Multiple sequence alignment - TraesCS7A01G426100

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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 TraesCS7A01G426100 chr7A 100.000 3367 0 0 1 3367 619168063 619164697 0.000000e+00 6218.0
1 TraesCS7A01G426100 chr7A 89.465 1870 108 48 557 2385 619577222 619575401 0.000000e+00 2279.0
2 TraesCS7A01G426100 chr7A 88.536 1605 113 50 870 2430 620171357 620172934 0.000000e+00 1879.0
3 TraesCS7A01G426100 chr7A 88.665 1438 120 28 870 2273 620201263 620202691 0.000000e+00 1712.0
4 TraesCS7A01G426100 chr7A 86.196 1514 113 57 682 2151 619906733 619908194 0.000000e+00 1550.0
5 TraesCS7A01G426100 chr7A 84.665 1539 129 64 682 2166 619634465 619632980 0.000000e+00 1435.0
6 TraesCS7A01G426100 chr7A 80.517 580 89 8 1 560 619578092 619577517 1.120000e-114 424.0
7 TraesCS7A01G426100 chr7A 86.410 390 19 13 2994 3367 619574951 619574580 2.430000e-106 396.0
8 TraesCS7A01G426100 chr7A 90.033 301 20 3 3057 3357 620173836 620174126 6.820000e-102 381.0
9 TraesCS7A01G426100 chr7A 90.345 290 19 2 3068 3357 619290331 619290051 4.100000e-99 372.0
10 TraesCS7A01G426100 chr7A 80.176 454 67 8 1 439 584395761 584395316 5.420000e-83 318.0
11 TraesCS7A01G426100 chr7A 91.453 234 15 5 3135 3367 619290594 619290365 1.950000e-82 316.0
12 TraesCS7A01G426100 chr7A 87.285 291 18 9 2621 2898 619575331 619575047 7.010000e-82 315.0
13 TraesCS7A01G426100 chr7A 80.964 415 33 25 2620 2996 620172925 620173331 1.530000e-73 287.0
14 TraesCS7A01G426100 chr7A 87.500 192 17 6 2429 2618 40742655 40742841 7.320000e-52 215.0
15 TraesCS7A01G426100 chr7A 82.022 267 22 12 2619 2859 619291153 619290887 1.580000e-48 204.0
16 TraesCS7A01G426100 chr7A 84.795 171 3 10 2994 3151 619290776 619290616 2.090000e-32 150.0
17 TraesCS7A01G426100 chr7A 93.443 61 4 0 2369 2429 619575384 619575324 1.290000e-14 91.6
18 TraesCS7A01G426100 chr7A 96.774 31 1 0 2366 2396 620178834 620178864 6.000000e-03 52.8
19 TraesCS7A01G426100 chr7D 90.501 1916 112 43 482 2364 538141441 538139563 0.000000e+00 2466.0
20 TraesCS7A01G426100 chr7D 85.671 1647 140 46 836 2429 538661798 538663401 0.000000e+00 1646.0
21 TraesCS7A01G426100 chr7D 88.085 1368 88 35 836 2151 538602389 538603733 0.000000e+00 1554.0
22 TraesCS7A01G426100 chr7D 85.808 1522 142 54 682 2157 538585822 538587315 0.000000e+00 1546.0
23 TraesCS7A01G426100 chr7D 88.298 1316 102 26 865 2151 538594545 538595837 0.000000e+00 1530.0
24 TraesCS7A01G426100 chr7D 84.597 831 76 20 232 1045 538240751 538239956 0.000000e+00 778.0
25 TraesCS7A01G426100 chr7D 80.313 767 70 41 479 1188 538333898 538333156 3.880000e-139 505.0
26 TraesCS7A01G426100 chr7D 84.110 472 60 5 1 460 538142192 538141724 3.080000e-120 442.0
27 TraesCS7A01G426100 chr7D 87.037 378 25 10 2619 2996 538139547 538139194 4.050000e-109 405.0
28 TraesCS7A01G426100 chr7D 91.845 233 10 6 3138 3367 538138971 538138745 1.950000e-82 316.0
29 TraesCS7A01G426100 chr7D 84.385 301 42 4 2 302 235496378 235496083 1.180000e-74 291.0
30 TraesCS7A01G426100 chr7D 90.244 164 8 5 2994 3151 538139157 538138996 1.220000e-49 207.0
31 TraesCS7A01G426100 chr7D 88.189 127 10 2 3241 3367 538665797 538665918 2.710000e-31 147.0
32 TraesCS7A01G426100 chr7D 91.429 70 4 1 2329 2396 538663786 538663855 9.950000e-16 95.3
33 TraesCS7A01G426100 chr7B 86.841 2029 158 55 465 2429 580886283 580884300 0.000000e+00 2167.0
34 TraesCS7A01G426100 chr7B 86.194 1579 101 56 870 2399 581333207 581334717 0.000000e+00 1600.0
35 TraesCS7A01G426100 chr7B 83.279 1836 161 92 479 2235 580970926 580969158 0.000000e+00 1555.0
36 TraesCS7A01G426100 chr7B 93.333 300 11 7 2620 2916 580884308 580884015 5.160000e-118 435.0
37 TraesCS7A01G426100 chr7B 81.579 380 28 17 2996 3367 580883862 580883517 3.310000e-70 276.0
38 TraesCS7A01G426100 chr7B 86.070 201 24 2 7 207 72115000 72114804 2.630000e-51 213.0
39 TraesCS7A01G426100 chr7B 84.817 191 21 5 2429 2618 104509539 104509722 5.740000e-43 185.0
40 TraesCS7A01G426100 chr7B 82.645 121 9 6 690 808 581306803 581306913 2.770000e-16 97.1
41 TraesCS7A01G426100 chr5D 82.521 349 44 11 8 345 110878416 110878074 1.180000e-74 291.0
42 TraesCS7A01G426100 chr4D 79.147 422 70 7 6 413 354007993 354008410 3.310000e-70 276.0
43 TraesCS7A01G426100 chr6D 82.609 299 43 7 8 302 13032643 13032350 4.310000e-64 255.0
44 TraesCS7A01G426100 chr3B 82.373 295 42 8 12 302 228692840 228693128 7.210000e-62 248.0
45 TraesCS7A01G426100 chr3A 81.884 276 42 5 31 302 66221364 66221093 3.380000e-55 226.0
46 TraesCS7A01G426100 chr3A 86.911 191 17 5 2429 2618 22442164 22442347 1.220000e-49 207.0
47 TraesCS7A01G426100 chr3A 85.789 190 18 7 2430 2615 562342273 562342457 3.430000e-45 193.0
48 TraesCS7A01G426100 chr3D 87.435 191 15 6 2429 2618 391245385 391245567 9.470000e-51 211.0
49 TraesCS7A01G426100 chr6B 86.070 201 20 5 2433 2630 59733616 59733421 3.400000e-50 209.0
50 TraesCS7A01G426100 chr5A 86.316 190 20 5 2433 2621 11020634 11020450 5.700000e-48 202.0
51 TraesCS7A01G426100 chr1A 86.631 187 19 3 2433 2618 42218209 42218028 5.700000e-48 202.0
52 TraesCS7A01G426100 chr1D 85.789 190 20 4 2430 2618 109480383 109480566 9.530000e-46 195.0


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 TraesCS7A01G426100 chr7A 619164697 619168063 3366 True 6218.000000 6218 100.000000 1 3367 1 chr7A.!!$R2 3366
1 TraesCS7A01G426100 chr7A 620201263 620202691 1428 False 1712.000000 1712 88.665000 870 2273 1 chr7A.!!$F4 1403
2 TraesCS7A01G426100 chr7A 619906733 619908194 1461 False 1550.000000 1550 86.196000 682 2151 1 chr7A.!!$F2 1469
3 TraesCS7A01G426100 chr7A 619632980 619634465 1485 True 1435.000000 1435 84.665000 682 2166 1 chr7A.!!$R3 1484
4 TraesCS7A01G426100 chr7A 620171357 620174126 2769 False 849.000000 1879 86.511000 870 3357 3 chr7A.!!$F5 2487
5 TraesCS7A01G426100 chr7A 619574580 619578092 3512 True 701.120000 2279 87.424000 1 3367 5 chr7A.!!$R5 3366
6 TraesCS7A01G426100 chr7A 619290051 619291153 1102 True 260.500000 372 87.153750 2619 3367 4 chr7A.!!$R4 748
7 TraesCS7A01G426100 chr7D 538602389 538603733 1344 False 1554.000000 1554 88.085000 836 2151 1 chr7D.!!$F3 1315
8 TraesCS7A01G426100 chr7D 538585822 538587315 1493 False 1546.000000 1546 85.808000 682 2157 1 chr7D.!!$F1 1475
9 TraesCS7A01G426100 chr7D 538594545 538595837 1292 False 1530.000000 1530 88.298000 865 2151 1 chr7D.!!$F2 1286
10 TraesCS7A01G426100 chr7D 538239956 538240751 795 True 778.000000 778 84.597000 232 1045 1 chr7D.!!$R2 813
11 TraesCS7A01G426100 chr7D 538138745 538142192 3447 True 767.200000 2466 88.747400 1 3367 5 chr7D.!!$R4 3366
12 TraesCS7A01G426100 chr7D 538661798 538665918 4120 False 629.433333 1646 88.429667 836 3367 3 chr7D.!!$F4 2531
13 TraesCS7A01G426100 chr7D 538333156 538333898 742 True 505.000000 505 80.313000 479 1188 1 chr7D.!!$R3 709
14 TraesCS7A01G426100 chr7B 581333207 581334717 1510 False 1600.000000 1600 86.194000 870 2399 1 chr7B.!!$F3 1529
15 TraesCS7A01G426100 chr7B 580969158 580970926 1768 True 1555.000000 1555 83.279000 479 2235 1 chr7B.!!$R2 1756
16 TraesCS7A01G426100 chr7B 580883517 580886283 2766 True 959.333333 2167 87.251000 465 3367 3 chr7B.!!$R3 2902

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
57 58 0.034863 GGTGGGAAAATGTAGGCCGA 60.035 55.0 0.00 0.0 0.0 5.54 F
60 61 0.730840 GGGAAAATGTAGGCCGAACG 59.269 55.0 0.00 0.0 0.0 3.95 F
1691 2456 0.249911 AAGAACGCCGGCCATCTATC 60.250 55.0 24.33 12.8 0.0 2.08 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1080 1785 0.447801 GAGCCATGCGTTTCGTGATT 59.552 50.0 0.00 0.0 33.49 2.57 R
1787 2577 0.544697 GGTTCTTGGGGAAGGCGATA 59.455 55.0 0.00 0.0 34.23 2.92 R
2900 4836 0.250640 GTAGGGATGAGGGCATGCAG 60.251 60.0 21.36 0.0 43.84 4.41 R

All possible primers

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

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
54 55 2.092323 GTGAGGTGGGAAAATGTAGGC 58.908 52.381 0.00 0.00 0.00 3.93
57 58 0.034863 GGTGGGAAAATGTAGGCCGA 60.035 55.000 0.00 0.00 0.00 5.54
60 61 0.730840 GGGAAAATGTAGGCCGAACG 59.269 55.000 0.00 0.00 0.00 3.95
76 77 2.870161 CGCGAACGACGTCTCCAG 60.870 66.667 14.70 0.00 43.93 3.86
89 90 3.181443 ACGTCTCCAGGAAGAAAAATGGT 60.181 43.478 0.00 0.00 34.32 3.55
96 97 4.508405 CCAGGAAGAAAAATGGTACCCTCA 60.508 45.833 10.07 0.00 0.00 3.86
171 173 1.083706 AGATCCCCACCTCCTGCTT 59.916 57.895 0.00 0.00 0.00 3.91
208 214 2.108976 GCTAGCAGCACGGCCATA 59.891 61.111 10.63 0.00 41.89 2.74
380 400 0.768622 TCACCAAAGGGACCGTCATT 59.231 50.000 0.00 0.00 38.05 2.57
384 404 1.557832 CCAAAGGGACCGTCATTCCTA 59.442 52.381 0.00 0.00 35.59 2.94
413 433 2.897350 GCAGCCGATGTACCAGCC 60.897 66.667 0.00 0.00 0.00 4.85
414 434 2.903357 CAGCCGATGTACCAGCCT 59.097 61.111 0.00 0.00 0.00 4.58
433 453 2.185608 GAGCAGACGGAGAAGGGC 59.814 66.667 0.00 0.00 0.00 5.19
437 457 4.332543 AGACGGAGAAGGGCCCCA 62.333 66.667 21.43 0.00 0.00 4.96
451 471 5.320488 AGGGCCCCACTTATACTTTTATC 57.680 43.478 21.43 0.00 0.00 1.75
475 495 1.993370 CTTAGTCGCCCAAAAGACGAG 59.007 52.381 0.00 0.00 41.86 4.18
506 787 4.748892 ACATACGAGGAATCTTCACACTG 58.251 43.478 0.00 0.00 0.00 3.66
565 1146 2.632996 CGTCCATCCCTGCTTATTCCTA 59.367 50.000 0.00 0.00 0.00 2.94
574 1155 7.387265 TCCCTGCTTATTCCTATGTTCATAA 57.613 36.000 0.00 0.00 0.00 1.90
576 1157 7.939039 TCCCTGCTTATTCCTATGTTCATAAAG 59.061 37.037 0.00 0.00 0.00 1.85
749 1337 4.619336 GTCTCGATCGATTCTTAATGGCTC 59.381 45.833 19.78 0.00 0.00 4.70
979 1645 7.474936 GCTCATCTCCAAACCCCTATATAAACT 60.475 40.741 0.00 0.00 0.00 2.66
1047 1717 3.134262 CAGCTTTCTCCTCCTCATCATCA 59.866 47.826 0.00 0.00 0.00 3.07
1048 1718 3.779183 AGCTTTCTCCTCCTCATCATCAA 59.221 43.478 0.00 0.00 0.00 2.57
1050 1720 3.808466 TTCTCCTCCTCATCATCAACG 57.192 47.619 0.00 0.00 0.00 4.10
1051 1721 2.739943 TCTCCTCCTCATCATCAACGT 58.260 47.619 0.00 0.00 0.00 3.99
1052 1722 3.099905 TCTCCTCCTCATCATCAACGTT 58.900 45.455 0.00 0.00 0.00 3.99
1054 1724 3.099905 TCCTCCTCATCATCAACGTTCT 58.900 45.455 0.00 0.00 0.00 3.01
1080 1785 3.128349 GTTGAGTGAGCGTACTTTTGGA 58.872 45.455 0.00 0.00 0.00 3.53
1082 1787 4.002906 TGAGTGAGCGTACTTTTGGAAT 57.997 40.909 0.00 0.00 0.00 3.01
1182 1900 1.001597 GACAAGGAGTTCGACGTCACT 60.002 52.381 17.16 12.40 0.00 3.41
1356 2074 0.864377 CCGTCACCGCATACTACGTG 60.864 60.000 0.00 0.00 31.87 4.49
1424 2172 2.096819 TGCCTAACAAAAATCGATCGGC 59.903 45.455 16.41 6.45 35.67 5.54
1496 2244 1.215647 CGACTTCGAGTTCCTGGGG 59.784 63.158 0.00 0.00 43.02 4.96
1658 2407 2.177394 TGTAAGCTGTTGATCGCCAA 57.823 45.000 0.00 0.00 0.00 4.52
1691 2456 0.249911 AAGAACGCCGGCCATCTATC 60.250 55.000 24.33 12.80 0.00 2.08
1705 2484 5.338219 GGCCATCTATCTATTCAGCAGATGT 60.338 44.000 0.00 0.00 38.32 3.06
1754 2544 2.114670 CATGGTGGACGACATGCCC 61.115 63.158 0.00 0.00 38.15 5.36
1787 2577 0.103876 AGAACCTGGAGGGAAAGGGT 60.104 55.000 0.00 0.00 40.27 4.34
2043 2851 2.441051 AGGAGCTGGACCTGACGA 59.559 61.111 1.91 0.00 36.30 4.20
2173 2983 0.610174 TGTCCACTCAGCAAGCTAGG 59.390 55.000 0.00 0.00 0.00 3.02
2174 2984 0.107945 GTCCACTCAGCAAGCTAGGG 60.108 60.000 0.00 0.00 0.00 3.53
2235 3053 0.464554 CCGGAGAAAGGGAAGATGGC 60.465 60.000 0.00 0.00 0.00 4.40
2282 3107 1.150536 CCGGTGTGGGGGATAATGG 59.849 63.158 0.00 0.00 0.00 3.16
2403 3767 3.063485 GTTGCTCTCTGTTCCACTTCTC 58.937 50.000 0.00 0.00 0.00 2.87
2419 3783 1.898574 CTCTGCAACGGCTTGGGTT 60.899 57.895 0.00 0.00 41.91 4.11
2420 3784 2.133742 CTCTGCAACGGCTTGGGTTG 62.134 60.000 0.54 0.54 45.76 3.77
2421 3785 2.124109 TGCAACGGCTTGGGTTGA 60.124 55.556 8.69 0.00 45.85 3.18
2422 3786 1.526575 CTGCAACGGCTTGGGTTGAT 61.527 55.000 8.69 0.00 45.85 2.57
2423 3787 1.112315 TGCAACGGCTTGGGTTGATT 61.112 50.000 8.69 0.00 45.85 2.57
2424 3788 0.885196 GCAACGGCTTGGGTTGATTA 59.115 50.000 8.69 0.00 45.85 1.75
2425 3789 1.476488 GCAACGGCTTGGGTTGATTAT 59.524 47.619 8.69 0.00 45.85 1.28
2426 3790 2.094234 GCAACGGCTTGGGTTGATTATT 60.094 45.455 8.69 0.00 45.85 1.40
2427 3791 3.769536 CAACGGCTTGGGTTGATTATTC 58.230 45.455 0.00 0.00 45.85 1.75
2428 3792 2.014128 ACGGCTTGGGTTGATTATTCG 58.986 47.619 0.00 0.00 0.00 3.34
2429 3793 1.268539 CGGCTTGGGTTGATTATTCGC 60.269 52.381 0.00 0.00 0.00 4.70
2430 3794 1.748493 GGCTTGGGTTGATTATTCGCA 59.252 47.619 0.00 0.00 0.00 5.10
2431 3795 2.479560 GGCTTGGGTTGATTATTCGCAC 60.480 50.000 0.00 0.00 0.00 5.34
2432 3796 2.423538 GCTTGGGTTGATTATTCGCACT 59.576 45.455 0.00 0.00 0.00 4.40
2433 3797 3.731867 GCTTGGGTTGATTATTCGCACTG 60.732 47.826 0.00 0.00 0.00 3.66
2434 3798 2.364632 TGGGTTGATTATTCGCACTGG 58.635 47.619 0.00 0.00 0.00 4.00
2435 3799 1.065551 GGGTTGATTATTCGCACTGGC 59.934 52.381 0.00 0.00 0.00 4.85
2457 3821 5.201713 CGGAGCCAGAAACTGAATATAGA 57.798 43.478 0.00 0.00 32.44 1.98
2458 3822 5.601662 CGGAGCCAGAAACTGAATATAGAA 58.398 41.667 0.00 0.00 32.44 2.10
2459 3823 5.694006 CGGAGCCAGAAACTGAATATAGAAG 59.306 44.000 0.00 0.00 32.44 2.85
2460 3824 5.994668 GGAGCCAGAAACTGAATATAGAAGG 59.005 44.000 0.00 0.00 32.44 3.46
2461 3825 5.934781 AGCCAGAAACTGAATATAGAAGGG 58.065 41.667 0.00 0.00 32.44 3.95
2462 3826 5.066593 GCCAGAAACTGAATATAGAAGGGG 58.933 45.833 0.00 0.00 32.44 4.79
2463 3827 5.066593 CCAGAAACTGAATATAGAAGGGGC 58.933 45.833 0.00 0.00 32.44 5.80
2464 3828 5.066593 CAGAAACTGAATATAGAAGGGGCC 58.933 45.833 0.00 0.00 32.44 5.80
2465 3829 4.726825 AGAAACTGAATATAGAAGGGGCCA 59.273 41.667 4.39 0.00 0.00 5.36
2466 3830 5.193728 AGAAACTGAATATAGAAGGGGCCAA 59.806 40.000 4.39 0.00 0.00 4.52
2467 3831 5.466127 AACTGAATATAGAAGGGGCCAAA 57.534 39.130 4.39 0.00 0.00 3.28
2468 3832 5.466127 ACTGAATATAGAAGGGGCCAAAA 57.534 39.130 4.39 0.00 0.00 2.44
2469 3833 5.201243 ACTGAATATAGAAGGGGCCAAAAC 58.799 41.667 4.39 0.00 0.00 2.43
2470 3834 5.199982 TGAATATAGAAGGGGCCAAAACA 57.800 39.130 4.39 0.00 0.00 2.83
2471 3835 5.776358 TGAATATAGAAGGGGCCAAAACAT 58.224 37.500 4.39 0.00 0.00 2.71
2472 3836 5.598005 TGAATATAGAAGGGGCCAAAACATG 59.402 40.000 4.39 0.00 0.00 3.21
2473 3837 2.990740 TAGAAGGGGCCAAAACATGT 57.009 45.000 4.39 0.00 0.00 3.21
2474 3838 1.632589 AGAAGGGGCCAAAACATGTC 58.367 50.000 4.39 0.00 0.00 3.06
2475 3839 1.133199 AGAAGGGGCCAAAACATGTCA 60.133 47.619 4.39 0.00 0.00 3.58
2476 3840 1.901833 GAAGGGGCCAAAACATGTCAT 59.098 47.619 4.39 0.00 0.00 3.06
2477 3841 2.917713 AGGGGCCAAAACATGTCATA 57.082 45.000 4.39 0.00 0.00 2.15
2478 3842 3.403228 AGGGGCCAAAACATGTCATAT 57.597 42.857 4.39 0.00 0.00 1.78
2479 3843 4.534647 AGGGGCCAAAACATGTCATATA 57.465 40.909 4.39 0.00 0.00 0.86
2480 3844 4.877773 AGGGGCCAAAACATGTCATATAA 58.122 39.130 4.39 0.00 0.00 0.98
2481 3845 5.466819 AGGGGCCAAAACATGTCATATAAT 58.533 37.500 4.39 0.00 0.00 1.28
2482 3846 6.619464 AGGGGCCAAAACATGTCATATAATA 58.381 36.000 4.39 0.00 0.00 0.98
2483 3847 6.493458 AGGGGCCAAAACATGTCATATAATAC 59.507 38.462 4.39 0.00 0.00 1.89
2484 3848 6.266558 GGGGCCAAAACATGTCATATAATACA 59.733 38.462 4.39 0.00 0.00 2.29
2485 3849 7.370383 GGGCCAAAACATGTCATATAATACAG 58.630 38.462 4.39 0.00 0.00 2.74
2486 3850 7.014230 GGGCCAAAACATGTCATATAATACAGT 59.986 37.037 4.39 0.00 0.00 3.55
2487 3851 9.062524 GGCCAAAACATGTCATATAATACAGTA 57.937 33.333 0.00 0.00 0.00 2.74
2497 3861 9.488762 TGTCATATAATACAGTATTAGAGGGGG 57.511 37.037 15.97 6.24 34.42 5.40
2498 3862 8.422566 GTCATATAATACAGTATTAGAGGGGGC 58.577 40.741 15.97 6.42 34.42 5.80
2499 3863 7.567622 TCATATAATACAGTATTAGAGGGGGCC 59.432 40.741 15.97 0.00 34.42 5.80
2500 3864 3.648683 ATACAGTATTAGAGGGGGCCA 57.351 47.619 4.39 0.00 0.00 5.36
2501 3865 2.280308 ACAGTATTAGAGGGGGCCAA 57.720 50.000 4.39 0.00 0.00 4.52
2502 3866 2.568979 ACAGTATTAGAGGGGGCCAAA 58.431 47.619 4.39 0.00 0.00 3.28
2503 3867 3.131252 ACAGTATTAGAGGGGGCCAAAT 58.869 45.455 4.39 0.00 0.00 2.32
2504 3868 3.138468 ACAGTATTAGAGGGGGCCAAATC 59.862 47.826 4.39 0.00 0.00 2.17
2505 3869 3.138283 CAGTATTAGAGGGGGCCAAATCA 59.862 47.826 4.39 0.00 0.00 2.57
2506 3870 2.755952 ATTAGAGGGGGCCAAATCAC 57.244 50.000 4.39 0.00 0.00 3.06
2507 3871 0.254747 TTAGAGGGGGCCAAATCACG 59.745 55.000 4.39 0.00 0.00 4.35
2508 3872 0.912487 TAGAGGGGGCCAAATCACGT 60.912 55.000 4.39 0.00 0.00 4.49
2509 3873 0.912487 AGAGGGGGCCAAATCACGTA 60.912 55.000 4.39 0.00 0.00 3.57
2510 3874 0.034863 GAGGGGGCCAAATCACGTAA 60.035 55.000 4.39 0.00 0.00 3.18
2511 3875 0.406361 AGGGGGCCAAATCACGTAAA 59.594 50.000 4.39 0.00 0.00 2.01
2512 3876 0.528924 GGGGGCCAAATCACGTAAAC 59.471 55.000 4.39 0.00 0.00 2.01
2513 3877 0.528924 GGGGCCAAATCACGTAAACC 59.471 55.000 4.39 0.00 0.00 3.27
2514 3878 1.541379 GGGCCAAATCACGTAAACCT 58.459 50.000 4.39 0.00 0.00 3.50
2515 3879 2.618559 GGGGCCAAATCACGTAAACCTA 60.619 50.000 4.39 0.00 0.00 3.08
2516 3880 2.681344 GGGCCAAATCACGTAAACCTAG 59.319 50.000 4.39 0.00 0.00 3.02
2517 3881 3.602483 GGCCAAATCACGTAAACCTAGA 58.398 45.455 0.00 0.00 0.00 2.43
2518 3882 4.196971 GGCCAAATCACGTAAACCTAGAT 58.803 43.478 0.00 0.00 0.00 1.98
2519 3883 5.362263 GGCCAAATCACGTAAACCTAGATA 58.638 41.667 0.00 0.00 0.00 1.98
2520 3884 5.818857 GGCCAAATCACGTAAACCTAGATAA 59.181 40.000 0.00 0.00 0.00 1.75
2521 3885 6.485648 GGCCAAATCACGTAAACCTAGATAAT 59.514 38.462 0.00 0.00 0.00 1.28
2522 3886 7.012989 GGCCAAATCACGTAAACCTAGATAATT 59.987 37.037 0.00 0.00 0.00 1.40
2523 3887 8.403236 GCCAAATCACGTAAACCTAGATAATTT 58.597 33.333 0.00 0.00 0.00 1.82
2528 3892 9.886132 ATCACGTAAACCTAGATAATTTTGTCT 57.114 29.630 0.00 0.00 33.09 3.41
2529 3893 9.362539 TCACGTAAACCTAGATAATTTTGTCTC 57.637 33.333 0.00 0.00 30.90 3.36
2530 3894 9.146984 CACGTAAACCTAGATAATTTTGTCTCA 57.853 33.333 0.00 0.00 30.90 3.27
2531 3895 9.148104 ACGTAAACCTAGATAATTTTGTCTCAC 57.852 33.333 0.00 0.00 30.90 3.51
2532 3896 9.146984 CGTAAACCTAGATAATTTTGTCTCACA 57.853 33.333 0.00 0.00 30.90 3.58
2578 3942 5.862845 AGATGTATTTGTGAGAGCATAGGG 58.137 41.667 0.00 0.00 0.00 3.53
2579 3943 5.604231 AGATGTATTTGTGAGAGCATAGGGA 59.396 40.000 0.00 0.00 0.00 4.20
2580 3944 5.692115 TGTATTTGTGAGAGCATAGGGAA 57.308 39.130 0.00 0.00 0.00 3.97
2581 3945 5.674525 TGTATTTGTGAGAGCATAGGGAAG 58.325 41.667 0.00 0.00 0.00 3.46
2582 3946 3.634397 TTTGTGAGAGCATAGGGAAGG 57.366 47.619 0.00 0.00 0.00 3.46
2583 3947 0.833287 TGTGAGAGCATAGGGAAGGC 59.167 55.000 0.00 0.00 0.00 4.35
2584 3948 1.127343 GTGAGAGCATAGGGAAGGCT 58.873 55.000 0.00 0.00 41.35 4.58
2585 3949 2.320781 GTGAGAGCATAGGGAAGGCTA 58.679 52.381 0.00 0.00 38.15 3.93
2586 3950 2.700897 GTGAGAGCATAGGGAAGGCTAA 59.299 50.000 0.00 0.00 38.15 3.09
2587 3951 2.968574 TGAGAGCATAGGGAAGGCTAAG 59.031 50.000 0.00 0.00 38.15 2.18
2588 3952 2.301583 GAGAGCATAGGGAAGGCTAAGG 59.698 54.545 0.00 0.00 38.15 2.69
2589 3953 0.767998 AGCATAGGGAAGGCTAAGGC 59.232 55.000 0.00 0.00 35.82 4.35
2654 4022 2.729882 GGTACGTTTACTGTGTGCAGAG 59.270 50.000 0.00 0.00 45.28 3.35
2704 4072 5.220739 GCCAGCAGTTGTTATTCACTGATAG 60.221 44.000 3.48 0.00 31.65 2.08
2705 4073 5.877012 CCAGCAGTTGTTATTCACTGATAGT 59.123 40.000 3.48 0.00 31.65 2.12
2706 4074 7.041721 CCAGCAGTTGTTATTCACTGATAGTA 58.958 38.462 3.48 0.00 31.65 1.82
2720 4121 6.156256 TCACTGATAGTATAACTTTGCCCTGT 59.844 38.462 0.00 0.00 0.00 4.00
2758 4188 0.530744 TCGATGGAACTACGCTGCTT 59.469 50.000 0.00 0.00 0.00 3.91
2934 4908 2.712087 TCCCTACACTGGCAAAAAGGTA 59.288 45.455 0.00 0.00 0.00 3.08
2944 4918 1.068541 GCAAAAAGGTAGAAGGCGTGG 60.069 52.381 0.00 0.00 0.00 4.94
2945 4919 2.227194 CAAAAAGGTAGAAGGCGTGGT 58.773 47.619 0.00 0.00 0.00 4.16
2946 4920 2.180432 AAAAGGTAGAAGGCGTGGTC 57.820 50.000 0.00 0.00 0.00 4.02
2972 4992 3.554692 GCGTTCGGATCTGCACGG 61.555 66.667 24.67 9.61 33.17 4.94
2977 4997 3.770040 CGGATCTGCACGGGACCA 61.770 66.667 0.00 0.00 0.00 4.02
3126 5641 6.347160 GGTCTGAATTTTGTTCTGTACCGTAC 60.347 42.308 1.40 1.40 0.00 3.67
3183 6404 3.685139 TCCTTTTCCAGAGCTACTGTG 57.315 47.619 10.86 4.72 44.40 3.66
3255 6831 2.357517 GGCGCCGATCTACCCATG 60.358 66.667 12.58 0.00 0.00 3.66
3256 6832 2.421739 GCGCCGATCTACCCATGT 59.578 61.111 0.00 0.00 0.00 3.21
3257 6833 1.956170 GCGCCGATCTACCCATGTG 60.956 63.158 0.00 0.00 0.00 3.21
3297 6884 0.026674 CTGTACGTGGCGCAATGATG 59.973 55.000 11.94 0.00 0.00 3.07
3320 6907 0.891373 TCAAGAAGAGGAGACCTGCG 59.109 55.000 0.00 0.00 31.76 5.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 1.067142 CGGTCTCTCGGATGAAAACCA 60.067 52.381 0.00 0.00 0.00 3.67
48 49 2.431260 GTTCGCGTTCGGCCTACA 60.431 61.111 5.77 0.00 38.94 2.74
54 55 3.809400 GACGTCGTTCGCGTTCGG 61.809 66.667 20.29 11.18 43.04 4.30
57 58 2.428071 GGAGACGTCGTTCGCGTT 60.428 61.111 10.46 0.00 43.04 4.84
60 61 2.467946 TTCCTGGAGACGTCGTTCGC 62.468 60.000 10.46 0.00 44.19 4.70
89 90 2.118732 TGGCGACACCTGAGGGTA 59.881 61.111 2.38 0.00 45.41 3.69
152 153 1.277580 AAGCAGGAGGTGGGGATCTG 61.278 60.000 0.00 0.00 0.00 2.90
153 154 0.985490 GAAGCAGGAGGTGGGGATCT 60.985 60.000 0.00 0.00 0.00 2.75
171 173 2.582493 GGTTACCGGGTTGGGACGA 61.582 63.158 4.31 0.00 44.64 4.20
208 214 1.977854 TGCATATAGTCCTTGCCGGAT 59.022 47.619 5.05 0.00 45.44 4.18
214 220 6.722301 CAACTCATGTTGCATATAGTCCTTG 58.278 40.000 0.00 0.00 45.57 3.61
345 365 4.237207 GAGGATTCCCCGTCCGGC 62.237 72.222 0.00 0.00 40.76 6.13
358 378 1.460689 ACGGTCCCTTTGGTGAGGA 60.461 57.895 0.00 0.00 39.25 3.71
380 400 1.002430 GCTGCGATCCATGGATTAGGA 59.998 52.381 27.93 22.72 38.50 2.94
384 404 1.598962 CGGCTGCGATCCATGGATT 60.599 57.895 27.93 12.23 34.60 3.01
403 423 0.684479 TCTGCTCGAGGCTGGTACAT 60.684 55.000 15.58 0.00 42.39 2.29
404 424 1.304134 TCTGCTCGAGGCTGGTACA 60.304 57.895 15.58 0.25 42.39 2.90
413 433 1.431440 CCTTCTCCGTCTGCTCGAG 59.569 63.158 8.45 8.45 0.00 4.04
414 434 2.046864 CCCTTCTCCGTCTGCTCGA 61.047 63.158 0.00 0.00 0.00 4.04
422 442 2.758852 TAAGTGGGGCCCTTCTCCGT 62.759 60.000 25.93 9.78 0.00 4.69
433 453 9.765795 CTAAGTGAGATAAAAGTATAAGTGGGG 57.234 37.037 0.00 0.00 0.00 4.96
437 457 9.733219 GCGACTAAGTGAGATAAAAGTATAAGT 57.267 33.333 0.00 0.00 0.00 2.24
451 471 2.737252 GTCTTTTGGGCGACTAAGTGAG 59.263 50.000 0.00 0.00 30.08 3.51
475 495 6.604735 AGATTCCTCGTATGTTACATTTGC 57.395 37.500 2.23 0.00 0.00 3.68
506 787 4.743644 TCGACCTTTTTCTTCTTCTCGAAC 59.256 41.667 0.00 0.00 0.00 3.95
545 827 4.042187 ACATAGGAATAAGCAGGGATGGAC 59.958 45.833 0.00 0.00 0.00 4.02
565 1146 7.944729 AAGGAACTACATGCTTTATGAACAT 57.055 32.000 0.00 0.00 38.49 2.71
597 1179 6.208988 TGTTTTGTACACAAATGGCACTAA 57.791 33.333 8.27 0.00 44.30 2.24
1047 1717 4.299978 GCTCACTCAACTAGAAGAACGTT 58.700 43.478 0.00 0.00 0.00 3.99
1048 1718 3.609644 CGCTCACTCAACTAGAAGAACGT 60.610 47.826 0.00 0.00 0.00 3.99
1050 1720 3.903360 ACGCTCACTCAACTAGAAGAAC 58.097 45.455 0.00 0.00 0.00 3.01
1051 1721 4.760715 AGTACGCTCACTCAACTAGAAGAA 59.239 41.667 0.00 0.00 0.00 2.52
1052 1722 4.325119 AGTACGCTCACTCAACTAGAAGA 58.675 43.478 0.00 0.00 0.00 2.87
1054 1724 5.449107 AAAGTACGCTCACTCAACTAGAA 57.551 39.130 0.00 0.00 0.00 2.10
1080 1785 0.447801 GAGCCATGCGTTTCGTGATT 59.552 50.000 0.00 0.00 33.49 2.57
1082 1787 2.379634 CGAGCCATGCGTTTCGTGA 61.380 57.895 0.00 0.00 33.49 4.35
1356 2074 3.733337 AGCAGATGATGTCGGGTTAATC 58.267 45.455 0.00 0.00 28.01 1.75
1424 2172 1.404748 TGCACATTCACACACACCAAG 59.595 47.619 0.00 0.00 0.00 3.61
1658 2407 2.357952 GCGTTCTTGAAGGTGAAAAGGT 59.642 45.455 0.00 0.00 0.00 3.50
1659 2408 2.287608 GGCGTTCTTGAAGGTGAAAAGG 60.288 50.000 0.00 0.00 0.00 3.11
1660 2409 2.602217 CGGCGTTCTTGAAGGTGAAAAG 60.602 50.000 0.00 0.00 0.00 2.27
1665 2427 2.966309 GCCGGCGTTCTTGAAGGTG 61.966 63.158 12.58 0.00 0.00 4.00
1666 2428 2.668550 GCCGGCGTTCTTGAAGGT 60.669 61.111 12.58 0.00 0.00 3.50
1713 2492 9.955208 CATGAAGCTGCATTATTTAGAACAATA 57.045 29.630 3.72 0.00 0.00 1.90
1720 2507 5.300034 TCCACCATGAAGCTGCATTATTTAG 59.700 40.000 3.72 0.00 0.00 1.85
1754 2544 3.341823 CAGGTTCTTGAAGTCCCTGATG 58.658 50.000 20.56 5.07 44.39 3.07
1787 2577 0.544697 GGTTCTTGGGGAAGGCGATA 59.455 55.000 0.00 0.00 34.23 2.92
1916 2706 3.118454 CACGCGTCGGCCTTGAAT 61.118 61.111 9.86 0.00 35.02 2.57
2173 2983 0.817013 TATACACGGACGGTCCAACC 59.183 55.000 25.80 0.54 35.91 3.77
2174 2984 1.795162 CGTATACACGGACGGTCCAAC 60.795 57.143 25.80 12.26 44.59 3.77
2235 3053 2.776312 ATCATACAGTACAGACGCCG 57.224 50.000 0.00 0.00 0.00 6.46
2282 3107 1.483415 TCTACCACCGGCTACATTTCC 59.517 52.381 0.00 0.00 0.00 3.13
2403 3767 1.526575 ATCAACCCAAGCCGTTGCAG 61.527 55.000 0.00 0.00 40.35 4.41
2434 3798 2.024176 TATTCAGTTTCTGGCTCCGC 57.976 50.000 0.00 0.00 31.51 5.54
2435 3799 5.201713 TCTATATTCAGTTTCTGGCTCCG 57.798 43.478 0.00 0.00 31.51 4.63
2436 3800 5.994668 CCTTCTATATTCAGTTTCTGGCTCC 59.005 44.000 0.00 0.00 31.51 4.70
2437 3801 5.994668 CCCTTCTATATTCAGTTTCTGGCTC 59.005 44.000 0.00 0.00 31.51 4.70
2438 3802 5.163152 CCCCTTCTATATTCAGTTTCTGGCT 60.163 44.000 0.00 0.00 31.51 4.75
2439 3803 5.066593 CCCCTTCTATATTCAGTTTCTGGC 58.933 45.833 0.00 0.00 31.51 4.85
2440 3804 5.066593 GCCCCTTCTATATTCAGTTTCTGG 58.933 45.833 0.00 0.00 31.51 3.86
2441 3805 5.066593 GGCCCCTTCTATATTCAGTTTCTG 58.933 45.833 0.00 0.00 0.00 3.02
2442 3806 4.726825 TGGCCCCTTCTATATTCAGTTTCT 59.273 41.667 0.00 0.00 0.00 2.52
2443 3807 5.048846 TGGCCCCTTCTATATTCAGTTTC 57.951 43.478 0.00 0.00 0.00 2.78
2444 3808 5.466127 TTGGCCCCTTCTATATTCAGTTT 57.534 39.130 0.00 0.00 0.00 2.66
2445 3809 5.466127 TTTGGCCCCTTCTATATTCAGTT 57.534 39.130 0.00 0.00 0.00 3.16
2446 3810 5.201243 GTTTTGGCCCCTTCTATATTCAGT 58.799 41.667 0.00 0.00 0.00 3.41
2447 3811 5.200483 TGTTTTGGCCCCTTCTATATTCAG 58.800 41.667 0.00 0.00 0.00 3.02
2448 3812 5.199982 TGTTTTGGCCCCTTCTATATTCA 57.800 39.130 0.00 0.00 0.00 2.57
2449 3813 5.598417 ACATGTTTTGGCCCCTTCTATATTC 59.402 40.000 0.00 0.00 0.00 1.75
2450 3814 5.528337 ACATGTTTTGGCCCCTTCTATATT 58.472 37.500 0.00 0.00 0.00 1.28
2451 3815 5.140454 GACATGTTTTGGCCCCTTCTATAT 58.860 41.667 0.00 0.00 0.00 0.86
2452 3816 4.017958 TGACATGTTTTGGCCCCTTCTATA 60.018 41.667 0.00 0.00 29.16 1.31
2453 3817 3.245586 TGACATGTTTTGGCCCCTTCTAT 60.246 43.478 0.00 0.00 29.16 1.98
2454 3818 2.109128 TGACATGTTTTGGCCCCTTCTA 59.891 45.455 0.00 0.00 29.16 2.10
2455 3819 1.133199 TGACATGTTTTGGCCCCTTCT 60.133 47.619 0.00 0.00 29.16 2.85
2456 3820 1.337118 TGACATGTTTTGGCCCCTTC 58.663 50.000 0.00 0.00 29.16 3.46
2457 3821 2.028561 ATGACATGTTTTGGCCCCTT 57.971 45.000 0.00 0.00 29.16 3.95
2458 3822 2.917713 TATGACATGTTTTGGCCCCT 57.082 45.000 0.00 0.00 29.16 4.79
2459 3823 5.806654 ATTATATGACATGTTTTGGCCCC 57.193 39.130 0.00 0.00 29.16 5.80
2460 3824 7.014230 ACTGTATTATATGACATGTTTTGGCCC 59.986 37.037 0.00 0.00 29.16 5.80
2461 3825 7.940850 ACTGTATTATATGACATGTTTTGGCC 58.059 34.615 0.00 0.00 29.16 5.36
2471 3835 9.488762 CCCCCTCTAATACTGTATTATATGACA 57.511 37.037 17.91 0.00 30.83 3.58
2472 3836 8.422566 GCCCCCTCTAATACTGTATTATATGAC 58.577 40.741 17.91 4.78 30.83 3.06
2473 3837 7.567622 GGCCCCCTCTAATACTGTATTATATGA 59.432 40.741 17.91 12.12 30.83 2.15
2474 3838 7.347222 TGGCCCCCTCTAATACTGTATTATATG 59.653 40.741 17.91 9.79 30.83 1.78
2475 3839 7.435885 TGGCCCCCTCTAATACTGTATTATAT 58.564 38.462 17.91 0.00 30.83 0.86
2476 3840 6.818040 TGGCCCCCTCTAATACTGTATTATA 58.182 40.000 17.91 11.59 30.83 0.98
2477 3841 5.671941 TGGCCCCCTCTAATACTGTATTAT 58.328 41.667 17.91 0.00 30.83 1.28
2478 3842 5.095903 TGGCCCCCTCTAATACTGTATTA 57.904 43.478 16.94 16.94 0.00 0.98
2479 3843 3.949430 TGGCCCCCTCTAATACTGTATT 58.051 45.455 16.51 16.51 0.00 1.89
2480 3844 3.648683 TGGCCCCCTCTAATACTGTAT 57.351 47.619 0.00 0.00 0.00 2.29
2481 3845 3.424724 TTGGCCCCCTCTAATACTGTA 57.575 47.619 0.00 0.00 0.00 2.74
2482 3846 2.280308 TTGGCCCCCTCTAATACTGT 57.720 50.000 0.00 0.00 0.00 3.55
2483 3847 3.138283 TGATTTGGCCCCCTCTAATACTG 59.862 47.826 0.00 0.00 0.00 2.74
2484 3848 3.138468 GTGATTTGGCCCCCTCTAATACT 59.862 47.826 0.00 0.00 0.00 2.12
2485 3849 3.487372 GTGATTTGGCCCCCTCTAATAC 58.513 50.000 0.00 0.00 0.00 1.89
2486 3850 2.105821 CGTGATTTGGCCCCCTCTAATA 59.894 50.000 0.00 0.00 0.00 0.98
2487 3851 1.133792 CGTGATTTGGCCCCCTCTAAT 60.134 52.381 0.00 0.00 0.00 1.73
2488 3852 0.254747 CGTGATTTGGCCCCCTCTAA 59.745 55.000 0.00 0.00 0.00 2.10
2489 3853 0.912487 ACGTGATTTGGCCCCCTCTA 60.912 55.000 0.00 0.00 0.00 2.43
2490 3854 0.912487 TACGTGATTTGGCCCCCTCT 60.912 55.000 0.00 0.00 0.00 3.69
2491 3855 0.034863 TTACGTGATTTGGCCCCCTC 60.035 55.000 0.00 0.00 0.00 4.30
2492 3856 0.406361 TTTACGTGATTTGGCCCCCT 59.594 50.000 0.00 0.00 0.00 4.79
2493 3857 0.528924 GTTTACGTGATTTGGCCCCC 59.471 55.000 0.00 0.00 0.00 5.40
2494 3858 0.528924 GGTTTACGTGATTTGGCCCC 59.471 55.000 0.00 0.00 0.00 5.80
2495 3859 1.541379 AGGTTTACGTGATTTGGCCC 58.459 50.000 0.00 0.00 0.00 5.80
2496 3860 3.602483 TCTAGGTTTACGTGATTTGGCC 58.398 45.455 0.00 0.00 0.00 5.36
2497 3861 6.913873 TTATCTAGGTTTACGTGATTTGGC 57.086 37.500 0.00 0.00 0.00 4.52
2502 3866 9.886132 AGACAAAATTATCTAGGTTTACGTGAT 57.114 29.630 0.00 0.00 0.00 3.06
2503 3867 9.362539 GAGACAAAATTATCTAGGTTTACGTGA 57.637 33.333 0.00 0.00 0.00 4.35
2504 3868 9.146984 TGAGACAAAATTATCTAGGTTTACGTG 57.853 33.333 0.00 0.00 0.00 4.49
2505 3869 9.148104 GTGAGACAAAATTATCTAGGTTTACGT 57.852 33.333 0.00 0.00 0.00 3.57
2506 3870 9.146984 TGTGAGACAAAATTATCTAGGTTTACG 57.853 33.333 0.00 0.00 0.00 3.18
2552 3916 8.753133 CCCTATGCTCTCACAAATACATCTATA 58.247 37.037 0.00 0.00 0.00 1.31
2553 3917 7.455953 TCCCTATGCTCTCACAAATACATCTAT 59.544 37.037 0.00 0.00 0.00 1.98
2554 3918 6.782494 TCCCTATGCTCTCACAAATACATCTA 59.218 38.462 0.00 0.00 0.00 1.98
2555 3919 5.604231 TCCCTATGCTCTCACAAATACATCT 59.396 40.000 0.00 0.00 0.00 2.90
2556 3920 5.858381 TCCCTATGCTCTCACAAATACATC 58.142 41.667 0.00 0.00 0.00 3.06
2557 3921 5.894298 TCCCTATGCTCTCACAAATACAT 57.106 39.130 0.00 0.00 0.00 2.29
2558 3922 5.396772 CCTTCCCTATGCTCTCACAAATACA 60.397 44.000 0.00 0.00 0.00 2.29
2559 3923 5.059833 CCTTCCCTATGCTCTCACAAATAC 58.940 45.833 0.00 0.00 0.00 1.89
2560 3924 4.444876 GCCTTCCCTATGCTCTCACAAATA 60.445 45.833 0.00 0.00 0.00 1.40
2561 3925 3.686691 GCCTTCCCTATGCTCTCACAAAT 60.687 47.826 0.00 0.00 0.00 2.32
2562 3926 2.356125 GCCTTCCCTATGCTCTCACAAA 60.356 50.000 0.00 0.00 0.00 2.83
2563 3927 1.210478 GCCTTCCCTATGCTCTCACAA 59.790 52.381 0.00 0.00 0.00 3.33
2564 3928 0.833287 GCCTTCCCTATGCTCTCACA 59.167 55.000 0.00 0.00 0.00 3.58
2565 3929 1.127343 AGCCTTCCCTATGCTCTCAC 58.873 55.000 0.00 0.00 0.00 3.51
2566 3930 2.775490 TAGCCTTCCCTATGCTCTCA 57.225 50.000 0.00 0.00 36.57 3.27
2567 3931 2.301583 CCTTAGCCTTCCCTATGCTCTC 59.698 54.545 0.00 0.00 36.57 3.20
2568 3932 2.334023 CCTTAGCCTTCCCTATGCTCT 58.666 52.381 0.00 0.00 36.57 4.09
2569 3933 1.271108 GCCTTAGCCTTCCCTATGCTC 60.271 57.143 0.00 0.00 36.57 4.26
2570 3934 0.767998 GCCTTAGCCTTCCCTATGCT 59.232 55.000 0.00 0.00 39.10 3.79
2571 3935 3.331002 GCCTTAGCCTTCCCTATGC 57.669 57.895 0.00 0.00 0.00 3.14
2612 3976 1.636340 GATCGAACAATCCGTGGCG 59.364 57.895 0.00 0.00 0.00 5.69
2613 3977 1.636340 CGATCGAACAATCCGTGGC 59.364 57.895 10.26 0.00 0.00 5.01
2614 3978 1.636340 GCGATCGAACAATCCGTGG 59.364 57.895 21.57 0.00 0.00 4.94
2615 3979 1.269810 CGCGATCGAACAATCCGTG 59.730 57.895 21.57 0.00 38.10 4.94
2616 3980 1.876714 CCGCGATCGAACAATCCGT 60.877 57.895 21.57 0.00 38.10 4.69
2617 3981 0.593008 TACCGCGATCGAACAATCCG 60.593 55.000 21.57 10.69 38.10 4.18
2651 4019 3.517100 TGTCAAGCCTCAAGATAAGCTCT 59.483 43.478 0.00 0.00 33.56 4.09
2654 4022 4.612932 CTTGTCAAGCCTCAAGATAAGC 57.387 45.455 0.00 0.00 42.22 3.09
2704 4072 6.318648 TGATGATTGACAGGGCAAAGTTATAC 59.681 38.462 0.00 0.00 0.00 1.47
2705 4073 6.422333 TGATGATTGACAGGGCAAAGTTATA 58.578 36.000 0.00 0.00 0.00 0.98
2706 4074 5.263599 TGATGATTGACAGGGCAAAGTTAT 58.736 37.500 0.00 0.00 0.00 1.89
2720 4121 2.159379 CGACCGAGTGACTGATGATTGA 60.159 50.000 0.00 0.00 0.00 2.57
2758 4188 2.421619 TGTCACGTTGCATGCATCTAA 58.578 42.857 23.37 2.82 0.00 2.10
2898 4834 2.195139 GGATGAGGGCATGCAGCT 59.805 61.111 21.36 0.00 41.89 4.24
2899 4835 2.060567 TAGGGATGAGGGCATGCAGC 62.061 60.000 21.36 8.38 43.84 5.25
2900 4836 0.250640 GTAGGGATGAGGGCATGCAG 60.251 60.000 21.36 0.00 43.84 4.41
2934 4908 1.536943 GGACTGAGACCACGCCTTCT 61.537 60.000 0.00 0.00 0.00 2.85
2944 4918 2.504244 CGAACGCCGGACTGAGAC 60.504 66.667 5.05 0.00 33.91 3.36
2966 4986 1.963855 CGTTGATTGGTCCCGTGCA 60.964 57.895 0.00 0.00 0.00 4.57
2977 4997 2.851263 TGCCTAACAGGACGTTGATT 57.149 45.000 0.00 0.00 37.67 2.57
3013 5086 0.703466 GACGAGAACAGAAGCGAACG 59.297 55.000 0.00 0.00 0.00 3.95
3089 5604 0.684535 TTCAGACCGCCTCATGTCAA 59.315 50.000 0.00 0.00 33.89 3.18
3142 6363 5.889853 AGGAAGCAGAAGAATGAAATGCATA 59.110 36.000 0.00 0.00 39.34 3.14
3255 6831 0.392461 TTAAGCTCCGTCATGGGCAC 60.392 55.000 0.00 0.00 38.76 5.01
3256 6832 0.546122 ATTAAGCTCCGTCATGGGCA 59.454 50.000 0.00 0.00 38.76 5.36
3257 6833 1.334869 CAATTAAGCTCCGTCATGGGC 59.665 52.381 0.00 0.00 38.76 5.36
3297 6884 2.495669 CAGGTCTCCTCTTCTTGAGTCC 59.504 54.545 0.00 0.00 41.11 3.85
3320 6907 6.258287 CCAGAGTTCATGAATCAGACAAGATC 59.742 42.308 12.12 0.00 0.00 2.75


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

AutoCloner maintained by Alex Coulton.