Multiple sequence alignment - TraesCS7D01G042400

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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 TraesCS7D01G042400 chr7D 100.000 2350 0 0 1480 3829 21699368 21697019 0.000000e+00 4340
1 TraesCS7D01G042400 chr7D 100.000 1163 0 0 4162 5324 21696686 21695524 0.000000e+00 2148
2 TraesCS7D01G042400 chr7D 100.000 1121 0 0 1 1121 21700847 21699727 0.000000e+00 2071
3 TraesCS7D01G042400 chr7D 100.000 610 0 0 5652 6261 21695196 21694587 0.000000e+00 1127
4 TraesCS7D01G042400 chr7D 97.553 613 11 3 5652 6261 108311161 108310550 0.000000e+00 1046
5 TraesCS7D01G042400 chr7D 88.924 641 67 4 1 639 21710974 21710336 0.000000e+00 787
6 TraesCS7D01G042400 chr7D 88.185 584 37 10 2187 2764 554906214 554905657 0.000000e+00 667
7 TraesCS7D01G042400 chr7D 90.968 465 32 6 1729 2187 554906799 554906339 8.920000e-173 617
8 TraesCS7D01G042400 chr7D 84.064 502 48 18 634 1121 108314924 108314441 7.400000e-124 455
9 TraesCS7D01G042400 chr7D 86.957 276 25 8 3419 3687 108312842 108312571 3.670000e-77 300
10 TraesCS7D01G042400 chr7D 84.337 249 27 9 1489 1735 108314247 108314009 3.770000e-57 233
11 TraesCS7D01G042400 chrUn 98.679 1287 11 4 1488 2769 92824051 92825336 0.000000e+00 2278
12 TraesCS7D01G042400 chrUn 98.541 1165 11 5 4162 5324 92826740 92827900 0.000000e+00 2052
13 TraesCS7D01G042400 chrUn 98.583 635 8 1 3152 3786 92825838 92826471 0.000000e+00 1122
14 TraesCS7D01G042400 chrUn 98.369 613 5 5 5652 6261 92827966 92828576 0.000000e+00 1072
15 TraesCS7D01G042400 chrUn 96.320 462 2 2 635 1081 92823300 92823761 0.000000e+00 745
16 TraesCS7D01G042400 chrUn 97.403 308 8 0 2763 3070 92825531 92825838 5.560000e-145 525
17 TraesCS7D01G042400 chrUn 83.293 413 34 12 742 1121 409322873 409323283 1.290000e-91 348
18 TraesCS7D01G042400 chr5D 95.777 1113 26 14 4219 5324 30646422 30645324 0.000000e+00 1775
19 TraesCS7D01G042400 chr5D 98.046 614 6 5 5652 6261 30645257 30644646 0.000000e+00 1062
20 TraesCS7D01G042400 chr5D 97.883 614 8 4 5652 6261 420322810 420322198 0.000000e+00 1057
21 TraesCS7D01G042400 chr5D 84.538 498 48 17 636 1121 420326565 420326085 3.420000e-127 466
22 TraesCS7D01G042400 chr5D 83.534 498 52 18 636 1119 30649171 30648690 7.450000e-119 438
23 TraesCS7D01G042400 chr5D 88.043 276 22 8 3419 3687 30646961 30646690 3.640000e-82 316
24 TraesCS7D01G042400 chr5D 87.004 277 24 9 3419 3687 420324493 420324221 1.020000e-77 302
25 TraesCS7D01G042400 chr5D 84.337 249 26 10 1489 1735 420325893 420325656 1.360000e-56 231
26 TraesCS7D01G042400 chr3A 92.502 1107 65 15 4224 5324 735482431 735481337 0.000000e+00 1568
27 TraesCS7D01G042400 chr3A 92.238 1108 67 16 4224 5324 735449066 735450161 0.000000e+00 1552
28 TraesCS7D01G042400 chr3A 85.333 525 49 17 1677 2187 735483779 735483269 9.300000e-143 518
29 TraesCS7D01G042400 chr3A 84.981 526 50 17 1674 2184 735447712 735448223 2.010000e-139 507
30 TraesCS7D01G042400 chr3A 88.442 199 15 7 5652 5846 735481269 735481075 3.770000e-57 233
31 TraesCS7D01G042400 chr3A 86.058 208 24 5 882 1085 735447196 735447402 1.060000e-52 219
32 TraesCS7D01G042400 chr3A 85.577 208 25 5 882 1085 735484299 735484093 4.920000e-51 213
33 TraesCS7D01G042400 chr3A 83.562 146 13 9 1588 1731 736964429 736964293 6.590000e-25 126
34 TraesCS7D01G042400 chr4B 92.058 1108 73 13 4219 5322 638517432 638516336 0.000000e+00 1544
35 TraesCS7D01G042400 chr4B 82.919 322 29 15 5652 5956 638516270 638515958 3.720000e-67 267
36 TraesCS7D01G042400 chr4B 85.020 247 27 7 1489 1735 638519363 638519127 6.270000e-60 243
37 TraesCS7D01G042400 chr7B 91.129 1116 81 15 4211 5322 712547156 712548257 0.000000e+00 1496
38 TraesCS7D01G042400 chr7B 90.868 1117 83 16 4211 5322 712577430 712578532 0.000000e+00 1480
39 TraesCS7D01G042400 chr7B 85.837 466 42 12 1729 2187 601230082 601230530 2.040000e-129 473
40 TraesCS7D01G042400 chr7B 83.178 321 31 13 5652 5956 712548324 712548637 8.000000e-69 272
41 TraesCS7D01G042400 chr7B 84.836 244 27 7 1489 1732 712575482 712575715 2.920000e-58 237
42 TraesCS7D01G042400 chr3B 91.238 1107 70 14 4221 5322 18021609 18020525 0.000000e+00 1482
43 TraesCS7D01G042400 chr3B 82.240 366 30 12 745 1077 18023911 18023548 3.690000e-72 283
44 TraesCS7D01G042400 chr3B 87.719 114 13 1 630 743 597841792 597841904 1.420000e-26 132
45 TraesCS7D01G042400 chr6A 92.238 992 59 13 4343 5322 615427690 615426705 0.000000e+00 1389
46 TraesCS7D01G042400 chr6A 85.288 503 34 22 636 1119 615429640 615429159 3.390000e-132 483
47 TraesCS7D01G042400 chr6A 85.258 407 35 14 2290 2677 615428862 615428462 4.550000e-106 396
48 TraesCS7D01G042400 chr6A 86.761 355 29 15 2974 3315 615428460 615428111 4.580000e-101 379
49 TraesCS7D01G042400 chr6A 85.470 351 29 15 3350 3687 615428127 615427786 4.650000e-91 346
50 TraesCS7D01G042400 chr1D 97.716 613 10 3 5652 6261 66211182 66210571 0.000000e+00 1051
51 TraesCS7D01G042400 chr1D 84.369 499 48 18 635 1121 66214835 66214355 4.420000e-126 462
52 TraesCS7D01G042400 chr1D 87.681 276 23 8 3419 3687 66212861 66212590 1.690000e-80 311
53 TraesCS7D01G042400 chr2D 97.553 613 11 3 5652 6261 343153971 343153360 0.000000e+00 1046
54 TraesCS7D01G042400 chr2D 84.800 500 46 18 634 1121 343158012 343157531 5.680000e-130 475
55 TraesCS7D01G042400 chr2D 84.337 249 27 9 1489 1735 343157051 343156813 3.770000e-57 233
56 TraesCS7D01G042400 chr2A 86.183 731 69 23 1481 2187 52230381 52229659 0.000000e+00 761
57 TraesCS7D01G042400 chr2A 86.183 731 67 23 1480 2184 52231860 52232582 0.000000e+00 760
58 TraesCS7D01G042400 chr2A 85.675 733 72 24 1480 2187 52206308 52205584 0.000000e+00 741
59 TraesCS7D01G042400 chr2A 89.127 561 40 18 2185 2728 52232671 52233227 0.000000e+00 678
60 TraesCS7D01G042400 chr2A 88.183 567 46 18 2185 2734 52229573 52229011 0.000000e+00 656
61 TraesCS7D01G042400 chr2A 88.110 328 25 11 3369 3687 52204938 52204616 1.650000e-100 377
62 TraesCS7D01G042400 chr2A 88.110 328 25 12 3369 3687 52229012 52228690 1.650000e-100 377
63 TraesCS7D01G042400 chr2A 87.500 328 26 13 3369 3687 52233232 52233553 1.280000e-96 364
64 TraesCS7D01G042400 chr2A 80.053 376 33 25 748 1109 745551799 745552146 2.260000e-59 241
65 TraesCS7D01G042400 chr2A 93.151 146 9 1 3685 3829 52233705 52233850 4.920000e-51 213
66 TraesCS7D01G042400 chr2A 92.466 146 10 1 3685 3829 52228537 52228392 2.290000e-49 207
67 TraesCS7D01G042400 chr7A 88.170 634 68 6 1 630 21848152 21847522 0.000000e+00 749
68 TraesCS7D01G042400 chr7A 87.869 643 70 7 1 639 21866807 21866169 0.000000e+00 749
69 TraesCS7D01G042400 chr7A 87.207 641 78 4 1 639 21860408 21859770 0.000000e+00 726
70 TraesCS7D01G042400 chr7A 87.207 641 77 5 1 639 22165375 22164738 0.000000e+00 725
71 TraesCS7D01G042400 chr7A 85.959 641 60 11 1 639 22100868 22100256 0.000000e+00 658
72 TraesCS7D01G042400 chr7A 85.179 641 65 12 1 639 22153520 22152908 1.150000e-176 630
73 TraesCS7D01G042400 chr7A 85.616 292 22 12 1729 2020 641012406 641012677 7.940000e-74 289
74 TraesCS7D01G042400 chr7A 86.111 252 32 2 1 249 21894543 21894292 1.030000e-67 268
75 TraesCS7D01G042400 chr7A 86.726 226 30 0 62 287 22173344 22173119 1.040000e-62 252
76 TraesCS7D01G042400 chr7A 93.182 88 6 0 2192 2279 107342334 107342247 5.090000e-26 130
77 TraesCS7D01G042400 chr4A 88.211 475 53 3 167 639 712335421 712334948 1.180000e-156 564
78 TraesCS7D01G042400 chr4A 87.269 487 53 5 161 639 712267389 712267874 1.190000e-151 547
79 TraesCS7D01G042400 chr1B 83.415 410 33 12 745 1121 621607317 621606910 1.290000e-91 348
80 TraesCS7D01G042400 chr5B 88.991 109 11 1 635 743 700316360 700316253 3.940000e-27 134
81 TraesCS7D01G042400 chr5B 93.182 88 6 0 2192 2279 459643199 459643112 5.090000e-26 130
82 TraesCS7D01G042400 chr5A 93.182 88 6 0 2192 2279 415813930 415813843 5.090000e-26 130
83 TraesCS7D01G042400 chr1A 93.182 88 6 0 2192 2279 585605314 585605227 5.090000e-26 130
84 TraesCS7D01G042400 chr6B 91.398 93 8 0 2187 2279 50525205 50525297 1.830000e-25 128


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 TraesCS7D01G042400 chr7D 21694587 21700847 6260 True 2421.500000 4340 100.000000 1 6261 4 chr7D.!!$R2 6260
1 TraesCS7D01G042400 chr7D 21710336 21710974 638 True 787.000000 787 88.924000 1 639 1 chr7D.!!$R1 638
2 TraesCS7D01G042400 chr7D 554905657 554906799 1142 True 642.000000 667 89.576500 1729 2764 2 chr7D.!!$R4 1035
3 TraesCS7D01G042400 chr7D 108310550 108314924 4374 True 508.500000 1046 88.227750 634 6261 4 chr7D.!!$R3 5627
4 TraesCS7D01G042400 chrUn 92823300 92828576 5276 False 1299.000000 2278 97.982500 635 6261 6 chrUn.!!$F2 5626
5 TraesCS7D01G042400 chr5D 30644646 30649171 4525 True 897.750000 1775 91.350000 636 6261 4 chr5D.!!$R1 5625
6 TraesCS7D01G042400 chr5D 420322198 420326565 4367 True 514.000000 1057 88.440500 636 6261 4 chr5D.!!$R2 5625
7 TraesCS7D01G042400 chr3A 735447196 735450161 2965 False 759.333333 1552 87.759000 882 5324 3 chr3A.!!$F1 4442
8 TraesCS7D01G042400 chr3A 735481075 735484299 3224 True 633.000000 1568 87.963500 882 5846 4 chr3A.!!$R2 4964
9 TraesCS7D01G042400 chr4B 638515958 638519363 3405 True 684.666667 1544 86.665667 1489 5956 3 chr4B.!!$R1 4467
10 TraesCS7D01G042400 chr7B 712547156 712548637 1481 False 884.000000 1496 87.153500 4211 5956 2 chr7B.!!$F2 1745
11 TraesCS7D01G042400 chr7B 712575482 712578532 3050 False 858.500000 1480 87.852000 1489 5322 2 chr7B.!!$F3 3833
12 TraesCS7D01G042400 chr3B 18020525 18023911 3386 True 882.500000 1482 86.739000 745 5322 2 chr3B.!!$R1 4577
13 TraesCS7D01G042400 chr6A 615426705 615429640 2935 True 598.600000 1389 87.003000 636 5322 5 chr6A.!!$R1 4686
14 TraesCS7D01G042400 chr1D 66210571 66214835 4264 True 608.000000 1051 89.922000 635 6261 3 chr1D.!!$R1 5626
15 TraesCS7D01G042400 chr2D 343153360 343158012 4652 True 584.666667 1046 88.896667 634 6261 3 chr2D.!!$R1 5627
16 TraesCS7D01G042400 chr2A 52204616 52206308 1692 True 559.000000 741 86.892500 1480 3687 2 chr2A.!!$R1 2207
17 TraesCS7D01G042400 chr2A 52231860 52233850 1990 False 503.750000 760 88.990250 1480 3829 4 chr2A.!!$F2 2349
18 TraesCS7D01G042400 chr2A 52228392 52230381 1989 True 500.250000 761 88.735500 1481 3829 4 chr2A.!!$R2 2348
19 TraesCS7D01G042400 chr7A 21847522 21848152 630 True 749.000000 749 88.170000 1 630 1 chr7A.!!$R1 629
20 TraesCS7D01G042400 chr7A 21866169 21866807 638 True 749.000000 749 87.869000 1 639 1 chr7A.!!$R3 638
21 TraesCS7D01G042400 chr7A 21859770 21860408 638 True 726.000000 726 87.207000 1 639 1 chr7A.!!$R2 638
22 TraesCS7D01G042400 chr7A 22164738 22165375 637 True 725.000000 725 87.207000 1 639 1 chr7A.!!$R7 638
23 TraesCS7D01G042400 chr7A 22100256 22100868 612 True 658.000000 658 85.959000 1 639 1 chr7A.!!$R5 638
24 TraesCS7D01G042400 chr7A 22152908 22153520 612 True 630.000000 630 85.179000 1 639 1 chr7A.!!$R6 638

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
86 87 0.108804 CACGTCATACTTGCCGAGGT 60.109 55.000 0.00 0.0 0.00 3.85 F
534 537 0.173255 CGGGGAATGTTTGCCATGTC 59.827 55.000 0.15 0.0 43.95 3.06 F
536 539 0.458370 GGGAATGTTTGCCATGTCGC 60.458 55.000 0.00 0.0 41.41 5.19 F
548 551 0.462937 CATGTCGCGGGGTTTGGATA 60.463 55.000 6.13 0.0 0.00 2.59 F
549 552 0.463116 ATGTCGCGGGGTTTGGATAC 60.463 55.000 6.13 0.0 0.00 2.24 F
734 741 0.682852 ATTCGTGTTTCGTCCTGGGA 59.317 50.000 0.00 0.0 40.80 4.37 F
1030 1096 2.030562 CCGGCGGAGTGAGTGTTT 59.969 61.111 24.41 0.0 0.00 2.83 F
1899 2255 2.297701 GCCTTCCACTCTGTTTGTTGA 58.702 47.619 0.00 0.0 0.00 3.18 F
4209 6427 0.388778 TGGTGCAGCATTTTCGCATG 60.389 50.000 15.99 0.0 38.07 4.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1899 2255 4.081406 TCAGAACAAGCAATACCAGCAAT 58.919 39.130 0.00 0.0 0.00 3.56 R
2951 4250 6.544564 GGACCGTTAGAATCCATTATCCAAAA 59.455 38.462 0.00 0.0 32.35 2.44 R
2972 4271 1.913419 TCTATTGGGGACACAAGGACC 59.087 52.381 0.00 0.0 42.67 4.46 R
3076 4413 4.509600 GCATGATAGCTGAGTAGAACAACC 59.490 45.833 0.00 0.0 0.00 3.77 R
3093 4430 4.379813 CGCTAGTGTTTTCAAAGGCATGAT 60.380 41.667 0.00 0.0 0.00 2.45 R
3142 4480 2.497273 CCCAAAGCACAAATTCCCCTAG 59.503 50.000 0.00 0.0 0.00 3.02 R
3268 4643 3.439129 GGCCACTCCACTACAACAATAAC 59.561 47.826 0.00 0.0 34.01 1.89 R
4444 6675 1.728971 CCTTCACAATGTCGACAGAGC 59.271 52.381 24.41 0.0 0.00 4.09 R
5966 8286 5.604650 CCCTCTCCCTAAATTGTGAGTAGAT 59.395 44.000 0.00 0.0 0.00 1.98 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
24 25 3.304659 CGCTACACCTTTGATTTGCTTGT 60.305 43.478 0.00 0.00 0.00 3.16
32 33 2.697431 TGATTTGCTTGTTACGTGGC 57.303 45.000 0.00 0.00 0.00 5.01
81 82 1.328680 CAGATGCACGTCATACTTGCC 59.671 52.381 6.13 0.00 41.97 4.52
86 87 0.108804 CACGTCATACTTGCCGAGGT 60.109 55.000 0.00 0.00 0.00 3.85
165 166 4.758251 CGTCATGCGTGGGAGGCA 62.758 66.667 5.98 0.00 43.53 4.75
198 199 2.361104 TTTGAGCGGGTGGATGCC 60.361 61.111 0.00 0.00 0.00 4.40
201 202 4.554036 GAGCGGGTGGATGCCCTC 62.554 72.222 0.00 0.00 46.47 4.30
256 257 3.716381 GGTCCACCCACCGTCATA 58.284 61.111 0.00 0.00 0.00 2.15
279 280 4.463879 CCTCCTGGTCCGCAGCAG 62.464 72.222 0.00 0.00 37.63 4.24
287 288 1.219124 GTCCGCAGCAGAATCCTCA 59.781 57.895 0.00 0.00 0.00 3.86
291 292 1.220169 CGCAGCAGAATCCTCATCGG 61.220 60.000 0.00 0.00 0.00 4.18
321 322 0.805322 GACTCCTGCGACATGCTCTG 60.805 60.000 0.00 0.00 46.63 3.35
351 352 2.588877 CGCCTTGCCACTATCCGG 60.589 66.667 0.00 0.00 0.00 5.14
377 378 3.181497 CCACAAGGTGAGATTAATTGCGG 60.181 47.826 0.00 0.00 35.23 5.69
418 419 1.482593 CCTTTGGTCTCGTCTGGCTAT 59.517 52.381 0.00 0.00 0.00 2.97
426 427 3.975670 GTCTCGTCTGGCTATACGAATTG 59.024 47.826 11.60 1.49 46.43 2.32
468 471 4.740822 GCCGCTGGTTGGGATGGT 62.741 66.667 0.00 0.00 0.00 3.55
469 472 2.751436 CCGCTGGTTGGGATGGTG 60.751 66.667 0.00 0.00 0.00 4.17
472 475 2.362889 CTGGTTGGGATGGTGGCC 60.363 66.667 0.00 0.00 0.00 5.36
473 476 4.358841 TGGTTGGGATGGTGGCCG 62.359 66.667 0.00 0.00 0.00 6.13
488 491 1.301716 GCCGGAGAAGAAGTGTGCA 60.302 57.895 5.05 0.00 0.00 4.57
523 526 3.261951 CTGCGCGTACGGGGAATG 61.262 66.667 30.12 15.31 40.57 2.67
524 527 4.071875 TGCGCGTACGGGGAATGT 62.072 61.111 30.12 0.00 40.57 2.71
525 528 2.816520 GCGCGTACGGGGAATGTT 60.817 61.111 30.12 0.00 40.57 2.71
526 529 2.392974 GCGCGTACGGGGAATGTTT 61.393 57.895 30.12 0.00 40.57 2.83
527 530 1.422269 CGCGTACGGGGAATGTTTG 59.578 57.895 23.33 0.00 34.97 2.93
528 531 1.135939 GCGTACGGGGAATGTTTGC 59.864 57.895 18.39 0.00 0.00 3.68
529 532 1.798087 CGTACGGGGAATGTTTGCC 59.202 57.895 7.57 0.00 40.98 4.52
530 533 0.956410 CGTACGGGGAATGTTTGCCA 60.956 55.000 7.57 0.00 43.95 4.92
531 534 1.470051 GTACGGGGAATGTTTGCCAT 58.530 50.000 0.15 0.00 43.95 4.40
532 535 1.134175 GTACGGGGAATGTTTGCCATG 59.866 52.381 0.15 0.00 43.95 3.66
533 536 0.541764 ACGGGGAATGTTTGCCATGT 60.542 50.000 0.15 0.00 43.95 3.21
534 537 0.173255 CGGGGAATGTTTGCCATGTC 59.827 55.000 0.15 0.00 43.95 3.06
535 538 0.173255 GGGGAATGTTTGCCATGTCG 59.827 55.000 0.15 0.00 43.95 4.35
536 539 0.458370 GGGAATGTTTGCCATGTCGC 60.458 55.000 0.00 0.00 41.41 5.19
537 540 0.798009 GGAATGTTTGCCATGTCGCG 60.798 55.000 0.00 0.00 32.82 5.87
538 541 0.798009 GAATGTTTGCCATGTCGCGG 60.798 55.000 6.13 0.00 32.82 6.46
539 542 2.211619 AATGTTTGCCATGTCGCGGG 62.212 55.000 6.13 0.00 32.82 6.13
540 543 4.114997 GTTTGCCATGTCGCGGGG 62.115 66.667 6.13 4.32 0.00 5.73
541 544 4.652131 TTTGCCATGTCGCGGGGT 62.652 61.111 6.13 0.00 0.00 4.95
542 545 4.652131 TTGCCATGTCGCGGGGTT 62.652 61.111 6.13 0.00 0.00 4.11
543 546 4.652131 TGCCATGTCGCGGGGTTT 62.652 61.111 6.13 0.00 0.00 3.27
544 547 4.114997 GCCATGTCGCGGGGTTTG 62.115 66.667 6.13 0.00 0.00 2.93
545 548 3.439540 CCATGTCGCGGGGTTTGG 61.440 66.667 6.13 3.08 0.00 3.28
546 549 2.359354 CATGTCGCGGGGTTTGGA 60.359 61.111 6.13 0.00 0.00 3.53
547 550 1.748879 CATGTCGCGGGGTTTGGAT 60.749 57.895 6.13 0.00 0.00 3.41
548 551 0.462937 CATGTCGCGGGGTTTGGATA 60.463 55.000 6.13 0.00 0.00 2.59
549 552 0.463116 ATGTCGCGGGGTTTGGATAC 60.463 55.000 6.13 0.00 0.00 2.24
564 567 2.007608 GGATACAAGTTGTTCCGAGGC 58.992 52.381 14.90 0.00 0.00 4.70
565 568 1.659098 GATACAAGTTGTTCCGAGGCG 59.341 52.381 14.90 0.00 0.00 5.52
566 569 0.947180 TACAAGTTGTTCCGAGGCGC 60.947 55.000 14.90 0.00 0.00 6.53
567 570 2.110213 AAGTTGTTCCGAGGCGCA 59.890 55.556 10.83 0.00 0.00 6.09
568 571 2.251642 AAGTTGTTCCGAGGCGCAC 61.252 57.895 10.83 0.96 0.00 5.34
569 572 2.660258 AAGTTGTTCCGAGGCGCACT 62.660 55.000 10.83 3.39 0.00 4.40
570 573 2.664851 TTGTTCCGAGGCGCACTG 60.665 61.111 10.83 0.00 0.00 3.66
571 574 3.158537 TTGTTCCGAGGCGCACTGA 62.159 57.895 10.83 1.41 0.00 3.41
572 575 2.125512 GTTCCGAGGCGCACTGAT 60.126 61.111 10.83 0.00 0.00 2.90
573 576 1.141019 GTTCCGAGGCGCACTGATA 59.859 57.895 10.83 0.00 0.00 2.15
574 577 1.141019 TTCCGAGGCGCACTGATAC 59.859 57.895 10.83 0.00 0.00 2.24
575 578 1.600511 TTCCGAGGCGCACTGATACA 61.601 55.000 10.83 0.00 0.00 2.29
576 579 1.153647 CCGAGGCGCACTGATACAA 60.154 57.895 10.83 0.00 0.00 2.41
577 580 1.421410 CCGAGGCGCACTGATACAAC 61.421 60.000 10.83 0.00 0.00 3.32
578 581 0.735978 CGAGGCGCACTGATACAACA 60.736 55.000 10.83 0.00 0.00 3.33
579 582 1.438651 GAGGCGCACTGATACAACAA 58.561 50.000 10.83 0.00 0.00 2.83
580 583 1.394917 GAGGCGCACTGATACAACAAG 59.605 52.381 10.83 0.00 0.00 3.16
581 584 1.156736 GGCGCACTGATACAACAAGT 58.843 50.000 10.83 0.00 0.00 3.16
582 585 2.028476 AGGCGCACTGATACAACAAGTA 60.028 45.455 10.83 0.00 37.06 2.24
583 586 2.093783 GGCGCACTGATACAACAAGTAC 59.906 50.000 10.83 0.00 35.05 2.73
584 587 2.993899 GCGCACTGATACAACAAGTACT 59.006 45.455 0.30 0.00 35.05 2.73
585 588 3.060895 GCGCACTGATACAACAAGTACTC 59.939 47.826 0.30 0.00 35.05 2.59
586 589 3.612860 CGCACTGATACAACAAGTACTCC 59.387 47.826 0.00 0.00 35.05 3.85
587 590 3.933332 GCACTGATACAACAAGTACTCCC 59.067 47.826 0.00 0.00 35.05 4.30
588 591 4.322801 GCACTGATACAACAAGTACTCCCT 60.323 45.833 0.00 0.00 35.05 4.20
589 592 5.411781 CACTGATACAACAAGTACTCCCTC 58.588 45.833 0.00 0.00 35.05 4.30
590 593 5.186021 CACTGATACAACAAGTACTCCCTCT 59.814 44.000 0.00 0.00 35.05 3.69
591 594 5.186021 ACTGATACAACAAGTACTCCCTCTG 59.814 44.000 0.00 0.00 35.05 3.35
592 595 4.466370 TGATACAACAAGTACTCCCTCTGG 59.534 45.833 0.00 0.00 35.05 3.86
593 596 2.972348 ACAACAAGTACTCCCTCTGGA 58.028 47.619 0.00 0.00 38.75 3.86
594 597 3.314693 ACAACAAGTACTCCCTCTGGAA 58.685 45.455 0.00 0.00 41.17 3.53
595 598 3.325135 ACAACAAGTACTCCCTCTGGAAG 59.675 47.826 0.00 0.00 41.17 3.46
596 599 3.544698 ACAAGTACTCCCTCTGGAAGA 57.455 47.619 0.00 0.00 43.69 2.87
597 600 3.858135 ACAAGTACTCCCTCTGGAAGAA 58.142 45.455 0.00 0.00 46.34 2.52
598 601 4.232091 ACAAGTACTCCCTCTGGAAGAAA 58.768 43.478 0.00 0.00 46.34 2.52
599 602 4.658901 ACAAGTACTCCCTCTGGAAGAAAA 59.341 41.667 0.00 0.00 46.34 2.29
600 603 5.221742 ACAAGTACTCCCTCTGGAAGAAAAG 60.222 44.000 0.00 0.00 46.34 2.27
601 604 4.753186 AGTACTCCCTCTGGAAGAAAAGA 58.247 43.478 0.00 0.00 46.34 2.52
602 605 5.346270 AGTACTCCCTCTGGAAGAAAAGAT 58.654 41.667 0.00 0.00 46.34 2.40
603 606 6.503944 AGTACTCCCTCTGGAAGAAAAGATA 58.496 40.000 0.00 0.00 46.34 1.98
604 607 6.960542 AGTACTCCCTCTGGAAGAAAAGATAA 59.039 38.462 0.00 0.00 46.34 1.75
605 608 6.306643 ACTCCCTCTGGAAGAAAAGATAAG 57.693 41.667 0.00 0.00 46.34 1.73
606 609 6.026186 ACTCCCTCTGGAAGAAAAGATAAGA 58.974 40.000 0.00 0.00 46.34 2.10
607 610 6.156083 ACTCCCTCTGGAAGAAAAGATAAGAG 59.844 42.308 0.00 0.00 46.34 2.85
608 611 6.026186 TCCCTCTGGAAGAAAAGATAAGAGT 58.974 40.000 0.00 0.00 46.34 3.24
609 612 6.155393 TCCCTCTGGAAGAAAAGATAAGAGTC 59.845 42.308 0.00 0.00 46.34 3.36
610 613 6.039616 CCTCTGGAAGAAAAGATAAGAGTCG 58.960 44.000 0.00 0.00 46.34 4.18
611 614 6.350612 CCTCTGGAAGAAAAGATAAGAGTCGT 60.351 42.308 0.00 0.00 46.34 4.34
612 615 6.994221 TCTGGAAGAAAAGATAAGAGTCGTT 58.006 36.000 0.00 0.00 42.31 3.85
613 616 7.442656 TCTGGAAGAAAAGATAAGAGTCGTTT 58.557 34.615 0.00 0.00 42.31 3.60
614 617 8.582437 TCTGGAAGAAAAGATAAGAGTCGTTTA 58.418 33.333 0.00 0.00 42.31 2.01
615 618 9.372369 CTGGAAGAAAAGATAAGAGTCGTTTAT 57.628 33.333 0.00 0.00 34.07 1.40
734 741 0.682852 ATTCGTGTTTCGTCCTGGGA 59.317 50.000 0.00 0.00 40.80 4.37
969 1035 3.657015 TTGATTTTCAATCCAAGCGCA 57.343 38.095 11.47 0.00 30.26 6.09
1030 1096 2.030562 CCGGCGGAGTGAGTGTTT 59.969 61.111 24.41 0.00 0.00 2.83
1089 1159 4.202567 TGCATTCTAGGGTTTGTTCCTCTT 60.203 41.667 0.00 0.00 35.92 2.85
1899 2255 2.297701 GCCTTCCACTCTGTTTGTTGA 58.702 47.619 0.00 0.00 0.00 3.18
1990 2874 7.538678 GTCCACTTTGTTAGTTGATTGCTTATG 59.461 37.037 0.00 0.00 33.85 1.90
2951 4250 2.668550 GTTGCCGACGGAAGCCTT 60.669 61.111 20.50 0.00 0.00 4.35
2972 4271 6.918022 GCCTTTTTGGATAATGGATTCTAACG 59.082 38.462 0.00 0.00 38.35 3.18
3093 4430 5.128663 TGCATATGGTTGTTCTACTCAGCTA 59.871 40.000 4.56 0.00 0.00 3.32
3102 4440 4.406972 TGTTCTACTCAGCTATCATGCCTT 59.593 41.667 0.00 0.00 0.00 4.35
3103 4441 5.104776 TGTTCTACTCAGCTATCATGCCTTT 60.105 40.000 0.00 0.00 0.00 3.11
3106 4444 4.226427 ACTCAGCTATCATGCCTTTGAA 57.774 40.909 0.00 0.00 0.00 2.69
3111 4449 4.860907 CAGCTATCATGCCTTTGAAAACAC 59.139 41.667 0.00 0.00 0.00 3.32
3120 4458 3.188460 GCCTTTGAAAACACTAGCGATGA 59.812 43.478 0.00 0.00 0.00 2.92
3122 4460 4.452455 CCTTTGAAAACACTAGCGATGACT 59.548 41.667 0.00 0.00 0.00 3.41
3268 4643 4.161333 CGATTGCTAAGCCACTTTTCAAG 58.839 43.478 0.00 0.00 0.00 3.02
3311 4953 4.036852 GCCCATATTTTAGCTTGTGGTCTC 59.963 45.833 0.00 0.00 0.00 3.36
3327 4969 5.163141 TGTGGTCTCCTCACTTCCATTTAAA 60.163 40.000 0.00 0.00 36.21 1.52
3721 5711 5.730550 AGATTCAGTTCATTGGTTACGCTA 58.269 37.500 0.00 0.00 0.00 4.26
4201 6419 2.241160 TCAATCAAGTGGTGCAGCATT 58.759 42.857 23.18 15.76 0.00 3.56
4202 6420 2.629137 TCAATCAAGTGGTGCAGCATTT 59.371 40.909 23.18 21.17 0.00 2.32
4204 6422 2.798976 TCAAGTGGTGCAGCATTTTC 57.201 45.000 23.18 9.07 0.00 2.29
4205 6423 1.001487 TCAAGTGGTGCAGCATTTTCG 60.001 47.619 23.18 12.87 0.00 3.46
4207 6425 1.007502 GTGGTGCAGCATTTTCGCA 60.008 52.632 23.18 0.00 0.00 5.10
4208 6426 0.388907 GTGGTGCAGCATTTTCGCAT 60.389 50.000 23.18 0.00 38.07 4.73
4209 6427 0.388778 TGGTGCAGCATTTTCGCATG 60.389 50.000 15.99 0.00 38.07 4.06
4211 6429 1.421382 GTGCAGCATTTTCGCATGTT 58.579 45.000 0.00 0.00 38.07 2.71
4214 6432 3.428198 GTGCAGCATTTTCGCATGTTTTA 59.572 39.130 0.00 0.00 38.07 1.52
4293 6514 4.436050 CGCGCTCTTTTTGTATTCAGACAT 60.436 41.667 5.56 0.00 0.00 3.06
4294 6515 4.790140 GCGCTCTTTTTGTATTCAGACATG 59.210 41.667 0.00 0.00 0.00 3.21
5815 8134 4.023726 ACGATAAACACCCTTTTGCCTA 57.976 40.909 0.00 0.00 0.00 3.93
5966 8286 4.147321 AGGTCGTAGTTGAAAGTCTACCA 58.853 43.478 0.00 0.00 34.74 3.25
6229 8553 3.869065 AGTGTTTGTGTTTTCTCGAGGA 58.131 40.909 13.56 0.00 0.00 3.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
38 39 1.642037 CTTGCACAGGGCTGACATCG 61.642 60.000 0.00 0.00 45.15 3.84
191 192 3.170672 CCATCCCGAGGGCATCCA 61.171 66.667 2.58 0.00 34.83 3.41
198 199 3.866582 GACTGCCCCATCCCGAGG 61.867 72.222 0.00 0.00 0.00 4.63
211 212 2.280389 CCATCCCGATGCCGACTG 60.280 66.667 0.00 0.00 37.49 3.51
275 276 0.179062 GTGCCGATGAGGATTCTGCT 60.179 55.000 0.00 0.00 45.00 4.24
279 280 1.162800 GCAGGTGCCGATGAGGATTC 61.163 60.000 0.00 0.00 45.00 2.52
305 306 2.125391 GCAGAGCATGTCGCAGGA 60.125 61.111 0.00 0.00 46.13 3.86
329 330 1.296727 GATAGTGGCAAGGCGTTACC 58.703 55.000 1.21 1.21 39.61 2.85
330 331 1.296727 GGATAGTGGCAAGGCGTTAC 58.703 55.000 0.00 0.00 0.00 2.50
346 347 1.131303 TCACCTTGTGGTTCCCGGAT 61.131 55.000 0.73 0.00 46.05 4.18
351 352 5.622233 GCAATTAATCTCACCTTGTGGTTCC 60.622 44.000 0.00 0.00 46.05 3.62
377 378 1.672881 AGAGAAAGGCAATACGCATGC 59.327 47.619 7.91 7.91 45.17 4.06
418 419 4.702831 TCTATGCATCAAGCCAATTCGTA 58.297 39.130 0.19 0.00 44.83 3.43
459 462 3.727258 CTCCGGCCACCATCCCAA 61.727 66.667 2.24 0.00 0.00 4.12
468 471 1.371183 CACACTTCTTCTCCGGCCA 59.629 57.895 2.24 0.00 0.00 5.36
469 472 2.035442 GCACACTTCTTCTCCGGCC 61.035 63.158 0.00 0.00 0.00 6.13
472 475 0.034059 AGGTGCACACTTCTTCTCCG 59.966 55.000 20.43 0.00 0.00 4.63
473 476 1.609320 GGAGGTGCACACTTCTTCTCC 60.609 57.143 20.43 18.31 37.54 3.71
514 517 0.541764 ACATGGCAAACATTCCCCGT 60.542 50.000 0.00 0.00 37.84 5.28
515 518 0.173255 GACATGGCAAACATTCCCCG 59.827 55.000 0.00 0.00 37.84 5.73
516 519 0.173255 CGACATGGCAAACATTCCCC 59.827 55.000 0.00 0.00 37.84 4.81
517 520 0.458370 GCGACATGGCAAACATTCCC 60.458 55.000 0.00 0.00 37.84 3.97
518 521 0.798009 CGCGACATGGCAAACATTCC 60.798 55.000 0.00 0.00 37.84 3.01
519 522 0.798009 CCGCGACATGGCAAACATTC 60.798 55.000 8.23 0.00 37.84 2.67
520 523 1.212490 CCGCGACATGGCAAACATT 59.788 52.632 8.23 0.00 37.84 2.71
521 524 2.699768 CCCGCGACATGGCAAACAT 61.700 57.895 8.23 0.00 41.57 2.71
522 525 3.361158 CCCGCGACATGGCAAACA 61.361 61.111 8.23 0.00 0.00 2.83
523 526 4.114997 CCCCGCGACATGGCAAAC 62.115 66.667 8.23 0.00 0.00 2.93
524 527 4.652131 ACCCCGCGACATGGCAAA 62.652 61.111 8.23 0.00 0.00 3.68
525 528 4.652131 AACCCCGCGACATGGCAA 62.652 61.111 8.23 0.00 0.00 4.52
526 529 4.652131 AAACCCCGCGACATGGCA 62.652 61.111 8.23 0.00 0.00 4.92
527 530 4.114997 CAAACCCCGCGACATGGC 62.115 66.667 8.23 0.00 0.00 4.40
528 531 3.439540 CCAAACCCCGCGACATGG 61.440 66.667 8.23 4.88 0.00 3.66
529 532 0.462937 TATCCAAACCCCGCGACATG 60.463 55.000 8.23 0.00 0.00 3.21
530 533 0.463116 GTATCCAAACCCCGCGACAT 60.463 55.000 8.23 0.00 0.00 3.06
531 534 1.078988 GTATCCAAACCCCGCGACA 60.079 57.895 8.23 0.00 0.00 4.35
532 535 0.674269 TTGTATCCAAACCCCGCGAC 60.674 55.000 8.23 0.00 0.00 5.19
533 536 0.391927 CTTGTATCCAAACCCCGCGA 60.392 55.000 8.23 0.00 0.00 5.87
534 537 0.675522 ACTTGTATCCAAACCCCGCG 60.676 55.000 0.00 0.00 0.00 6.46
535 538 1.201414 CAACTTGTATCCAAACCCCGC 59.799 52.381 0.00 0.00 0.00 6.13
536 539 2.510613 ACAACTTGTATCCAAACCCCG 58.489 47.619 0.00 0.00 0.00 5.73
537 540 3.257375 GGAACAACTTGTATCCAAACCCC 59.743 47.826 13.82 0.00 31.97 4.95
538 541 3.057806 CGGAACAACTTGTATCCAAACCC 60.058 47.826 16.71 0.00 31.49 4.11
539 542 3.816523 TCGGAACAACTTGTATCCAAACC 59.183 43.478 16.71 0.00 31.49 3.27
540 543 4.083484 CCTCGGAACAACTTGTATCCAAAC 60.083 45.833 16.71 0.00 31.49 2.93
541 544 4.069304 CCTCGGAACAACTTGTATCCAAA 58.931 43.478 16.71 8.28 31.49 3.28
542 545 3.670625 CCTCGGAACAACTTGTATCCAA 58.329 45.455 16.71 4.74 31.49 3.53
543 546 2.614481 GCCTCGGAACAACTTGTATCCA 60.614 50.000 16.71 8.25 31.49 3.41
544 547 2.007608 GCCTCGGAACAACTTGTATCC 58.992 52.381 0.00 4.37 0.00 2.59
545 548 1.659098 CGCCTCGGAACAACTTGTATC 59.341 52.381 0.00 0.00 0.00 2.24
546 549 1.722011 CGCCTCGGAACAACTTGTAT 58.278 50.000 0.00 0.00 0.00 2.29
547 550 0.947180 GCGCCTCGGAACAACTTGTA 60.947 55.000 0.00 0.00 0.00 2.41
548 551 2.251642 GCGCCTCGGAACAACTTGT 61.252 57.895 0.00 0.00 0.00 3.16
549 552 2.250939 TGCGCCTCGGAACAACTTG 61.251 57.895 4.18 0.00 0.00 3.16
550 553 2.110213 TGCGCCTCGGAACAACTT 59.890 55.556 4.18 0.00 0.00 2.66
551 554 2.665185 GTGCGCCTCGGAACAACT 60.665 61.111 4.18 0.00 0.00 3.16
552 555 2.665185 AGTGCGCCTCGGAACAAC 60.665 61.111 4.18 0.00 0.00 3.32
553 556 2.449031 ATCAGTGCGCCTCGGAACAA 62.449 55.000 4.18 0.00 0.00 2.83
554 557 1.600511 TATCAGTGCGCCTCGGAACA 61.601 55.000 4.18 0.00 0.00 3.18
555 558 1.141019 TATCAGTGCGCCTCGGAAC 59.859 57.895 4.18 0.00 0.00 3.62
556 559 1.141019 GTATCAGTGCGCCTCGGAA 59.859 57.895 4.18 0.00 0.00 4.30
557 560 1.600511 TTGTATCAGTGCGCCTCGGA 61.601 55.000 4.18 4.86 0.00 4.55
558 561 1.153647 TTGTATCAGTGCGCCTCGG 60.154 57.895 4.18 0.00 0.00 4.63
559 562 0.735978 TGTTGTATCAGTGCGCCTCG 60.736 55.000 4.18 0.00 0.00 4.63
560 563 1.394917 CTTGTTGTATCAGTGCGCCTC 59.605 52.381 4.18 0.00 0.00 4.70
561 564 1.270839 ACTTGTTGTATCAGTGCGCCT 60.271 47.619 4.18 0.00 0.00 5.52
562 565 1.156736 ACTTGTTGTATCAGTGCGCC 58.843 50.000 4.18 0.00 0.00 6.53
563 566 2.993899 AGTACTTGTTGTATCAGTGCGC 59.006 45.455 0.00 0.00 33.23 6.09
564 567 3.612860 GGAGTACTTGTTGTATCAGTGCG 59.387 47.826 0.00 0.00 33.23 5.34
565 568 3.933332 GGGAGTACTTGTTGTATCAGTGC 59.067 47.826 0.00 0.00 33.23 4.40
566 569 5.186021 AGAGGGAGTACTTGTTGTATCAGTG 59.814 44.000 0.00 0.00 33.23 3.66
567 570 5.186021 CAGAGGGAGTACTTGTTGTATCAGT 59.814 44.000 0.00 0.00 33.23 3.41
568 571 5.394663 CCAGAGGGAGTACTTGTTGTATCAG 60.395 48.000 0.00 0.00 35.59 2.90
569 572 4.466370 CCAGAGGGAGTACTTGTTGTATCA 59.534 45.833 0.00 0.00 35.59 2.15
570 573 4.710375 TCCAGAGGGAGTACTTGTTGTATC 59.290 45.833 0.00 0.00 38.64 2.24
571 574 4.684724 TCCAGAGGGAGTACTTGTTGTAT 58.315 43.478 0.00 0.00 38.64 2.29
572 575 4.122337 TCCAGAGGGAGTACTTGTTGTA 57.878 45.455 0.00 0.00 38.64 2.41
573 576 2.972348 TCCAGAGGGAGTACTTGTTGT 58.028 47.619 0.00 0.00 38.64 3.32
574 577 3.578716 TCTTCCAGAGGGAGTACTTGTTG 59.421 47.826 0.00 0.00 46.01 3.33
575 578 3.858135 TCTTCCAGAGGGAGTACTTGTT 58.142 45.455 0.00 0.00 46.01 2.83
576 579 3.544698 TCTTCCAGAGGGAGTACTTGT 57.455 47.619 0.00 0.00 46.01 3.16
577 580 4.891992 TTTCTTCCAGAGGGAGTACTTG 57.108 45.455 0.00 0.00 46.01 3.16
578 581 5.155905 TCTTTTCTTCCAGAGGGAGTACTT 58.844 41.667 0.00 0.00 46.01 2.24
579 582 4.753186 TCTTTTCTTCCAGAGGGAGTACT 58.247 43.478 0.00 0.00 46.01 2.73
580 583 5.685520 ATCTTTTCTTCCAGAGGGAGTAC 57.314 43.478 0.00 0.00 46.01 2.73
581 584 7.189794 TCTTATCTTTTCTTCCAGAGGGAGTA 58.810 38.462 0.00 0.00 46.01 2.59
582 585 6.026186 TCTTATCTTTTCTTCCAGAGGGAGT 58.974 40.000 0.00 0.00 46.01 3.85
583 586 6.156083 ACTCTTATCTTTTCTTCCAGAGGGAG 59.844 42.308 0.00 0.00 46.01 4.30
584 587 6.026186 ACTCTTATCTTTTCTTCCAGAGGGA 58.974 40.000 0.00 0.00 43.03 4.20
585 588 6.306643 ACTCTTATCTTTTCTTCCAGAGGG 57.693 41.667 0.00 0.00 32.21 4.30
586 589 6.039616 CGACTCTTATCTTTTCTTCCAGAGG 58.960 44.000 0.00 0.00 32.21 3.69
587 590 6.626302 ACGACTCTTATCTTTTCTTCCAGAG 58.374 40.000 0.00 0.00 33.83 3.35
588 591 6.591750 ACGACTCTTATCTTTTCTTCCAGA 57.408 37.500 0.00 0.00 0.00 3.86
589 592 7.659652 AAACGACTCTTATCTTTTCTTCCAG 57.340 36.000 0.00 0.00 0.00 3.86
629 632 9.353999 GAATGAGTTTTAGCAAATCCGTTAAAT 57.646 29.630 0.00 0.00 0.00 1.40
630 633 7.535940 CGAATGAGTTTTAGCAAATCCGTTAAA 59.464 33.333 0.00 0.00 0.00 1.52
631 634 7.018826 CGAATGAGTTTTAGCAAATCCGTTAA 58.981 34.615 0.00 0.00 0.00 2.01
632 635 6.369340 TCGAATGAGTTTTAGCAAATCCGTTA 59.631 34.615 0.00 0.00 0.00 3.18
734 741 1.102978 ACAAACAAAACAGCTCGCCT 58.897 45.000 0.00 0.00 0.00 5.52
969 1035 0.250338 GAAGCCCACCAAGTCGTTCT 60.250 55.000 0.00 0.00 0.00 3.01
1899 2255 4.081406 TCAGAACAAGCAATACCAGCAAT 58.919 39.130 0.00 0.00 0.00 3.56
2951 4250 6.544564 GGACCGTTAGAATCCATTATCCAAAA 59.455 38.462 0.00 0.00 32.35 2.44
2972 4271 1.913419 TCTATTGGGGACACAAGGACC 59.087 52.381 0.00 0.00 42.67 4.46
3076 4413 4.509600 GCATGATAGCTGAGTAGAACAACC 59.490 45.833 0.00 0.00 0.00 3.77
3093 4430 4.379813 CGCTAGTGTTTTCAAAGGCATGAT 60.380 41.667 0.00 0.00 0.00 2.45
3102 4440 6.371809 AAAAGTCATCGCTAGTGTTTTCAA 57.628 33.333 2.66 0.00 0.00 2.69
3103 4441 6.371809 AAAAAGTCATCGCTAGTGTTTTCA 57.628 33.333 2.66 0.00 0.00 2.69
3142 4480 2.497273 CCCAAAGCACAAATTCCCCTAG 59.503 50.000 0.00 0.00 0.00 3.02
3268 4643 3.439129 GGCCACTCCACTACAACAATAAC 59.561 47.826 0.00 0.00 34.01 1.89
3311 4953 5.104941 GGGGGAAATTTAAATGGAAGTGAGG 60.105 44.000 0.39 0.00 0.00 3.86
3352 4994 4.400884 TGTTTAGCTGAGAGCAAACCAAAA 59.599 37.500 0.00 0.00 45.56 2.44
3597 5407 2.026822 AGTTCCCACATAGCTCACAAGG 60.027 50.000 0.00 0.00 0.00 3.61
3721 5711 7.767659 TGAAGAAGAAACAATCGATGATCTGAT 59.232 33.333 0.00 0.00 32.00 2.90
4201 6419 6.151985 ACAATCAGGGTATAAAACATGCGAAA 59.848 34.615 0.00 0.00 0.00 3.46
4202 6420 5.650266 ACAATCAGGGTATAAAACATGCGAA 59.350 36.000 0.00 0.00 0.00 4.70
4204 6422 5.499139 ACAATCAGGGTATAAAACATGCG 57.501 39.130 0.00 0.00 0.00 4.73
4205 6423 7.328277 TGTACAATCAGGGTATAAAACATGC 57.672 36.000 0.00 0.00 0.00 4.06
4207 6425 9.174166 GACTTGTACAATCAGGGTATAAAACAT 57.826 33.333 9.13 0.00 0.00 2.71
4208 6426 8.158132 TGACTTGTACAATCAGGGTATAAAACA 58.842 33.333 9.13 0.00 0.00 2.83
4209 6427 8.556213 TGACTTGTACAATCAGGGTATAAAAC 57.444 34.615 9.13 0.00 0.00 2.43
4211 6429 7.773224 CCATGACTTGTACAATCAGGGTATAAA 59.227 37.037 26.40 7.20 39.04 1.40
4214 6432 5.684704 CCATGACTTGTACAATCAGGGTAT 58.315 41.667 26.40 11.30 39.04 2.73
4444 6675 1.728971 CCTTCACAATGTCGACAGAGC 59.271 52.381 24.41 0.00 0.00 4.09
5966 8286 5.604650 CCCTCTCCCTAAATTGTGAGTAGAT 59.395 44.000 0.00 0.00 0.00 1.98


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

AutoCloner maintained by Alex Coulton.