 309346158 6.760000e-35 159.0
76 TraesCS2B01G528700 chr5A 88.889 126 9 4 5295 5416 313874376 313874500 4.070000e-32 150.0
77 TraesCS2B01G528700 chr5A 98.361 61 1 0 1 61 272142855 272142915 2.490000e-19 108.0
78 TraesCS2B01G528700 chr5A 89.873 79 4 3 1 79 44283487 44283413 1.500000e-16 99.0
79 TraesCS2B01G528700 chrUn 96.923 65 1 1 1 64 41388902 41388838 2.490000e-19 108.0
80 TraesCS2B01G528700 chrUn 96.825 63 2 0 1 63 100332264 100332202 8.940000e-19 106.0
81 TraesCS2B01G528700 chrUn 95.312 64 2 1 1 63 33522389 33522326 4.160000e-17 100.0
82 TraesCS2B01G528700 chrUn 95.312 64 2 1 1 63 33810860 33810923 4.160000e-17 100.0
83 TraesCS2B01G528700 chrUn 95.312 64 2 1 1 63 33836519 33836582 4.160000e-17 100.0
84 TraesCS2B01G528700 chrUn 95.312 64 2 1 1 63 33933993 33934056 4.160000e-17 100.0
85 TraesCS2B01G528700 chrUn 95.312 64 2 1 1 63 33963858 33963921 4.160000e-17 100.0
86 TraesCS2B01G528700 chrUn 95.312 64 2 1 1 63 33971270 33971333 4.160000e-17 100.0
87 TraesCS2B01G528700 chrUn 95.312 64 2 1 1 63 33990084 33990147 4.160000e-17 100.0
88 TraesCS2B01G528700 chr6D 95.312 64 3 0 1 64 424667597 424667534 1.160000e-17 102.0
89 TraesCS2B01G528700 chr7D 100.000 29 0 0 190 218 394825373 394825345 3.000000e-03 54.7


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 TraesCS2B01G528700 chr2B 723130501 723137018 6517 False 12037.000000 12037 100.00000 1 6518 1 chr2B.!!$F2 6517
1 TraesCS2B01G528700 chr2B 723298338 723302871 4533 False 1489.000000 1986 84.15000 2298 5301 2 chr2B.!!$F5 3003
2 TraesCS2B01G528700 chr2B 723328952 723334140 5188 False 1316.125000 3254 84.37075 159 5301 4 chr2B.!!$F6 5142
3 TraesCS2B01G528700 chr2B 723429083 723432797 3714 False 920.000000 1338 81.90200 1635 5286 3 chr2B.!!$F7 3651
4 TraesCS2B01G528700 chr2B 263816780 263817400 620 False 754.000000 754 88.74600 5904 6518 1 chr2B.!!$F1 614
5 TraesCS2B01G528700 chr2B 122265513 122267777 2264 True 364.000000 580 78.14950 3271 5301 2 chr2B.!!$R1 2030
6 TraesCS2B01G528700 chr2B 723266130 723266631 501 False 220.000000 220 75.64100 1274 1808 1 chr2B.!!$F3 534
7 TraesCS2B01G528700 chr2A 729527439 729533853 6414 False 2888.333333 7271 89.61200 144 5318 3 chr2A.!!$F4 5174
8 TraesCS2B01G528700 chr2A 727609864 727613231 3367 False 2061.000000 2061 78.31300 1965 5286 1 chr2A.!!$F2 3321
9 TraesCS2B01G528700 chr2A 729557014 729563251 6237 False 1280.000000 3133 84.65375 144 5301 4 chr2A.!!$F5 5157
10 TraesCS2B01G528700 chr2A 729567588 729571164 3576 False 875.333333 1325 82.64800 1635 5286 3 chr2A.!!$F6 3651
11 TraesCS2B01G528700 chr2A 727178067 727178650 583 False 774.000000 774 90.75300 5904 6482 1 chr2A.!!$F1 578
12 TraesCS2B01G528700 chr2A 732280691 732281694 1003 True 407.000000 407 75.09500 4268 5269 1 chr2A.!!$R2 1001
13 TraesCS2B01G528700 chr2D 595428114 595439926 11812 False 1840.220000 3825 83.76740 144 5301 5 chr2D.!!$F4 5157
14 TraesCS2B01G528700 chr2D 595507969 595511691 3722 False 917.000000 1321 81.92800 1635 5286 3 chr2D.!!$F5 3651
15 TraesCS2B01G528700 chr2D 597630550 597631533 983 False 424.000000 424 75.56000 4268 5248 1 chr2D.!!$F2 980
16 TraesCS2B01G528700 chr7B 742114019 742115051 1032 True 1199.000000 1199 87.65300 5431 6482 1 chr7B.!!$R6 1051
17 TraesCS2B01G528700 chr7B 701155847 701156469 622 True 800.000000 800 90.04800 5904 6518 1 chr7B.!!$R5 614
18 TraesCS2B01G528700 chr6B 673944132 673944751 619 False 802.000000 802 90.19300 5904 6518 1 chr6B.!!$F2 614
19 TraesCS2B01G528700 chr6B 548816772 548817391 619 False 785.000000 785 89.69400 5904 6518 1 chr6B.!!$F1 614
20 TraesCS2B01G528700 chr3B 635345270 635345841 571 False 791.000000 791 91.63800 5906 6477 1 chr3B.!!$F2 571
21 TraesCS2B01G528700 chr3B 819489938 819490554 616 True 780.000000 780 89.67700 5907 6518 1 chr3B.!!$R2 611
22 TraesCS2B01G528700 chr3B 342497725 342498346 621 True 765.000000 765 89.06800 5904 6518 1 chr3B.!!$R1 614
23 TraesCS2B01G528700 chr4B 315733255 315735005 1750 True 406.500000 654 92.87200 5314 5905 2 chr4B.!!$R1 591
24 TraesCS2B01G528700 chr1B 540341647 540342564 917 False 409.000000 409 75.58400 4301 5204 1 chr1B.!!$F2 903
25 TraesCS2B01G528700 chr1B 540338714 540339546 832 True 305.000000 305 73.87200 2202 3019 1 chr1B.!!$R1 817

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
984 8595 0.032952 GCCTTCCCCCGAACAAAAAC 59.967 55.0 0.00 0.0 0.00 2.43 F
1528 9165 0.536006 GCCAGGCAGACAGTCAACTT 60.536 55.0 6.55 0.0 0.00 2.66 F
2296 10080 1.047596 TTGCACACCAGGCCACATTT 61.048 50.0 5.01 0.0 0.00 2.32 F
3559 11412 0.966370 AGGGAAGTCGTCGAAGGGAG 60.966 60.0 0.00 0.0 0.00 4.30 F
5335 14940 0.035439 TTTTGGCGCTCCTAGAAGGG 60.035 55.0 7.64 0.0 35.59 3.95 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1929 9566 1.079543 CTGGGGCTGTCGTTCTCTG 60.080 63.158 0.00 0.00 0.00 3.35 R
3414 11240 0.883833 TCTCGTAGTTGAACCGACCC 59.116 55.000 0.00 0.00 0.00 4.46 R
4095 12129 0.238553 GGTCTTCGAAGCTGCCAAAC 59.761 55.000 20.56 10.93 0.00 2.93 R
5375 14980 0.336392 AAATCCCTTCCCTCTTGCCC 59.664 55.000 0.00 0.00 0.00 5.36 R
6332 16156 0.471617 AGGGCATCCACATCTAGCAC 59.528 55.000 0.00 0.00 34.83 4.40 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
53 54 6.866010 TGAATGAGACACATATTACCATGC 57.134 37.500 0.00 0.00 38.38 4.06
54 55 6.355747 TGAATGAGACACATATTACCATGCA 58.644 36.000 0.00 0.00 38.38 3.96
56 57 7.338957 TGAATGAGACACATATTACCATGCAAA 59.661 33.333 0.00 0.00 38.38 3.68
57 58 7.643569 ATGAGACACATATTACCATGCAAAA 57.356 32.000 0.00 0.00 37.46 2.44
58 59 7.459795 TGAGACACATATTACCATGCAAAAA 57.540 32.000 0.00 0.00 0.00 1.94
82 83 8.871686 AAAAAGACACAAGATGGACATTTTAC 57.128 30.769 0.00 0.00 0.00 2.01
83 84 7.581213 AAAGACACAAGATGGACATTTTACA 57.419 32.000 0.00 0.00 0.00 2.41
84 85 7.581213 AAGACACAAGATGGACATTTTACAA 57.419 32.000 0.00 0.00 0.00 2.41
85 86 7.581213 AGACACAAGATGGACATTTTACAAA 57.419 32.000 0.00 0.00 0.00 2.83
86 87 8.181904 AGACACAAGATGGACATTTTACAAAT 57.818 30.769 0.00 0.00 0.00 2.32
87 88 9.295825 AGACACAAGATGGACATTTTACAAATA 57.704 29.630 0.00 0.00 0.00 1.40
88 89 9.341899 GACACAAGATGGACATTTTACAAATAC 57.658 33.333 0.00 0.00 0.00 1.89
89 90 8.855110 ACACAAGATGGACATTTTACAAATACA 58.145 29.630 0.00 0.00 0.00 2.29
91 92 9.859427 ACAAGATGGACATTTTACAAATACATG 57.141 29.630 0.00 0.00 0.00 3.21
92 93 9.859427 CAAGATGGACATTTTACAAATACATGT 57.141 29.630 2.69 2.69 37.32 3.21
219 4444 8.918658 CAAGAACATTTTTCTAACACATGATGG 58.081 33.333 0.00 0.00 0.00 3.51
220 4445 8.408043 AGAACATTTTTCTAACACATGATGGA 57.592 30.769 0.00 0.00 0.00 3.41
303 4529 9.566530 CGTTGAACATATTTTGAATGGTATGAA 57.433 29.630 0.00 0.00 0.00 2.57
397 4624 4.095782 GGTTTTGGGAACTTTTCAAAAGGC 59.904 41.667 14.47 5.75 39.87 4.35
400 4627 3.370104 TGGGAACTTTTCAAAAGGCTCA 58.630 40.909 14.47 8.85 0.00 4.26
442 4684 3.752665 ACCGGTTTTTGGTTTTGGTTTT 58.247 36.364 0.00 0.00 35.82 2.43
478 4720 9.168451 TGTTTTGTATTTTTCTTCCCCTTTTTC 57.832 29.630 0.00 0.00 0.00 2.29
483 4725 8.553153 TGTATTTTTCTTCCCCTTTTTCCTTTT 58.447 29.630 0.00 0.00 0.00 2.27
487 4729 9.983024 TTTTTCTTCCCCTTTTTCCTTTTTATT 57.017 25.926 0.00 0.00 0.00 1.40
488 4730 9.621629 TTTTCTTCCCCTTTTTCCTTTTTATTC 57.378 29.630 0.00 0.00 0.00 1.75
489 4731 6.988522 TCTTCCCCTTTTTCCTTTTTATTCG 58.011 36.000 0.00 0.00 0.00 3.34
493 4735 7.566569 TCCCCTTTTTCCTTTTTATTCGTTTT 58.433 30.769 0.00 0.00 0.00 2.43
495 4737 7.041644 CCCCTTTTTCCTTTTTATTCGTTTTCC 60.042 37.037 0.00 0.00 0.00 3.13
497 4739 9.752961 CCTTTTTCCTTTTTATTCGTTTTCCTA 57.247 29.630 0.00 0.00 0.00 2.94
744 6004 9.936759 AATTGTCCACATTTTATAAAATTCGGT 57.063 25.926 22.95 15.74 36.52 4.69
826 8371 5.737290 GGTAACATTTTCGGAATTCGTGATG 59.263 40.000 0.00 2.53 40.32 3.07
984 8595 0.032952 GCCTTCCCCCGAACAAAAAC 59.967 55.000 0.00 0.00 0.00 2.43
1122 8744 1.035385 CAGGCTGGAATCTGCATGCA 61.035 55.000 21.29 21.29 41.22 3.96
1147 8775 3.606662 ATCCGGTGGATCGAGGCG 61.607 66.667 0.00 0.00 38.09 5.52
1153 8781 3.838271 TGGATCGAGGCGCAGGAC 61.838 66.667 10.83 0.00 0.00 3.85
1154 8782 4.593864 GGATCGAGGCGCAGGACC 62.594 72.222 10.83 0.31 0.00 4.46
1155 8783 3.838271 GATCGAGGCGCAGGACCA 61.838 66.667 10.83 0.00 0.00 4.02
1348 8982 1.521681 CGGCGGAGAGATGGAAACC 60.522 63.158 0.00 0.00 0.00 3.27
1367 9001 1.378250 GGAGGGAAGTCGTCGGAGA 60.378 63.158 0.00 0.00 0.00 3.71
1397 9031 2.502492 GCCGCATCCCTAGAGCTCA 61.502 63.158 17.77 0.82 0.00 4.26
1528 9165 0.536006 GCCAGGCAGACAGTCAACTT 60.536 55.000 6.55 0.00 0.00 2.66
1576 9213 6.089249 ACAGTCCAAATCCTGTTGAAATTC 57.911 37.500 0.00 0.00 38.76 2.17
1580 9217 5.629435 GTCCAAATCCTGTTGAAATTCGAAC 59.371 40.000 0.00 0.00 0.00 3.95
1867 9504 1.375326 GGACCCAGCCTTCGACTTT 59.625 57.895 0.00 0.00 0.00 2.66
1929 9566 3.668447 TCTTGTCAGCAATGAAGGAGTC 58.332 45.455 0.00 0.00 33.65 3.36
1989 9680 6.430962 CATGGAGATGGAGGAGAAGAAATA 57.569 41.667 0.00 0.00 0.00 1.40
2179 9923 9.614792 ACTTTAGTATGTAACCAGATTGATTCC 57.385 33.333 0.00 0.00 0.00 3.01
2296 10080 1.047596 TTGCACACCAGGCCACATTT 61.048 50.000 5.01 0.00 0.00 2.32
2344 10128 5.954150 ACCTTGCAAATCTACTCCATCAAAT 59.046 36.000 0.00 0.00 0.00 2.32
2346 10130 6.755141 CCTTGCAAATCTACTCCATCAAATTG 59.245 38.462 0.00 0.00 0.00 2.32
2431 10223 3.853597 GACCGTCGTCGCAACCCTT 62.854 63.158 0.00 0.00 35.54 3.95
2550 10364 3.663995 TGAACAGTCAATGGCAAATGG 57.336 42.857 0.00 0.00 0.00 3.16
2893 10707 4.742012 TCAGGAGGGTAGTGAAGATATCC 58.258 47.826 0.00 0.00 0.00 2.59
2976 10790 4.724399 TGACTGAAAATGGCTACCTTGAA 58.276 39.130 0.00 0.00 0.00 2.69
3052 10875 2.239400 TGGACGATTCACAGACTGAGT 58.761 47.619 10.08 0.00 0.00 3.41
3138 10961 4.630111 CTGATGGCTCTAAGGTTGAGATC 58.370 47.826 0.00 0.00 33.68 2.75
3177 11000 4.820897 TCGTTCACTCAAAGATGCTACAT 58.179 39.130 0.00 0.00 0.00 2.29
3200 11023 6.908604 CATTCAGATGACAGTCATGAGGACAT 60.909 42.308 21.26 10.55 41.25 3.06
3414 11240 6.920210 TGTATGAGCTGTCGAATAAGATCTTG 59.080 38.462 18.47 1.05 30.18 3.02
3506 11359 4.540099 AGGGAAATTGACAGATACCCAGAA 59.460 41.667 0.00 0.00 38.42 3.02
3507 11360 5.194537 AGGGAAATTGACAGATACCCAGAAT 59.805 40.000 0.00 0.00 38.42 2.40
3559 11412 0.966370 AGGGAAGTCGTCGAAGGGAG 60.966 60.000 0.00 0.00 0.00 4.30
3948 11844 1.607467 GCTTGGTCAATGGGTGCCT 60.607 57.895 0.00 0.00 0.00 4.75
4598 14142 6.638468 CCTGTTCTTTCTCTTATTGTTTGCAC 59.362 38.462 0.00 0.00 0.00 4.57
4678 14222 1.702491 GGCCCGTCTCGTGCAATTAC 61.702 60.000 0.00 0.00 30.77 1.89
4904 14485 2.056094 GCTCATTGCCTTGTGACAAC 57.944 50.000 0.00 0.00 35.15 3.32
5009 14599 2.692041 AGCTGGAAAAATGCCTATGAGC 59.308 45.455 0.00 0.00 0.00 4.26
5114 14716 5.010719 AGGAATCAGTCAAAGTGTCGTCTTA 59.989 40.000 0.00 0.00 0.00 2.10
5179 14781 5.255687 TGGTGATTGTGAAGTGCAGATAAT 58.744 37.500 0.00 0.00 0.00 1.28
5314 14919 5.412594 ACGCTTGTTGATATCATGTGAACTT 59.587 36.000 6.17 0.00 0.00 2.66
5315 14920 5.735892 CGCTTGTTGATATCATGTGAACTTG 59.264 40.000 6.17 0.66 0.00 3.16
5317 14922 7.086376 GCTTGTTGATATCATGTGAACTTGTT 58.914 34.615 6.17 0.00 0.00 2.83
5318 14923 7.596248 GCTTGTTGATATCATGTGAACTTGTTT 59.404 33.333 6.17 0.00 0.00 2.83
5319 14924 9.467258 CTTGTTGATATCATGTGAACTTGTTTT 57.533 29.630 6.17 0.00 0.00 2.43
5320 14925 8.800231 TGTTGATATCATGTGAACTTGTTTTG 57.200 30.769 6.17 0.00 0.00 2.44
5321 14926 7.866898 TGTTGATATCATGTGAACTTGTTTTGG 59.133 33.333 6.17 0.00 0.00 3.28
5322 14927 6.389091 TGATATCATGTGAACTTGTTTTGGC 58.611 36.000 0.00 0.00 0.00 4.52
5323 14928 3.077229 TCATGTGAACTTGTTTTGGCG 57.923 42.857 0.00 0.00 0.00 5.69
5324 14929 1.522258 CATGTGAACTTGTTTTGGCGC 59.478 47.619 0.00 0.00 0.00 6.53
5325 14930 0.814457 TGTGAACTTGTTTTGGCGCT 59.186 45.000 7.64 0.00 0.00 5.92
5326 14931 1.202245 TGTGAACTTGTTTTGGCGCTC 60.202 47.619 7.64 0.00 0.00 5.03
5327 14932 0.383949 TGAACTTGTTTTGGCGCTCC 59.616 50.000 7.64 0.00 0.00 4.70
5328 14933 0.668535 GAACTTGTTTTGGCGCTCCT 59.331 50.000 7.64 0.00 0.00 3.69
5329 14934 1.877443 GAACTTGTTTTGGCGCTCCTA 59.123 47.619 7.64 0.00 0.00 2.94
5330 14935 1.523758 ACTTGTTTTGGCGCTCCTAG 58.476 50.000 7.64 0.11 0.00 3.02
5331 14936 1.071699 ACTTGTTTTGGCGCTCCTAGA 59.928 47.619 7.64 0.00 0.00 2.43
5332 14937 2.151202 CTTGTTTTGGCGCTCCTAGAA 58.849 47.619 7.64 0.00 0.00 2.10
5333 14938 1.808411 TGTTTTGGCGCTCCTAGAAG 58.192 50.000 7.64 0.00 0.00 2.85
5334 14939 1.087501 GTTTTGGCGCTCCTAGAAGG 58.912 55.000 7.64 0.00 36.46 3.46
5335 14940 0.035439 TTTTGGCGCTCCTAGAAGGG 60.035 55.000 7.64 0.00 35.59 3.95
5336 14941 1.910580 TTTGGCGCTCCTAGAAGGGG 61.911 60.000 7.64 0.00 39.50 4.79
5341 14946 4.356979 CTCCTAGAAGGGGCGTGA 57.643 61.111 0.00 0.00 35.59 4.35
5342 14947 2.119886 CTCCTAGAAGGGGCGTGAG 58.880 63.158 0.00 0.00 35.59 3.51
5343 14948 0.395862 CTCCTAGAAGGGGCGTGAGA 60.396 60.000 0.00 0.00 35.59 3.27
5344 14949 0.395862 TCCTAGAAGGGGCGTGAGAG 60.396 60.000 0.00 0.00 35.59 3.20
5345 14950 1.395826 CCTAGAAGGGGCGTGAGAGG 61.396 65.000 0.00 0.00 0.00 3.69
5346 14951 1.381327 TAGAAGGGGCGTGAGAGGG 60.381 63.158 0.00 0.00 0.00 4.30
5347 14952 4.475135 GAAGGGGCGTGAGAGGGC 62.475 72.222 0.00 0.00 0.00 5.19
5418 15023 8.511604 TTCCTTCTTAATTCTTGCTTGATAGG 57.488 34.615 0.00 0.00 0.00 2.57
5419 15024 6.543831 TCCTTCTTAATTCTTGCTTGATAGGC 59.456 38.462 0.00 0.00 0.00 3.93
5420 15025 6.238869 CCTTCTTAATTCTTGCTTGATAGGCC 60.239 42.308 0.00 0.00 0.00 5.19
5421 15026 5.133221 TCTTAATTCTTGCTTGATAGGCCC 58.867 41.667 0.00 0.00 0.00 5.80
5422 15027 2.371658 ATTCTTGCTTGATAGGCCCC 57.628 50.000 0.00 0.00 0.00 5.80
5423 15028 0.258774 TTCTTGCTTGATAGGCCCCC 59.741 55.000 0.00 0.00 0.00 5.40
5424 15029 1.526917 CTTGCTTGATAGGCCCCCG 60.527 63.158 0.00 0.00 0.00 5.73
5425 15030 1.983119 CTTGCTTGATAGGCCCCCGA 61.983 60.000 0.00 0.00 0.00 5.14
5426 15031 2.111251 GCTTGATAGGCCCCCGAC 59.889 66.667 0.00 0.00 0.00 4.79
5427 15032 2.829592 CTTGATAGGCCCCCGACC 59.170 66.667 0.00 0.00 0.00 4.79
5428 15033 3.158648 TTGATAGGCCCCCGACCG 61.159 66.667 0.00 0.00 0.00 4.79
5429 15034 3.682644 TTGATAGGCCCCCGACCGA 62.683 63.158 0.00 0.00 0.00 4.69
5448 15053 2.649190 GAGCAAGAGGGAAGGGATTTC 58.351 52.381 0.00 0.00 34.93 2.17
5548 15153 4.775236 CTTACTTGATCCCTAAGCAAGCT 58.225 43.478 0.00 0.00 41.97 3.74
5551 15156 3.777522 ACTTGATCCCTAAGCAAGCTACT 59.222 43.478 0.00 0.00 41.97 2.57
5552 15157 4.226168 ACTTGATCCCTAAGCAAGCTACTT 59.774 41.667 7.07 7.07 41.97 2.24
5555 15160 4.943705 TGATCCCTAAGCAAGCTACTTTTG 59.056 41.667 7.19 0.00 0.00 2.44
5557 15162 4.725490 TCCCTAAGCAAGCTACTTTTGTT 58.275 39.130 7.19 0.00 0.00 2.83
5568 15173 9.678941 GCAAGCTACTTTTGTTTCTAATTAACT 57.321 29.630 0.00 0.00 0.00 2.24
5611 15216 1.207791 CCAGTCCAGGCTCATTAGGT 58.792 55.000 0.00 0.00 0.00 3.08
5618 15223 4.042187 GTCCAGGCTCATTAGGTCCATTAT 59.958 45.833 0.00 0.00 0.00 1.28
5619 15224 5.248477 GTCCAGGCTCATTAGGTCCATTATA 59.752 44.000 0.00 0.00 0.00 0.98
5636 15246 6.616137 TCCATTATATAACACTACACCCCACA 59.384 38.462 0.00 0.00 0.00 4.17
5638 15248 8.598916 CCATTATATAACACTACACCCCACATA 58.401 37.037 0.00 0.00 0.00 2.29
5671 15281 1.045350 TCCTCGAGCTGCAGCCTAAT 61.045 55.000 34.39 17.05 43.38 1.73
5683 15293 5.529060 GCTGCAGCCTAATCAACTTATAACT 59.471 40.000 28.76 0.00 34.31 2.24
5704 15314 1.577468 TGACTCGACGCAACACAAAT 58.423 45.000 0.00 0.00 0.00 2.32
5735 15345 7.926018 CACCTAAAAACAAGCCTTTTACATCTT 59.074 33.333 0.00 0.00 0.00 2.40
5814 15424 5.301805 CCTTAACAAAAAGTGGACACCATCT 59.698 40.000 0.00 0.00 35.28 2.90
5821 15431 1.074405 AGTGGACACCATCTGCATGTT 59.926 47.619 0.00 0.00 35.28 2.71
5843 15453 2.749541 CGTGCACGTGTACATCCAT 58.250 52.632 31.41 0.00 34.11 3.41
5869 15479 1.574526 CCCATGGACACCACCTGGAT 61.575 60.000 15.22 0.00 35.80 3.41
5879 15489 2.065799 ACCACCTGGATCAAAGGAGTT 58.934 47.619 18.08 0.00 38.27 3.01
5962 15613 1.966451 GTGACACCCTGCCTTTCCG 60.966 63.158 0.00 0.00 0.00 4.30
6079 15732 2.772287 GCAGACTTTAAGGTCACTGCT 58.228 47.619 18.75 0.00 38.57 4.24
6154 15978 2.202623 GACGCAGCGGACGAGATT 60.203 61.111 21.15 0.00 0.00 2.40
6170 15994 0.881118 GATTGAGGTCCTTTGCGCAA 59.119 50.000 21.02 21.02 0.00 4.85
6191 16015 0.693049 GAAGGGCAACTTGGAGGAGA 59.307 55.000 0.00 0.00 40.21 3.71
6212 16036 2.033141 AGCTGCAGACCACGCATT 59.967 55.556 20.43 0.00 39.02 3.56
6271 16095 3.865929 CTTGCAGCCTCACCGTCGT 62.866 63.158 0.00 0.00 0.00 4.34
6332 16156 1.889105 CGATGGCGGGGACTTGATG 60.889 63.158 0.00 0.00 0.00 3.07
6346 16170 4.444022 GGACTTGATGTGCTAGATGTGGAT 60.444 45.833 0.00 0.00 33.97 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 6.999871 TGCATGGTAATATGTGTCTCATTCAT 59.000 34.615 0.00 0.00 37.91 2.57
30 31 6.355747 TGCATGGTAATATGTGTCTCATTCA 58.644 36.000 0.00 0.00 37.91 2.57
31 32 6.866010 TGCATGGTAATATGTGTCTCATTC 57.134 37.500 0.00 0.00 37.91 2.67
32 33 7.643569 TTTGCATGGTAATATGTGTCTCATT 57.356 32.000 0.00 0.00 37.91 2.57
33 34 7.643569 TTTTGCATGGTAATATGTGTCTCAT 57.356 32.000 0.00 0.00 40.25 2.90
34 35 7.459795 TTTTTGCATGGTAATATGTGTCTCA 57.540 32.000 0.00 0.00 0.00 3.27
57 58 8.474025 TGTAAAATGTCCATCTTGTGTCTTTTT 58.526 29.630 0.00 0.00 0.00 1.94
58 59 8.006298 TGTAAAATGTCCATCTTGTGTCTTTT 57.994 30.769 0.00 0.00 0.00 2.27
62 63 9.341899 GTATTTGTAAAATGTCCATCTTGTGTC 57.658 33.333 0.00 0.00 0.00 3.67
63 64 8.855110 TGTATTTGTAAAATGTCCATCTTGTGT 58.145 29.630 0.00 0.00 0.00 3.72
64 65 9.859427 ATGTATTTGTAAAATGTCCATCTTGTG 57.141 29.630 0.00 0.00 0.00 3.33
65 66 9.859427 CATGTATTTGTAAAATGTCCATCTTGT 57.141 29.630 0.00 0.00 0.00 3.16
66 67 9.859427 ACATGTATTTGTAAAATGTCCATCTTG 57.141 29.630 0.00 0.00 0.00 3.02
272 4498 8.519526 ACCATTCAAAATATGTTCAACGTGTAT 58.480 29.630 0.00 0.00 0.00 2.29
273 4499 7.877003 ACCATTCAAAATATGTTCAACGTGTA 58.123 30.769 0.00 0.00 0.00 2.90
274 4500 6.744112 ACCATTCAAAATATGTTCAACGTGT 58.256 32.000 0.00 0.00 0.00 4.49
275 4501 8.797215 CATACCATTCAAAATATGTTCAACGTG 58.203 33.333 0.00 0.00 0.00 4.49
276 4502 8.735315 TCATACCATTCAAAATATGTTCAACGT 58.265 29.630 0.00 0.00 0.00 3.99
277 4503 9.566530 TTCATACCATTCAAAATATGTTCAACG 57.433 29.630 0.00 0.00 0.00 4.10
415 4642 4.567558 CCAAAACCAAAAACCGGTAAGAAC 59.432 41.667 8.00 0.00 34.99 3.01
423 4650 5.553290 ATGAAAACCAAAACCAAAAACCG 57.447 34.783 0.00 0.00 0.00 4.44
451 4693 8.500753 AAAAGGGGAAGAAAAATACAAAACAC 57.499 30.769 0.00 0.00 0.00 3.32
469 4711 7.041644 GGAAAACGAATAAAAAGGAAAAAGGGG 60.042 37.037 0.00 0.00 0.00 4.79
471 4713 8.657074 AGGAAAACGAATAAAAAGGAAAAAGG 57.343 30.769 0.00 0.00 0.00 3.11
555 4799 8.037382 TGAAATCTCAAACATTTTGCAAAACA 57.963 26.923 26.05 12.00 0.00 2.83
803 8322 6.311723 ACATCACGAATTCCGAAAATGTTAC 58.688 36.000 0.00 0.00 41.76 2.50
814 8333 9.352784 TGAATTCAAAATAACATCACGAATTCC 57.647 29.630 5.45 3.47 43.09 3.01
826 8371 9.262472 GTATCAGTGTCGTGAATTCAAAATAAC 57.738 33.333 10.35 5.67 0.00 1.89
924 8509 5.104900 AGGGTTTTCAAGATACGCTACAGAT 60.105 40.000 0.00 0.00 33.90 2.90
931 8542 3.939592 AGCTTAGGGTTTTCAAGATACGC 59.060 43.478 0.00 0.00 0.00 4.42
1059 8681 2.190578 CGCCACTCCTTCCCATCC 59.809 66.667 0.00 0.00 0.00 3.51
1122 8744 1.074926 ATCCACCGGATGCTCTCCT 60.075 57.895 9.46 0.00 41.43 3.69
1147 8775 0.179936 CAATCTCCTCCTGGTCCTGC 59.820 60.000 0.00 0.00 34.23 4.85
1153 8781 2.809665 GCTATGTGCAATCTCCTCCTGG 60.810 54.545 0.00 0.00 42.31 4.45
1154 8782 2.492012 GCTATGTGCAATCTCCTCCTG 58.508 52.381 0.00 0.00 42.31 3.86
1155 8783 1.069823 CGCTATGTGCAATCTCCTCCT 59.930 52.381 0.00 0.00 43.06 3.69
1182 8816 8.422577 TCTGAAATCCGGAAGATTATCATAGA 57.577 34.615 9.01 0.00 44.75 1.98
1348 8982 2.749044 TCCGACGACTTCCCTCCG 60.749 66.667 0.00 0.00 0.00 4.63
1364 8998 1.153667 CGGCACTCCTGCTTCTCTC 60.154 63.158 0.00 0.00 43.66 3.20
1367 9001 2.866085 GATGCGGCACTCCTGCTTCT 62.866 60.000 4.03 0.00 43.66 2.85
1397 9031 0.737715 GCACGGTCGAGCAGATTCTT 60.738 55.000 15.89 0.00 0.00 2.52
1528 9165 1.071542 TCTTGCACAGTTTCCCATCGA 59.928 47.619 0.00 0.00 0.00 3.59
1576 9213 1.525995 AGCACCCACCACTTGTTCG 60.526 57.895 0.00 0.00 0.00 3.95
1580 9217 0.538057 ATGTCAGCACCCACCACTTG 60.538 55.000 0.00 0.00 0.00 3.16
1823 9460 2.032549 GCTGGAGCATGCTAATACGTTG 60.033 50.000 22.74 6.39 41.59 4.10
1929 9566 1.079543 CTGGGGCTGTCGTTCTCTG 60.080 63.158 0.00 0.00 0.00 3.35
1989 9680 1.819288 AGTACAGACAGTATGCAGCGT 59.181 47.619 0.00 0.00 42.53 5.07
2198 9942 9.688091 AGAGATCTAACATGAAGTAACTAGTCA 57.312 33.333 0.00 0.00 0.00 3.41
2344 10128 6.056884 ACAAATCGGGTTTTACTAGTGACAA 58.943 36.000 5.39 0.00 0.00 3.18
2346 10130 6.368213 CAACAAATCGGGTTTTACTAGTGAC 58.632 40.000 5.39 1.53 0.00 3.67
2550 10364 3.442977 AGAAAGAATCCTGCAAGCATCAC 59.557 43.478 0.00 0.00 0.00 3.06
2893 10707 2.219458 CCTACATGATGCTTGCTCAGG 58.781 52.381 0.00 0.54 0.00 3.86
2976 10790 4.074970 CAGAAACTACATTCCTTGCCAGT 58.925 43.478 0.00 0.00 0.00 4.00
3052 10875 3.818210 TCAAGGACGAATTTAGCAGCAAA 59.182 39.130 0.00 0.00 0.00 3.68
3138 10961 1.230635 CGAGGGACCAAGCAACAGTG 61.231 60.000 0.00 0.00 0.00 3.66
3177 11000 3.834231 TGTCCTCATGACTGTCATCTGAA 59.166 43.478 19.89 4.60 44.75 3.02
3200 11023 1.147376 CCTGTGGTCACGTTCCCAA 59.853 57.895 4.57 0.00 31.17 4.12
3206 11029 1.142060 TCAAATTCCCTGTGGTCACGT 59.858 47.619 0.00 0.00 0.00 4.49
3207 11030 1.890876 TCAAATTCCCTGTGGTCACG 58.109 50.000 0.00 0.00 0.00 4.35
3414 11240 0.883833 TCTCGTAGTTGAACCGACCC 59.116 55.000 0.00 0.00 0.00 4.46
3506 11359 4.341806 TCTCAATGCCATCGCCAATTTTAT 59.658 37.500 0.00 0.00 0.00 1.40
3507 11360 3.698539 TCTCAATGCCATCGCCAATTTTA 59.301 39.130 0.00 0.00 0.00 1.52
3559 11412 2.595386 CAATTTAAACTCGCCACTGCC 58.405 47.619 0.00 0.00 0.00 4.85
3948 11844 5.722172 ATTCCAATCCCTCTCTGAAATCA 57.278 39.130 0.00 0.00 0.00 2.57
4095 12129 0.238553 GGTCTTCGAAGCTGCCAAAC 59.761 55.000 20.56 10.93 0.00 2.93
4598 14142 6.266168 TCACCATTAGCATGTAAACAAAGG 57.734 37.500 0.00 0.00 0.00 3.11
4904 14485 2.523015 GAGCAAATGACTTTGATGCCG 58.477 47.619 2.41 0.00 40.88 5.69
5009 14599 6.263392 TCGACAGATCTAGATAACCCTCTTTG 59.737 42.308 4.89 0.00 0.00 2.77
5114 14716 5.070313 ACTTATGTTGCTGAATTTGGTTGGT 59.930 36.000 0.00 0.00 0.00 3.67
5179 14781 1.771854 TGAGTAGGGACCAAGCAACAA 59.228 47.619 0.00 0.00 0.00 2.83
5314 14919 1.610624 CCTTCTAGGAGCGCCAAAACA 60.611 52.381 9.88 0.00 37.67 2.83
5315 14920 1.087501 CCTTCTAGGAGCGCCAAAAC 58.912 55.000 9.88 0.00 37.67 2.43
5317 14922 1.602237 CCCTTCTAGGAGCGCCAAA 59.398 57.895 9.88 0.00 37.67 3.28
5318 14923 2.367202 CCCCTTCTAGGAGCGCCAA 61.367 63.158 9.88 0.00 37.67 4.52
5319 14924 2.764128 CCCCTTCTAGGAGCGCCA 60.764 66.667 9.88 0.00 37.67 5.69
5320 14925 4.243008 GCCCCTTCTAGGAGCGCC 62.243 72.222 2.29 0.00 37.67 6.53
5321 14926 4.593864 CGCCCCTTCTAGGAGCGC 62.594 72.222 8.66 0.00 37.67 5.92
5322 14927 3.148279 ACGCCCCTTCTAGGAGCG 61.148 66.667 18.25 18.25 45.95 5.03
5323 14928 2.022240 CTCACGCCCCTTCTAGGAGC 62.022 65.000 0.00 0.00 37.67 4.70
5324 14929 0.395862 TCTCACGCCCCTTCTAGGAG 60.396 60.000 0.00 0.00 37.67 3.69
5325 14930 0.395862 CTCTCACGCCCCTTCTAGGA 60.396 60.000 0.00 0.00 37.67 2.94
5326 14931 1.395826 CCTCTCACGCCCCTTCTAGG 61.396 65.000 0.00 0.00 34.30 3.02
5327 14932 1.395826 CCCTCTCACGCCCCTTCTAG 61.396 65.000 0.00 0.00 0.00 2.43
5328 14933 1.381327 CCCTCTCACGCCCCTTCTA 60.381 63.158 0.00 0.00 0.00 2.10
5329 14934 2.685380 CCCTCTCACGCCCCTTCT 60.685 66.667 0.00 0.00 0.00 2.85
5330 14935 4.475135 GCCCTCTCACGCCCCTTC 62.475 72.222 0.00 0.00 0.00 3.46
5371 14976 4.803908 CTTCCCTCTTGCCCGGCC 62.804 72.222 7.03 0.00 0.00 6.13
5372 14977 4.803908 CCTTCCCTCTTGCCCGGC 62.804 72.222 1.04 1.04 0.00 6.13
5373 14978 4.115199 CCCTTCCCTCTTGCCCGG 62.115 72.222 0.00 0.00 0.00 5.73
5374 14979 1.926426 AATCCCTTCCCTCTTGCCCG 61.926 60.000 0.00 0.00 0.00 6.13
5375 14980 0.336392 AAATCCCTTCCCTCTTGCCC 59.664 55.000 0.00 0.00 0.00 5.36
5376 14981 1.769026 GAAATCCCTTCCCTCTTGCC 58.231 55.000 0.00 0.00 0.00 4.52
5419 15024 4.148825 CTCTTGCTCGGTCGGGGG 62.149 72.222 0.00 0.00 0.00 5.40
5420 15025 4.148825 CCTCTTGCTCGGTCGGGG 62.149 72.222 0.00 0.00 0.00 5.73
5421 15026 4.148825 CCCTCTTGCTCGGTCGGG 62.149 72.222 0.00 0.00 0.00 5.14
5422 15027 2.564553 CTTCCCTCTTGCTCGGTCGG 62.565 65.000 0.00 0.00 0.00 4.79
5423 15028 1.153745 CTTCCCTCTTGCTCGGTCG 60.154 63.158 0.00 0.00 0.00 4.79
5424 15029 1.219393 CCTTCCCTCTTGCTCGGTC 59.781 63.158 0.00 0.00 0.00 4.79
5425 15030 2.294078 CCCTTCCCTCTTGCTCGGT 61.294 63.158 0.00 0.00 0.00 4.69
5426 15031 1.341156 ATCCCTTCCCTCTTGCTCGG 61.341 60.000 0.00 0.00 0.00 4.63
5427 15032 0.543749 AATCCCTTCCCTCTTGCTCG 59.456 55.000 0.00 0.00 0.00 5.03
5428 15033 2.649190 GAAATCCCTTCCCTCTTGCTC 58.351 52.381 0.00 0.00 0.00 4.26
5429 15034 2.816777 GAAATCCCTTCCCTCTTGCT 57.183 50.000 0.00 0.00 0.00 3.91
5496 15101 5.165961 TGGGATTCAAGTAAACCTCTCTG 57.834 43.478 0.00 0.00 30.82 3.35
5535 15140 4.367039 ACAAAAGTAGCTTGCTTAGGGA 57.633 40.909 0.00 0.00 0.00 4.20
5557 15162 8.248945 CCCGTCAGTCTTAAGAGTTAATTAGAA 58.751 37.037 10.23 0.00 0.00 2.10
5568 15173 3.887716 GGTATAGCCCGTCAGTCTTAAGA 59.112 47.826 0.00 0.00 0.00 2.10
5570 15175 2.620115 CGGTATAGCCCGTCAGTCTTAA 59.380 50.000 0.00 0.00 43.07 1.85
5596 15201 2.196742 ATGGACCTAATGAGCCTGGA 57.803 50.000 0.00 0.00 0.00 3.86
5611 15216 6.616137 TGTGGGGTGTAGTGTTATATAATGGA 59.384 38.462 0.00 0.00 0.00 3.41
5618 15223 6.196434 TGTCTATGTGGGGTGTAGTGTTATA 58.804 40.000 0.00 0.00 0.00 0.98
5619 15224 5.027460 TGTCTATGTGGGGTGTAGTGTTAT 58.973 41.667 0.00 0.00 0.00 1.89
5636 15246 2.482664 CGAGGACAAGCTGCATGTCTAT 60.483 50.000 29.67 21.34 45.13 1.98
5638 15248 0.390866 CGAGGACAAGCTGCATGTCT 60.391 55.000 29.67 19.14 45.13 3.41
5671 15281 6.183360 TGCGTCGAGTCATAGTTATAAGTTGA 60.183 38.462 0.00 0.48 0.00 3.18
5683 15293 2.425578 TTGTGTTGCGTCGAGTCATA 57.574 45.000 0.00 0.00 0.00 2.15
5704 15314 7.412853 AAAAGGCTTGTTTTTAGGTGTTAGA 57.587 32.000 0.00 0.00 0.00 2.10
5735 15345 6.206634 CAGGTTGAGAGTAATAAAACAAGCCA 59.793 38.462 0.00 0.00 36.74 4.75
5814 15424 2.891221 CGTGCACGTCCAACATGCA 61.891 57.895 30.50 0.00 46.73 3.96
5843 15453 0.253113 TGGTGTCCATGGGATCCAGA 60.253 55.000 15.23 0.00 36.75 3.86
5869 15479 4.009675 GCCATACACATGAACTCCTTTGA 58.990 43.478 0.00 0.00 33.67 2.69
5981 15632 2.360350 CTTCCCTGTGCGGTGCAT 60.360 61.111 0.00 0.00 41.91 3.96
6003 15654 0.465097 ATTCTCCATCGCAAGCCCTG 60.465 55.000 0.00 0.00 37.18 4.45
6045 15698 2.202690 CTGCGACATCGGCGGTTA 60.203 61.111 7.21 0.00 40.23 2.85
6068 15721 4.379243 CCCGCGAGCAGTGACCTT 62.379 66.667 8.23 0.00 0.00 3.50
6079 15732 1.953017 CATGTTGTTTTCCCCGCGA 59.047 52.632 8.23 0.00 0.00 5.87
6120 15944 4.856801 CGGGGATCTTGGGCACGG 62.857 72.222 0.00 0.00 0.00 4.94
6122 15946 2.124695 GTCGGGGATCTTGGGCAC 60.125 66.667 0.00 0.00 0.00 5.01
6154 15978 2.250939 CGTTGCGCAAAGGACCTCA 61.251 57.895 26.87 0.00 0.00 3.86
6170 15994 1.073199 CCTCCAAGTTGCCCTTCGT 59.927 57.895 0.00 0.00 0.00 3.85
6191 16015 4.694233 CGTGGTCTGCAGCTGCCT 62.694 66.667 34.64 0.00 41.18 4.75
6254 16078 3.858868 GACGACGGTGAGGCTGCAA 62.859 63.158 0.50 0.00 0.00 4.08
6271 16095 3.740397 CTACCCGCCACGTGTCGA 61.740 66.667 21.94 0.00 0.00 4.20
6293 16117 1.006571 GTCACCGCTTCCGTCTTGA 60.007 57.895 0.00 0.00 0.00 3.02
6313 16137 2.367202 ATCAAGTCCCCGCCATCGT 61.367 57.895 0.00 0.00 0.00 3.73
6332 16156 0.471617 AGGGCATCCACATCTAGCAC 59.528 55.000 0.00 0.00 34.83 4.40
6362 16186 1.596934 GACCTCGTTCCCATCAGCA 59.403 57.895 0.00 0.00 0.00 4.41


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

AutoCloner maintained by Alex Coulton.