Multiple sequence alignment - TraesCS3D01G376100

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 TraesCS3D01G376100 chr3D 100.000 9764 0 0 1 9764 489553698 489543935 0.000000e+00 18031.0
1 TraesCS3D01G376100 chr3D 82.162 555 64 16 4948 5486 323244683 323245218 2.500000e-120 444.0
2 TraesCS3D01G376100 chr3B 97.196 4387 82 8 4689 9048 651724207 651719835 0.000000e+00 7382.0
3 TraesCS3D01G376100 chr3B 95.641 2432 43 12 1240 3613 651727982 651725556 0.000000e+00 3845.0
4 TraesCS3D01G376100 chr3B 96.937 555 17 0 4125 4679 651725041 651724487 0.000000e+00 931.0
5 TraesCS3D01G376100 chr3B 96.685 543 14 4 609 1149 651729017 651728477 0.000000e+00 900.0
6 TraesCS3D01G376100 chr3B 98.624 436 6 0 3693 4128 651725556 651725121 0.000000e+00 773.0
7 TraesCS3D01G376100 chr3B 90.638 470 33 8 1 467 651731918 651731457 1.800000e-171 614.0
8 TraesCS3D01G376100 chr3B 83.395 542 58 12 4834 5362 395986652 395986130 3.190000e-129 473.0
9 TraesCS3D01G376100 chr3B 95.753 259 11 0 9048 9306 651719776 651719518 1.520000e-112 418.0
10 TraesCS3D01G376100 chr3B 97.516 161 1 2 463 621 651729192 651729033 1.250000e-68 272.0
11 TraesCS3D01G376100 chr3B 94.118 102 2 3 3610 3710 770343062 770342964 1.700000e-32 152.0
12 TraesCS3D01G376100 chr3A 96.042 4017 89 20 531 4498 632623812 632619817 0.000000e+00 6473.0
13 TraesCS3D01G376100 chr3A 96.953 2954 55 7 6127 9048 632617707 632614757 0.000000e+00 4924.0
14 TraesCS3D01G376100 chr3A 98.061 1186 21 2 4718 5901 632619457 632618272 0.000000e+00 2061.0
15 TraesCS3D01G376100 chr3A 98.005 401 4 3 5711 6111 632618272 632617876 0.000000e+00 693.0
16 TraesCS3D01G376100 chr3A 82.784 668 81 16 4833 5486 400096537 400095890 5.120000e-157 566.0
17 TraesCS3D01G376100 chr3A 93.023 258 18 0 9049 9306 632614697 632614440 2.570000e-100 377.0
18 TraesCS3D01G376100 chr3A 80.728 467 58 14 1488 1944 434451639 434452083 1.570000e-87 335.0
19 TraesCS3D01G376100 chr3A 94.697 132 6 1 4550 4680 632619582 632619451 4.620000e-48 204.0
20 TraesCS3D01G376100 chr3A 97.826 92 1 1 3610 3701 714022173 714022263 3.650000e-34 158.0
21 TraesCS3D01G376100 chr3A 100.000 51 0 0 6095 6145 632617713 632617663 2.900000e-15 95.3
22 TraesCS3D01G376100 chr2B 88.255 1524 114 31 2076 3544 49971503 49973016 0.000000e+00 1762.0
23 TraesCS3D01G376100 chr2B 86.151 1668 131 51 5786 7421 49974164 49975763 0.000000e+00 1709.0
24 TraesCS3D01G376100 chr2B 86.751 1585 145 42 2003 3544 50153797 50152235 0.000000e+00 1703.0
25 TraesCS3D01G376100 chr2B 88.136 1239 95 19 7545 8754 50150251 50149036 0.000000e+00 1426.0
26 TraesCS3D01G376100 chr2B 87.974 1239 97 19 7545 8754 49975946 49977161 0.000000e+00 1415.0
27 TraesCS3D01G376100 chr2B 89.969 638 42 9 4777 5401 49973507 49974135 0.000000e+00 804.0
28 TraesCS3D01G376100 chr2B 85.751 786 70 21 6673 7421 50151214 50150434 0.000000e+00 793.0
29 TraesCS3D01G376100 chr2B 84.753 446 37 15 3711 4142 50152220 50151792 1.520000e-112 418.0
30 TraesCS3D01G376100 chr2B 91.186 295 17 3 4819 5104 50151716 50151422 9.190000e-105 392.0
31 TraesCS3D01G376100 chr2B 82.353 493 45 22 3711 4178 49973031 49973506 3.310000e-104 390.0
32 TraesCS3D01G376100 chr2B 91.121 214 17 2 1000 1212 49970574 49970786 1.240000e-73 289.0
33 TraesCS3D01G376100 chr2B 91.351 185 12 4 1000 1181 50154617 50154434 5.850000e-62 250.0
34 TraesCS3D01G376100 chr2B 91.034 145 12 1 8802 8945 49977164 49977308 2.780000e-45 195.0
35 TraesCS3D01G376100 chr2B 91.034 145 12 1 8802 8945 50149033 50148889 2.780000e-45 195.0
36 TraesCS3D01G376100 chr2B 95.918 98 2 2 3602 3699 402387392 402387297 3.650000e-34 158.0
37 TraesCS3D01G376100 chr2B 94.059 101 5 1 3597 3697 774106548 774106647 1.700000e-32 152.0
38 TraesCS3D01G376100 chr2A 86.459 1669 135 40 5786 7421 32510598 32508988 0.000000e+00 1746.0
39 TraesCS3D01G376100 chr2A 87.147 1556 113 43 2039 3544 32513235 32511717 0.000000e+00 1685.0
40 TraesCS3D01G376100 chr2A 86.434 1430 111 34 7538 8945 32508905 32507537 0.000000e+00 1489.0
41 TraesCS3D01G376100 chr2A 91.084 572 37 7 4842 5401 32511196 32510627 0.000000e+00 761.0
42 TraesCS3D01G376100 chr2A 99.060 319 3 0 9446 9764 687236542 687236860 3.060000e-159 573.0
43 TraesCS3D01G376100 chr2A 83.296 449 39 18 3711 4142 32511702 32511273 1.990000e-101 381.0
44 TraesCS3D01G376100 chr2A 94.787 211 11 0 1000 1210 32514502 32514292 7.310000e-86 329.0
45 TraesCS3D01G376100 chr2A 80.294 477 50 19 1478 1944 197675654 197675212 4.400000e-83 320.0
46 TraesCS3D01G376100 chr2A 98.519 135 1 1 9303 9437 49616615 49616748 4.560000e-58 237.0
47 TraesCS3D01G376100 chr2D 87.378 1434 118 23 7538 8945 30484339 30482943 0.000000e+00 1587.0
48 TraesCS3D01G376100 chr2D 86.386 999 84 30 2003 2966 30488876 30487895 0.000000e+00 1044.0
49 TraesCS3D01G376100 chr2D 86.000 900 64 38 5786 6675 30485975 30485128 0.000000e+00 907.0
50 TraesCS3D01G376100 chr2D 87.004 731 73 13 6709 7421 30485125 30484399 0.000000e+00 804.0
51 TraesCS3D01G376100 chr2D 90.252 595 39 7 4819 5401 30486591 30486004 0.000000e+00 760.0
52 TraesCS3D01G376100 chr2D 90.335 507 28 8 3057 3544 30487615 30487111 0.000000e+00 645.0
53 TraesCS3D01G376100 chr2D 99.060 319 3 0 9446 9764 415799527 415799845 3.060000e-159 573.0
54 TraesCS3D01G376100 chr2D 84.402 468 33 21 3743 4184 30487067 30486614 3.260000e-114 424.0
55 TraesCS3D01G376100 chr2D 93.023 215 13 1 1000 1212 30489986 30489772 7.360000e-81 313.0
56 TraesCS3D01G376100 chr2D 95.333 150 5 2 9288 9437 491580320 491580467 4.560000e-58 237.0
57 TraesCS3D01G376100 chr2D 96.479 142 2 2 9307 9448 632274798 632274936 2.120000e-56 231.0
58 TraesCS3D01G376100 chr2D 95.876 97 2 2 3610 3706 547844720 547844626 1.310000e-33 156.0
59 TraesCS3D01G376100 chr2D 92.079 101 8 0 1830 1930 80981159 80981259 1.020000e-29 143.0
60 TraesCS3D01G376100 chr5D 99.060 319 3 0 9446 9764 432212041 432211723 3.060000e-159 573.0
61 TraesCS3D01G376100 chr5D 98.160 326 6 0 9439 9764 271534459 271534134 3.960000e-158 569.0
62 TraesCS3D01G376100 chr5D 83.117 231 33 4 1000 1227 494458721 494458948 1.290000e-48 206.0
63 TraesCS3D01G376100 chr5D 92.523 107 8 0 1830 1936 497147641 497147535 4.720000e-33 154.0
64 TraesCS3D01G376100 chr5D 92.523 107 8 0 1830 1936 497236410 497236304 4.720000e-33 154.0
65 TraesCS3D01G376100 chrUn 98.746 319 4 0 9446 9764 348083573 348083891 1.420000e-157 568.0
66 TraesCS3D01G376100 chrUn 98.746 319 4 0 9446 9764 369179243 369179561 1.420000e-157 568.0
67 TraesCS3D01G376100 chrUn 98.746 319 4 0 9446 9764 396053973 396054291 1.420000e-157 568.0
68 TraesCS3D01G376100 chrUn 98.746 319 4 0 9446 9764 425201689 425202007 1.420000e-157 568.0
69 TraesCS3D01G376100 chrUn 97.122 139 2 2 9300 9437 102637451 102637588 5.900000e-57 233.0
70 TraesCS3D01G376100 chrUn 98.824 85 1 0 3610 3694 27602566 27602650 1.700000e-32 152.0
71 TraesCS3D01G376100 chrUn 97.674 86 2 0 3610 3695 226884329 226884244 2.200000e-31 148.0
72 TraesCS3D01G376100 chrUn 97.674 86 2 0 3610 3695 258641819 258641904 2.200000e-31 148.0
73 TraesCS3D01G376100 chrUn 97.674 86 2 0 3610 3695 314263336 314263421 2.200000e-31 148.0
74 TraesCS3D01G376100 chrUn 97.674 86 2 0 3610 3695 325927183 325927268 2.200000e-31 148.0
75 TraesCS3D01G376100 chrUn 93.137 102 4 2 3599 3697 96524788 96524687 7.900000e-31 147.0
76 TraesCS3D01G376100 chrUn 96.591 88 3 0 3610 3697 132121232 132121145 7.900000e-31 147.0
77 TraesCS3D01G376100 chrUn 97.647 85 2 0 3610 3694 369753176 369753260 7.900000e-31 147.0
78 TraesCS3D01G376100 chrUn 97.647 85 2 0 3610 3694 459259694 459259778 7.900000e-31 147.0
79 TraesCS3D01G376100 chrUn 93.750 96 5 1 3603 3697 238400695 238400600 1.020000e-29 143.0
80 TraesCS3D01G376100 chr6D 98.746 319 4 0 9446 9764 30806670 30806988 1.420000e-157 568.0
81 TraesCS3D01G376100 chr6D 97.810 137 1 2 9302 9437 30805659 30805794 1.640000e-57 235.0
82 TraesCS3D01G376100 chr6D 97.122 139 3 1 9299 9437 18944087 18944224 5.900000e-57 233.0
83 TraesCS3D01G376100 chr6D 97.727 88 2 0 3610 3697 229430747 229430660 1.700000e-32 152.0
84 TraesCS3D01G376100 chr6D 96.703 91 3 0 3610 3700 248004002 248004092 1.700000e-32 152.0
85 TraesCS3D01G376100 chr6D 94.118 102 3 2 3599 3697 291718555 291718656 1.700000e-32 152.0
86 TraesCS3D01G376100 chr6D 97.727 88 2 0 3610 3697 429317714 429317627 1.700000e-32 152.0
87 TraesCS3D01G376100 chr6D 98.824 85 1 0 3610 3694 464673612 464673696 1.700000e-32 152.0
88 TraesCS3D01G376100 chr6D 98.824 85 1 0 3610 3694 468901956 468902040 1.700000e-32 152.0
89 TraesCS3D01G376100 chr6D 97.701 87 2 0 3610 3696 221219316 221219402 6.110000e-32 150.0
90 TraesCS3D01G376100 chr6D 93.939 99 4 2 3597 3694 271233430 271233527 2.200000e-31 148.0
91 TraesCS3D01G376100 chr6D 93.000 100 5 2 3610 3707 120647319 120647220 2.840000e-30 145.0
92 TraesCS3D01G376100 chr7D 97.887 142 2 1 9307 9448 603585990 603586130 2.720000e-60 244.0
93 TraesCS3D01G376100 chr7D 98.473 131 1 1 9307 9437 218767266 218767137 7.630000e-56 230.0
94 TraesCS3D01G376100 chr7D 92.079 101 8 0 1830 1930 41857624 41857724 1.020000e-29 143.0
95 TraesCS3D01G376100 chr7D 78.756 193 30 3 1240 1429 530741222 530741038 1.720000e-22 119.0
96 TraesCS3D01G376100 chr4D 98.519 135 1 1 9303 9437 54788777 54788644 4.560000e-58 237.0
97 TraesCS3D01G376100 chr4D 97.753 89 2 0 3610 3698 10274410 10274498 4.720000e-33 154.0
98 TraesCS3D01G376100 chr4D 94.118 102 3 2 3599 3697 215187803 215187702 1.700000e-32 152.0
99 TraesCS3D01G376100 chr4D 94.845 97 4 1 3603 3698 461574586 461574682 6.110000e-32 150.0
100 TraesCS3D01G376100 chr5A 84.038 213 29 4 1000 1208 617347114 617347325 5.980000e-47 200.0
101 TraesCS3D01G376100 chr5B 83.019 212 33 2 1000 1208 610678225 610678436 1.290000e-43 189.0
102 TraesCS3D01G376100 chr7A 98.889 90 1 0 3610 3699 126551988 126551899 2.820000e-35 161.0
103 TraesCS3D01G376100 chr1B 98.876 89 1 0 3610 3698 172000773 172000861 1.020000e-34 159.0
104 TraesCS3D01G376100 chr1B 95.789 95 4 0 3610 3704 296408188 296408282 4.720000e-33 154.0
105 TraesCS3D01G376100 chr1B 98.824 85 1 0 3610 3694 654313659 654313575 1.700000e-32 152.0
106 TraesCS3D01G376100 chr6A 95.050 101 3 2 3600 3699 563127900 563127999 3.650000e-34 158.0
107 TraesCS3D01G376100 chr6A 97.778 90 2 0 3609 3698 224610985 224611074 1.310000e-33 156.0
108 TraesCS3D01G376100 chr6A 95.789 95 4 0 3601 3695 12435645 12435739 4.720000e-33 154.0
109 TraesCS3D01G376100 chr1A 97.802 91 2 0 3609 3699 107663280 107663190 3.650000e-34 158.0
110 TraesCS3D01G376100 chr4A 93.333 105 6 1 3596 3700 55431899 55431796 4.720000e-33 154.0
111 TraesCS3D01G376100 chr4A 84.259 108 9 6 1201 1303 717462684 717462788 2.240000e-16 99.0
112 TraesCS3D01G376100 chr1D 96.774 93 2 1 3608 3700 16084852 16084943 4.720000e-33 154.0
113 TraesCS3D01G376100 chr1D 96.774 93 2 1 3608 3700 16086807 16086898 4.720000e-33 154.0
114 TraesCS3D01G376100 chr1D 98.837 86 1 0 3610 3695 22957722 22957637 4.720000e-33 154.0
115 TraesCS3D01G376100 chr1D 96.739 92 3 0 3604 3695 410499034 410499125 4.720000e-33 154.0
116 TraesCS3D01G376100 chr1D 97.727 88 2 0 3610 3697 233353187 233353100 1.700000e-32 152.0


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 TraesCS3D01G376100 chr3D 489543935 489553698 9763 True 18031.000000 18031 100.000000 1 9764 1 chr3D.!!$R1 9763
1 TraesCS3D01G376100 chr3D 323244683 323245218 535 False 444.000000 444 82.162000 4948 5486 1 chr3D.!!$F1 538
2 TraesCS3D01G376100 chr3B 651719518 651731918 12400 True 1891.875000 7382 96.123750 1 9306 8 chr3B.!!$R3 9305
3 TraesCS3D01G376100 chr3B 395986130 395986652 522 True 473.000000 473 83.395000 4834 5362 1 chr3B.!!$R1 528
4 TraesCS3D01G376100 chr3A 632614440 632623812 9372 True 2118.185714 6473 96.683000 531 9306 7 chr3A.!!$R2 8775
5 TraesCS3D01G376100 chr3A 400095890 400096537 647 True 566.000000 566 82.784000 4833 5486 1 chr3A.!!$R1 653
6 TraesCS3D01G376100 chr2B 49970574 49977308 6734 False 937.714286 1762 88.122429 1000 8945 7 chr2B.!!$F2 7945
7 TraesCS3D01G376100 chr2B 50148889 50154617 5728 True 739.571429 1703 88.423143 1000 8945 7 chr2B.!!$R2 7945
8 TraesCS3D01G376100 chr2A 32507537 32514502 6965 True 1065.166667 1746 88.201167 1000 8945 6 chr2A.!!$R2 7945
9 TraesCS3D01G376100 chr2D 30482943 30489986 7043 True 810.500000 1587 88.097500 1000 8945 8 chr2D.!!$R2 7945
10 TraesCS3D01G376100 chr6D 30805659 30806988 1329 False 401.500000 568 98.278000 9302 9764 2 chr6D.!!$F8 462

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
77 78 0.034059 AACCAGTCTCGAGCACTTGG 59.966 55.000 7.81 14.03 0.00 3.61 F
252 253 0.741915 TGGGCGTTGAAGTTGGTTTC 59.258 50.000 0.00 0.00 0.00 2.78 F
779 3085 1.137675 GAGCAAAAATCATCCAGCCCC 59.862 52.381 0.00 0.00 0.00 5.80 F
1486 4225 0.536915 GAGATGCCAGGAGGATTGCC 60.537 60.000 0.00 0.00 36.89 4.52 F
1711 4576 0.165944 CGGACAATTCAACGTCTGCC 59.834 55.000 0.00 0.00 32.11 4.85 F
1721 4586 0.676782 AACGTCTGCCTATTGCCCAC 60.677 55.000 0.00 0.00 40.16 4.61 F
3077 6453 1.538950 GAGCACTGCCTTTTCCTTGAG 59.461 52.381 0.00 0.00 0.00 3.02 F
4534 8048 0.032813 CAAGACATGCCTCCCCCATT 60.033 55.000 0.00 0.00 0.00 3.16 F
4656 8354 1.144708 TGATGTTTTCTGCCTGACCCA 59.855 47.619 0.00 0.00 0.00 4.51 F
5687 9716 1.519498 ATGCCCTTTACTAGGTCCCC 58.481 55.000 0.00 0.00 43.07 4.81 F
6481 10872 4.171243 TCCTCTACCCATCCCACTAATACA 59.829 45.833 0.00 0.00 0.00 2.29 F
7431 11863 4.211374 GTGTAGTGTTCCATGTCAACTGAC 59.789 45.833 2.78 2.78 44.97 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1303 4021 1.374947 CATCCCACACCGAACCACT 59.625 57.895 0.00 0.00 0.00 4.00 R
1377 4095 1.709147 CCTCGGCACAACTGCATAGC 61.709 60.000 0.00 0.00 46.28 2.97 R
1671 4536 4.951094 CCGTGTTAGGGGGAAATAAAATGA 59.049 41.667 0.00 0.00 0.00 2.57 R
3077 6453 2.153057 GGCAAAACGTCGAAGAAAATGC 59.847 45.455 5.05 9.51 39.69 3.56 R
3340 6717 5.598417 AGGCACAAATGAAAGTAAGTCCTTT 59.402 36.000 0.00 0.00 37.37 3.11 R
3666 7060 8.862085 ACTCCCTCTGTAAACTAATATAAGAGC 58.138 37.037 0.00 0.00 0.00 4.09 R
4692 8390 1.710809 AGTTTGATTGCTACCCTGGGT 59.289 47.619 24.15 24.15 40.16 4.51 R
5508 9537 3.606687 CACACCCTACCAGGAATGTAAC 58.393 50.000 0.00 0.00 37.67 2.50 R
5696 9725 5.361571 TCACATGAAGCGGATAGTAAAGGTA 59.638 40.000 0.00 0.00 0.00 3.08 R
7431 11863 6.153000 TGAGTAGAACTAAGTAAGAAGGCCAG 59.847 42.308 5.01 0.00 0.00 4.85 R
8431 12956 1.372087 CCTCTTGAATCGCTGTGGCC 61.372 60.000 0.00 0.00 34.44 5.36 R
9230 13845 0.395173 AACCAACGGGACAAACAGCT 60.395 50.000 0.00 0.00 38.05 4.24 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
54 55 7.343574 ACACCTAGGGAAATTTGTTAAACAAGT 59.656 33.333 14.81 0.00 39.53 3.16
77 78 0.034059 AACCAGTCTCGAGCACTTGG 59.966 55.000 7.81 14.03 0.00 3.61
133 134 2.315925 TCATCAACTTGAGCCCGATC 57.684 50.000 0.00 0.00 0.00 3.69
181 182 6.041637 GGGGAGAAAGAAAACCTACAACAAAT 59.958 38.462 0.00 0.00 0.00 2.32
205 206 4.397103 CCGAAAATGAAGGGGGTTAACTAC 59.603 45.833 5.42 0.00 0.00 2.73
229 230 1.698532 AGAAGCATAGCTCCTGGATGG 59.301 52.381 0.00 0.00 38.25 3.51
234 235 2.289320 GCATAGCTCCTGGATGGTACTG 60.289 54.545 0.00 4.38 37.07 2.74
241 242 0.744414 CTGGATGGTACTGGGCGTTG 60.744 60.000 0.00 0.00 0.00 4.10
251 252 0.744281 CTGGGCGTTGAAGTTGGTTT 59.256 50.000 0.00 0.00 0.00 3.27
252 253 0.741915 TGGGCGTTGAAGTTGGTTTC 59.258 50.000 0.00 0.00 0.00 2.78
317 318 6.861572 GGTTGTTGTCTTTTATGGAGCTAAAC 59.138 38.462 0.00 0.00 0.00 2.01
322 323 7.072177 TGTCTTTTATGGAGCTAAACATTCG 57.928 36.000 3.70 0.00 0.00 3.34
335 336 8.870242 AGCTAAACATTCGAAAACGTATTAAC 57.130 30.769 0.00 0.00 0.00 2.01
452 455 9.974980 TTTTCAGGGTGTATTAGAAAAATGTTC 57.025 29.630 0.00 0.00 35.84 3.18
453 456 8.698973 TTCAGGGTGTATTAGAAAAATGTTCA 57.301 30.769 0.00 0.00 0.00 3.18
454 457 8.877864 TCAGGGTGTATTAGAAAAATGTTCAT 57.122 30.769 0.00 0.00 0.00 2.57
455 458 8.956426 TCAGGGTGTATTAGAAAAATGTTCATC 58.044 33.333 0.00 0.00 0.00 2.92
457 460 8.116026 AGGGTGTATTAGAAAAATGTTCATCCT 58.884 33.333 0.00 0.00 0.00 3.24
458 461 9.403583 GGGTGTATTAGAAAAATGTTCATCCTA 57.596 33.333 0.00 0.00 0.00 2.94
767 3073 3.736252 CGTCTTCTTCTCTCGAGCAAAAA 59.264 43.478 7.81 0.00 0.00 1.94
768 3074 4.387256 CGTCTTCTTCTCTCGAGCAAAAAT 59.613 41.667 7.81 0.00 0.00 1.82
769 3075 5.443955 CGTCTTCTTCTCTCGAGCAAAAATC 60.444 44.000 7.81 0.00 0.00 2.17
770 3076 5.406780 GTCTTCTTCTCTCGAGCAAAAATCA 59.593 40.000 7.81 0.00 0.00 2.57
771 3077 6.091986 GTCTTCTTCTCTCGAGCAAAAATCAT 59.908 38.462 7.81 0.00 0.00 2.45
773 3079 4.872691 TCTTCTCTCGAGCAAAAATCATCC 59.127 41.667 7.81 0.00 0.00 3.51
775 3081 4.186926 TCTCTCGAGCAAAAATCATCCAG 58.813 43.478 7.81 0.00 0.00 3.86
777 3083 1.745087 TCGAGCAAAAATCATCCAGCC 59.255 47.619 0.00 0.00 0.00 4.85
779 3085 1.137675 GAGCAAAAATCATCCAGCCCC 59.862 52.381 0.00 0.00 0.00 5.80
911 3217 1.816863 TTTCGCGCCTCACTCCTCTT 61.817 55.000 0.00 0.00 0.00 2.85
974 3280 2.585341 TTAGGGTTCCGGCGAGCAA 61.585 57.895 9.30 0.00 0.00 3.91
1176 3484 3.243771 ACCTCGACATGAACGGGATTATC 60.244 47.826 15.70 0.00 32.58 1.75
1213 3521 1.709147 CGAGGACAGGGTACGTACGG 61.709 65.000 21.06 13.21 0.00 4.02
1217 3525 2.100991 CAGGGTACGTACGGTCGC 59.899 66.667 21.06 18.35 0.00 5.19
1377 4095 3.548745 TGCTGATTGGTGTATGAGGAG 57.451 47.619 0.00 0.00 0.00 3.69
1486 4225 0.536915 GAGATGCCAGGAGGATTGCC 60.537 60.000 0.00 0.00 36.89 4.52
1570 4401 7.744087 TCTGTCAAACTACACTGCAAATTAT 57.256 32.000 0.00 0.00 0.00 1.28
1711 4576 0.165944 CGGACAATTCAACGTCTGCC 59.834 55.000 0.00 0.00 32.11 4.85
1721 4586 0.676782 AACGTCTGCCTATTGCCCAC 60.677 55.000 0.00 0.00 40.16 4.61
3077 6453 1.538950 GAGCACTGCCTTTTCCTTGAG 59.461 52.381 0.00 0.00 0.00 3.02
3297 6674 7.934457 CCTTACCAGGTAATGAGATCAATTTG 58.066 38.462 12.75 0.00 35.06 2.32
3340 6717 5.046663 TGTGATGCTATTCAGTGGACTTACA 60.047 40.000 0.00 0.00 0.00 2.41
3545 6939 4.703897 AGAGATTCGTGAGGTTTGTTTCA 58.296 39.130 0.00 0.00 0.00 2.69
3619 7013 3.171528 GTGTTACCAGTTACTCCCTCCT 58.828 50.000 0.00 0.00 0.00 3.69
3874 7275 8.109634 CCTAATATGGGTGGCTATTTAACTGAT 58.890 37.037 0.00 0.00 0.00 2.90
3923 7324 8.565896 TTCATACATCATATTATCCAAGTGGC 57.434 34.615 0.00 0.00 34.44 5.01
4367 7881 6.870439 AGCTGGAATTTTTGTTAGATGCTTTC 59.130 34.615 0.00 0.00 0.00 2.62
4429 7943 7.118390 CAGAATAAGAAAATATAGGGGTCTGCG 59.882 40.741 0.00 0.00 0.00 5.18
4463 7977 9.639563 TCTATCCATATTTGTGCTTGGAATTTA 57.360 29.630 0.00 0.00 41.36 1.40
4512 8026 4.158384 GCATAACACATTCACAAAGGTCG 58.842 43.478 0.00 0.00 0.00 4.79
4534 8048 0.032813 CAAGACATGCCTCCCCCATT 60.033 55.000 0.00 0.00 0.00 3.16
4655 8353 1.909700 TGATGTTTTCTGCCTGACCC 58.090 50.000 0.00 0.00 0.00 4.46
4656 8354 1.144708 TGATGTTTTCTGCCTGACCCA 59.855 47.619 0.00 0.00 0.00 4.51
4673 8371 3.347216 ACCCAGCAAATCTGACATGTAC 58.653 45.455 0.00 0.00 45.72 2.90
4674 8372 3.009473 ACCCAGCAAATCTGACATGTACT 59.991 43.478 0.00 0.00 45.72 2.73
4675 8373 4.225042 ACCCAGCAAATCTGACATGTACTA 59.775 41.667 0.00 0.00 45.72 1.82
4676 8374 4.572389 CCCAGCAAATCTGACATGTACTAC 59.428 45.833 0.00 0.00 45.72 2.73
4677 8375 5.178061 CCAGCAAATCTGACATGTACTACA 58.822 41.667 0.00 0.00 45.72 2.74
4678 8376 5.819379 CCAGCAAATCTGACATGTACTACAT 59.181 40.000 0.00 0.00 45.72 2.29
4679 8377 6.018425 CCAGCAAATCTGACATGTACTACATC 60.018 42.308 0.00 0.00 45.72 3.06
4680 8378 5.750547 AGCAAATCTGACATGTACTACATCG 59.249 40.000 0.00 0.00 36.53 3.84
4681 8379 5.050769 GCAAATCTGACATGTACTACATCGG 60.051 44.000 0.00 0.00 36.53 4.18
4682 8380 3.710326 TCTGACATGTACTACATCGGC 57.290 47.619 0.00 0.00 36.53 5.54
4683 8381 3.020984 TCTGACATGTACTACATCGGCA 58.979 45.455 0.00 3.54 36.53 5.69
4684 8382 3.445805 TCTGACATGTACTACATCGGCAA 59.554 43.478 0.00 0.00 36.53 4.52
4685 8383 4.099419 TCTGACATGTACTACATCGGCAAT 59.901 41.667 0.00 0.00 36.53 3.56
4686 8384 5.300792 TCTGACATGTACTACATCGGCAATA 59.699 40.000 0.00 0.00 36.53 1.90
4687 8385 6.015434 TCTGACATGTACTACATCGGCAATAT 60.015 38.462 0.00 0.00 36.53 1.28
4688 8386 7.175990 TCTGACATGTACTACATCGGCAATATA 59.824 37.037 0.00 0.00 36.53 0.86
4689 8387 7.662897 TGACATGTACTACATCGGCAATATAA 58.337 34.615 0.00 0.00 36.53 0.98
4690 8388 7.812669 TGACATGTACTACATCGGCAATATAAG 59.187 37.037 0.00 0.00 36.53 1.73
4691 8389 7.667557 ACATGTACTACATCGGCAATATAAGT 58.332 34.615 0.00 0.00 36.53 2.24
4692 8390 8.799367 ACATGTACTACATCGGCAATATAAGTA 58.201 33.333 0.00 0.00 36.53 2.24
4693 8391 9.073368 CATGTACTACATCGGCAATATAAGTAC 57.927 37.037 0.00 0.00 36.53 2.73
4694 8392 7.596494 TGTACTACATCGGCAATATAAGTACC 58.404 38.462 0.00 0.00 38.05 3.34
4695 8393 6.034161 ACTACATCGGCAATATAAGTACCC 57.966 41.667 0.00 0.00 0.00 3.69
4696 8394 4.967084 ACATCGGCAATATAAGTACCCA 57.033 40.909 0.00 0.00 0.00 4.51
4697 8395 4.894784 ACATCGGCAATATAAGTACCCAG 58.105 43.478 0.00 0.00 0.00 4.45
4698 8396 4.253685 CATCGGCAATATAAGTACCCAGG 58.746 47.826 0.00 0.00 0.00 4.45
4699 8397 2.635915 TCGGCAATATAAGTACCCAGGG 59.364 50.000 2.85 2.85 0.00 4.45
4700 8398 2.370849 CGGCAATATAAGTACCCAGGGT 59.629 50.000 17.82 17.82 40.16 4.34
4701 8399 3.579586 CGGCAATATAAGTACCCAGGGTA 59.420 47.826 15.22 15.22 37.09 3.69
4702 8400 4.322499 CGGCAATATAAGTACCCAGGGTAG 60.322 50.000 19.85 5.76 39.02 3.18
4703 8401 4.565028 GGCAATATAAGTACCCAGGGTAGC 60.565 50.000 19.85 15.24 39.02 3.58
4704 8402 4.041198 GCAATATAAGTACCCAGGGTAGCA 59.959 45.833 19.85 7.39 39.02 3.49
4705 8403 5.455612 GCAATATAAGTACCCAGGGTAGCAA 60.456 44.000 19.85 7.38 39.02 3.91
4706 8404 6.747186 GCAATATAAGTACCCAGGGTAGCAAT 60.747 42.308 19.85 13.95 39.02 3.56
4707 8405 4.976540 ATAAGTACCCAGGGTAGCAATC 57.023 45.455 19.85 6.85 39.02 2.67
4708 8406 2.263895 AGTACCCAGGGTAGCAATCA 57.736 50.000 19.85 0.00 39.02 2.57
4709 8407 2.557869 AGTACCCAGGGTAGCAATCAA 58.442 47.619 19.85 0.00 39.02 2.57
4710 8408 2.916934 AGTACCCAGGGTAGCAATCAAA 59.083 45.455 19.85 0.00 39.02 2.69
4711 8409 2.215942 ACCCAGGGTAGCAATCAAAC 57.784 50.000 10.48 0.00 32.11 2.93
4712 8410 1.710809 ACCCAGGGTAGCAATCAAACT 59.289 47.619 10.48 0.00 32.11 2.66
4713 8411 2.094675 CCCAGGGTAGCAATCAAACTG 58.905 52.381 0.00 0.00 0.00 3.16
4714 8412 2.290896 CCCAGGGTAGCAATCAAACTGA 60.291 50.000 0.00 0.00 0.00 3.41
4715 8413 2.749621 CCAGGGTAGCAATCAAACTGAC 59.250 50.000 0.00 0.00 0.00 3.51
4716 8414 2.749621 CAGGGTAGCAATCAAACTGACC 59.250 50.000 0.00 0.00 0.00 4.02
4974 8987 2.739913 TCTTATTGTACCTGTTGCACGC 59.260 45.455 0.00 0.00 0.00 5.34
5389 9416 5.574443 GCTTTTATCAGTTCATTGCAGTTCC 59.426 40.000 0.00 0.00 0.00 3.62
5395 9422 4.046462 CAGTTCATTGCAGTTCCAAGTTG 58.954 43.478 0.00 0.00 0.00 3.16
5417 9445 5.865013 TTGAAGTTCAACAATGCTATGCATG 59.135 36.000 14.35 0.26 38.77 4.06
5687 9716 1.519498 ATGCCCTTTACTAGGTCCCC 58.481 55.000 0.00 0.00 43.07 4.81
5696 9725 5.191921 CCTTTACTAGGTCCCCTTTCTTCAT 59.808 44.000 0.00 0.00 39.39 2.57
6481 10872 4.171243 TCCTCTACCCATCCCACTAATACA 59.829 45.833 0.00 0.00 0.00 2.29
6961 11383 7.985184 TGGCAGGTACATTTATCTTAGTAAGTG 59.015 37.037 9.71 3.24 0.00 3.16
7182 11611 7.100458 ACAAGATTTTCCATATTTTCCTCGG 57.900 36.000 0.00 0.00 0.00 4.63
7431 11863 4.211374 GTGTAGTGTTCCATGTCAACTGAC 59.789 45.833 2.78 2.78 44.97 3.51
7843 12334 5.310068 TGTTACCATACCCAAGAAGGTACAA 59.690 40.000 0.00 0.00 45.08 2.41
8431 12956 2.209838 ACAACCATATGCGAGAGACG 57.790 50.000 0.00 0.00 45.66 4.18
8459 12984 0.545646 GATTCAAGAGGAGCAGGCCT 59.454 55.000 0.00 0.00 42.17 5.19
8495 13023 6.647067 GGATACCATCAGAATAGTAGCAACAC 59.353 42.308 0.00 0.00 0.00 3.32
8496 13024 4.433615 ACCATCAGAATAGTAGCAACACG 58.566 43.478 0.00 0.00 0.00 4.49
8715 13249 1.001974 TCACAGAACCGCTACAGCAAT 59.998 47.619 1.61 0.00 42.21 3.56
8891 13434 4.698780 TGGTGATCTTCAAGCTTCTTGATG 59.301 41.667 9.72 11.67 0.00 3.07
9033 13589 1.821136 AGCAGCAAAGATTGTAAGGGC 59.179 47.619 0.00 0.00 0.00 5.19
9180 13795 4.562789 GCGTAAGAAATCCCATTTTTCTGC 59.437 41.667 0.00 0.00 41.38 4.26
9195 13810 6.683974 TTTTTCTGCTCATAGATTGGCTAC 57.316 37.500 0.00 0.00 0.00 3.58
9262 13877 3.007182 CCCGTTGGTTTACTCCAGAACTA 59.993 47.826 0.00 0.00 38.80 2.24
9263 13878 4.503643 CCCGTTGGTTTACTCCAGAACTAA 60.504 45.833 0.00 0.00 38.80 2.24
9273 13888 4.408276 ACTCCAGAACTAACACTCTAGCA 58.592 43.478 0.00 0.00 0.00 3.49
9296 13911 2.975489 GGAGATTCTCCCAATGGCTCTA 59.025 50.000 20.35 0.00 44.36 2.43
9299 13914 2.717639 TTCTCCCAATGGCTCTAAGC 57.282 50.000 0.00 0.00 41.46 3.09
9306 13921 1.474077 CAATGGCTCTAAGCAACCACC 59.526 52.381 0.86 0.00 44.75 4.61
9307 13922 0.698238 ATGGCTCTAAGCAACCACCA 59.302 50.000 0.86 0.00 44.75 4.17
9308 13923 0.250727 TGGCTCTAAGCAACCACCAC 60.251 55.000 0.86 0.00 44.75 4.16
9309 13924 0.036875 GGCTCTAAGCAACCACCACT 59.963 55.000 0.86 0.00 44.75 4.00
9310 13925 1.278127 GGCTCTAAGCAACCACCACTA 59.722 52.381 0.86 0.00 44.75 2.74
9311 13926 2.092914 GGCTCTAAGCAACCACCACTAT 60.093 50.000 0.86 0.00 44.75 2.12
9312 13927 3.610911 GCTCTAAGCAACCACCACTATT 58.389 45.455 0.00 0.00 41.89 1.73
9313 13928 4.383770 GGCTCTAAGCAACCACCACTATTA 60.384 45.833 0.86 0.00 44.75 0.98
9314 13929 4.811557 GCTCTAAGCAACCACCACTATTAG 59.188 45.833 0.00 0.00 41.89 1.73
9315 13930 5.395324 GCTCTAAGCAACCACCACTATTAGA 60.395 44.000 0.00 0.00 41.89 2.10
9543 15025 4.533919 TGCCGGAATGTTGATTCATTTT 57.466 36.364 5.05 0.00 39.98 1.82
9648 15130 7.562135 TCTAAAATATCGTTTTGCTCTACCCT 58.438 34.615 0.00 0.00 0.00 4.34
9706 15188 5.223449 TCGTGAATAGGTTTTTGAGGTCT 57.777 39.130 0.00 0.00 0.00 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
33 34 8.754991 TCTGACTTGTTTAACAAATTTCCCTA 57.245 30.769 11.80 0.00 37.69 3.53
54 55 0.598562 GTGCTCGAGACTGGTTCTGA 59.401 55.000 18.75 0.00 33.22 3.27
77 78 0.665835 TTGTTGCGGTCATTGACACC 59.334 50.000 18.09 8.70 33.68 4.16
154 155 4.635699 TGTAGGTTTTCTTTCTCCCCTC 57.364 45.455 0.00 0.00 0.00 4.30
155 156 4.167307 TGTTGTAGGTTTTCTTTCTCCCCT 59.833 41.667 0.00 0.00 0.00 4.79
159 160 6.856426 CGGATTTGTTGTAGGTTTTCTTTCTC 59.144 38.462 0.00 0.00 0.00 2.87
160 161 6.544564 TCGGATTTGTTGTAGGTTTTCTTTCT 59.455 34.615 0.00 0.00 0.00 2.52
161 162 6.731164 TCGGATTTGTTGTAGGTTTTCTTTC 58.269 36.000 0.00 0.00 0.00 2.62
162 163 6.702716 TCGGATTTGTTGTAGGTTTTCTTT 57.297 33.333 0.00 0.00 0.00 2.52
181 182 3.074836 AGTTAACCCCCTTCATTTTCGGA 59.925 43.478 0.88 0.00 0.00 4.55
205 206 1.070445 CCAGGAGCTATGCTTCTCCAG 59.930 57.143 10.48 2.85 41.21 3.86
229 230 0.872388 CCAACTTCAACGCCCAGTAC 59.128 55.000 0.00 0.00 0.00 2.73
234 235 0.031585 GGAAACCAACTTCAACGCCC 59.968 55.000 0.00 0.00 0.00 6.13
426 428 9.974980 GAACATTTTTCTAATACACCCTGAAAA 57.025 29.630 0.00 0.00 35.63 2.29
427 429 9.137459 TGAACATTTTTCTAATACACCCTGAAA 57.863 29.630 0.00 0.00 0.00 2.69
430 433 8.190784 GGATGAACATTTTTCTAATACACCCTG 58.809 37.037 0.00 0.00 0.00 4.45
506 2781 5.748152 GCGTGACATTTTTGGTTATATGCAT 59.252 36.000 3.79 3.79 0.00 3.96
518 2793 1.285641 CAGCGGGCGTGACATTTTT 59.714 52.632 0.00 0.00 0.00 1.94
675 2981 2.342648 GGAGTTCTCCCACGCGTT 59.657 61.111 10.22 0.00 0.00 4.84
767 3073 1.217057 ACCTTGTGGGGCTGGATGAT 61.217 55.000 0.00 0.00 40.03 2.45
768 3074 1.852157 ACCTTGTGGGGCTGGATGA 60.852 57.895 0.00 0.00 40.03 2.92
769 3075 1.379044 GACCTTGTGGGGCTGGATG 60.379 63.158 0.00 0.00 40.87 3.51
770 3076 2.616458 GGACCTTGTGGGGCTGGAT 61.616 63.158 0.00 0.00 44.42 3.41
771 3077 3.256960 GGACCTTGTGGGGCTGGA 61.257 66.667 0.00 0.00 44.42 3.86
773 3079 2.034687 CTGGACCTTGTGGGGCTG 59.965 66.667 0.00 0.00 44.42 4.85
775 3081 2.034221 GTCTGGACCTTGTGGGGC 59.966 66.667 0.00 0.00 44.23 5.80
1176 3484 4.366684 GGGTGGAAGCAGGGGTGG 62.367 72.222 0.00 0.00 34.77 4.61
1303 4021 1.374947 CATCCCACACCGAACCACT 59.625 57.895 0.00 0.00 0.00 4.00
1377 4095 1.709147 CCTCGGCACAACTGCATAGC 61.709 60.000 0.00 0.00 46.28 2.97
1411 4129 9.438291 CCTTTTAATTGCAACTATCATTCTACG 57.562 33.333 0.00 0.00 0.00 3.51
1486 4225 8.177663 AGCATCAAATTGAATAGTTGAACTACG 58.822 33.333 7.28 0.00 35.07 3.51
1570 4401 4.037923 GGCAGATTCACTTGTCCAGAAAAA 59.962 41.667 0.00 0.00 0.00 1.94
1671 4536 4.951094 CCGTGTTAGGGGGAAATAAAATGA 59.049 41.667 0.00 0.00 0.00 2.57
1711 4576 6.061441 TGGTATTGATAACAGTGGGCAATAG 58.939 40.000 0.00 0.00 33.56 1.73
3077 6453 2.153057 GGCAAAACGTCGAAGAAAATGC 59.847 45.455 5.05 9.51 39.69 3.56
3297 6674 6.000891 TCACATCACAAGTTGCAATAGAAC 57.999 37.500 0.59 0.00 0.00 3.01
3340 6717 5.598417 AGGCACAAATGAAAGTAAGTCCTTT 59.402 36.000 0.00 0.00 37.37 3.11
3666 7060 8.862085 ACTCCCTCTGTAAACTAATATAAGAGC 58.138 37.037 0.00 0.00 0.00 4.09
3874 7275 3.932545 AATTTGAATACCGTGCAAGCA 57.067 38.095 0.00 0.00 0.00 3.91
4367 7881 4.828939 ACCCATAATATTCACTGTGCATGG 59.171 41.667 2.12 8.23 33.08 3.66
4429 7943 6.939163 AGCACAAATATGGATAGAAGACCATC 59.061 38.462 0.00 0.00 44.45 3.51
4534 8048 2.230508 ACAACTCGAGAAATGGCTACGA 59.769 45.455 21.68 0.00 0.00 3.43
4655 8353 6.292008 CGATGTAGTACATGTCAGATTTGCTG 60.292 42.308 20.46 0.00 41.59 4.41
4656 8354 5.750547 CGATGTAGTACATGTCAGATTTGCT 59.249 40.000 20.46 0.00 39.27 3.91
4673 8371 6.032956 TGGGTACTTATATTGCCGATGTAG 57.967 41.667 0.00 0.00 0.00 2.74
4674 8372 5.046878 CCTGGGTACTTATATTGCCGATGTA 60.047 44.000 0.00 0.00 0.00 2.29
4675 8373 4.262894 CCTGGGTACTTATATTGCCGATGT 60.263 45.833 0.00 0.00 0.00 3.06
4676 8374 4.253685 CCTGGGTACTTATATTGCCGATG 58.746 47.826 0.00 0.00 0.00 3.84
4677 8375 3.263425 CCCTGGGTACTTATATTGCCGAT 59.737 47.826 3.97 0.00 0.00 4.18
4678 8376 2.635915 CCCTGGGTACTTATATTGCCGA 59.364 50.000 3.97 0.00 0.00 5.54
4679 8377 2.370849 ACCCTGGGTACTTATATTGCCG 59.629 50.000 18.99 0.00 32.11 5.69
4680 8378 4.565028 GCTACCCTGGGTACTTATATTGCC 60.565 50.000 21.71 3.06 37.09 4.52
4681 8379 4.041198 TGCTACCCTGGGTACTTATATTGC 59.959 45.833 21.71 19.38 37.09 3.56
4682 8380 5.818678 TGCTACCCTGGGTACTTATATTG 57.181 43.478 21.71 10.43 37.09 1.90
4683 8381 6.561070 TGATTGCTACCCTGGGTACTTATATT 59.439 38.462 21.71 3.39 37.09 1.28
4684 8382 6.088819 TGATTGCTACCCTGGGTACTTATAT 58.911 40.000 21.71 10.45 37.09 0.86
4685 8383 5.469579 TGATTGCTACCCTGGGTACTTATA 58.530 41.667 21.71 2.28 37.09 0.98
4686 8384 4.303794 TGATTGCTACCCTGGGTACTTAT 58.696 43.478 21.71 13.72 37.09 1.73
4687 8385 3.726790 TGATTGCTACCCTGGGTACTTA 58.273 45.455 21.71 9.65 37.09 2.24
4688 8386 2.557869 TGATTGCTACCCTGGGTACTT 58.442 47.619 21.71 6.66 37.09 2.24
4689 8387 2.263895 TGATTGCTACCCTGGGTACT 57.736 50.000 21.71 6.84 37.09 2.73
4690 8388 3.014623 GTTTGATTGCTACCCTGGGTAC 58.985 50.000 21.71 17.54 37.09 3.34
4691 8389 2.916934 AGTTTGATTGCTACCCTGGGTA 59.083 45.455 23.77 23.77 37.09 3.69
4692 8390 1.710809 AGTTTGATTGCTACCCTGGGT 59.289 47.619 24.15 24.15 40.16 4.51
4693 8391 2.094675 CAGTTTGATTGCTACCCTGGG 58.905 52.381 12.28 12.28 0.00 4.45
4694 8392 2.749621 GTCAGTTTGATTGCTACCCTGG 59.250 50.000 0.00 0.00 0.00 4.45
4695 8393 2.749621 GGTCAGTTTGATTGCTACCCTG 59.250 50.000 0.00 0.00 0.00 4.45
4696 8394 2.290960 GGGTCAGTTTGATTGCTACCCT 60.291 50.000 0.00 0.00 41.57 4.34
4697 8395 2.092323 GGGTCAGTTTGATTGCTACCC 58.908 52.381 0.00 0.00 38.44 3.69
4698 8396 3.073274 AGGGTCAGTTTGATTGCTACC 57.927 47.619 0.00 0.00 0.00 3.18
4699 8397 6.599638 AGATTTAGGGTCAGTTTGATTGCTAC 59.400 38.462 0.00 0.00 0.00 3.58
4700 8398 6.721318 AGATTTAGGGTCAGTTTGATTGCTA 58.279 36.000 0.00 0.00 0.00 3.49
4701 8399 5.574188 AGATTTAGGGTCAGTTTGATTGCT 58.426 37.500 0.00 0.00 0.00 3.91
4702 8400 5.649831 AGAGATTTAGGGTCAGTTTGATTGC 59.350 40.000 0.00 0.00 0.00 3.56
4703 8401 7.362401 CCAAGAGATTTAGGGTCAGTTTGATTG 60.362 40.741 0.00 0.00 0.00 2.67
4704 8402 6.660949 CCAAGAGATTTAGGGTCAGTTTGATT 59.339 38.462 0.00 0.00 0.00 2.57
4705 8403 6.012508 TCCAAGAGATTTAGGGTCAGTTTGAT 60.013 38.462 0.00 0.00 0.00 2.57
4706 8404 5.309543 TCCAAGAGATTTAGGGTCAGTTTGA 59.690 40.000 0.00 0.00 0.00 2.69
4707 8405 5.560724 TCCAAGAGATTTAGGGTCAGTTTG 58.439 41.667 0.00 0.00 0.00 2.93
4708 8406 5.843019 TCCAAGAGATTTAGGGTCAGTTT 57.157 39.130 0.00 0.00 0.00 2.66
4709 8407 5.310857 AGTTCCAAGAGATTTAGGGTCAGTT 59.689 40.000 0.00 0.00 0.00 3.16
4710 8408 4.846940 AGTTCCAAGAGATTTAGGGTCAGT 59.153 41.667 0.00 0.00 0.00 3.41
4711 8409 5.428184 AGTTCCAAGAGATTTAGGGTCAG 57.572 43.478 0.00 0.00 0.00 3.51
4712 8410 5.309543 TCAAGTTCCAAGAGATTTAGGGTCA 59.690 40.000 0.00 0.00 0.00 4.02
4713 8411 5.644206 GTCAAGTTCCAAGAGATTTAGGGTC 59.356 44.000 0.00 0.00 0.00 4.46
4714 8412 5.073144 TGTCAAGTTCCAAGAGATTTAGGGT 59.927 40.000 0.00 0.00 0.00 4.34
4715 8413 5.560724 TGTCAAGTTCCAAGAGATTTAGGG 58.439 41.667 0.00 0.00 0.00 3.53
4716 8414 7.693969 ATTGTCAAGTTCCAAGAGATTTAGG 57.306 36.000 0.00 0.00 0.00 2.69
5389 9416 8.418920 TGCATAGCATTGTTGAACTTCAACTTG 61.419 37.037 27.22 24.11 44.37 3.16
5417 9445 5.682862 GTGTTCTCAACAATGTCATGACAAC 59.317 40.000 31.00 20.58 44.16 3.32
5508 9537 3.606687 CACACCCTACCAGGAATGTAAC 58.393 50.000 0.00 0.00 37.67 2.50
5687 9716 7.210873 AGCGGATAGTAAAGGTATGAAGAAAG 58.789 38.462 0.00 0.00 0.00 2.62
5696 9725 5.361571 TCACATGAAGCGGATAGTAAAGGTA 59.638 40.000 0.00 0.00 0.00 3.08
6380 10771 5.736951 TTTGGCCAACTAAAACATGCTAT 57.263 34.783 20.35 0.00 0.00 2.97
6448 10839 5.593095 GGGATGGGTAGAGGAACAATTAAAC 59.407 44.000 0.00 0.00 0.00 2.01
6481 10872 7.875971 AGCAAGAAGAAATTAGAATGAAACGT 58.124 30.769 0.00 0.00 0.00 3.99
7431 11863 6.153000 TGAGTAGAACTAAGTAAGAAGGCCAG 59.847 42.308 5.01 0.00 0.00 4.85
7824 12315 6.210584 ACAATTTTGTACCTTCTTGGGTATGG 59.789 38.462 0.00 0.00 42.84 2.74
8431 12956 1.372087 CCTCTTGAATCGCTGTGGCC 61.372 60.000 0.00 0.00 34.44 5.36
8495 13023 4.876125 AGGAGCAGTATGTGATGAATACG 58.124 43.478 0.00 0.00 39.31 3.06
8496 13024 5.233988 GGAGGAGCAGTATGTGATGAATAC 58.766 45.833 0.00 0.00 39.31 1.89
8715 13249 7.310485 GGTCTCCTGTTTGAAGTCCTATCTAAA 60.310 40.741 0.00 0.00 0.00 1.85
8766 13300 0.902531 TAGAACCAAAGAGGAGGCGG 59.097 55.000 0.00 0.00 41.22 6.13
8891 13434 6.103057 TCCCCCTAGGTAATTTTTATACCACC 59.897 42.308 8.29 0.00 44.35 4.61
9180 13795 4.944619 TCCACTGTAGCCAATCTATGAG 57.055 45.455 0.00 0.00 0.00 2.90
9195 13810 4.724074 AACATGCCAATAACATCCACTG 57.276 40.909 0.00 0.00 0.00 3.66
9230 13845 0.395173 AACCAACGGGACAAACAGCT 60.395 50.000 0.00 0.00 38.05 4.24
9262 13877 3.704061 GAGAATCTCCCTGCTAGAGTGTT 59.296 47.826 0.00 0.00 32.93 3.32
9263 13878 3.295973 GAGAATCTCCCTGCTAGAGTGT 58.704 50.000 0.00 0.00 32.93 3.55
9296 13911 6.969993 TTTTTCTAATAGTGGTGGTTGCTT 57.030 33.333 0.00 0.00 0.00 3.91
9543 15025 1.195900 CCAAAATTCTCGCCGAAACGA 59.804 47.619 0.00 0.00 40.36 3.85
9648 15130 4.408821 GGACCATGGTCGCCTGCA 62.409 66.667 33.24 0.00 45.41 4.41
9706 15188 3.315142 AAGCATCTCGGCCTTCGCA 62.315 57.895 0.00 0.00 39.05 5.10


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

AutoCloner maintained by Alex Coulton.