Multiple sequence alignment - TraesCS2B01G378400

Loading Multiple Alignment...

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 TraesCS2B01G378400 chr2B 100.000 6646 0 0 1 6646 541110525 541103880 0.000000e+00 12273.0
1 TraesCS2B01G378400 chr2A 96.243 4179 115 22 1855 6014 602811276 602807121 0.000000e+00 6809.0
2 TraesCS2B01G378400 chr2A 88.136 1711 96 36 1 1677 602813180 602811543 0.000000e+00 1936.0
3 TraesCS2B01G378400 chr2A 82.353 391 42 12 190 570 602815065 602814692 1.390000e-81 315.0
4 TraesCS2B01G378400 chr2A 78.808 302 34 16 135 420 602814442 602814155 6.850000e-40 176.0
5 TraesCS2B01G378400 chr2A 87.755 147 14 1 1716 1858 602811544 602811398 1.150000e-37 169.0
6 TraesCS2B01G378400 chr2A 85.849 106 13 2 6448 6552 25326780 25326884 1.960000e-20 111.0
7 TraesCS2B01G378400 chr2A 85.047 107 15 1 6469 6575 126651248 126651143 2.530000e-19 108.0
8 TraesCS2B01G378400 chr2D 96.375 2621 69 14 3540 6153 459852113 459849512 0.000000e+00 4290.0
9 TraesCS2B01G378400 chr2D 95.249 2736 79 21 760 3469 459854814 459852104 0.000000e+00 4285.0
10 TraesCS2B01G378400 chr2D 91.829 514 29 8 203 709 459855741 459855234 0.000000e+00 704.0
11 TraesCS2B01G378400 chr2D 88.114 387 32 7 190 571 459858395 459858018 1.310000e-121 448.0
12 TraesCS2B01G378400 chr2D 82.151 437 34 19 6222 6646 459849508 459849104 1.070000e-87 335.0
13 TraesCS2B01G378400 chr2D 86.957 115 9 2 1 115 459858647 459858539 2.520000e-24 124.0
14 TraesCS2B01G378400 chr2D 96.053 76 1 2 6149 6223 99024044 99024118 9.050000e-24 122.0
15 TraesCS2B01G378400 chr2D 96.053 76 1 2 6149 6223 390672004 390672078 9.050000e-24 122.0
16 TraesCS2B01G378400 chr2D 81.250 128 23 1 6448 6575 351287797 351287923 1.180000e-17 102.0
17 TraesCS2B01G378400 chr7A 75.000 612 141 12 2393 2997 348207572 348208178 8.490000e-69 272.0
18 TraesCS2B01G378400 chr7A 90.110 91 4 5 6137 6223 428583197 428583286 5.450000e-21 113.0
19 TraesCS2B01G378400 chr7D 74.959 615 138 15 2393 2998 316405395 316404788 1.100000e-67 268.0
20 TraesCS2B01G378400 chr7D 91.111 90 6 2 6136 6223 371354619 371354530 3.260000e-23 121.0
21 TraesCS2B01G378400 chr5D 100.000 71 0 0 6153 6223 206518337 206518407 1.500000e-26 132.0
22 TraesCS2B01G378400 chr5D 97.260 73 1 1 6153 6224 333804324 333804396 9.050000e-24 122.0
23 TraesCS2B01G378400 chr3A 84.496 129 19 1 6448 6576 511600001 511600128 7.000000e-25 126.0
24 TraesCS2B01G378400 chr3A 83.077 130 21 1 6447 6576 540769126 540769254 4.210000e-22 117.0
25 TraesCS2B01G378400 chr3A 89.855 69 4 3 6153 6220 242726925 242726991 1.190000e-12 86.1
26 TraesCS2B01G378400 chr1D 97.297 74 2 0 769 842 328457462 328457389 7.000000e-25 126.0
27 TraesCS2B01G378400 chr7B 98.571 70 0 1 6155 6223 176153567 176153498 9.050000e-24 122.0
28 TraesCS2B01G378400 chr7B 79.333 150 26 3 6448 6594 489143493 489143640 4.240000e-17 100.0
29 TraesCS2B01G378400 chr3D 94.937 79 2 2 6147 6223 528570068 528570146 9.050000e-24 122.0
30 TraesCS2B01G378400 chr3D 97.222 72 1 1 6153 6223 70493174 70493103 3.260000e-23 121.0
31 TraesCS2B01G378400 chr5A 85.714 105 15 0 6448 6552 546410484 546410380 1.960000e-20 111.0
32 TraesCS2B01G378400 chr6D 80.469 128 24 1 6448 6575 295604184 295604310 5.490000e-16 97.1
33 TraesCS2B01G378400 chr6A 80.000 130 24 2 6447 6576 121435979 121435852 1.970000e-15 95.3


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 TraesCS2B01G378400 chr2B 541103880 541110525 6645 True 12273.000000 12273 100.0000 1 6646 1 chr2B.!!$R1 6645
1 TraesCS2B01G378400 chr2A 602807121 602815065 7944 True 1881.000000 6809 86.6590 1 6014 5 chr2A.!!$R2 6013
2 TraesCS2B01G378400 chr2D 459849104 459858647 9543 True 1697.666667 4290 90.1125 1 6646 6 chr2D.!!$R1 6645
3 TraesCS2B01G378400 chr7A 348207572 348208178 606 False 272.000000 272 75.0000 2393 2997 1 chr7A.!!$F1 604
4 TraesCS2B01G378400 chr7D 316404788 316405395 607 True 268.000000 268 74.9590 2393 2998 1 chr7D.!!$R1 605

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
960 5589 0.105408 TAGGGTTTAGCGCCGATTCC 59.895 55.0 2.29 0.40 0.00 3.01 F
1342 5979 0.110823 GCGATTTGTGGTCACGTGAC 60.111 55.0 35.26 35.26 44.04 3.67 F
1714 6351 1.160137 GCAGAGTCTTGGCATTCGTT 58.840 50.0 0.00 0.00 0.00 3.85 F
1844 6487 2.092914 GGAGTTGTGGTATTAGCTGGCT 60.093 50.0 0.00 0.00 0.00 4.75 F
2795 7581 1.995376 AATCCAGGTGTTTCGGCTTT 58.005 45.0 0.00 0.00 0.00 3.51 F
3892 8679 2.176247 TGACCCCTTCTATGACTCCC 57.824 55.0 0.00 0.00 0.00 4.30 F
4589 9381 0.673644 CTGGGTACGGTTTCCAGCAG 60.674 60.0 13.81 5.64 41.12 4.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1778 6417 0.983467 TCTTCCCATACAGCACAGCA 59.017 50.000 0.00 0.0 0.00 4.41 R
2247 7029 1.067354 GGGTCACGGTTCGAGTACATT 60.067 52.381 0.00 0.0 0.00 2.71 R
2795 7581 3.507162 TCTGGGCTCTCAAAATTGACA 57.493 42.857 0.00 0.0 32.90 3.58 R
3620 8407 4.155826 TGAGCCTCCAATGTGAAAATAACG 59.844 41.667 0.00 0.0 0.00 3.18 R
3967 8754 0.322546 CAACAAGTACCTGAGGGGGC 60.323 60.000 2.38 0.0 40.03 5.80 R
5612 10405 0.458025 CGTCGCTCAAGGTTAGACCC 60.458 60.000 0.00 0.0 39.75 4.46 R
6193 10990 0.457443 GCAACTAAGCTTGGGATGCC 59.543 55.000 23.42 0.0 0.00 4.40 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 7.822822 TGGAGGAAGTAGTTAATTTTCTAGCAC 59.177 37.037 0.00 0.00 0.00 4.40
64 65 9.646522 AGTTAATTTTCTAGCACCCATTGATAT 57.353 29.630 0.00 0.00 0.00 1.63
98 775 4.764679 AAGAAAATAGCGACAATGCACA 57.235 36.364 0.00 0.00 37.31 4.57
115 1560 2.031683 GCACAGGGCATCGTTACATTAC 59.968 50.000 0.00 0.00 43.97 1.89
116 1561 3.266636 CACAGGGCATCGTTACATTACA 58.733 45.455 0.00 0.00 0.00 2.41
121 1644 5.050363 CAGGGCATCGTTACATTACATACAC 60.050 44.000 0.00 0.00 0.00 2.90
159 2347 7.859598 ACTGAGATTGATTGAATTAATCGCTC 58.140 34.615 20.63 13.16 46.65 5.03
161 2349 6.073602 TGAGATTGATTGAATTAATCGCTCCG 60.074 38.462 20.63 0.00 46.65 4.63
181 2369 4.520874 TCCGATTCACAATTAAGCCACAAA 59.479 37.500 0.00 0.00 0.00 2.83
183 2371 5.516339 CCGATTCACAATTAAGCCACAAATC 59.484 40.000 0.00 0.00 0.00 2.17
231 4469 6.095377 CACAGCTAATTTTTCTCCAATCCAC 58.905 40.000 0.00 0.00 0.00 4.02
246 4484 8.240682 TCTCCAATCCACGTAATTGTATTTTTG 58.759 33.333 17.00 5.10 33.22 2.44
247 4485 8.112016 TCCAATCCACGTAATTGTATTTTTGA 57.888 30.769 17.00 6.77 33.22 2.69
255 4495 8.320295 CACGTAATTGTATTTTTGATGATTGGC 58.680 33.333 0.00 0.00 0.00 4.52
270 4510 0.111446 TTGGCGATGAGGGTTCCAAA 59.889 50.000 0.00 0.00 34.24 3.28
288 4528 2.688958 CAAACCACGTTTTTGTAGGGGA 59.311 45.455 10.13 0.00 33.10 4.81
293 4533 3.215975 CACGTTTTTGTAGGGGAAAGGA 58.784 45.455 0.00 0.00 0.00 3.36
332 4572 2.204237 ACCTGTACCGTCACGTTTTTC 58.796 47.619 0.00 0.00 0.00 2.29
337 4577 5.294050 TGTACCGTCACGTTTTTCTTTTT 57.706 34.783 0.00 0.00 0.00 1.94
465 4709 4.880537 CGCGGCGCCATTCTCTCT 62.881 66.667 28.98 0.00 0.00 3.10
467 4711 2.656651 CGGCGCCATTCTCTCTCG 60.657 66.667 28.98 3.82 0.00 4.04
474 4718 1.288350 CCATTCTCTCTCGCAAGCAG 58.712 55.000 0.00 0.00 37.18 4.24
639 4883 0.614979 TAGACCCAGTCCAGGAGCAC 60.615 60.000 0.00 0.00 32.18 4.40
640 4884 2.930562 ACCCAGTCCAGGAGCACC 60.931 66.667 0.00 0.00 0.00 5.01
641 4885 2.930019 CCCAGTCCAGGAGCACCA 60.930 66.667 2.07 0.00 38.94 4.17
642 4886 2.348998 CCAGTCCAGGAGCACCAC 59.651 66.667 2.07 0.00 38.94 4.16
643 4887 2.348998 CAGTCCAGGAGCACCACC 59.651 66.667 2.07 0.00 38.94 4.61
644 4888 2.205462 AGTCCAGGAGCACCACCT 59.795 61.111 2.07 0.00 38.94 4.00
645 4889 1.915769 AGTCCAGGAGCACCACCTC 60.916 63.158 2.07 0.00 38.94 3.85
646 4890 2.997315 TCCAGGAGCACCACCTCG 60.997 66.667 2.07 0.00 38.94 4.63
746 4999 1.202770 GCGCCCATATAACCACCTTCT 60.203 52.381 0.00 0.00 0.00 2.85
747 5000 2.748465 GCGCCCATATAACCACCTTCTT 60.748 50.000 0.00 0.00 0.00 2.52
750 5003 3.750922 GCCCATATAACCACCTTCTTCCC 60.751 52.174 0.00 0.00 0.00 3.97
929 5558 3.455327 CTCCTCGCTATATACCGATCGA 58.545 50.000 18.66 0.00 32.52 3.59
930 5559 3.455327 TCCTCGCTATATACCGATCGAG 58.545 50.000 18.66 9.42 41.90 4.04
931 5560 3.863396 CTCGCTATATACCGATCGAGG 57.137 52.381 18.66 2.80 39.52 4.63
932 5561 3.455327 CTCGCTATATACCGATCGAGGA 58.545 50.000 18.66 3.51 39.52 3.71
933 5562 3.455327 TCGCTATATACCGATCGAGGAG 58.545 50.000 18.66 1.54 34.73 3.69
934 5563 3.131755 TCGCTATATACCGATCGAGGAGA 59.868 47.826 18.66 0.58 34.73 3.71
960 5589 0.105408 TAGGGTTTAGCGCCGATTCC 59.895 55.000 2.29 0.40 0.00 3.01
1300 5937 2.521224 GTACGGCGATCCCCTCCT 60.521 66.667 16.62 0.00 0.00 3.69
1317 5954 2.309162 CTCCTCCCCTCTCGTATCCATA 59.691 54.545 0.00 0.00 0.00 2.74
1332 5969 1.866601 TCCATATCTGCGCGATTTGTG 59.133 47.619 12.10 16.08 31.51 3.33
1333 5970 1.069703 CCATATCTGCGCGATTTGTGG 60.070 52.381 12.10 19.11 31.51 4.17
1334 5971 1.599071 CATATCTGCGCGATTTGTGGT 59.401 47.619 12.10 0.00 33.48 4.16
1335 5972 1.286501 TATCTGCGCGATTTGTGGTC 58.713 50.000 12.10 0.00 33.48 4.02
1336 5973 0.673333 ATCTGCGCGATTTGTGGTCA 60.673 50.000 12.10 0.00 0.00 4.02
1337 5974 1.154413 CTGCGCGATTTGTGGTCAC 60.154 57.895 12.10 0.00 0.00 3.67
1338 5975 2.202171 GCGCGATTTGTGGTCACG 60.202 61.111 12.10 0.00 0.00 4.35
1339 5976 2.950172 GCGCGATTTGTGGTCACGT 61.950 57.895 12.10 0.00 0.00 4.49
1340 5977 1.154672 CGCGATTTGTGGTCACGTG 60.155 57.895 9.94 9.94 0.00 4.49
1341 5978 1.553195 CGCGATTTGTGGTCACGTGA 61.553 55.000 15.76 15.76 36.76 4.35
1342 5979 0.110823 GCGATTTGTGGTCACGTGAC 60.111 55.000 35.26 35.26 44.04 3.67
1367 6004 1.720852 GATGTTGTTGAATTGCGGTGC 59.279 47.619 0.00 0.00 0.00 5.01
1451 6088 6.288941 TCTGTGGTTGAATTAGTCGGATAA 57.711 37.500 0.00 0.00 0.00 1.75
1465 6102 5.321927 AGTCGGATAAGGATTGGTTTTGTT 58.678 37.500 0.00 0.00 0.00 2.83
1501 6138 3.360249 AATTGAAGCGATTATGCCAGC 57.640 42.857 0.00 0.00 34.65 4.85
1513 6150 6.580791 GCGATTATGCCAGCGAAAATTATTTA 59.419 34.615 0.00 0.00 0.00 1.40
1515 6152 8.577939 CGATTATGCCAGCGAAAATTATTTATG 58.422 33.333 0.00 0.00 0.00 1.90
1522 6159 8.690840 GCCAGCGAAAATTATTTATGTACAATC 58.309 33.333 0.00 0.00 0.00 2.67
1582 6219 3.289407 TGTTGTGTTCTTGGTGATGGA 57.711 42.857 0.00 0.00 0.00 3.41
1588 6225 2.224769 TGTTCTTGGTGATGGAAGGGAC 60.225 50.000 0.00 0.00 0.00 4.46
1669 6306 9.995003 AAGCCATTACTTTTGTTGATAATTGAA 57.005 25.926 0.00 0.00 0.00 2.69
1685 6322 9.288576 TGATAATTGAATCTCATTGGTGGTATC 57.711 33.333 0.00 0.00 0.00 2.24
1708 6345 4.760530 AATATACTGCAGAGTCTTGGCA 57.239 40.909 23.35 5.17 33.21 4.92
1714 6351 1.160137 GCAGAGTCTTGGCATTCGTT 58.840 50.000 0.00 0.00 0.00 3.85
1720 6357 6.024049 CAGAGTCTTGGCATTCGTTTTTATC 58.976 40.000 0.00 0.00 0.00 1.75
1726 6363 8.798153 GTCTTGGCATTCGTTTTTATCATTTAG 58.202 33.333 0.00 0.00 0.00 1.85
1818 6461 7.012799 GGAAGAATTGATGTGTCTCCCTAATTC 59.987 40.741 0.00 0.00 34.79 2.17
1844 6487 2.092914 GGAGTTGTGGTATTAGCTGGCT 60.093 50.000 0.00 0.00 0.00 4.75
1848 6491 4.010349 GTTGTGGTATTAGCTGGCTTTCT 58.990 43.478 0.00 0.00 0.00 2.52
1872 6640 7.715249 TCTGCTGCTACTAAATTATTACTTGGG 59.285 37.037 0.00 0.00 0.00 4.12
1919 6695 4.579340 ACTGAGCAGCATTCATTCATTAGG 59.421 41.667 0.00 0.00 0.00 2.69
1964 6741 5.122239 AGTTTGTGTATCCACGATGATGTTG 59.878 40.000 0.00 0.00 44.92 3.33
1982 6759 2.483014 TGTGGGGTGTAACAGTATGC 57.517 50.000 0.00 0.00 42.53 3.14
1985 6762 3.778075 TGTGGGGTGTAACAGTATGCTAT 59.222 43.478 0.00 0.00 42.53 2.97
2183 6965 6.434028 TGCTGCTTGACTAATTAGTTCCATTT 59.566 34.615 18.96 0.00 36.50 2.32
2247 7029 2.851263 ACAACAAGCCCATTCGAGTA 57.149 45.000 0.00 0.00 0.00 2.59
2369 7151 9.971922 AAAATAATCAGTTTTTCTCTGGACTTG 57.028 29.630 0.00 0.00 34.15 3.16
2392 7174 5.049198 TGTCTCTGATGTGAGCATTTTGAAC 60.049 40.000 0.00 0.00 35.07 3.18
2393 7175 5.180868 GTCTCTGATGTGAGCATTTTGAACT 59.819 40.000 0.00 0.00 35.07 3.01
2394 7176 5.766670 TCTCTGATGTGAGCATTTTGAACTT 59.233 36.000 0.00 0.00 35.07 2.66
2395 7177 6.263842 TCTCTGATGTGAGCATTTTGAACTTT 59.736 34.615 0.00 0.00 35.07 2.66
2795 7581 1.995376 AATCCAGGTGTTTCGGCTTT 58.005 45.000 0.00 0.00 0.00 3.51
3077 7863 7.601856 CCTCTTGCAAGGTAATTTTCATGTTA 58.398 34.615 25.73 0.00 0.00 2.41
3098 7884 6.041979 TGTTATGCAATCATACCTCTGCTCTA 59.958 38.462 0.00 0.00 35.07 2.43
3249 8036 5.990996 AGTTTGTTTCCCAAATATTGCTGTG 59.009 36.000 0.00 0.00 44.50 3.66
3470 8257 8.809468 TTGATAGTGACAACTGTAGATAGACT 57.191 34.615 0.00 0.00 37.19 3.24
3620 8407 8.926715 ACCTTCATTCACTTTTTAAGTTTCAC 57.073 30.769 0.00 0.00 40.46 3.18
3647 8434 8.416329 GTTATTTTCACATTGGAGGCTCAATAT 58.584 33.333 17.69 3.16 35.78 1.28
3765 8552 7.067494 ACACTGCTTCTGTATTTTCTTGAAAGT 59.933 33.333 0.00 0.00 0.00 2.66
3892 8679 2.176247 TGACCCCTTCTATGACTCCC 57.824 55.000 0.00 0.00 0.00 4.30
3967 8754 2.219458 CAAGCTCCACCTGCTATGATG 58.781 52.381 0.00 0.00 40.22 3.07
3992 8779 3.335579 CCTCAGGTACTTGTTGTAAGCC 58.664 50.000 4.75 0.00 34.60 4.35
4005 8792 4.271533 TGTTGTAAGCCGTGTTAGTTTCAG 59.728 41.667 0.00 0.00 0.00 3.02
4120 8908 4.904154 GTGCTGTCTAAGTTTTAGTTTGCG 59.096 41.667 0.00 0.00 0.00 4.85
4149 8937 1.764134 CATAGGGGGCATTGCAATGTT 59.236 47.619 33.67 19.35 38.65 2.71
4350 9141 6.084326 ACACCATTGGATTATTTATTCCGC 57.916 37.500 10.37 0.00 34.58 5.54
4352 9143 6.097554 ACACCATTGGATTATTTATTCCGCAA 59.902 34.615 10.37 0.00 34.58 4.85
4365 9156 4.290326 CGCAATTACGGCATGCTG 57.710 55.556 25.08 25.08 37.92 4.41
4384 9175 4.022416 TGCTGACAGTGAACACTTTTGTTT 60.022 37.500 3.99 0.00 46.43 2.83
4513 9304 5.826643 TGCCTAGGTGAACTTAAATGGAAT 58.173 37.500 11.31 0.00 0.00 3.01
4589 9381 0.673644 CTGGGTACGGTTTCCAGCAG 60.674 60.000 13.81 5.64 41.12 4.24
4787 9579 7.576236 CATTCTCGTGTCTTTACATTTCTTGT 58.424 34.615 0.00 0.00 42.62 3.16
4814 9606 5.125417 TCAATTATTGGAGGCTGTTGTTAGC 59.875 40.000 5.02 0.00 42.94 3.09
5003 9795 7.873910 AGAGTAGTGAAAGTACAGTGACTTAC 58.126 38.462 0.00 0.00 45.24 2.34
5004 9796 7.720515 AGAGTAGTGAAAGTACAGTGACTTACT 59.279 37.037 0.00 6.63 45.24 2.24
5052 9845 1.599797 GGTTCCAAGGGGACGTGTG 60.600 63.158 0.00 0.00 44.89 3.82
5169 9962 2.267006 CCTGTGCGAGATGCTGGT 59.733 61.111 0.00 0.00 46.63 4.00
5299 10092 9.146984 TCTGTTGTTTAAATCTATCCGTTACTG 57.853 33.333 0.00 0.00 0.00 2.74
5465 10258 1.447317 AACAAGCTGCCAAGGTGACG 61.447 55.000 0.00 0.00 33.40 4.35
5582 10375 4.892965 AACGTGGCCCAGCAGCAA 62.893 61.111 0.00 0.00 0.00 3.91
5588 10381 4.362476 GCCCAGCAGCAAAACCCG 62.362 66.667 0.00 0.00 0.00 5.28
5591 10384 1.535204 CCCAGCAGCAAAACCCGAAT 61.535 55.000 0.00 0.00 0.00 3.34
5612 10405 4.880537 CCTACCAGCCAGCTCGCG 62.881 72.222 0.00 0.00 0.00 5.87
5646 10439 2.623889 AGCGACGGCATTATCTCTTAGT 59.376 45.455 0.00 0.00 43.41 2.24
5662 10455 6.150318 TCTCTTAGTTTAGAGTCAGTTTGCG 58.850 40.000 0.00 0.00 41.91 4.85
6077 10874 0.813610 TGAGCCCGTCATAATTGCGG 60.814 55.000 0.00 0.00 40.19 5.69
6162 10959 4.572985 AAATGCATGACAATACCGATGG 57.427 40.909 0.00 0.00 0.00 3.51
6163 10960 2.708216 TGCATGACAATACCGATGGT 57.292 45.000 0.00 0.00 40.16 3.55
6164 10961 2.560504 TGCATGACAATACCGATGGTC 58.439 47.619 0.00 0.00 36.63 4.02
6165 10962 1.526887 GCATGACAATACCGATGGTCG 59.473 52.381 0.00 0.00 38.70 4.79
6166 10963 2.821546 CATGACAATACCGATGGTCGT 58.178 47.619 0.00 0.00 38.70 4.34
6167 10964 3.194861 CATGACAATACCGATGGTCGTT 58.805 45.455 0.00 0.00 38.70 3.85
6168 10965 4.364860 CATGACAATACCGATGGTCGTTA 58.635 43.478 0.00 0.00 38.70 3.18
6169 10966 4.036567 TGACAATACCGATGGTCGTTAG 57.963 45.455 0.00 0.00 38.70 2.34
6170 10967 3.695556 TGACAATACCGATGGTCGTTAGA 59.304 43.478 0.00 0.00 38.70 2.10
6171 10968 4.158209 TGACAATACCGATGGTCGTTAGAA 59.842 41.667 0.00 0.00 38.70 2.10
6172 10969 4.679662 ACAATACCGATGGTCGTTAGAAG 58.320 43.478 0.00 0.00 38.40 2.85
6173 10970 4.400251 ACAATACCGATGGTCGTTAGAAGA 59.600 41.667 0.00 0.00 38.40 2.87
6174 10971 5.105635 ACAATACCGATGGTCGTTAGAAGAA 60.106 40.000 0.00 0.00 38.40 2.52
6175 10972 3.947910 ACCGATGGTCGTTAGAAGAAA 57.052 42.857 0.00 0.00 38.40 2.52
6176 10973 3.846360 ACCGATGGTCGTTAGAAGAAAG 58.154 45.455 0.00 0.00 38.40 2.62
6177 10974 3.508793 ACCGATGGTCGTTAGAAGAAAGA 59.491 43.478 0.00 0.00 38.40 2.52
6178 10975 4.106197 CCGATGGTCGTTAGAAGAAAGAG 58.894 47.826 0.00 0.00 38.40 2.85
6179 10976 4.106197 CGATGGTCGTTAGAAGAAAGAGG 58.894 47.826 0.00 0.00 34.72 3.69
6180 10977 4.142447 CGATGGTCGTTAGAAGAAAGAGGA 60.142 45.833 0.00 0.00 34.72 3.71
6181 10978 4.785511 TGGTCGTTAGAAGAAAGAGGAG 57.214 45.455 0.00 0.00 0.00 3.69
6182 10979 4.404640 TGGTCGTTAGAAGAAAGAGGAGA 58.595 43.478 0.00 0.00 0.00 3.71
6183 10980 5.017490 TGGTCGTTAGAAGAAAGAGGAGAT 58.983 41.667 0.00 0.00 0.00 2.75
6184 10981 5.105716 TGGTCGTTAGAAGAAAGAGGAGATG 60.106 44.000 0.00 0.00 0.00 2.90
6185 10982 4.801516 GTCGTTAGAAGAAAGAGGAGATGC 59.198 45.833 0.00 0.00 0.00 3.91
6186 10983 4.116238 CGTTAGAAGAAAGAGGAGATGCC 58.884 47.826 0.00 0.00 0.00 4.40
6187 10984 4.382040 CGTTAGAAGAAAGAGGAGATGCCA 60.382 45.833 0.00 0.00 40.02 4.92
6188 10985 3.625649 AGAAGAAAGAGGAGATGCCAC 57.374 47.619 0.00 0.00 40.02 5.01
6189 10986 3.180507 AGAAGAAAGAGGAGATGCCACT 58.819 45.455 0.00 0.00 39.48 4.00
6190 10987 3.197549 AGAAGAAAGAGGAGATGCCACTC 59.802 47.826 0.00 0.00 36.48 3.51
6191 10988 1.480137 AGAAAGAGGAGATGCCACTCG 59.520 52.381 0.00 0.00 36.48 4.18
6192 10989 0.539051 AAAGAGGAGATGCCACTCGG 59.461 55.000 0.00 0.00 36.48 4.63
6193 10990 1.333636 AAGAGGAGATGCCACTCGGG 61.334 60.000 0.00 0.00 36.48 5.14
6194 10991 2.765807 AGGAGATGCCACTCGGGG 60.766 66.667 0.00 0.00 40.02 5.73
6210 11007 3.596362 GGGCATCCCAAGCTTAGTT 57.404 52.632 0.00 0.00 44.65 2.24
6211 11008 1.106285 GGGCATCCCAAGCTTAGTTG 58.894 55.000 0.00 0.50 44.65 3.16
6212 11009 0.457443 GGCATCCCAAGCTTAGTTGC 59.543 55.000 17.40 17.40 0.00 4.17
6213 11010 1.467920 GCATCCCAAGCTTAGTTGCT 58.532 50.000 17.99 0.00 46.40 3.91
6239 11036 5.701290 GCTTCTCTACAGTGGTTATGTTTGT 59.299 40.000 0.00 0.00 32.02 2.83
6243 11040 7.506114 TCTCTACAGTGGTTATGTTTGTTCTT 58.494 34.615 0.00 0.00 32.02 2.52
6316 11115 8.562949 AATCTGTATAACCCTATACTTGGTGT 57.437 34.615 4.44 0.00 40.38 4.16
6407 11221 9.755804 TCAGTTTGCATCTAAGAATATACTCTG 57.244 33.333 0.00 0.00 0.00 3.35
6408 11222 9.539825 CAGTTTGCATCTAAGAATATACTCTGT 57.460 33.333 0.00 0.00 0.00 3.41
6464 11278 5.975988 AAAAATACTCCCTCCATGCTAGA 57.024 39.130 0.00 0.00 0.00 2.43
6465 11279 5.975988 AAAATACTCCCTCCATGCTAGAA 57.024 39.130 0.00 0.00 0.00 2.10
6466 11280 6.521527 AAAATACTCCCTCCATGCTAGAAT 57.478 37.500 0.00 0.00 0.00 2.40
6467 11281 7.633018 AAAATACTCCCTCCATGCTAGAATA 57.367 36.000 0.00 0.00 0.00 1.75
6468 11282 7.821134 AAATACTCCCTCCATGCTAGAATAT 57.179 36.000 0.00 0.00 0.00 1.28
6477 11291 7.939039 CCCTCCATGCTAGAATATTTGTCTTAA 59.061 37.037 0.00 0.00 0.00 1.85
6494 11308 5.163622 TGTCTTAAATTCGTCTAGGTACGGG 60.164 44.000 4.36 0.00 43.05 5.28
6499 11313 2.779755 TCGTCTAGGTACGGGTGTAA 57.220 50.000 4.36 0.00 43.05 2.41
6517 11331 8.819974 CGGGTGTAACTAATATTAAAACGTGAT 58.180 33.333 0.00 0.00 36.74 3.06
6538 11352 8.712363 CGTGATTTGATTCATCCGTATTTAGAT 58.288 33.333 0.00 0.00 0.00 1.98
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 5.093849 TCCTCCAACGGGATTAAAACTAG 57.906 43.478 0.00 0.00 43.91 2.57
23 24 3.967332 TTAACTACTTCCTCCAACGGG 57.033 47.619 0.00 0.00 0.00 5.28
79 80 3.429085 CCTGTGCATTGTCGCTATTTTC 58.571 45.455 0.00 0.00 0.00 2.29
98 775 5.054477 GTGTATGTAATGTAACGATGCCCT 58.946 41.667 0.00 0.00 0.00 5.19
115 1560 7.694886 TCTCAGTCGATGTTTACTAGTGTATG 58.305 38.462 5.39 0.00 0.00 2.39
116 1561 7.860918 TCTCAGTCGATGTTTACTAGTGTAT 57.139 36.000 5.39 0.00 0.00 2.29
121 1644 8.750416 CAATCAATCTCAGTCGATGTTTACTAG 58.250 37.037 0.00 0.00 0.00 2.57
159 2347 4.433186 TTGTGGCTTAATTGTGAATCGG 57.567 40.909 0.00 0.00 0.00 4.18
161 2349 8.538409 AAAGATTTGTGGCTTAATTGTGAATC 57.462 30.769 0.00 0.00 0.00 2.52
174 2362 5.049167 TGATGTCAACAAAAGATTTGTGGC 58.951 37.500 9.05 6.26 32.22 5.01
181 2369 9.260002 GGTTTAATTGTGATGTCAACAAAAGAT 57.740 29.630 0.00 0.00 0.00 2.40
183 2371 8.327429 GTGGTTTAATTGTGATGTCAACAAAAG 58.673 33.333 0.00 0.00 0.00 2.27
231 4469 7.430793 TCGCCAATCATCAAAAATACAATTACG 59.569 33.333 0.00 0.00 0.00 3.18
246 4484 1.876156 GAACCCTCATCGCCAATCATC 59.124 52.381 0.00 0.00 0.00 2.92
247 4485 1.477558 GGAACCCTCATCGCCAATCAT 60.478 52.381 0.00 0.00 0.00 2.45
270 4510 2.732844 TTCCCCTACAAAAACGTGGT 57.267 45.000 0.00 0.00 0.00 4.16
293 4533 2.550978 GTTTCATCACGTGGATCGGAT 58.449 47.619 17.00 0.00 44.69 4.18
297 4537 2.699954 ACAGGTTTCATCACGTGGATC 58.300 47.619 17.00 2.85 36.95 3.36
342 4582 1.282248 CCTACGTGACGGCACTGTTG 61.282 60.000 21.24 18.15 42.93 3.33
346 4587 2.960170 GTCCTACGTGACGGCACT 59.040 61.111 21.24 9.24 42.93 4.40
368 4609 2.572284 CGGGTTCGTGTCCTCCTC 59.428 66.667 0.00 0.00 0.00 3.71
369 4610 2.995574 CCGGGTTCGTGTCCTCCT 60.996 66.667 0.00 0.00 33.95 3.69
465 4709 3.653009 GTGTGCTGCTGCTTGCGA 61.653 61.111 17.00 0.00 46.63 5.10
467 4711 4.695231 CGGTGTGCTGCTGCTTGC 62.695 66.667 17.00 6.23 40.48 4.01
618 4862 1.331399 GCTCCTGGACTGGGTCTACC 61.331 65.000 0.00 0.00 40.81 3.18
686 4939 4.646877 GGTTTGTTCCGCGGGGGA 62.647 66.667 27.83 10.08 45.40 4.81
694 4947 3.082548 GCTCCTTCTTAGGGTTTGTTCC 58.917 50.000 0.00 0.00 42.26 3.62
901 5530 0.336737 ATATAGCGAGGAGGAGGGGG 59.663 60.000 0.00 0.00 0.00 5.40
929 5558 4.228010 GCTAAACCCTATCTCCTTCTCCT 58.772 47.826 0.00 0.00 0.00 3.69
930 5559 3.006003 CGCTAAACCCTATCTCCTTCTCC 59.994 52.174 0.00 0.00 0.00 3.71
931 5560 3.553302 GCGCTAAACCCTATCTCCTTCTC 60.553 52.174 0.00 0.00 0.00 2.87
932 5561 2.365941 GCGCTAAACCCTATCTCCTTCT 59.634 50.000 0.00 0.00 0.00 2.85
933 5562 2.548280 GGCGCTAAACCCTATCTCCTTC 60.548 54.545 7.64 0.00 0.00 3.46
934 5563 1.416772 GGCGCTAAACCCTATCTCCTT 59.583 52.381 7.64 0.00 0.00 3.36
960 5589 0.034863 TTTCGATTCTTTCCCCCGGG 60.035 55.000 15.80 15.80 0.00 5.73
1300 5937 3.878131 GCAGATATGGATACGAGAGGGGA 60.878 52.174 0.00 0.00 42.51 4.81
1317 5954 0.673333 TGACCACAAATCGCGCAGAT 60.673 50.000 8.75 8.65 42.43 2.90
1333 5970 0.038526 AACATCGAGGGTCACGTGAC 60.039 55.000 35.26 35.26 44.04 3.67
1334 5971 0.038618 CAACATCGAGGGTCACGTGA 60.039 55.000 15.76 15.76 0.00 4.35
1335 5972 0.319555 ACAACATCGAGGGTCACGTG 60.320 55.000 9.94 9.94 0.00 4.49
1336 5973 0.391597 AACAACATCGAGGGTCACGT 59.608 50.000 0.69 0.00 0.00 4.49
1337 5974 0.790207 CAACAACATCGAGGGTCACG 59.210 55.000 0.69 0.00 0.00 4.35
1338 5975 2.163818 TCAACAACATCGAGGGTCAC 57.836 50.000 0.69 0.00 0.00 3.67
1339 5976 2.920724 TTCAACAACATCGAGGGTCA 57.079 45.000 0.69 0.00 0.00 4.02
1340 5977 3.670627 GCAATTCAACAACATCGAGGGTC 60.671 47.826 0.69 0.00 0.00 4.46
1341 5978 2.228822 GCAATTCAACAACATCGAGGGT 59.771 45.455 0.69 0.00 0.00 4.34
1342 5979 2.728846 CGCAATTCAACAACATCGAGGG 60.729 50.000 0.69 0.00 0.00 4.30
1343 5980 2.508867 CGCAATTCAACAACATCGAGG 58.491 47.619 0.00 0.00 0.00 4.63
1344 5981 2.095768 ACCGCAATTCAACAACATCGAG 60.096 45.455 0.00 0.00 0.00 4.04
1422 6059 6.307155 CGACTAATTCAACCACAGATGTTTC 58.693 40.000 0.00 0.00 0.00 2.78
1451 6088 4.057432 CAATTGCGAACAAAACCAATCCT 58.943 39.130 0.00 0.00 39.77 3.24
1465 6102 5.064707 GCTTCAATTACCTACTCAATTGCGA 59.935 40.000 1.68 0.00 40.41 5.10
1513 6150 2.647529 TGCGTCAGTCGATTGTACAT 57.352 45.000 7.87 0.00 42.86 2.29
1515 6152 3.612860 AGATTTGCGTCAGTCGATTGTAC 59.387 43.478 7.87 4.46 42.86 2.90
1522 6159 2.476619 AGAAACAGATTTGCGTCAGTCG 59.523 45.455 0.00 0.00 43.12 4.18
1588 6225 2.436646 ATTCAAGGGGCGCTGACG 60.437 61.111 7.64 0.00 44.07 4.35
1685 6322 5.847304 TGCCAAGACTCTGCAGTATATTAG 58.153 41.667 14.67 4.87 30.63 1.73
1708 6345 7.759433 CCTGGCAACTAAATGATAAAAACGAAT 59.241 33.333 0.00 0.00 37.61 3.34
1714 6351 7.296628 ACAACCTGGCAACTAAATGATAAAA 57.703 32.000 0.00 0.00 37.61 1.52
1720 6357 3.004315 ACGAACAACCTGGCAACTAAATG 59.996 43.478 0.00 0.00 37.61 2.32
1726 6363 1.555477 CAAACGAACAACCTGGCAAC 58.445 50.000 0.00 0.00 0.00 4.17
1775 6414 2.512692 TCCCATACAGCACAGCAATT 57.487 45.000 0.00 0.00 0.00 2.32
1778 6417 0.983467 TCTTCCCATACAGCACAGCA 59.017 50.000 0.00 0.00 0.00 4.41
1779 6418 2.113860 TTCTTCCCATACAGCACAGC 57.886 50.000 0.00 0.00 0.00 4.40
1818 6461 5.760253 CCAGCTAATACCACAACTCCTAATG 59.240 44.000 0.00 0.00 0.00 1.90
1848 6491 6.262273 GCCCAAGTAATAATTTAGTAGCAGCA 59.738 38.462 0.00 0.00 0.00 4.41
1872 6640 9.005777 AGTGTTACTCTATCTATAACAGCTAGC 57.994 37.037 6.62 6.62 38.98 3.42
1919 6695 2.546368 TGTGCACACAGAATTTACCGTC 59.454 45.455 17.42 0.00 36.21 4.79
1964 6741 2.781681 AGCATACTGTTACACCCCAC 57.218 50.000 0.00 0.00 0.00 4.61
2247 7029 1.067354 GGGTCACGGTTCGAGTACATT 60.067 52.381 0.00 0.00 0.00 2.71
2369 7151 5.180868 AGTTCAAAATGCTCACATCAGAGAC 59.819 40.000 0.00 0.00 37.87 3.36
2392 7174 6.207691 TGTCAAGGTTCTGGAAAAAGAAAG 57.792 37.500 0.00 0.00 37.90 2.62
2393 7175 6.435904 TCTTGTCAAGGTTCTGGAAAAAGAAA 59.564 34.615 12.66 0.00 37.90 2.52
2394 7176 5.949354 TCTTGTCAAGGTTCTGGAAAAAGAA 59.051 36.000 12.66 0.00 33.77 2.52
2395 7177 5.357032 GTCTTGTCAAGGTTCTGGAAAAAGA 59.643 40.000 12.66 0.00 0.00 2.52
2795 7581 3.507162 TCTGGGCTCTCAAAATTGACA 57.493 42.857 0.00 0.00 32.90 3.58
3068 7854 7.469043 GCAGAGGTATGATTGCATAACATGAAA 60.469 37.037 0.00 0.00 45.26 2.69
3077 7863 5.012871 ACATAGAGCAGAGGTATGATTGCAT 59.987 40.000 0.00 0.00 38.97 3.96
3089 7875 9.356433 CATACATCATTTAGACATAGAGCAGAG 57.644 37.037 0.00 0.00 0.00 3.35
3098 7884 9.516546 AGCAATGATCATACATCATTTAGACAT 57.483 29.630 9.04 0.00 43.84 3.06
3249 8036 7.439056 ACCATTTTGTGAATCAGAACAATTGAC 59.561 33.333 13.59 5.89 36.26 3.18
3463 8250 9.400638 GCATCAGTGTACTGTTATTAGTCTATC 57.599 37.037 11.44 0.00 44.12 2.08
3470 8257 6.054941 CCATGGCATCAGTGTACTGTTATTA 58.945 40.000 11.44 0.00 44.12 0.98
3620 8407 4.155826 TGAGCCTCCAATGTGAAAATAACG 59.844 41.667 0.00 0.00 0.00 3.18
3647 8434 5.239351 CCATTTTTCATGCACATCCTCAAA 58.761 37.500 0.00 0.00 0.00 2.69
3892 8679 0.464452 GAGGGTACATTGGGAGTCGG 59.536 60.000 0.00 0.00 0.00 4.79
3967 8754 0.322546 CAACAAGTACCTGAGGGGGC 60.323 60.000 2.38 0.00 40.03 5.80
3992 8779 6.799925 ACAAAGTTCAAACTGAAACTAACACG 59.200 34.615 0.00 0.00 38.22 4.49
4005 8792 7.033185 ACCTGAATGTAACACAAAGTTCAAAC 58.967 34.615 0.00 0.00 41.64 2.93
4149 8937 3.138283 AGAAGAACATTTCCACTGACCCA 59.862 43.478 0.00 0.00 0.00 4.51
4194 8982 3.941483 CACTGATGTTGATTCACCCCTAC 59.059 47.826 0.00 0.00 0.00 3.18
4293 9082 9.332502 TGAACAACACATATTTACTTACACTGT 57.667 29.630 0.00 0.00 0.00 3.55
4350 9141 1.739466 ACTGTCAGCATGCCGTAATTG 59.261 47.619 15.66 4.91 34.76 2.32
4352 9143 1.066215 TCACTGTCAGCATGCCGTAAT 60.066 47.619 15.66 0.00 34.76 1.89
4384 9175 3.401182 GCCAAAATGAACAAGGCATGAA 58.599 40.909 0.00 0.00 44.59 2.57
4589 9381 1.471684 CTCATTCCTGGAACAAGCTGC 59.528 52.381 12.11 0.00 38.70 5.25
4756 9548 2.907910 AAGACACGAGAATGCATTGC 57.092 45.000 18.59 7.73 0.00 3.56
4787 9579 7.716799 AACAACAGCCTCCAATAATTGATAA 57.283 32.000 0.00 0.00 0.00 1.75
4978 9770 6.963083 AAGTCACTGTACTTTCACTACTCT 57.037 37.500 0.00 0.00 36.26 3.24
5003 9795 9.708222 GTTAAACAACAGTGATAAGATATGCAG 57.292 33.333 0.00 0.00 0.00 4.41
5004 9796 9.225436 TGTTAAACAACAGTGATAAGATATGCA 57.775 29.630 0.00 0.00 0.00 3.96
5169 9962 1.053835 TTGGAGGAGCAGGTGACACA 61.054 55.000 8.08 0.00 0.00 3.72
5299 10092 4.034048 CCAAACAATCGTACTAGCATGGAC 59.966 45.833 0.00 0.00 0.00 4.02
5332 10125 1.870055 GCACACAGAACAGCATGGGG 61.870 60.000 0.00 0.00 43.62 4.96
5465 10258 0.822532 CCATCTCCAGAAGCATGCCC 60.823 60.000 15.66 6.84 0.00 5.36
5582 10375 1.305287 GGTAGGGGCATTCGGGTTT 59.695 57.895 0.00 0.00 0.00 3.27
5588 10381 1.152881 CTGGCTGGTAGGGGCATTC 60.153 63.158 0.00 0.00 38.52 2.67
5612 10405 0.458025 CGTCGCTCAAGGTTAGACCC 60.458 60.000 0.00 0.00 39.75 4.46
5646 10439 3.069016 TGAGACCGCAAACTGACTCTAAA 59.931 43.478 0.00 0.00 0.00 1.85
5662 10455 7.976135 AAACAATCTATAGCATCATGAGACC 57.024 36.000 0.09 0.00 0.00 3.85
5775 10572 1.394618 CCAAACACGGGAAAAGGTGA 58.605 50.000 0.00 0.00 37.58 4.02
6062 10859 1.444119 CCCACCGCAATTATGACGGG 61.444 60.000 10.26 1.27 44.89 5.28
6104 10901 5.587289 ACAAGCTTGCGAAAATTAGACAAA 58.413 33.333 26.27 0.00 0.00 2.83
6105 10902 5.181690 ACAAGCTTGCGAAAATTAGACAA 57.818 34.783 26.27 0.00 0.00 3.18
6143 10940 3.141398 GACCATCGGTATTGTCATGCAT 58.859 45.455 0.00 0.00 35.25 3.96
6144 10941 2.560504 GACCATCGGTATTGTCATGCA 58.439 47.619 0.00 0.00 35.25 3.96
6145 10942 1.526887 CGACCATCGGTATTGTCATGC 59.473 52.381 0.00 0.00 35.25 4.06
6146 10943 2.821546 ACGACCATCGGTATTGTCATG 58.178 47.619 2.97 0.00 45.59 3.07
6147 10944 3.536956 AACGACCATCGGTATTGTCAT 57.463 42.857 2.97 0.00 45.59 3.06
6148 10945 3.695556 TCTAACGACCATCGGTATTGTCA 59.304 43.478 2.97 0.00 41.63 3.58
6149 10946 4.297299 TCTAACGACCATCGGTATTGTC 57.703 45.455 2.97 0.00 41.63 3.18
6150 10947 4.400251 TCTTCTAACGACCATCGGTATTGT 59.600 41.667 2.97 0.00 41.63 2.71
6151 10948 4.928601 TCTTCTAACGACCATCGGTATTG 58.071 43.478 2.97 0.00 41.63 1.90
6152 10949 5.587388 TTCTTCTAACGACCATCGGTATT 57.413 39.130 2.97 0.00 41.63 1.89
6154 10951 4.701651 TCTTTCTTCTAACGACCATCGGTA 59.298 41.667 2.97 0.00 45.59 4.02
6155 10952 3.508793 TCTTTCTTCTAACGACCATCGGT 59.491 43.478 2.97 0.00 45.59 4.69
6156 10953 4.106029 TCTTTCTTCTAACGACCATCGG 57.894 45.455 2.97 0.00 45.59 4.18
6157 10954 4.106197 CCTCTTTCTTCTAACGACCATCG 58.894 47.826 0.00 0.00 46.93 3.84
6158 10955 5.125739 TCTCCTCTTTCTTCTAACGACCATC 59.874 44.000 0.00 0.00 0.00 3.51
6159 10956 5.017490 TCTCCTCTTTCTTCTAACGACCAT 58.983 41.667 0.00 0.00 0.00 3.55
6160 10957 4.404640 TCTCCTCTTTCTTCTAACGACCA 58.595 43.478 0.00 0.00 0.00 4.02
6161 10958 5.344884 CATCTCCTCTTTCTTCTAACGACC 58.655 45.833 0.00 0.00 0.00 4.79
6162 10959 4.801516 GCATCTCCTCTTTCTTCTAACGAC 59.198 45.833 0.00 0.00 0.00 4.34
6163 10960 4.142138 GGCATCTCCTCTTTCTTCTAACGA 60.142 45.833 0.00 0.00 0.00 3.85
6164 10961 4.116238 GGCATCTCCTCTTTCTTCTAACG 58.884 47.826 0.00 0.00 0.00 3.18
6165 10962 4.873259 GTGGCATCTCCTCTTTCTTCTAAC 59.127 45.833 0.00 0.00 35.26 2.34
6166 10963 4.780021 AGTGGCATCTCCTCTTTCTTCTAA 59.220 41.667 0.00 0.00 35.22 2.10
6167 10964 4.357325 AGTGGCATCTCCTCTTTCTTCTA 58.643 43.478 0.00 0.00 35.22 2.10
6168 10965 3.180507 AGTGGCATCTCCTCTTTCTTCT 58.819 45.455 0.00 0.00 35.22 2.85
6169 10966 3.530535 GAGTGGCATCTCCTCTTTCTTC 58.469 50.000 0.00 0.00 38.71 2.87
6170 10967 2.093764 CGAGTGGCATCTCCTCTTTCTT 60.094 50.000 10.22 0.00 38.71 2.52
6171 10968 1.480137 CGAGTGGCATCTCCTCTTTCT 59.520 52.381 10.22 0.00 38.71 2.52
6172 10969 1.472376 CCGAGTGGCATCTCCTCTTTC 60.472 57.143 10.22 0.00 38.71 2.62
6173 10970 0.539051 CCGAGTGGCATCTCCTCTTT 59.461 55.000 10.22 0.00 38.71 2.52
6174 10971 1.333636 CCCGAGTGGCATCTCCTCTT 61.334 60.000 10.22 0.00 38.71 2.85
6175 10972 1.760086 CCCGAGTGGCATCTCCTCT 60.760 63.158 10.22 0.00 41.14 3.69
6176 10973 2.801631 CCCCGAGTGGCATCTCCTC 61.802 68.421 10.22 2.86 35.26 3.71
6177 10974 2.765807 CCCCGAGTGGCATCTCCT 60.766 66.667 10.22 0.00 35.26 3.69
6192 10989 1.106285 CAACTAAGCTTGGGATGCCC 58.894 55.000 14.86 0.00 45.71 5.36
6193 10990 0.457443 GCAACTAAGCTTGGGATGCC 59.543 55.000 23.42 0.00 0.00 4.40
6194 10991 1.467920 AGCAACTAAGCTTGGGATGC 58.532 50.000 25.27 25.27 43.70 3.91
6203 11000 3.997021 TGTAGAGAAGCAAGCAACTAAGC 59.003 43.478 0.00 0.00 0.00 3.09
6204 11001 5.119898 CACTGTAGAGAAGCAAGCAACTAAG 59.880 44.000 0.00 0.00 0.00 2.18
6205 11002 4.991056 CACTGTAGAGAAGCAAGCAACTAA 59.009 41.667 0.00 0.00 0.00 2.24
6206 11003 4.560128 CACTGTAGAGAAGCAAGCAACTA 58.440 43.478 0.00 0.00 0.00 2.24
6207 11004 3.397482 CACTGTAGAGAAGCAAGCAACT 58.603 45.455 0.00 0.00 0.00 3.16
6208 11005 2.481952 CCACTGTAGAGAAGCAAGCAAC 59.518 50.000 0.00 0.00 0.00 4.17
6209 11006 2.104792 ACCACTGTAGAGAAGCAAGCAA 59.895 45.455 0.00 0.00 0.00 3.91
6210 11007 1.694150 ACCACTGTAGAGAAGCAAGCA 59.306 47.619 0.00 0.00 0.00 3.91
6211 11008 2.464157 ACCACTGTAGAGAAGCAAGC 57.536 50.000 0.00 0.00 0.00 4.01
6212 11009 5.482908 ACATAACCACTGTAGAGAAGCAAG 58.517 41.667 0.00 0.00 0.00 4.01
6213 11010 5.483685 ACATAACCACTGTAGAGAAGCAA 57.516 39.130 0.00 0.00 0.00 3.91
6214 11011 5.483685 AACATAACCACTGTAGAGAAGCA 57.516 39.130 0.00 0.00 0.00 3.91
6215 11012 5.701290 ACAAACATAACCACTGTAGAGAAGC 59.299 40.000 0.00 0.00 0.00 3.86
6216 11013 7.657761 AGAACAAACATAACCACTGTAGAGAAG 59.342 37.037 0.00 0.00 0.00 2.85
6217 11014 7.506114 AGAACAAACATAACCACTGTAGAGAA 58.494 34.615 0.00 0.00 0.00 2.87
6218 11015 7.062749 AGAACAAACATAACCACTGTAGAGA 57.937 36.000 0.00 0.00 0.00 3.10
6219 11016 7.730364 AAGAACAAACATAACCACTGTAGAG 57.270 36.000 0.00 0.00 0.00 2.43
6316 11115 8.705134 CCATCGTATTATAAGTTATTGCGAACA 58.295 33.333 10.47 0.00 0.00 3.18
6399 11213 9.719355 TCAAAGCTACAAAATGAACAGAGTATA 57.281 29.630 0.00 0.00 0.00 1.47
6400 11214 8.621532 TCAAAGCTACAAAATGAACAGAGTAT 57.378 30.769 0.00 0.00 0.00 2.12
6401 11215 8.445275 TTCAAAGCTACAAAATGAACAGAGTA 57.555 30.769 0.00 0.00 0.00 2.59
6402 11216 6.942532 TCAAAGCTACAAAATGAACAGAGT 57.057 33.333 0.00 0.00 0.00 3.24
6403 11217 8.633075 TTTTCAAAGCTACAAAATGAACAGAG 57.367 30.769 0.00 0.00 30.34 3.35
6442 11256 5.975988 TCTAGCATGGAGGGAGTATTTTT 57.024 39.130 0.00 0.00 0.00 1.94
6444 11258 7.821134 ATATTCTAGCATGGAGGGAGTATTT 57.179 36.000 0.00 0.00 0.00 1.40
6446 11260 7.238514 ACAAATATTCTAGCATGGAGGGAGTAT 59.761 37.037 0.00 0.00 0.00 2.12
6448 11262 5.370880 ACAAATATTCTAGCATGGAGGGAGT 59.629 40.000 0.00 0.00 0.00 3.85
6450 11264 5.608437 AGACAAATATTCTAGCATGGAGGGA 59.392 40.000 0.00 0.00 0.00 4.20
6451 11265 5.874093 AGACAAATATTCTAGCATGGAGGG 58.126 41.667 0.00 0.00 0.00 4.30
6452 11266 8.908786 TTAAGACAAATATTCTAGCATGGAGG 57.091 34.615 0.00 0.00 0.00 4.30
6466 11280 9.507280 CGTACCTAGACGAATTTAAGACAAATA 57.493 33.333 0.00 0.00 45.82 1.40
6467 11281 7.490402 CCGTACCTAGACGAATTTAAGACAAAT 59.510 37.037 5.60 0.00 45.82 2.32
6468 11282 6.808212 CCGTACCTAGACGAATTTAAGACAAA 59.192 38.462 5.60 0.00 45.82 2.83
6477 11291 2.450476 ACACCCGTACCTAGACGAATT 58.550 47.619 5.60 0.00 45.82 2.17
6602 11416 8.498054 TTCATTTTCTATGACCAGATCTGTTC 57.502 34.615 21.11 17.11 0.00 3.18


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

AutoCloner maintained by Alex Coulton.