Multiple sequence alignment - TraesCS1A01G114600

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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 TraesCS1A01G114600 chr1A 100.000 7681 0 0 1 7681 118808687 118816367 0.000000e+00 14185.0
1 TraesCS1A01G114600 chr1D 96.030 4181 108 13 3145 7296 111725764 111729915 0.000000e+00 6748.0
2 TraesCS1A01G114600 chr1D 95.564 2502 90 15 219 2713 111721989 111724476 0.000000e+00 3986.0
3 TraesCS1A01G114600 chr1D 96.460 452 15 1 2699 3149 111724647 111725098 0.000000e+00 745.0
4 TraesCS1A01G114600 chr1D 82.609 552 84 11 4464 5007 427826066 427826613 1.940000e-130 477.0
5 TraesCS1A01G114600 chr1D 87.365 277 23 2 1 266 111721717 111721992 2.690000e-79 307.0
6 TraesCS1A01G114600 chr1D 78.882 483 59 26 2647 3120 427823698 427824146 3.510000e-73 287.0
7 TraesCS1A01G114600 chr1D 75.526 380 75 8 17 383 490403178 490403552 3.690000e-38 171.0
8 TraesCS1A01G114600 chr1D 86.713 143 13 5 7155 7296 412510268 412510131 3.710000e-33 154.0
9 TraesCS1A01G114600 chr1D 95.122 41 2 0 4049 4089 111726540 111726580 1.790000e-06 65.8
10 TraesCS1A01G114600 chr1B 95.407 2939 109 12 219 3149 171036424 171039344 0.000000e+00 4656.0
11 TraesCS1A01G114600 chr1B 96.093 2073 63 6 3139 5195 171040906 171042976 0.000000e+00 3363.0
12 TraesCS1A01G114600 chr1B 96.509 1289 38 3 5195 6481 171043309 171044592 0.000000e+00 2124.0
13 TraesCS1A01G114600 chr1B 92.385 801 36 6 6516 7296 171044852 171045647 0.000000e+00 1118.0
14 TraesCS1A01G114600 chr1B 89.531 277 17 2 1 266 171036152 171036427 2.650000e-89 340.0
15 TraesCS1A01G114600 chr1B 80.808 99 18 1 56 154 315391594 315391691 8.270000e-10 76.8
16 TraesCS1A01G114600 chr3B 85.649 655 94 0 3148 3802 739127681 739127027 0.000000e+00 689.0
17 TraesCS1A01G114600 chr3B 86.807 379 40 6 1969 2341 739128987 739128613 1.540000e-111 414.0
18 TraesCS1A01G114600 chr3B 79.466 599 104 11 5279 5861 739124664 739124069 2.580000e-109 407.0
19 TraesCS1A01G114600 chr3B 78.401 588 86 26 5912 6462 739123827 739123244 2.050000e-90 344.0
20 TraesCS1A01G114600 chr3B 79.042 501 81 19 4122 4607 739126377 739125886 9.620000e-84 322.0
21 TraesCS1A01G114600 chr3B 81.868 364 63 3 7296 7656 642071948 642072311 3.480000e-78 303.0
22 TraesCS1A01G114600 chr3B 83.929 280 42 3 1254 1531 739129648 739129370 1.640000e-66 265.0
23 TraesCS1A01G114600 chr3B 86.420 243 24 6 2850 3088 739128229 739127992 2.750000e-64 257.0
24 TraesCS1A01G114600 chr3B 77.019 161 32 4 6986 7145 386533466 386533310 3.820000e-13 87.9
25 TraesCS1A01G114600 chr3B 84.810 79 10 2 47 124 63994634 63994711 2.300000e-10 78.7
26 TraesCS1A01G114600 chr3A 85.366 656 95 1 3148 3802 693161723 693161068 0.000000e+00 678.0
27 TraesCS1A01G114600 chr3A 86.500 400 40 6 1952 2341 693163415 693163020 1.980000e-115 427.0
28 TraesCS1A01G114600 chr3A 79.000 600 100 15 5282 5861 693159135 693158542 3.360000e-103 387.0
29 TraesCS1A01G114600 chr3A 83.081 396 60 7 7277 7668 750258093 750258485 3.410000e-93 353.0
30 TraesCS1A01G114600 chr3A 87.226 274 27 8 4122 4391 693160481 693160212 9.680000e-79 305.0
31 TraesCS1A01G114600 chr3A 80.105 382 72 4 7299 7677 705229753 705229373 1.630000e-71 281.0
32 TraesCS1A01G114600 chr3A 80.429 373 69 4 7299 7668 713221082 713221453 1.630000e-71 281.0
33 TraesCS1A01G114600 chr3A 83.929 280 42 3 1254 1531 693164052 693163774 1.640000e-66 265.0
34 TraesCS1A01G114600 chr3A 76.774 155 33 2 6986 7139 386224200 386224048 4.940000e-12 84.2
35 TraesCS1A01G114600 chr3D 84.885 655 99 0 3148 3802 556145482 556144828 0.000000e+00 662.0
36 TraesCS1A01G114600 chr3D 88.483 356 35 4 1969 2322 556147152 556146801 7.120000e-115 425.0
37 TraesCS1A01G114600 chr3D 78.773 603 99 14 5279 5861 556142603 556142010 2.020000e-100 377.0
38 TraesCS1A01G114600 chr3D 78.475 590 83 30 5912 6462 556141778 556141194 5.710000e-91 346.0
39 TraesCS1A01G114600 chr3D 88.278 273 26 6 4122 4391 556144164 556143895 9.620000e-84 322.0
40 TraesCS1A01G114600 chr3D 83.571 280 43 3 1254 1531 556147813 556147535 7.650000e-65 259.0
41 TraesCS1A01G114600 chr3D 77.419 155 32 3 6986 7139 293196997 293196845 1.060000e-13 89.8
42 TraesCS1A01G114600 chr5D 77.088 934 159 36 56 964 120803455 120802552 8.960000e-134 488.0
43 TraesCS1A01G114600 chr5D 73.729 472 108 11 16 482 434028307 434027847 3.690000e-38 171.0
44 TraesCS1A01G114600 chr5D 87.500 136 15 2 7154 7288 11436457 11436591 1.030000e-33 156.0
45 TraesCS1A01G114600 chr4A 83.889 360 56 2 7298 7656 572241690 572241332 7.380000e-90 342.0
46 TraesCS1A01G114600 chr4A 82.418 182 24 5 279 460 614600287 614600114 1.340000e-32 152.0
47 TraesCS1A01G114600 chr4A 90.090 111 10 1 6948 7057 635727338 635727448 8.030000e-30 143.0
48 TraesCS1A01G114600 chr2B 83.514 370 54 6 7305 7668 431167593 431167225 9.550000e-89 339.0
49 TraesCS1A01G114600 chr2D 82.979 376 59 5 7296 7668 99202534 99202907 1.240000e-87 335.0
50 TraesCS1A01G114600 chr2D 81.944 216 35 2 284 499 411737122 411736911 6.120000e-41 180.0
51 TraesCS1A01G114600 chr2D 89.051 137 12 3 7154 7288 14765334 14765469 4.770000e-37 167.0
52 TraesCS1A01G114600 chr6B 81.551 374 62 4 7301 7668 29311426 29311798 1.250000e-77 302.0
53 TraesCS1A01G114600 chr4D 81.622 370 58 8 7305 7668 30389406 30389771 1.620000e-76 298.0
54 TraesCS1A01G114600 chr7A 76.523 558 87 29 7151 7668 191211315 191210762 1.640000e-66 265.0
55 TraesCS1A01G114600 chr7A 80.000 140 27 1 18 157 512150262 512150400 1.360000e-17 102.0
56 TraesCS1A01G114600 chr2A 82.243 214 34 2 286 499 21226835 21226626 1.700000e-41 182.0
57 TraesCS1A01G114600 chr2A 88.235 136 13 3 7149 7283 488003430 488003563 7.980000e-35 159.0
58 TraesCS1A01G114600 chr5B 88.636 132 13 2 7155 7285 219059001 219059131 7.980000e-35 159.0
59 TraesCS1A01G114600 chr5A 88.550 131 13 2 7154 7283 334005537 334005666 2.870000e-34 158.0
60 TraesCS1A01G114600 chr5A 82.143 140 24 1 18 157 687343777 687343915 1.350000e-22 119.0
61 TraesCS1A01G114600 chr6D 72.948 329 76 10 66 383 472265541 472265867 1.360000e-17 102.0


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 TraesCS1A01G114600 chr1A 118808687 118816367 7680 False 14185.000000 14185 100.000000 1 7681 1 chr1A.!!$F1 7680
1 TraesCS1A01G114600 chr1D 111721717 111729915 8198 False 2370.360000 6748 94.108200 1 7296 5 chr1D.!!$F2 7295
2 TraesCS1A01G114600 chr1D 427823698 427826613 2915 False 382.000000 477 80.745500 2647 5007 2 chr1D.!!$F3 2360
3 TraesCS1A01G114600 chr1B 171036152 171045647 9495 False 2320.200000 4656 93.985000 1 7296 5 chr1B.!!$F2 7295
4 TraesCS1A01G114600 chr3B 739123244 739129648 6404 True 385.428571 689 82.816286 1254 6462 7 chr3B.!!$R2 5208
5 TraesCS1A01G114600 chr3A 693158542 693164052 5510 True 412.400000 678 84.404200 1254 5861 5 chr3A.!!$R3 4607
6 TraesCS1A01G114600 chr3D 556141194 556147813 6619 True 398.500000 662 83.744167 1254 6462 6 chr3D.!!$R2 5208
7 TraesCS1A01G114600 chr5D 120802552 120803455 903 True 488.000000 488 77.088000 56 964 1 chr5D.!!$R1 908
8 TraesCS1A01G114600 chr7A 191210762 191211315 553 True 265.000000 265 76.523000 7151 7668 1 chr7A.!!$R1 517

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
222 235 0.249447 CGAGACTCAACTGTGCCACA 60.249 55.000 2.82 0.00 0.00 4.17 F
319 376 0.897863 CAAAACGATGCCCCCAGGAA 60.898 55.000 0.00 0.00 33.47 3.36 F
862 940 0.982852 ATGAGACCGCTGGGGATCAA 60.983 55.000 18.53 6.56 38.13 2.57 F
1642 1873 1.568504 AGGATGACCGCCTTTCAGTA 58.431 50.000 0.00 0.00 41.83 2.74 F
2421 2701 2.040278 ACCACACACTGCCATCTTATGT 59.960 45.455 0.00 0.00 0.00 2.29 F
3029 3525 1.069090 CCATACGATGGGTGGACGG 59.931 63.158 6.11 0.00 46.86 4.79 F
4055 6576 1.419387 GCTGACCAATGAGAGCCCTAT 59.581 52.381 0.00 0.00 0.00 2.57 F
4764 7654 1.202245 GCAGCCAAAGTGAAACGTTCA 60.202 47.619 0.00 0.00 45.86 3.18 F
6215 10231 0.841961 CCATCCATCTGCCTCAAGGA 59.158 55.000 0.00 0.00 37.39 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1502 1585 1.619827 TCTCCGGCCGTTTCTCTTAAA 59.380 47.619 26.12 0.0 0.00 1.52 R
1898 2131 7.076842 ACACTGCATAGTTGTGATGATTTAC 57.923 36.000 9.75 0.0 34.07 2.01 R
2825 3318 5.333875 GCCACGAGTAGAAGGTAAAAAGTTG 60.334 44.000 0.00 0.0 0.00 3.16 R
2935 3431 0.742505 CGCCTGCCAATGAATGACAT 59.257 50.000 0.00 0.0 41.45 3.06 R
4055 6576 1.276989 CTACCCACAGGCCGACTTTTA 59.723 52.381 0.00 0.0 36.11 1.52 R
4710 7600 3.003068 CCTGCTCAGACAAAAGTTCTGTG 59.997 47.826 0.00 0.0 41.22 3.66 R
5752 9562 1.340889 TCAACACTTGAAATGCCCTGC 59.659 47.619 0.00 0.0 36.59 4.85 R
6533 10770 0.395173 AGTGCCGTCCAAAACAGGTT 60.395 50.000 0.00 0.0 0.00 3.50 R
7589 11936 0.037447 GAGCTCCAAGGTGAAAGCCT 59.963 55.000 0.87 0.0 41.41 4.58 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
28 29 1.123861 AGAGCTGAGAGCACCAACCA 61.124 55.000 0.00 0.00 45.56 3.67
34 35 1.618837 TGAGAGCACCAACCAGTCTAC 59.381 52.381 0.00 0.00 0.00 2.59
111 112 1.826024 CCGTCCCATCTTCAGGAGG 59.174 63.158 0.00 0.00 37.70 4.30
222 235 0.249447 CGAGACTCAACTGTGCCACA 60.249 55.000 2.82 0.00 0.00 4.17
240 253 2.751436 CCGCCAAGACCCACCATG 60.751 66.667 0.00 0.00 0.00 3.66
253 266 1.290203 CACCATGGTCGATGCAGTAC 58.710 55.000 16.53 0.00 0.00 2.73
319 376 0.897863 CAAAACGATGCCCCCAGGAA 60.898 55.000 0.00 0.00 33.47 3.36
340 397 1.533731 GGAAAACGACATCAAAGGCGA 59.466 47.619 0.00 0.00 0.00 5.54
344 401 2.315925 ACGACATCAAAGGCGATGAT 57.684 45.000 7.86 5.24 44.67 2.45
359 416 3.443099 GATGATATCATCCGATCCGCA 57.557 47.619 28.43 0.00 45.24 5.69
862 940 0.982852 ATGAGACCGCTGGGGATCAA 60.983 55.000 18.53 6.56 38.13 2.57
1018 1096 2.334023 AGATGAGATTGGGACTAGGGC 58.666 52.381 0.00 0.00 0.00 5.19
1054 1132 8.822805 TGTCTAGGTTTAAGTTGTCTATCCATT 58.177 33.333 0.00 0.00 0.00 3.16
1204 1284 8.147058 TGCCAAATTGTTGTGTGAAATTAGTAT 58.853 29.630 0.00 0.00 32.40 2.12
1205 1285 8.434661 GCCAAATTGTTGTGTGAAATTAGTATG 58.565 33.333 0.00 0.00 32.40 2.39
1206 1286 9.474920 CCAAATTGTTGTGTGAAATTAGTATGT 57.525 29.630 0.00 0.00 32.40 2.29
1642 1873 1.568504 AGGATGACCGCCTTTCAGTA 58.431 50.000 0.00 0.00 41.83 2.74
1713 1945 4.401925 CAGACCTCCTGAAATTCAAACCT 58.598 43.478 0.00 0.00 45.78 3.50
1717 1949 4.140924 ACCTCCTGAAATTCAAACCTTCCT 60.141 41.667 0.00 0.00 0.00 3.36
1898 2131 4.663636 CACTTTAGGTGCGTTTTAGAGG 57.336 45.455 0.00 0.00 39.22 3.69
2069 2346 6.873605 TGACTTCACCATACTTGTGTATTGAG 59.126 38.462 0.00 0.00 37.28 3.02
2421 2701 2.040278 ACCACACACTGCCATCTTATGT 59.960 45.455 0.00 0.00 0.00 2.29
2423 2703 3.127548 CCACACACTGCCATCTTATGTTC 59.872 47.826 0.00 0.00 0.00 3.18
2426 2706 5.643348 CACACACTGCCATCTTATGTTCTTA 59.357 40.000 0.00 0.00 0.00 2.10
2743 3236 2.753296 TGCCATTTGTTTTGCAGTAGC 58.247 42.857 0.00 0.00 42.57 3.58
2778 3271 7.712204 TCCATACGCTATTACATGATAGGAA 57.288 36.000 0.00 0.00 31.62 3.36
2825 3318 8.092521 ACATGTATATTTATCTCTGTTGCAGC 57.907 34.615 0.00 0.00 0.00 5.25
3029 3525 1.069090 CCATACGATGGGTGGACGG 59.931 63.158 6.11 0.00 46.86 4.79
3384 5673 9.019656 TGGTTAGTTTTAACATGCATGAATACT 57.980 29.630 32.75 25.01 40.77 2.12
3510 5805 7.951347 ATCTCCAGAGTTAATCTTGCAAATT 57.049 32.000 0.00 6.37 35.47 1.82
3863 6384 8.331022 CAGTAAAATGTTCCATCAAGTAGATCG 58.669 37.037 0.00 0.00 33.72 3.69
3866 6387 7.687941 AAATGTTCCATCAAGTAGATCGTTT 57.312 32.000 0.00 0.00 33.72 3.60
3965 6486 6.266558 TGTTGGTAGAAACAGTGGCATTTTAT 59.733 34.615 0.00 0.00 35.16 1.40
4055 6576 1.419387 GCTGACCAATGAGAGCCCTAT 59.581 52.381 0.00 0.00 0.00 2.57
4127 6655 9.555411 AATTTTAAATAACCAGGGTACAAGGAT 57.445 29.630 4.70 0.00 0.00 3.24
4166 6813 6.625362 TGTTTGTGCATTTTGTTCTTCTGTA 58.375 32.000 0.00 0.00 0.00 2.74
4458 7117 7.516209 TGAAACTTATCATTAGGGGGCTACTAT 59.484 37.037 0.00 0.00 0.00 2.12
4597 7444 5.952033 AGGACGTTGAATCTACTACAGTTC 58.048 41.667 0.00 0.00 0.00 3.01
4676 7566 3.254166 CCCCGCATTAAGGAAATCATCAG 59.746 47.826 0.00 0.00 0.00 2.90
4710 7600 6.699575 AAGATAAGCACACCAATTATCACC 57.300 37.500 6.87 0.00 38.04 4.02
4764 7654 1.202245 GCAGCCAAAGTGAAACGTTCA 60.202 47.619 0.00 0.00 45.86 3.18
4849 7739 8.511321 TGTATATGCACTTAAAGGAAGTTTGTG 58.489 33.333 0.00 0.00 46.79 3.33
5186 8647 6.954944 TGTTTTAGTTTGTCTAGTCATGTGC 58.045 36.000 0.00 0.00 0.00 4.57
5221 9015 9.741647 GAACTCAAAATGAAGAAAAAGATCTGT 57.258 29.630 0.00 0.00 0.00 3.41
5234 9028 5.624344 AAAGATCTGTGCATGCTATATGC 57.376 39.130 20.33 5.00 44.76 3.14
5309 9104 6.715347 AACTTTTGTAAGGAAGCACTCAAT 57.285 33.333 0.00 0.00 35.61 2.57
5317 9112 2.808543 AGGAAGCACTCAATTTGACGAC 59.191 45.455 0.00 0.00 0.00 4.34
5450 9252 2.034878 TCTCTTCTGACACTGTGCAGT 58.965 47.619 22.42 0.00 43.61 4.40
5452 9254 3.118629 TCTCTTCTGACACTGTGCAGTTT 60.119 43.478 22.42 0.00 40.20 2.66
5701 9506 8.928733 TGATTGTAAAGGTAAACGAAGTATGAC 58.071 33.333 0.00 0.00 45.00 3.06
5752 9562 5.374921 AGCTGACCTTCCTATTGATCAATG 58.625 41.667 27.59 17.64 32.50 2.82
6215 10231 0.841961 CCATCCATCTGCCTCAAGGA 59.158 55.000 0.00 0.00 37.39 3.36
6234 10250 9.276590 CTCAAGGATGATTAATAACTGTGCATA 57.723 33.333 0.00 0.00 34.37 3.14
6481 10532 4.034048 CGTGTAATGTATTGCCCTCAACTC 59.966 45.833 0.00 0.00 34.60 3.01
6572 10864 6.531240 GGCACTGTATTTTCATTGTTATGTGG 59.469 38.462 0.00 0.00 33.34 4.17
6662 10964 2.369394 CCTGAATTCAAGTACCAGCCC 58.631 52.381 9.88 0.00 0.00 5.19
6703 11005 3.417069 TCGAAGAAGCTTGGATTTGGA 57.583 42.857 2.10 0.00 0.00 3.53
6745 11047 7.546667 ACTGTACTTTCTTTACAACTCGTTTGA 59.453 33.333 6.54 0.00 38.73 2.69
6749 11051 6.370718 ACTTTCTTTACAACTCGTTTGACACT 59.629 34.615 6.54 0.00 38.73 3.55
6771 11073 5.940470 ACTCCTCATTTCATGTGGTAGAAAC 59.060 40.000 5.06 0.00 42.86 2.78
6779 11081 7.447374 TTTCATGTGGTAGAAACGAAATGAT 57.553 32.000 0.00 0.00 37.74 2.45
6888 11190 5.379187 TGACTCCCATATCATGATGTTTGG 58.621 41.667 18.72 19.28 0.00 3.28
6971 11273 1.598882 TCAAGTTGCGGCACACAATA 58.401 45.000 0.05 0.00 31.24 1.90
7015 11317 6.095300 TCCATAAAGCACAAATCCACATACTG 59.905 38.462 0.00 0.00 0.00 2.74
7064 11371 4.318332 TCTCCATAAAGCACACAGTCTTG 58.682 43.478 0.00 0.00 0.00 3.02
7226 11539 1.880027 CAAACCCTAAGAGCACACACC 59.120 52.381 0.00 0.00 0.00 4.16
7272 11585 1.545136 CATAGCCAACACCAATGCACA 59.455 47.619 0.00 0.00 0.00 4.57
7304 11617 2.341846 ACGTCTGGCAAGGAAAAAGA 57.658 45.000 0.00 0.00 0.00 2.52
7305 11618 2.650322 ACGTCTGGCAAGGAAAAAGAA 58.350 42.857 0.00 0.00 0.00 2.52
7307 11620 3.445805 ACGTCTGGCAAGGAAAAAGAAAA 59.554 39.130 0.00 0.00 0.00 2.29
7332 11645 7.703058 AAAAATCCAAAGTGATAAGATCCGT 57.297 32.000 0.00 0.00 0.00 4.69
7333 11646 6.683974 AAATCCAAAGTGATAAGATCCGTG 57.316 37.500 0.00 0.00 0.00 4.94
7334 11647 5.614324 ATCCAAAGTGATAAGATCCGTGA 57.386 39.130 0.00 0.00 0.00 4.35
7337 11650 6.513180 TCCAAAGTGATAAGATCCGTGATAC 58.487 40.000 0.00 0.00 0.00 2.24
7338 11651 5.402568 CCAAAGTGATAAGATCCGTGATACG 59.597 44.000 0.00 0.00 42.11 3.06
7348 11689 3.300852 TCCGTGATACGCAAACTACAA 57.699 42.857 0.00 0.00 40.91 2.41
7350 11691 2.732500 CCGTGATACGCAAACTACAACA 59.267 45.455 0.00 0.00 40.91 3.33
7352 11693 4.142988 CCGTGATACGCAAACTACAACAAT 60.143 41.667 0.00 0.00 40.91 2.71
7353 11694 5.013236 CGTGATACGCAAACTACAACAATC 58.987 41.667 0.00 0.00 33.65 2.67
7360 11701 5.239744 ACGCAAACTACAACAATCACCATAA 59.760 36.000 0.00 0.00 0.00 1.90
7363 11704 6.515862 GCAAACTACAACAATCACCATAACCA 60.516 38.462 0.00 0.00 0.00 3.67
7370 11711 3.572255 ACAATCACCATAACCACACCAAC 59.428 43.478 0.00 0.00 0.00 3.77
7371 11712 1.885560 TCACCATAACCACACCAACG 58.114 50.000 0.00 0.00 0.00 4.10
7377 11718 3.595173 CATAACCACACCAACGATCTCA 58.405 45.455 0.00 0.00 0.00 3.27
7380 11721 1.339055 ACCACACCAACGATCTCATGG 60.339 52.381 6.72 6.72 40.16 3.66
7383 11724 1.065199 ACACCAACGATCTCATGGCAT 60.065 47.619 0.00 0.00 37.77 4.40
7388 11729 1.945387 ACGATCTCATGGCATCACAC 58.055 50.000 0.00 0.00 0.00 3.82
7389 11730 1.207811 ACGATCTCATGGCATCACACA 59.792 47.619 0.00 0.00 0.00 3.72
7395 11739 0.723414 CATGGCATCACACAGACGAC 59.277 55.000 0.00 0.00 0.00 4.34
7396 11740 0.737367 ATGGCATCACACAGACGACG 60.737 55.000 0.00 0.00 0.00 5.12
7415 11759 3.998522 ACGAAGTTCTTCAACAACAACG 58.001 40.909 12.15 0.00 37.78 4.10
7416 11760 3.434299 ACGAAGTTCTTCAACAACAACGT 59.566 39.130 12.15 0.00 37.78 3.99
7422 11766 4.857871 TCTTCAACAACAACGTCTTCAG 57.142 40.909 0.00 0.00 0.00 3.02
7423 11767 4.500127 TCTTCAACAACAACGTCTTCAGA 58.500 39.130 0.00 0.00 0.00 3.27
7425 11769 4.857871 TCAACAACAACGTCTTCAGAAG 57.142 40.909 3.45 3.45 0.00 2.85
7428 11772 2.169769 ACAACAACGTCTTCAGAAGGGA 59.830 45.455 10.42 0.00 0.00 4.20
7429 11773 2.802816 CAACAACGTCTTCAGAAGGGAG 59.197 50.000 10.42 4.87 0.00 4.30
7430 11774 1.270358 ACAACGTCTTCAGAAGGGAGC 60.270 52.381 10.42 0.00 0.00 4.70
7431 11775 0.038159 AACGTCTTCAGAAGGGAGCG 60.038 55.000 10.42 11.67 0.00 5.03
7432 11776 0.894184 ACGTCTTCAGAAGGGAGCGA 60.894 55.000 10.42 0.00 0.00 4.93
7433 11777 0.456995 CGTCTTCAGAAGGGAGCGAC 60.457 60.000 10.42 0.00 0.00 5.19
7434 11778 0.603569 GTCTTCAGAAGGGAGCGACA 59.396 55.000 10.42 0.00 0.00 4.35
7445 11790 2.881441 GAGCGACACTCAAACGTCA 58.119 52.632 0.00 0.00 45.49 4.35
7469 11814 0.960364 CACCGGATCCAACCACCAAG 60.960 60.000 9.46 0.00 0.00 3.61
7471 11816 2.046285 CGGATCCAACCACCAAGGC 61.046 63.158 13.41 0.00 43.14 4.35
7480 11826 3.199946 CCAACCACCAAGGCTAGAATCTA 59.800 47.826 0.00 0.00 43.14 1.98
7507 11854 3.609853 TCACCTTGAAGAATCAATCCGG 58.390 45.455 0.00 0.00 44.29 5.14
7517 11864 3.074390 AGAATCAATCCGGGCATATCCAA 59.926 43.478 0.00 0.00 36.21 3.53
7522 11869 0.465460 TCCGGGCATATCCAAGCAAC 60.465 55.000 0.00 0.00 36.21 4.17
7530 11877 1.737838 TATCCAAGCAACGCCTTCAG 58.262 50.000 0.00 0.00 0.00 3.02
7554 11901 7.651304 CAGCAAGGTAACAATGTAAAAACATCA 59.349 33.333 0.00 0.00 41.41 3.07
7568 11915 3.386932 AACATCACCATTGCCAGGTAT 57.613 42.857 0.00 0.00 37.23 2.73
7576 11923 3.011257 ACCATTGCCAGGTATAACCAACT 59.989 43.478 0.00 0.00 41.95 3.16
7577 11924 3.632145 CCATTGCCAGGTATAACCAACTC 59.368 47.826 0.00 0.00 41.95 3.01
7579 11926 2.181125 TGCCAGGTATAACCAACTCGA 58.819 47.619 0.00 0.00 41.95 4.04
7581 11928 2.822764 CCAGGTATAACCAACTCGAGC 58.177 52.381 13.61 0.00 41.95 5.03
7582 11929 2.483188 CCAGGTATAACCAACTCGAGCC 60.483 54.545 13.61 1.77 41.95 4.70
7589 11936 0.251653 ACCAACTCGAGCCAGACCTA 60.252 55.000 13.61 0.00 0.00 3.08
7591 11939 0.457851 CAACTCGAGCCAGACCTAGG 59.542 60.000 13.61 7.41 0.00 3.02
7600 11948 1.280457 CCAGACCTAGGCTTTCACCT 58.720 55.000 9.30 0.00 44.31 4.00
7601 11949 1.630878 CCAGACCTAGGCTTTCACCTT 59.369 52.381 9.30 0.00 41.50 3.50
7610 11958 1.916697 GCTTTCACCTTGGAGCTCGC 61.917 60.000 7.83 1.18 32.54 5.03
7615 11963 3.764466 CCTTGGAGCTCGCGACCT 61.764 66.667 3.71 3.31 0.00 3.85
7616 11964 2.415608 CCTTGGAGCTCGCGACCTA 61.416 63.158 3.71 0.82 0.00 3.08
7619 11967 0.179111 TTGGAGCTCGCGACCTAATG 60.179 55.000 3.71 0.00 0.00 1.90
7622 11970 0.528684 GAGCTCGCGACCTAATGCTT 60.529 55.000 17.76 4.08 0.00 3.91
7625 11973 1.203928 CTCGCGACCTAATGCTTGAG 58.796 55.000 3.71 0.00 0.00 3.02
7626 11974 0.530744 TCGCGACCTAATGCTTGAGT 59.469 50.000 3.71 0.00 0.00 3.41
7639 11987 2.768253 CTTGAGTAGCACCACCATCA 57.232 50.000 0.00 0.00 0.00 3.07
7640 11988 3.057969 CTTGAGTAGCACCACCATCAA 57.942 47.619 0.00 0.00 0.00 2.57
7641 11989 3.411446 CTTGAGTAGCACCACCATCAAA 58.589 45.455 0.00 0.00 0.00 2.69
7642 11990 3.057969 TGAGTAGCACCACCATCAAAG 57.942 47.619 0.00 0.00 0.00 2.77
7643 11991 2.371841 TGAGTAGCACCACCATCAAAGT 59.628 45.455 0.00 0.00 0.00 2.66
7644 11992 3.003480 GAGTAGCACCACCATCAAAGTC 58.997 50.000 0.00 0.00 0.00 3.01
7649 12000 2.557924 GCACCACCATCAAAGTCATCAA 59.442 45.455 0.00 0.00 0.00 2.57
7655 12006 5.217393 CACCATCAAAGTCATCAAGTGTTG 58.783 41.667 0.00 0.00 0.00 3.33
7656 12007 4.232221 CCATCAAAGTCATCAAGTGTTGC 58.768 43.478 0.00 0.00 0.00 4.17
7658 12009 3.286353 TCAAAGTCATCAAGTGTTGCCA 58.714 40.909 0.00 0.00 0.00 4.92
7668 12019 2.904866 TGTTGCCACCGCCACTTC 60.905 61.111 0.00 0.00 31.94 3.01
7669 12020 2.594592 GTTGCCACCGCCACTTCT 60.595 61.111 0.00 0.00 0.00 2.85
7670 12021 2.594303 TTGCCACCGCCACTTCTG 60.594 61.111 0.00 0.00 0.00 3.02
7671 12022 3.414136 TTGCCACCGCCACTTCTGT 62.414 57.895 0.00 0.00 0.00 3.41
7672 12023 3.357079 GCCACCGCCACTTCTGTG 61.357 66.667 0.00 0.00 43.45 3.66
7673 12024 3.357079 CCACCGCCACTTCTGTGC 61.357 66.667 0.00 0.00 42.54 4.57
7674 12025 3.716006 CACCGCCACTTCTGTGCG 61.716 66.667 0.00 0.00 42.54 5.34
7675 12026 3.923864 ACCGCCACTTCTGTGCGA 61.924 61.111 4.51 0.00 42.09 5.10
7676 12027 2.434884 CCGCCACTTCTGTGCGAT 60.435 61.111 4.51 0.00 42.09 4.58
7677 12028 2.456119 CCGCCACTTCTGTGCGATC 61.456 63.158 4.51 0.00 42.09 3.69
7678 12029 1.446792 CGCCACTTCTGTGCGATCT 60.447 57.895 0.00 0.00 42.09 2.75
7679 12030 1.016130 CGCCACTTCTGTGCGATCTT 61.016 55.000 0.00 0.00 42.09 2.40
7680 12031 1.735700 CGCCACTTCTGTGCGATCTTA 60.736 52.381 0.00 0.00 42.09 2.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 0.607620 GTTGGTGCTCTCAGCTCTCT 59.392 55.000 0.00 0.00 42.97 3.10
28 29 2.921834 TGCTAAGGGTCTGGTAGACT 57.078 50.000 8.68 0.00 44.46 3.24
34 35 0.749454 GGTGCATGCTAAGGGTCTGG 60.749 60.000 20.33 0.00 0.00 3.86
111 112 2.482490 GCAAGGTCAATGCATTGATCCC 60.482 50.000 37.36 32.99 46.51 3.85
222 235 3.256960 ATGGTGGGTCTTGGCGGT 61.257 61.111 0.00 0.00 0.00 5.68
253 266 2.562912 GTGGAGTGGCGTTGCATG 59.437 61.111 0.00 0.00 0.00 4.06
319 376 1.535462 CGCCTTTGATGTCGTTTTCCT 59.465 47.619 0.00 0.00 0.00 3.36
340 397 3.448660 TCTTGCGGATCGGATGATATCAT 59.551 43.478 18.21 18.21 39.70 2.45
344 401 1.272490 GGTCTTGCGGATCGGATGATA 59.728 52.381 4.16 0.00 34.56 2.15
359 416 1.763545 GAAAGCCTAGATCCGGGTCTT 59.236 52.381 25.19 2.55 0.00 3.01
643 706 2.707849 CCCCGTTCAGATCCGTCGT 61.708 63.158 0.00 0.00 0.00 4.34
672 735 0.888736 CAAGCGATGGTTGGTGGTCA 60.889 55.000 0.97 0.00 37.38 4.02
972 1050 0.818296 CGTGATCCTCCTCTTTCCGT 59.182 55.000 0.00 0.00 0.00 4.69
1018 1096 1.874345 AACCTAGACAGACGCCACCG 61.874 60.000 0.00 0.00 41.14 4.94
1026 1104 7.672660 TGGATAGACAACTTAAACCTAGACAGA 59.327 37.037 0.00 0.00 0.00 3.41
1028 1106 7.786046 TGGATAGACAACTTAAACCTAGACA 57.214 36.000 0.00 0.00 0.00 3.41
1146 1226 5.520288 GCGAGTGAGCAACTATAATTCAGAA 59.480 40.000 0.00 0.00 40.07 3.02
1383 1466 7.002879 AGCTCATGGCATTTTTCATACTCTAT 58.997 34.615 0.00 0.00 44.79 1.98
1384 1467 6.359804 AGCTCATGGCATTTTTCATACTCTA 58.640 36.000 0.00 0.00 44.79 2.43
1387 1470 5.927281 AAGCTCATGGCATTTTTCATACT 57.073 34.783 0.00 0.00 44.79 2.12
1502 1585 1.619827 TCTCCGGCCGTTTCTCTTAAA 59.380 47.619 26.12 0.00 0.00 1.52
1898 2131 7.076842 ACACTGCATAGTTGTGATGATTTAC 57.923 36.000 9.75 0.00 34.07 2.01
2069 2346 8.188139 TGAAAAATAAGTTCCAACTCAAGTCAC 58.812 33.333 0.00 0.00 38.57 3.67
2421 2701 7.817962 GTGCTCAGTTAGGAAGTTACATAAGAA 59.182 37.037 0.00 0.00 0.00 2.52
2423 2703 7.324178 AGTGCTCAGTTAGGAAGTTACATAAG 58.676 38.462 0.00 0.00 0.00 1.73
2426 2706 5.337652 GGAGTGCTCAGTTAGGAAGTTACAT 60.338 44.000 1.41 0.00 0.00 2.29
2743 3236 7.809331 TGTAATAGCGTATGGAAAATACTACCG 59.191 37.037 0.00 0.00 0.00 4.02
2825 3318 5.333875 GCCACGAGTAGAAGGTAAAAAGTTG 60.334 44.000 0.00 0.00 0.00 3.16
2935 3431 0.742505 CGCCTGCCAATGAATGACAT 59.257 50.000 0.00 0.00 41.45 3.06
3158 5447 8.353423 ACATATATCCAGTTTCTGCTGTTTTT 57.647 30.769 0.00 0.00 34.84 1.94
3384 5673 6.013984 ACCCTTATCTTCGTCAACCTAAGAAA 60.014 38.462 0.00 0.00 33.26 2.52
3433 5728 4.142752 GGCCTACAAAGTTAAATCGTCACC 60.143 45.833 0.00 0.00 0.00 4.02
3510 5805 5.984725 TGTCCGGAGAGCTTATCATTAAAA 58.015 37.500 3.06 0.00 0.00 1.52
3863 6384 7.861872 ACCACAACAATATAACGTTACCAAAAC 59.138 33.333 10.81 0.00 0.00 2.43
3866 6387 7.507733 AACCACAACAATATAACGTTACCAA 57.492 32.000 10.81 0.00 0.00 3.67
3965 6486 8.585881 GCAGATAACTATAGACCATGACCTTAA 58.414 37.037 6.78 0.00 0.00 1.85
4055 6576 1.276989 CTACCCACAGGCCGACTTTTA 59.723 52.381 0.00 0.00 36.11 1.52
4396 7043 3.487942 CGCATCATTAACATGCCACAATG 59.512 43.478 13.24 0.00 43.27 2.82
4578 7422 8.969267 GGATATTGAACTGTAGTAGATTCAACG 58.031 37.037 0.67 0.00 38.26 4.10
4597 7444 9.933723 AAGGAAACAAATCTTTGAAGGATATTG 57.066 29.630 9.53 9.11 40.55 1.90
4710 7600 3.003068 CCTGCTCAGACAAAAGTTCTGTG 59.997 47.826 0.00 0.00 41.22 3.66
4764 7654 4.074970 CACCCAGCACTACTTTCTCAATT 58.925 43.478 0.00 0.00 0.00 2.32
5186 8647 7.703298 TCTTCATTTTGAGTTCATGCAAAAG 57.297 32.000 12.45 7.01 44.30 2.27
5309 9104 5.821516 ACATAACAAGGTTTGTCGTCAAA 57.178 34.783 3.64 3.64 44.59 2.69
5317 9112 5.748152 CACCTGTTGAACATAACAAGGTTTG 59.252 40.000 0.00 0.00 39.81 2.93
5618 9423 6.299141 TCAAGCTGAAGTTTGGACTTATCTT 58.701 36.000 7.00 0.00 45.88 2.40
5752 9562 1.340889 TCAACACTTGAAATGCCCTGC 59.659 47.619 0.00 0.00 36.59 4.85
5766 9576 4.098416 GTTGACAACAGCTCTTTCAACAC 58.902 43.478 13.52 0.00 43.60 3.32
5884 9895 4.649692 AGCATTGAAGAAGTCACAGTGAT 58.350 39.130 6.51 0.00 35.39 3.06
6165 10181 9.685276 TTAAAATGGTGATCAGTGTAAGATGAT 57.315 29.630 0.00 0.00 38.84 2.45
6481 10532 3.129287 ACAGGTGTTCTTTTGCAACAGAG 59.871 43.478 14.55 6.39 34.40 3.35
6520 10757 9.589111 GTCCAAAACAGGTTAAGAACAATAAAA 57.411 29.630 0.00 0.00 0.00 1.52
6521 10758 7.916450 CGTCCAAAACAGGTTAAGAACAATAAA 59.084 33.333 0.00 0.00 0.00 1.40
6522 10759 7.419204 CGTCCAAAACAGGTTAAGAACAATAA 58.581 34.615 0.00 0.00 0.00 1.40
6523 10760 6.016943 CCGTCCAAAACAGGTTAAGAACAATA 60.017 38.462 0.00 0.00 0.00 1.90
6524 10761 5.221165 CCGTCCAAAACAGGTTAAGAACAAT 60.221 40.000 0.00 0.00 0.00 2.71
6525 10762 4.096682 CCGTCCAAAACAGGTTAAGAACAA 59.903 41.667 0.00 0.00 0.00 2.83
6526 10763 3.628487 CCGTCCAAAACAGGTTAAGAACA 59.372 43.478 0.00 0.00 0.00 3.18
6527 10764 3.549423 GCCGTCCAAAACAGGTTAAGAAC 60.549 47.826 0.00 0.00 0.00 3.01
6528 10765 2.619646 GCCGTCCAAAACAGGTTAAGAA 59.380 45.455 0.00 0.00 0.00 2.52
6529 10766 2.223745 GCCGTCCAAAACAGGTTAAGA 58.776 47.619 0.00 0.00 0.00 2.10
6530 10767 1.950909 TGCCGTCCAAAACAGGTTAAG 59.049 47.619 0.00 0.00 0.00 1.85
6531 10768 1.677052 GTGCCGTCCAAAACAGGTTAA 59.323 47.619 0.00 0.00 0.00 2.01
6532 10769 1.134037 AGTGCCGTCCAAAACAGGTTA 60.134 47.619 0.00 0.00 0.00 2.85
6533 10770 0.395173 AGTGCCGTCCAAAACAGGTT 60.395 50.000 0.00 0.00 0.00 3.50
6534 10771 1.101049 CAGTGCCGTCCAAAACAGGT 61.101 55.000 0.00 0.00 0.00 4.00
6572 10864 4.037446 TGTCTGTTTGGTTAAGGATTGCAC 59.963 41.667 0.00 0.00 0.00 4.57
6662 10964 4.914504 CGATCTCACAGTAGAATTGGATCG 59.085 45.833 0.00 0.00 42.79 3.69
6703 11005 4.898265 AGTACAGTCCTATGTCATGCATCT 59.102 41.667 0.00 0.00 38.94 2.90
6779 11081 9.489084 CAACCGAATGAAATCCTAACATAGATA 57.511 33.333 0.00 0.00 0.00 1.98
6800 11102 5.178996 TGCAATTGGATTTTCATTTCAACCG 59.821 36.000 7.72 0.00 0.00 4.44
6888 11190 4.060205 ACAATTCTTGCCAAAATGACAGC 58.940 39.130 0.00 0.00 0.00 4.40
6910 11212 5.047660 GCCAAACTATGTGTGGGTTTATCAA 60.048 40.000 8.77 0.00 41.05 2.57
6911 11213 4.461081 GCCAAACTATGTGTGGGTTTATCA 59.539 41.667 8.77 0.00 41.05 2.15
6912 11214 4.993905 GCCAAACTATGTGTGGGTTTATC 58.006 43.478 8.77 0.00 41.05 1.75
6971 11273 9.578576 TTTATGGAGCTGCTTCTTATATGAAAT 57.421 29.630 9.76 0.00 0.00 2.17
7015 11317 9.585099 TGGATATTGCAGTTGTAATTGAATTTC 57.415 29.630 0.00 0.00 32.67 2.17
7037 11339 4.080129 ACTGTGTGCTTTATGGAGATGGAT 60.080 41.667 0.00 0.00 0.00 3.41
7064 11371 9.419297 AGTCTTGAACCTTTGTTTTTCTTTTAC 57.581 29.630 0.00 0.00 33.97 2.01
7108 11415 8.528044 TGTAGTATTTTGTCTTCCAAACCTTT 57.472 30.769 0.00 0.00 42.63 3.11
7309 11622 6.884295 TCACGGATCTTATCACTTTGGATTTT 59.116 34.615 0.00 0.00 0.00 1.82
7312 11625 5.614324 TCACGGATCTTATCACTTTGGAT 57.386 39.130 0.00 0.00 0.00 3.41
7313 11626 5.614324 ATCACGGATCTTATCACTTTGGA 57.386 39.130 0.00 0.00 0.00 3.53
7320 11633 4.577834 TTGCGTATCACGGATCTTATCA 57.422 40.909 0.44 0.00 42.59 2.15
7321 11634 4.982916 AGTTTGCGTATCACGGATCTTATC 59.017 41.667 0.44 0.00 42.59 1.75
7324 11637 3.247006 AGTTTGCGTATCACGGATCTT 57.753 42.857 0.44 0.00 42.59 2.40
7325 11638 2.961526 AGTTTGCGTATCACGGATCT 57.038 45.000 0.44 0.00 42.59 2.75
7326 11639 3.441163 TGTAGTTTGCGTATCACGGATC 58.559 45.455 0.44 0.00 42.59 3.36
7327 11640 3.513680 TGTAGTTTGCGTATCACGGAT 57.486 42.857 0.44 0.00 42.59 4.18
7328 11641 2.988493 GTTGTAGTTTGCGTATCACGGA 59.012 45.455 0.44 0.00 42.82 4.69
7329 11642 2.732500 TGTTGTAGTTTGCGTATCACGG 59.267 45.455 0.44 0.00 42.82 4.94
7330 11643 4.377911 TTGTTGTAGTTTGCGTATCACG 57.622 40.909 0.00 0.00 45.88 4.35
7331 11644 5.788531 GTGATTGTTGTAGTTTGCGTATCAC 59.211 40.000 0.00 0.00 34.56 3.06
7332 11645 5.106869 GGTGATTGTTGTAGTTTGCGTATCA 60.107 40.000 0.00 0.00 0.00 2.15
7333 11646 5.106869 TGGTGATTGTTGTAGTTTGCGTATC 60.107 40.000 0.00 0.00 0.00 2.24
7334 11647 4.757657 TGGTGATTGTTGTAGTTTGCGTAT 59.242 37.500 0.00 0.00 0.00 3.06
7337 11650 3.617540 TGGTGATTGTTGTAGTTTGCG 57.382 42.857 0.00 0.00 0.00 4.85
7338 11651 5.861787 GGTTATGGTGATTGTTGTAGTTTGC 59.138 40.000 0.00 0.00 0.00 3.68
7348 11689 3.517296 TGGTGTGGTTATGGTGATTGT 57.483 42.857 0.00 0.00 0.00 2.71
7350 11691 2.817258 CGTTGGTGTGGTTATGGTGATT 59.183 45.455 0.00 0.00 0.00 2.57
7352 11693 1.416772 TCGTTGGTGTGGTTATGGTGA 59.583 47.619 0.00 0.00 0.00 4.02
7353 11694 1.885560 TCGTTGGTGTGGTTATGGTG 58.114 50.000 0.00 0.00 0.00 4.17
7360 11701 1.339055 CCATGAGATCGTTGGTGTGGT 60.339 52.381 0.00 0.00 0.00 4.16
7363 11704 0.324614 TGCCATGAGATCGTTGGTGT 59.675 50.000 11.62 0.00 0.00 4.16
7370 11711 1.865340 CTGTGTGATGCCATGAGATCG 59.135 52.381 0.00 0.00 0.00 3.69
7371 11712 2.871022 GTCTGTGTGATGCCATGAGATC 59.129 50.000 0.00 0.00 0.00 2.75
7377 11718 0.737367 CGTCGTCTGTGTGATGCCAT 60.737 55.000 0.00 0.00 0.00 4.40
7380 11721 0.710567 CTTCGTCGTCTGTGTGATGC 59.289 55.000 0.00 0.00 0.00 3.91
7383 11724 1.674441 AGAACTTCGTCGTCTGTGTGA 59.326 47.619 0.00 0.00 0.00 3.58
7388 11729 3.113322 TGTTGAAGAACTTCGTCGTCTG 58.887 45.455 9.51 0.00 42.28 3.51
7389 11730 3.431922 TGTTGAAGAACTTCGTCGTCT 57.568 42.857 9.51 0.00 42.28 4.18
7395 11739 3.998522 ACGTTGTTGTTGAAGAACTTCG 58.001 40.909 15.66 15.66 42.28 3.79
7396 11740 5.217895 AGACGTTGTTGTTGAAGAACTTC 57.782 39.130 6.76 7.51 35.18 3.01
7415 11759 0.603569 TGTCGCTCCCTTCTGAAGAC 59.396 55.000 18.68 8.38 0.00 3.01
7416 11760 0.603569 GTGTCGCTCCCTTCTGAAGA 59.396 55.000 18.68 0.00 0.00 2.87
7422 11766 1.149148 GTTTGAGTGTCGCTCCCTTC 58.851 55.000 10.87 0.00 43.48 3.46
7423 11767 0.600255 CGTTTGAGTGTCGCTCCCTT 60.600 55.000 10.87 0.00 43.48 3.95
7425 11769 1.282930 GACGTTTGAGTGTCGCTCCC 61.283 60.000 10.87 0.00 43.48 4.30
7428 11772 0.874607 GGTGACGTTTGAGTGTCGCT 60.875 55.000 5.97 0.00 43.37 4.93
7429 11773 1.563173 GGTGACGTTTGAGTGTCGC 59.437 57.895 0.00 0.00 43.17 5.19
7450 11795 0.960364 CTTGGTGGTTGGATCCGGTG 60.960 60.000 7.39 0.00 0.00 4.94
7460 11805 3.456277 CCTAGATTCTAGCCTTGGTGGTT 59.544 47.826 14.23 0.00 38.35 3.67
7469 11814 5.360649 AGGTGAAAACCTAGATTCTAGCC 57.639 43.478 14.23 8.65 38.58 3.93
7471 11816 8.314751 TCTTCAAGGTGAAAACCTAGATTCTAG 58.685 37.037 12.94 12.94 39.65 2.43
7480 11826 6.015095 GGATTGATTCTTCAAGGTGAAAACCT 60.015 38.462 0.00 0.00 44.75 3.50
7491 11837 2.505650 TGCCCGGATTGATTCTTCAA 57.494 45.000 0.73 0.00 45.57 2.69
7499 11845 1.545428 GCTTGGATATGCCCGGATTGA 60.545 52.381 0.73 0.00 34.97 2.57
7507 11854 1.103398 AGGCGTTGCTTGGATATGCC 61.103 55.000 0.00 0.00 42.91 4.40
7517 11864 2.263741 CCTTGCTGAAGGCGTTGCT 61.264 57.895 0.00 0.00 42.60 3.91
7530 11877 7.095816 GGTGATGTTTTTACATTGTTACCTTGC 60.096 37.037 0.00 0.00 0.00 4.01
7539 11886 5.699915 TGGCAATGGTGATGTTTTTACATTG 59.300 36.000 9.99 9.99 44.68 2.82
7540 11887 5.862845 TGGCAATGGTGATGTTTTTACATT 58.137 33.333 0.00 0.00 0.00 2.71
7544 11891 3.900601 ACCTGGCAATGGTGATGTTTTTA 59.099 39.130 0.00 0.00 36.30 1.52
7554 11901 3.011257 AGTTGGTTATACCTGGCAATGGT 59.989 43.478 3.71 3.71 39.58 3.55
7568 11915 0.606604 GGTCTGGCTCGAGTTGGTTA 59.393 55.000 15.13 0.00 0.00 2.85
7581 11928 1.280457 AGGTGAAAGCCTAGGTCTGG 58.720 55.000 11.31 0.00 37.04 3.86
7582 11929 2.616510 CCAAGGTGAAAGCCTAGGTCTG 60.617 54.545 11.31 0.00 38.03 3.51
7589 11936 0.037447 GAGCTCCAAGGTGAAAGCCT 59.963 55.000 0.87 0.00 41.41 4.58
7591 11939 1.916697 GCGAGCTCCAAGGTGAAAGC 61.917 60.000 8.47 0.00 34.95 3.51
7592 11940 1.630244 CGCGAGCTCCAAGGTGAAAG 61.630 60.000 8.47 0.00 0.00 2.62
7598 11946 1.945354 TTAGGTCGCGAGCTCCAAGG 61.945 60.000 40.63 0.00 40.09 3.61
7600 11948 0.179111 CATTAGGTCGCGAGCTCCAA 60.179 55.000 40.63 30.44 40.09 3.53
7601 11949 1.437573 CATTAGGTCGCGAGCTCCA 59.562 57.895 40.63 28.98 40.09 3.86
7622 11970 2.371841 ACTTTGATGGTGGTGCTACTCA 59.628 45.455 0.00 0.00 0.00 3.41
7625 11973 2.778299 TGACTTTGATGGTGGTGCTAC 58.222 47.619 0.00 0.00 0.00 3.58
7626 11974 3.008923 TGATGACTTTGATGGTGGTGCTA 59.991 43.478 0.00 0.00 0.00 3.49
7637 11985 3.286353 TGGCAACACTTGATGACTTTGA 58.714 40.909 0.00 0.00 46.17 2.69
7638 11986 3.713858 TGGCAACACTTGATGACTTTG 57.286 42.857 0.00 0.00 46.17 2.77
7655 12006 3.357079 CACAGAAGTGGCGGTGGC 61.357 66.667 0.00 0.00 42.13 5.01
7656 12007 3.357079 GCACAGAAGTGGCGGTGG 61.357 66.667 0.00 0.00 45.98 4.61
7658 12009 3.240134 ATCGCACAGAAGTGGCGGT 62.240 57.895 5.39 0.00 45.98 5.68


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

AutoCloner maintained by Alex Coulton.