Multiple sequence alignment - TraesCS5B01G508700

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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 TraesCS5B01G508700 chr5B 100.000 6955 0 0 1 6955 673940662 673933708 0.000000e+00 12844.0
1 TraesCS5B01G508700 chr5B 85.328 1738 183 34 2810 4546 673690443 673688777 0.000000e+00 1731.0
2 TraesCS5B01G508700 chr5B 81.294 1144 164 31 1696 2829 673691565 673690462 0.000000e+00 881.0
3 TraesCS5B01G508700 chr5B 82.965 951 125 14 3333 4282 597233409 597234323 0.000000e+00 824.0
4 TraesCS5B01G508700 chr5B 82.979 517 48 18 4077 4593 673765531 673765055 1.390000e-116 431.0
5 TraesCS5B01G508700 chr5B 89.213 343 33 3 5360 5699 673688239 673687898 6.450000e-115 425.0
6 TraesCS5B01G508700 chr5D 93.934 3330 107 36 836 4119 533869124 533865844 0.000000e+00 4942.0
7 TraesCS5B01G508700 chr5D 92.991 2454 106 30 4118 6522 533865750 533863314 0.000000e+00 3518.0
8 TraesCS5B01G508700 chr5D 85.167 2036 253 31 1681 3711 533666038 533664047 0.000000e+00 2041.0
9 TraesCS5B01G508700 chr5D 84.928 1526 159 34 3022 4546 533643164 533641709 0.000000e+00 1478.0
10 TraesCS5B01G508700 chr5D 84.145 1356 182 20 1681 3026 533644751 533643419 0.000000e+00 1282.0
11 TraesCS5B01G508700 chr5D 89.954 438 16 12 6521 6955 533863282 533862870 2.210000e-149 540.0
12 TraesCS5B01G508700 chr5D 83.002 553 52 20 4077 4628 533660354 533659843 4.910000e-126 462.0
13 TraesCS5B01G508700 chr5D 89.702 369 17 7 1 361 533869919 533869564 1.060000e-122 451.0
14 TraesCS5B01G508700 chr5D 89.213 343 33 3 5360 5699 533641169 533640828 6.450000e-115 425.0
15 TraesCS5B01G508700 chr5D 81.818 506 68 18 4858 5351 219765675 219766168 3.020000e-108 403.0
16 TraesCS5B01G508700 chr5D 88.047 343 37 3 5360 5699 533659463 533659122 3.020000e-108 403.0
17 TraesCS5B01G508700 chr5D 89.668 271 6 6 445 715 533869546 533869298 6.730000e-85 326.0
18 TraesCS5B01G508700 chr5D 85.207 169 15 5 916 1083 533666525 533666366 1.550000e-36 165.0
19 TraesCS5B01G508700 chr5D 82.192 73 7 3 1281 1349 533666221 533666151 2.710000e-04 58.4
20 TraesCS5B01G508700 chr4A 94.392 2550 110 15 3712 6231 638172428 638174974 0.000000e+00 3886.0
21 TraesCS5B01G508700 chr4A 93.667 2258 86 23 1498 3713 638170081 638172323 0.000000e+00 3325.0
22 TraesCS5B01G508700 chr4A 84.134 2874 356 48 1681 4546 638213921 638216702 0.000000e+00 2689.0
23 TraesCS5B01G508700 chr4A 88.615 729 33 13 786 1500 638169296 638169988 0.000000e+00 841.0
24 TraesCS5B01G508700 chr4A 86.775 741 36 28 1 712 638134798 638135505 0.000000e+00 769.0
25 TraesCS5B01G508700 chr4A 82.873 724 69 28 6272 6955 638175041 638175749 3.590000e-167 599.0
26 TraesCS5B01G508700 chr6D 84.814 2634 275 55 2031 4626 352908670 352906124 0.000000e+00 2532.0
27 TraesCS5B01G508700 chr6D 82.739 1066 121 20 3529 4594 406560116 406559114 0.000000e+00 891.0
28 TraesCS5B01G508700 chr6D 89.831 118 12 0 964 1081 352910034 352909917 1.210000e-32 152.0
29 TraesCS5B01G508700 chr4B 90.523 1530 116 17 1605 3127 14392074 14393581 0.000000e+00 1995.0
30 TraesCS5B01G508700 chr4B 90.145 1522 109 22 3120 4635 14393728 14395214 0.000000e+00 1941.0
31 TraesCS5B01G508700 chr4B 87.996 1133 96 23 4806 5904 14395264 14396390 0.000000e+00 1303.0
32 TraesCS5B01G508700 chr4B 79.551 401 43 18 994 1389 14391439 14391805 4.170000e-62 250.0
33 TraesCS5B01G508700 chr4B 89.474 152 9 3 6378 6522 14396627 14396778 1.190000e-42 185.0
34 TraesCS5B01G508700 chr6B 83.070 951 124 14 3333 4282 504290528 504291442 0.000000e+00 830.0
35 TraesCS5B01G508700 chr6B 81.447 636 84 20 4730 5351 687250800 687251415 2.250000e-134 490.0
36 TraesCS5B01G508700 chr3B 83.175 945 122 14 3339 4282 677306443 677305535 0.000000e+00 830.0
37 TraesCS5B01G508700 chr3B 82.965 951 124 15 3333 4282 144789947 144790860 0.000000e+00 824.0
38 TraesCS5B01G508700 chr3B 82.864 887 102 18 3740 4626 7079821 7080657 0.000000e+00 750.0
39 TraesCS5B01G508700 chr3B 83.701 816 99 13 3557 4364 631522147 631522936 0.000000e+00 739.0
40 TraesCS5B01G508700 chr3B 84.901 755 47 22 953 1701 820882002 820882695 0.000000e+00 701.0
41 TraesCS5B01G508700 chr3B 80.805 646 80 26 4730 5351 7080675 7081300 3.800000e-127 466.0
42 TraesCS5B01G508700 chr3B 80.155 645 85 21 4730 5351 631523005 631523629 6.400000e-120 442.0
43 TraesCS5B01G508700 chr3B 97.059 34 1 0 1681 1714 820882693 820882726 2.710000e-04 58.4
44 TraesCS5B01G508700 chr7A 83.067 815 87 18 3822 4635 94704709 94703945 0.000000e+00 693.0
45 TraesCS5B01G508700 chr7A 81.348 638 85 19 4730 5354 82160324 82159708 8.110000e-134 488.0
46 TraesCS5B01G508700 chr7B 81.221 639 86 19 4730 5354 606781712 606781094 1.050000e-132 484.0
47 TraesCS5B01G508700 chr7B 92.000 50 4 0 4691 4740 458521300 458521251 3.480000e-08 71.3
48 TraesCS5B01G508700 chr7B 89.362 47 4 1 6734 6779 48851128 48851082 2.710000e-04 58.4
49 TraesCS5B01G508700 chr3D 83.766 462 59 10 4003 4463 554073289 554072843 2.320000e-114 424.0
50 TraesCS5B01G508700 chr3D 79.439 107 15 6 4635 4739 326696175 326696074 1.250000e-07 69.4
51 TraesCS5B01G508700 chr1D 80.909 110 15 6 4633 4739 261260750 261260644 1.610000e-11 82.4
52 TraesCS5B01G508700 chr1D 92.593 54 3 1 4679 4731 475604466 475604519 7.480000e-10 76.8
53 TraesCS5B01G508700 chr2A 86.885 61 8 0 4672 4732 615347663 615347723 1.250000e-07 69.4
54 TraesCS5B01G508700 chr2D 89.091 55 3 2 4679 4732 330742339 330742391 1.620000e-06 65.8
55 TraesCS5B01G508700 chr6A 77.778 108 18 6 4631 4734 570936872 570936977 2.090000e-05 62.1


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 TraesCS5B01G508700 chr5B 673933708 673940662 6954 True 12844.000000 12844 100.000000 1 6955 1 chr5B.!!$R2 6954
1 TraesCS5B01G508700 chr5B 673687898 673691565 3667 True 1012.333333 1731 85.278333 1696 5699 3 chr5B.!!$R3 4003
2 TraesCS5B01G508700 chr5B 597233409 597234323 914 False 824.000000 824 82.965000 3333 4282 1 chr5B.!!$F1 949
3 TraesCS5B01G508700 chr5D 533862870 533869919 7049 True 1955.400000 4942 91.249800 1 6955 5 chr5D.!!$R3 6954
4 TraesCS5B01G508700 chr5D 533640828 533644751 3923 True 1061.666667 1478 86.095333 1681 5699 3 chr5D.!!$R1 4018
5 TraesCS5B01G508700 chr5D 533659122 533666525 7403 True 625.880000 2041 84.723000 916 5699 5 chr5D.!!$R2 4783
6 TraesCS5B01G508700 chr4A 638213921 638216702 2781 False 2689.000000 2689 84.134000 1681 4546 1 chr4A.!!$F2 2865
7 TraesCS5B01G508700 chr4A 638169296 638175749 6453 False 2162.750000 3886 89.886750 786 6955 4 chr4A.!!$F3 6169
8 TraesCS5B01G508700 chr4A 638134798 638135505 707 False 769.000000 769 86.775000 1 712 1 chr4A.!!$F1 711
9 TraesCS5B01G508700 chr6D 352906124 352910034 3910 True 1342.000000 2532 87.322500 964 4626 2 chr6D.!!$R2 3662
10 TraesCS5B01G508700 chr6D 406559114 406560116 1002 True 891.000000 891 82.739000 3529 4594 1 chr6D.!!$R1 1065
11 TraesCS5B01G508700 chr4B 14391439 14396778 5339 False 1134.800000 1995 87.537800 994 6522 5 chr4B.!!$F1 5528
12 TraesCS5B01G508700 chr6B 504290528 504291442 914 False 830.000000 830 83.070000 3333 4282 1 chr6B.!!$F1 949
13 TraesCS5B01G508700 chr6B 687250800 687251415 615 False 490.000000 490 81.447000 4730 5351 1 chr6B.!!$F2 621
14 TraesCS5B01G508700 chr3B 677305535 677306443 908 True 830.000000 830 83.175000 3339 4282 1 chr3B.!!$R1 943
15 TraesCS5B01G508700 chr3B 144789947 144790860 913 False 824.000000 824 82.965000 3333 4282 1 chr3B.!!$F1 949
16 TraesCS5B01G508700 chr3B 7079821 7081300 1479 False 608.000000 750 81.834500 3740 5351 2 chr3B.!!$F2 1611
17 TraesCS5B01G508700 chr3B 631522147 631523629 1482 False 590.500000 739 81.928000 3557 5351 2 chr3B.!!$F3 1794
18 TraesCS5B01G508700 chr3B 820882002 820882726 724 False 379.700000 701 90.980000 953 1714 2 chr3B.!!$F4 761
19 TraesCS5B01G508700 chr7A 94703945 94704709 764 True 693.000000 693 83.067000 3822 4635 1 chr7A.!!$R2 813
20 TraesCS5B01G508700 chr7A 82159708 82160324 616 True 488.000000 488 81.348000 4730 5354 1 chr7A.!!$R1 624
21 TraesCS5B01G508700 chr7B 606781094 606781712 618 True 484.000000 484 81.221000 4730 5354 1 chr7B.!!$R3 624

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
775 850 0.103390 GGCGTCTAGAAAGGAGGAGC 59.897 60.0 0.00 0.00 0.00 4.70 F
1454 1643 0.035881 ACCTGGCTGTGTGTCTGATG 59.964 55.0 0.00 0.00 0.00 3.07 F
2767 3678 2.500509 CGCAAAACTTAACTTGGGCA 57.499 45.0 0.00 0.00 0.00 5.36 F
3939 5588 1.032014 AGCACCAATCGTTTGCTTGT 58.968 45.0 0.47 0.00 44.26 3.16 F
4646 9786 1.443322 GCGGTAGTACTCCCTCCGTC 61.443 65.0 21.04 13.86 42.62 4.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2219 3110 1.065998 ACATACGGGGCTTTAGCGAAA 60.066 47.619 0.0 0.0 43.26 3.46 R
3277 4668 1.134280 CCTTCCCTCGTCTGCATGATT 60.134 52.381 0.0 0.0 0.00 2.57 R
4629 9764 0.257039 TGGACGGAGGGAGTACTACC 59.743 60.000 17.3 17.3 0.00 3.18 R
4786 9944 1.128200 TCGGGATCAGGGTGTTATGG 58.872 55.000 0.0 0.0 0.00 2.74 R
6054 11316 0.750546 TCGAGTAGGATGACCACGGG 60.751 60.000 0.0 0.0 38.94 5.28 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
31 32 3.435671 AGAAATAGCCGGTCGTTCTTTTG 59.564 43.478 1.90 0.00 0.00 2.44
41 42 4.214758 CGGTCGTTCTTTTGATAACCCTTT 59.785 41.667 0.00 0.00 0.00 3.11
80 81 5.135508 TCTTGGGAAGAAAGAAGTACTCG 57.864 43.478 0.00 0.00 33.83 4.18
94 98 2.863137 AGTACTCGCACTACTACTACGC 59.137 50.000 0.00 0.00 0.00 4.42
256 279 3.436728 CCGGGTAGGGCTACGTAC 58.563 66.667 0.00 0.00 36.94 3.67
257 280 1.152881 CCGGGTAGGGCTACGTACT 60.153 63.158 0.00 0.00 37.91 2.73
258 281 0.108585 CCGGGTAGGGCTACGTACTA 59.891 60.000 0.00 0.00 37.91 1.82
318 346 1.514443 GTAGCCTATCCGATCGCGC 60.514 63.158 10.32 0.00 35.83 6.86
357 394 0.891373 ATGTATCCGCCAGATCTCCG 59.109 55.000 0.00 0.00 36.33 4.63
358 395 0.179001 TGTATCCGCCAGATCTCCGA 60.179 55.000 12.56 0.00 36.33 4.55
359 396 0.241481 GTATCCGCCAGATCTCCGAC 59.759 60.000 12.56 1.68 36.33 4.79
360 397 0.894184 TATCCGCCAGATCTCCGACC 60.894 60.000 12.56 0.00 36.33 4.79
361 398 3.917760 CCGCCAGATCTCCGACCC 61.918 72.222 12.56 0.00 0.00 4.46
362 399 3.147595 CGCCAGATCTCCGACCCA 61.148 66.667 6.48 0.00 0.00 4.51
363 400 2.721167 CGCCAGATCTCCGACCCAA 61.721 63.158 6.48 0.00 0.00 4.12
364 401 1.153349 GCCAGATCTCCGACCCAAC 60.153 63.158 0.00 0.00 0.00 3.77
365 402 1.141881 CCAGATCTCCGACCCAACG 59.858 63.158 0.00 0.00 0.00 4.10
366 403 1.320344 CCAGATCTCCGACCCAACGA 61.320 60.000 0.00 0.00 35.09 3.85
367 404 0.530744 CAGATCTCCGACCCAACGAA 59.469 55.000 0.00 0.00 35.09 3.85
368 405 0.531200 AGATCTCCGACCCAACGAAC 59.469 55.000 0.00 0.00 35.09 3.95
369 406 0.459759 GATCTCCGACCCAACGAACC 60.460 60.000 0.00 0.00 35.09 3.62
415 452 4.697756 CGGCGCCCTCAGGTTTCA 62.698 66.667 23.46 0.00 34.57 2.69
418 455 2.115291 GCGCCCTCAGGTTTCATCC 61.115 63.158 0.00 0.00 34.57 3.51
426 463 3.507622 CCTCAGGTTTCATCCAGGTTTTC 59.492 47.826 0.00 0.00 0.00 2.29
437 474 3.455152 GGTTTTCCACCCCACTGC 58.545 61.111 0.00 0.00 40.19 4.40
728 800 1.903877 CGCCCCTTGACCAGTCAGAT 61.904 60.000 0.09 0.00 41.13 2.90
731 803 0.617413 CCCTTGACCAGTCAGATGCT 59.383 55.000 0.09 0.00 41.13 3.79
770 845 2.822707 ACCTAGGCGTCTAGAAAGGA 57.177 50.000 25.44 0.00 44.35 3.36
771 846 2.657143 ACCTAGGCGTCTAGAAAGGAG 58.343 52.381 25.44 9.72 44.35 3.69
772 847 1.957877 CCTAGGCGTCTAGAAAGGAGG 59.042 57.143 25.44 5.41 44.35 4.30
773 848 2.423088 CCTAGGCGTCTAGAAAGGAGGA 60.423 54.545 25.44 0.00 44.35 3.71
774 849 1.770294 AGGCGTCTAGAAAGGAGGAG 58.230 55.000 0.00 0.00 0.00 3.69
775 850 0.103390 GGCGTCTAGAAAGGAGGAGC 59.897 60.000 0.00 0.00 0.00 4.70
776 851 0.248702 GCGTCTAGAAAGGAGGAGCG 60.249 60.000 0.00 0.00 0.00 5.03
777 852 0.382515 CGTCTAGAAAGGAGGAGCGG 59.617 60.000 0.00 0.00 0.00 5.52
778 853 0.103390 GTCTAGAAAGGAGGAGCGGC 59.897 60.000 0.00 0.00 0.00 6.53
779 854 1.066587 CTAGAAAGGAGGAGCGGCG 59.933 63.158 0.51 0.51 0.00 6.46
780 855 2.356818 CTAGAAAGGAGGAGCGGCGG 62.357 65.000 9.78 0.00 0.00 6.13
781 856 4.840005 GAAAGGAGGAGCGGCGGG 62.840 72.222 9.78 0.00 0.00 6.13
818 893 2.816083 CGCGGGCCGACAAATGTA 60.816 61.111 33.44 0.00 40.02 2.29
904 1009 2.243602 AACCCTAGAACGCAAACGAA 57.756 45.000 0.00 0.00 43.93 3.85
908 1013 1.459592 CCTAGAACGCAAACGAACCAG 59.540 52.381 0.00 0.00 43.93 4.00
958 1064 2.884207 GTAAACCCTCGCTCGCCG 60.884 66.667 0.00 0.00 38.61 6.46
959 1065 3.063704 TAAACCCTCGCTCGCCGA 61.064 61.111 0.00 0.00 45.15 5.54
984 1090 2.874780 CTCTTCCGTTCGCCGACG 60.875 66.667 0.00 0.00 42.43 5.12
1197 1330 0.463833 GGGTCGCCTCCAAGGTATTG 60.464 60.000 0.00 0.00 37.80 1.90
1204 1337 2.914059 CCTCCAAGGTATTGTAACGGG 58.086 52.381 0.00 0.00 34.39 5.28
1265 1416 1.160137 GTTTAGAGTGTGGGCTGCTG 58.840 55.000 0.00 0.00 0.00 4.41
1266 1417 0.606401 TTTAGAGTGTGGGCTGCTGC 60.606 55.000 7.10 7.10 38.76 5.25
1267 1418 1.483595 TTAGAGTGTGGGCTGCTGCT 61.484 55.000 15.64 0.00 39.59 4.24
1268 1419 2.176314 TAGAGTGTGGGCTGCTGCTG 62.176 60.000 15.64 0.77 39.59 4.41
1319 1474 0.179004 AACTGTGGAATGGCGTTGGA 60.179 50.000 0.00 0.00 0.00 3.53
1394 1577 2.787680 CTCGAGAAGGTAATTTACGCCG 59.212 50.000 6.58 0.00 0.00 6.46
1404 1587 1.082117 ATTTACGCCGTCCGCTCTTG 61.082 55.000 0.00 0.00 41.76 3.02
1454 1643 0.035881 ACCTGGCTGTGTGTCTGATG 59.964 55.000 0.00 0.00 0.00 3.07
1507 1812 4.346129 GCACTTGCTGCATACATAAGAAC 58.654 43.478 1.84 0.00 46.29 3.01
1540 1845 3.059352 ACTGCTTGTAGCCTAAACCAG 57.941 47.619 0.00 0.00 41.51 4.00
1551 1856 9.969001 TTGTAGCCTAAACCAGAATAAAATAGT 57.031 29.630 0.00 0.00 0.00 2.12
1667 2010 5.839063 CCCAGTAATCCCAGTAATAGACAGA 59.161 44.000 0.00 0.00 0.00 3.41
1668 2011 6.239345 CCCAGTAATCCCAGTAATAGACAGAC 60.239 46.154 0.00 0.00 0.00 3.51
1669 2012 6.323996 CCAGTAATCCCAGTAATAGACAGACA 59.676 42.308 0.00 0.00 0.00 3.41
1670 2013 7.429633 CAGTAATCCCAGTAATAGACAGACAG 58.570 42.308 0.00 0.00 0.00 3.51
1724 2086 7.037438 TGTTTATGACGATTCAGTAACCTACC 58.963 38.462 0.00 0.00 34.35 3.18
1728 2090 3.858247 ACGATTCAGTAACCTACCTTGC 58.142 45.455 0.00 0.00 0.00 4.01
1898 2264 3.279434 ACTTCTTATGCCGATGGGTTTC 58.721 45.455 0.00 0.00 34.97 2.78
2067 2957 2.802816 GTGCTTATTCTGATAGCCACCG 59.197 50.000 0.00 0.00 0.00 4.94
2207 3098 7.041372 TGTGAAGAAGCTCATAAAACTTGGTAC 60.041 37.037 0.00 0.00 0.00 3.34
2229 3120 8.328864 GGTACATTTCTCTATGTTTCGCTAAAG 58.671 37.037 0.00 0.00 39.39 1.85
2273 3164 4.351192 AGAATGTTGCTCGTTTGTTTGAC 58.649 39.130 0.00 0.00 0.00 3.18
2303 3195 8.237267 CCTTAGCTTGACTAACATACCTTTTTG 58.763 37.037 0.00 0.00 35.89 2.44
2446 3344 5.343715 TGTCATAAGGGGTAGGAACTTGTA 58.656 41.667 0.00 0.00 41.75 2.41
2697 3606 4.924305 CAGGTTGGCATGCTATAATGTT 57.076 40.909 18.92 0.00 0.00 2.71
2748 3658 7.041372 TCCTGTTAACTTTTGTTACATCTCTGC 60.041 37.037 7.22 0.00 43.76 4.26
2749 3659 6.655062 TGTTAACTTTTGTTACATCTCTGCG 58.345 36.000 7.22 0.00 43.76 5.18
2767 3678 2.500509 CGCAAAACTTAACTTGGGCA 57.499 45.000 0.00 0.00 0.00 5.36
2793 3704 5.650703 AGGGAAATATTTTTGTAGTCACCCG 59.349 40.000 1.43 0.00 37.69 5.28
3024 4234 7.023197 ACAATTGCGGATAAGGTAAATGTAC 57.977 36.000 5.05 0.00 0.00 2.90
3043 4253 2.503331 ACTTCATTGACGTGATTGGCA 58.497 42.857 0.00 0.00 0.00 4.92
3062 4272 9.403110 GATTGGCATATCTTTATAACAAAGCTG 57.597 33.333 0.00 0.00 0.00 4.24
3277 4668 4.280929 TCTTCAGAACCACTTCTCATTCGA 59.719 41.667 0.00 0.00 34.20 3.71
3569 5029 8.638565 CCAGTAGTATTTCTTTTCATTTTTGCG 58.361 33.333 0.00 0.00 0.00 4.85
3592 5052 2.746279 TCCCAGTGTGGTTTTGTCAT 57.254 45.000 0.00 0.00 35.17 3.06
3653 5113 2.358898 TCAAAAGCTTGAAGTGGCAGAC 59.641 45.455 0.00 0.00 38.65 3.51
3797 5446 8.738645 AACATTCTCCTAATCCACAGTAATTC 57.261 34.615 0.00 0.00 0.00 2.17
3939 5588 1.032014 AGCACCAATCGTTTGCTTGT 58.968 45.000 0.47 0.00 44.26 3.16
4418 9460 7.275920 ACTTGGATAGTAAGTTGGATGATGTC 58.724 38.462 0.00 0.00 34.91 3.06
4617 9752 3.033659 TCCCACCTCAAGAGATCTACC 57.966 52.381 0.00 0.00 0.00 3.18
4629 9764 6.980978 TCAAGAGATCTACCTTTATTCTTGCG 59.019 38.462 0.00 0.00 39.68 4.85
4646 9786 1.443322 GCGGTAGTACTCCCTCCGTC 61.443 65.000 21.04 13.86 42.62 4.79
4657 9797 2.683362 CTCCCTCCGTCCAAAAATAAGC 59.317 50.000 0.00 0.00 0.00 3.09
4661 9801 2.739913 CTCCGTCCAAAAATAAGCGTCA 59.260 45.455 0.00 0.00 0.00 4.35
4672 9812 9.139174 CCAAAAATAAGCGTCATTGATTTAGTT 57.861 29.630 0.00 0.00 0.00 2.24
4681 9821 8.230486 AGCGTCATTGATTTAGTTCAAAGTTAG 58.770 33.333 0.00 0.00 38.98 2.34
4712 9852 8.458212 AGTTGTACTAAATTAGCGACACTTAC 57.542 34.615 7.58 5.03 0.00 2.34
4786 9944 0.459585 TCGCAACATTACTCCGCTCC 60.460 55.000 0.00 0.00 0.00 4.70
4811 9970 2.408565 ACACCCTGATCCCGACATTAT 58.591 47.619 0.00 0.00 0.00 1.28
4822 9982 3.587061 TCCCGACATTATTATGCTCCCAT 59.413 43.478 0.00 0.00 35.03 4.00
4890 10052 3.196469 TCTTTGCAGGTTCTCATCGAGAT 59.804 43.478 0.00 0.00 38.56 2.75
4909 10071 5.163933 CGAGATTTGCATTGAAAATGTTGGG 60.164 40.000 7.36 0.00 0.00 4.12
5021 10184 4.932200 GCCAGTATCTTGGGAGAATATTCG 59.068 45.833 9.78 0.00 38.72 3.34
5048 10222 8.437360 TCATCTATGCTATTTGTTCGTGAAAT 57.563 30.769 0.00 0.00 0.00 2.17
5059 10233 3.745975 TGTTCGTGAAATGAGCTACTTGG 59.254 43.478 0.00 0.00 33.83 3.61
5066 10240 6.093495 CGTGAAATGAGCTACTTGGGATAAAA 59.907 38.462 0.00 0.00 0.00 1.52
5091 10269 4.523943 TGCTTTTACTTGCATGACCTTCAT 59.476 37.500 6.60 0.00 37.65 2.57
5151 10341 9.740239 CAATGTGGAAATATTCTTATGAGTTGG 57.260 33.333 0.00 0.00 0.00 3.77
5189 10384 3.356290 GAATGTGTTGGTCCTTATGCCT 58.644 45.455 0.00 0.00 0.00 4.75
5191 10386 0.811281 GTGTTGGTCCTTATGCCTGC 59.189 55.000 0.00 0.00 0.00 4.85
5192 10387 0.698238 TGTTGGTCCTTATGCCTGCT 59.302 50.000 0.00 0.00 0.00 4.24
5281 10487 3.323979 CCAGTCTACACACAAACCTACCT 59.676 47.826 0.00 0.00 0.00 3.08
5282 10488 4.202326 CCAGTCTACACACAAACCTACCTT 60.202 45.833 0.00 0.00 0.00 3.50
5283 10489 5.011329 CCAGTCTACACACAAACCTACCTTA 59.989 44.000 0.00 0.00 0.00 2.69
5284 10490 5.924825 CAGTCTACACACAAACCTACCTTAC 59.075 44.000 0.00 0.00 0.00 2.34
5285 10491 5.011431 AGTCTACACACAAACCTACCTTACC 59.989 44.000 0.00 0.00 0.00 2.85
5294 10500 6.426025 CACAAACCTACCTTACCTACTGTTTC 59.574 42.308 0.00 0.00 0.00 2.78
5296 10502 3.766051 ACCTACCTTACCTACTGTTTCCG 59.234 47.826 0.00 0.00 0.00 4.30
5313 10520 1.546029 TCCGTGGTCTGACTCTTGATG 59.454 52.381 7.85 0.00 0.00 3.07
5631 10881 2.846206 TGCAGATGGATTCAGGTACCTT 59.154 45.455 13.15 0.00 0.00 3.50
5640 10890 5.130477 TGGATTCAGGTACCTTAGAATGACC 59.870 44.000 24.87 20.88 31.35 4.02
5642 10892 3.381335 TCAGGTACCTTAGAATGACCCC 58.619 50.000 13.15 0.00 0.00 4.95
5695 10946 3.992643 TCAAATTTGTGGACCATGCAAG 58.007 40.909 17.47 0.00 0.00 4.01
5707 10958 2.355756 ACCATGCAAGTGCGATGAATAC 59.644 45.455 13.72 0.00 45.83 1.89
5738 10989 9.991388 TCAACTATTTATTGCAATTTACGTACC 57.009 29.630 18.75 0.00 0.00 3.34
5762 11013 1.882912 TTGCACTGCTGAGTTGGTAG 58.117 50.000 1.98 0.00 0.00 3.18
5774 11028 5.241728 GCTGAGTTGGTAGTTTGAAGGAAAT 59.758 40.000 0.00 0.00 0.00 2.17
5810 11068 5.554636 CGCTGATACTCTGTTGAATTTGTC 58.445 41.667 0.00 0.00 0.00 3.18
5831 11092 2.670934 CGCTGCAGCTCCAAGGTT 60.671 61.111 34.22 0.00 39.32 3.50
5854 11115 1.337635 GGCTGCCTATCTGGAATCTCG 60.338 57.143 12.43 0.00 38.35 4.04
5876 11137 3.716872 GGGATTCCAAGGTGAAGGATCTA 59.283 47.826 4.80 0.00 33.10 1.98
5881 11142 2.223923 CCAAGGTGAAGGATCTAGCGAG 60.224 54.545 0.00 0.00 0.00 5.03
5915 11176 1.815421 GCTCATCGACGGTGGCATT 60.815 57.895 8.51 0.00 0.00 3.56
5930 11191 3.626670 GTGGCATTCTGAAGATTCCAGAG 59.373 47.826 0.00 0.00 41.16 3.35
5981 11242 4.436998 CGACGGGCCTCTCACCAC 62.437 72.222 0.84 0.00 0.00 4.16
5982 11243 2.997897 GACGGGCCTCTCACCACT 60.998 66.667 0.84 0.00 0.00 4.00
6049 11311 6.367695 TGTTGTGGATGAAAGAGTGTAATACG 59.632 38.462 0.00 0.00 0.00 3.06
6086 11348 3.945921 TCCTACTCGAGGTGTATGTTCAG 59.054 47.826 18.41 0.00 46.76 3.02
6161 11431 4.695606 AGGTTAATACTTGACTGGGGAGA 58.304 43.478 0.00 0.00 0.00 3.71
6265 11539 5.885449 TTCCACCTGATCCATTTTGTTTT 57.115 34.783 0.00 0.00 0.00 2.43
6306 11606 1.404583 GCCATGCATTTTCCACCTGAC 60.405 52.381 0.00 0.00 0.00 3.51
6368 11688 8.668510 ATGTTACTTTAGCCATATCAGTTGAG 57.331 34.615 0.00 0.00 0.00 3.02
6369 11689 6.538742 TGTTACTTTAGCCATATCAGTTGAGC 59.461 38.462 0.00 0.00 0.00 4.26
6370 11690 5.365021 ACTTTAGCCATATCAGTTGAGCT 57.635 39.130 0.00 0.00 0.00 4.09
6372 11692 6.889198 ACTTTAGCCATATCAGTTGAGCTAA 58.111 36.000 8.58 8.58 40.12 3.09
6373 11693 7.338710 ACTTTAGCCATATCAGTTGAGCTAAA 58.661 34.615 17.75 17.75 45.50 1.85
6375 11695 8.752005 TTTAGCCATATCAGTTGAGCTAAAAT 57.248 30.769 17.04 0.00 45.02 1.82
6376 11696 6.874288 AGCCATATCAGTTGAGCTAAAATC 57.126 37.500 0.00 0.00 0.00 2.17
6468 11808 3.985925 CGTTTATCACCCGAGCTAATACC 59.014 47.826 0.00 0.00 0.00 2.73
6522 11863 8.302515 AGGAAGAAAAATAGCATGACATCAAT 57.697 30.769 0.00 0.00 0.00 2.57
6580 11957 0.107897 TGTCATCTATGGCGCGGTTT 60.108 50.000 8.83 0.00 34.48 3.27
6597 11974 4.381079 GCGGTTTGGCTACATTTTAATCCA 60.381 41.667 0.00 0.00 0.00 3.41
6629 12006 4.460382 CCTCATGGCATGAAAAGTACTTGT 59.540 41.667 28.50 2.64 39.11 3.16
6675 12052 4.829872 TTCGGGATAGCTTTAAACCTCA 57.170 40.909 0.00 0.00 0.00 3.86
6677 12054 5.367945 TCGGGATAGCTTTAAACCTCAAT 57.632 39.130 0.00 0.00 0.00 2.57
6873 12255 5.336150 TGTGGAAACATGTGTGACATTTT 57.664 34.783 0.00 0.00 46.14 1.82
6907 12289 7.310609 GCATACCAGGGGCATTTATAAATCATT 60.311 37.037 7.76 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
31 32 1.361793 TGCGTGCGTAAAGGGTTATC 58.638 50.000 0.00 0.00 0.00 1.75
41 42 1.790755 AGAAATGTCTTGCGTGCGTA 58.209 45.000 0.00 0.00 0.00 4.42
80 81 1.012841 AGACCGCGTAGTAGTAGTGC 58.987 55.000 4.92 0.00 0.00 4.40
122 126 3.535280 ATCCGTTTGTTTGCAGGTTTT 57.465 38.095 0.00 0.00 0.00 2.43
173 177 1.078426 ATGTTGCCGGGTCACTAGC 60.078 57.895 2.18 0.00 0.00 3.42
249 268 5.573296 ATCTCGTTGATCGTAGTACGTAG 57.427 43.478 21.38 9.30 43.14 3.51
294 317 2.678836 CGATCGGATAGGCTACTGGTAG 59.321 54.545 7.38 3.62 36.29 3.18
318 346 4.424566 CCGTGTACGTGGTCGGGG 62.425 72.222 15.69 0.00 41.85 5.73
357 394 1.501337 GACGGTTGGTTCGTTGGGTC 61.501 60.000 0.00 0.00 41.22 4.46
358 395 1.524393 GACGGTTGGTTCGTTGGGT 60.524 57.895 0.00 0.00 41.22 4.51
359 396 2.255881 GGACGGTTGGTTCGTTGGG 61.256 63.158 0.00 0.00 41.22 4.12
360 397 1.226030 GAGGACGGTTGGTTCGTTGG 61.226 60.000 0.00 0.00 41.22 3.77
361 398 0.249741 AGAGGACGGTTGGTTCGTTG 60.250 55.000 0.00 0.00 41.22 4.10
362 399 0.033090 GAGAGGACGGTTGGTTCGTT 59.967 55.000 0.00 0.00 41.22 3.85
363 400 1.664306 GAGAGGACGGTTGGTTCGT 59.336 57.895 0.00 0.00 44.03 3.85
364 401 1.080025 GGAGAGGACGGTTGGTTCG 60.080 63.158 0.00 0.00 0.00 3.95
365 402 1.295746 GGGAGAGGACGGTTGGTTC 59.704 63.158 0.00 0.00 0.00 3.62
366 403 1.460689 TGGGAGAGGACGGTTGGTT 60.461 57.895 0.00 0.00 0.00 3.67
367 404 1.913762 CTGGGAGAGGACGGTTGGT 60.914 63.158 0.00 0.00 0.00 3.67
368 405 2.982130 CTGGGAGAGGACGGTTGG 59.018 66.667 0.00 0.00 0.00 3.77
369 406 2.266055 GCTGGGAGAGGACGGTTG 59.734 66.667 0.00 0.00 0.00 3.77
401 438 0.745845 CTGGATGAAACCTGAGGGCG 60.746 60.000 2.38 0.00 35.63 6.13
712 749 0.617413 AGCATCTGACTGGTCAAGGG 59.383 55.000 4.94 0.00 39.39 3.95
744 816 4.525949 GACGCCTAGGTTCGGCCC 62.526 72.222 11.31 0.00 44.73 5.80
749 821 3.022406 TCCTTTCTAGACGCCTAGGTTC 58.978 50.000 11.31 7.52 42.06 3.62
756 831 0.103390 GCTCCTCCTTTCTAGACGCC 59.897 60.000 0.00 0.00 0.00 5.68
814 889 1.825191 CGCATTGGGCCTGCTACAT 60.825 57.895 14.92 0.00 40.31 2.29
818 893 3.376078 CAACGCATTGGGCCTGCT 61.376 61.111 14.92 0.93 40.31 4.24
931 1037 4.948257 GGGTTTACCTGGTAGCGG 57.052 61.111 6.66 0.00 35.85 5.52
958 1064 0.388263 GAACGGAAGAGGACGGTGTC 60.388 60.000 0.00 0.00 0.00 3.67
959 1065 1.664306 GAACGGAAGAGGACGGTGT 59.336 57.895 0.00 0.00 0.00 4.16
961 1067 2.960170 CGAACGGAAGAGGACGGT 59.040 61.111 0.00 0.00 0.00 4.83
1186 1319 3.175594 AGTCCCGTTACAATACCTTGGA 58.824 45.455 0.00 0.00 36.64 3.53
1197 1330 3.413846 AAAGGAAAGGAGTCCCGTTAC 57.586 47.619 5.25 1.00 38.59 2.50
1204 1337 3.214328 TCACAGCAAAAGGAAAGGAGTC 58.786 45.455 0.00 0.00 0.00 3.36
1231 1364 2.375174 TCTAAACCAACACCCATGCTCT 59.625 45.455 0.00 0.00 0.00 4.09
1272 1423 1.516365 AACTCAAGCAGCAGCAGCAG 61.516 55.000 12.92 3.34 45.49 4.24
1273 1424 1.105167 AAACTCAAGCAGCAGCAGCA 61.105 50.000 12.92 0.00 45.49 4.41
1274 1425 0.663568 CAAACTCAAGCAGCAGCAGC 60.664 55.000 3.17 0.46 45.49 5.25
1275 1426 0.949397 TCAAACTCAAGCAGCAGCAG 59.051 50.000 3.17 0.00 45.49 4.24
1276 1427 0.949397 CTCAAACTCAAGCAGCAGCA 59.051 50.000 3.17 0.00 45.49 4.41
1277 1428 0.386985 GCTCAAACTCAAGCAGCAGC 60.387 55.000 0.00 0.00 38.42 5.25
1278 1429 1.236628 AGCTCAAACTCAAGCAGCAG 58.763 50.000 0.00 0.00 41.06 4.24
1279 1430 2.549064 TAGCTCAAACTCAAGCAGCA 57.451 45.000 0.00 0.00 41.06 4.41
1280 1431 3.904136 TTTAGCTCAAACTCAAGCAGC 57.096 42.857 0.00 0.00 41.06 5.25
1281 1432 5.210715 CAGTTTTAGCTCAAACTCAAGCAG 58.789 41.667 20.55 7.32 43.75 4.24
1282 1433 4.640201 ACAGTTTTAGCTCAAACTCAAGCA 59.360 37.500 20.55 0.00 43.75 3.91
1319 1474 0.327924 TCGGACATTTCCTGCCACAT 59.672 50.000 0.00 0.00 40.23 3.21
1394 1577 1.135139 TCTGAGCATACAAGAGCGGAC 59.865 52.381 0.00 0.00 35.48 4.79
1404 1587 4.214758 TGCACATGCATAATCTGAGCATAC 59.785 41.667 1.49 0.00 46.39 2.39
1435 1624 0.035881 CATCAGACACACAGCCAGGT 59.964 55.000 0.00 0.00 0.00 4.00
1454 1643 6.056428 ACTTTGAACATACAAGGAAACGTC 57.944 37.500 0.00 0.00 32.52 4.34
1504 1809 9.722056 CTACAAGCAGTATTAAATGATTGGTTC 57.278 33.333 16.21 0.00 44.83 3.62
1507 1812 7.013655 AGGCTACAAGCAGTATTAAATGATTGG 59.986 37.037 16.21 5.63 44.83 3.16
1724 2086 2.415893 CCCCAAATTAGAGTTGCGCAAG 60.416 50.000 25.78 8.23 43.44 4.01
1728 2090 1.135402 GCACCCCAAATTAGAGTTGCG 60.135 52.381 0.00 0.00 0.00 4.85
1898 2264 6.072175 GGTTACTAGCCTGTAGAGATGATGAG 60.072 46.154 0.00 0.00 0.00 2.90
2207 3098 6.195165 GGCTTTAGCGAAACATAGAGAAATG 58.805 40.000 0.00 0.00 43.26 2.32
2219 3110 1.065998 ACATACGGGGCTTTAGCGAAA 60.066 47.619 0.00 0.00 43.26 3.46
2229 3120 3.880490 TCACATATGAAAACATACGGGGC 59.120 43.478 10.38 0.00 0.00 5.80
2446 3344 3.370104 ACTCCTGCTGCTCTTATACACT 58.630 45.455 0.00 0.00 0.00 3.55
2697 3606 6.710295 ACACTACAAAGCAGATGTATGACAAA 59.290 34.615 0.00 0.00 33.12 2.83
2748 3658 2.034053 TCTGCCCAAGTTAAGTTTTGCG 59.966 45.455 8.33 4.95 0.00 4.85
2749 3659 3.552890 CCTCTGCCCAAGTTAAGTTTTGC 60.553 47.826 6.60 6.60 0.00 3.68
2767 3678 6.890268 GGGTGACTACAAAAATATTTCCCTCT 59.110 38.462 0.10 0.00 0.00 3.69
3024 4234 3.770263 ATGCCAATCACGTCAATGAAG 57.230 42.857 0.00 0.00 30.82 3.02
3072 4282 6.403527 CGATATGCTGAAGAAACATTTCACCA 60.404 38.462 7.10 3.55 39.61 4.17
3277 4668 1.134280 CCTTCCCTCGTCTGCATGATT 60.134 52.381 0.00 0.00 0.00 2.57
3564 5024 1.202830 ACCACACTGGGAATACGCAAA 60.203 47.619 0.00 0.00 43.37 3.68
3569 5029 3.886505 TGACAAAACCACACTGGGAATAC 59.113 43.478 0.00 0.00 43.37 1.89
3574 5034 3.817709 AAATGACAAAACCACACTGGG 57.182 42.857 0.00 0.00 43.37 4.45
3592 5052 7.901029 TCCTGAAATGCATTACCATGTTAAAA 58.099 30.769 13.39 0.00 32.28 1.52
3653 5113 3.603532 TCACCAAGAGCAAGCTTCATAG 58.396 45.455 0.00 0.00 0.00 2.23
3797 5446 4.463891 ACTTGGAAGCATAAAACCATCTGG 59.536 41.667 0.00 0.00 42.17 3.86
4418 9460 0.523072 CCCCATGTTCTTTGTCAGCG 59.477 55.000 0.00 0.00 0.00 5.18
4617 9752 5.048507 GGGAGTACTACCGCAAGAATAAAG 58.951 45.833 8.84 0.00 43.02 1.85
4629 9764 0.257039 TGGACGGAGGGAGTACTACC 59.743 60.000 17.30 17.30 0.00 3.18
4646 9786 8.687824 ACTAAATCAATGACGCTTATTTTTGG 57.312 30.769 0.00 0.00 0.00 3.28
4700 9840 2.352030 CGTCCCAAAGTAAGTGTCGCTA 60.352 50.000 0.00 0.00 0.00 4.26
4712 9852 1.139058 CATACTCCCTCCGTCCCAAAG 59.861 57.143 0.00 0.00 0.00 2.77
4756 9896 4.694037 AGTAATGTTGCGACTAGGTTTTCC 59.306 41.667 5.50 0.00 41.05 3.13
4786 9944 1.128200 TCGGGATCAGGGTGTTATGG 58.872 55.000 0.00 0.00 0.00 2.74
4811 9970 4.219944 GGATACGTGACTATGGGAGCATAA 59.780 45.833 0.00 0.00 0.00 1.90
4822 9982 4.458256 TGGATTAGGGGATACGTGACTA 57.542 45.455 0.00 0.00 37.60 2.59
4890 10052 4.141528 ACTCCCCAACATTTTCAATGCAAA 60.142 37.500 0.00 0.00 0.00 3.68
4909 10071 5.107182 GCCGAAGTTTGTTCTAAGTAACTCC 60.107 44.000 0.00 0.00 30.92 3.85
5021 10184 7.234187 TCACGAACAAATAGCATAGATGAAC 57.766 36.000 0.00 0.00 0.00 3.18
5038 10201 3.125316 CCCAAGTAGCTCATTTCACGAAC 59.875 47.826 0.00 0.00 0.00 3.95
5048 10222 5.509498 AGCATTTTTATCCCAAGTAGCTCA 58.491 37.500 0.00 0.00 0.00 4.26
5109 10299 8.956533 TTCCACATTGTCGAATAATAATCAGA 57.043 30.769 0.00 0.00 0.00 3.27
5151 10341 2.568623 TTCCAGAGAAAAGGCTCCAC 57.431 50.000 0.00 0.00 35.49 4.02
5189 10384 7.993101 AGTGAATAACAGTAATACTACGAGCA 58.007 34.615 0.00 0.00 32.87 4.26
5281 10487 3.006110 CAGACCACGGAAACAGTAGGTAA 59.994 47.826 0.00 0.00 0.00 2.85
5282 10488 2.559668 CAGACCACGGAAACAGTAGGTA 59.440 50.000 0.00 0.00 0.00 3.08
5283 10489 1.343465 CAGACCACGGAAACAGTAGGT 59.657 52.381 0.00 0.00 0.00 3.08
5284 10490 1.616865 TCAGACCACGGAAACAGTAGG 59.383 52.381 0.00 0.00 0.00 3.18
5285 10491 2.296471 AGTCAGACCACGGAAACAGTAG 59.704 50.000 0.00 0.00 0.00 2.57
5294 10500 2.001812 CATCAAGAGTCAGACCACGG 57.998 55.000 0.00 0.00 0.00 4.94
5296 10502 2.462456 TGCATCAAGAGTCAGACCAC 57.538 50.000 0.00 0.00 0.00 4.16
5313 10520 7.362662 TCTTCAACAGTCAATTACTCATTTGC 58.637 34.615 0.00 0.00 35.76 3.68
5631 10881 5.333581 ACATATCGATGAGGGGTCATTCTA 58.666 41.667 8.54 0.00 36.48 2.10
5640 10890 2.298446 ACAGCTGACATATCGATGAGGG 59.702 50.000 23.35 0.00 36.48 4.30
5642 10892 7.598118 AGATTAAACAGCTGACATATCGATGAG 59.402 37.037 23.35 2.58 36.48 2.90
5695 10946 8.841444 AATAGTTGAAATTGTATTCATCGCAC 57.159 30.769 0.00 0.00 38.98 5.34
5722 10973 4.981806 ATGCAGGTACGTAAATTGCAAT 57.018 36.364 24.45 5.99 46.44 3.56
5762 11013 8.807581 CGCATTATTCCTTTATTTCCTTCAAAC 58.192 33.333 0.00 0.00 0.00 2.93
5774 11028 6.646653 CAGAGTATCAGCGCATTATTCCTTTA 59.353 38.462 11.47 0.00 37.82 1.85
5783 11041 3.251479 TCAACAGAGTATCAGCGCATT 57.749 42.857 11.47 0.00 37.82 3.56
5831 11092 1.141657 GATTCCAGATAGGCAGCCACA 59.858 52.381 15.80 0.17 37.29 4.17
5854 11115 2.511637 AGATCCTTCACCTTGGAATCCC 59.488 50.000 0.00 0.00 35.81 3.85
5876 11137 2.755876 TGCACCTCGGATCTCGCT 60.756 61.111 0.00 0.00 39.05 4.93
5915 11176 5.121811 GCTTTATGCTCTGGAATCTTCAGA 58.878 41.667 0.00 0.00 38.75 3.27
5930 11191 1.656652 TCTTCTCCGCTGCTTTATGC 58.343 50.000 0.00 0.00 43.25 3.14
5981 11242 1.007734 CTGCTTGTGTTGCTGGCAG 60.008 57.895 10.94 10.94 43.03 4.85
5982 11243 2.491897 CCTGCTTGTGTTGCTGGCA 61.492 57.895 0.00 0.00 41.32 4.92
6012 11274 2.906897 ACAACAGGCAAGCACGGG 60.907 61.111 0.00 0.00 0.00 5.28
6049 11311 1.135721 GTAGGATGACCACGGGTGTAC 59.864 57.143 0.00 0.00 35.25 2.90
6054 11316 0.750546 TCGAGTAGGATGACCACGGG 60.751 60.000 0.00 0.00 38.94 5.28
6161 11431 4.875536 TCACACGAATATGTAGCAGCAAAT 59.124 37.500 0.00 0.00 0.00 2.32
6351 11652 7.992608 TGATTTTAGCTCAACTGATATGGCTAA 59.007 33.333 0.00 6.91 39.46 3.09
6368 11688 6.044046 TGCATGTTCCATCAATGATTTTAGC 58.956 36.000 0.00 0.00 0.00 3.09
6369 11689 8.657074 AATGCATGTTCCATCAATGATTTTAG 57.343 30.769 0.00 0.00 0.00 1.85
6370 11690 7.711772 GGAATGCATGTTCCATCAATGATTTTA 59.288 33.333 13.21 0.00 45.63 1.52
6372 11692 6.053005 GGAATGCATGTTCCATCAATGATTT 58.947 36.000 13.21 0.00 45.63 2.17
6373 11693 5.607477 GGAATGCATGTTCCATCAATGATT 58.393 37.500 13.21 0.00 45.63 2.57
6375 11695 4.659111 GGAATGCATGTTCCATCAATGA 57.341 40.909 13.21 0.00 45.63 2.57
6468 11808 3.169099 TCTCTGTTCTCTCTTTCCCCTG 58.831 50.000 0.00 0.00 0.00 4.45
6580 11957 3.876914 CTCGCTGGATTAAAATGTAGCCA 59.123 43.478 0.00 0.00 0.00 4.75
6613 11990 6.701400 ACAAATTCCACAAGTACTTTTCATGC 59.299 34.615 5.07 0.00 0.00 4.06
6648 12025 6.374613 AGGTTTAAAGCTATCCCGAAAAGAAG 59.625 38.462 18.01 0.00 34.49 2.85
6650 12027 5.812286 AGGTTTAAAGCTATCCCGAAAAGA 58.188 37.500 18.01 0.00 34.49 2.52
6651 12028 5.646360 TGAGGTTTAAAGCTATCCCGAAAAG 59.354 40.000 19.35 0.00 36.78 2.27
6652 12029 5.562635 TGAGGTTTAAAGCTATCCCGAAAA 58.437 37.500 19.35 0.00 36.78 2.29
6653 12030 5.168647 TGAGGTTTAAAGCTATCCCGAAA 57.831 39.130 19.35 0.00 36.78 3.46
6654 12031 4.829872 TGAGGTTTAAAGCTATCCCGAA 57.170 40.909 19.35 0.00 36.78 4.30
6655 12032 4.829872 TTGAGGTTTAAAGCTATCCCGA 57.170 40.909 19.35 4.97 36.78 5.14
6675 12052 5.012148 AGGAGCCGCATGTTCTAACTATATT 59.988 40.000 0.00 0.00 0.00 1.28
6677 12054 3.895656 AGGAGCCGCATGTTCTAACTATA 59.104 43.478 0.00 0.00 0.00 1.31
6821 12203 1.685765 TGCCCAGGCTCATCTACGT 60.686 57.895 10.58 0.00 42.51 3.57
6873 12255 1.768870 GCCCCTGGTATGCTTCTTCTA 59.231 52.381 0.00 0.00 0.00 2.10


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

AutoCloner maintained by Alex Coulton.