Multiple sequence alignment - TraesCS4B01G391000

Loading Multiple Alignment...

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 TraesCS4B01G391000 chr4B 100.000 2600 0 0 1 2600 666729599 666727000 0.000000e+00 4802.0
1 TraesCS4B01G391000 chr4B 92.058 831 42 6 907 1737 669341551 669340745 0.000000e+00 1147.0
2 TraesCS4B01G391000 chr4B 91.876 837 37 9 907 1736 669559223 669560035 0.000000e+00 1140.0
3 TraesCS4B01G391000 chr4B 91.721 761 43 5 907 1667 668650545 668651285 0.000000e+00 1038.0
4 TraesCS4B01G391000 chr4B 89.461 835 62 11 907 1737 668216638 668217450 0.000000e+00 1031.0
5 TraesCS4B01G391000 chr4B 92.350 719 33 3 966 1669 668403348 668404059 0.000000e+00 1003.0
6 TraesCS4B01G391000 chr4B 88.601 772 66 10 966 1737 669161606 669160857 0.000000e+00 918.0
7 TraesCS4B01G391000 chr4B 87.244 831 70 12 907 1737 668973864 668974658 0.000000e+00 915.0
8 TraesCS4B01G391000 chr4B 87.565 772 62 18 966 1737 668446634 668447371 0.000000e+00 863.0
9 TraesCS4B01G391000 chr4B 95.685 533 20 3 2069 2600 599462652 599462122 0.000000e+00 854.0
10 TraesCS4B01G391000 chr4B 85.749 821 66 14 907 1727 668513927 668514696 0.000000e+00 821.0
11 TraesCS4B01G391000 chr4B 94.737 532 16 8 2069 2600 669143142 669142623 0.000000e+00 817.0
12 TraesCS4B01G391000 chr4B 94.382 534 24 4 2069 2600 599587302 599586773 0.000000e+00 815.0
13 TraesCS4B01G391000 chr4B 94.549 532 17 8 2069 2600 669304582 669304063 0.000000e+00 811.0
14 TraesCS4B01G391000 chr4B 85.000 840 79 23 907 1737 668364414 668365215 0.000000e+00 809.0
15 TraesCS4B01G391000 chr4B 94.173 532 19 7 2069 2600 668990936 668991455 0.000000e+00 800.0
16 TraesCS4B01G391000 chr4B 94.173 532 17 7 2069 2600 668622907 668623424 0.000000e+00 798.0
17 TraesCS4B01G391000 chr4B 93.832 535 19 7 2069 2600 668227985 668228508 0.000000e+00 793.0
18 TraesCS4B01G391000 chr4B 93.797 532 23 6 2069 2600 668373556 668374077 0.000000e+00 791.0
19 TraesCS4B01G391000 chr4B 93.271 535 19 7 2069 2600 669587759 669588279 0.000000e+00 773.0
20 TraesCS4B01G391000 chr4B 93.084 535 23 6 2069 2600 668525059 668525582 0.000000e+00 771.0
21 TraesCS4B01G391000 chr4B 92.897 535 23 6 2069 2600 669484122 669484644 0.000000e+00 763.0
22 TraesCS4B01G391000 chr4B 92.551 537 23 6 2069 2600 668905839 668906363 0.000000e+00 754.0
23 TraesCS4B01G391000 chr4B 96.175 183 6 1 1761 1943 599587560 599587379 5.440000e-77 298.0
24 TraesCS4B01G391000 chr4B 95.604 182 6 1 1759 1940 668365435 668365614 9.100000e-75 291.0
25 TraesCS4B01G391000 chr4B 95.604 182 6 1 1759 1940 668974897 668975076 9.100000e-75 291.0
26 TraesCS4B01G391000 chr4B 95.135 185 7 1 1759 1943 669160618 669160436 9.100000e-75 291.0
27 TraesCS4B01G391000 chr4B 95.135 185 7 1 1759 1943 669340505 669340323 9.100000e-75 291.0
28 TraesCS4B01G391000 chr4B 95.055 182 7 1 1759 1940 668217690 668217869 4.230000e-73 285.0
29 TraesCS4B01G391000 chr4B 95.055 182 7 1 1759 1940 668447601 668447780 4.230000e-73 285.0
30 TraesCS4B01G391000 chr4B 93.956 182 9 1 1759 1940 669473568 669473747 9.170000e-70 274.0
31 TraesCS4B01G391000 chr4B 93.407 182 10 1 1759 1940 668514888 668515067 4.260000e-68 268.0
32 TraesCS4B01G391000 chr4B 96.581 117 4 0 781 897 668512592 668512708 7.340000e-46 195.0
33 TraesCS4B01G391000 chr4B 96.581 117 4 0 781 897 668587236 668587352 7.340000e-46 195.0
34 TraesCS4B01G391000 chr4B 97.321 112 3 0 786 897 668891221 668891332 9.500000e-45 191.0
35 TraesCS4B01G391000 chr4B 87.500 168 9 6 733 897 668445399 668445557 1.590000e-42 183.0
36 TraesCS4B01G391000 chr4B 97.183 71 1 1 2002 2072 643500558 643500627 4.550000e-23 119.0
37 TraesCS4B01G391000 chr4B 98.438 64 1 0 2006 2069 52658910 52658847 2.110000e-21 113.0
38 TraesCS4B01G391000 chr4B 79.570 186 12 11 724 909 456361164 456361323 2.740000e-20 110.0
39 TraesCS4B01G391000 chr4B 92.857 42 2 1 1962 2003 668227954 668227994 2.790000e-05 60.2
40 TraesCS4B01G391000 chr4B 92.857 42 2 1 1962 2003 668373525 668373565 2.790000e-05 60.2
41 TraesCS4B01G391000 chr4B 92.857 42 2 1 1962 2003 668525028 668525068 2.790000e-05 60.2
42 TraesCS4B01G391000 chr4B 92.857 42 2 1 1962 2003 668622876 668622916 2.790000e-05 60.2
43 TraesCS4B01G391000 chr4B 92.857 42 2 1 1962 2003 668905808 668905848 2.790000e-05 60.2
44 TraesCS4B01G391000 chr4B 92.857 42 2 1 1962 2003 668990905 668990945 2.790000e-05 60.2
45 TraesCS4B01G391000 chr4B 92.857 42 2 1 1962 2003 669304613 669304573 2.790000e-05 60.2
46 TraesCS4B01G391000 chr4B 92.857 42 2 1 1962 2003 669484091 669484131 2.790000e-05 60.2
47 TraesCS4B01G391000 chr4B 92.857 42 2 1 1962 2003 669587728 669587768 2.790000e-05 60.2
48 TraesCS4B01G391000 chrUn 90.537 856 42 12 907 1737 29364861 29364020 0.000000e+00 1096.0
49 TraesCS4B01G391000 chrUn 89.576 825 53 14 907 1727 99649775 99650570 0.000000e+00 1016.0
50 TraesCS4B01G391000 chrUn 88.327 831 66 14 907 1737 28897778 28898577 0.000000e+00 968.0
51 TraesCS4B01G391000 chrUn 82.345 776 74 32 907 1669 30530453 30529728 1.320000e-172 616.0
52 TraesCS4B01G391000 chrUn 94.048 84 2 3 770 851 99649086 99649168 9.770000e-25 124.0
53 TraesCS4B01G391000 chrUn 78.481 158 10 16 724 871 29603252 29603109 5.960000e-12 82.4
54 TraesCS4B01G391000 chr5A 92.398 763 31 5 907 1669 707984139 707984874 0.000000e+00 1062.0
55 TraesCS4B01G391000 chr5A 85.233 772 83 18 907 1669 709530876 709531625 0.000000e+00 765.0
56 TraesCS4B01G391000 chr5A 80.144 418 61 10 163 562 669851118 669851531 2.530000e-75 292.0
57 TraesCS4B01G391000 chr5A 89.928 139 7 3 733 864 707577862 707578000 3.440000e-39 172.0
58 TraesCS4B01G391000 chr5A 86.905 168 5 7 733 897 707982714 707982867 3.440000e-39 172.0
59 TraesCS4B01G391000 chr5A 86.364 88 10 2 261 346 126262586 126262673 7.660000e-16 95.3
60 TraesCS4B01G391000 chr5A 80.667 150 6 8 766 897 684312021 684312165 7.660000e-16 95.3
61 TraesCS4B01G391000 chr5A 94.000 50 1 2 786 833 707847951 707848000 9.980000e-10 75.0
62 TraesCS4B01G391000 chr5B 88.217 628 40 8 1 611 118921003 118920393 0.000000e+00 719.0
63 TraesCS4B01G391000 chr5B 85.632 174 21 4 165 335 118920942 118920770 2.060000e-41 180.0
64 TraesCS4B01G391000 chr5B 83.696 184 19 6 165 347 528776200 528776027 2.070000e-36 163.0
65 TraesCS4B01G391000 chr5B 95.588 68 3 0 2002 2069 470276513 470276580 2.740000e-20 110.0
66 TraesCS4B01G391000 chr5B 97.778 45 1 0 611 655 118920352 118920308 7.710000e-11 78.7
67 TraesCS4B01G391000 chr5B 100.000 31 0 0 305 335 557901346 557901316 1.000000e-04 58.4
68 TraesCS4B01G391000 chr4A 80.512 508 74 14 74 562 61885242 61885743 1.470000e-97 366.0
69 TraesCS4B01G391000 chr2A 80.543 442 64 8 138 562 15724723 15725159 1.160000e-83 320.0
70 TraesCS4B01G391000 chr2A 90.123 81 8 0 257 337 344443459 344443539 3.540000e-19 106.0
71 TraesCS4B01G391000 chr7B 80.482 415 53 13 165 562 615891796 615892199 2.530000e-75 292.0
72 TraesCS4B01G391000 chr7B 80.241 415 54 13 165 562 615924163 615924566 1.180000e-73 287.0
73 TraesCS4B01G391000 chr7B 98.438 64 1 0 2006 2069 145795237 145795174 2.110000e-21 113.0
74 TraesCS4B01G391000 chr7B 95.588 68 3 0 2002 2069 744317735 744317802 2.740000e-20 110.0
75 TraesCS4B01G391000 chr1B 80.482 415 53 13 165 562 198416718 198417121 2.530000e-75 292.0
76 TraesCS4B01G391000 chr7A 79.665 418 64 12 163 562 403988926 403989340 5.480000e-72 281.0
77 TraesCS4B01G391000 chr2B 80.926 367 52 7 212 562 98401293 98401657 9.170000e-70 274.0
78 TraesCS4B01G391000 chr2B 81.421 183 32 2 165 346 98392915 98393096 5.800000e-32 148.0
79 TraesCS4B01G391000 chr2B 98.438 64 1 0 2006 2069 200655829 200655766 2.110000e-21 113.0
80 TraesCS4B01G391000 chr3D 81.783 258 33 9 1 246 556934436 556934691 1.220000e-48 204.0
81 TraesCS4B01G391000 chr3B 98.438 64 1 0 2006 2069 784901348 784901285 2.110000e-21 113.0
82 TraesCS4B01G391000 chr6B 95.588 68 3 0 2002 2069 189278301 189278234 2.740000e-20 110.0
83 TraesCS4B01G391000 chr6B 95.588 68 3 0 2002 2069 321325528 321325461 2.740000e-20 110.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS4B01G391000 chr4B 666727000 666729599 2599 True 4802.000000 4802 100.000000 1 2600 1 chr4B.!!$R3 2599
1 TraesCS4B01G391000 chr4B 669559223 669560035 812 False 1140.000000 1140 91.876000 907 1736 1 chr4B.!!$F8 829
2 TraesCS4B01G391000 chr4B 668650545 668651285 740 False 1038.000000 1038 91.721000 907 1667 1 chr4B.!!$F5 760
3 TraesCS4B01G391000 chr4B 668403348 668404059 711 False 1003.000000 1003 92.350000 966 1669 1 chr4B.!!$F3 703
4 TraesCS4B01G391000 chr4B 599462122 599462652 530 True 854.000000 854 95.685000 2069 2600 1 chr4B.!!$R2 531
5 TraesCS4B01G391000 chr4B 669142623 669143142 519 True 817.000000 817 94.737000 2069 2600 1 chr4B.!!$R4 531
6 TraesCS4B01G391000 chr4B 669340323 669341551 1228 True 719.000000 1147 93.596500 907 1943 2 chr4B.!!$R8 1036
7 TraesCS4B01G391000 chr4B 668216638 668217869 1231 False 658.000000 1031 92.258000 907 1940 2 chr4B.!!$F9 1033
8 TraesCS4B01G391000 chr4B 669160436 669161606 1170 True 604.500000 918 91.868000 966 1943 2 chr4B.!!$R6 977
9 TraesCS4B01G391000 chr4B 668973864 668975076 1212 False 603.000000 915 91.424000 907 1940 2 chr4B.!!$F18 1033
10 TraesCS4B01G391000 chr4B 599586773 599587560 787 True 556.500000 815 95.278500 1761 2600 2 chr4B.!!$R5 839
11 TraesCS4B01G391000 chr4B 668364414 668365614 1200 False 550.000000 809 90.302000 907 1940 2 chr4B.!!$F11 1033
12 TraesCS4B01G391000 chr4B 668445399 668447780 2381 False 443.666667 863 90.040000 733 1940 3 chr4B.!!$F13 1207
13 TraesCS4B01G391000 chr4B 669304063 669304613 550 True 435.600000 811 93.703000 1962 2600 2 chr4B.!!$R7 638
14 TraesCS4B01G391000 chr4B 668990905 668991455 550 False 430.100000 800 93.515000 1962 2600 2 chr4B.!!$F19 638
15 TraesCS4B01G391000 chr4B 668622876 668623424 548 False 429.100000 798 93.515000 1962 2600 2 chr4B.!!$F16 638
16 TraesCS4B01G391000 chr4B 668512592 668515067 2475 False 428.000000 821 91.912333 781 1940 3 chr4B.!!$F14 1159
17 TraesCS4B01G391000 chr4B 668227954 668228508 554 False 426.600000 793 93.344500 1962 2600 2 chr4B.!!$F10 638
18 TraesCS4B01G391000 chr4B 668373525 668374077 552 False 425.600000 791 93.327000 1962 2600 2 chr4B.!!$F12 638
19 TraesCS4B01G391000 chr4B 669587728 669588279 551 False 416.600000 773 93.064000 1962 2600 2 chr4B.!!$F21 638
20 TraesCS4B01G391000 chr4B 668525028 668525582 554 False 415.600000 771 92.970500 1962 2600 2 chr4B.!!$F15 638
21 TraesCS4B01G391000 chr4B 669484091 669484644 553 False 411.600000 763 92.877000 1962 2600 2 chr4B.!!$F20 638
22 TraesCS4B01G391000 chr4B 668905808 668906363 555 False 407.100000 754 92.704000 1962 2600 2 chr4B.!!$F17 638
23 TraesCS4B01G391000 chrUn 29364020 29364861 841 True 1096.000000 1096 90.537000 907 1737 1 chrUn.!!$R1 830
24 TraesCS4B01G391000 chrUn 28897778 28898577 799 False 968.000000 968 88.327000 907 1737 1 chrUn.!!$F1 830
25 TraesCS4B01G391000 chrUn 30529728 30530453 725 True 616.000000 616 82.345000 907 1669 1 chrUn.!!$R3 762
26 TraesCS4B01G391000 chrUn 99649086 99650570 1484 False 570.000000 1016 91.812000 770 1727 2 chrUn.!!$F2 957
27 TraesCS4B01G391000 chr5A 709530876 709531625 749 False 765.000000 765 85.233000 907 1669 1 chr5A.!!$F6 762
28 TraesCS4B01G391000 chr5A 707982714 707984874 2160 False 617.000000 1062 89.651500 733 1669 2 chr5A.!!$F7 936
29 TraesCS4B01G391000 chr5B 118920308 118921003 695 True 325.900000 719 90.542333 1 655 3 chr5B.!!$R3 654
30 TraesCS4B01G391000 chr4A 61885242 61885743 501 False 366.000000 366 80.512000 74 562 1 chr4A.!!$F1 488

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
425 434 0.10212 TGGACGGTTGCAGCAAAAAG 59.898 50.0 10.11 6.8 0.0 2.27 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2009 3734 0.036164 ACCGCCACAGAGCATACAAA 59.964 50.0 0.0 0.0 0.0 2.83 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
64 65 3.633951 AAAAAGGGCGTCGTCGTC 58.366 55.556 3.66 0.04 41.29 4.20
65 66 2.305127 AAAAAGGGCGTCGTCGTCG 61.305 57.895 7.53 7.53 43.10 5.12
66 67 2.959220 AAAAAGGGCGTCGTCGTCGT 62.959 55.000 13.09 0.00 43.10 4.34
122 123 3.325870 TCTAGCGAATGTCAACACCAAG 58.674 45.455 0.00 0.00 0.00 3.61
143 144 1.535462 AGTAGCAAAACATGACACCGC 59.465 47.619 0.00 0.00 0.00 5.68
150 151 1.518056 AACATGACACCGCTTGCAGG 61.518 55.000 0.00 0.00 0.00 4.85
200 201 3.305335 CCCTTGTGAATGGTTGTAGCAAC 60.305 47.826 3.62 3.62 0.00 4.17
233 235 4.032104 GGTAGTAGCAAAAATACGACACCG 59.968 45.833 0.00 0.00 42.50 4.94
278 280 1.211969 CGTCGGTGTCCTCGTGAAT 59.788 57.895 0.00 0.00 0.00 2.57
407 416 4.177165 TGCCAGTCATAGCAAAAACATG 57.823 40.909 0.00 0.00 35.69 3.21
425 434 0.102120 TGGACGGTTGCAGCAAAAAG 59.898 50.000 10.11 6.80 0.00 2.27
439 448 2.620585 GCAAAAAGACTCAGCTGGTTCT 59.379 45.455 15.13 12.75 0.00 3.01
451 460 4.644685 TCAGCTGGTTCTAGCAAAAAGTTT 59.355 37.500 15.13 0.00 46.07 2.66
473 483 2.241722 GTTCGTCGGTTGCATCATTTG 58.758 47.619 0.00 0.00 0.00 2.32
484 494 2.144730 GCATCATTTGTTTTGCCTGCA 58.855 42.857 0.00 0.00 0.00 4.41
494 504 0.527113 TTTGCCTGCATGGTTCATCG 59.473 50.000 0.00 0.00 38.35 3.84
504 514 4.036567 CATGGTTCATCGATGCAACAAT 57.963 40.909 26.97 22.53 0.00 2.71
534 554 2.412770 GCAAAAATCAATCAGCCGGTTG 59.587 45.455 12.81 12.81 0.00 3.77
544 564 0.238289 CAGCCGGTTGCAGTAAGTTG 59.762 55.000 4.99 0.00 44.83 3.16
567 587 1.334243 GTCGTCGGTCAGGGAATCTAG 59.666 57.143 0.00 0.00 0.00 2.43
571 591 3.551046 CGTCGGTCAGGGAATCTAGAATG 60.551 52.174 0.00 0.00 0.00 2.67
583 603 6.292389 GAATCTAGAATGATTCGGTGGTTG 57.708 41.667 0.00 0.00 41.62 3.77
584 604 5.614324 ATCTAGAATGATTCGGTGGTTGA 57.386 39.130 0.00 0.00 34.02 3.18
585 605 5.614324 TCTAGAATGATTCGGTGGTTGAT 57.386 39.130 0.00 0.00 34.02 2.57
586 606 5.601662 TCTAGAATGATTCGGTGGTTGATC 58.398 41.667 0.00 0.00 34.02 2.92
587 607 3.545703 AGAATGATTCGGTGGTTGATCC 58.454 45.455 0.00 0.00 34.02 3.36
625 686 4.260538 GCGAGCGATTGATTCTCAGAAAAT 60.261 41.667 0.00 0.00 0.00 1.82
655 716 1.951510 CCTGACAAGCGTGTGCATT 59.048 52.632 10.87 0.00 46.23 3.56
656 717 0.386352 CCTGACAAGCGTGTGCATTG 60.386 55.000 10.87 0.00 46.23 2.82
657 718 0.386352 CTGACAAGCGTGTGCATTGG 60.386 55.000 10.87 0.00 46.23 3.16
658 719 1.081242 GACAAGCGTGTGCATTGGG 60.081 57.895 10.87 0.00 46.23 4.12
659 720 1.795170 GACAAGCGTGTGCATTGGGT 61.795 55.000 10.87 0.00 46.23 4.51
660 721 1.081242 CAAGCGTGTGCATTGGGTC 60.081 57.895 0.00 0.00 46.23 4.46
661 722 2.616330 AAGCGTGTGCATTGGGTCG 61.616 57.895 0.00 0.00 46.23 4.79
662 723 3.047280 GCGTGTGCATTGGGTCGA 61.047 61.111 0.00 0.00 42.15 4.20
663 724 2.398554 GCGTGTGCATTGGGTCGAT 61.399 57.895 0.00 0.00 42.15 3.59
664 725 1.715585 CGTGTGCATTGGGTCGATC 59.284 57.895 0.00 0.00 0.00 3.69
665 726 1.705337 CGTGTGCATTGGGTCGATCC 61.705 60.000 8.12 8.12 0.00 3.36
692 753 4.025401 CGCACCGGCTGGAAACAC 62.025 66.667 21.41 1.14 39.21 3.32
693 754 2.594592 GCACCGGCTGGAAACACT 60.595 61.111 21.41 0.00 39.21 3.55
694 755 2.193536 GCACCGGCTGGAAACACTT 61.194 57.895 21.41 0.00 39.21 3.16
695 756 1.734388 GCACCGGCTGGAAACACTTT 61.734 55.000 21.41 0.00 39.21 2.66
696 757 0.310854 CACCGGCTGGAAACACTTTC 59.689 55.000 21.41 0.00 39.21 2.62
709 770 5.382618 AAACACTTTCCATCAGAGAATGC 57.617 39.130 0.00 0.00 0.00 3.56
710 771 4.298103 ACACTTTCCATCAGAGAATGCT 57.702 40.909 0.00 0.00 0.00 3.79
711 772 4.660168 ACACTTTCCATCAGAGAATGCTT 58.340 39.130 0.00 0.00 0.00 3.91
712 773 5.075493 ACACTTTCCATCAGAGAATGCTTT 58.925 37.500 0.00 0.00 0.00 3.51
713 774 5.048224 ACACTTTCCATCAGAGAATGCTTTG 60.048 40.000 0.00 0.00 0.00 2.77
714 775 4.082354 ACTTTCCATCAGAGAATGCTTTGC 60.082 41.667 0.00 0.00 0.00 3.68
715 776 3.361281 TCCATCAGAGAATGCTTTGCT 57.639 42.857 0.00 0.00 0.00 3.91
716 777 3.693807 TCCATCAGAGAATGCTTTGCTT 58.306 40.909 0.00 0.00 0.00 3.91
717 778 4.084287 TCCATCAGAGAATGCTTTGCTTT 58.916 39.130 0.00 0.00 0.00 3.51
718 779 4.525487 TCCATCAGAGAATGCTTTGCTTTT 59.475 37.500 0.00 0.00 0.00 2.27
719 780 5.711506 TCCATCAGAGAATGCTTTGCTTTTA 59.288 36.000 0.00 0.00 0.00 1.52
720 781 5.803967 CCATCAGAGAATGCTTTGCTTTTAC 59.196 40.000 0.00 0.00 0.00 2.01
721 782 5.034554 TCAGAGAATGCTTTGCTTTTACG 57.965 39.130 0.00 0.00 0.00 3.18
722 783 4.083324 TCAGAGAATGCTTTGCTTTTACGG 60.083 41.667 0.00 0.00 0.00 4.02
723 784 3.821033 AGAGAATGCTTTGCTTTTACGGT 59.179 39.130 0.00 0.00 0.00 4.83
724 785 4.278419 AGAGAATGCTTTGCTTTTACGGTT 59.722 37.500 0.00 0.00 0.00 4.44
725 786 5.472137 AGAGAATGCTTTGCTTTTACGGTTA 59.528 36.000 0.00 0.00 0.00 2.85
726 787 5.458015 AGAATGCTTTGCTTTTACGGTTAC 58.542 37.500 0.00 0.00 0.00 2.50
727 788 3.629438 TGCTTTGCTTTTACGGTTACC 57.371 42.857 0.00 0.00 0.00 2.85
728 789 2.293955 TGCTTTGCTTTTACGGTTACCC 59.706 45.455 0.00 0.00 0.00 3.69
729 790 2.352030 GCTTTGCTTTTACGGTTACCCC 60.352 50.000 0.00 0.00 0.00 4.95
730 791 1.908344 TTGCTTTTACGGTTACCCCC 58.092 50.000 0.00 0.00 0.00 5.40
768 829 5.488919 CCTCCCTCCTATATCATAAAAGCCA 59.511 44.000 0.00 0.00 0.00 4.75
787 848 4.147449 CCGCACTCCATCGCCTCA 62.147 66.667 0.00 0.00 0.00 3.86
874 955 1.410932 CCTCGTCCTCCTCTCCAGATT 60.411 57.143 0.00 0.00 0.00 2.40
988 2380 2.745492 GCTGCAGCCTTCTTCGCT 60.745 61.111 28.76 0.00 36.91 4.93
1347 2742 4.051237 CAGCTGTTGCGCTCTTACATATA 58.949 43.478 9.73 0.00 45.42 0.86
1348 2743 4.687948 CAGCTGTTGCGCTCTTACATATAT 59.312 41.667 9.73 0.00 45.42 0.86
1349 2744 5.863935 CAGCTGTTGCGCTCTTACATATATA 59.136 40.000 9.73 0.00 45.42 0.86
1350 2745 6.533012 CAGCTGTTGCGCTCTTACATATATAT 59.467 38.462 9.73 0.00 45.42 0.86
1351 2746 7.702348 CAGCTGTTGCGCTCTTACATATATATA 59.298 37.037 9.73 0.00 45.42 0.86
1352 2747 8.417106 AGCTGTTGCGCTCTTACATATATATAT 58.583 33.333 9.73 0.00 45.42 0.86
1694 3146 9.315363 ACCCTTTATGTTTGGATGTGTTATTAA 57.685 29.630 0.00 0.00 0.00 1.40
1737 3197 9.614792 GATATGTATCTTGGGTAGTGTTTTCTT 57.385 33.333 0.00 0.00 0.00 2.52
1738 3198 7.923414 ATGTATCTTGGGTAGTGTTTTCTTC 57.077 36.000 0.00 0.00 0.00 2.87
1739 3199 6.833041 TGTATCTTGGGTAGTGTTTTCTTCA 58.167 36.000 0.00 0.00 0.00 3.02
1740 3200 6.934645 TGTATCTTGGGTAGTGTTTTCTTCAG 59.065 38.462 0.00 0.00 0.00 3.02
1742 3202 2.858745 TGGGTAGTGTTTTCTTCAGCC 58.141 47.619 0.00 0.00 0.00 4.85
1743 3203 2.173782 TGGGTAGTGTTTTCTTCAGCCA 59.826 45.455 0.00 0.00 0.00 4.75
1744 3204 3.219281 GGGTAGTGTTTTCTTCAGCCAA 58.781 45.455 0.00 0.00 0.00 4.52
1745 3205 3.634910 GGGTAGTGTTTTCTTCAGCCAAA 59.365 43.478 0.00 0.00 0.00 3.28
1746 3206 4.098807 GGGTAGTGTTTTCTTCAGCCAAAA 59.901 41.667 0.00 0.00 0.00 2.44
1747 3207 5.281727 GGTAGTGTTTTCTTCAGCCAAAAG 58.718 41.667 0.00 0.00 0.00 2.27
1748 3208 5.163550 GGTAGTGTTTTCTTCAGCCAAAAGT 60.164 40.000 0.00 0.00 0.00 2.66
1749 3209 5.405935 AGTGTTTTCTTCAGCCAAAAGTT 57.594 34.783 0.00 0.00 0.00 2.66
1750 3210 5.170748 AGTGTTTTCTTCAGCCAAAAGTTG 58.829 37.500 0.00 0.00 0.00 3.16
1766 3462 1.068055 AGTTGGCGACGTTACTAGTGG 60.068 52.381 5.39 0.00 0.00 4.00
1780 3476 8.033626 ACGTTACTAGTGGAATCTCTTAAAAGG 58.966 37.037 5.39 0.00 0.00 3.11
1910 3606 1.314730 AACCGGTTTGGCAAGTAGTG 58.685 50.000 15.86 0.00 43.94 2.74
1943 3639 8.810427 CCGTAAATAAAGAAACATAAGAGCGTA 58.190 33.333 0.00 0.00 0.00 4.42
1995 3720 7.921041 ATGTAAGTAAGGATGGAGATGAAGA 57.079 36.000 0.00 0.00 0.00 2.87
1996 3721 7.921041 TGTAAGTAAGGATGGAGATGAAGAT 57.079 36.000 0.00 0.00 0.00 2.40
1997 3722 7.730084 TGTAAGTAAGGATGGAGATGAAGATG 58.270 38.462 0.00 0.00 0.00 2.90
1998 3723 5.822132 AGTAAGGATGGAGATGAAGATGG 57.178 43.478 0.00 0.00 0.00 3.51
1999 3724 5.222870 AGTAAGGATGGAGATGAAGATGGT 58.777 41.667 0.00 0.00 0.00 3.55
2000 3725 4.434545 AAGGATGGAGATGAAGATGGTG 57.565 45.455 0.00 0.00 0.00 4.17
2001 3726 3.391774 AGGATGGAGATGAAGATGGTGT 58.608 45.455 0.00 0.00 0.00 4.16
2002 3727 3.136077 AGGATGGAGATGAAGATGGTGTG 59.864 47.826 0.00 0.00 0.00 3.82
2003 3728 3.135348 GGATGGAGATGAAGATGGTGTGA 59.865 47.826 0.00 0.00 0.00 3.58
2004 3729 3.616956 TGGAGATGAAGATGGTGTGAC 57.383 47.619 0.00 0.00 0.00 3.67
2005 3730 3.176411 TGGAGATGAAGATGGTGTGACT 58.824 45.455 0.00 0.00 0.00 3.41
2006 3731 3.196469 TGGAGATGAAGATGGTGTGACTC 59.804 47.826 0.00 0.00 0.00 3.36
2007 3732 3.450457 GGAGATGAAGATGGTGTGACTCT 59.550 47.826 0.00 0.00 0.00 3.24
2008 3733 4.431809 GAGATGAAGATGGTGTGACTCTG 58.568 47.826 0.00 0.00 0.00 3.35
2009 3734 3.837146 AGATGAAGATGGTGTGACTCTGT 59.163 43.478 0.00 0.00 0.00 3.41
2010 3735 4.285517 AGATGAAGATGGTGTGACTCTGTT 59.714 41.667 0.00 0.00 0.00 3.16
2011 3736 4.422073 TGAAGATGGTGTGACTCTGTTT 57.578 40.909 0.00 0.00 0.00 2.83
2012 3737 4.129380 TGAAGATGGTGTGACTCTGTTTG 58.871 43.478 0.00 0.00 0.00 2.93
2013 3738 3.845781 AGATGGTGTGACTCTGTTTGT 57.154 42.857 0.00 0.00 0.00 2.83
2014 3739 4.955811 AGATGGTGTGACTCTGTTTGTA 57.044 40.909 0.00 0.00 0.00 2.41
2015 3740 5.489792 AGATGGTGTGACTCTGTTTGTAT 57.510 39.130 0.00 0.00 0.00 2.29
2016 3741 5.240891 AGATGGTGTGACTCTGTTTGTATG 58.759 41.667 0.00 0.00 0.00 2.39
2017 3742 3.138304 TGGTGTGACTCTGTTTGTATGC 58.862 45.455 0.00 0.00 0.00 3.14
2018 3743 3.181455 TGGTGTGACTCTGTTTGTATGCT 60.181 43.478 0.00 0.00 0.00 3.79
2019 3744 3.433615 GGTGTGACTCTGTTTGTATGCTC 59.566 47.826 0.00 0.00 0.00 4.26
2020 3745 4.310769 GTGTGACTCTGTTTGTATGCTCT 58.689 43.478 0.00 0.00 0.00 4.09
2021 3746 4.151335 GTGTGACTCTGTTTGTATGCTCTG 59.849 45.833 0.00 0.00 0.00 3.35
2022 3747 4.202253 TGTGACTCTGTTTGTATGCTCTGT 60.202 41.667 0.00 0.00 0.00 3.41
2023 3748 4.151335 GTGACTCTGTTTGTATGCTCTGTG 59.849 45.833 0.00 0.00 0.00 3.66
2024 3749 3.668447 ACTCTGTTTGTATGCTCTGTGG 58.332 45.455 0.00 0.00 0.00 4.17
2025 3750 2.417933 CTCTGTTTGTATGCTCTGTGGC 59.582 50.000 0.00 0.00 0.00 5.01
2026 3751 1.129251 CTGTTTGTATGCTCTGTGGCG 59.871 52.381 0.00 0.00 34.52 5.69
2027 3752 0.447801 GTTTGTATGCTCTGTGGCGG 59.552 55.000 0.00 0.00 34.52 6.13
2028 3753 0.036164 TTTGTATGCTCTGTGGCGGT 59.964 50.000 0.00 0.00 34.52 5.68
2029 3754 0.036164 TTGTATGCTCTGTGGCGGTT 59.964 50.000 0.00 0.00 34.52 4.44
2030 3755 0.036164 TGTATGCTCTGTGGCGGTTT 59.964 50.000 0.00 0.00 34.52 3.27
2031 3756 0.447801 GTATGCTCTGTGGCGGTTTG 59.552 55.000 0.00 0.00 34.52 2.93
2032 3757 0.036164 TATGCTCTGTGGCGGTTTGT 59.964 50.000 0.00 0.00 34.52 2.83
2033 3758 0.823356 ATGCTCTGTGGCGGTTTGTT 60.823 50.000 0.00 0.00 34.52 2.83
2034 3759 1.034838 TGCTCTGTGGCGGTTTGTTT 61.035 50.000 0.00 0.00 34.52 2.83
2035 3760 0.102300 GCTCTGTGGCGGTTTGTTTT 59.898 50.000 0.00 0.00 0.00 2.43
2036 3761 1.335496 GCTCTGTGGCGGTTTGTTTTA 59.665 47.619 0.00 0.00 0.00 1.52
2037 3762 2.030274 GCTCTGTGGCGGTTTGTTTTAT 60.030 45.455 0.00 0.00 0.00 1.40
2038 3763 3.189702 GCTCTGTGGCGGTTTGTTTTATA 59.810 43.478 0.00 0.00 0.00 0.98
2039 3764 4.142469 GCTCTGTGGCGGTTTGTTTTATAT 60.142 41.667 0.00 0.00 0.00 0.86
2040 3765 5.065474 GCTCTGTGGCGGTTTGTTTTATATA 59.935 40.000 0.00 0.00 0.00 0.86
2041 3766 6.238648 GCTCTGTGGCGGTTTGTTTTATATAT 60.239 38.462 0.00 0.00 0.00 0.86
2042 3767 7.041644 GCTCTGTGGCGGTTTGTTTTATATATA 60.042 37.037 0.00 0.00 0.00 0.86
2043 3768 8.734218 TCTGTGGCGGTTTGTTTTATATATAA 57.266 30.769 0.81 0.81 0.00 0.98
2044 3769 9.175312 TCTGTGGCGGTTTGTTTTATATATAAA 57.825 29.630 12.90 12.90 0.00 1.40
2045 3770 9.445786 CTGTGGCGGTTTGTTTTATATATAAAG 57.554 33.333 15.65 6.16 34.13 1.85
2046 3771 7.916450 TGTGGCGGTTTGTTTTATATATAAAGC 59.084 33.333 19.61 19.61 34.13 3.51
2048 3773 6.579666 GGCGGTTTGTTTTATATATAAAGCGG 59.420 38.462 21.62 12.75 46.18 5.52
2049 3774 6.579666 GCGGTTTGTTTTATATATAAAGCGGG 59.420 38.462 21.62 12.98 46.18 6.13
2050 3775 7.079475 CGGTTTGTTTTATATATAAAGCGGGG 58.921 38.462 20.48 9.29 43.94 5.73
2051 3776 6.864685 GGTTTGTTTTATATATAAAGCGGGGC 59.135 38.462 20.48 13.21 36.59 5.80
2052 3777 5.866335 TGTTTTATATATAAAGCGGGGCG 57.134 39.130 20.48 0.00 36.59 6.13
2053 3778 5.549347 TGTTTTATATATAAAGCGGGGCGA 58.451 37.500 20.48 5.82 36.59 5.54
2054 3779 5.996513 TGTTTTATATATAAAGCGGGGCGAA 59.003 36.000 20.48 5.28 36.59 4.70
2055 3780 6.485984 TGTTTTATATATAAAGCGGGGCGAAA 59.514 34.615 20.48 4.74 36.59 3.46
2056 3781 6.730960 TTTATATATAAAGCGGGGCGAAAG 57.269 37.500 12.90 0.00 0.00 2.62
2057 3782 6.348704 TTTTATATATAAAGCGGGGCGAAAGC 60.349 38.462 15.65 0.00 43.80 3.51
2081 3806 2.202878 CGGTAGATGGTGTGGCGG 60.203 66.667 0.00 0.00 0.00 6.13
2089 3814 3.443045 GGTGTGGCGGCAAGGATG 61.443 66.667 15.50 0.00 0.00 3.51
2098 3823 2.094234 GGCGGCAAGGATGTAACAAAAT 60.094 45.455 3.07 0.00 0.00 1.82
2144 3869 1.796459 GCGACGTTCCTTGTTACACAT 59.204 47.619 0.00 0.00 0.00 3.21
2147 3872 2.546368 GACGTTCCTTGTTACACATGCA 59.454 45.455 0.00 0.00 0.00 3.96
2148 3873 2.946329 ACGTTCCTTGTTACACATGCAA 59.054 40.909 0.00 0.00 0.00 4.08
2170 3895 1.740718 GCCCAACAAACGCTCCAAAAA 60.741 47.619 0.00 0.00 0.00 1.94
2201 3926 1.698506 TTCCTCAAACAACGGCCAAT 58.301 45.000 2.24 0.00 0.00 3.16
2355 4081 5.710099 TCCTATCCAAACACTCCACATTTTC 59.290 40.000 0.00 0.00 0.00 2.29
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
122 123 2.412847 GCGGTGTCATGTTTTGCTACTC 60.413 50.000 0.00 0.00 0.00 2.59
200 201 2.665649 TGCTACTACCATGTTGACGG 57.334 50.000 0.00 0.00 0.00 4.79
240 242 0.309612 GTGGCGACGACCATTTTTGT 59.690 50.000 12.93 0.00 43.01 2.83
278 280 2.839975 TGTTGACGATTGCTACAACCA 58.160 42.857 0.00 0.00 40.91 3.67
351 353 3.188460 ACAACTATTGATGACGTGTTGGC 59.812 43.478 13.51 0.00 39.03 4.52
353 355 4.628081 CGACAACTATTGATGACGTGTTG 58.372 43.478 0.00 0.42 40.11 3.33
354 356 3.122948 GCGACAACTATTGATGACGTGTT 59.877 43.478 0.00 0.00 36.78 3.32
355 357 2.666508 GCGACAACTATTGATGACGTGT 59.333 45.455 0.00 0.00 36.78 4.49
356 358 2.666022 TGCGACAACTATTGATGACGTG 59.334 45.455 0.00 0.00 36.78 4.49
357 359 2.954316 TGCGACAACTATTGATGACGT 58.046 42.857 10.03 0.00 36.78 4.34
407 416 0.383949 TCTTTTTGCTGCAACCGTCC 59.616 50.000 15.72 0.00 0.00 4.79
425 434 2.751166 TTGCTAGAACCAGCTGAGTC 57.249 50.000 17.39 11.87 42.30 3.36
451 460 1.518325 ATGATGCAACCGACGAACAA 58.482 45.000 0.00 0.00 0.00 2.83
473 483 2.340337 GATGAACCATGCAGGCAAAAC 58.660 47.619 0.00 0.00 43.14 2.43
484 494 4.724074 AATTGTTGCATCGATGAACCAT 57.276 36.364 29.20 20.46 0.00 3.55
494 504 3.916761 TGCTGGAAGAAATTGTTGCATC 58.083 40.909 0.00 0.00 34.07 3.91
504 514 5.697633 GCTGATTGATTTTTGCTGGAAGAAA 59.302 36.000 0.00 0.00 34.07 2.52
534 554 0.782384 CGACGACCACAACTTACTGC 59.218 55.000 0.00 0.00 0.00 4.40
544 564 1.885163 ATTCCCTGACCGACGACCAC 61.885 60.000 0.00 0.00 0.00 4.16
567 587 3.278574 TGGATCAACCACCGAATCATTC 58.721 45.455 0.00 0.00 44.64 2.67
583 603 1.943340 GCTTTCGTTCCTGGATGGATC 59.057 52.381 0.00 0.00 45.68 3.36
584 604 1.743772 CGCTTTCGTTCCTGGATGGAT 60.744 52.381 0.00 0.00 45.68 3.41
585 605 0.391130 CGCTTTCGTTCCTGGATGGA 60.391 55.000 0.00 0.00 44.51 3.41
586 606 0.391130 TCGCTTTCGTTCCTGGATGG 60.391 55.000 0.00 0.00 36.96 3.51
587 607 1.002366 CTCGCTTTCGTTCCTGGATG 58.998 55.000 0.00 0.00 36.96 3.51
597 617 1.590238 AGAATCAATCGCTCGCTTTCG 59.410 47.619 0.00 0.00 0.00 3.46
625 686 1.902508 CTTGTCAGGCCACCTCTTCTA 59.097 52.381 5.01 0.00 0.00 2.10
675 736 4.025401 GTGTTTCCAGCCGGTGCG 62.025 66.667 1.90 0.00 44.33 5.34
676 737 1.734388 AAAGTGTTTCCAGCCGGTGC 61.734 55.000 1.90 0.00 37.95 5.01
677 738 0.310854 GAAAGTGTTTCCAGCCGGTG 59.689 55.000 1.90 0.00 33.56 4.94
678 739 2.715536 GAAAGTGTTTCCAGCCGGT 58.284 52.632 1.90 0.00 33.56 5.28
686 747 5.182760 AGCATTCTCTGATGGAAAGTGTTTC 59.817 40.000 0.00 0.00 38.94 2.78
687 748 5.075493 AGCATTCTCTGATGGAAAGTGTTT 58.925 37.500 0.00 0.00 0.00 2.83
688 749 4.660168 AGCATTCTCTGATGGAAAGTGTT 58.340 39.130 0.00 0.00 0.00 3.32
689 750 4.298103 AGCATTCTCTGATGGAAAGTGT 57.702 40.909 0.00 0.00 0.00 3.55
690 751 5.399858 CAAAGCATTCTCTGATGGAAAGTG 58.600 41.667 0.00 0.00 0.00 3.16
691 752 4.082354 GCAAAGCATTCTCTGATGGAAAGT 60.082 41.667 0.00 0.00 0.00 2.66
692 753 4.158025 AGCAAAGCATTCTCTGATGGAAAG 59.842 41.667 0.00 0.00 0.00 2.62
693 754 4.084287 AGCAAAGCATTCTCTGATGGAAA 58.916 39.130 0.00 0.00 0.00 3.13
694 755 3.693807 AGCAAAGCATTCTCTGATGGAA 58.306 40.909 0.00 0.00 0.00 3.53
695 756 3.361281 AGCAAAGCATTCTCTGATGGA 57.639 42.857 0.00 0.00 0.00 3.41
696 757 4.451629 AAAGCAAAGCATTCTCTGATGG 57.548 40.909 0.00 0.00 0.00 3.51
697 758 5.510674 CGTAAAAGCAAAGCATTCTCTGATG 59.489 40.000 0.00 0.00 0.00 3.07
698 759 5.392380 CCGTAAAAGCAAAGCATTCTCTGAT 60.392 40.000 0.00 0.00 0.00 2.90
699 760 4.083324 CCGTAAAAGCAAAGCATTCTCTGA 60.083 41.667 0.00 0.00 0.00 3.27
700 761 4.161333 CCGTAAAAGCAAAGCATTCTCTG 58.839 43.478 0.00 0.00 0.00 3.35
701 762 3.821033 ACCGTAAAAGCAAAGCATTCTCT 59.179 39.130 0.00 0.00 0.00 3.10
702 763 4.160736 ACCGTAAAAGCAAAGCATTCTC 57.839 40.909 0.00 0.00 0.00 2.87
703 764 4.584327 AACCGTAAAAGCAAAGCATTCT 57.416 36.364 0.00 0.00 0.00 2.40
704 765 4.619760 GGTAACCGTAAAAGCAAAGCATTC 59.380 41.667 0.00 0.00 0.00 2.67
705 766 4.552355 GGTAACCGTAAAAGCAAAGCATT 58.448 39.130 0.00 0.00 0.00 3.56
706 767 4.168922 GGTAACCGTAAAAGCAAAGCAT 57.831 40.909 0.00 0.00 0.00 3.79
707 768 3.629438 GGTAACCGTAAAAGCAAAGCA 57.371 42.857 0.00 0.00 0.00 3.91
722 783 1.203441 AAGAGGGGTTCGGGGGTAAC 61.203 60.000 0.00 0.00 0.00 2.50
723 784 1.161598 AAGAGGGGTTCGGGGGTAA 59.838 57.895 0.00 0.00 0.00 2.85
724 785 1.614226 CAAGAGGGGTTCGGGGGTA 60.614 63.158 0.00 0.00 0.00 3.69
725 786 2.933834 CAAGAGGGGTTCGGGGGT 60.934 66.667 0.00 0.00 0.00 4.95
726 787 4.426313 GCAAGAGGGGTTCGGGGG 62.426 72.222 0.00 0.00 0.00 5.40
727 788 4.426313 GGCAAGAGGGGTTCGGGG 62.426 72.222 0.00 0.00 0.00 5.73
728 789 4.426313 GGGCAAGAGGGGTTCGGG 62.426 72.222 0.00 0.00 0.00 5.14
729 790 3.330720 AGGGCAAGAGGGGTTCGG 61.331 66.667 0.00 0.00 0.00 4.30
730 791 2.269241 GAGGGCAAGAGGGGTTCG 59.731 66.667 0.00 0.00 0.00 3.95
731 792 2.677848 GGAGGGCAAGAGGGGTTC 59.322 66.667 0.00 0.00 0.00 3.62
874 955 2.558286 CGGGCGGGCGTAAGATCTA 61.558 63.158 0.00 0.00 43.02 1.98
901 982 1.216710 GTCAGCAAGAGACCTCGGG 59.783 63.158 0.00 0.00 34.09 5.14
902 983 0.534412 ATGTCAGCAAGAGACCTCGG 59.466 55.000 0.00 0.00 35.15 4.63
903 984 2.376808 AATGTCAGCAAGAGACCTCG 57.623 50.000 0.00 0.00 35.15 4.63
904 985 5.295540 GGATTTAATGTCAGCAAGAGACCTC 59.704 44.000 0.00 0.00 35.15 3.85
988 2380 3.167485 AGAGCATCATTTCCTTTTGGCA 58.833 40.909 0.00 0.00 37.19 4.92
1742 3202 3.492011 ACTAGTAACGTCGCCAACTTTTG 59.508 43.478 0.00 0.00 0.00 2.44
1743 3203 3.492011 CACTAGTAACGTCGCCAACTTTT 59.508 43.478 0.00 0.00 0.00 2.27
1744 3204 3.054878 CACTAGTAACGTCGCCAACTTT 58.945 45.455 0.00 0.00 0.00 2.66
1745 3205 2.608752 CCACTAGTAACGTCGCCAACTT 60.609 50.000 0.00 0.00 0.00 2.66
1746 3206 1.068055 CCACTAGTAACGTCGCCAACT 60.068 52.381 0.00 0.00 0.00 3.16
1747 3207 1.068333 TCCACTAGTAACGTCGCCAAC 60.068 52.381 0.00 0.00 0.00 3.77
1748 3208 1.246649 TCCACTAGTAACGTCGCCAA 58.753 50.000 0.00 0.00 0.00 4.52
1749 3209 1.246649 TTCCACTAGTAACGTCGCCA 58.753 50.000 0.00 0.00 0.00 5.69
1750 3210 2.098770 AGATTCCACTAGTAACGTCGCC 59.901 50.000 0.00 0.00 0.00 5.54
1751 3211 3.065095 AGAGATTCCACTAGTAACGTCGC 59.935 47.826 0.00 0.00 0.00 5.19
1752 3212 4.879104 AGAGATTCCACTAGTAACGTCG 57.121 45.455 0.00 0.00 0.00 5.12
1754 3214 8.033626 CCTTTTAAGAGATTCCACTAGTAACGT 58.966 37.037 0.00 0.00 0.00 3.99
1755 3215 7.010275 GCCTTTTAAGAGATTCCACTAGTAACG 59.990 40.741 0.00 0.00 0.00 3.18
1756 3216 8.041919 AGCCTTTTAAGAGATTCCACTAGTAAC 58.958 37.037 0.00 0.00 0.00 2.50
1757 3217 8.147244 AGCCTTTTAAGAGATTCCACTAGTAA 57.853 34.615 0.00 0.00 0.00 2.24
1780 3476 4.995487 CCCTCCGTTCCTAAATATACAAGC 59.005 45.833 0.00 0.00 0.00 4.01
1910 3606 6.490566 TGTTTCTTTATTTACGGAGGAAGC 57.509 37.500 0.00 0.00 0.00 3.86
1970 3695 8.324191 TCTTCATCTCCATCCTTACTTACATT 57.676 34.615 0.00 0.00 0.00 2.71
1971 3696 7.921041 TCTTCATCTCCATCCTTACTTACAT 57.079 36.000 0.00 0.00 0.00 2.29
1972 3697 7.202038 CCATCTTCATCTCCATCCTTACTTACA 60.202 40.741 0.00 0.00 0.00 2.41
1993 3718 3.845781 ACAAACAGAGTCACACCATCT 57.154 42.857 0.00 0.00 0.00 2.90
1994 3719 4.142816 GCATACAAACAGAGTCACACCATC 60.143 45.833 0.00 0.00 0.00 3.51
1995 3720 3.753272 GCATACAAACAGAGTCACACCAT 59.247 43.478 0.00 0.00 0.00 3.55
1996 3721 3.138304 GCATACAAACAGAGTCACACCA 58.862 45.455 0.00 0.00 0.00 4.17
1997 3722 3.403038 AGCATACAAACAGAGTCACACC 58.597 45.455 0.00 0.00 0.00 4.16
1998 3723 4.151335 CAGAGCATACAAACAGAGTCACAC 59.849 45.833 0.00 0.00 0.00 3.82
1999 3724 4.202253 ACAGAGCATACAAACAGAGTCACA 60.202 41.667 0.00 0.00 0.00 3.58
2000 3725 4.151335 CACAGAGCATACAAACAGAGTCAC 59.849 45.833 0.00 0.00 0.00 3.67
2001 3726 4.309933 CACAGAGCATACAAACAGAGTCA 58.690 43.478 0.00 0.00 0.00 3.41
2002 3727 3.681897 CCACAGAGCATACAAACAGAGTC 59.318 47.826 0.00 0.00 0.00 3.36
2003 3728 3.668447 CCACAGAGCATACAAACAGAGT 58.332 45.455 0.00 0.00 0.00 3.24
2004 3729 2.417933 GCCACAGAGCATACAAACAGAG 59.582 50.000 0.00 0.00 0.00 3.35
2005 3730 2.426522 GCCACAGAGCATACAAACAGA 58.573 47.619 0.00 0.00 0.00 3.41
2006 3731 1.129251 CGCCACAGAGCATACAAACAG 59.871 52.381 0.00 0.00 0.00 3.16
2007 3732 1.155889 CGCCACAGAGCATACAAACA 58.844 50.000 0.00 0.00 0.00 2.83
2008 3733 0.447801 CCGCCACAGAGCATACAAAC 59.552 55.000 0.00 0.00 0.00 2.93
2009 3734 0.036164 ACCGCCACAGAGCATACAAA 59.964 50.000 0.00 0.00 0.00 2.83
2010 3735 0.036164 AACCGCCACAGAGCATACAA 59.964 50.000 0.00 0.00 0.00 2.41
2011 3736 0.036164 AAACCGCCACAGAGCATACA 59.964 50.000 0.00 0.00 0.00 2.29
2012 3737 0.447801 CAAACCGCCACAGAGCATAC 59.552 55.000 0.00 0.00 0.00 2.39
2013 3738 0.036164 ACAAACCGCCACAGAGCATA 59.964 50.000 0.00 0.00 0.00 3.14
2014 3739 0.823356 AACAAACCGCCACAGAGCAT 60.823 50.000 0.00 0.00 0.00 3.79
2015 3740 1.034838 AAACAAACCGCCACAGAGCA 61.035 50.000 0.00 0.00 0.00 4.26
2016 3741 0.102300 AAAACAAACCGCCACAGAGC 59.898 50.000 0.00 0.00 0.00 4.09
2017 3742 3.915437 ATAAAACAAACCGCCACAGAG 57.085 42.857 0.00 0.00 0.00 3.35
2018 3743 8.734218 TTATATATAAAACAAACCGCCACAGA 57.266 30.769 2.56 0.00 0.00 3.41
2019 3744 9.445786 CTTTATATATAAAACAAACCGCCACAG 57.554 33.333 16.69 0.00 32.39 3.66
2020 3745 7.916450 GCTTTATATATAAAACAAACCGCCACA 59.084 33.333 16.69 0.00 32.39 4.17
2021 3746 7.112426 CGCTTTATATATAAAACAAACCGCCAC 59.888 37.037 16.69 0.00 32.39 5.01
2022 3747 7.133513 CGCTTTATATATAAAACAAACCGCCA 58.866 34.615 16.69 0.00 32.39 5.69
2023 3748 6.579666 CCGCTTTATATATAAAACAAACCGCC 59.420 38.462 16.69 2.83 32.39 6.13
2024 3749 6.579666 CCCGCTTTATATATAAAACAAACCGC 59.420 38.462 16.69 13.47 32.39 5.68
2025 3750 7.079475 CCCCGCTTTATATATAAAACAAACCG 58.921 38.462 16.69 12.15 32.39 4.44
2026 3751 6.864685 GCCCCGCTTTATATATAAAACAAACC 59.135 38.462 16.69 4.04 32.39 3.27
2027 3752 6.579666 CGCCCCGCTTTATATATAAAACAAAC 59.420 38.462 16.69 6.57 32.39 2.93
2028 3753 6.485984 TCGCCCCGCTTTATATATAAAACAAA 59.514 34.615 16.69 0.00 32.39 2.83
2029 3754 5.996513 TCGCCCCGCTTTATATATAAAACAA 59.003 36.000 16.69 0.00 32.39 2.83
2030 3755 5.549347 TCGCCCCGCTTTATATATAAAACA 58.451 37.500 16.69 0.00 32.39 2.83
2031 3756 6.484818 TTCGCCCCGCTTTATATATAAAAC 57.515 37.500 16.69 12.33 32.39 2.43
2032 3757 6.348704 GCTTTCGCCCCGCTTTATATATAAAA 60.349 38.462 16.69 4.08 32.39 1.52
2033 3758 5.122711 GCTTTCGCCCCGCTTTATATATAAA 59.877 40.000 15.47 15.47 0.00 1.40
2034 3759 4.632688 GCTTTCGCCCCGCTTTATATATAA 59.367 41.667 0.81 0.81 0.00 0.98
2035 3760 4.186159 GCTTTCGCCCCGCTTTATATATA 58.814 43.478 0.00 0.00 0.00 0.86
2036 3761 3.007635 GCTTTCGCCCCGCTTTATATAT 58.992 45.455 0.00 0.00 0.00 0.86
2037 3762 2.419667 GCTTTCGCCCCGCTTTATATA 58.580 47.619 0.00 0.00 0.00 0.86
2038 3763 1.235724 GCTTTCGCCCCGCTTTATAT 58.764 50.000 0.00 0.00 0.00 0.86
2039 3764 2.697819 GCTTTCGCCCCGCTTTATA 58.302 52.632 0.00 0.00 0.00 0.98
2040 3765 3.509659 GCTTTCGCCCCGCTTTAT 58.490 55.556 0.00 0.00 0.00 1.40
2050 3775 1.802365 TCTACCGAAAAAGGCTTTCGC 59.198 47.619 13.76 7.41 46.89 4.70
2052 3777 3.756963 ACCATCTACCGAAAAAGGCTTTC 59.243 43.478 13.76 0.41 33.69 2.62
2053 3778 3.506067 CACCATCTACCGAAAAAGGCTTT 59.494 43.478 6.68 6.68 33.69 3.51
2054 3779 3.081804 CACCATCTACCGAAAAAGGCTT 58.918 45.455 0.00 0.00 33.69 4.35
2055 3780 2.039879 ACACCATCTACCGAAAAAGGCT 59.960 45.455 0.00 0.00 33.69 4.58
2056 3781 2.161609 CACACCATCTACCGAAAAAGGC 59.838 50.000 0.00 0.00 33.69 4.35
2057 3782 2.747446 CCACACCATCTACCGAAAAAGG 59.253 50.000 0.00 0.00 37.30 3.11
2058 3783 2.161609 GCCACACCATCTACCGAAAAAG 59.838 50.000 0.00 0.00 0.00 2.27
2059 3784 2.156098 GCCACACCATCTACCGAAAAA 58.844 47.619 0.00 0.00 0.00 1.94
2060 3785 1.816074 GCCACACCATCTACCGAAAA 58.184 50.000 0.00 0.00 0.00 2.29
2061 3786 0.390603 CGCCACACCATCTACCGAAA 60.391 55.000 0.00 0.00 0.00 3.46
2062 3787 1.216977 CGCCACACCATCTACCGAA 59.783 57.895 0.00 0.00 0.00 4.30
2063 3788 2.717044 CCGCCACACCATCTACCGA 61.717 63.158 0.00 0.00 0.00 4.69
2064 3789 2.202878 CCGCCACACCATCTACCG 60.203 66.667 0.00 0.00 0.00 4.02
2065 3790 2.513897 GCCGCCACACCATCTACC 60.514 66.667 0.00 0.00 0.00 3.18
2066 3791 1.369091 CTTGCCGCCACACCATCTAC 61.369 60.000 0.00 0.00 0.00 2.59
2067 3792 1.078497 CTTGCCGCCACACCATCTA 60.078 57.895 0.00 0.00 0.00 1.98
2081 3806 3.928375 CAGGCATTTTGTTACATCCTTGC 59.072 43.478 0.00 0.00 0.00 4.01
2089 3814 4.038642 TGAAGGAACCAGGCATTTTGTTAC 59.961 41.667 0.00 0.00 0.00 2.50
2144 3869 2.103143 CGTTTGTTGGGCGTTGCA 59.897 55.556 0.00 0.00 0.00 4.08
2147 3872 2.719354 GAGCGTTTGTTGGGCGTT 59.281 55.556 0.00 0.00 0.00 4.84
2148 3873 3.284449 GGAGCGTTTGTTGGGCGT 61.284 61.111 0.00 0.00 0.00 5.68
2170 3895 6.699642 CGTTGTTTGAGGAATTGTATTTTGGT 59.300 34.615 0.00 0.00 0.00 3.67
2201 3926 2.335681 TCCATGTGGGGAAGTAGTCA 57.664 50.000 0.00 0.00 37.22 3.41
2355 4081 6.101332 AGTTGCATATTTTTGCCACATAGTG 58.899 36.000 3.89 0.00 39.90 2.74
2485 4218 4.755123 GGGTCGTGAGATTTTTCTTCTTCA 59.245 41.667 0.00 0.00 45.19 3.02
2542 4276 8.997323 CATTACAAAATGACTTAAAATTGCCCA 58.003 29.630 0.00 0.00 44.50 5.36


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

AutoCloner maintained by Alex Coulton.