Multiple sequence alignment - TraesCS7D01G490700

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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 TraesCS7D01G490700 chr7D 100.000 8276 0 0 1 8276 600049978 600058253 0.000000e+00 15283.0
1 TraesCS7D01G490700 chr7D 85.714 49 7 0 331 379 94008185 94008233 1.500000e-02 52.8
2 TraesCS7D01G490700 chr3D 95.333 4114 129 19 2960 7052 579678022 579682093 0.000000e+00 6475.0
3 TraesCS7D01G490700 chr3D 93.696 698 35 5 1635 2325 579676374 579677069 0.000000e+00 1037.0
4 TraesCS7D01G490700 chr3D 82.429 700 66 34 7603 8274 579682924 579683594 7.260000e-155 558.0
5 TraesCS7D01G490700 chr3D 85.581 430 46 8 889 1312 579726208 579726627 3.550000e-118 436.0
6 TraesCS7D01G490700 chr3D 91.589 321 18 7 7047 7364 579682166 579682480 1.280000e-117 435.0
7 TraesCS7D01G490700 chr3D 95.288 191 7 2 5570 5758 422517793 422517603 1.350000e-77 302.0
8 TraesCS7D01G490700 chr3D 79.661 295 31 17 1364 1632 579676047 579676338 1.420000e-42 185.0
9 TraesCS7D01G490700 chr3D 84.483 174 15 3 587 758 579675728 579675891 2.390000e-35 161.0
10 TraesCS7D01G490700 chr3A 94.192 3874 168 23 1730 5577 679842318 679846160 0.000000e+00 5854.0
11 TraesCS7D01G490700 chr3A 93.859 2589 120 15 2419 4997 607835214 607837773 0.000000e+00 3864.0
12 TraesCS7D01G490700 chr3A 95.849 2337 82 11 1730 4057 714777204 714779534 0.000000e+00 3764.0
13 TraesCS7D01G490700 chr3A 96.141 1529 51 7 4054 5580 714779807 714781329 0.000000e+00 2490.0
14 TraesCS7D01G490700 chr3A 92.681 1257 73 12 6117 7364 714781327 714782573 0.000000e+00 1794.0
15 TraesCS7D01G490700 chr3A 92.308 1183 64 6 4978 6160 638895224 638894069 0.000000e+00 1655.0
16 TraesCS7D01G490700 chr3A 94.450 937 44 7 6118 7049 679846162 679847095 0.000000e+00 1435.0
17 TraesCS7D01G490700 chr3A 85.697 825 72 22 7491 8276 679847858 679848675 0.000000e+00 828.0
18 TraesCS7D01G490700 chr3A 84.917 663 64 22 845 1491 714776310 714776952 9.060000e-179 638.0
19 TraesCS7D01G490700 chr3A 83.209 536 70 12 1 534 714774603 714775120 2.700000e-129 473.0
20 TraesCS7D01G490700 chr3A 85.969 449 41 10 869 1312 714944504 714944935 2.100000e-125 460.0
21 TraesCS7D01G490700 chr3A 92.523 321 20 4 7047 7364 679847147 679847466 2.720000e-124 457.0
22 TraesCS7D01G490700 chr3A 89.969 319 26 3 7052 7364 607839398 607839716 2.780000e-109 407.0
23 TraesCS7D01G490700 chr3A 81.224 490 59 18 2 479 679840804 679841272 1.700000e-96 364.0
24 TraesCS7D01G490700 chr3A 91.979 187 10 2 1516 1698 679842130 679842315 2.960000e-64 257.0
25 TraesCS7D01G490700 chr3A 91.444 187 11 2 1516 1698 714777016 714777201 1.380000e-62 252.0
26 TraesCS7D01G490700 chr3A 82.803 157 16 4 5748 5895 714949270 714949424 6.740000e-26 130.0
27 TraesCS7D01G490700 chr3B 95.442 2874 112 9 2314 5186 734987774 734984919 0.000000e+00 4564.0
28 TraesCS7D01G490700 chr3B 93.942 2476 119 12 4584 7049 774393230 774395684 0.000000e+00 3712.0
29 TraesCS7D01G490700 chr3B 94.168 2452 113 14 1638 4072 774165887 774168325 0.000000e+00 3709.0
30 TraesCS7D01G490700 chr3B 94.304 2177 95 11 2428 4588 774391035 774393198 0.000000e+00 3306.0
31 TraesCS7D01G490700 chr3B 94.768 1529 58 14 4066 5580 774168402 774169922 0.000000e+00 2361.0
32 TraesCS7D01G490700 chr3B 93.920 1250 58 15 6117 7361 774169920 774171156 0.000000e+00 1871.0
33 TraesCS7D01G490700 chr3B 88.470 954 52 22 7366 8276 774171260 774172198 0.000000e+00 1099.0
34 TraesCS7D01G490700 chr3B 91.128 789 56 9 1638 2416 774239650 774240434 0.000000e+00 1057.0
35 TraesCS7D01G490700 chr3B 92.488 639 32 7 7366 7990 734969467 734968831 0.000000e+00 900.0
36 TraesCS7D01G490700 chr3B 87.563 796 59 11 7500 8276 550780892 550781666 0.000000e+00 885.0
37 TraesCS7D01G490700 chr3B 88.604 623 58 13 871 1490 774165033 774165645 0.000000e+00 745.0
38 TraesCS7D01G490700 chr3B 87.326 576 53 12 840 1401 734993060 734992491 7.000000e-180 641.0
39 TraesCS7D01G490700 chr3B 85.353 553 65 13 136 679 774164055 774164600 7.260000e-155 558.0
40 TraesCS7D01G490700 chr3B 84.272 604 53 18 889 1491 774235680 774236242 1.210000e-152 551.0
41 TraesCS7D01G490700 chr3B 87.989 358 36 2 7924 8276 774173442 774173797 4.620000e-112 416.0
42 TraesCS7D01G490700 chr3B 81.957 460 51 16 1032 1491 774239001 774239428 2.200000e-95 361.0
43 TraesCS7D01G490700 chr3B 89.003 291 32 0 7885 8175 774398725 774399015 2.200000e-95 361.0
44 TraesCS7D01G490700 chr3B 86.555 238 19 7 1405 1632 734990679 734990445 4.960000e-62 250.0
45 TraesCS7D01G490700 chr3B 92.308 117 9 0 1516 1632 774236306 774236422 5.140000e-37 167.0
46 TraesCS7D01G490700 chr3B 91.453 117 10 0 1516 1632 774239492 774239608 2.390000e-35 161.0
47 TraesCS7D01G490700 chr3B 81.579 114 17 4 1517 1627 774469542 774469654 3.180000e-14 91.6
48 TraesCS7D01G490700 chr1D 95.199 2770 110 13 3139 5906 96069587 96066839 0.000000e+00 4357.0
49 TraesCS7D01G490700 chr1D 95.684 2572 86 14 4490 7049 64327541 64330099 0.000000e+00 4111.0
50 TraesCS7D01G490700 chr1D 95.172 1512 59 8 1638 3141 64324414 64325919 0.000000e+00 2375.0
51 TraesCS7D01G490700 chr1D 94.459 1516 67 11 1635 3142 96071173 96069667 0.000000e+00 2318.0
52 TraesCS7D01G490700 chr1D 95.949 1259 46 2 3139 4397 64326000 64327253 0.000000e+00 2037.0
53 TraesCS7D01G490700 chr1D 97.660 1154 25 2 5902 7055 96042909 96041758 0.000000e+00 1980.0
54 TraesCS7D01G490700 chr1D 92.155 1364 45 10 5024 6384 439346313 439347617 0.000000e+00 1869.0
55 TraesCS7D01G490700 chr1D 85.169 708 59 20 7603 8273 64330986 64331684 0.000000e+00 684.0
56 TraesCS7D01G490700 chr1D 86.741 626 52 24 892 1494 96072009 96071392 0.000000e+00 667.0
57 TraesCS7D01G490700 chr1D 85.648 648 60 24 871 1491 64323545 64324186 0.000000e+00 651.0
58 TraesCS7D01G490700 chr1D 90.966 321 25 4 7047 7364 439348298 439348617 5.940000e-116 429.0
59 TraesCS7D01G490700 chr1D 90.966 321 25 4 7047 7364 439354052 439354371 5.940000e-116 429.0
60 TraesCS7D01G490700 chr1D 90.966 321 24 5 7047 7364 64330178 64330496 2.130000e-115 427.0
61 TraesCS7D01G490700 chr1D 89.552 134 9 4 7365 7497 64330598 64330727 1.850000e-36 165.0
62 TraesCS7D01G490700 chr1D 87.218 133 10 5 7366 7497 96041294 96041168 2.410000e-30 145.0
63 TraesCS7D01G490700 chr1D 88.430 121 8 2 1516 1632 64324250 64324368 3.110000e-29 141.0
64 TraesCS7D01G490700 chr1D 85.950 121 13 1 1516 1632 96071331 96071211 8.720000e-25 126.0
65 TraesCS7D01G490700 chr7B 94.195 2429 99 17 1634 4040 6952763 6955171 0.000000e+00 3666.0
66 TraesCS7D01G490700 chr7B 87.097 806 67 17 7491 8273 6978419 6979210 0.000000e+00 878.0
67 TraesCS7D01G490700 chr7B 86.104 770 75 18 2 761 6936391 6937138 0.000000e+00 800.0
68 TraesCS7D01G490700 chr7B 86.283 452 46 8 1085 1523 6952138 6952586 2.090000e-130 477.0
69 TraesCS7D01G490700 chr7B 90.654 321 24 6 7047 7364 6977709 6978026 9.930000e-114 422.0
70 TraesCS7D01G490700 chr7B 100.000 28 0 0 356 383 672654300 672654327 1.500000e-02 52.8
71 TraesCS7D01G490700 chr1B 94.998 2319 93 12 1638 3945 146963000 146960694 0.000000e+00 3618.0
72 TraesCS7D01G490700 chr1B 95.710 2028 71 6 5024 7049 596167577 596169590 0.000000e+00 3249.0
73 TraesCS7D01G490700 chr1B 95.039 1814 72 10 1638 3441 116126944 116128749 0.000000e+00 2835.0
74 TraesCS7D01G490700 chr1B 94.702 1359 71 1 4223 5580 116139062 116140420 0.000000e+00 2109.0
75 TraesCS7D01G490700 chr1B 95.212 1086 50 2 4502 5586 146952640 146951556 0.000000e+00 1716.0
76 TraesCS7D01G490700 chr1B 90.476 756 54 9 7525 8276 143074592 143075333 0.000000e+00 981.0
77 TraesCS7D01G490700 chr1B 84.223 843 101 18 1 836 116116096 116116913 0.000000e+00 791.0
78 TraesCS7D01G490700 chr1B 82.941 850 100 25 1 836 146968116 146967298 0.000000e+00 725.0
79 TraesCS7D01G490700 chr1B 85.466 461 49 14 836 1293 116126142 116126587 1.630000e-126 464.0
80 TraesCS7D01G490700 chr1B 91.589 321 23 4 7047 7364 596169642 596169961 2.740000e-119 440.0
81 TraesCS7D01G490700 chr1B 83.974 468 46 15 836 1293 146963787 146963339 9.930000e-114 422.0
82 TraesCS7D01G490700 chr1B 84.778 427 38 20 7478 7881 116142138 116142560 3.600000e-108 403.0
83 TraesCS7D01G490700 chr1B 87.000 200 10 1 7366 7549 143074369 143074568 2.340000e-50 211.0
84 TraesCS7D01G490700 chr1B 98.000 100 2 0 7499 7598 146949658 146949559 3.070000e-39 174.0
85 TraesCS7D01G490700 chr6A 94.793 941 42 5 6117 7053 121732386 121731449 0.000000e+00 1459.0
86 TraesCS7D01G490700 chr6A 91.877 751 38 5 7531 8276 121730653 121729921 0.000000e+00 1027.0
87 TraesCS7D01G490700 chr6A 84.942 518 46 10 980 1494 121745296 121744808 5.770000e-136 496.0
88 TraesCS7D01G490700 chr6A 90.432 324 25 5 7046 7364 121731384 121731062 9.930000e-114 422.0
89 TraesCS7D01G490700 chr6A 89.474 133 10 4 7366 7497 121730960 121730831 1.850000e-36 165.0
90 TraesCS7D01G490700 chr6D 86.509 719 50 15 7604 8276 68914222 68914939 0.000000e+00 747.0
91 TraesCS7D01G490700 chr1A 87.476 511 37 19 7369 7861 86065093 86064592 1.560000e-156 564.0
92 TraesCS7D01G490700 chr1A 78.873 142 12 9 8065 8205 579831066 579830942 6.890000e-11 80.5
93 TraesCS7D01G490700 chr6B 87.871 404 37 4 7885 8276 144002614 144003017 1.630000e-126 464.0
94 TraesCS7D01G490700 chr2B 85.965 57 8 0 328 384 793173650 793173594 2.490000e-05 62.1
95 TraesCS7D01G490700 chr4A 100.000 30 0 0 353 382 680559521 680559492 1.000000e-03 56.5
96 TraesCS7D01G490700 chr7A 100.000 28 0 0 352 379 97269139 97269166 1.500000e-02 52.8


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 TraesCS7D01G490700 chr7D 600049978 600058253 8275 False 15283.000000 15283 100.000000 1 8276 1 chr7D.!!$F2 8275
1 TraesCS7D01G490700 chr3D 579675728 579683594 7866 False 1475.166667 6475 87.865167 587 8274 6 chr3D.!!$F2 7687
2 TraesCS7D01G490700 chr3A 607835214 607839716 4502 False 2135.500000 3864 91.914000 2419 7364 2 chr3A.!!$F3 4945
3 TraesCS7D01G490700 chr3A 638894069 638895224 1155 True 1655.000000 1655 92.308000 4978 6160 1 chr3A.!!$R1 1182
4 TraesCS7D01G490700 chr3A 714774603 714782573 7970 False 1568.500000 3764 90.706833 1 7364 6 chr3A.!!$F5 7363
5 TraesCS7D01G490700 chr3A 679840804 679848675 7871 False 1532.500000 5854 90.010833 2 8276 6 chr3A.!!$F4 8274
6 TraesCS7D01G490700 chr3B 774391035 774399015 7980 False 2459.666667 3712 92.416333 2428 8175 3 chr3B.!!$F5 5747
7 TraesCS7D01G490700 chr3B 734984919 734993060 8141 True 1818.333333 4564 89.774333 840 5186 3 chr3B.!!$R2 4346
8 TraesCS7D01G490700 chr3B 774164055 774173797 9742 False 1537.000000 3709 90.467429 136 8276 7 chr3B.!!$F3 8140
9 TraesCS7D01G490700 chr3B 734968831 734969467 636 True 900.000000 900 92.488000 7366 7990 1 chr3B.!!$R1 624
10 TraesCS7D01G490700 chr3B 550780892 550781666 774 False 885.000000 885 87.563000 7500 8276 1 chr3B.!!$F1 776
11 TraesCS7D01G490700 chr3B 774235680 774240434 4754 False 459.400000 1057 88.223600 889 2416 5 chr3B.!!$F4 1527
12 TraesCS7D01G490700 chr1D 96066839 96072009 5170 True 1867.000000 4357 90.587250 892 5906 4 chr1D.!!$R2 5014
13 TraesCS7D01G490700 chr1D 64323545 64331684 8139 False 1323.875000 4111 90.821250 871 8273 8 chr1D.!!$F2 7402
14 TraesCS7D01G490700 chr1D 439346313 439348617 2304 False 1149.000000 1869 91.560500 5024 7364 2 chr1D.!!$F3 2340
15 TraesCS7D01G490700 chr1D 96041168 96042909 1741 True 1062.500000 1980 92.439000 5902 7497 2 chr1D.!!$R1 1595
16 TraesCS7D01G490700 chr7B 6952138 6955171 3033 False 2071.500000 3666 90.239000 1085 4040 2 chr7B.!!$F3 2955
17 TraesCS7D01G490700 chr7B 6936391 6937138 747 False 800.000000 800 86.104000 2 761 1 chr7B.!!$F1 759
18 TraesCS7D01G490700 chr7B 6977709 6979210 1501 False 650.000000 878 88.875500 7047 8273 2 chr7B.!!$F4 1226
19 TraesCS7D01G490700 chr1B 596167577 596169961 2384 False 1844.500000 3249 93.649500 5024 7364 2 chr1B.!!$F5 2340
20 TraesCS7D01G490700 chr1B 116126142 116128749 2607 False 1649.500000 2835 90.252500 836 3441 2 chr1B.!!$F2 2605
21 TraesCS7D01G490700 chr1B 146960694 146968116 7422 True 1588.333333 3618 87.304333 1 3945 3 chr1B.!!$R2 3944
22 TraesCS7D01G490700 chr1B 116139062 116142560 3498 False 1256.000000 2109 89.740000 4223 7881 2 chr1B.!!$F3 3658
23 TraesCS7D01G490700 chr1B 146949559 146952640 3081 True 945.000000 1716 96.606000 4502 7598 2 chr1B.!!$R1 3096
24 TraesCS7D01G490700 chr1B 116116096 116116913 817 False 791.000000 791 84.223000 1 836 1 chr1B.!!$F1 835
25 TraesCS7D01G490700 chr1B 143074369 143075333 964 False 596.000000 981 88.738000 7366 8276 2 chr1B.!!$F4 910
26 TraesCS7D01G490700 chr6A 121729921 121732386 2465 True 768.250000 1459 91.644000 6117 8276 4 chr6A.!!$R2 2159
27 TraesCS7D01G490700 chr6D 68914222 68914939 717 False 747.000000 747 86.509000 7604 8276 1 chr6D.!!$F1 672
28 TraesCS7D01G490700 chr1A 86064592 86065093 501 True 564.000000 564 87.476000 7369 7861 1 chr1A.!!$R1 492

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
346 359 0.528466 CTCCATGTGACGGACGATGG 60.528 60.000 0.00 1.21 35.86 3.51 F
938 5574 0.942721 AAACCCCAAACCCTAACCCA 59.057 50.000 0.00 0.00 0.00 4.51 F
1893 11750 0.322906 CTTTCCAGGGTCCAGCCTTC 60.323 60.000 0.00 0.00 37.43 3.46 F
3473 15527 1.693062 TCTTGCACATGTGGCCATTTT 59.307 42.857 26.55 0.00 0.00 1.82 F
3788 15846 1.004200 CAGGACCTTTAACGGCGGT 60.004 57.895 13.24 7.51 0.00 5.68 F
5657 18371 0.970640 TGTAGTACGCAGCCTTTCCA 59.029 50.000 0.00 0.00 0.00 3.53 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1386 6102 0.664166 CGCTGCATCCACCAAACAAC 60.664 55.000 0.0 0.0 0.00 3.32 R
2446 14279 0.109597 GAAATCAGCAACCGTGGCAG 60.110 55.000 0.0 0.0 0.00 4.85 R
3788 15846 0.320683 CACAACTGCAGGATGACCGA 60.321 55.000 23.6 0.0 39.69 4.69 R
5316 18027 0.694771 AGCATCTCCAACAGGCAAGA 59.305 50.000 0.0 0.0 0.00 3.02 R
5677 18391 0.669625 CGGGTTCGAGTCCTGGAAAC 60.670 60.000 0.0 0.0 39.00 2.78 R
7286 22503 1.534163 GTGACCAAAAGACCGGCTAAC 59.466 52.381 0.0 0.0 0.00 2.34 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
116 117 4.105057 TCTGTTAGGAAAGTTTTGGGCCTA 59.895 41.667 4.53 0.00 0.00 3.93
127 128 4.016572 AGTTTTGGGCCTATCTATTTGGGT 60.017 41.667 4.53 0.00 0.00 4.51
159 160 6.092259 GTGTTCAGTCCGCTTAAATGTAATCT 59.908 38.462 0.00 0.00 0.00 2.40
162 163 6.403049 TCAGTCCGCTTAAATGTAATCTGAA 58.597 36.000 0.00 0.00 0.00 3.02
170 171 7.361713 CGCTTAAATGTAATCTGAACCTTCCAA 60.362 37.037 0.00 0.00 0.00 3.53
227 235 6.191657 TGATTGCCTATATATGCCCATAGG 57.808 41.667 7.44 5.26 44.53 2.57
245 253 1.295423 GGCCGCTTGGAGTGTTCTA 59.705 57.895 0.00 0.00 33.02 2.10
267 275 5.581126 AAACAACGATTGCACCATGATAT 57.419 34.783 0.00 0.00 0.00 1.63
279 287 4.802039 GCACCATGATATCTGCACTTTTTG 59.198 41.667 9.21 0.00 0.00 2.44
311 324 0.603569 TTTTGTTTGCACACACCCGT 59.396 45.000 4.89 0.00 30.32 5.28
336 349 2.373169 GGCCTTCATATCCTCCATGTGA 59.627 50.000 0.00 0.00 31.06 3.58
346 359 0.528466 CTCCATGTGACGGACGATGG 60.528 60.000 0.00 1.21 35.86 3.51
422 438 1.570803 TGGCTTCCCAAAATGGATGG 58.429 50.000 0.00 0.00 40.96 3.51
514 537 3.746492 GCCTCCTATGCGATCGTATTTTT 59.254 43.478 23.63 3.01 0.00 1.94
561 1153 6.327934 CACATTTGATGATCCAAAGGAGAAC 58.672 40.000 13.62 0.00 39.37 3.01
580 1172 9.438228 AGGAGAACTAAAAGTAAGCACTAAATC 57.562 33.333 0.00 0.00 33.48 2.17
640 1235 7.805071 CCACTGTTTTTACAGAACAATCAGATC 59.195 37.037 11.90 0.00 39.99 2.75
643 1238 7.572759 TGTTTTTACAGAACAATCAGATCGAC 58.427 34.615 0.00 0.00 34.32 4.20
653 1248 4.122776 CAATCAGATCGACCGGAGATTTT 58.877 43.478 9.46 2.85 0.00 1.82
654 1249 3.887621 TCAGATCGACCGGAGATTTTT 57.112 42.857 9.46 0.37 0.00 1.94
712 1616 7.746929 TCAAAAACCATTTGACATTTCAACAC 58.253 30.769 0.00 0.00 41.64 3.32
727 1635 1.093159 AACACGCGTAGGAGTAGGAG 58.907 55.000 13.44 0.00 0.00 3.69
758 1666 2.126031 GGTCCGCAGACGAAGACC 60.126 66.667 0.00 0.00 44.54 3.85
762 1670 1.734477 CCGCAGACGAAGACCACAG 60.734 63.158 0.00 0.00 43.93 3.66
763 1671 2.375766 CGCAGACGAAGACCACAGC 61.376 63.158 0.00 0.00 43.93 4.40
764 1672 2.029844 GCAGACGAAGACCACAGCC 61.030 63.158 0.00 0.00 0.00 4.85
766 1674 1.837051 AGACGAAGACCACAGCCCA 60.837 57.895 0.00 0.00 0.00 5.36
767 1675 1.668151 GACGAAGACCACAGCCCAC 60.668 63.158 0.00 0.00 0.00 4.61
768 1676 2.377628 GACGAAGACCACAGCCCACA 62.378 60.000 0.00 0.00 0.00 4.17
775 1683 2.981909 CACAGCCCACAGCCACAG 60.982 66.667 0.00 0.00 45.47 3.66
788 1696 1.298014 CCACAGGCAAGGTCTCTCC 59.702 63.158 0.00 0.00 0.00 3.71
808 1716 2.497675 CCTCTGTGTATGTGTAGCCTGT 59.502 50.000 0.00 0.00 0.00 4.00
838 1942 2.767536 CGGTCTCGTGCCATCAATT 58.232 52.632 0.00 0.00 0.00 2.32
840 1944 2.276201 CGGTCTCGTGCCATCAATTAA 58.724 47.619 0.00 0.00 0.00 1.40
841 1945 2.030457 CGGTCTCGTGCCATCAATTAAC 59.970 50.000 0.00 0.00 0.00 2.01
842 1946 3.270877 GGTCTCGTGCCATCAATTAACT 58.729 45.455 0.00 0.00 0.00 2.24
882 5518 3.060339 GTGAATCGCAAAGCCAAAACTTG 60.060 43.478 0.00 0.00 0.00 3.16
894 5530 3.735514 GCCAAAACTTGCGAACCAGTAAA 60.736 43.478 0.00 0.00 0.00 2.01
938 5574 0.942721 AAACCCCAAACCCTAACCCA 59.057 50.000 0.00 0.00 0.00 4.51
945 5596 1.144612 AAACCCTAACCCACTCCCCC 61.145 60.000 0.00 0.00 0.00 5.40
961 5632 3.809013 CCCATTCCCCACTCCCCG 61.809 72.222 0.00 0.00 0.00 5.73
962 5633 4.506255 CCATTCCCCACTCCCCGC 62.506 72.222 0.00 0.00 0.00 6.13
963 5634 3.727258 CATTCCCCACTCCCCGCA 61.727 66.667 0.00 0.00 0.00 5.69
964 5635 3.728373 ATTCCCCACTCCCCGCAC 61.728 66.667 0.00 0.00 0.00 5.34
1250 5952 3.119280 CCTCTCTCGAACCTTTTCCTCTC 60.119 52.174 0.00 0.00 0.00 3.20
1260 5962 1.532868 CTTTTCCTCTCACGCTGTTGG 59.467 52.381 0.00 0.00 0.00 3.77
1282 5984 1.141234 GAGCCTAGGTTTCGGTCGG 59.859 63.158 11.31 0.00 0.00 4.79
1316 6018 4.947147 TTTGGAACGGGCGCTGCT 62.947 61.111 7.64 0.00 0.00 4.24
1332 6034 1.239296 TGCTGTCACATTGCTGCTCC 61.239 55.000 0.00 0.00 0.00 4.70
1359 6061 5.994887 CGAATGGGTCGGTTTATGATTTA 57.005 39.130 0.00 0.00 46.45 1.40
1386 6102 3.181467 CCTCAGCTCTGGGATCTTAGTTG 60.181 52.174 0.00 0.00 31.13 3.16
1401 6117 2.888834 AGTTGTTGTTTGGTGGATGC 57.111 45.000 0.00 0.00 0.00 3.91
1403 6119 2.101249 AGTTGTTGTTTGGTGGATGCAG 59.899 45.455 0.00 0.00 0.00 4.41
1441 8003 4.263287 GGGGATTTTAGTTGTGCCCATTTT 60.263 41.667 0.00 0.00 42.54 1.82
1491 8053 2.945668 GGCTATTGGTCTGTGGAATCAC 59.054 50.000 0.00 0.00 43.87 3.06
1517 8096 5.974370 ACCCTTCCCCTTATGTTTACTCATA 59.026 40.000 0.00 0.00 0.00 2.15
1566 8190 6.173339 CCATTTCTATATGGCGAGGTGTATT 58.827 40.000 0.00 0.00 38.75 1.89
1568 8192 7.361201 CCATTTCTATATGGCGAGGTGTATTTG 60.361 40.741 0.00 0.00 38.75 2.32
1666 8330 9.739276 AACTCTTTCCCTTTGATTTTTCTTTTT 57.261 25.926 0.00 0.00 0.00 1.94
1733 8399 8.318412 TGTGTGGAATGTATCTAGTACAAATGT 58.682 33.333 8.57 0.00 45.87 2.71
1734 8400 8.818057 GTGTGGAATGTATCTAGTACAAATGTC 58.182 37.037 8.57 5.47 45.87 3.06
1742 8408 7.764443 TGTATCTAGTACAAATGTCTGCTTTCC 59.236 37.037 0.00 0.00 40.27 3.13
1811 11664 9.405587 GAATTAGTTAAACATTGCTGTTGCTTA 57.594 29.630 0.00 0.00 44.83 3.09
1824 11681 5.064707 TGCTGTTGCTTATTCGGTTCTATTC 59.935 40.000 0.00 0.00 40.48 1.75
1893 11750 0.322906 CTTTCCAGGGTCCAGCCTTC 60.323 60.000 0.00 0.00 37.43 3.46
1943 11800 5.484998 ACCAGGAGAAACGGGTAATAGTTTA 59.515 40.000 0.00 0.00 40.24 2.01
1954 11811 6.826741 ACGGGTAATAGTTTACATGATTGCTT 59.173 34.615 0.00 0.00 39.62 3.91
1972 11829 2.094182 GCTTACGTGTCCTCTGGAATCA 60.094 50.000 0.00 0.00 31.38 2.57
2303 12198 5.954150 AGGGAAAAGACACTTGAATATGCAT 59.046 36.000 3.79 3.79 0.00 3.96
2324 12219 3.937814 TCAGCGGATATTGACAGTTGTT 58.062 40.909 0.00 0.00 0.00 2.83
2446 14279 6.094061 GGTACAGTTTCAGTGACTCAGTATC 58.906 44.000 0.00 0.00 0.00 2.24
2594 14427 7.435068 AGCATGAAGACGTTAACAAATAAGT 57.565 32.000 6.39 0.00 0.00 2.24
2641 14474 3.758554 CTGCAAAGTAATGTACCAGGCTT 59.241 43.478 0.00 0.00 0.00 4.35
2900 14737 6.007703 ACTCAAGGAGATACCAGAGCTATAC 58.992 44.000 0.00 0.00 42.69 1.47
3225 15276 7.547019 GCAGTGAAGTCATATATATGCTAGCAA 59.453 37.037 23.54 11.65 33.76 3.91
3366 15420 8.883731 CGGTGGTATATCATCAATTTTCTATCC 58.116 37.037 0.00 0.00 0.00 2.59
3405 15459 3.845781 TGTCCAATTCCATAGCTCCTC 57.154 47.619 0.00 0.00 0.00 3.71
3407 15461 4.556697 TGTCCAATTCCATAGCTCCTCTA 58.443 43.478 0.00 0.00 0.00 2.43
3473 15527 1.693062 TCTTGCACATGTGGCCATTTT 59.307 42.857 26.55 0.00 0.00 1.82
3503 15557 5.052693 TCCAGATATATGCCAGTTTGCTT 57.947 39.130 0.00 0.00 0.00 3.91
3788 15846 1.004200 CAGGACCTTTAACGGCGGT 60.004 57.895 13.24 7.51 0.00 5.68
3828 15886 2.539274 GCTCAGCGATTCAGATTCTGAC 59.461 50.000 15.90 5.16 40.46 3.51
4382 16810 6.613233 GGGTCTGTATGATCGTATCTTACTG 58.387 44.000 0.00 14.74 39.39 2.74
4651 17317 2.489329 CCACTTACTGCTGGAATTGTGG 59.511 50.000 11.14 11.14 37.87 4.17
4662 17328 5.011840 TGCTGGAATTGTGGATTTTGATGAA 59.988 36.000 0.00 0.00 0.00 2.57
4663 17329 5.579511 GCTGGAATTGTGGATTTTGATGAAG 59.420 40.000 0.00 0.00 0.00 3.02
5058 17765 6.563422 TGTTCATTTCTTCAGACAACCAAAG 58.437 36.000 0.00 0.00 0.00 2.77
5162 17869 3.357079 CGCTGCCCCACTGTGTTC 61.357 66.667 7.08 0.00 0.00 3.18
5209 17916 1.959042 CTTGTGTGCAAGGAGACAGT 58.041 50.000 0.00 0.00 46.17 3.55
5255 17962 6.252869 GCTTTGCATAGATTGAACTGTTCATG 59.747 38.462 22.60 17.71 39.84 3.07
5316 18027 5.586243 CGAACCATGTCATCCAGATTAAACT 59.414 40.000 0.00 0.00 0.00 2.66
5411 18122 8.646004 TCATTGTTGAAAGGAAAAATGTGGATA 58.354 29.630 0.00 0.00 0.00 2.59
5492 18205 7.836183 AGGTACCATCTGAAAATAGCTTTGATT 59.164 33.333 15.94 0.00 0.00 2.57
5602 18316 3.188786 CACGTAGCTCCCGCTTGC 61.189 66.667 5.69 0.00 46.47 4.01
5604 18318 4.796231 CGTAGCTCCCGCTTGCGT 62.796 66.667 13.97 0.00 46.47 5.24
5618 18332 3.846430 GCGTAGGGTCCGGGGAAG 61.846 72.222 0.00 0.00 0.00 3.46
5622 18336 2.884221 TAGGGTCCGGGGAAGGGTT 61.884 63.158 0.00 0.00 0.00 4.11
5635 18349 3.053896 GGGTTCGACCGCTTTGGG 61.054 66.667 0.00 0.00 44.64 4.12
5657 18371 0.970640 TGTAGTACGCAGCCTTTCCA 59.029 50.000 0.00 0.00 0.00 3.53
5660 18374 2.311124 AGTACGCAGCCTTTCCATAC 57.689 50.000 0.00 0.00 0.00 2.39
5669 18383 3.444742 CAGCCTTTCCATACATTTCTGCA 59.555 43.478 0.00 0.00 0.00 4.41
5692 18406 0.034896 GGCTGTTTCCAGGACTCGAA 59.965 55.000 0.00 0.00 39.22 3.71
5696 18410 0.669625 GTTTCCAGGACTCGAACCCG 60.670 60.000 0.00 0.00 37.07 5.28
5721 18435 1.538512 CTCATGGTCACAAGGCAACAG 59.461 52.381 0.00 0.00 41.41 3.16
5726 18440 1.953686 GGTCACAAGGCAACAGCTTTA 59.046 47.619 0.00 0.00 41.41 1.85
5727 18441 2.558359 GGTCACAAGGCAACAGCTTTAT 59.442 45.455 0.00 0.00 41.41 1.40
5742 18456 3.680620 TTATCGCTGCGCCAAGGCT 62.681 57.895 18.65 0.00 39.32 4.58
5806 18520 9.661563 TTGTATCGTAGATTACCATTTGTTTCT 57.338 29.630 0.00 0.00 45.12 2.52
5810 18524 8.025243 TCGTAGATTACCATTTGTTTCTTGTC 57.975 34.615 0.00 0.00 0.00 3.18
5824 18538 5.471116 TGTTTCTTGTCACAATCCTGATCAG 59.529 40.000 16.24 16.24 0.00 2.90
5833 18547 2.414994 ATCCTGATCAGCAGTTGTGG 57.585 50.000 17.76 1.95 43.33 4.17
5877 18591 6.015603 TGGTCATGTTGCAAATAAGTTGATGA 60.016 34.615 0.00 0.00 39.87 2.92
5915 18629 1.920734 TTGGCGGCACAGGTATGGAT 61.921 55.000 12.92 0.00 0.00 3.41
5970 18688 0.037046 TTGATGAAGAGCAGCAGCGA 60.037 50.000 0.00 0.00 44.75 4.93
6092 18810 1.005037 CCCTGCAACGTGCTGAGTA 60.005 57.895 14.92 0.00 45.31 2.59
6129 19397 2.692557 TGTTTTATGCCCGCATGCTATT 59.307 40.909 17.13 0.00 37.82 1.73
6221 19548 7.211573 TCATTAATTGAAAAGCATAGCCCATG 58.788 34.615 0.00 0.00 37.73 3.66
6500 19834 2.235650 CTCTTCTCATGAAGCCTGGACA 59.764 50.000 0.00 0.00 46.81 4.02
7136 20616 7.809665 TGATGTACAGAACAATTCAACATCTG 58.190 34.615 20.39 0.00 42.70 2.90
7195 20679 1.823295 GATAAGCGTGCCCAGGAGA 59.177 57.895 0.00 0.00 0.00 3.71
7286 22503 1.134491 GGAAGGATGAACACCCCGTAG 60.134 57.143 0.00 0.00 0.00 3.51
7422 22802 1.705256 TGGAGTCGTCGTGTTAATGC 58.295 50.000 0.00 0.00 0.00 3.56
7497 23251 4.147321 ACTCAGTTGCTTTGATCCATGTT 58.853 39.130 0.00 0.00 0.00 2.71
7754 23572 5.241662 ACTGAAAGAAGCAATAGGAGACAC 58.758 41.667 0.00 0.00 37.43 3.67
7925 23911 1.671742 GGAGCTGTTCTTCGGGACA 59.328 57.895 0.00 0.00 0.00 4.02
7938 23924 0.874175 CGGGACAATATCGAAGCGCA 60.874 55.000 11.47 0.00 0.00 6.09
8036 24037 2.084610 TCGTCTTGCTCTTGGACATG 57.915 50.000 0.00 0.00 0.00 3.21
8066 24067 4.937015 TGATCATCGAAAGTGATGCTCAAA 59.063 37.500 4.76 0.00 44.20 2.69
8148 25753 6.381420 TGCTATGAGACTTAGAAGGTAAGCTT 59.619 38.462 3.48 3.48 0.00 3.74
8166 25772 3.319122 AGCTTCGGTTTTCAATCTTGCTT 59.681 39.130 0.00 0.00 0.00 3.91
8260 25866 8.307483 CGTAGAAGATGTATCTGGGTGAATTAT 58.693 37.037 0.00 0.00 37.19 1.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
116 117 5.485353 TGAACACAGAGAGACCCAAATAGAT 59.515 40.000 0.00 0.00 0.00 1.98
127 128 0.598562 GCGGACTGAACACAGAGAGA 59.401 55.000 0.00 0.00 35.80 3.10
159 160 0.394488 TGCGGTTGTTGGAAGGTTCA 60.394 50.000 0.00 0.00 0.00 3.18
162 163 0.681564 TGTTGCGGTTGTTGGAAGGT 60.682 50.000 0.00 0.00 0.00 3.50
170 171 1.946267 GGAACGATGTTGCGGTTGT 59.054 52.632 0.00 0.00 35.12 3.32
204 206 5.073554 CCCTATGGGCATATATAGGCAATCA 59.926 44.000 20.04 14.53 42.93 2.57
227 235 0.321298 TTAGAACACTCCAAGCGGCC 60.321 55.000 0.00 0.00 0.00 6.13
245 253 3.940209 ATCATGGTGCAATCGTTGTTT 57.060 38.095 0.00 0.00 0.00 2.83
311 324 1.666011 GAGGATATGAAGGCCGCGA 59.334 57.895 8.23 0.00 0.00 5.87
336 349 1.099295 TATCTGCGACCATCGTCCGT 61.099 55.000 0.00 0.00 42.81 4.69
409 425 7.611079 ACAAAAATATTGTCCATCCATTTTGGG 59.389 33.333 11.03 0.00 39.54 4.12
422 438 7.387397 TGGCCAGATTTTGACAAAAATATTGTC 59.613 33.333 16.85 13.02 44.27 3.18
536 1128 4.951715 TCTCCTTTGGATCATCAAATGTGG 59.048 41.667 0.00 0.00 36.24 4.17
580 1172 6.930722 AGTTTTGCATCCCTTGTGAAAAATAG 59.069 34.615 0.00 0.00 0.00 1.73
640 1235 6.897259 TTTGAGTATAAAAATCTCCGGTCG 57.103 37.500 0.00 0.00 0.00 4.79
643 1238 9.379791 ACTAGTTTTGAGTATAAAAATCTCCGG 57.620 33.333 0.00 0.00 31.92 5.14
712 1616 1.355916 GTGCTCCTACTCCTACGCG 59.644 63.158 3.53 3.53 0.00 6.01
741 1649 2.126031 GGTCTTCGTCTGCGGACC 60.126 66.667 19.98 5.24 40.37 4.46
758 1666 2.981909 CTGTGGCTGTGGGCTGTG 60.982 66.667 0.00 0.00 41.46 3.66
784 1692 3.024547 GGCTACACATACACAGAGGAGA 58.975 50.000 0.00 0.00 0.00 3.71
785 1693 3.027412 AGGCTACACATACACAGAGGAG 58.973 50.000 0.00 0.00 0.00 3.69
786 1694 2.760650 CAGGCTACACATACACAGAGGA 59.239 50.000 0.00 0.00 0.00 3.71
787 1695 2.497675 ACAGGCTACACATACACAGAGG 59.502 50.000 0.00 0.00 0.00 3.69
788 1696 3.876274 ACAGGCTACACATACACAGAG 57.124 47.619 0.00 0.00 0.00 3.35
808 1716 1.086067 CGAGACCGTGCGTAGAGGTA 61.086 60.000 0.70 0.00 38.57 3.08
829 1933 4.184629 ACAGTCGAGAGTTAATTGATGGC 58.815 43.478 0.00 0.00 0.00 4.40
838 1942 5.981315 CACTGGTTTTTACAGTCGAGAGTTA 59.019 40.000 0.00 0.00 45.50 2.24
840 1944 4.098960 TCACTGGTTTTTACAGTCGAGAGT 59.901 41.667 0.00 0.00 45.50 3.24
841 1945 4.617959 TCACTGGTTTTTACAGTCGAGAG 58.382 43.478 0.00 0.00 45.50 3.20
842 1946 4.659111 TCACTGGTTTTTACAGTCGAGA 57.341 40.909 0.00 0.00 45.50 4.04
882 5518 2.396157 CCCGCCTTTACTGGTTCGC 61.396 63.158 0.00 0.00 0.00 4.70
908 5544 3.992641 GGGGTTTGGGAGTGGGGG 61.993 72.222 0.00 0.00 0.00 5.40
945 5596 4.506255 GCGGGGAGTGGGGAATGG 62.506 72.222 0.00 0.00 0.00 3.16
947 5598 3.728373 GTGCGGGGAGTGGGGAAT 61.728 66.667 0.00 0.00 0.00 3.01
1009 5704 2.391389 GCTTCTTCTTCGGCACCGG 61.391 63.158 9.58 0.00 40.25 5.28
1063 5758 1.205893 GTGCTTCTCGAAGATCCTGGT 59.794 52.381 10.68 0.00 40.79 4.00
1250 5952 3.414700 GCTCGTCCCAACAGCGTG 61.415 66.667 0.00 0.00 0.00 5.34
1260 5962 1.141234 CCGAAACCTAGGCTCGTCC 59.859 63.158 24.63 4.26 0.00 4.79
1307 6009 3.058160 AATGTGACAGCAGCGCCC 61.058 61.111 2.29 0.00 0.00 6.13
1316 6018 1.202794 TCTTGGAGCAGCAATGTGACA 60.203 47.619 0.00 0.00 0.00 3.58
1359 6061 2.836672 ATCCCAGAGCTGAGGCACCT 62.837 60.000 0.00 0.00 41.70 4.00
1386 6102 0.664166 CGCTGCATCCACCAAACAAC 60.664 55.000 0.00 0.00 0.00 3.32
1401 6117 1.450312 CCCAAGGACTAAGCCGCTG 60.450 63.158 0.00 0.00 0.00 5.18
1403 6119 2.124695 CCCCAAGGACTAAGCCGC 60.125 66.667 0.00 0.00 33.47 6.53
1441 8003 1.737236 CGAAAATTCATGCTCGGACCA 59.263 47.619 0.00 0.00 0.00 4.02
1491 8053 4.930696 AGTAAACATAAGGGGAAGGGTTG 58.069 43.478 0.00 0.00 0.00 3.77
1494 8056 4.855298 TGAGTAAACATAAGGGGAAGGG 57.145 45.455 0.00 0.00 0.00 3.95
1495 8057 6.431234 GCATATGAGTAAACATAAGGGGAAGG 59.569 42.308 6.97 0.00 36.53 3.46
1496 8058 7.173907 CAGCATATGAGTAAACATAAGGGGAAG 59.826 40.741 6.97 0.00 36.53 3.46
1517 8096 6.949352 AATGACCTAAATCGATTTCAGCAT 57.051 33.333 25.89 19.96 0.00 3.79
1548 8168 4.314961 TGCAAATACACCTCGCCATATAG 58.685 43.478 0.00 0.00 0.00 1.31
1589 8213 1.106285 GCAGGCAAATCCCAAGTAGG 58.894 55.000 0.00 0.00 34.51 3.18
1666 8330 2.811431 CCGCCTCTAAATTCAACACACA 59.189 45.455 0.00 0.00 0.00 3.72
1733 8399 2.294233 GCAACTCAATGTGGAAAGCAGA 59.706 45.455 0.00 0.00 0.00 4.26
1734 8400 2.034939 TGCAACTCAATGTGGAAAGCAG 59.965 45.455 0.00 0.00 0.00 4.24
1742 8408 5.630264 TCAAAAATCGATGCAACTCAATGTG 59.370 36.000 0.00 0.00 0.00 3.21
1794 11646 4.236935 CCGAATAAGCAACAGCAATGTTT 58.763 39.130 0.00 0.00 0.00 2.83
1811 11664 6.151144 CCCTGACAAAAAGAATAGAACCGAAT 59.849 38.462 0.00 0.00 0.00 3.34
1824 11681 2.887152 CTCCAACTCCCCTGACAAAAAG 59.113 50.000 0.00 0.00 0.00 2.27
1943 11800 3.055819 AGAGGACACGTAAGCAATCATGT 60.056 43.478 0.00 0.00 45.62 3.21
1954 11811 2.803956 ACTGATTCCAGAGGACACGTA 58.196 47.619 0.00 0.00 43.02 3.57
1972 11829 6.552008 TCCTGATGGTGAAAAAGGAATAACT 58.448 36.000 0.00 0.00 34.11 2.24
2076 11955 6.110411 TCTTCCCTGTTAAAAGGACAGTAG 57.890 41.667 13.80 0.50 42.26 2.57
2303 12198 3.610040 ACAACTGTCAATATCCGCTGA 57.390 42.857 0.00 0.00 0.00 4.26
2446 14279 0.109597 GAAATCAGCAACCGTGGCAG 60.110 55.000 0.00 0.00 0.00 4.85
2594 14427 8.826765 AGGATTACTCTTTTTCTCAACCAGATA 58.173 33.333 0.00 0.00 0.00 1.98
2919 14756 5.544176 ACCCTCTAATGAGAGTCAAGTTCAA 59.456 40.000 6.34 0.00 46.93 2.69
3225 15276 9.539825 CTAGCAAACTATCAGATGTTGATACTT 57.460 33.333 0.00 0.00 44.72 2.24
3328 15381 0.744874 TACCACCGCAGAGCTGTATC 59.255 55.000 0.00 0.00 0.00 2.24
3366 15420 3.220110 ACATGCCTGCTTCTATTCCATG 58.780 45.455 0.00 0.00 35.84 3.66
3503 15557 3.986996 TGAGCAAGATCTGGTTCATGA 57.013 42.857 12.31 0.00 35.35 3.07
3788 15846 0.320683 CACAACTGCAGGATGACCGA 60.321 55.000 23.60 0.00 39.69 4.69
3828 15886 1.835483 GACTGCTGCCGCCATATTCG 61.835 60.000 0.00 0.00 34.43 3.34
4651 17317 7.572502 AACGAATCAAAGCTTCATCAAAATC 57.427 32.000 0.00 0.00 0.00 2.17
4662 17328 4.495422 ACACGAGATAACGAATCAAAGCT 58.505 39.130 0.00 0.00 37.03 3.74
4663 17329 4.842139 ACACGAGATAACGAATCAAAGC 57.158 40.909 0.00 0.00 37.03 3.51
4815 17482 5.996513 ACTGAATTCTGATGCATAGATGGAC 59.003 40.000 18.13 0.00 0.00 4.02
5058 17765 8.826710 TGCATATAATGACTTTTAGCAGTGTAC 58.173 33.333 0.00 0.00 0.00 2.90
5255 17962 4.152223 GCACCATTTTCTTTGGCACATTAC 59.848 41.667 0.00 0.00 39.30 1.89
5316 18027 0.694771 AGCATCTCCAACAGGCAAGA 59.305 50.000 0.00 0.00 0.00 3.02
5411 18122 9.476202 GTTGTCTTTAATTGAGCCAAGTAAATT 57.524 29.630 15.78 0.00 41.00 1.82
5580 18294 4.435436 CGGGAGCTACGTGCAGCA 62.435 66.667 12.62 0.00 44.35 4.41
5602 18316 3.152400 CCTTCCCCGGACCCTACG 61.152 72.222 0.73 0.00 0.00 3.51
5604 18318 2.827886 GAACCCTTCCCCGGACCCTA 62.828 65.000 0.73 0.00 0.00 3.53
5618 18332 3.053896 CCCAAAGCGGTCGAACCC 61.054 66.667 0.00 0.00 33.75 4.11
5635 18349 2.260481 GAAAGGCTGCGTACTACAGAC 58.740 52.381 14.88 12.49 43.98 3.51
5639 18353 2.311124 ATGGAAAGGCTGCGTACTAC 57.689 50.000 0.00 0.00 0.00 2.73
5657 18371 3.960571 ACAGCCTCTTGCAGAAATGTAT 58.039 40.909 0.00 0.00 44.83 2.29
5660 18374 3.572584 GAAACAGCCTCTTGCAGAAATG 58.427 45.455 0.00 0.00 44.83 2.32
5677 18391 0.669625 CGGGTTCGAGTCCTGGAAAC 60.670 60.000 0.00 0.00 39.00 2.78
5742 18456 2.986019 TCAGTGAGAAATTGGAAGGGGA 59.014 45.455 0.00 0.00 0.00 4.81
5786 18500 7.744715 GTGACAAGAAACAAATGGTAATCTACG 59.255 37.037 0.00 0.00 0.00 3.51
5806 18520 3.340928 CTGCTGATCAGGATTGTGACAA 58.659 45.455 23.89 0.00 39.15 3.18
5877 18591 4.202441 CCAAACAGGCTAATGACTATGCT 58.798 43.478 0.00 0.00 0.00 3.79
5955 18673 1.080435 CGATTCGCTGCTGCTCTTCA 61.080 55.000 14.03 0.00 36.97 3.02
6092 18810 4.961438 AAAACATGGCTGGTCAAAAGAT 57.039 36.364 0.00 0.00 0.00 2.40
6129 19397 3.159213 AGCAACATCAAATCACAGGGA 57.841 42.857 0.00 0.00 0.00 4.20
6221 19548 3.947834 CCTTCATCACCTCATACCCAAAC 59.052 47.826 0.00 0.00 0.00 2.93
6234 19561 5.753438 TGCTAATAACATCGTCCTTCATCAC 59.247 40.000 0.00 0.00 0.00 3.06
6500 19834 3.706086 GCCATTCAGGGGTTAACATGATT 59.294 43.478 8.10 2.74 38.09 2.57
7195 20679 2.740981 CGCTCTTGTTCTTCAGCATCTT 59.259 45.455 0.00 0.00 0.00 2.40
7286 22503 1.534163 GTGACCAAAAGACCGGCTAAC 59.466 52.381 0.00 0.00 0.00 2.34
7422 22802 2.028045 CACACGAAGCGCTAATGTACTG 59.972 50.000 12.05 4.86 0.00 2.74
7497 23251 4.627058 TCTGCTCAACATGTCGTTCTTAA 58.373 39.130 0.00 0.00 34.86 1.85
7754 23572 0.955919 GGCCCAACTGAAGTTCTCCG 60.956 60.000 4.17 0.00 35.83 4.63
7839 23669 2.683768 AGTGATCTCAGGGGTATCCAC 58.316 52.381 0.00 0.00 38.24 4.02
7911 23897 4.041740 TCGATATTGTCCCGAAGAACAG 57.958 45.455 0.00 0.00 0.00 3.16
7925 23911 2.205074 CAGAACCTGCGCTTCGATATT 58.795 47.619 9.73 0.00 0.00 1.28
7938 23924 2.821969 CAAATAGCTTGTGCCAGAACCT 59.178 45.455 0.00 0.00 40.80 3.50
8036 24037 4.245660 TCACTTTCGATGATCACCTTGAC 58.754 43.478 0.00 0.00 0.00 3.18
8066 24067 5.058149 TCATTTAGCATTCGCACAACATT 57.942 34.783 0.00 0.00 42.27 2.71
8133 25738 5.699458 TGAAAACCGAAGCTTACCTTCTAAG 59.301 40.000 0.00 0.00 46.29 2.18
8138 25743 5.070685 AGATTGAAAACCGAAGCTTACCTT 58.929 37.500 0.00 0.00 36.19 3.50
8148 25753 5.221224 ACAATGAAGCAAGATTGAAAACCGA 60.221 36.000 8.17 0.00 34.31 4.69
8166 25772 5.698089 GCTTCTCGATTGATATGGACAATGA 59.302 40.000 0.00 0.00 37.96 2.57


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

AutoCloner maintained by Alex Coulton.