Multiple sequence alignment - TraesCS6B01G185000

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 TraesCS6B01G185000 chr6B 100.000 4060 0 0 1 4060 208855871 208851812 0.000000e+00 7498
1 TraesCS6B01G185000 chr6B 84.444 540 68 11 1 530 483681321 483680788 6.020000e-143 518
2 TraesCS6B01G185000 chr6B 92.803 264 11 4 3188 3444 59501407 59501145 3.830000e-100 375
3 TraesCS6B01G185000 chr2D 93.155 2615 138 17 939 3524 508405693 508408295 0.000000e+00 3799
4 TraesCS6B01G185000 chr2D 91.608 858 58 8 1 849 508404485 508405337 0.000000e+00 1173
5 TraesCS6B01G185000 chr2D 94.902 510 22 3 3553 4060 508408269 508408776 0.000000e+00 795
6 TraesCS6B01G185000 chr2D 82.867 607 74 18 1 591 638009812 638010404 6.020000e-143 518
7 TraesCS6B01G185000 chr2D 83.178 535 71 16 1 527 397141882 397141359 4.750000e-129 472
8 TraesCS6B01G185000 chr7B 93.958 1622 94 3 1539 3159 689339854 689341472 0.000000e+00 2449
9 TraesCS6B01G185000 chr7B 92.277 1010 70 3 2184 3192 68915838 68916840 0.000000e+00 1426
10 TraesCS6B01G185000 chr7B 85.768 534 61 9 1 527 374351590 374352115 5.930000e-153 551
11 TraesCS6B01G185000 chr7B 85.798 514 53 16 1 506 725332472 725331971 1.000000e-145 527
12 TraesCS6B01G185000 chr7B 91.257 366 22 4 3188 3543 68917364 68917729 1.310000e-134 490
13 TraesCS6B01G185000 chr7B 81.015 453 38 17 438 870 30076228 30075804 2.360000e-82 316
14 TraesCS6B01G185000 chr7B 88.987 227 21 4 650 875 734671254 734671477 1.110000e-70 278
15 TraesCS6B01G185000 chr7B 89.894 188 14 3 438 625 511940106 511939924 1.890000e-58 237
16 TraesCS6B01G185000 chr7B 94.253 87 5 0 1508 1594 689339766 689339852 2.550000e-27 134
17 TraesCS6B01G185000 chr1D 93.762 1010 61 2 2184 3192 475431303 475430295 0.000000e+00 1515
18 TraesCS6B01G185000 chr1D 94.450 937 50 2 2258 3192 69688371 69687435 0.000000e+00 1441
19 TraesCS6B01G185000 chr1D 91.667 180 11 1 879 1054 79841996 79841817 3.130000e-61 246
20 TraesCS6B01G185000 chr1D 89.529 191 17 3 682 871 123236907 123237095 5.240000e-59 239
21 TraesCS6B01G185000 chr1D 88.043 184 14 2 879 1054 41781687 41781870 1.140000e-50 211
22 TraesCS6B01G185000 chr3D 92.878 1011 69 3 2184 3192 160281802 160280793 0.000000e+00 1465
23 TraesCS6B01G185000 chr4B 91.287 1010 84 4 2184 3192 632834654 632833648 0.000000e+00 1375
24 TraesCS6B01G185000 chr2B 92.094 936 73 1 2258 3192 143244634 143245569 0.000000e+00 1317
25 TraesCS6B01G185000 chr2B 95.783 332 7 5 3732 4060 127063532 127063859 2.780000e-146 529
26 TraesCS6B01G185000 chr2B 83.588 524 67 11 3 520 72766931 72767441 1.320000e-129 473
27 TraesCS6B01G185000 chr2B 87.708 301 25 5 556 851 759389032 759388739 1.400000e-89 340
28 TraesCS6B01G185000 chr2B 83.333 312 27 5 438 724 553064437 553064126 8.650000e-67 265
29 TraesCS6B01G185000 chr5D 91.735 859 67 4 2184 3042 481666725 481665871 0.000000e+00 1190
30 TraesCS6B01G185000 chr5D 87.785 483 27 6 3255 3726 511743493 511743032 1.660000e-148 536
31 TraesCS6B01G185000 chr5D 90.556 180 13 1 879 1054 28571083 28571262 6.780000e-58 235
32 TraesCS6B01G185000 chr5D 90.556 180 13 1 879 1054 366923456 366923635 6.780000e-58 235
33 TraesCS6B01G185000 chr5D 92.727 165 8 2 894 1054 511765382 511765218 6.780000e-58 235
34 TraesCS6B01G185000 chr5A 92.289 830 61 3 2365 3192 380841503 380840675 0.000000e+00 1175
35 TraesCS6B01G185000 chr5A 91.636 550 34 7 3188 3725 633522275 633522824 0.000000e+00 750
36 TraesCS6B01G185000 chr5A 91.439 549 32 8 3188 3724 380840151 380839606 0.000000e+00 739
37 TraesCS6B01G185000 chr5A 94.961 258 6 4 3736 3990 8488176 8487923 8.180000e-107 398
38 TraesCS6B01G185000 chr5A 94.574 258 6 4 3736 3990 81753559 81753811 3.800000e-105 392
39 TraesCS6B01G185000 chr5A 93.939 165 6 2 455 619 667546861 667547021 3.130000e-61 246
40 TraesCS6B01G185000 chr5A 95.652 138 4 2 3925 4060 168350751 168350888 1.900000e-53 220
41 TraesCS6B01G185000 chr5A 94.488 127 6 1 682 808 153398924 153398799 1.150000e-45 195
42 TraesCS6B01G185000 chr5A 92.857 126 7 1 2184 2309 699209595 699209718 8.960000e-42 182
43 TraesCS6B01G185000 chr3B 91.225 547 32 12 3191 3725 16521481 16522023 0.000000e+00 730
44 TraesCS6B01G185000 chr3B 87.395 595 57 13 1601 2189 36467603 36467021 0.000000e+00 667
45 TraesCS6B01G185000 chr3B 87.292 480 54 6 1 476 205173515 205173039 3.570000e-150 542
46 TraesCS6B01G185000 chr3B 84.405 513 63 13 1 506 509972854 509972352 4.720000e-134 488
47 TraesCS6B01G185000 chr3B 79.405 437 43 17 439 855 702166202 702165793 8.650000e-67 265
48 TraesCS6B01G185000 chr3B 89.305 187 15 3 439 625 740149044 740149225 3.160000e-56 230
49 TraesCS6B01G185000 chr3B 95.588 136 4 2 3927 4060 506258797 506258932 2.460000e-52 217
50 TraesCS6B01G185000 chr6A 90.288 556 41 8 3188 3731 97553819 97553265 0.000000e+00 715
51 TraesCS6B01G185000 chr6A 90.698 172 15 1 682 852 595720480 595720651 1.140000e-55 228
52 TraesCS6B01G185000 chr5B 86.592 537 57 11 4 528 398582527 398581994 2.720000e-161 579
53 TraesCS6B01G185000 chr3A 95.468 331 9 3 3732 4060 622461114 622461440 1.290000e-144 523
54 TraesCS6B01G185000 chr3A 78.808 604 65 32 1602 2189 30560996 30561552 8.350000e-92 348
55 TraesCS6B01G185000 chr3A 90.840 131 10 2 3188 3317 667989323 667989452 1.500000e-39 174
56 TraesCS6B01G185000 chr1B 95.181 332 10 4 3732 4060 616651618 616651946 1.670000e-143 520
57 TraesCS6B01G185000 chr1B 84.112 535 70 11 1 530 178970687 178971211 1.680000e-138 503
58 TraesCS6B01G185000 chr1B 82.942 469 47 15 431 875 502572841 502573300 3.800000e-105 392
59 TraesCS6B01G185000 chr7D 83.551 535 67 14 1 528 628441636 628442156 7.890000e-132 481
60 TraesCS6B01G185000 chr7D 97.692 130 1 2 3933 4060 28061684 28061555 5.280000e-54 222
61 TraesCS6B01G185000 chr7A 85.653 467 42 11 434 877 61450849 61450385 6.140000e-128 468
62 TraesCS6B01G185000 chr7A 94.961 258 6 4 3736 3990 71388989 71389242 8.180000e-107 398
63 TraesCS6B01G185000 chr1A 94.942 257 6 4 3736 3989 589574834 589574582 2.940000e-106 396
64 TraesCS6B01G185000 chr4A 94.553 257 8 3 3736 3990 526044876 526044624 3.800000e-105 392
65 TraesCS6B01G185000 chr4A 91.791 134 11 0 682 815 80964314 80964447 1.930000e-43 187
66 TraesCS6B01G185000 chrUn 92.135 178 10 1 881 1054 154747344 154747521 8.710000e-62 248
67 TraesCS6B01G185000 chr6D 91.061 179 12 1 879 1053 396277170 396277348 5.240000e-59 239
68 TraesCS6B01G185000 chr2A 92.216 167 9 3 455 619 686361907 686362071 2.440000e-57 233


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 TraesCS6B01G185000 chr6B 208851812 208855871 4059 True 7498.000000 7498 100.000000 1 4060 1 chr6B.!!$R2 4059
1 TraesCS6B01G185000 chr6B 483680788 483681321 533 True 518.000000 518 84.444000 1 530 1 chr6B.!!$R3 529
2 TraesCS6B01G185000 chr2D 508404485 508408776 4291 False 1922.333333 3799 93.221667 1 4060 3 chr2D.!!$F2 4059
3 TraesCS6B01G185000 chr2D 638009812 638010404 592 False 518.000000 518 82.867000 1 591 1 chr2D.!!$F1 590
4 TraesCS6B01G185000 chr2D 397141359 397141882 523 True 472.000000 472 83.178000 1 527 1 chr2D.!!$R1 526
5 TraesCS6B01G185000 chr7B 689339766 689341472 1706 False 1291.500000 2449 94.105500 1508 3159 2 chr7B.!!$F4 1651
6 TraesCS6B01G185000 chr7B 68915838 68917729 1891 False 958.000000 1426 91.767000 2184 3543 2 chr7B.!!$F3 1359
7 TraesCS6B01G185000 chr7B 374351590 374352115 525 False 551.000000 551 85.768000 1 527 1 chr7B.!!$F1 526
8 TraesCS6B01G185000 chr7B 725331971 725332472 501 True 527.000000 527 85.798000 1 506 1 chr7B.!!$R3 505
9 TraesCS6B01G185000 chr1D 475430295 475431303 1008 True 1515.000000 1515 93.762000 2184 3192 1 chr1D.!!$R3 1008
10 TraesCS6B01G185000 chr1D 69687435 69688371 936 True 1441.000000 1441 94.450000 2258 3192 1 chr1D.!!$R1 934
11 TraesCS6B01G185000 chr3D 160280793 160281802 1009 True 1465.000000 1465 92.878000 2184 3192 1 chr3D.!!$R1 1008
12 TraesCS6B01G185000 chr4B 632833648 632834654 1006 True 1375.000000 1375 91.287000 2184 3192 1 chr4B.!!$R1 1008
13 TraesCS6B01G185000 chr2B 143244634 143245569 935 False 1317.000000 1317 92.094000 2258 3192 1 chr2B.!!$F3 934
14 TraesCS6B01G185000 chr2B 72766931 72767441 510 False 473.000000 473 83.588000 3 520 1 chr2B.!!$F1 517
15 TraesCS6B01G185000 chr5D 481665871 481666725 854 True 1190.000000 1190 91.735000 2184 3042 1 chr5D.!!$R1 858
16 TraesCS6B01G185000 chr5A 380839606 380841503 1897 True 957.000000 1175 91.864000 2365 3724 2 chr5A.!!$R3 1359
17 TraesCS6B01G185000 chr5A 633522275 633522824 549 False 750.000000 750 91.636000 3188 3725 1 chr5A.!!$F3 537
18 TraesCS6B01G185000 chr3B 16521481 16522023 542 False 730.000000 730 91.225000 3191 3725 1 chr3B.!!$F1 534
19 TraesCS6B01G185000 chr3B 36467021 36467603 582 True 667.000000 667 87.395000 1601 2189 1 chr3B.!!$R1 588
20 TraesCS6B01G185000 chr3B 509972352 509972854 502 True 488.000000 488 84.405000 1 506 1 chr3B.!!$R3 505
21 TraesCS6B01G185000 chr6A 97553265 97553819 554 True 715.000000 715 90.288000 3188 3731 1 chr6A.!!$R1 543
22 TraesCS6B01G185000 chr5B 398581994 398582527 533 True 579.000000 579 86.592000 4 528 1 chr5B.!!$R1 524
23 TraesCS6B01G185000 chr3A 30560996 30561552 556 False 348.000000 348 78.808000 1602 2189 1 chr3A.!!$F1 587
24 TraesCS6B01G185000 chr1B 178970687 178971211 524 False 503.000000 503 84.112000 1 530 1 chr1B.!!$F1 529
25 TraesCS6B01G185000 chr7D 628441636 628442156 520 False 481.000000 481 83.551000 1 528 1 chr7D.!!$F1 527

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
464 482 0.113776 ACATGATGCCCATCCATCCC 59.886 55.0 0.0 0.0 40.66 3.85 F
918 968 0.177604 CTCTGTCTGCATGAGGGGAC 59.822 60.0 0.0 0.0 0.00 4.46 F
1477 1799 0.037975 TCGCCTAGTCGGGTGTTTTC 60.038 55.0 0.0 0.0 38.01 2.29 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1464 1786 0.107557 ACAACCGAAAACACCCGACT 60.108 50.0 0.0 0.0 0.00 4.18 R
2850 3259 0.179145 CGGACGATGTAGAAGGCGTT 60.179 55.0 0.0 0.0 37.07 4.84 R
3076 3485 0.107312 CTAGCACTGCCTCAGCCATT 60.107 55.0 0.0 0.0 38.69 3.16 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
99 102 5.518487 GGCAGAAATTTGTCTTTTTCACGAA 59.482 36.000 0.00 0.00 34.91 3.85
113 116 5.782893 TTTCACGAAAGGTGGATCAAAAT 57.217 34.783 0.00 0.00 46.96 1.82
235 241 5.221048 CCTTCACAAAAAGACTCATTTCGGT 60.221 40.000 0.00 0.00 0.00 4.69
243 250 2.095161 AGACTCATTTCGGTCACTCGAC 60.095 50.000 0.00 0.00 39.01 4.20
305 313 9.573166 AAATCCCTTCATCGATATTGTTTATCA 57.427 29.630 0.00 0.00 0.00 2.15
333 343 6.418819 CCAAGATTTGAACTTGTGCAAAGTAG 59.581 38.462 11.89 3.51 41.88 2.57
343 354 5.413833 ACTTGTGCAAAGTAGGAGATCATTG 59.586 40.000 11.11 0.00 0.00 2.82
436 454 2.289195 TGGTGGAATTCGTAGTCACACC 60.289 50.000 16.45 16.45 38.77 4.16
450 468 1.748493 TCACACCGATCGATGACATGA 59.252 47.619 18.44 6.84 0.00 3.07
461 479 2.803956 GATGACATGATGCCCATCCAT 58.196 47.619 13.94 2.43 37.02 3.41
462 480 2.281539 TGACATGATGCCCATCCATC 57.718 50.000 0.00 0.00 41.51 3.51
463 481 1.202964 TGACATGATGCCCATCCATCC 60.203 52.381 0.00 0.00 40.66 3.51
464 482 0.113776 ACATGATGCCCATCCATCCC 59.886 55.000 0.00 0.00 40.66 3.85
538 588 5.746307 AGAAAAGAAAAAGACGTACCCAC 57.254 39.130 0.00 0.00 0.00 4.61
548 598 2.341176 GTACCCACGTCCGCAACT 59.659 61.111 0.00 0.00 0.00 3.16
629 679 1.380785 CCGCCACCCACTCCTAGTA 60.381 63.158 0.00 0.00 0.00 1.82
634 684 1.568504 CACCCACTCCTAGTAGCCAA 58.431 55.000 0.00 0.00 0.00 4.52
675 725 1.115930 CGATTCCTCCACCCTCCGAT 61.116 60.000 0.00 0.00 0.00 4.18
701 751 2.366167 ATGCCCTCTCCTCCGCTT 60.366 61.111 0.00 0.00 0.00 4.68
710 760 1.753368 CTCCTCCGCTTCATCCTCCC 61.753 65.000 0.00 0.00 0.00 4.30
750 800 2.204461 ACGTCCCACACATCGACCA 61.204 57.895 0.00 0.00 0.00 4.02
801 851 1.592223 CACCGTCCCTTCTGACCTC 59.408 63.158 0.00 0.00 31.35 3.85
803 853 1.977544 CCGTCCCTTCTGACCTCGT 60.978 63.158 0.00 0.00 31.35 4.18
816 866 3.691342 CTCGTCGCCTCCACCCAA 61.691 66.667 0.00 0.00 0.00 4.12
835 885 3.812019 CCCCGTCTGACCTCGTCG 61.812 72.222 1.55 0.00 34.95 5.12
869 919 4.675303 CTCCCCCTCACCCCCACA 62.675 72.222 0.00 0.00 0.00 4.17
870 920 4.995058 TCCCCCTCACCCCCACAC 62.995 72.222 0.00 0.00 0.00 3.82
872 922 3.966543 CCCCTCACCCCCACACAC 61.967 72.222 0.00 0.00 0.00 3.82
873 923 3.966543 CCCTCACCCCCACACACC 61.967 72.222 0.00 0.00 0.00 4.16
874 924 3.966543 CCTCACCCCCACACACCC 61.967 72.222 0.00 0.00 0.00 4.61
875 925 3.174987 CTCACCCCCACACACCCA 61.175 66.667 0.00 0.00 0.00 4.51
876 926 3.491598 CTCACCCCCACACACCCAC 62.492 68.421 0.00 0.00 0.00 4.61
877 927 3.814906 CACCCCCACACACCCACA 61.815 66.667 0.00 0.00 0.00 4.17
878 928 3.816090 ACCCCCACACACCCACAC 61.816 66.667 0.00 0.00 0.00 3.82
879 929 3.814906 CCCCCACACACCCACACA 61.815 66.667 0.00 0.00 0.00 3.72
880 930 2.518349 CCCCACACACCCACACAC 60.518 66.667 0.00 0.00 0.00 3.82
881 931 2.518349 CCCACACACCCACACACC 60.518 66.667 0.00 0.00 0.00 4.16
882 932 2.273776 CCACACACCCACACACCA 59.726 61.111 0.00 0.00 0.00 4.17
883 933 1.823470 CCACACACCCACACACCAG 60.823 63.158 0.00 0.00 0.00 4.00
884 934 1.823470 CACACACCCACACACCAGG 60.823 63.158 0.00 0.00 0.00 4.45
891 941 4.624364 CACACACCAGGGCTGCGA 62.624 66.667 0.00 0.00 0.00 5.10
892 942 3.640407 ACACACCAGGGCTGCGAT 61.640 61.111 0.00 0.00 0.00 4.58
893 943 2.821366 CACACCAGGGCTGCGATC 60.821 66.667 0.00 0.00 0.00 3.69
894 944 3.005539 ACACCAGGGCTGCGATCT 61.006 61.111 0.00 0.00 0.00 2.75
895 945 1.685765 ACACCAGGGCTGCGATCTA 60.686 57.895 0.00 0.00 0.00 1.98
896 946 1.068753 CACCAGGGCTGCGATCTAG 59.931 63.158 0.00 0.00 0.00 2.43
897 947 1.075970 ACCAGGGCTGCGATCTAGA 60.076 57.895 0.00 0.00 0.00 2.43
898 948 1.365633 CCAGGGCTGCGATCTAGAC 59.634 63.158 0.00 0.00 0.00 2.59
899 949 1.365633 CAGGGCTGCGATCTAGACC 59.634 63.158 10.04 10.04 44.11 3.85
900 950 3.863606 GGGCTGCGATCTAGACCT 58.136 61.111 10.63 0.00 40.38 3.85
901 951 1.663173 GGGCTGCGATCTAGACCTC 59.337 63.158 10.63 0.00 40.38 3.85
902 952 0.825840 GGGCTGCGATCTAGACCTCT 60.826 60.000 10.63 0.00 40.38 3.69
903 953 0.313672 GGCTGCGATCTAGACCTCTG 59.686 60.000 0.00 0.00 0.00 3.35
904 954 1.028905 GCTGCGATCTAGACCTCTGT 58.971 55.000 0.00 0.00 0.00 3.41
905 955 1.001815 GCTGCGATCTAGACCTCTGTC 60.002 57.143 0.00 0.00 42.09 3.51
916 966 1.525923 CCTCTGTCTGCATGAGGGG 59.474 63.158 13.91 4.75 42.55 4.79
917 967 0.979709 CCTCTGTCTGCATGAGGGGA 60.980 60.000 13.91 0.00 42.55 4.81
918 968 0.177604 CTCTGTCTGCATGAGGGGAC 59.822 60.000 0.00 0.00 0.00 4.46
919 969 1.153489 CTGTCTGCATGAGGGGACG 60.153 63.158 0.00 0.00 0.00 4.79
920 970 2.187946 GTCTGCATGAGGGGACGG 59.812 66.667 0.00 0.00 0.00 4.79
921 971 2.038813 TCTGCATGAGGGGACGGA 59.961 61.111 0.00 0.00 0.00 4.69
922 972 1.383109 TCTGCATGAGGGGACGGAT 60.383 57.895 0.00 0.00 0.00 4.18
923 973 1.227764 CTGCATGAGGGGACGGATG 60.228 63.158 0.00 0.00 0.00 3.51
924 974 2.592861 GCATGAGGGGACGGATGC 60.593 66.667 0.00 0.00 40.84 3.91
925 975 3.112205 GCATGAGGGGACGGATGCT 62.112 63.158 0.00 0.00 42.89 3.79
926 976 1.528824 CATGAGGGGACGGATGCTT 59.471 57.895 0.00 0.00 0.00 3.91
927 977 0.533755 CATGAGGGGACGGATGCTTC 60.534 60.000 0.00 0.00 0.00 3.86
928 978 0.692419 ATGAGGGGACGGATGCTTCT 60.692 55.000 0.00 0.00 0.00 2.85
929 979 1.330655 TGAGGGGACGGATGCTTCTC 61.331 60.000 0.00 0.00 0.00 2.87
930 980 2.107141 GGGGACGGATGCTTCTCG 59.893 66.667 0.00 4.55 0.00 4.04
931 981 2.722201 GGGGACGGATGCTTCTCGT 61.722 63.158 13.30 13.30 39.99 4.18
933 983 4.403976 GACGGATGCTTCTCGTCC 57.596 61.111 21.94 11.44 44.96 4.79
934 984 1.810532 GACGGATGCTTCTCGTCCT 59.189 57.895 21.94 3.47 46.57 3.85
935 985 0.248702 GACGGATGCTTCTCGTCCTC 60.249 60.000 21.94 7.94 46.57 3.71
936 986 1.298713 CGGATGCTTCTCGTCCTCG 60.299 63.158 0.00 0.00 46.57 4.63
937 987 1.810532 GGATGCTTCTCGTCCTCGT 59.189 57.895 0.00 0.00 45.53 4.18
968 1284 2.174319 GCCAAATCGAGCCGGACTC 61.174 63.158 5.05 10.97 42.47 3.36
1052 1368 2.105128 CCTCGACCTCGGCATGTC 59.895 66.667 0.00 0.00 40.29 3.06
1200 1516 2.552743 CGTCCACGATTAGATAGGCTCA 59.447 50.000 0.00 0.00 43.02 4.26
1204 1520 3.312828 CACGATTAGATAGGCTCAGTGC 58.687 50.000 0.00 0.00 41.94 4.40
1259 1575 1.326852 CAGAGCTTGTAGCATGCTTCG 59.673 52.381 28.02 12.67 45.56 3.79
1260 1576 1.205655 AGAGCTTGTAGCATGCTTCGA 59.794 47.619 28.02 19.58 45.56 3.71
1332 1654 2.366570 GAGGAGGAGCAGAGGGGT 59.633 66.667 0.00 0.00 0.00 4.95
1348 1670 1.063811 GGTGCGACTCTAGTACGGC 59.936 63.158 0.00 0.00 0.00 5.68
1442 1764 2.764314 CCATGGGTAACAGCGCTGC 61.764 63.158 36.28 20.40 39.74 5.25
1464 1786 1.933500 GCAGTTGTCTCGTTTCGCCTA 60.934 52.381 0.00 0.00 0.00 3.93
1465 1787 1.986378 CAGTTGTCTCGTTTCGCCTAG 59.014 52.381 0.00 0.00 0.00 3.02
1470 1792 1.226603 CTCGTTTCGCCTAGTCGGG 60.227 63.158 0.00 0.00 0.00 5.14
1477 1799 0.037975 TCGCCTAGTCGGGTGTTTTC 60.038 55.000 0.00 0.00 38.01 2.29
1606 1995 2.108952 ACTCCCTCATTCCAGCTTTTGT 59.891 45.455 0.00 0.00 0.00 2.83
1670 2062 0.111832 ATCGATGGGCTGCATCCAAT 59.888 50.000 9.17 1.72 37.87 3.16
1688 2080 9.023967 GCATCCAATATTTTTCAGTGTGTTATC 57.976 33.333 0.00 0.00 0.00 1.75
1737 2140 2.683152 GCATGGGCAAGAGATCAGTCTT 60.683 50.000 0.00 0.00 40.72 3.01
1738 2141 3.432749 GCATGGGCAAGAGATCAGTCTTA 60.433 47.826 0.00 0.00 40.72 2.10
1743 2146 5.045651 TGGGCAAGAGATCAGTCTTATTTGA 60.046 40.000 0.00 0.00 34.90 2.69
1843 2246 2.540515 GCGCTCTATTTCAGTGCAGTA 58.459 47.619 0.00 0.00 45.14 2.74
1913 2317 1.912043 CTGGGGAGTCCATTCTGTCTT 59.088 52.381 12.30 0.00 46.01 3.01
2001 2405 5.300539 TGGCTGTTCATTGCTAGTACAAAAA 59.699 36.000 0.00 0.00 32.27 1.94
2301 2708 7.327518 GGGGTGTTCTTCATTAAAATACAAACG 59.672 37.037 0.00 0.00 0.00 3.60
2319 2726 0.109781 CGGTGGCCGTTCTGAAATTG 60.110 55.000 0.00 0.00 42.73 2.32
2513 2921 3.056891 GGCTTAAAGTTGCAGCAACCATA 60.057 43.478 30.73 21.63 44.49 2.74
2568 2976 6.542370 AGCTGTAATTTATTGGCGATGTTACT 59.458 34.615 14.86 0.00 0.00 2.24
2750 3159 4.704103 TGGAGCCAGAGCCGGAGT 62.704 66.667 5.05 0.00 41.25 3.85
2754 3163 2.442272 GCCAGAGCCGGAGTAGGA 60.442 66.667 5.05 0.00 0.00 2.94
2764 3173 2.379972 CCGGAGTAGGAGACAAGATGT 58.620 52.381 0.00 0.00 0.00 3.06
2823 3232 2.430367 GCCGACCTCACCAACCTT 59.570 61.111 0.00 0.00 0.00 3.50
2890 3299 3.934962 GGAGATCCAGGGCTCGGC 61.935 72.222 0.00 0.00 35.64 5.54
2972 3381 1.135141 GCGAATTTTGGTATGCTGCCA 60.135 47.619 0.00 0.00 0.00 4.92
3093 3503 0.541296 AAAATGGCTGAGGCAGTGCT 60.541 50.000 15.56 0.00 42.43 4.40
3177 3588 5.705609 AGGCTTAGTTGTTGTATTGGTTG 57.294 39.130 0.00 0.00 0.00 3.77
3198 4138 3.067461 TGTGTTGTTGTATGGGAGTTTGC 59.933 43.478 0.00 0.00 0.00 3.68
3325 4266 7.219322 GTCCCTTGTAGTTTTAGAAACACCTA 58.781 38.462 6.35 0.00 0.00 3.08
3359 4300 7.556844 TGTCCTATTCTGTTAATCCTGAAGAC 58.443 38.462 0.00 0.00 0.00 3.01
3366 4307 9.793259 ATTCTGTTAATCCTGAAGACAAAACTA 57.207 29.630 0.00 0.00 0.00 2.24
3410 4357 6.458751 CCGTAGCTTCAGAAACATATTGCATT 60.459 38.462 0.00 0.00 0.00 3.56
3484 4434 8.234136 TCTTTATTTCAGAGATCGGTAAGCTA 57.766 34.615 0.00 0.00 0.00 3.32
3485 4435 8.692710 TCTTTATTTCAGAGATCGGTAAGCTAA 58.307 33.333 0.00 0.00 0.00 3.09
3494 4444 3.411415 TCGGTAAGCTAAAGACTACGC 57.589 47.619 0.00 0.00 0.00 4.42
3525 4475 3.381272 TGGGAGCAAGTTTCTTCAAACAG 59.619 43.478 0.74 0.00 43.98 3.16
3653 4603 5.710099 CACATTTCTAGCTTAAGGGTTCCAA 59.290 40.000 4.29 0.00 0.00 3.53
3716 4668 2.703536 TCCAGCTGACAACAAGGTAAGA 59.296 45.455 17.39 0.00 0.00 2.10
3751 4703 7.040478 GGCTCATAGAATTATATTGGTGCAACA 60.040 37.037 0.00 0.00 39.98 3.33
3857 4809 5.986741 TGTCAAGCGTGTTAATGTCTTCTTA 59.013 36.000 0.00 0.00 0.00 2.10
3908 4860 3.202906 TGAACTTAAGCACGCTGAAACT 58.797 40.909 1.29 0.00 0.00 2.66
3915 4867 0.237498 GCACGCTGAAACTGGGTTAC 59.763 55.000 0.00 0.00 0.00 2.50
3931 4883 4.594062 TGGGTTACTTGCCTTGAGTACTTA 59.406 41.667 0.00 0.00 29.78 2.24
3962 4914 4.887655 AGTACCATGCTACTTATTTTGCCC 59.112 41.667 0.00 0.00 0.00 5.36
4004 4958 8.462016 GCTATTTCTTGCTTTCCTTTATCTTCA 58.538 33.333 0.00 0.00 0.00 3.02
4008 4962 9.520515 TTTCTTGCTTTCCTTTATCTTCATACT 57.479 29.630 0.00 0.00 0.00 2.12
4041 4995 3.360249 AATTTGACTTGCAGTGCTCAC 57.640 42.857 17.60 6.00 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
44 47 2.035321 GGAAGCGGGTCAAATTTGAACA 59.965 45.455 31.65 6.28 46.59 3.18
99 102 6.054941 GGTGTCAAAAATTTTGATCCACCTT 58.945 36.000 32.08 0.00 40.01 3.50
191 194 6.951198 TGAAGGACCAACCATATATTTGTTGT 59.049 34.615 17.46 9.85 42.04 3.32
207 210 4.229304 TGAGTCTTTTTGTGAAGGACCA 57.771 40.909 0.00 0.00 0.00 4.02
235 241 5.915812 TCGATTTTTCATTTGTCGAGTGA 57.084 34.783 0.00 0.00 36.52 3.41
305 313 5.534207 TGCACAAGTTCAAATCTTGGATT 57.466 34.783 9.82 0.00 44.29 3.01
317 327 4.997395 TGATCTCCTACTTTGCACAAGTTC 59.003 41.667 16.02 9.35 0.00 3.01
412 430 4.454504 GTGTGACTACGAATTCCACCAATT 59.545 41.667 0.00 0.00 37.41 2.32
436 454 1.073964 GGGCATCATGTCATCGATCG 58.926 55.000 9.36 9.36 0.00 3.69
450 468 0.778881 ATGGAGGGATGGATGGGCAT 60.779 55.000 0.00 0.00 0.00 4.40
461 479 0.944238 TGGAGAGATGGATGGAGGGA 59.056 55.000 0.00 0.00 0.00 4.20
462 480 1.907936 GATGGAGAGATGGATGGAGGG 59.092 57.143 0.00 0.00 0.00 4.30
463 481 1.907936 GGATGGAGAGATGGATGGAGG 59.092 57.143 0.00 0.00 0.00 4.30
464 482 1.907936 GGGATGGAGAGATGGATGGAG 59.092 57.143 0.00 0.00 0.00 3.86
531 581 1.735559 GAGTTGCGGACGTGGGTAC 60.736 63.158 0.00 0.00 0.00 3.34
538 588 0.320073 TAGGGTTTGAGTTGCGGACG 60.320 55.000 0.00 0.00 0.00 4.79
539 589 1.439679 CTAGGGTTTGAGTTGCGGAC 58.560 55.000 0.00 0.00 0.00 4.79
540 590 0.321298 GCTAGGGTTTGAGTTGCGGA 60.321 55.000 0.00 0.00 0.00 5.54
548 598 2.119495 GGGATCTGAGCTAGGGTTTGA 58.881 52.381 0.00 0.00 0.00 2.69
613 663 1.687297 GGCTACTAGGAGTGGGTGGC 61.687 65.000 3.31 0.00 36.86 5.01
614 664 0.325296 TGGCTACTAGGAGTGGGTGG 60.325 60.000 3.31 0.00 0.00 4.61
615 665 1.207329 GTTGGCTACTAGGAGTGGGTG 59.793 57.143 3.31 0.00 0.00 4.61
646 696 3.164269 AGGAATCGGGCGGCATCT 61.164 61.111 12.47 0.00 0.00 2.90
682 732 4.292178 GCGGAGGAGAGGGCATCG 62.292 72.222 0.00 0.00 0.00 3.84
689 739 0.673437 GAGGATGAAGCGGAGGAGAG 59.327 60.000 0.00 0.00 0.00 3.20
701 751 1.937350 TCTAGTCCAAGGGGAGGATGA 59.063 52.381 0.00 0.00 46.12 2.92
750 800 3.661648 GTGTGGGTGGGAGGGCAT 61.662 66.667 0.00 0.00 0.00 4.40
777 827 4.717313 GAAGGGACGGTGGGTGGC 62.717 72.222 0.00 0.00 0.00 5.01
792 842 2.341101 GGAGGCGACGAGGTCAGAA 61.341 63.158 0.00 0.00 32.09 3.02
816 866 4.680537 ACGAGGTCAGACGGGGCT 62.681 66.667 0.00 0.00 0.00 5.19
820 870 4.477975 GGCGACGAGGTCAGACGG 62.478 72.222 0.00 0.00 32.09 4.79
852 902 4.675303 TGTGGGGGTGAGGGGGAG 62.675 72.222 0.00 0.00 0.00 4.30
853 903 4.995058 GTGTGGGGGTGAGGGGGA 62.995 72.222 0.00 0.00 0.00 4.81
855 905 3.966543 GTGTGTGGGGGTGAGGGG 61.967 72.222 0.00 0.00 0.00 4.79
856 906 3.966543 GGTGTGTGGGGGTGAGGG 61.967 72.222 0.00 0.00 0.00 4.30
857 907 3.966543 GGGTGTGTGGGGGTGAGG 61.967 72.222 0.00 0.00 0.00 3.86
858 908 3.174987 TGGGTGTGTGGGGGTGAG 61.175 66.667 0.00 0.00 0.00 3.51
859 909 3.494254 GTGGGTGTGTGGGGGTGA 61.494 66.667 0.00 0.00 0.00 4.02
860 910 3.814906 TGTGGGTGTGTGGGGGTG 61.815 66.667 0.00 0.00 0.00 4.61
861 911 3.816090 GTGTGGGTGTGTGGGGGT 61.816 66.667 0.00 0.00 0.00 4.95
862 912 3.814906 TGTGTGGGTGTGTGGGGG 61.815 66.667 0.00 0.00 0.00 5.40
863 913 2.518349 GTGTGTGGGTGTGTGGGG 60.518 66.667 0.00 0.00 0.00 4.96
864 914 2.518349 GGTGTGTGGGTGTGTGGG 60.518 66.667 0.00 0.00 0.00 4.61
865 915 1.823470 CTGGTGTGTGGGTGTGTGG 60.823 63.158 0.00 0.00 0.00 4.17
866 916 1.823470 CCTGGTGTGTGGGTGTGTG 60.823 63.158 0.00 0.00 0.00 3.82
867 917 2.595095 CCTGGTGTGTGGGTGTGT 59.405 61.111 0.00 0.00 0.00 3.72
868 918 2.203337 CCCTGGTGTGTGGGTGTG 60.203 66.667 0.00 0.00 38.65 3.82
869 919 4.204028 GCCCTGGTGTGTGGGTGT 62.204 66.667 0.00 0.00 45.06 4.16
870 920 3.889692 AGCCCTGGTGTGTGGGTG 61.890 66.667 0.00 0.00 45.06 4.61
871 921 3.889692 CAGCCCTGGTGTGTGGGT 61.890 66.667 0.00 0.00 45.06 4.51
874 924 3.907260 ATCGCAGCCCTGGTGTGTG 62.907 63.158 6.71 0.00 41.47 3.82
875 925 3.612247 GATCGCAGCCCTGGTGTGT 62.612 63.158 6.71 0.00 41.47 3.72
876 926 1.960040 TAGATCGCAGCCCTGGTGTG 61.960 60.000 0.66 0.66 42.00 3.82
877 927 1.680522 CTAGATCGCAGCCCTGGTGT 61.681 60.000 0.00 0.00 33.19 4.16
878 928 1.068753 CTAGATCGCAGCCCTGGTG 59.931 63.158 0.00 0.00 0.00 4.17
879 929 1.075970 TCTAGATCGCAGCCCTGGT 60.076 57.895 0.00 0.00 0.00 4.00
880 930 1.365633 GTCTAGATCGCAGCCCTGG 59.634 63.158 0.00 0.00 0.00 4.45
881 931 1.112315 AGGTCTAGATCGCAGCCCTG 61.112 60.000 0.00 0.00 0.00 4.45
882 932 0.825840 GAGGTCTAGATCGCAGCCCT 60.826 60.000 1.35 0.00 0.00 5.19
883 933 0.825840 AGAGGTCTAGATCGCAGCCC 60.826 60.000 9.55 0.00 0.00 5.19
884 934 0.313672 CAGAGGTCTAGATCGCAGCC 59.686 60.000 9.55 0.00 0.00 4.85
885 935 1.001815 GACAGAGGTCTAGATCGCAGC 60.002 57.143 9.55 0.00 40.99 5.25
896 946 0.177604 CCCTCATGCAGACAGAGGTC 59.822 60.000 19.63 0.00 45.92 3.85
897 947 1.270414 CCCCTCATGCAGACAGAGGT 61.270 60.000 19.63 0.00 45.92 3.85
898 948 0.979709 TCCCCTCATGCAGACAGAGG 60.980 60.000 16.26 16.26 46.71 3.69
899 949 0.177604 GTCCCCTCATGCAGACAGAG 59.822 60.000 0.00 0.00 0.00 3.35
900 950 1.607801 CGTCCCCTCATGCAGACAGA 61.608 60.000 0.00 0.00 0.00 3.41
901 951 1.153489 CGTCCCCTCATGCAGACAG 60.153 63.158 0.00 0.00 0.00 3.51
902 952 2.659063 CCGTCCCCTCATGCAGACA 61.659 63.158 0.00 0.00 0.00 3.41
903 953 1.690219 ATCCGTCCCCTCATGCAGAC 61.690 60.000 0.00 0.00 0.00 3.51
904 954 1.383109 ATCCGTCCCCTCATGCAGA 60.383 57.895 0.00 0.00 0.00 4.26
905 955 1.227764 CATCCGTCCCCTCATGCAG 60.228 63.158 0.00 0.00 0.00 4.41
906 956 2.910360 CATCCGTCCCCTCATGCA 59.090 61.111 0.00 0.00 0.00 3.96
907 957 2.592861 GCATCCGTCCCCTCATGC 60.593 66.667 0.00 0.00 35.23 4.06
908 958 0.533755 GAAGCATCCGTCCCCTCATG 60.534 60.000 0.00 0.00 0.00 3.07
909 959 0.692419 AGAAGCATCCGTCCCCTCAT 60.692 55.000 0.00 0.00 0.00 2.90
910 960 1.306141 AGAAGCATCCGTCCCCTCA 60.306 57.895 0.00 0.00 0.00 3.86
911 961 1.443828 GAGAAGCATCCGTCCCCTC 59.556 63.158 0.00 0.00 0.00 4.30
912 962 2.427245 CGAGAAGCATCCGTCCCCT 61.427 63.158 0.00 0.00 0.00 4.79
913 963 2.107141 CGAGAAGCATCCGTCCCC 59.893 66.667 0.00 0.00 0.00 4.81
914 964 1.227002 GACGAGAAGCATCCGTCCC 60.227 63.158 16.83 0.87 40.39 4.46
915 965 4.403976 GACGAGAAGCATCCGTCC 57.596 61.111 16.83 4.98 40.39 4.79
916 966 0.248702 GAGGACGAGAAGCATCCGTC 60.249 60.000 18.44 18.44 42.97 4.79
917 967 1.810532 GAGGACGAGAAGCATCCGT 59.189 57.895 5.39 5.39 37.60 4.69
918 968 1.298713 CGAGGACGAGAAGCATCCG 60.299 63.158 0.00 0.00 42.66 4.18
919 969 0.248702 GACGAGGACGAGAAGCATCC 60.249 60.000 0.00 0.00 42.66 3.51
920 970 0.248702 GGACGAGGACGAGAAGCATC 60.249 60.000 0.00 0.00 42.66 3.91
921 971 1.668101 GGGACGAGGACGAGAAGCAT 61.668 60.000 0.00 0.00 42.66 3.79
922 972 2.341101 GGGACGAGGACGAGAAGCA 61.341 63.158 0.00 0.00 42.66 3.91
923 973 2.341101 TGGGACGAGGACGAGAAGC 61.341 63.158 0.00 0.00 42.66 3.86
924 974 1.507174 GTGGGACGAGGACGAGAAG 59.493 63.158 0.00 0.00 42.66 2.85
925 975 1.975407 GGTGGGACGAGGACGAGAA 60.975 63.158 0.00 0.00 42.66 2.87
926 976 2.360852 GGTGGGACGAGGACGAGA 60.361 66.667 0.00 0.00 42.66 4.04
927 977 2.361357 AGGTGGGACGAGGACGAG 60.361 66.667 0.00 0.00 42.66 4.18
928 978 2.360852 GAGGTGGGACGAGGACGA 60.361 66.667 0.00 0.00 42.66 4.20
929 979 2.675423 TGAGGTGGGACGAGGACG 60.675 66.667 0.00 0.00 45.75 4.79
930 980 2.352032 CCTGAGGTGGGACGAGGAC 61.352 68.421 0.00 0.00 0.00 3.85
931 981 2.037367 CCTGAGGTGGGACGAGGA 59.963 66.667 0.00 0.00 0.00 3.71
932 982 3.775654 GCCTGAGGTGGGACGAGG 61.776 72.222 0.00 0.00 0.00 4.63
933 983 4.135153 CGCCTGAGGTGGGACGAG 62.135 72.222 3.58 0.00 0.00 4.18
968 1284 2.508891 GGCTCTTGATGACGACGCG 61.509 63.158 3.53 3.53 0.00 6.01
970 1286 1.134530 GTCGGCTCTTGATGACGACG 61.135 60.000 6.37 0.00 43.31 5.12
1052 1368 3.028969 GGATCCGTACCGAGGTCG 58.971 66.667 0.00 2.77 39.44 4.79
1064 1380 1.512156 GAGGAGAGCTCGACGGATCC 61.512 65.000 8.37 8.71 0.00 3.36
1146 1462 2.491621 CAGGCAGATCTCGCACGA 59.508 61.111 15.83 0.00 0.00 4.35
1147 1463 3.260483 GCAGGCAGATCTCGCACG 61.260 66.667 15.83 8.99 0.00 5.34
1148 1464 3.260483 CGCAGGCAGATCTCGCAC 61.260 66.667 15.83 7.90 0.00 5.34
1184 1500 2.030717 CGCACTGAGCCTATCTAATCGT 60.031 50.000 0.00 0.00 41.38 3.73
1200 1516 2.027625 GTAAGAACGGCAGCGCACT 61.028 57.895 11.47 0.00 0.00 4.40
1204 1520 2.769617 CGTGTAAGAACGGCAGCG 59.230 61.111 0.00 0.00 39.89 5.18
1213 1529 1.135315 CCGAATCGAACCCGTGTAAGA 60.135 52.381 3.36 0.00 37.05 2.10
1246 1562 0.036483 TTGCCTCGAAGCATGCTACA 60.036 50.000 23.00 9.77 43.64 2.74
1252 1568 1.271840 TACCCCTTGCCTCGAAGCAT 61.272 55.000 9.98 0.00 43.64 3.79
1259 1575 2.042261 TCCCCTACCCCTTGCCTC 59.958 66.667 0.00 0.00 0.00 4.70
1260 1576 2.042930 CTCCCCTACCCCTTGCCT 59.957 66.667 0.00 0.00 0.00 4.75
1300 1616 2.355108 CCTCCTCCTTGATTTCGAAGCA 60.355 50.000 0.00 0.00 0.00 3.91
1332 1654 1.699656 GACGCCGTACTAGAGTCGCA 61.700 60.000 0.00 0.00 0.00 5.10
1394 1716 3.634072 CCATGCACGCTAGCGCTC 61.634 66.667 35.63 26.25 44.19 5.03
1442 1764 1.487231 CGAAACGAGACAACTGCCG 59.513 57.895 0.00 0.00 0.00 5.69
1464 1786 0.107557 ACAACCGAAAACACCCGACT 60.108 50.000 0.00 0.00 0.00 4.18
1465 1787 0.734309 AACAACCGAAAACACCCGAC 59.266 50.000 0.00 0.00 0.00 4.79
1470 1792 4.975921 ACAAACAAACAACCGAAAACAC 57.024 36.364 0.00 0.00 0.00 3.32
1477 1799 7.284518 ACAGAATTAAACAAACAAACAACCG 57.715 32.000 0.00 0.00 0.00 4.44
1580 1969 3.387962 AGCTGGAATGAGGGAGTTATGA 58.612 45.455 0.00 0.00 0.00 2.15
1583 1972 4.202567 ACAAAAGCTGGAATGAGGGAGTTA 60.203 41.667 0.00 0.00 0.00 2.24
1586 1975 2.490903 CACAAAAGCTGGAATGAGGGAG 59.509 50.000 0.00 0.00 0.00 4.30
1590 1979 4.982999 CAGATCACAAAAGCTGGAATGAG 58.017 43.478 0.00 0.00 0.00 2.90
1625 2014 8.530269 AGACACTGGTACTATTTTAAGTTTCG 57.470 34.615 0.00 0.00 0.00 3.46
1670 2062 7.667635 TGGTGGATGATAACACACTGAAAAATA 59.332 33.333 0.00 0.00 39.31 1.40
1725 2119 6.112058 GGCAGTTCAAATAAGACTGATCTCT 58.888 40.000 6.89 0.00 32.34 3.10
1737 2140 5.711506 AGTGATGACAATGGCAGTTCAAATA 59.288 36.000 0.00 0.00 0.00 1.40
1738 2141 4.525487 AGTGATGACAATGGCAGTTCAAAT 59.475 37.500 0.00 0.00 0.00 2.32
1743 2146 3.012518 GCTAGTGATGACAATGGCAGTT 58.987 45.455 0.00 0.00 45.19 3.16
1985 2389 9.499585 CTGAAGATCATTTTTGTACTAGCAATG 57.500 33.333 0.00 0.25 0.00 2.82
2301 2708 1.243902 TCAATTTCAGAACGGCCACC 58.756 50.000 2.24 0.00 0.00 4.61
2540 2948 7.328277 ACATCGCCAATAAATTACAGCTTTA 57.672 32.000 0.00 0.00 0.00 1.85
2750 3159 2.568956 AGCAGCAACATCTTGTCTCCTA 59.431 45.455 0.00 0.00 0.00 2.94
2754 3163 0.879765 GCAGCAGCAACATCTTGTCT 59.120 50.000 0.00 0.00 41.58 3.41
2850 3259 0.179145 CGGACGATGTAGAAGGCGTT 60.179 55.000 0.00 0.00 37.07 4.84
2853 3262 1.067582 CCCGGACGATGTAGAAGGC 59.932 63.158 0.73 0.00 0.00 4.35
3075 3484 0.329261 TAGCACTGCCTCAGCCATTT 59.671 50.000 0.00 0.00 38.69 2.32
3076 3485 0.107312 CTAGCACTGCCTCAGCCATT 60.107 55.000 0.00 0.00 38.69 3.16
3093 3503 6.656902 TCAGCTAGTACTAACTACCAAGCTA 58.343 40.000 11.21 0.66 40.68 3.32
3177 3588 3.638484 GCAAACTCCCATACAACAACAC 58.362 45.455 0.00 0.00 0.00 3.32
3198 4138 4.155826 CAGAGCTCTATAGAACATCCCTCG 59.844 50.000 17.75 0.00 0.00 4.63
3252 4193 7.690952 ACTCGACTTTCTCAACTATAAGAGT 57.309 36.000 0.00 0.00 41.56 3.24
3366 4307 6.257193 GCTACGGTACAGTTAAGCAACATATT 59.743 38.462 13.85 0.00 37.10 1.28
3410 4357 8.109705 AGAACACAAATACATGCAGTTTGATA 57.890 30.769 18.98 0.00 36.58 2.15
3469 4419 5.236911 CGTAGTCTTTAGCTTACCGATCTCT 59.763 44.000 0.00 0.00 0.00 3.10
3470 4420 5.442402 CGTAGTCTTTAGCTTACCGATCTC 58.558 45.833 0.00 0.00 0.00 2.75
3484 4434 0.818296 AGCGATGGAGCGTAGTCTTT 59.182 50.000 0.00 0.00 43.00 2.52
3485 4435 0.101399 CAGCGATGGAGCGTAGTCTT 59.899 55.000 0.00 0.00 43.00 3.01
3525 4475 4.371786 TGTCAGATGAACATATTCTCCGC 58.628 43.478 0.00 0.00 35.69 5.54
3579 4529 4.701651 CCAGCCTGATGACAAAGTAATCAA 59.298 41.667 0.00 0.00 33.50 2.57
3653 4603 1.763256 GGGGGCCATCATGTGCAAT 60.763 57.895 4.39 0.00 0.00 3.56
3716 4668 9.520515 AATATAATTCTATGAGCCGGATGTTTT 57.479 29.630 5.05 0.00 0.00 2.43
3751 4703 8.758829 AGGAAAACTTTCAAGGAAAACAAGTAT 58.241 29.630 4.67 0.00 38.92 2.12
3831 4783 3.728845 AGACATTAACACGCTTGACAGT 58.271 40.909 0.00 0.00 0.00 3.55
3894 4846 0.751643 AACCCAGTTTCAGCGTGCTT 60.752 50.000 0.00 0.00 0.00 3.91
3900 4852 1.269723 GGCAAGTAACCCAGTTTCAGC 59.730 52.381 0.00 0.00 0.00 4.26
3908 4860 2.976882 AGTACTCAAGGCAAGTAACCCA 59.023 45.455 0.00 0.00 31.32 4.51
3915 4867 8.200792 ACTGAGAATATAAGTACTCAAGGCAAG 58.799 37.037 0.00 0.00 38.60 4.01
3938 4890 5.221048 GGGCAAAATAAGTAGCATGGTACTG 60.221 44.000 32.19 21.80 33.35 2.74
3962 4914 4.657436 AATAGCAGACTAGAAACCTCGG 57.343 45.455 0.00 0.00 0.00 4.63


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

AutoCloner maintained by Alex Coulton.