Multiple sequence alignment - TraesCS6B01G100600

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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 TraesCS6B01G100600 chr6B 100.000 5692 0 0 1 5692 78616694 78622385 0.000000e+00 10512.0
1 TraesCS6B01G100600 chr6B 87.599 1395 124 19 874 2257 79303577 79302221 0.000000e+00 1572.0
2 TraesCS6B01G100600 chr6B 81.303 1412 176 43 3453 4810 79300979 79299602 0.000000e+00 1064.0
3 TraesCS6B01G100600 chr6B 87.420 938 88 12 740 1677 79344142 79343235 0.000000e+00 1051.0
4 TraesCS6B01G100600 chr6B 82.857 1225 130 45 3637 4818 79336686 79335499 0.000000e+00 1026.0
5 TraesCS6B01G100600 chr6B 86.032 809 79 18 1 790 79349765 79348972 0.000000e+00 837.0
6 TraesCS6B01G100600 chr6B 84.788 756 68 25 3 749 79346006 79345289 0.000000e+00 715.0
7 TraesCS6B01G100600 chr6B 84.146 738 61 15 2719 3437 79301728 79301028 0.000000e+00 664.0
8 TraesCS6B01G100600 chr6B 86.913 596 55 10 1674 2259 79338006 79337424 0.000000e+00 647.0
9 TraesCS6B01G100600 chr6B 83.660 612 67 19 304 903 79304086 79303496 3.880000e-151 545.0
10 TraesCS6B01G100600 chr6B 89.474 418 34 7 5132 5546 79298487 79298077 2.350000e-143 520.0
11 TraesCS6B01G100600 chr6B 80.806 521 70 17 3588 4089 82186292 82186801 1.160000e-101 381.0
12 TraesCS6B01G100600 chr6B 81.140 456 51 21 4056 4486 79041998 79041553 3.290000e-87 333.0
13 TraesCS6B01G100600 chr6B 78.637 543 78 20 4495 5005 60088604 60088068 5.500000e-85 326.0
14 TraesCS6B01G100600 chr6B 79.597 397 60 13 3646 4033 82160820 82161204 1.220000e-66 265.0
15 TraesCS6B01G100600 chr6B 88.571 210 15 5 2699 2904 79336912 79336708 4.400000e-61 246.0
16 TraesCS6B01G100600 chr6B 90.123 162 14 2 5386 5546 79334988 79334828 5.780000e-50 209.0
17 TraesCS6B01G100600 chr6B 74.568 405 68 27 5144 5535 48932323 48931941 1.650000e-30 145.0
18 TraesCS6B01G100600 chr6B 89.535 86 8 1 2725 2810 60089255 60089171 2.170000e-19 108.0
19 TraesCS6B01G100600 chr6B 88.043 92 9 2 817 908 79344022 79343933 2.170000e-19 108.0
20 TraesCS6B01G100600 chrUn 91.781 2482 135 30 869 3315 27974683 27972236 0.000000e+00 3389.0
21 TraesCS6B01G100600 chrUn 88.214 1400 122 19 874 2259 27871893 27873263 0.000000e+00 1631.0
22 TraesCS6B01G100600 chrUn 89.105 1028 81 14 3898 4900 27972231 27971210 0.000000e+00 1249.0
23 TraesCS6B01G100600 chrUn 87.527 922 83 22 3 909 27975495 27974591 0.000000e+00 1037.0
24 TraesCS6B01G100600 chrUn 83.740 738 59 21 2718 3437 314026618 314025924 4.810000e-180 641.0
25 TraesCS6B01G100600 chrUn 85.426 645 61 16 1632 2259 314027743 314027115 1.730000e-179 640.0
26 TraesCS6B01G100600 chrUn 83.745 689 76 16 3453 4119 314025878 314025204 2.250000e-173 619.0
27 TraesCS6B01G100600 chrUn 86.573 499 58 4 1179 1677 327369383 327368894 5.020000e-150 542.0
28 TraesCS6B01G100600 chrUn 89.362 423 28 10 5130 5546 27876142 27876553 3.040000e-142 516.0
29 TraesCS6B01G100600 chrUn 84.570 512 42 8 2931 3431 27873576 27874061 1.860000e-129 473.0
30 TraesCS6B01G100600 chrUn 77.121 896 124 40 3252 4089 27084889 27085761 1.460000e-120 444.0
31 TraesCS6B01G100600 chrUn 85.535 318 35 10 5131 5445 27970925 27970616 7.110000e-84 322.0
32 TraesCS6B01G100600 chrUn 78.541 466 57 30 4501 4939 27076658 27077107 3.380000e-67 267.0
33 TraesCS6B01G100600 chrUn 82.692 260 27 10 642 894 27871717 27871965 1.240000e-51 215.0
34 TraesCS6B01G100600 chrUn 89.062 64 3 4 5256 5318 27458914 27458974 6.120000e-10 76.8
35 TraesCS6B01G100600 chrUn 81.928 83 10 4 5256 5337 76768625 76768703 1.320000e-06 65.8
36 TraesCS6B01G100600 chr6A 92.537 1340 90 6 898 2232 45752677 45754011 0.000000e+00 1912.0
37 TraesCS6B01G100600 chr6A 85.494 1882 166 47 874 2699 45983183 45981353 0.000000e+00 1864.0
38 TraesCS6B01G100600 chr6A 82.439 1714 209 43 3453 5104 45869859 45871542 0.000000e+00 1413.0
39 TraesCS6B01G100600 chr6A 81.781 1718 197 58 3453 5107 46117438 46115774 0.000000e+00 1332.0
40 TraesCS6B01G100600 chr6A 83.630 1179 126 36 502 1634 46149857 46148700 0.000000e+00 1046.0
41 TraesCS6B01G100600 chr6A 85.682 894 81 27 26 904 45983962 45983101 0.000000e+00 898.0
42 TraesCS6B01G100600 chr6A 86.892 740 82 8 879 1611 45863294 45864025 0.000000e+00 815.0
43 TraesCS6B01G100600 chr6A 83.206 917 80 38 2276 3145 45754534 45755423 0.000000e+00 773.0
44 TraesCS6B01G100600 chr6A 84.903 775 78 26 617 1370 46120707 46119951 0.000000e+00 747.0
45 TraesCS6B01G100600 chr6A 80.417 960 119 29 3453 4372 45980572 45979642 0.000000e+00 667.0
46 TraesCS6B01G100600 chr6A 83.740 738 59 21 2718 3437 46118178 46117484 4.810000e-180 641.0
47 TraesCS6B01G100600 chr6A 83.740 738 59 21 2718 3437 46146297 46145603 4.810000e-180 641.0
48 TraesCS6B01G100600 chr6A 85.426 645 61 16 1632 2259 46119303 46118675 1.730000e-179 640.0
49 TraesCS6B01G100600 chr6A 90.909 484 33 8 10 489 46121620 46121144 1.730000e-179 640.0
50 TraesCS6B01G100600 chr6A 90.909 484 33 8 10 489 46150626 46150150 1.730000e-179 640.0
51 TraesCS6B01G100600 chr6A 83.649 740 52 25 2716 3437 45869125 45869813 2.890000e-177 632.0
52 TraesCS6B01G100600 chr6A 83.745 689 76 16 3453 4119 46145557 46144883 2.250000e-173 619.0
53 TraesCS6B01G100600 chr6A 87.405 524 51 6 3452 3972 45755456 45755967 6.350000e-164 588.0
54 TraesCS6B01G100600 chr6A 83.931 641 72 19 4491 5107 45979577 45978944 8.220000e-163 584.0
55 TraesCS6B01G100600 chr6A 81.561 743 86 28 4387 5107 46114706 46113993 2.980000e-157 566.0
56 TraesCS6B01G100600 chr6A 81.547 737 65 17 2719 3437 45981301 45980618 5.020000e-150 542.0
57 TraesCS6B01G100600 chr6A 89.696 427 31 10 5130 5546 45978579 45978156 3.020000e-147 532.0
58 TraesCS6B01G100600 chr6A 89.268 410 41 3 1632 2041 45864272 45864678 1.410000e-140 510.0
59 TraesCS6B01G100600 chr6A 87.678 422 40 5 5130 5546 46131643 46131229 1.110000e-131 481.0
60 TraesCS6B01G100600 chr6A 87.441 422 41 5 5130 5546 46100496 46100082 5.160000e-130 475.0
61 TraesCS6B01G100600 chr6A 83.921 454 48 13 261 708 45861024 45861458 1.480000e-110 411.0
62 TraesCS6B01G100600 chr6A 76.694 841 119 39 3252 4043 47448559 47447747 4.130000e-106 396.0
63 TraesCS6B01G100600 chr6A 76.667 840 116 39 3252 4043 47460283 47459476 5.350000e-105 392.0
64 TraesCS6B01G100600 chr6A 83.942 411 31 17 500 909 45752364 45752740 1.510000e-95 361.0
65 TraesCS6B01G100600 chr6A 90.173 173 6 2 868 1040 46120517 46120356 1.240000e-51 215.0
66 TraesCS6B01G100600 chr6A 89.595 173 7 2 868 1040 46149527 46149366 5.780000e-50 209.0
67 TraesCS6B01G100600 chr6A 88.439 173 10 4 5383 5546 45757030 45757201 3.480000e-47 200.0
68 TraesCS6B01G100600 chr4D 88.889 333 30 5 12 343 102137886 102137560 2.470000e-108 403.0
69 TraesCS6B01G100600 chr7D 87.714 350 35 5 3 351 496715775 496715433 8.880000e-108 401.0
70 TraesCS6B01G100600 chr7D 97.872 94 2 0 5538 5631 264901021 264900928 4.560000e-36 163.0
71 TraesCS6B01G100600 chr7A 87.608 347 37 4 5 350 532474818 532474477 1.150000e-106 398.0
72 TraesCS6B01G100600 chr7A 92.453 106 5 3 5526 5629 20733032 20732928 1.280000e-31 148.0
73 TraesCS6B01G100600 chr6D 79.149 470 67 14 4563 5005 29222233 29222698 4.310000e-76 296.0
74 TraesCS6B01G100600 chr6D 93.939 99 5 1 5541 5638 221219404 221219306 1.280000e-31 148.0
75 TraesCS6B01G100600 chr6D 91.667 108 5 4 5525 5629 443958498 443958604 4.600000e-31 147.0
76 TraesCS6B01G100600 chr3D 98.913 92 1 0 5538 5629 332232967 332232876 1.270000e-36 165.0
77 TraesCS6B01G100600 chr3B 96.809 94 3 0 5537 5630 527052315 527052408 2.120000e-34 158.0
78 TraesCS6B01G100600 chr3B 93.333 105 6 1 5527 5630 447014649 447014545 2.750000e-33 154.0
79 TraesCS6B01G100600 chr2B 96.774 93 3 0 5538 5630 796740090 796739998 7.640000e-34 156.0
80 TraesCS6B01G100600 chr5A 94.898 98 5 0 5533 5630 9507997 9508094 2.750000e-33 154.0


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 TraesCS6B01G100600 chr6B 78616694 78622385 5691 False 10512.000000 10512 100.000000 1 5692 1 chr6B.!!$F1 5691
1 TraesCS6B01G100600 chr6B 79298077 79304086 6009 True 873.000000 1572 85.236400 304 5546 5 chr6B.!!$R4 5242
2 TraesCS6B01G100600 chr6B 79343235 79349765 6530 True 677.750000 1051 86.570750 1 1677 4 chr6B.!!$R6 1676
3 TraesCS6B01G100600 chr6B 79334828 79338006 3178 True 532.000000 1026 87.116000 1674 5546 4 chr6B.!!$R5 3872
4 TraesCS6B01G100600 chr6B 82186292 82186801 509 False 381.000000 381 80.806000 3588 4089 1 chr6B.!!$F3 501
5 TraesCS6B01G100600 chr6B 60088068 60089255 1187 True 217.000000 326 84.086000 2725 5005 2 chr6B.!!$R3 2280
6 TraesCS6B01G100600 chrUn 27970616 27975495 4879 True 1499.250000 3389 88.487000 3 5445 4 chrUn.!!$R2 5442
7 TraesCS6B01G100600 chrUn 27871717 27876553 4836 False 708.750000 1631 86.209500 642 5546 4 chrUn.!!$F5 4904
8 TraesCS6B01G100600 chrUn 314025204 314027743 2539 True 633.333333 641 84.303667 1632 4119 3 chrUn.!!$R3 2487
9 TraesCS6B01G100600 chrUn 27084889 27085761 872 False 444.000000 444 77.121000 3252 4089 1 chrUn.!!$F2 837
10 TraesCS6B01G100600 chr6A 45869125 45871542 2417 False 1022.500000 1413 83.044000 2716 5104 2 chr6A.!!$F3 2388
11 TraesCS6B01G100600 chr6A 45978156 45983962 5806 True 847.833333 1864 84.461167 26 5546 6 chr6A.!!$R5 5520
12 TraesCS6B01G100600 chr6A 45752364 45757201 4837 False 766.800000 1912 87.105800 500 5546 5 chr6A.!!$F1 5046
13 TraesCS6B01G100600 chr6A 46113993 46121620 7627 True 683.000000 1332 85.499000 10 5107 7 chr6A.!!$R6 5097
14 TraesCS6B01G100600 chr6A 46144883 46150626 5743 True 631.000000 1046 86.323800 10 4119 5 chr6A.!!$R7 4109
15 TraesCS6B01G100600 chr6A 45861024 45864678 3654 False 578.666667 815 86.693667 261 2041 3 chr6A.!!$F2 1780
16 TraesCS6B01G100600 chr6A 47447747 47448559 812 True 396.000000 396 76.694000 3252 4043 1 chr6A.!!$R3 791
17 TraesCS6B01G100600 chr6A 47459476 47460283 807 True 392.000000 392 76.667000 3252 4043 1 chr6A.!!$R4 791

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
853 7837 0.179004 ACTTTCAACATCCCCGCACA 60.179 50.0 0.0 0.0 0.00 4.57 F
955 7954 0.608035 TCAGTTTCAACATCCCCGCC 60.608 55.0 0.0 0.0 0.00 6.13 F
2359 11472 0.245539 TGTGGTTCTCGGGTTCGATC 59.754 55.0 0.0 0.0 45.04 3.69 F
3718 13187 0.179062 ATCAATCTGGGCGTCAGCTC 60.179 55.0 0.0 0.0 46.24 4.09 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2113 10732 0.544357 TCATGAAGGGAGGACACCGT 60.544 55.0 0.00 0.00 0.00 4.83 R
2714 11867 1.024046 TACAGAAATGCGCGCACCAT 61.024 50.0 39.05 25.28 0.00 3.55 R
4125 13635 0.178767 TTGCTACTCGCCTGCATCAT 59.821 50.0 0.00 0.00 38.05 2.45 R
4703 14287 0.248289 ACCGGTACACCACATAGCAC 59.752 55.0 4.49 0.00 35.14 4.40 R

All possible primers

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

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
81 82 5.982516 TGCAACAAGGTTATTGTCAATTCAC 59.017 36.000 2.79 1.56 0.00 3.18
223 225 4.223953 CACTGTCCTAGGGAGGCTAATTA 58.776 47.826 9.46 0.00 43.40 1.40
232 234 2.808543 GGGAGGCTAATTATGTTGCTCG 59.191 50.000 0.00 0.00 0.00 5.03
241 243 7.254795 GGCTAATTATGTTGCTCGTGAATTAGT 60.255 37.037 15.78 0.00 38.36 2.24
242 244 7.584123 GCTAATTATGTTGCTCGTGAATTAGTG 59.416 37.037 15.78 2.18 38.36 2.74
258 261 5.360999 GAATTAGTGAATTTGGCTAAGGCCT 59.639 40.000 0.00 0.00 45.62 5.19
271 274 5.024785 GCTAAGGCCTGTCTTGTAATAGT 57.975 43.478 5.69 0.00 0.00 2.12
272 275 5.429130 GCTAAGGCCTGTCTTGTAATAGTT 58.571 41.667 5.69 0.00 0.00 2.24
351 360 9.667107 TCTTGGTTGAATCGTAAATAAAGAGAT 57.333 29.630 0.00 0.00 0.00 2.75
432 447 5.691305 GCTGCTTCATTTGTGACATGTTTTA 59.309 36.000 0.00 0.00 0.00 1.52
543 839 6.458210 AGGTAGATGAATTTGCTTTTTGTGG 58.542 36.000 0.00 0.00 0.00 4.17
577 873 0.486879 TGGACAAGCCAAAGGGGAAT 59.513 50.000 0.00 0.00 45.87 3.01
606 904 6.859420 TTACATCATTATGGATTCCACACG 57.141 37.500 7.76 0.00 35.80 4.49
663 4729 4.042187 AGCAGAAAGGGTAGACACAAATCT 59.958 41.667 0.00 0.00 0.00 2.40
708 6523 5.246307 CGTAGATATTTTCTGGGGGATTCC 58.754 45.833 0.00 0.00 35.79 3.01
709 6524 5.013183 CGTAGATATTTTCTGGGGGATTCCT 59.987 44.000 2.01 0.00 35.79 3.36
710 6525 5.590976 AGATATTTTCTGGGGGATTCCTC 57.409 43.478 2.01 0.00 31.79 3.71
711 6526 5.238736 AGATATTTTCTGGGGGATTCCTCT 58.761 41.667 1.78 0.00 33.63 3.69
712 6527 5.678672 AGATATTTTCTGGGGGATTCCTCTT 59.321 40.000 1.78 0.00 33.63 2.85
715 6530 3.739401 TTCTGGGGGATTCCTCTTTTC 57.261 47.619 1.78 0.00 33.63 2.29
765 7738 1.161843 CGTGGGCTTTAAACGTCCAT 58.838 50.000 12.21 0.00 32.79 3.41
766 7739 1.129811 CGTGGGCTTTAAACGTCCATC 59.870 52.381 12.21 7.20 32.79 3.51
809 7793 1.153168 AGTTTCATCCCGCATCCCG 60.153 57.895 0.00 0.00 0.00 5.14
810 7794 2.515991 TTTCATCCCGCATCCCGC 60.516 61.111 0.00 0.00 35.03 6.13
812 7796 2.623094 TTTCATCCCGCATCCCGCAT 62.623 55.000 0.00 0.00 42.60 4.73
813 7797 3.052082 CATCCCGCATCCCGCATC 61.052 66.667 0.00 0.00 42.60 3.91
814 7798 4.335647 ATCCCGCATCCCGCATCC 62.336 66.667 0.00 0.00 42.60 3.51
820 7804 3.052082 CATCCCGCATCCCGCATC 61.052 66.667 0.00 0.00 42.60 3.91
821 7805 4.335647 ATCCCGCATCCCGCATCC 62.336 66.667 0.00 0.00 42.60 3.51
853 7837 0.179004 ACTTTCAACATCCCCGCACA 60.179 50.000 0.00 0.00 0.00 4.57
893 7886 1.070577 CCGCGTCAGTTTCACTTTCAG 60.071 52.381 4.92 0.00 0.00 3.02
896 7889 2.031682 GCGTCAGTTTCACTTTCAGCAT 60.032 45.455 0.00 0.00 0.00 3.79
948 7947 5.163519 CCCACTTCAGTTTCAGTTTCAACAT 60.164 40.000 0.00 0.00 0.00 2.71
955 7954 0.608035 TCAGTTTCAACATCCCCGCC 60.608 55.000 0.00 0.00 0.00 6.13
956 7955 1.304134 AGTTTCAACATCCCCGCCC 60.304 57.895 0.00 0.00 0.00 6.13
957 7956 2.036572 TTTCAACATCCCCGCCCC 59.963 61.111 0.00 0.00 0.00 5.80
958 7957 3.929334 TTTCAACATCCCCGCCCCG 62.929 63.158 0.00 0.00 0.00 5.73
1071 8154 1.038130 ACCTGCTACGCGAGATCCTT 61.038 55.000 15.93 0.00 0.00 3.36
1353 8436 2.879026 CCATGGACTGATGCTCATCTTG 59.121 50.000 5.56 6.65 38.60 3.02
1680 10284 5.652994 GGTTTTCCACCAGCATTTACATA 57.347 39.130 0.00 0.00 46.42 2.29
1693 10297 5.048921 AGCATTTACATAGATCATGCTGTGC 60.049 40.000 12.22 12.19 46.92 4.57
1733 10337 2.025037 ACTGGCAGCTCATTGGGAATTA 60.025 45.455 15.89 0.00 0.00 1.40
1817 10421 4.223032 GCCTATCTATAGCAAGGGCAACTA 59.777 45.833 17.24 0.00 44.61 2.24
1832 10436 3.181496 GGCAACTACTTCAAGCTTATGCC 60.181 47.826 0.00 8.59 43.31 4.40
1871 10484 4.044065 TGGGATAGGTTTCCTGTTCATGTT 59.956 41.667 0.00 0.00 35.97 2.71
1893 10506 5.798125 TCAATTCAAACTACATTGCCCAA 57.202 34.783 0.00 0.00 0.00 4.12
2087 10703 1.203523 GATCCAACTCGACTCACTGCT 59.796 52.381 0.00 0.00 0.00 4.24
2113 10732 1.838073 GAAGCTTCCCCGACCCAAGA 61.838 60.000 15.97 0.00 0.00 3.02
2137 10756 3.282885 GTGTCCTCCCTTCATGATTTCC 58.717 50.000 0.00 0.00 0.00 3.13
2151 10770 4.262891 TGATTTCCCCCTTCATGCATTA 57.737 40.909 0.00 0.00 0.00 1.90
2185 10808 4.181578 CACTGCTGGTACGTAATAGCTTT 58.818 43.478 24.23 13.52 37.10 3.51
2295 11406 5.353123 TCGCAACAGTACTTCTTTCTTTTGT 59.647 36.000 0.00 0.00 0.00 2.83
2300 11411 7.158099 ACAGTACTTCTTTCTTTTGTTGCTT 57.842 32.000 0.00 0.00 0.00 3.91
2301 11412 7.029563 ACAGTACTTCTTTCTTTTGTTGCTTG 58.970 34.615 0.00 0.00 0.00 4.01
2302 11413 7.094377 ACAGTACTTCTTTCTTTTGTTGCTTGA 60.094 33.333 0.00 0.00 0.00 3.02
2359 11472 0.245539 TGTGGTTCTCGGGTTCGATC 59.754 55.000 0.00 0.00 45.04 3.69
2416 11548 2.738587 TCTCGGAAGCAGTATCCTCT 57.261 50.000 0.00 0.00 34.66 3.69
2473 11606 2.969300 TTTGCGGGAAAGAAGGGCGT 62.969 55.000 0.00 0.00 0.00 5.68
2475 11608 1.814169 GCGGGAAAGAAGGGCGTAG 60.814 63.158 0.00 0.00 0.00 3.51
2495 11628 5.924825 CGTAGGAGGGTTATTAATGCTGTAC 59.075 44.000 0.00 0.00 0.00 2.90
2520 11665 6.623549 CGGACGAAACTAACCTCACTTATACA 60.624 42.308 0.00 0.00 0.00 2.29
2524 11669 8.796475 ACGAAACTAACCTCACTTATACAGTTA 58.204 33.333 0.00 0.00 30.92 2.24
2714 11867 5.127845 TGAAACAATACCTTTTGTTGCCAGA 59.872 36.000 3.57 0.00 46.33 3.86
2720 11917 1.606224 CCTTTTGTTGCCAGATGGTGC 60.606 52.381 0.00 0.00 37.57 5.01
2723 11920 4.465512 GTTGCCAGATGGTGCGCG 62.466 66.667 0.00 0.00 37.57 6.86
2886 12208 8.888716 AGTTTTCTCTTCTTCTCTTCAGTTTTC 58.111 33.333 0.00 0.00 0.00 2.29
2921 12261 3.845781 TTCTGAGTTTCAGCCTCTTGT 57.154 42.857 1.23 0.00 43.95 3.16
2929 12270 6.321181 TGAGTTTCAGCCTCTTGTATTTTTGT 59.679 34.615 0.00 0.00 0.00 2.83
2939 12280 7.086376 CCTCTTGTATTTTTGTGTCATCTTGG 58.914 38.462 0.00 0.00 0.00 3.61
3106 12486 1.950216 TGCGACAGTTGCCAAATTGTA 59.050 42.857 10.50 0.00 36.47 2.41
3169 12549 3.409026 AGGCTGAATGAGAAACGACTT 57.591 42.857 0.00 0.00 0.00 3.01
3179 12559 9.537192 TGAATGAGAAACGACTTAGACTTTTTA 57.463 29.630 0.00 0.00 0.00 1.52
3210 12590 8.336080 GGTACAATTCCAATCGAGATTTTAGTC 58.664 37.037 0.00 0.00 0.00 2.59
3214 12594 9.109393 CAATTCCAATCGAGATTTTAGTCCTTA 57.891 33.333 0.00 0.00 0.00 2.69
3220 12600 6.032956 TCGAGATTTTAGTCCTTACTGCAA 57.967 37.500 0.00 0.00 36.36 4.08
3230 12614 4.020662 AGTCCTTACTGCAAAAGAGGAGAG 60.021 45.833 9.50 0.00 37.20 3.20
3350 12742 1.352352 AGTCCTAGTTGGTTGCTGCAT 59.648 47.619 1.84 0.00 37.07 3.96
3354 12746 2.756760 CCTAGTTGGTTGCTGCATGATT 59.243 45.455 1.84 0.00 0.00 2.57
3355 12747 2.736144 AGTTGGTTGCTGCATGATTG 57.264 45.000 1.84 0.00 0.00 2.67
3358 12763 1.330234 TGGTTGCTGCATGATTGTGT 58.670 45.000 1.84 0.00 0.00 3.72
3432 12837 9.770097 TTTAGATGATCAACATTCCTAGATCAC 57.230 33.333 0.00 2.22 46.59 3.06
3437 12850 7.440198 TGATCAACATTCCTAGATCACTGATC 58.560 38.462 10.65 10.65 41.21 2.92
3439 12852 7.186570 TCAACATTCCTAGATCACTGATCAA 57.813 36.000 19.21 6.84 41.12 2.57
3440 12853 7.044181 TCAACATTCCTAGATCACTGATCAAC 58.956 38.462 19.21 0.00 41.12 3.18
3441 12854 6.550938 ACATTCCTAGATCACTGATCAACA 57.449 37.500 19.21 5.17 41.12 3.33
3442 12855 7.134362 ACATTCCTAGATCACTGATCAACAT 57.866 36.000 19.21 3.32 41.12 2.71
3443 12856 7.571919 ACATTCCTAGATCACTGATCAACATT 58.428 34.615 19.21 2.99 41.12 2.71
3444 12857 7.714377 ACATTCCTAGATCACTGATCAACATTC 59.286 37.037 19.21 0.00 41.12 2.67
3445 12858 6.166984 TCCTAGATCACTGATCAACATTCC 57.833 41.667 19.21 0.00 41.12 3.01
3448 12861 7.232330 TCCTAGATCACTGATCAACATTCCTAG 59.768 40.741 19.21 10.03 41.12 3.02
3449 12862 7.232330 CCTAGATCACTGATCAACATTCCTAGA 59.768 40.741 19.21 0.00 41.12 2.43
3450 12863 7.615039 AGATCACTGATCAACATTCCTAGAT 57.385 36.000 19.21 0.00 41.12 1.98
3456 12902 9.551734 CACTGATCAACATTCCTAGATCAATTA 57.448 33.333 0.00 0.00 44.25 1.40
3567 13014 1.304713 CCTCATGGGCAGGCTTTGT 60.305 57.895 0.00 0.00 0.00 2.83
3578 13025 2.795329 CAGGCTTTGTCCATGTAAGGT 58.205 47.619 0.00 0.00 0.00 3.50
3642 13105 1.818674 GTTAGGTGGCACCAAATCCTG 59.181 52.381 36.28 0.00 41.95 3.86
3645 13108 1.535204 GGTGGCACCAAATCCTGTGG 61.535 60.000 31.26 0.00 38.42 4.17
3718 13187 0.179062 ATCAATCTGGGCGTCAGCTC 60.179 55.000 0.00 0.00 46.24 4.09
3767 13244 2.428890 AGTGTCTGCTGCCACTATAGTC 59.571 50.000 5.41 0.00 40.03 2.59
3801 13278 0.813184 CGAGCCCTGCAAATGATTGT 59.187 50.000 0.00 0.00 38.85 2.71
3803 13280 1.547372 GAGCCCTGCAAATGATTGTGT 59.453 47.619 0.00 0.00 38.85 3.72
3845 13324 3.009033 TGCCTTACTAGTTTGTGCCTCAT 59.991 43.478 0.00 0.00 0.00 2.90
3846 13325 4.224147 TGCCTTACTAGTTTGTGCCTCATA 59.776 41.667 0.00 0.00 0.00 2.15
3847 13326 5.183228 GCCTTACTAGTTTGTGCCTCATAA 58.817 41.667 0.00 0.00 0.00 1.90
3848 13327 5.823045 GCCTTACTAGTTTGTGCCTCATAAT 59.177 40.000 0.00 0.00 0.00 1.28
4121 13631 8.934023 TGTTCCTTTTATCACTTTTAGGACAT 57.066 30.769 0.00 0.00 31.85 3.06
4122 13632 9.010029 TGTTCCTTTTATCACTTTTAGGACATC 57.990 33.333 0.00 0.00 31.85 3.06
4125 13635 6.889722 CCTTTTATCACTTTTAGGACATCCCA 59.110 38.462 0.00 0.00 37.41 4.37
4126 13636 7.561356 CCTTTTATCACTTTTAGGACATCCCAT 59.439 37.037 0.00 0.00 37.41 4.00
4127 13637 7.880160 TTTATCACTTTTAGGACATCCCATG 57.120 36.000 0.00 0.00 37.41 3.66
4128 13638 5.715439 ATCACTTTTAGGACATCCCATGA 57.285 39.130 0.00 0.00 37.41 3.07
4159 13669 4.324267 AGTAGCAAGTCCATTTGTACCAC 58.676 43.478 0.00 0.00 0.00 4.16
4204 13714 9.589111 GTTTATTTCATTTTCCCGGCTAAATTA 57.411 29.630 0.00 0.00 0.00 1.40
4214 13724 6.445357 TCCCGGCTAAATTAATTTGAAGAC 57.555 37.500 21.19 13.56 0.00 3.01
4234 13753 4.960469 AGACCAAAATAGTCCCGATCACTA 59.040 41.667 0.00 0.00 34.67 2.74
4236 13755 5.855045 ACCAAAATAGTCCCGATCACTATC 58.145 41.667 5.03 0.00 36.26 2.08
4405 13939 1.802960 CATATGGCGTGGAATGAGCTC 59.197 52.381 6.82 6.82 0.00 4.09
4421 13956 5.401531 TGAGCTCAAAAGTTACGGATACT 57.598 39.130 15.67 0.00 0.00 2.12
4433 13968 7.229581 AGTTACGGATACTTTGTCTCTTCTT 57.770 36.000 0.00 0.00 0.00 2.52
4437 13972 5.035443 CGGATACTTTGTCTCTTCTTACCG 58.965 45.833 0.00 0.00 0.00 4.02
4473 14008 2.677836 TGTGCATCTTCATTCTTACGGC 59.322 45.455 0.00 0.00 0.00 5.68
4480 14015 6.423905 GCATCTTCATTCTTACGGCAGTAATA 59.576 38.462 9.93 0.26 41.49 0.98
4482 14017 7.766219 TCTTCATTCTTACGGCAGTAATAAC 57.234 36.000 9.93 0.00 41.49 1.89
4486 14021 7.970384 TCATTCTTACGGCAGTAATAACTTTG 58.030 34.615 9.93 5.53 41.49 2.77
4487 14022 5.789710 TCTTACGGCAGTAATAACTTTGC 57.210 39.130 9.93 0.00 41.49 3.68
4579 14155 7.992754 ATCTAAATATCTGTTGATGCTTCCC 57.007 36.000 0.00 0.00 34.32 3.97
4589 14165 5.563592 TGTTGATGCTTCCCCATATCTATG 58.436 41.667 0.00 0.00 0.00 2.23
4644 14220 5.113502 ACTTCTTATGCTTGCAGAAACAC 57.886 39.130 4.26 0.00 0.00 3.32
4681 14257 2.372264 TGATGGAGCTGATCTTTTGCC 58.628 47.619 0.00 0.00 0.00 4.52
4703 14287 8.797350 TGCCCAATACATAAGATGATTAGATG 57.203 34.615 0.00 0.00 0.00 2.90
4713 14297 8.880750 CATAAGATGATTAGATGTGCTATGTGG 58.119 37.037 0.00 0.00 0.00 4.17
4733 14317 1.028330 TGTACCGGTCGAGCAGGTAG 61.028 60.000 26.99 8.57 46.03 3.18
4734 14318 1.028868 GTACCGGTCGAGCAGGTAGT 61.029 60.000 26.99 14.29 46.03 2.73
4746 14330 4.576873 CGAGCAGGTAGTCTTATCTTCTGA 59.423 45.833 0.00 0.00 0.00 3.27
4790 14381 7.295952 ACTATTCTTAACAGACAAATCGCTG 57.704 36.000 0.00 0.00 38.10 5.18
4817 14611 9.778741 TGATTTTACTGTCATTTCTCAAGTACT 57.221 29.630 0.00 0.00 0.00 2.73
4835 14893 5.735766 AGTACTAAATTGCAAGAGAGGACC 58.264 41.667 4.94 0.00 0.00 4.46
4952 15021 3.748048 TCCAAACTCTGCTTTCTCATTCG 59.252 43.478 0.00 0.00 0.00 3.34
4961 15030 4.326826 TGCTTTCTCATTCGTTCCTCATT 58.673 39.130 0.00 0.00 0.00 2.57
4979 15054 6.382282 TCCTCATTAGCTCTTCATTCTCTTCA 59.618 38.462 0.00 0.00 0.00 3.02
4986 15061 4.575236 GCTCTTCATTCTCTTCATGATGCA 59.425 41.667 0.00 0.00 30.63 3.96
4997 15072 6.982141 TCTCTTCATGATGCATTTTAATTGCC 59.018 34.615 0.00 0.00 0.00 4.52
5008 15083 5.005682 GCATTTTAATTGCCGATCTTCCAAC 59.994 40.000 0.84 0.00 0.00 3.77
5015 15090 2.224523 TGCCGATCTTCCAACTTTCTGT 60.225 45.455 0.00 0.00 0.00 3.41
5024 15106 2.820845 AACTTTCTGTTGGTGGGCC 58.179 52.632 0.00 0.00 37.52 5.80
5028 15110 0.031616 TTTCTGTTGGTGGGCCCTTT 60.032 50.000 25.70 0.00 0.00 3.11
5042 15124 0.259065 CCCTTTTCCTTCTAGCCCCC 59.741 60.000 0.00 0.00 0.00 5.40
5107 15202 2.906691 ATGATAGTGCCTGCTCAGAC 57.093 50.000 0.00 0.00 0.00 3.51
5108 15203 1.857965 TGATAGTGCCTGCTCAGACT 58.142 50.000 0.00 0.00 0.00 3.24
5109 15204 1.479730 TGATAGTGCCTGCTCAGACTG 59.520 52.381 0.00 0.00 0.00 3.51
5110 15205 1.480137 GATAGTGCCTGCTCAGACTGT 59.520 52.381 1.59 0.00 0.00 3.55
5122 15638 3.999001 GCTCAGACTGTTCATCATGTCAA 59.001 43.478 1.59 0.00 31.51 3.18
5123 15639 4.142945 GCTCAGACTGTTCATCATGTCAAC 60.143 45.833 1.59 0.00 31.51 3.18
5125 15641 4.992951 TCAGACTGTTCATCATGTCAACTG 59.007 41.667 1.59 0.00 31.51 3.16
5127 15643 5.237996 CAGACTGTTCATCATGTCAACTGTT 59.762 40.000 13.56 0.00 33.75 3.16
5128 15644 6.424812 CAGACTGTTCATCATGTCAACTGTTA 59.575 38.462 13.56 0.00 33.75 2.41
5129 15645 6.992123 AGACTGTTCATCATGTCAACTGTTAA 59.008 34.615 13.56 0.00 33.75 2.01
5154 15670 6.317642 ACTGTTATTCGCCAAACTTGCATATA 59.682 34.615 0.00 0.00 0.00 0.86
5155 15671 7.013274 ACTGTTATTCGCCAAACTTGCATATAT 59.987 33.333 0.00 0.00 0.00 0.86
5156 15672 8.384607 TGTTATTCGCCAAACTTGCATATATA 57.615 30.769 0.00 0.00 0.00 0.86
5226 15747 3.007635 GGGTAGTATGCTTTGTGTGGAC 58.992 50.000 0.00 0.00 0.00 4.02
5320 16185 7.067372 TGGCATGACTAGATTCACCATAAAAAG 59.933 37.037 0.00 0.00 0.00 2.27
5416 16283 2.094700 TGCTTGATGACGTGGAGAGTAC 60.095 50.000 0.00 0.00 0.00 2.73
5473 16352 8.518702 TCTCAGTTATAGTATGCATGATCTCAC 58.481 37.037 10.16 0.00 0.00 3.51
5546 16517 9.433153 AGCTAGTTGTACATTCCTAAAAAGTAC 57.567 33.333 0.00 0.00 36.49 2.73
5547 16518 9.433153 GCTAGTTGTACATTCCTAAAAAGTACT 57.567 33.333 0.00 0.00 36.80 2.73
5549 16520 8.843885 AGTTGTACATTCCTAAAAAGTACTCC 57.156 34.615 0.00 0.00 36.80 3.85
5550 16521 7.881751 AGTTGTACATTCCTAAAAAGTACTCCC 59.118 37.037 0.00 0.00 36.80 4.30
5551 16522 7.563724 TGTACATTCCTAAAAAGTACTCCCT 57.436 36.000 0.00 0.00 36.80 4.20
5554 16525 6.712276 ACATTCCTAAAAAGTACTCCCTCTG 58.288 40.000 0.00 0.00 0.00 3.35
5556 16527 7.456902 ACATTCCTAAAAAGTACTCCCTCTGTA 59.543 37.037 0.00 0.00 0.00 2.74
5557 16528 7.860649 TTCCTAAAAAGTACTCCCTCTGTAA 57.139 36.000 0.00 0.00 0.00 2.41
5559 16530 7.674120 TCCTAAAAAGTACTCCCTCTGTAAAC 58.326 38.462 0.00 0.00 0.00 2.01
5561 16532 8.810041 CCTAAAAAGTACTCCCTCTGTAAACTA 58.190 37.037 0.00 0.00 0.00 2.24
5571 16542 8.862085 ACTCCCTCTGTAAACTAATATAAGAGC 58.138 37.037 0.00 0.00 0.00 4.09
5572 16543 8.777578 TCCCTCTGTAAACTAATATAAGAGCA 57.222 34.615 0.00 0.00 0.00 4.26
5573 16544 9.381038 TCCCTCTGTAAACTAATATAAGAGCAT 57.619 33.333 0.00 0.00 0.00 3.79
5623 16594 9.530633 AAACGCTCTTATATTAGTTTACAGAGG 57.469 33.333 0.00 0.00 31.14 3.69
5625 16596 7.504911 ACGCTCTTATATTAGTTTACAGAGGGA 59.495 37.037 14.96 0.00 40.49 4.20
5626 16597 8.024285 CGCTCTTATATTAGTTTACAGAGGGAG 58.976 40.741 4.76 0.00 40.49 4.30
5627 16598 8.862085 GCTCTTATATTAGTTTACAGAGGGAGT 58.138 37.037 0.00 0.00 0.00 3.85
5644 16615 4.153411 GGGAGTATGCCTTAGAGCTAGAA 58.847 47.826 0.00 0.00 46.86 2.10
5645 16616 4.021807 GGGAGTATGCCTTAGAGCTAGAAC 60.022 50.000 0.00 0.00 46.86 3.01
5648 16619 4.586841 AGTATGCCTTAGAGCTAGAACCAG 59.413 45.833 0.00 0.00 0.00 4.00
5650 16621 3.647636 TGCCTTAGAGCTAGAACCAGAT 58.352 45.455 0.00 0.00 0.00 2.90
5652 16623 3.386402 GCCTTAGAGCTAGAACCAGATGT 59.614 47.826 0.00 0.00 0.00 3.06
5653 16624 4.585162 GCCTTAGAGCTAGAACCAGATGTA 59.415 45.833 0.00 0.00 0.00 2.29
5654 16625 5.508320 GCCTTAGAGCTAGAACCAGATGTAC 60.508 48.000 0.00 0.00 0.00 2.90
5655 16626 5.830991 CCTTAGAGCTAGAACCAGATGTACT 59.169 44.000 0.00 0.00 0.00 2.73
5656 16627 6.238897 CCTTAGAGCTAGAACCAGATGTACTG 60.239 46.154 0.00 0.00 45.36 2.74
5657 16628 3.383185 AGAGCTAGAACCAGATGTACTGC 59.617 47.826 0.00 0.00 44.52 4.40
5658 16629 3.370104 AGCTAGAACCAGATGTACTGCT 58.630 45.455 0.00 0.00 44.52 4.24
5659 16630 4.537751 AGCTAGAACCAGATGTACTGCTA 58.462 43.478 0.00 0.00 44.52 3.49
5661 16632 4.098044 GCTAGAACCAGATGTACTGCTACA 59.902 45.833 0.00 0.00 44.52 2.74
5662 16633 4.457834 AGAACCAGATGTACTGCTACAC 57.542 45.455 0.00 0.00 44.52 2.90
5663 16634 3.195825 AGAACCAGATGTACTGCTACACC 59.804 47.826 0.00 0.00 44.52 4.16
5664 16635 2.536066 ACCAGATGTACTGCTACACCA 58.464 47.619 0.00 0.00 44.52 4.17
5665 16636 2.497675 ACCAGATGTACTGCTACACCAG 59.502 50.000 0.00 0.00 44.52 4.00
5667 16638 3.386078 CCAGATGTACTGCTACACCAGAT 59.614 47.826 0.00 0.00 44.52 2.90
5668 16639 4.141846 CCAGATGTACTGCTACACCAGATT 60.142 45.833 0.00 0.00 44.52 2.40
5670 16641 5.877012 CAGATGTACTGCTACACCAGATTTT 59.123 40.000 0.00 0.00 39.86 1.82
5671 16642 6.036517 CAGATGTACTGCTACACCAGATTTTC 59.963 42.308 0.00 0.00 39.86 2.29
5672 16643 5.222079 TGTACTGCTACACCAGATTTTCA 57.778 39.130 0.00 0.00 36.67 2.69
5673 16644 5.804639 TGTACTGCTACACCAGATTTTCAT 58.195 37.500 0.00 0.00 36.67 2.57
5676 16647 6.992063 ACTGCTACACCAGATTTTCATTAG 57.008 37.500 0.00 0.00 36.67 1.73
5677 16648 6.711277 ACTGCTACACCAGATTTTCATTAGA 58.289 36.000 0.00 0.00 36.67 2.10
5679 16650 7.831193 ACTGCTACACCAGATTTTCATTAGATT 59.169 33.333 0.00 0.00 36.67 2.40
5680 16651 8.213518 TGCTACACCAGATTTTCATTAGATTC 57.786 34.615 0.00 0.00 0.00 2.52
5682 16653 9.547753 GCTACACCAGATTTTCATTAGATTCTA 57.452 33.333 0.00 0.00 0.00 2.10
5684 16655 8.738645 ACACCAGATTTTCATTAGATTCTACC 57.261 34.615 0.00 0.00 0.00 3.18
5687 16658 7.091993 ACCAGATTTTCATTAGATTCTACCCCA 60.092 37.037 0.00 0.00 0.00 4.96
5688 16659 7.946776 CCAGATTTTCATTAGATTCTACCCCAT 59.053 37.037 0.00 0.00 0.00 4.00
5689 16660 8.790718 CAGATTTTCATTAGATTCTACCCCATG 58.209 37.037 0.00 0.00 0.00 3.66
5690 16661 8.727149 AGATTTTCATTAGATTCTACCCCATGA 58.273 33.333 0.00 0.00 0.00 3.07
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 6.108687 CCATATCTCAACACAGTAGCTTCAA 58.891 40.000 0.00 0.00 0.00 2.69
18 19 4.574674 AGGCAAAGACCATATCTCAACA 57.425 40.909 0.00 0.00 36.27 3.33
135 136 4.735985 CAATCATCAAAGATTGTTGCCGA 58.264 39.130 8.17 0.00 46.12 5.54
168 169 0.173481 TAAGAGAAGCTGCACGCGAT 59.827 50.000 15.93 0.00 45.59 4.58
169 170 0.173481 ATAAGAGAAGCTGCACGCGA 59.827 50.000 15.93 0.00 45.59 5.87
170 171 1.518929 GTATAAGAGAAGCTGCACGCG 59.481 52.381 3.53 3.53 45.59 6.01
223 225 6.500684 AATTCACTAATTCACGAGCAACAT 57.499 33.333 0.00 0.00 28.88 2.71
232 234 6.036470 GCCTTAGCCAAATTCACTAATTCAC 58.964 40.000 0.00 0.00 34.12 3.18
432 447 0.759346 ACCTCGAGGCAAGAACAAGT 59.241 50.000 31.56 4.57 39.32 3.16
494 788 7.862512 TTTGTGCCAGAAAGAAATGATTTTT 57.137 28.000 0.00 0.00 0.00 1.94
496 790 6.484308 CCTTTTGTGCCAGAAAGAAATGATTT 59.516 34.615 0.00 0.00 35.41 2.17
497 791 5.993441 CCTTTTGTGCCAGAAAGAAATGATT 59.007 36.000 2.87 0.00 35.41 2.57
498 792 5.070847 ACCTTTTGTGCCAGAAAGAAATGAT 59.929 36.000 2.87 0.00 35.41 2.45
511 806 4.627035 GCAAATTCATCTACCTTTTGTGCC 59.373 41.667 0.00 0.00 31.56 5.01
515 810 8.829612 ACAAAAAGCAAATTCATCTACCTTTTG 58.170 29.630 0.00 0.00 33.05 2.44
543 839 1.988015 TCCAAATCCCCGAGTGGAC 59.012 57.895 0.00 0.00 37.20 4.02
683 4759 3.042682 TCCCCCAGAAAATATCTACGCA 58.957 45.455 0.00 0.00 36.32 5.24
684 4760 3.764237 TCCCCCAGAAAATATCTACGC 57.236 47.619 0.00 0.00 36.32 4.42
685 4761 5.013183 AGGAATCCCCCAGAAAATATCTACG 59.987 44.000 0.00 0.00 35.73 3.51
699 4775 4.019858 CTCAAAGAAAAGAGGAATCCCCC 58.980 47.826 0.00 0.00 34.66 5.40
712 6527 9.436957 GTGGACTCTATCATTTACTCAAAGAAA 57.563 33.333 0.00 0.00 0.00 2.52
715 6530 8.660373 GTTGTGGACTCTATCATTTACTCAAAG 58.340 37.037 0.00 0.00 0.00 2.77
765 7738 1.158466 TGGTCTCTTGGGCTGGAGA 59.842 57.895 0.00 0.00 36.40 3.71
766 7739 1.298014 GTGGTCTCTTGGGCTGGAG 59.702 63.158 0.00 0.00 0.00 3.86
816 7800 2.032634 TGAAACTGACGCGGGATGC 61.033 57.895 12.47 0.00 41.47 3.91
817 7801 1.787847 GTGAAACTGACGCGGGATG 59.212 57.895 12.47 0.00 0.00 3.51
829 7813 2.607038 GCGGGGATGTTGAAAGTGAAAC 60.607 50.000 0.00 0.00 0.00 2.78
830 7814 1.611491 GCGGGGATGTTGAAAGTGAAA 59.389 47.619 0.00 0.00 0.00 2.69
831 7815 1.243902 GCGGGGATGTTGAAAGTGAA 58.756 50.000 0.00 0.00 0.00 3.18
832 7816 0.109532 TGCGGGGATGTTGAAAGTGA 59.890 50.000 0.00 0.00 0.00 3.41
958 7957 3.696426 GATCGAGCGATGCGGTGC 61.696 66.667 10.42 0.00 37.83 5.01
959 7958 3.032609 GGATCGAGCGATGCGGTG 61.033 66.667 10.42 0.00 37.83 4.94
1353 8436 2.683933 TGGAGAGGCTTCGGGACC 60.684 66.667 0.00 0.00 0.00 4.46
1431 8514 3.039405 CTCATAGCACTCATTCGTCGTC 58.961 50.000 0.00 0.00 0.00 4.20
1486 8569 2.357034 GTGCTTGGCGTCTTCGGA 60.357 61.111 0.00 0.00 37.56 4.55
1541 8624 1.495584 GACTGCTCGTCGGTTTTGCA 61.496 55.000 0.00 0.00 33.57 4.08
1542 8625 1.204312 GACTGCTCGTCGGTTTTGC 59.796 57.895 0.00 0.00 33.57 3.68
1680 10284 0.748367 CAGCCAGCACAGCATGATCT 60.748 55.000 0.00 0.00 39.69 2.75
1693 10297 2.507471 AGTAAAGGGAATCTCCAGCCAG 59.493 50.000 0.00 0.00 38.64 4.85
1733 10337 4.351874 TCAAACTGGAGAATTCCTTCGT 57.648 40.909 0.65 0.00 44.36 3.85
1817 10421 1.032114 GGCCGGCATAAGCTTGAAGT 61.032 55.000 30.85 0.00 41.70 3.01
1871 10484 5.798125 TTGGGCAATGTAGTTTGAATTGA 57.202 34.783 0.00 0.00 33.96 2.57
1893 10506 3.330126 TCGGTCTTCCTCCTCCATAAT 57.670 47.619 0.00 0.00 0.00 1.28
2087 10703 0.762418 TCGGGGAAGCTTCTTGAACA 59.238 50.000 25.05 3.18 0.00 3.18
2113 10732 0.544357 TCATGAAGGGAGGACACCGT 60.544 55.000 0.00 0.00 0.00 4.83
2137 10756 2.033801 CGCTTTCTAATGCATGAAGGGG 59.966 50.000 0.00 5.78 0.00 4.79
2151 10770 1.337260 CCAGCAGTGTAGACGCTTTCT 60.337 52.381 6.62 0.00 38.51 2.52
2185 10808 5.066375 ACTTATATACGTACGGTGTGAAGCA 59.934 40.000 21.06 0.00 0.00 3.91
2239 10975 6.068010 TCAACAACAGTATTTCCATCAACCT 58.932 36.000 0.00 0.00 0.00 3.50
2359 11472 1.141019 GCCACCATGCAAGCATCAG 59.859 57.895 4.24 2.47 33.90 2.90
2416 11548 1.466950 CCGCGCTTCCTTTGAAATACA 59.533 47.619 5.56 0.00 0.00 2.29
2473 11606 5.011329 CCGTACAGCATTAATAACCCTCCTA 59.989 44.000 0.00 0.00 0.00 2.94
2475 11608 4.062991 CCGTACAGCATTAATAACCCTCC 58.937 47.826 0.00 0.00 0.00 4.30
2495 11628 2.719426 AGTGAGGTTAGTTTCGTCCG 57.281 50.000 0.00 0.00 0.00 4.79
2520 11665 2.363038 GCCGGTTTCAAAAAGGGTAACT 59.637 45.455 1.90 0.00 0.00 2.24
2524 11669 1.404479 GGGCCGGTTTCAAAAAGGGT 61.404 55.000 1.90 0.00 0.00 4.34
2714 11867 1.024046 TACAGAAATGCGCGCACCAT 61.024 50.000 39.05 25.28 0.00 3.55
2720 11917 4.432762 CCACAAAAATTACAGAAATGCGCG 60.433 41.667 0.00 0.00 0.00 6.86
2723 11920 7.475771 TGAACCACAAAAATTACAGAAATGC 57.524 32.000 0.00 0.00 0.00 3.56
2804 12011 5.755375 CAGAACTTAGAGCTTTGACTTGTCA 59.245 40.000 0.00 0.00 0.00 3.58
2805 12012 5.333721 GCAGAACTTAGAGCTTTGACTTGTC 60.334 44.000 0.00 0.00 0.00 3.18
2921 12261 5.446143 AACGCCAAGATGACACAAAAATA 57.554 34.783 0.00 0.00 0.00 1.40
2929 12270 3.411446 AGAATGAAACGCCAAGATGACA 58.589 40.909 0.00 0.00 0.00 3.58
2939 12280 3.297979 CGTTGTGCATTAGAATGAAACGC 59.702 43.478 17.45 5.64 39.69 4.84
3106 12486 7.653311 GCTATTTTTCACTGGTTTCAGAACAAT 59.347 33.333 0.00 0.00 43.49 2.71
3169 12549 9.103582 TGGAATTGTACCTACCTAAAAAGTCTA 57.896 33.333 0.00 0.00 0.00 2.59
3179 12559 4.960469 TCTCGATTGGAATTGTACCTACCT 59.040 41.667 0.00 0.00 0.00 3.08
3210 12590 3.008485 ACCTCTCCTCTTTTGCAGTAAGG 59.992 47.826 9.85 5.71 0.00 2.69
3214 12594 1.544314 GCACCTCTCCTCTTTTGCAGT 60.544 52.381 0.00 0.00 0.00 4.40
3220 12600 0.915364 GGATGGCACCTCTCCTCTTT 59.085 55.000 0.00 0.00 0.00 2.52
3230 12614 1.043673 ACTCTCCTACGGATGGCACC 61.044 60.000 0.00 0.00 0.00 5.01
3350 12742 2.198827 AAGGCGATCCAACACAATCA 57.801 45.000 0.00 0.00 33.74 2.57
3567 13014 5.309638 TCGAAATTCAACACCTTACATGGA 58.690 37.500 0.00 0.00 0.00 3.41
3578 13025 7.780008 TTTCTACTGAACTCGAAATTCAACA 57.220 32.000 11.69 3.78 35.70 3.33
3625 13088 0.540365 CACAGGATTTGGTGCCACCT 60.540 55.000 16.23 0.00 39.58 4.00
3642 13105 4.563786 CCCTCTCAGGAAAGTAAGAACCAC 60.564 50.000 0.00 0.00 37.67 4.16
3645 13108 3.838903 TCCCCTCTCAGGAAAGTAAGAAC 59.161 47.826 0.00 0.00 37.67 3.01
3718 13187 4.935702 TCAAACAAGATGCAAGAAACCTG 58.064 39.130 0.00 0.00 0.00 4.00
3719 13188 5.279156 GGATCAAACAAGATGCAAGAAACCT 60.279 40.000 0.00 0.00 36.49 3.50
3767 13244 1.991430 CTCGACGAAGCAACGATGG 59.009 57.895 9.33 0.00 35.58 3.51
3803 13280 1.001974 ACTAATGCGAGAGTGTTGGCA 59.998 47.619 0.00 0.00 40.06 4.92
3848 13327 9.048446 GCCACCTTATACGATTCTTGTTATTAA 57.952 33.333 0.00 0.00 0.00 1.40
4095 13602 8.391075 TGTCCTAAAAGTGATAAAAGGAACAG 57.609 34.615 0.00 0.00 35.02 3.16
4121 13631 1.048160 TACTCGCCTGCATCATGGGA 61.048 55.000 0.00 0.00 0.00 4.37
4122 13632 0.602106 CTACTCGCCTGCATCATGGG 60.602 60.000 0.00 0.00 0.00 4.00
4125 13635 0.178767 TTGCTACTCGCCTGCATCAT 59.821 50.000 0.00 0.00 38.05 2.45
4126 13636 0.460811 CTTGCTACTCGCCTGCATCA 60.461 55.000 0.00 0.00 38.05 3.07
4127 13637 0.460987 ACTTGCTACTCGCCTGCATC 60.461 55.000 0.00 0.00 38.05 3.91
4128 13638 0.460987 GACTTGCTACTCGCCTGCAT 60.461 55.000 0.00 0.00 38.05 3.96
4132 13642 0.905357 AATGGACTTGCTACTCGCCT 59.095 50.000 0.00 0.00 38.05 5.52
4194 13704 8.527567 TTTTGGTCTTCAAATTAATTTAGCCG 57.472 30.769 12.98 1.81 43.95 5.52
4204 13714 6.007703 TCGGGACTATTTTGGTCTTCAAATT 58.992 36.000 0.00 0.00 43.95 1.82
4380 13905 4.825422 CTCATTCCACGCCATATGTAGAT 58.175 43.478 1.24 0.00 0.00 1.98
4385 13919 1.802960 GAGCTCATTCCACGCCATATG 59.197 52.381 9.40 0.00 0.00 1.78
4405 13939 7.653767 AGAGACAAAGTATCCGTAACTTTTG 57.346 36.000 4.76 2.10 42.97 2.44
4421 13956 3.764237 AAGCCGGTAAGAAGAGACAAA 57.236 42.857 1.90 0.00 0.00 2.83
4433 13968 4.751060 CACACTCAAACTATAAGCCGGTA 58.249 43.478 1.90 0.00 0.00 4.02
4437 13972 4.878397 AGATGCACACTCAAACTATAAGCC 59.122 41.667 0.00 0.00 0.00 4.35
4473 14008 5.376854 AAGGCAGTGCAAAGTTATTACTG 57.623 39.130 18.61 0.00 41.15 2.74
4480 14015 6.758254 ACATAAATAAAGGCAGTGCAAAGTT 58.242 32.000 18.61 7.21 0.00 2.66
4482 14017 8.931385 AATACATAAATAAAGGCAGTGCAAAG 57.069 30.769 18.61 0.00 0.00 2.77
4486 14021 7.277174 AGGAATACATAAATAAAGGCAGTGC 57.723 36.000 6.55 6.55 0.00 4.40
4579 14155 6.491062 TCCAATGAAAAGCCACATAGATATGG 59.509 38.462 4.93 0.00 38.00 2.74
4589 14165 4.255833 TGACATTCCAATGAAAAGCCAC 57.744 40.909 6.29 0.00 39.67 5.01
4644 14220 0.959867 TCATGTCCACCACCAATGCG 60.960 55.000 0.00 0.00 0.00 4.73
4681 14257 9.445878 AGCACATCTAATCATCTTATGTATTGG 57.554 33.333 0.00 0.00 0.00 3.16
4703 14287 0.248289 ACCGGTACACCACATAGCAC 59.752 55.000 4.49 0.00 35.14 4.40
4713 14297 1.308069 TACCTGCTCGACCGGTACAC 61.308 60.000 7.34 0.00 32.36 2.90
4755 14340 9.810545 GTCTGTTAAGAATAGTTCAGATAGCTT 57.189 33.333 0.00 0.00 35.07 3.74
4790 14381 9.813080 GTACTTGAGAAATGACAGTAAAATCAC 57.187 33.333 0.00 0.00 0.00 3.06
4817 14611 4.657814 AAGGGTCCTCTCTTGCAATTTA 57.342 40.909 0.00 0.00 0.00 1.40
4929 14996 4.394300 CGAATGAGAAAGCAGAGTTTGGAT 59.606 41.667 0.00 0.00 0.00 3.41
4935 15002 3.007398 AGGAACGAATGAGAAAGCAGAGT 59.993 43.478 0.00 0.00 0.00 3.24
4952 15021 6.581712 AGAGAATGAAGAGCTAATGAGGAAC 58.418 40.000 0.00 0.00 0.00 3.62
4961 15030 5.990386 GCATCATGAAGAGAATGAAGAGCTA 59.010 40.000 0.00 0.00 37.58 3.32
4979 15054 6.092955 AGATCGGCAATTAAAATGCATCAT 57.907 33.333 15.81 0.00 45.60 2.45
4986 15061 6.530019 AGTTGGAAGATCGGCAATTAAAAT 57.470 33.333 0.00 0.00 0.00 1.82
5008 15083 0.469892 AAGGGCCCACCAACAGAAAG 60.470 55.000 27.56 0.00 43.89 2.62
5015 15090 0.471022 GAAGGAAAAGGGCCCACCAA 60.471 55.000 27.56 0.00 43.89 3.67
5024 15106 3.905331 GGGGGCTAGAAGGAAAAGG 57.095 57.895 0.00 0.00 0.00 3.11
5044 15126 3.438183 ACGGTCCTAAGTCACCAATACT 58.562 45.455 0.00 0.00 32.33 2.12
5045 15127 3.881937 ACGGTCCTAAGTCACCAATAC 57.118 47.619 0.00 0.00 32.33 1.89
5046 15128 3.196254 GGAACGGTCCTAAGTCACCAATA 59.804 47.826 13.76 0.00 41.24 1.90
5107 15202 7.073883 CAGTTAACAGTTGACATGATGAACAG 58.926 38.462 8.61 0.00 0.00 3.16
5108 15203 6.542005 ACAGTTAACAGTTGACATGATGAACA 59.458 34.615 8.61 0.00 0.00 3.18
5109 15204 6.959361 ACAGTTAACAGTTGACATGATGAAC 58.041 36.000 8.61 0.00 0.00 3.18
5110 15205 7.566760 AACAGTTAACAGTTGACATGATGAA 57.433 32.000 14.79 0.00 0.00 2.57
5122 15638 5.529800 AGTTTGGCGAATAACAGTTAACAGT 59.470 36.000 8.61 2.62 0.00 3.55
5123 15639 5.997385 AGTTTGGCGAATAACAGTTAACAG 58.003 37.500 8.61 1.86 0.00 3.16
5125 15641 5.116528 GCAAGTTTGGCGAATAACAGTTAAC 59.883 40.000 0.00 0.00 0.00 2.01
5127 15643 4.276183 TGCAAGTTTGGCGAATAACAGTTA 59.724 37.500 0.00 0.00 0.00 2.24
5128 15644 3.067461 TGCAAGTTTGGCGAATAACAGTT 59.933 39.130 0.00 0.00 0.00 3.16
5129 15645 2.621055 TGCAAGTTTGGCGAATAACAGT 59.379 40.909 0.00 0.00 0.00 3.55
5320 16185 9.586435 AAAAACTGGCATTAGTGATAAATAAGC 57.414 29.630 0.00 0.00 0.00 3.09
5416 16283 6.451393 TCGGTCCAAAAGGATTGTTATTTTG 58.549 36.000 3.30 3.30 41.42 2.44
5546 16517 8.861086 TGCTCTTATATTAGTTTACAGAGGGAG 58.139 37.037 0.00 0.00 0.00 4.30
5547 16518 8.777578 TGCTCTTATATTAGTTTACAGAGGGA 57.222 34.615 0.00 0.00 0.00 4.20
5597 16568 9.530633 CCTCTGTAAACTAATATAAGAGCGTTT 57.469 33.333 0.00 0.00 0.00 3.60
5600 16571 7.883217 TCCCTCTGTAAACTAATATAAGAGCG 58.117 38.462 0.00 0.00 0.00 5.03
5601 16572 8.862085 ACTCCCTCTGTAAACTAATATAAGAGC 58.138 37.037 0.00 0.00 0.00 4.09
5606 16577 9.032624 GGCATACTCCCTCTGTAAACTAATATA 57.967 37.037 0.00 0.00 0.00 0.86
5607 16578 7.735321 AGGCATACTCCCTCTGTAAACTAATAT 59.265 37.037 0.00 0.00 0.00 1.28
5609 16580 5.905913 AGGCATACTCCCTCTGTAAACTAAT 59.094 40.000 0.00 0.00 0.00 1.73
5610 16581 5.278061 AGGCATACTCCCTCTGTAAACTAA 58.722 41.667 0.00 0.00 0.00 2.24
5612 16583 3.725634 AGGCATACTCCCTCTGTAAACT 58.274 45.455 0.00 0.00 0.00 2.66
5615 16586 5.138758 TCTAAGGCATACTCCCTCTGTAA 57.861 43.478 0.00 0.00 0.00 2.41
5616 16587 4.730966 CTCTAAGGCATACTCCCTCTGTA 58.269 47.826 0.00 0.00 0.00 2.74
5620 16591 2.604139 AGCTCTAAGGCATACTCCCTC 58.396 52.381 0.00 0.00 34.17 4.30
5621 16592 2.785357 AGCTCTAAGGCATACTCCCT 57.215 50.000 0.00 0.00 34.17 4.20
5622 16593 3.768878 TCTAGCTCTAAGGCATACTCCC 58.231 50.000 0.00 0.00 34.17 4.30
5623 16594 4.021807 GGTTCTAGCTCTAAGGCATACTCC 60.022 50.000 0.00 0.00 34.17 3.85
5625 16596 4.547671 TGGTTCTAGCTCTAAGGCATACT 58.452 43.478 0.00 0.00 34.17 2.12
5626 16597 4.585162 TCTGGTTCTAGCTCTAAGGCATAC 59.415 45.833 0.00 0.00 34.17 2.39
5627 16598 4.804597 TCTGGTTCTAGCTCTAAGGCATA 58.195 43.478 0.00 0.00 34.17 3.14
5628 16599 3.647636 TCTGGTTCTAGCTCTAAGGCAT 58.352 45.455 0.00 0.00 34.17 4.40
5631 16602 5.830991 AGTACATCTGGTTCTAGCTCTAAGG 59.169 44.000 0.00 0.00 0.00 2.69
5632 16603 6.734137 CAGTACATCTGGTTCTAGCTCTAAG 58.266 44.000 0.00 0.00 40.23 2.18
5633 16604 5.067936 GCAGTACATCTGGTTCTAGCTCTAA 59.932 44.000 0.00 0.00 43.78 2.10
5635 16606 3.383185 GCAGTACATCTGGTTCTAGCTCT 59.617 47.826 0.00 0.00 43.78 4.09
5636 16607 3.712187 GCAGTACATCTGGTTCTAGCTC 58.288 50.000 0.00 0.00 43.78 4.09
5637 16608 3.810310 GCAGTACATCTGGTTCTAGCT 57.190 47.619 0.00 0.00 43.78 3.32
5645 16616 2.760650 TCTGGTGTAGCAGTACATCTGG 59.239 50.000 10.49 0.00 40.50 3.86
5648 16619 5.874810 TGAAAATCTGGTGTAGCAGTACATC 59.125 40.000 10.49 6.79 41.29 3.06
5650 16621 5.222079 TGAAAATCTGGTGTAGCAGTACA 57.778 39.130 10.49 3.69 36.78 2.90
5652 16623 7.847096 TCTAATGAAAATCTGGTGTAGCAGTA 58.153 34.615 10.49 0.00 0.00 2.74
5653 16624 6.711277 TCTAATGAAAATCTGGTGTAGCAGT 58.289 36.000 10.49 0.00 0.00 4.40
5654 16625 7.798596 ATCTAATGAAAATCTGGTGTAGCAG 57.201 36.000 4.77 4.77 0.00 4.24
5655 16626 8.049117 AGAATCTAATGAAAATCTGGTGTAGCA 58.951 33.333 0.00 0.00 0.00 3.49
5656 16627 8.443953 AGAATCTAATGAAAATCTGGTGTAGC 57.556 34.615 0.00 0.00 0.00 3.58
5658 16629 9.832445 GGTAGAATCTAATGAAAATCTGGTGTA 57.168 33.333 0.00 0.00 0.00 2.90
5659 16630 7.775561 GGGTAGAATCTAATGAAAATCTGGTGT 59.224 37.037 0.00 0.00 0.00 4.16
5661 16632 7.091993 TGGGGTAGAATCTAATGAAAATCTGGT 60.092 37.037 0.00 0.00 0.00 4.00
5662 16633 7.290061 TGGGGTAGAATCTAATGAAAATCTGG 58.710 38.462 0.00 0.00 0.00 3.86
5663 16634 8.790718 CATGGGGTAGAATCTAATGAAAATCTG 58.209 37.037 0.00 0.00 0.00 2.90
5664 16635 8.727149 TCATGGGGTAGAATCTAATGAAAATCT 58.273 33.333 0.00 0.00 0.00 2.40
5665 16636 8.924511 TCATGGGGTAGAATCTAATGAAAATC 57.075 34.615 0.00 0.00 0.00 2.17


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

AutoCloner maintained by Alex Coulton.