Multiple sequence alignment - TraesCS6A01G336600

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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 TraesCS6A01G336600 chr6A 100.000 4879 0 0 1 4879 570385332 570380454 0.000000e+00 9010.0
1 TraesCS6A01G336600 chr6A 82.553 470 46 16 434 886 570388421 570387971 9.910000e-102 381.0
2 TraesCS6A01G336600 chr6A 74.903 518 85 33 216 712 570454300 570453807 1.390000e-45 195.0
3 TraesCS6A01G336600 chr6A 84.043 188 17 6 501 678 570388612 570388428 8.400000e-38 169.0
4 TraesCS6A01G336600 chr6A 87.500 80 10 0 1845 1924 469432538 469432459 5.200000e-15 93.5
5 TraesCS6A01G336600 chr6A 100.000 29 0 0 2449 2477 570382836 570382808 2.000000e-03 54.7
6 TraesCS6A01G336600 chr6A 100.000 29 0 0 2497 2525 570382884 570382856 2.000000e-03 54.7
7 TraesCS6A01G336600 chr6D 93.089 2402 120 27 2493 4879 425903062 425900692 0.000000e+00 3474.0
8 TraesCS6A01G336600 chr6D 90.936 2008 96 42 497 2477 425904978 425903030 0.000000e+00 2621.0
9 TraesCS6A01G336600 chr6D 85.144 451 23 23 36 463 425905395 425904966 5.840000e-114 422.0
10 TraesCS6A01G336600 chr6D 90.816 98 9 0 789 886 425910598 425910501 1.100000e-26 132.0
11 TraesCS6A01G336600 chr6D 88.235 85 6 3 106 190 425946400 425946320 1.120000e-16 99.0
12 TraesCS6A01G336600 chr6D 85.915 71 10 0 1854 1924 330157795 330157725 5.240000e-10 76.8
13 TraesCS6A01G336600 chr6B 90.885 1909 87 33 605 2476 640981005 640979147 0.000000e+00 2481.0
14 TraesCS6A01G336600 chr6B 94.409 1109 39 12 3783 4879 640977759 640976662 0.000000e+00 1683.0
15 TraesCS6A01G336600 chr6B 88.181 1303 81 30 2496 3788 640979175 640977936 0.000000e+00 1485.0
16 TraesCS6A01G336600 chr6B 83.796 648 37 27 47 640 640981638 640981005 1.980000e-153 553.0
17 TraesCS6A01G336600 chr6B 89.571 163 16 1 640 801 641022954 641022792 6.400000e-49 206.0
18 TraesCS6A01G336600 chr6B 83.871 186 12 8 3556 3738 640977933 640977763 1.410000e-35 161.0
19 TraesCS6A01G336600 chr6B 86.486 74 10 0 1845 1918 490255451 490255524 1.130000e-11 82.4
20 TraesCS6A01G336600 chr5D 88.143 447 31 13 2493 2935 39347674 39347246 3.370000e-141 512.0
21 TraesCS6A01G336600 chr7D 86.449 428 51 6 2798 3220 115048473 115048048 3.440000e-126 462.0
22 TraesCS6A01G336600 chr7D 80.563 355 46 12 1593 1927 115049493 115049142 8.110000e-63 252.0
23 TraesCS6A01G336600 chr7A 86.480 429 49 8 2798 3220 119702672 119702247 3.440000e-126 462.0
24 TraesCS6A01G336600 chr7A 81.481 351 43 15 1593 1927 119703738 119703394 8.050000e-68 268.0
25 TraesCS6A01G336600 chr7A 81.618 136 25 0 1430 1565 670004720 670004855 3.990000e-21 113.0
26 TraesCS6A01G336600 chr7B 86.014 429 51 8 2798 3220 74598515 74598090 7.450000e-123 451.0
27 TraesCS6A01G336600 chr7B 89.831 118 12 0 1593 1710 74599966 74599849 8.460000e-33 152.0
28 TraesCS6A01G336600 chr5B 87.960 299 28 6 2544 2841 679342786 679342495 3.610000e-91 346.0
29 TraesCS6A01G336600 chr5B 97.753 89 2 0 3129 3217 679342501 679342413 2.350000e-33 154.0
30 TraesCS6A01G336600 chr5B 83.333 156 20 6 2573 2726 545985299 545985450 6.590000e-29 139.0
31 TraesCS6A01G336600 chr2D 78.372 430 82 10 2798 3220 121703554 121703129 8.050000e-68 268.0
32 TraesCS6A01G336600 chr2B 78.140 430 83 10 2798 3220 174828833 174828408 3.750000e-66 263.0
33 TraesCS6A01G336600 chr2B 80.932 236 21 12 2493 2726 18323065 18322852 1.090000e-36 165.0
34 TraesCS6A01G336600 chr2A 78.140 430 83 10 2798 3220 125900768 125900343 3.750000e-66 263.0
35 TraesCS6A01G336600 chr4B 83.830 235 21 9 2493 2725 626050559 626050340 1.780000e-49 207.0
36 TraesCS6A01G336600 chr4D 78.594 313 49 18 2924 3227 464156698 464157001 1.790000e-44 191.0
37 TraesCS6A01G336600 chr3B 81.590 239 17 15 2493 2726 87483823 87483607 6.490000e-39 172.0
38 TraesCS6A01G336600 chr1B 79.498 239 22 14 2493 2726 617705117 617704901 1.420000e-30 145.0


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 TraesCS6A01G336600 chr6A 570380454 570385332 4878 True 3039.800000 9010 100.0000 1 4879 3 chr6A.!!$R3 4878
1 TraesCS6A01G336600 chr6A 570387971 570388612 641 True 275.000000 381 83.2980 434 886 2 chr6A.!!$R4 452
2 TraesCS6A01G336600 chr6D 425900692 425905395 4703 True 2172.333333 3474 89.7230 36 4879 3 chr6D.!!$R4 4843
3 TraesCS6A01G336600 chr6B 640976662 640981638 4976 True 1272.600000 2481 88.2284 47 4879 5 chr6B.!!$R2 4832
4 TraesCS6A01G336600 chr7D 115048048 115049493 1445 True 357.000000 462 83.5060 1593 3220 2 chr7D.!!$R1 1627
5 TraesCS6A01G336600 chr7A 119702247 119703738 1491 True 365.000000 462 83.9805 1593 3220 2 chr7A.!!$R1 1627
6 TraesCS6A01G336600 chr7B 74598090 74599966 1876 True 301.500000 451 87.9225 1593 3220 2 chr7B.!!$R1 1627

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
205 224 0.041663 GACGACGCAGAGCTAGCTAG 60.042 60.0 19.38 16.84 0.00 3.42 F
2088 2677 0.105964 TCCGTATCCCATTTCTGCGG 59.894 55.0 0.00 0.00 39.13 5.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2162 2751 0.867753 CGGATCAAAGTCTCCGCGAG 60.868 60.0 8.23 3.02 46.87 5.03 R
4045 5005 0.029989 GATCTAGGGTGGAAGGGGGT 60.030 60.0 0.00 0.00 0.00 4.95 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
31 32 3.458487 ACCTAATTAAGTCCCATTCCGCT 59.542 43.478 0.00 0.00 0.00 5.52
32 33 4.065789 CCTAATTAAGTCCCATTCCGCTC 58.934 47.826 0.00 0.00 0.00 5.03
33 34 3.933861 AATTAAGTCCCATTCCGCTCT 57.066 42.857 0.00 0.00 0.00 4.09
34 35 3.933861 ATTAAGTCCCATTCCGCTCTT 57.066 42.857 0.00 0.00 0.00 2.85
125 132 1.862806 GCGAACTGGTCTTGTCAGC 59.137 57.895 0.00 0.00 35.78 4.26
191 205 1.141881 ATGGCCATGAGACGACGAC 59.858 57.895 20.04 0.00 0.00 4.34
201 220 1.297012 GACGACGACGCAGAGCTAG 60.297 63.158 7.30 0.00 43.96 3.42
202 221 2.649349 CGACGACGCAGAGCTAGC 60.649 66.667 6.62 6.62 0.00 3.42
203 222 2.795297 GACGACGCAGAGCTAGCT 59.205 61.111 19.45 19.45 0.00 3.32
204 223 1.763200 CGACGACGCAGAGCTAGCTA 61.763 60.000 19.38 0.00 0.00 3.32
205 224 0.041663 GACGACGCAGAGCTAGCTAG 60.042 60.000 19.38 16.84 0.00 3.42
232 276 3.497031 GTAGCCGGCCAAACGCTC 61.497 66.667 26.15 0.71 37.74 5.03
238 282 1.673009 CGGCCAAACGCTCCCTTTA 60.673 57.895 2.24 0.00 37.74 1.85
248 292 2.902065 GCTCCCTTTACAAAAGCGAG 57.098 50.000 8.90 8.90 0.00 5.03
249 293 2.423577 GCTCCCTTTACAAAAGCGAGA 58.576 47.619 15.02 2.93 0.00 4.04
250 294 2.416893 GCTCCCTTTACAAAAGCGAGAG 59.583 50.000 15.02 10.93 0.00 3.20
251 295 3.003480 CTCCCTTTACAAAAGCGAGAGG 58.997 50.000 7.88 0.00 0.00 3.69
252 296 1.468914 CCCTTTACAAAAGCGAGAGGC 59.531 52.381 0.00 0.00 44.05 4.70
335 399 8.927411 TCTTCCATCATCATCATCAAAGTACTA 58.073 33.333 0.00 0.00 0.00 1.82
369 434 5.471797 TGTTAATTTCTCCGTCTCAAATGCA 59.528 36.000 0.00 0.00 0.00 3.96
370 435 4.691860 AATTTCTCCGTCTCAAATGCAG 57.308 40.909 0.00 0.00 0.00 4.41
371 436 1.442769 TTCTCCGTCTCAAATGCAGC 58.557 50.000 0.00 0.00 0.00 5.25
372 437 0.610174 TCTCCGTCTCAAATGCAGCT 59.390 50.000 0.00 0.00 0.00 4.24
373 438 1.824852 TCTCCGTCTCAAATGCAGCTA 59.175 47.619 0.00 0.00 0.00 3.32
374 439 2.432146 TCTCCGTCTCAAATGCAGCTAT 59.568 45.455 0.00 0.00 0.00 2.97
375 440 3.636764 TCTCCGTCTCAAATGCAGCTATA 59.363 43.478 0.00 0.00 0.00 1.31
376 441 3.982475 TCCGTCTCAAATGCAGCTATAG 58.018 45.455 0.00 0.00 0.00 1.31
377 442 2.478134 CCGTCTCAAATGCAGCTATAGC 59.522 50.000 17.33 17.33 42.49 2.97
420 485 1.603678 GGCTCCGTTGAACTGACGTTA 60.604 52.381 0.00 0.00 38.77 3.18
447 512 1.220206 CTCAGCAGCCATCCGAAGT 59.780 57.895 0.00 0.00 0.00 3.01
458 523 0.396435 ATCCGAAGTTGCAGTGGTGA 59.604 50.000 0.00 0.00 0.00 4.02
466 531 4.376340 AGTTGCAGTGGTGAAAAAGAAG 57.624 40.909 0.00 0.00 0.00 2.85
467 532 2.860136 GTTGCAGTGGTGAAAAAGAAGC 59.140 45.455 0.00 0.00 0.00 3.86
468 533 1.065401 TGCAGTGGTGAAAAAGAAGCG 59.935 47.619 0.00 0.00 0.00 4.68
469 534 1.065551 GCAGTGGTGAAAAAGAAGCGT 59.934 47.619 0.00 0.00 0.00 5.07
570 642 2.233676 ACATCCTTGTCATACGCACTGA 59.766 45.455 0.00 0.00 0.00 3.41
603 678 4.021650 TCGACCACGAAACTGCAC 57.978 55.556 0.00 0.00 45.74 4.57
666 777 2.598589 GCGTCCTTGTCATACGTACAA 58.401 47.619 0.00 0.00 38.81 2.41
712 823 2.785679 CTGCGTTCCGGATCATTTTTC 58.214 47.619 4.15 0.00 0.00 2.29
721 832 2.618709 CGGATCATTTTTCCCTACAGCC 59.381 50.000 0.00 0.00 0.00 4.85
804 933 2.744202 GAGCAATCTCACCATCAACGTT 59.256 45.455 0.00 0.00 39.16 3.99
818 947 4.125097 CGTTACCGTCCGCGCAAC 62.125 66.667 8.75 3.68 36.67 4.17
832 961 2.032634 GCAACCCACGCAGATTCGA 61.033 57.895 0.00 0.00 0.00 3.71
958 1100 2.750237 GCCATCCGACCAACCCAC 60.750 66.667 0.00 0.00 0.00 4.61
963 1105 4.653888 CCGACCAACCCACCACCC 62.654 72.222 0.00 0.00 0.00 4.61
1021 1163 2.105128 CGCACCTCGACCCATCTC 59.895 66.667 0.00 0.00 41.67 2.75
1036 1178 2.158914 CCATCTCGTCAACCCATCATCA 60.159 50.000 0.00 0.00 0.00 3.07
1041 1185 1.942657 CGTCAACCCATCATCATCCAC 59.057 52.381 0.00 0.00 0.00 4.02
1046 1190 1.142936 CCCATCATCATCCACTCCCA 58.857 55.000 0.00 0.00 0.00 4.37
1055 1199 1.218704 CATCCACTCCCAATCCCCATT 59.781 52.381 0.00 0.00 0.00 3.16
1056 1200 0.926293 TCCACTCCCAATCCCCATTC 59.074 55.000 0.00 0.00 0.00 2.67
1057 1201 0.106015 CCACTCCCAATCCCCATTCC 60.106 60.000 0.00 0.00 0.00 3.01
1058 1202 0.630673 CACTCCCAATCCCCATTCCA 59.369 55.000 0.00 0.00 0.00 3.53
1059 1203 1.218704 CACTCCCAATCCCCATTCCAT 59.781 52.381 0.00 0.00 0.00 3.41
1072 1221 3.119495 CCCATTCCATTCCAAGAACGAAC 60.119 47.826 0.00 0.00 0.00 3.95
1106 1263 0.173481 TCACTCGATCGCCAAGGAAG 59.827 55.000 11.09 3.00 0.00 3.46
1119 1276 1.878656 AAGGAAGCACTCGACCTCCG 61.879 60.000 0.00 0.00 40.25 4.63
1129 1286 4.609247 GACCTCCGTCGATCGCCG 62.609 72.222 12.22 12.22 38.35 6.46
1132 1289 4.630785 CTCCGTCGATCGCCGCAT 62.631 66.667 13.86 0.00 38.37 4.73
1133 1290 4.624117 TCCGTCGATCGCCGCATC 62.624 66.667 13.86 0.00 38.37 3.91
1341 1498 2.687805 CGGACGCTCTCCTTCGACA 61.688 63.158 0.00 0.00 36.80 4.35
1734 1925 1.654105 CGTCCACATACAGTTCTTCGC 59.346 52.381 0.00 0.00 0.00 4.70
1776 1967 7.067859 ACATGGTTACTGATCTTGGATGATTTG 59.932 37.037 0.00 0.00 0.00 2.32
1778 1969 6.599244 TGGTTACTGATCTTGGATGATTTGTC 59.401 38.462 0.00 0.00 0.00 3.18
1937 2135 0.680280 ATCGGTGAGTAGCACTCCGT 60.680 55.000 11.99 2.04 44.44 4.69
1991 2574 1.265568 CGTTCACGTTCATACCTCCG 58.734 55.000 0.00 0.00 34.11 4.63
2003 2592 4.028131 TCATACCTCCGTTTCCTGTGTAT 58.972 43.478 0.00 0.00 0.00 2.29
2004 2593 2.762535 ACCTCCGTTTCCTGTGTATG 57.237 50.000 0.00 0.00 0.00 2.39
2005 2594 1.975680 ACCTCCGTTTCCTGTGTATGT 59.024 47.619 0.00 0.00 0.00 2.29
2006 2595 3.167485 ACCTCCGTTTCCTGTGTATGTA 58.833 45.455 0.00 0.00 0.00 2.29
2035 2624 2.943034 GACTAGTTCGTCGGCGCG 60.943 66.667 3.52 15.59 38.14 6.86
2088 2677 0.105964 TCCGTATCCCATTTCTGCGG 59.894 55.000 0.00 0.00 39.13 5.69
2116 2705 0.948678 GCCAGCACGTTCTAAAACCA 59.051 50.000 0.00 0.00 31.27 3.67
2120 2709 1.873591 AGCACGTTCTAAAACCAGCTG 59.126 47.619 6.78 6.78 39.28 4.24
2216 2805 6.824958 AAGCCATGGACTTAACCTCTATTA 57.175 37.500 18.40 0.00 0.00 0.98
2217 2806 6.824958 AGCCATGGACTTAACCTCTATTAA 57.175 37.500 18.40 0.00 0.00 1.40
2219 2808 7.816411 AGCCATGGACTTAACCTCTATTAATT 58.184 34.615 18.40 0.00 0.00 1.40
2220 2809 8.945193 AGCCATGGACTTAACCTCTATTAATTA 58.055 33.333 18.40 0.00 0.00 1.40
2279 2868 7.319646 ACAACCACAAATTTGAATATGCGTAT 58.680 30.769 24.64 0.00 0.00 3.06
2371 2964 0.692476 TGTCCCTGTCATTGTGAGGG 59.308 55.000 13.61 13.61 41.03 4.30
2427 3096 3.596214 TGGCCTCTTCGTGTTCTTAATC 58.404 45.455 3.32 0.00 0.00 1.75
2445 3114 4.632327 AATCAATTCTCCTAGGCTAGGC 57.368 45.455 31.78 8.55 45.82 3.93
2447 3116 4.471078 TCAATTCTCCTAGGCTAGGCTA 57.529 45.455 31.78 23.36 45.82 3.93
2448 3117 4.153411 TCAATTCTCCTAGGCTAGGCTAC 58.847 47.826 31.78 0.00 45.82 3.58
2449 3118 4.140900 TCAATTCTCCTAGGCTAGGCTACT 60.141 45.833 31.78 15.33 45.82 2.57
2450 3119 5.074652 TCAATTCTCCTAGGCTAGGCTACTA 59.925 44.000 31.78 15.89 45.82 1.82
2452 3121 6.911993 ATTCTCCTAGGCTAGGCTACTATA 57.088 41.667 31.78 14.53 45.82 1.31
2454 3123 6.911993 TCTCCTAGGCTAGGCTACTATATT 57.088 41.667 31.78 0.00 45.82 1.28
2455 3124 8.403292 TTCTCCTAGGCTAGGCTACTATATTA 57.597 38.462 31.78 12.48 45.82 0.98
2456 3125 8.036585 TCTCCTAGGCTAGGCTACTATATTAG 57.963 42.308 31.78 20.30 45.82 1.73
2457 3126 6.603224 TCCTAGGCTAGGCTACTATATTAGC 58.397 44.000 31.78 12.48 45.82 3.09
2458 3127 6.159928 TCCTAGGCTAGGCTACTATATTAGCA 59.840 42.308 31.78 9.87 45.52 3.49
2461 3130 4.710375 GGCTAGGCTACTATATTAGCACCA 59.290 45.833 20.08 6.82 45.52 4.17
2473 3142 3.169198 GCACCAGCTAGAACGCAC 58.831 61.111 0.00 0.00 37.91 5.34
2474 3143 1.667830 GCACCAGCTAGAACGCACA 60.668 57.895 0.00 0.00 37.91 4.57
2475 3144 1.227999 GCACCAGCTAGAACGCACAA 61.228 55.000 0.00 0.00 37.91 3.33
2476 3145 0.792640 CACCAGCTAGAACGCACAAG 59.207 55.000 0.00 0.00 0.00 3.16
2477 3146 0.679505 ACCAGCTAGAACGCACAAGA 59.320 50.000 0.00 0.00 0.00 3.02
2478 3147 1.070134 ACCAGCTAGAACGCACAAGAA 59.930 47.619 0.00 0.00 0.00 2.52
2479 3148 1.461127 CCAGCTAGAACGCACAAGAAC 59.539 52.381 0.00 0.00 0.00 3.01
2480 3149 2.135139 CAGCTAGAACGCACAAGAACA 58.865 47.619 0.00 0.00 0.00 3.18
2481 3150 2.096713 CAGCTAGAACGCACAAGAACAC 60.097 50.000 0.00 0.00 0.00 3.32
2482 3151 1.136611 GCTAGAACGCACAAGAACACG 60.137 52.381 0.00 0.00 0.00 4.49
2483 3152 2.390938 CTAGAACGCACAAGAACACGA 58.609 47.619 0.00 0.00 0.00 4.35
2484 3153 1.647346 AGAACGCACAAGAACACGAA 58.353 45.000 0.00 0.00 0.00 3.85
2485 3154 1.593006 AGAACGCACAAGAACACGAAG 59.407 47.619 0.00 0.00 0.00 3.79
2486 3155 1.591158 GAACGCACAAGAACACGAAGA 59.409 47.619 0.00 0.00 0.00 2.87
2487 3156 1.209128 ACGCACAAGAACACGAAGAG 58.791 50.000 0.00 0.00 0.00 2.85
2488 3157 0.508641 CGCACAAGAACACGAAGAGG 59.491 55.000 0.00 0.00 0.00 3.69
2489 3158 0.868406 GCACAAGAACACGAAGAGGG 59.132 55.000 0.00 0.00 0.00 4.30
2490 3159 1.540363 GCACAAGAACACGAAGAGGGA 60.540 52.381 0.00 0.00 0.00 4.20
2491 3160 2.408050 CACAAGAACACGAAGAGGGAG 58.592 52.381 0.00 0.00 0.00 4.30
2492 3161 2.040178 ACAAGAACACGAAGAGGGAGT 58.960 47.619 0.00 0.00 0.00 3.85
2493 3162 3.005472 CACAAGAACACGAAGAGGGAGTA 59.995 47.826 0.00 0.00 0.00 2.59
2494 3163 3.256136 ACAAGAACACGAAGAGGGAGTAG 59.744 47.826 0.00 0.00 0.00 2.57
2584 3254 3.081804 CCTGTCTAAATCAACCACACCC 58.918 50.000 0.00 0.00 0.00 4.61
2622 3296 0.107165 GATCACCTAACCCAGCCACC 60.107 60.000 0.00 0.00 0.00 4.61
2651 3325 4.408921 TGACACCCCAGATAAGATAACCAG 59.591 45.833 0.00 0.00 0.00 4.00
2660 3377 7.039644 CCCAGATAAGATAACCAGGTAGTACAG 60.040 44.444 2.06 0.00 0.00 2.74
2670 3395 6.374417 ACCAGGTAGTACAGATGTCAAAAT 57.626 37.500 2.06 0.00 0.00 1.82
2671 3396 7.490657 ACCAGGTAGTACAGATGTCAAAATA 57.509 36.000 2.06 0.00 0.00 1.40
2672 3397 7.328737 ACCAGGTAGTACAGATGTCAAAATAC 58.671 38.462 2.06 0.00 0.00 1.89
2676 3401 7.038587 AGGTAGTACAGATGTCAAAATACCACA 60.039 37.037 11.39 0.00 34.02 4.17
2677 3402 7.064253 GGTAGTACAGATGTCAAAATACCACAC 59.936 40.741 2.06 0.00 32.29 3.82
2678 3403 6.530120 AGTACAGATGTCAAAATACCACACA 58.470 36.000 0.00 0.00 0.00 3.72
2716 3442 1.338337 CCACCAAAACAACCGTGCATA 59.662 47.619 0.00 0.00 0.00 3.14
2719 3445 2.625790 ACCAAAACAACCGTGCATACAT 59.374 40.909 0.00 0.00 0.00 2.29
2784 3514 3.198068 GTGATTCTGACTGTGTGTGTGT 58.802 45.455 0.00 0.00 0.00 3.72
2786 3516 1.368641 TTCTGACTGTGTGTGTGTGC 58.631 50.000 0.00 0.00 0.00 4.57
2787 3517 0.461870 TCTGACTGTGTGTGTGTGCC 60.462 55.000 0.00 0.00 0.00 5.01
2789 3519 0.827368 TGACTGTGTGTGTGTGCCTA 59.173 50.000 0.00 0.00 0.00 3.93
2791 3521 1.800586 GACTGTGTGTGTGTGCCTATG 59.199 52.381 0.00 0.00 0.00 2.23
2792 3522 1.140852 ACTGTGTGTGTGTGCCTATGT 59.859 47.619 0.00 0.00 0.00 2.29
2793 3523 2.221169 CTGTGTGTGTGTGCCTATGTT 58.779 47.619 0.00 0.00 0.00 2.71
2796 3526 4.000325 TGTGTGTGTGTGCCTATGTTATC 59.000 43.478 0.00 0.00 0.00 1.75
2962 3730 2.434134 CGACGTGTACAGCTTCGGC 61.434 63.158 11.21 6.17 42.17 5.54
3521 4292 3.711842 CAACGATGCCACGCGTGT 61.712 61.111 34.81 19.33 41.06 4.49
3539 4310 1.286501 GTGTTCGTGTGTGCTTGAGA 58.713 50.000 0.00 0.00 0.00 3.27
3592 4363 6.212888 ACATAATTGAAAGAACCAGGATGC 57.787 37.500 0.00 0.00 31.97 3.91
3611 4382 5.295787 GGATGCGTAATCTGTTGGTTGATTA 59.704 40.000 0.00 0.00 35.43 1.75
3643 4416 7.945033 TTTCTTTTCTTGGTGATGTATTTGC 57.055 32.000 0.00 0.00 0.00 3.68
3661 4434 3.797451 TGCATCACACAAGAGCAAAAA 57.203 38.095 0.00 0.00 31.42 1.94
3678 4451 8.903820 AGAGCAAAAAGTGTTAGTACAGAATTT 58.096 29.630 0.00 0.00 34.24 1.82
3712 4486 4.229876 CAAAAGGATGGCGTTCTTTCTTC 58.770 43.478 13.29 0.00 31.25 2.87
3716 4490 4.082125 AGGATGGCGTTCTTTCTTCATTT 58.918 39.130 0.00 0.00 0.00 2.32
3717 4491 4.082571 AGGATGGCGTTCTTTCTTCATTTG 60.083 41.667 0.00 0.00 0.00 2.32
3718 4492 3.011949 TGGCGTTCTTTCTTCATTTGC 57.988 42.857 0.00 0.00 0.00 3.68
3719 4493 2.622942 TGGCGTTCTTTCTTCATTTGCT 59.377 40.909 0.00 0.00 0.00 3.91
3720 4494 3.237628 GGCGTTCTTTCTTCATTTGCTC 58.762 45.455 0.00 0.00 0.00 4.26
3721 4495 3.057946 GGCGTTCTTTCTTCATTTGCTCT 60.058 43.478 0.00 0.00 0.00 4.09
3722 4496 4.154717 GCGTTCTTTCTTCATTTGCTCTC 58.845 43.478 0.00 0.00 0.00 3.20
3723 4497 4.716943 CGTTCTTTCTTCATTTGCTCTCC 58.283 43.478 0.00 0.00 0.00 3.71
3738 4512 2.866855 GCTCTCCGAGACGTTCCTTTTT 60.867 50.000 0.00 0.00 0.00 1.94
3761 4535 5.369685 TTTAAAACGAATCATCTGCAGCA 57.630 34.783 9.47 0.00 0.00 4.41
3762 4536 5.565592 TTAAAACGAATCATCTGCAGCAT 57.434 34.783 9.47 0.43 0.00 3.79
3778 4552 3.443681 GCAGCATATTGTTTGGTACAGGT 59.556 43.478 0.00 0.00 42.39 4.00
3862 4819 2.736144 AGAACGCATCTGGTTACGAA 57.264 45.000 0.00 0.00 36.88 3.85
3863 4820 2.334838 AGAACGCATCTGGTTACGAAC 58.665 47.619 0.00 0.00 36.88 3.95
4043 5003 3.343617 TGCTTTGGAACTGCATACCTAC 58.656 45.455 0.00 0.00 0.00 3.18
4045 5005 3.872240 GCTTTGGAACTGCATACCTACCA 60.872 47.826 0.00 0.00 0.00 3.25
4049 5015 0.916809 AACTGCATACCTACCACCCC 59.083 55.000 0.00 0.00 0.00 4.95
4073 5039 3.631250 TCCACCCTAGATCAAATTTGCC 58.369 45.455 13.54 7.68 0.00 4.52
4081 5047 6.607198 CCCTAGATCAAATTTGCCCTAGAAAA 59.393 38.462 28.76 9.44 34.67 2.29
4162 5132 2.095461 GATCTTCAAGCCCAAACCTCC 58.905 52.381 0.00 0.00 0.00 4.30
4163 5133 1.149101 TCTTCAAGCCCAAACCTCCT 58.851 50.000 0.00 0.00 0.00 3.69
4164 5134 1.499007 TCTTCAAGCCCAAACCTCCTT 59.501 47.619 0.00 0.00 0.00 3.36
4262 5232 1.226686 GCAGCTCCACATCCGCATAG 61.227 60.000 0.00 0.00 0.00 2.23
4304 5274 4.940463 TCGATAAATCCTCGGTCGAAAAT 58.060 39.130 0.00 0.00 38.25 1.82
4328 5298 1.326328 TGCTGCACCAAACAAGCATA 58.674 45.000 0.00 0.00 37.68 3.14
4477 5449 7.666623 ACCTTAAATCGTCATCCAACAAAAAT 58.333 30.769 0.00 0.00 0.00 1.82
4530 5502 1.153107 CCATCTCCCGCATTGCAGA 60.153 57.895 9.69 4.56 0.00 4.26
4534 5506 1.135315 CTCCCGCATTGCAGAAACG 59.865 57.895 9.69 0.00 0.00 3.60
4547 5519 4.130857 TGCAGAAACGACCTGTAAAATCA 58.869 39.130 0.00 0.00 34.29 2.57
4615 5587 2.623416 AGGTCCAAAGCTAAAAGTGCAC 59.377 45.455 9.40 9.40 0.00 4.57
4719 5691 0.759959 TACACGTGAAAAGGGGCTGA 59.240 50.000 25.01 0.00 0.00 4.26
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 9.563748 CGGAATGGGACTTAATTAGGTATTAAA 57.436 33.333 0.00 0.00 38.04 1.52
5 6 7.016858 AGCGGAATGGGACTTAATTAGGTATTA 59.983 37.037 0.00 0.00 0.00 0.98
8 9 4.657039 AGCGGAATGGGACTTAATTAGGTA 59.343 41.667 0.00 0.00 0.00 3.08
10 11 4.065789 GAGCGGAATGGGACTTAATTAGG 58.934 47.826 0.00 0.00 0.00 2.69
11 12 4.962155 AGAGCGGAATGGGACTTAATTAG 58.038 43.478 0.00 0.00 0.00 1.73
12 13 5.367945 AAGAGCGGAATGGGACTTAATTA 57.632 39.130 0.00 0.00 0.00 1.40
14 15 3.933861 AAGAGCGGAATGGGACTTAAT 57.066 42.857 0.00 0.00 0.00 1.40
15 16 3.713826 AAAGAGCGGAATGGGACTTAA 57.286 42.857 0.00 0.00 0.00 1.85
16 17 4.163458 ACATAAAGAGCGGAATGGGACTTA 59.837 41.667 0.00 0.00 0.00 2.24
17 18 3.054361 ACATAAAGAGCGGAATGGGACTT 60.054 43.478 0.00 0.00 0.00 3.01
19 20 2.919228 ACATAAAGAGCGGAATGGGAC 58.081 47.619 0.00 0.00 0.00 4.46
20 21 3.278574 CAACATAAAGAGCGGAATGGGA 58.721 45.455 0.00 0.00 0.00 4.37
21 22 3.016736 ACAACATAAAGAGCGGAATGGG 58.983 45.455 0.00 0.00 0.00 4.00
22 23 3.689161 TGACAACATAAAGAGCGGAATGG 59.311 43.478 0.00 0.00 0.00 3.16
23 24 4.944962 TGACAACATAAAGAGCGGAATG 57.055 40.909 0.00 0.00 0.00 2.67
24 25 5.957842 TTTGACAACATAAAGAGCGGAAT 57.042 34.783 0.00 0.00 0.00 3.01
25 26 5.759506 TTTTGACAACATAAAGAGCGGAA 57.240 34.783 0.00 0.00 0.00 4.30
26 27 5.106317 GGATTTTGACAACATAAAGAGCGGA 60.106 40.000 0.00 0.00 0.00 5.54
27 28 5.095490 GGATTTTGACAACATAAAGAGCGG 58.905 41.667 0.00 0.00 0.00 5.52
28 29 5.095490 GGGATTTTGACAACATAAAGAGCG 58.905 41.667 0.00 0.00 0.00 5.03
31 32 5.074115 ACCGGGATTTTGACAACATAAAGA 58.926 37.500 6.32 0.00 0.00 2.52
32 33 5.385509 ACCGGGATTTTGACAACATAAAG 57.614 39.130 6.32 0.00 0.00 1.85
33 34 6.005198 ACTACCGGGATTTTGACAACATAAA 58.995 36.000 6.32 0.00 0.00 1.40
34 35 5.562635 ACTACCGGGATTTTGACAACATAA 58.437 37.500 6.32 0.00 0.00 1.90
125 132 4.141528 ACCATTCTCAAGAGGCTTCTATGG 60.142 45.833 18.33 18.33 39.16 2.74
201 220 3.609409 GCCGGCTACAAAATATTGCTAGC 60.609 47.826 22.15 8.10 40.95 3.42
202 221 3.058224 GGCCGGCTACAAAATATTGCTAG 60.058 47.826 28.56 0.00 40.34 3.42
203 222 2.882137 GGCCGGCTACAAAATATTGCTA 59.118 45.455 28.56 0.00 40.34 3.49
204 223 1.681264 GGCCGGCTACAAAATATTGCT 59.319 47.619 28.56 0.00 40.34 3.91
205 224 1.407258 TGGCCGGCTACAAAATATTGC 59.593 47.619 28.56 4.81 40.34 3.56
206 225 3.791973 TTGGCCGGCTACAAAATATTG 57.208 42.857 28.56 0.00 42.46 1.90
207 226 3.428316 CGTTTGGCCGGCTACAAAATATT 60.428 43.478 28.56 0.00 38.20 1.28
211 255 1.655329 CGTTTGGCCGGCTACAAAA 59.345 52.632 28.56 18.21 38.20 2.44
213 257 3.358707 GCGTTTGGCCGGCTACAA 61.359 61.111 28.56 20.20 34.80 2.41
232 276 1.468914 GCCTCTCGCTTTTGTAAAGGG 59.531 52.381 9.24 9.24 0.00 3.95
238 282 1.600916 GGGTGCCTCTCGCTTTTGT 60.601 57.895 0.00 0.00 38.78 2.83
248 292 3.991536 GAACTCTCGCGGGTGCCTC 62.992 68.421 5.57 0.00 38.08 4.70
249 293 4.070552 GAACTCTCGCGGGTGCCT 62.071 66.667 5.57 0.00 38.08 4.75
252 296 3.691342 TGGGAACTCTCGCGGGTG 61.691 66.667 5.57 6.07 37.33 4.61
253 297 3.692406 GTGGGAACTCTCGCGGGT 61.692 66.667 5.57 0.00 37.33 5.28
254 298 4.452733 GGTGGGAACTCTCGCGGG 62.453 72.222 6.13 1.01 37.33 6.13
255 299 4.452733 GGGTGGGAACTCTCGCGG 62.453 72.222 6.13 0.00 37.33 6.46
256 300 4.796231 CGGGTGGGAACTCTCGCG 62.796 72.222 0.00 0.00 41.31 5.87
259 303 2.047179 GTGCGGGTGGGAACTCTC 60.047 66.667 0.00 0.00 0.00 3.20
260 304 3.637273 GGTGCGGGTGGGAACTCT 61.637 66.667 0.00 0.00 0.00 3.24
296 357 0.321741 TGGAAGAAAATGGCCGCGTA 60.322 50.000 4.92 0.00 0.00 4.42
335 399 9.939802 AGACGGAGAAATTAACAGTTTAATACT 57.060 29.630 0.00 0.00 36.98 2.12
447 512 2.479389 CGCTTCTTTTTCACCACTGCAA 60.479 45.455 0.00 0.00 0.00 4.08
491 556 3.128764 GCCATTTTTACCACCTGCTACTC 59.871 47.826 0.00 0.00 0.00 2.59
570 642 4.807304 GTGGTCGAAATATGTACAATCGGT 59.193 41.667 17.73 0.00 34.47 4.69
603 678 4.256920 ACTTCTTGGCTGTGCAAGTATAG 58.743 43.478 0.00 0.00 0.00 1.31
712 823 2.028190 CGATCGCTGGCTGTAGGG 59.972 66.667 0.26 0.00 0.00 3.53
721 832 4.505972 CGACTAGCTCGATCGCTG 57.494 61.111 11.09 6.91 46.14 5.18
818 947 1.597663 GGTAAATCGAATCTGCGTGGG 59.402 52.381 0.00 0.00 0.00 4.61
958 1100 2.503920 GCGTATATATAGCGGGGTGG 57.496 55.000 13.13 0.00 0.00 4.61
1021 1163 1.942657 GTGGATGATGATGGGTTGACG 59.057 52.381 0.00 0.00 0.00 4.35
1036 1178 1.500736 GAATGGGGATTGGGAGTGGAT 59.499 52.381 0.00 0.00 0.00 3.41
1041 1185 2.601905 GAATGGAATGGGGATTGGGAG 58.398 52.381 0.00 0.00 0.00 4.30
1046 1190 4.033009 GTTCTTGGAATGGAATGGGGATT 58.967 43.478 0.00 0.00 0.00 3.01
1056 1200 2.747446 ATTCCGTTCGTTCTTGGAATGG 59.253 45.455 4.64 6.47 46.61 3.16
1059 1203 3.064207 CTGATTCCGTTCGTTCTTGGAA 58.936 45.455 0.00 0.00 44.06 3.53
1072 1221 2.090658 CGAGTGAAACGAACTGATTCCG 59.909 50.000 0.00 0.00 45.86 4.30
1128 1285 4.246206 CATGGTGCTGGCGATGCG 62.246 66.667 0.00 0.00 0.00 4.73
1129 1286 2.825387 TCATGGTGCTGGCGATGC 60.825 61.111 0.00 0.00 0.00 3.91
1130 1287 2.184830 CCTCATGGTGCTGGCGATG 61.185 63.158 0.00 0.00 0.00 3.84
1131 1288 2.191375 CCTCATGGTGCTGGCGAT 59.809 61.111 0.00 0.00 0.00 4.58
1132 1289 4.100084 CCCTCATGGTGCTGGCGA 62.100 66.667 0.00 0.00 0.00 5.54
1262 1419 2.286365 TCTTGGTTTTCTTGGCCGAT 57.714 45.000 0.00 0.00 0.00 4.18
1265 1422 3.384789 ACTTCTTCTTGGTTTTCTTGGCC 59.615 43.478 0.00 0.00 0.00 5.36
1266 1423 4.611943 GACTTCTTCTTGGTTTTCTTGGC 58.388 43.478 0.00 0.00 0.00 4.52
1275 1432 1.673033 CCGCATCGACTTCTTCTTGGT 60.673 52.381 0.00 0.00 0.00 3.67
1341 1498 4.988598 CAGCGTGCGGGACAGGTT 62.989 66.667 0.00 0.00 36.51 3.50
1734 1925 0.875908 ATGTCGGCGTGATCAATCGG 60.876 55.000 6.85 0.00 0.00 4.18
1937 2135 1.335132 GCCGGAGTTGGTAGGGATGA 61.335 60.000 5.05 0.00 0.00 2.92
1963 2161 2.883574 TGAACGTGAACGGGATATGAC 58.116 47.619 7.86 0.00 44.95 3.06
2003 2592 1.532437 CTAGTCGTGTGTCCGTGTACA 59.468 52.381 0.00 0.00 0.00 2.90
2004 2593 1.532868 ACTAGTCGTGTGTCCGTGTAC 59.467 52.381 0.00 0.00 0.00 2.90
2005 2594 1.882912 ACTAGTCGTGTGTCCGTGTA 58.117 50.000 0.00 0.00 0.00 2.90
2006 2595 1.002033 GAACTAGTCGTGTGTCCGTGT 60.002 52.381 0.00 0.00 0.00 4.49
2035 2624 2.279741 TCAAATCGTATGTGCAGAGGC 58.720 47.619 0.00 0.00 41.68 4.70
2038 2627 5.402270 CGTCATATCAAATCGTATGTGCAGA 59.598 40.000 0.00 0.00 31.75 4.26
2040 2629 5.174943 GTCGTCATATCAAATCGTATGTGCA 59.825 40.000 0.00 0.00 31.75 4.57
2116 2705 1.992277 AGAGATCGGCCAACCAGCT 60.992 57.895 2.24 0.00 34.57 4.24
2120 2709 1.519455 CGACAGAGATCGGCCAACC 60.519 63.158 2.24 0.00 38.47 3.77
2162 2751 0.867753 CGGATCAAAGTCTCCGCGAG 60.868 60.000 8.23 3.02 46.87 5.03
2309 2898 3.643320 TCCGAGGCATAGACAATTGAGAT 59.357 43.478 13.59 0.00 0.00 2.75
2371 2964 1.078637 GAGGGCACGTTTCCTACCC 60.079 63.158 6.45 1.55 41.17 3.69
2456 3125 1.227999 TTGTGCGTTCTAGCTGGTGC 61.228 55.000 0.00 0.21 38.13 5.01
2457 3126 0.792640 CTTGTGCGTTCTAGCTGGTG 59.207 55.000 0.00 0.00 38.13 4.17
2458 3127 0.679505 TCTTGTGCGTTCTAGCTGGT 59.320 50.000 0.00 0.00 38.13 4.00
2461 3130 2.135933 GTGTTCTTGTGCGTTCTAGCT 58.864 47.619 0.00 0.00 38.13 3.32
2465 3134 1.593006 CTTCGTGTTCTTGTGCGTTCT 59.407 47.619 0.00 0.00 0.00 3.01
2466 3135 1.591158 TCTTCGTGTTCTTGTGCGTTC 59.409 47.619 0.00 0.00 0.00 3.95
2467 3136 1.593006 CTCTTCGTGTTCTTGTGCGTT 59.407 47.619 0.00 0.00 0.00 4.84
2468 3137 1.209128 CTCTTCGTGTTCTTGTGCGT 58.791 50.000 0.00 0.00 0.00 5.24
2469 3138 0.508641 CCTCTTCGTGTTCTTGTGCG 59.491 55.000 0.00 0.00 0.00 5.34
2470 3139 0.868406 CCCTCTTCGTGTTCTTGTGC 59.132 55.000 0.00 0.00 0.00 4.57
2471 3140 2.224066 ACTCCCTCTTCGTGTTCTTGTG 60.224 50.000 0.00 0.00 0.00 3.33
2472 3141 2.040178 ACTCCCTCTTCGTGTTCTTGT 58.960 47.619 0.00 0.00 0.00 3.16
2473 3142 2.821991 ACTCCCTCTTCGTGTTCTTG 57.178 50.000 0.00 0.00 0.00 3.02
2474 3143 2.826725 CCTACTCCCTCTTCGTGTTCTT 59.173 50.000 0.00 0.00 0.00 2.52
2475 3144 2.448453 CCTACTCCCTCTTCGTGTTCT 58.552 52.381 0.00 0.00 0.00 3.01
2476 3145 1.135053 GCCTACTCCCTCTTCGTGTTC 60.135 57.143 0.00 0.00 0.00 3.18
2477 3146 0.896226 GCCTACTCCCTCTTCGTGTT 59.104 55.000 0.00 0.00 0.00 3.32
2478 3147 0.039911 AGCCTACTCCCTCTTCGTGT 59.960 55.000 0.00 0.00 0.00 4.49
2479 3148 2.054232 TAGCCTACTCCCTCTTCGTG 57.946 55.000 0.00 0.00 0.00 4.35
2480 3149 4.661247 ATATAGCCTACTCCCTCTTCGT 57.339 45.455 0.00 0.00 0.00 3.85
2481 3150 5.066764 GCTAATATAGCCTACTCCCTCTTCG 59.933 48.000 0.00 0.00 45.95 3.79
2482 3151 6.459670 GCTAATATAGCCTACTCCCTCTTC 57.540 45.833 0.00 0.00 45.95 2.87
2554 3223 4.106029 TGATTTAGACAGGTGCGACTAC 57.894 45.455 0.00 0.00 0.00 2.73
2622 3296 5.677319 TCTTATCTGGGGTGTCAAGTAAG 57.323 43.478 0.00 0.00 0.00 2.34
2651 3325 7.064253 GTGTGGTATTTTGACATCTGTACTACC 59.936 40.741 0.00 0.00 0.00 3.18
2660 3377 6.503524 ACTGTTTGTGTGGTATTTTGACATC 58.496 36.000 0.00 0.00 0.00 3.06
2670 3395 2.695127 ACCGAACTGTTTGTGTGGTA 57.305 45.000 7.00 0.00 35.87 3.25
2671 3396 2.282407 GTACCGAACTGTTTGTGTGGT 58.718 47.619 7.00 7.15 39.40 4.16
2672 3397 2.031191 GTGTACCGAACTGTTTGTGTGG 59.969 50.000 7.00 2.03 0.00 4.17
2676 3401 3.135994 GGATGTGTACCGAACTGTTTGT 58.864 45.455 7.00 4.76 0.00 2.83
2677 3402 3.059188 GTGGATGTGTACCGAACTGTTTG 60.059 47.826 0.55 0.55 0.00 2.93
2678 3403 3.135994 GTGGATGTGTACCGAACTGTTT 58.864 45.455 0.00 0.00 0.00 2.83
2719 3445 9.142515 CTGGTTAACAGTAATATACACGTGAAA 57.857 33.333 25.01 10.36 42.42 2.69
2784 3514 2.039418 AGTCCTGCGATAACATAGGCA 58.961 47.619 0.00 0.00 0.00 4.75
2786 3516 4.547532 GTGTAGTCCTGCGATAACATAGG 58.452 47.826 0.00 0.00 0.00 2.57
2787 3517 4.219802 CGTGTAGTCCTGCGATAACATAG 58.780 47.826 0.00 0.00 0.00 2.23
2789 3519 2.223735 CCGTGTAGTCCTGCGATAACAT 60.224 50.000 0.00 0.00 0.00 2.71
2791 3521 1.836383 CCGTGTAGTCCTGCGATAAC 58.164 55.000 0.00 0.00 0.00 1.89
2792 3522 0.101759 GCCGTGTAGTCCTGCGATAA 59.898 55.000 0.00 0.00 0.00 1.75
2793 3523 1.731700 GCCGTGTAGTCCTGCGATA 59.268 57.895 0.00 0.00 0.00 2.92
2796 3526 3.620300 TTCGCCGTGTAGTCCTGCG 62.620 63.158 0.00 0.00 46.09 5.18
3373 4144 3.121030 CACTTCTTCCTGGCCGCG 61.121 66.667 0.00 0.00 0.00 6.46
3449 4220 4.821589 CCGGCTCTCGTTCCCTGC 62.822 72.222 0.00 0.00 37.11 4.85
3450 4221 4.148825 CCCGGCTCTCGTTCCCTG 62.149 72.222 0.00 0.00 37.11 4.45
3521 4292 2.135139 GATCTCAAGCACACACGAACA 58.865 47.619 0.00 0.00 0.00 3.18
3643 4416 4.675510 ACACTTTTTGCTCTTGTGTGATG 58.324 39.130 0.00 0.00 39.90 3.07
3694 4468 2.859165 TGAAGAAAGAACGCCATCCT 57.141 45.000 0.00 0.00 0.00 3.24
3696 4470 3.609807 GCAAATGAAGAAAGAACGCCATC 59.390 43.478 0.00 0.00 0.00 3.51
3697 4471 3.256631 AGCAAATGAAGAAAGAACGCCAT 59.743 39.130 0.00 0.00 0.00 4.40
3698 4472 2.622942 AGCAAATGAAGAAAGAACGCCA 59.377 40.909 0.00 0.00 0.00 5.69
3701 4475 4.667668 CGGAGAGCAAATGAAGAAAGAACG 60.668 45.833 0.00 0.00 0.00 3.95
3738 4512 5.767269 TGCTGCAGATGATTCGTTTTAAAA 58.233 33.333 20.43 0.00 0.00 1.52
3739 4513 5.369685 TGCTGCAGATGATTCGTTTTAAA 57.630 34.783 20.43 0.00 0.00 1.52
3740 4514 5.565592 ATGCTGCAGATGATTCGTTTTAA 57.434 34.783 20.43 0.00 0.00 1.52
3741 4515 6.866010 ATATGCTGCAGATGATTCGTTTTA 57.134 33.333 20.43 0.00 0.00 1.52
3761 4535 9.796180 TGTTTTAGTACCTGTACCAAACAATAT 57.204 29.630 21.58 1.33 41.60 1.28
3762 4536 9.624373 TTGTTTTAGTACCTGTACCAAACAATA 57.376 29.630 25.85 15.88 44.35 1.90
3778 4552 5.824097 GGGAGTGGTTGAACTTGTTTTAGTA 59.176 40.000 0.00 0.00 0.00 1.82
3862 4819 0.041312 GTGCAGAACATGTTTCGCGT 60.041 50.000 21.24 0.00 0.00 6.01
3863 4820 0.725784 GGTGCAGAACATGTTTCGCG 60.726 55.000 21.24 0.00 0.00 5.87
4043 5003 2.001269 CTAGGGTGGAAGGGGGTGG 61.001 68.421 0.00 0.00 0.00 4.61
4045 5005 0.029989 GATCTAGGGTGGAAGGGGGT 60.030 60.000 0.00 0.00 0.00 4.95
4049 5015 4.098501 GCAAATTTGATCTAGGGTGGAAGG 59.901 45.833 22.31 0.00 0.00 3.46
4073 5039 8.885722 TGTTGTACTGTTGTTTAGTTTTCTAGG 58.114 33.333 0.00 0.00 33.61 3.02
4081 5047 6.317642 TCAGCAATGTTGTACTGTTGTTTAGT 59.682 34.615 0.00 0.00 0.00 2.24
4162 5132 6.147821 CACTCCCTGTGTAATAGAACAACAAG 59.852 42.308 0.00 0.00 41.53 3.16
4163 5133 5.995282 CACTCCCTGTGTAATAGAACAACAA 59.005 40.000 0.00 0.00 41.53 2.83
4164 5134 5.512404 CCACTCCCTGTGTAATAGAACAACA 60.512 44.000 0.00 0.00 44.81 3.33
4262 5232 4.683432 GCCATCCCAGCGATAGAC 57.317 61.111 0.00 0.00 39.76 2.59
4304 5274 1.612950 CTTGTTTGGTGCAGCATACCA 59.387 47.619 28.58 20.38 46.01 3.25
4328 5298 4.626042 TGCCGATTTTGCACTTACATTTT 58.374 34.783 0.00 0.00 32.85 1.82
4462 5434 7.282916 CGTCAAATTCATTTTTGTTGGATGAC 58.717 34.615 0.00 0.00 37.73 3.06
4477 5449 1.798223 CAGAACCTCGCGTCAAATTCA 59.202 47.619 5.77 0.00 0.00 2.57
4530 5502 9.974980 AAAATGTTATGATTTTACAGGTCGTTT 57.025 25.926 0.00 0.00 34.46 3.60
4570 5542 5.123227 TCCGTCTTTCAGATTTTGTCTTGT 58.877 37.500 0.00 0.00 34.00 3.16
4584 5556 1.535896 GCTTTGGACCTTCCGTCTTTC 59.464 52.381 0.00 0.00 40.17 2.62
4592 5564 3.317993 TGCACTTTTAGCTTTGGACCTTC 59.682 43.478 0.00 0.00 0.00 3.46
4615 5587 4.147321 CCCAGGGAATATCAAATGAGGTG 58.853 47.826 0.00 0.00 0.00 4.00
4719 5691 7.069085 AGCCATCATTTTGTTGCAGACTATAAT 59.931 33.333 0.00 0.00 0.00 1.28
4841 5813 9.841295 TTGGGGTATTTCTCACTTATTACATAC 57.159 33.333 0.00 0.00 0.00 2.39
4850 5822 2.378547 TGCCTTGGGGTATTTCTCACTT 59.621 45.455 0.00 0.00 34.45 3.16


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

AutoCloner maintained by Alex Coulton.