Multiple sequence alignment - TraesCS1A01G296300

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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 TraesCS1A01G296300 chr1A 100.000 6130 0 0 1 6130 491153881 491147752 0.000000e+00 11321.0
1 TraesCS1A01G296300 chr1A 86.809 705 56 18 5452 6130 386380005 386379312 0.000000e+00 752.0
2 TraesCS1A01G296300 chr1B 95.595 3950 134 23 2207 6130 527850195 527846260 0.000000e+00 6294.0
3 TraesCS1A01G296300 chr1B 87.301 1504 83 40 169 1630 527852190 527850753 0.000000e+00 1620.0
4 TraesCS1A01G296300 chr1B 94.831 445 23 0 1717 2161 527850636 527850192 0.000000e+00 695.0
5 TraesCS1A01G296300 chr1D 95.945 3699 123 13 1749 5433 394254723 394258408 0.000000e+00 5975.0
6 TraesCS1A01G296300 chr1D 95.620 685 25 3 5449 6130 394258394 394259076 0.000000e+00 1094.0
7 TraesCS1A01G296300 chr1D 88.006 692 38 27 690 1376 394253694 394254345 0.000000e+00 776.0
8 TraesCS1A01G296300 chr1D 92.025 489 22 13 161 645 394253118 394253593 0.000000e+00 671.0
9 TraesCS1A01G296300 chr1D 87.888 322 22 10 1406 1725 394254348 394254654 4.520000e-96 363.0
10 TraesCS1A01G296300 chr1D 100.000 33 0 0 652 684 394253627 394253659 1.840000e-05 62.1
11 TraesCS1A01G296300 chr4A 87.799 795 61 15 2316 3093 217351002 217351777 0.000000e+00 898.0
12 TraesCS1A01G296300 chr3B 87.675 787 63 14 2323 3093 462591135 462590367 0.000000e+00 885.0
13 TraesCS1A01G296300 chr3B 87.056 479 55 5 1717 2192 462592116 462591642 9.040000e-148 534.0
14 TraesCS1A01G296300 chr7A 86.541 795 63 14 2316 3093 493603287 493604054 0.000000e+00 835.0
15 TraesCS1A01G296300 chr7A 87.654 486 54 4 1717 2200 493602660 493603141 1.490000e-155 560.0
16 TraesCS1A01G296300 chr4B 86.381 793 74 14 2316 3092 158107281 158108055 0.000000e+00 835.0
17 TraesCS1A01G296300 chr2D 86.398 794 59 15 2316 3093 127774828 127774068 0.000000e+00 822.0
18 TraesCS1A01G296300 chr2D 87.639 631 56 8 5499 6124 640611407 640612020 0.000000e+00 713.0
19 TraesCS1A01G296300 chr2D 88.066 486 52 4 1717 2200 127775455 127774974 6.890000e-159 571.0
20 TraesCS1A01G296300 chr7B 89.355 667 45 12 2444 3093 434769968 434769311 0.000000e+00 815.0
21 TraesCS1A01G296300 chr7B 85.027 374 48 5 1063 1435 434771180 434770814 2.090000e-99 374.0
22 TraesCS1A01G296300 chr7B 85.638 188 23 3 1496 1683 434770813 434770630 1.740000e-45 195.0
23 TraesCS1A01G296300 chr7D 86.038 795 54 22 2316 3093 636679612 636680366 0.000000e+00 800.0
24 TraesCS1A01G296300 chr7D 87.680 487 53 5 1717 2200 636678984 636679466 1.490000e-155 560.0
25 TraesCS1A01G296300 chrUn 89.675 523 34 4 2316 2837 29337214 29337717 0.000000e+00 649.0
26 TraesCS1A01G296300 chrUn 86.885 488 52 7 1717 2200 29336589 29337068 2.510000e-148 536.0
27 TraesCS1A01G296300 chr5B 87.500 488 53 5 1717 2200 239307454 239306971 1.930000e-154 556.0
28 TraesCS1A01G296300 chr5B 85.411 377 49 5 1063 1437 239308088 239307716 2.680000e-103 387.0
29 TraesCS1A01G296300 chr5B 86.325 234 22 9 1497 1728 239307716 239307491 4.750000e-61 246.0
30 TraesCS1A01G296300 chr6A 87.269 487 55 5 1717 2200 321276415 321275933 3.230000e-152 549.0
31 TraesCS1A01G296300 chr6A 89.205 352 26 3 2316 2667 321275803 321275464 4.390000e-116 429.0
32 TraesCS1A01G296300 chr2A 94.286 70 2 2 1 69 24549479 24549547 8.400000e-19 106.0
33 TraesCS1A01G296300 chr2A 93.333 45 3 0 1 45 768354199 768354243 3.970000e-07 67.6


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 TraesCS1A01G296300 chr1A 491147752 491153881 6129 True 11321.000000 11321 100.000000 1 6130 1 chr1A.!!$R2 6129
1 TraesCS1A01G296300 chr1A 386379312 386380005 693 True 752.000000 752 86.809000 5452 6130 1 chr1A.!!$R1 678
2 TraesCS1A01G296300 chr1B 527846260 527852190 5930 True 2869.666667 6294 92.575667 169 6130 3 chr1B.!!$R1 5961
3 TraesCS1A01G296300 chr1D 394253118 394259076 5958 False 1490.183333 5975 93.247333 161 6130 6 chr1D.!!$F1 5969
4 TraesCS1A01G296300 chr4A 217351002 217351777 775 False 898.000000 898 87.799000 2316 3093 1 chr4A.!!$F1 777
5 TraesCS1A01G296300 chr3B 462590367 462592116 1749 True 709.500000 885 87.365500 1717 3093 2 chr3B.!!$R1 1376
6 TraesCS1A01G296300 chr7A 493602660 493604054 1394 False 697.500000 835 87.097500 1717 3093 2 chr7A.!!$F1 1376
7 TraesCS1A01G296300 chr4B 158107281 158108055 774 False 835.000000 835 86.381000 2316 3092 1 chr4B.!!$F1 776
8 TraesCS1A01G296300 chr2D 640611407 640612020 613 False 713.000000 713 87.639000 5499 6124 1 chr2D.!!$F1 625
9 TraesCS1A01G296300 chr2D 127774068 127775455 1387 True 696.500000 822 87.232000 1717 3093 2 chr2D.!!$R1 1376
10 TraesCS1A01G296300 chr7B 434769311 434771180 1869 True 461.333333 815 86.673333 1063 3093 3 chr7B.!!$R1 2030
11 TraesCS1A01G296300 chr7D 636678984 636680366 1382 False 680.000000 800 86.859000 1717 3093 2 chr7D.!!$F1 1376
12 TraesCS1A01G296300 chrUn 29336589 29337717 1128 False 592.500000 649 88.280000 1717 2837 2 chrUn.!!$F1 1120
13 TraesCS1A01G296300 chr5B 239306971 239308088 1117 True 396.333333 556 86.412000 1063 2200 3 chr5B.!!$R1 1137
14 TraesCS1A01G296300 chr6A 321275464 321276415 951 True 489.000000 549 88.237000 1717 2667 2 chr6A.!!$R1 950

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
650 681 0.178995 CTCCCCTCCTCCCGTACTAC 60.179 65.000 0.00 0.00 0.00 2.73 F
733 806 0.453390 CTTGATTCCTTCTTGGCGGC 59.547 55.000 0.00 0.00 35.26 6.53 F
1178 1282 1.072505 TTTGACTCTGTTCGGGGCC 59.927 57.895 0.00 0.00 0.00 5.80 F
1204 1308 1.202915 TGCTGGATTCTTTGCAGGTCA 60.203 47.619 0.00 0.00 43.57 4.02 F
3156 3781 0.322816 TGGCTTGTTGGATGCTCCTC 60.323 55.000 4.21 0.00 37.46 3.71 F
3615 4242 0.698238 TGAACCCCACAAGGATCCAG 59.302 55.000 15.82 8.68 38.24 3.86 F
4511 5140 1.134367 CGTGCTACTAGCTTACTGGCA 59.866 52.381 9.49 0.00 42.97 4.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1500 1614 0.254178 AGGTCTGCTAATGGCCACAG 59.746 55.000 8.16 11.69 40.92 3.66 R
1631 1747 0.307760 CAGGACGGTCAACAAACTGC 59.692 55.000 10.76 0.00 0.00 4.40 R
3133 3758 1.331756 GAGCATCCAACAAGCCATACG 59.668 52.381 0.00 0.00 0.00 3.06 R
3342 3967 7.427989 ACTAGATCACCCTAACGGAAAAATA 57.572 36.000 0.00 0.00 34.64 1.40 R
4062 4690 0.514691 CTTCACAGGCTGTTTCGAGC 59.485 55.000 19.43 0.00 38.34 5.03 R
4731 5365 0.672401 TTCCAGTCATCGCCGAAACC 60.672 55.000 0.00 0.00 0.00 3.27 R
5483 6125 2.066262 GATCGACACGAGAGCCAAAAA 58.934 47.619 0.00 0.00 39.91 1.94 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
23 24 6.227298 ACCACTCACTATCTACCTTGATTG 57.773 41.667 0.00 0.00 0.00 2.67
24 25 5.958380 ACCACTCACTATCTACCTTGATTGA 59.042 40.000 0.00 0.00 0.00 2.57
25 26 6.613271 ACCACTCACTATCTACCTTGATTGAT 59.387 38.462 0.00 0.00 0.00 2.57
26 27 6.927936 CCACTCACTATCTACCTTGATTGATG 59.072 42.308 0.00 0.00 0.00 3.07
27 28 7.201947 CCACTCACTATCTACCTTGATTGATGA 60.202 40.741 0.00 0.00 0.00 2.92
28 29 7.866898 CACTCACTATCTACCTTGATTGATGAG 59.133 40.741 0.00 0.00 35.85 2.90
29 30 7.782168 ACTCACTATCTACCTTGATTGATGAGA 59.218 37.037 16.19 0.00 34.88 3.27
30 31 8.718158 TCACTATCTACCTTGATTGATGAGAT 57.282 34.615 0.00 0.00 0.00 2.75
31 32 9.152327 TCACTATCTACCTTGATTGATGAGATT 57.848 33.333 0.00 0.00 0.00 2.40
32 33 9.775854 CACTATCTACCTTGATTGATGAGATTT 57.224 33.333 0.00 0.00 0.00 2.17
64 65 8.792830 TGAGTCATATAAACCAGAAAAGAAGG 57.207 34.615 0.00 0.00 0.00 3.46
65 66 8.602424 TGAGTCATATAAACCAGAAAAGAAGGA 58.398 33.333 0.00 0.00 0.00 3.36
66 67 9.103861 GAGTCATATAAACCAGAAAAGAAGGAG 57.896 37.037 0.00 0.00 0.00 3.69
67 68 8.606830 AGTCATATAAACCAGAAAAGAAGGAGT 58.393 33.333 0.00 0.00 0.00 3.85
68 69 9.886132 GTCATATAAACCAGAAAAGAAGGAGTA 57.114 33.333 0.00 0.00 0.00 2.59
88 89 7.789341 GAGTAATTACTCGCTACATCATCTG 57.211 40.000 25.68 0.00 42.72 2.90
89 90 7.278461 AGTAATTACTCGCTACATCATCTGT 57.722 36.000 12.50 0.00 42.13 3.41
90 91 7.717568 AGTAATTACTCGCTACATCATCTGTT 58.282 34.615 12.50 0.00 39.39 3.16
91 92 8.198109 AGTAATTACTCGCTACATCATCTGTTT 58.802 33.333 12.50 0.00 39.39 2.83
92 93 7.849804 AATTACTCGCTACATCATCTGTTTT 57.150 32.000 0.00 0.00 39.39 2.43
93 94 8.942338 AATTACTCGCTACATCATCTGTTTTA 57.058 30.769 0.00 0.00 39.39 1.52
94 95 7.751047 TTACTCGCTACATCATCTGTTTTAC 57.249 36.000 0.00 0.00 39.39 2.01
95 96 5.109903 ACTCGCTACATCATCTGTTTTACC 58.890 41.667 0.00 0.00 39.39 2.85
96 97 5.105310 ACTCGCTACATCATCTGTTTTACCT 60.105 40.000 0.00 0.00 39.39 3.08
97 98 6.096423 ACTCGCTACATCATCTGTTTTACCTA 59.904 38.462 0.00 0.00 39.39 3.08
98 99 6.869695 TCGCTACATCATCTGTTTTACCTAA 58.130 36.000 0.00 0.00 39.39 2.69
99 100 7.324935 TCGCTACATCATCTGTTTTACCTAAA 58.675 34.615 0.00 0.00 39.39 1.85
100 101 7.820386 TCGCTACATCATCTGTTTTACCTAAAA 59.180 33.333 0.00 0.00 39.39 1.52
101 102 8.447833 CGCTACATCATCTGTTTTACCTAAAAA 58.552 33.333 0.00 0.00 39.39 1.94
133 134 9.654663 GATGTTACCATCTATATTACTTCCACC 57.345 37.037 0.00 0.00 43.49 4.61
134 135 7.970102 TGTTACCATCTATATTACTTCCACCC 58.030 38.462 0.00 0.00 0.00 4.61
135 136 7.569485 TGTTACCATCTATATTACTTCCACCCA 59.431 37.037 0.00 0.00 0.00 4.51
136 137 6.435292 ACCATCTATATTACTTCCACCCAC 57.565 41.667 0.00 0.00 0.00 4.61
137 138 6.151049 ACCATCTATATTACTTCCACCCACT 58.849 40.000 0.00 0.00 0.00 4.00
138 139 6.043243 ACCATCTATATTACTTCCACCCACTG 59.957 42.308 0.00 0.00 0.00 3.66
139 140 6.043243 CCATCTATATTACTTCCACCCACTGT 59.957 42.308 0.00 0.00 0.00 3.55
140 141 6.479972 TCTATATTACTTCCACCCACTGTG 57.520 41.667 0.00 0.00 45.01 3.66
154 155 7.316544 CACCCACTGTGGTTATTCTATAAAC 57.683 40.000 24.32 0.00 41.52 2.01
155 156 6.882140 CACCCACTGTGGTTATTCTATAAACA 59.118 38.462 24.32 0.00 41.52 2.83
156 157 6.882678 ACCCACTGTGGTTATTCTATAAACAC 59.117 38.462 24.32 16.77 43.40 3.32
164 165 8.995220 GTGGTTATTCTATAAACACAACACAGA 58.005 33.333 18.08 0.00 42.82 3.41
312 325 1.176527 CAAGTCAATCACGCCCCAAT 58.823 50.000 0.00 0.00 0.00 3.16
315 328 2.247358 AGTCAATCACGCCCCAATTTT 58.753 42.857 0.00 0.00 0.00 1.82
317 330 2.736192 GTCAATCACGCCCCAATTTTTG 59.264 45.455 0.00 0.00 0.00 2.44
373 386 5.778459 GAATTACGTTCGTTTTTCCACAC 57.222 39.130 2.62 0.00 0.00 3.82
374 387 5.488645 AATTACGTTCGTTTTTCCACACT 57.511 34.783 2.62 0.00 0.00 3.55
375 388 6.601741 AATTACGTTCGTTTTTCCACACTA 57.398 33.333 2.62 0.00 0.00 2.74
376 389 5.640218 TTACGTTCGTTTTTCCACACTAG 57.360 39.130 2.62 0.00 0.00 2.57
377 390 3.784338 ACGTTCGTTTTTCCACACTAGA 58.216 40.909 0.00 0.00 0.00 2.43
378 391 3.800506 ACGTTCGTTTTTCCACACTAGAG 59.199 43.478 0.00 0.00 0.00 2.43
379 392 4.046462 CGTTCGTTTTTCCACACTAGAGA 58.954 43.478 0.00 0.00 0.00 3.10
380 393 4.085210 CGTTCGTTTTTCCACACTAGAGAC 60.085 45.833 0.00 0.00 0.00 3.36
381 394 4.931661 TCGTTTTTCCACACTAGAGACT 57.068 40.909 0.00 0.00 0.00 3.24
387 400 4.652679 TTCCACACTAGAGACTAGACCA 57.347 45.455 11.94 0.00 0.00 4.02
407 420 2.328099 GCGACCAGCCCAACAGAAG 61.328 63.158 0.00 0.00 40.81 2.85
451 464 2.897350 GGCGCCATTTCCCTCTCG 60.897 66.667 24.80 0.00 0.00 4.04
452 465 3.577313 GCGCCATTTCCCTCTCGC 61.577 66.667 0.00 0.00 35.82 5.03
492 509 3.827898 GTCCTCCTCTCCGCGTGG 61.828 72.222 9.28 9.28 0.00 4.94
518 535 1.345089 TGCGTTTTCCAGGCTAGTACA 59.655 47.619 0.00 0.00 37.18 2.90
600 617 0.965363 ATTCCACCATTCACACCGCC 60.965 55.000 0.00 0.00 0.00 6.13
647 678 2.123382 CCTCCCCTCCTCCCGTAC 60.123 72.222 0.00 0.00 0.00 3.67
650 681 0.178995 CTCCCCTCCTCCCGTACTAC 60.179 65.000 0.00 0.00 0.00 2.73
731 804 1.098050 CCCTTGATTCCTTCTTGGCG 58.902 55.000 0.00 0.00 35.26 5.69
732 805 1.098050 CCTTGATTCCTTCTTGGCGG 58.902 55.000 0.00 0.00 35.26 6.13
733 806 0.453390 CTTGATTCCTTCTTGGCGGC 59.547 55.000 0.00 0.00 35.26 6.53
768 841 3.151022 CGCTGGTCCTCCTCCCTC 61.151 72.222 0.00 0.00 34.23 4.30
774 847 1.707200 GTCCTCCTCCCTCCTCCTT 59.293 63.158 0.00 0.00 0.00 3.36
836 912 4.749310 CAGCCCGCGTTCTGCTCT 62.749 66.667 4.92 0.00 43.27 4.09
837 913 4.443266 AGCCCGCGTTCTGCTCTC 62.443 66.667 4.92 0.00 43.27 3.20
839 915 4.069232 CCCGCGTTCTGCTCTCCA 62.069 66.667 4.92 0.00 43.27 3.86
840 916 2.048222 CCGCGTTCTGCTCTCCAA 60.048 61.111 4.92 0.00 43.27 3.53
879 977 6.094186 GGAGGAAAGCAAAGATCGAAATACTT 59.906 38.462 0.00 0.00 0.00 2.24
998 1100 4.287781 TTGCGGAGTTGCGTCGGA 62.288 61.111 0.00 0.00 37.81 4.55
1132 1234 1.609072 GGTTGCTTCTTCTTTCGGCTT 59.391 47.619 0.00 0.00 0.00 4.35
1173 1277 3.303395 GCTTCTTGGTTTGACTCTGTTCG 60.303 47.826 0.00 0.00 0.00 3.95
1178 1282 1.072505 TTTGACTCTGTTCGGGGCC 59.927 57.895 0.00 0.00 0.00 5.80
1204 1308 1.202915 TGCTGGATTCTTTGCAGGTCA 60.203 47.619 0.00 0.00 43.57 4.02
1282 1386 1.523938 GGGATGAAGGCCACGCTAC 60.524 63.158 5.01 0.00 0.00 3.58
1347 1457 1.621814 TCGTAGGCCTGTAAGTTGCTT 59.378 47.619 17.99 0.00 0.00 3.91
1348 1458 2.038033 TCGTAGGCCTGTAAGTTGCTTT 59.962 45.455 17.99 0.00 0.00 3.51
1349 1459 2.812011 CGTAGGCCTGTAAGTTGCTTTT 59.188 45.455 17.99 0.00 0.00 2.27
1350 1460 3.252458 CGTAGGCCTGTAAGTTGCTTTTT 59.748 43.478 17.99 0.00 0.00 1.94
1376 1487 3.624326 TGCACAGAAAAAGATGGAACG 57.376 42.857 0.00 0.00 0.00 3.95
1398 1509 4.598062 GCGGATTTACCATTTCTGCTTAC 58.402 43.478 0.00 0.00 38.46 2.34
1405 1516 6.817765 TTACCATTTCTGCTTACTTGGAAG 57.182 37.500 0.00 0.00 0.00 3.46
1423 1534 4.168760 GGAAGAAATGAACGCCTGAATTG 58.831 43.478 0.00 0.00 0.00 2.32
1429 1540 3.126001 TGAACGCCTGAATTGAACTCT 57.874 42.857 0.00 0.00 0.00 3.24
1493 1604 8.860088 ACTACATGTTTAGGCTGATTTCTTTTT 58.140 29.630 2.30 0.00 0.00 1.94
1517 1632 2.338577 ATCTGTGGCCATTAGCAGAC 57.661 50.000 22.20 2.49 46.50 3.51
1537 1652 7.881643 CAGACCTGCAGAATCATATTAGTAC 57.118 40.000 17.39 0.00 0.00 2.73
1557 1673 1.608590 CTTGTCTTGCACCGTTGGAAT 59.391 47.619 0.00 0.00 31.84 3.01
1584 1700 9.729281 AATGATTGGCATTTTCTTGTTCTAAAT 57.271 25.926 0.00 0.00 44.68 1.40
1630 1746 4.276642 AGGGAGCATCTTTCTTTGGATTC 58.723 43.478 0.00 0.00 33.73 2.52
1631 1747 3.065925 GGGAGCATCTTTCTTTGGATTCG 59.934 47.826 0.00 0.00 33.73 3.34
1703 1819 4.251103 AGGAAATAGGGCCCTTTACAAG 57.749 45.455 34.04 0.00 0.00 3.16
1754 1973 1.779092 AGGATGCCCATCTTATGCAGT 59.221 47.619 8.06 0.00 38.58 4.40
1983 2204 6.070251 TCCTGCACTTCCTTCAGTGATATTTA 60.070 38.462 5.01 0.00 46.29 1.40
1984 2205 6.037610 CCTGCACTTCCTTCAGTGATATTTAC 59.962 42.308 5.01 0.00 46.29 2.01
1995 2218 6.640518 TCAGTGATATTTACTCTGGAACACC 58.359 40.000 0.00 0.00 32.18 4.16
2012 2235 6.597672 TGGAACACCTTGATATGACATTACAC 59.402 38.462 0.00 0.00 0.00 2.90
2066 2290 7.921786 TTGATATTTCTGAAACTACCACTGG 57.078 36.000 4.73 0.00 0.00 4.00
2113 2337 7.011389 CGATCTAGGATTTTATGTTGAGCACAA 59.989 37.037 0.00 0.00 39.50 3.33
2169 2393 3.330701 TCCTTATGAGGCTTGTGACCTTT 59.669 43.478 0.00 0.00 43.21 3.11
2170 2394 4.082125 CCTTATGAGGCTTGTGACCTTTT 58.918 43.478 0.00 0.00 37.77 2.27
2201 2425 2.756760 AGCTGTCAATTAGGGCACATTG 59.243 45.455 0.00 0.00 0.00 2.82
2222 2515 2.810852 GGCTAGCTTGATGGAATACAGC 59.189 50.000 15.72 0.00 35.62 4.40
2235 2528 3.887716 GGAATACAGCCTGCATGAATCTT 59.112 43.478 0.00 0.00 0.00 2.40
2302 2595 4.366684 CCAAGAGCCACCCACCCC 62.367 72.222 0.00 0.00 0.00 4.95
2349 2956 9.244292 TCCTATCGTTAGTAGCATCATAAATCT 57.756 33.333 0.10 0.00 0.00 2.40
2447 3054 8.251750 TGTATCTTATGCACTTGTGTTACTTC 57.748 34.615 0.00 0.00 0.00 3.01
2463 3071 5.700832 TGTTACTTCTGAAATGATGTTCGCT 59.299 36.000 0.00 0.00 0.00 4.93
3133 3758 4.276926 GCTACCTCAATGGATCAAATGGAC 59.723 45.833 0.00 0.00 39.71 4.02
3156 3781 0.322816 TGGCTTGTTGGATGCTCCTC 60.323 55.000 4.21 0.00 37.46 3.71
3471 4098 6.479972 TCAGTTATTCACTATGTAGGGGTG 57.520 41.667 0.00 0.00 32.76 4.61
3531 4158 7.439056 GCAAAGAAAATCATTCTCCAAAGAACA 59.561 33.333 0.00 0.00 44.13 3.18
3577 4204 8.255111 TCTGTATTAGAACCATCAGATGTGAT 57.745 34.615 9.64 0.00 36.79 3.06
3615 4242 0.698238 TGAACCCCACAAGGATCCAG 59.302 55.000 15.82 8.68 38.24 3.86
3639 4266 1.914764 CCAGTTTTGCCCCATGCCT 60.915 57.895 0.00 0.00 40.16 4.75
3695 4322 2.223923 CCTTGCCTCTCTTGTATCTCCG 60.224 54.545 0.00 0.00 0.00 4.63
3803 4430 5.473504 AGCGATTTGTTTTGTGGTTCTATCT 59.526 36.000 0.00 0.00 0.00 1.98
4012 4640 5.679638 GCAACAGAAATTTGGAGTCAACTGT 60.680 40.000 0.00 0.00 37.79 3.55
4062 4690 4.116747 AGCTTTATTCAGACGGTCAGAG 57.883 45.455 11.27 0.00 0.00 3.35
4137 4765 9.614792 GGATGTACATTGTATAAAGGAACTCTT 57.385 33.333 10.30 0.00 38.49 2.85
4249 4877 6.051179 AGGTATCTAACTGGGTTTTCTGTC 57.949 41.667 0.00 0.00 0.00 3.51
4290 4918 7.601073 TGTAAGATGCTGAGTTTCTAACATG 57.399 36.000 0.00 0.00 0.00 3.21
4302 4930 9.685276 TGAGTTTCTAACATGGATATGATGTTT 57.315 29.630 12.68 0.00 40.39 2.83
4424 5052 7.542130 GTGTTTGAGTATGTTTCAAATGGATCC 59.458 37.037 4.20 4.20 43.90 3.36
4503 5132 2.925724 AGATGACTCGTGCTACTAGCT 58.074 47.619 9.49 0.00 42.97 3.32
4508 5137 3.374367 TGACTCGTGCTACTAGCTTACTG 59.626 47.826 9.49 0.00 42.97 2.74
4510 5139 1.404391 TCGTGCTACTAGCTTACTGGC 59.596 52.381 9.49 0.00 42.97 4.85
4511 5140 1.134367 CGTGCTACTAGCTTACTGGCA 59.866 52.381 9.49 0.00 42.97 4.92
4512 5141 2.796383 CGTGCTACTAGCTTACTGGCAG 60.796 54.545 14.16 14.16 42.97 4.85
4513 5142 2.166664 GTGCTACTAGCTTACTGGCAGT 59.833 50.000 25.34 25.34 42.97 4.40
4514 5143 2.832129 TGCTACTAGCTTACTGGCAGTT 59.168 45.455 27.24 10.33 42.97 3.16
4731 5365 3.423571 GCTGCAAAGATTTCAGACATCG 58.576 45.455 0.00 0.00 0.00 3.84
4763 5397 1.208293 GACTGGAAAGAAGGCGAGGAT 59.792 52.381 0.00 0.00 0.00 3.24
5211 5845 5.983540 AGGATCAGAGGAAATTGTACAGTC 58.016 41.667 0.00 0.00 0.00 3.51
5215 5849 4.020218 TCAGAGGAAATTGTACAGTCTGGG 60.020 45.833 4.53 0.00 32.52 4.45
5226 5860 4.282703 TGTACAGTCTGGGTTTCTTACTCC 59.717 45.833 4.53 0.00 0.00 3.85
5243 5877 1.071385 CTCCTTAGGCAGGCATACAGG 59.929 57.143 0.00 3.07 43.55 4.00
5293 5927 7.384115 CACACTATTCTTTCGTTCTTTGGTAGA 59.616 37.037 0.00 0.00 0.00 2.59
5294 5928 8.095169 ACACTATTCTTTCGTTCTTTGGTAGAT 58.905 33.333 0.00 0.00 31.54 1.98
5295 5929 9.582431 CACTATTCTTTCGTTCTTTGGTAGATA 57.418 33.333 0.00 0.00 31.54 1.98
5300 5934 8.475331 TCTTTCGTTCTTTGGTAGATATGTTC 57.525 34.615 0.00 0.00 31.54 3.18
5422 6064 2.097466 ACTTGTTTCAACAGTTCAGCGG 59.903 45.455 0.00 0.00 40.50 5.52
5427 6069 0.033504 TCAACAGTTCAGCGGAGACC 59.966 55.000 0.00 0.00 0.00 3.85
5429 6071 0.034059 AACAGTTCAGCGGAGACCTG 59.966 55.000 8.11 8.11 0.00 4.00
5433 6075 1.625818 AGTTCAGCGGAGACCTGAAAT 59.374 47.619 5.51 2.25 44.03 2.17
5442 6084 5.710099 AGCGGAGACCTGAAATATTTTGAAA 59.290 36.000 1.43 0.00 0.00 2.69
5483 6125 4.202245 ACGAAATGTACTATGTGCAGGT 57.798 40.909 0.00 0.00 30.87 4.00
5664 6327 1.834378 CCTGCTCATCCTCGGGCTA 60.834 63.158 0.00 0.00 0.00 3.93
5994 6662 4.329545 AGCACCGTGAACCCGCAT 62.330 61.111 1.65 0.00 0.00 4.73
6089 6760 1.000993 TCTCCTCCTCCTGCTGGAC 59.999 63.158 8.48 0.00 37.46 4.02
6096 6767 1.915266 CTCCTGCTGGACAGTGGGA 60.915 63.158 8.48 12.26 45.68 4.37
6100 6771 3.050275 GCTGGACAGTGGGAACGC 61.050 66.667 0.82 0.00 42.66 4.84
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 7.720442 TCATCAATCAAGGTAGATAGTGAGTG 58.280 38.462 0.00 0.00 37.41 3.51
3 4 7.782168 TCTCATCAATCAAGGTAGATAGTGAGT 59.218 37.037 0.00 0.00 35.13 3.41
5 6 8.718158 ATCTCATCAATCAAGGTAGATAGTGA 57.282 34.615 0.00 0.00 0.00 3.41
6 7 9.775854 AAATCTCATCAATCAAGGTAGATAGTG 57.224 33.333 0.00 0.00 0.00 2.74
38 39 9.231297 CCTTCTTTTCTGGTTTATATGACTCAA 57.769 33.333 0.00 0.00 0.00 3.02
39 40 8.602424 TCCTTCTTTTCTGGTTTATATGACTCA 58.398 33.333 0.00 0.00 0.00 3.41
40 41 9.103861 CTCCTTCTTTTCTGGTTTATATGACTC 57.896 37.037 0.00 0.00 0.00 3.36
41 42 8.606830 ACTCCTTCTTTTCTGGTTTATATGACT 58.393 33.333 0.00 0.00 0.00 3.41
42 43 8.794335 ACTCCTTCTTTTCTGGTTTATATGAC 57.206 34.615 0.00 0.00 0.00 3.06
49 50 9.286170 GAGTAATTACTCCTTCTTTTCTGGTTT 57.714 33.333 28.25 0.00 45.33 3.27
50 51 8.850007 GAGTAATTACTCCTTCTTTTCTGGTT 57.150 34.615 28.25 0.00 45.33 3.67
63 64 7.522399 ACAGATGATGTAGCGAGTAATTACTCC 60.522 40.741 30.79 24.39 44.10 3.85
64 65 7.364200 ACAGATGATGTAGCGAGTAATTACTC 58.636 38.462 28.53 28.53 43.81 2.59
65 66 7.278461 ACAGATGATGTAGCGAGTAATTACT 57.722 36.000 18.05 18.05 41.60 2.24
66 67 7.932120 AACAGATGATGTAGCGAGTAATTAC 57.068 36.000 7.57 7.57 43.00 1.89
67 68 8.942338 AAAACAGATGATGTAGCGAGTAATTA 57.058 30.769 0.00 0.00 43.00 1.40
68 69 7.849804 AAAACAGATGATGTAGCGAGTAATT 57.150 32.000 0.00 0.00 43.00 1.40
69 70 7.438459 GGTAAAACAGATGATGTAGCGAGTAAT 59.562 37.037 0.00 0.00 43.00 1.89
70 71 6.755141 GGTAAAACAGATGATGTAGCGAGTAA 59.245 38.462 0.00 0.00 43.00 2.24
71 72 6.096423 AGGTAAAACAGATGATGTAGCGAGTA 59.904 38.462 0.00 0.00 43.00 2.59
72 73 5.105310 AGGTAAAACAGATGATGTAGCGAGT 60.105 40.000 0.00 0.00 43.00 4.18
73 74 5.352284 AGGTAAAACAGATGATGTAGCGAG 58.648 41.667 0.00 0.00 43.00 5.03
74 75 5.339008 AGGTAAAACAGATGATGTAGCGA 57.661 39.130 0.00 0.00 43.00 4.93
75 76 7.534085 TTTAGGTAAAACAGATGATGTAGCG 57.466 36.000 0.00 0.00 43.00 4.26
110 111 7.876582 GTGGGTGGAAGTAATATAGATGGTAAC 59.123 40.741 0.00 0.00 0.00 2.50
111 112 7.792736 AGTGGGTGGAAGTAATATAGATGGTAA 59.207 37.037 0.00 0.00 0.00 2.85
112 113 7.234782 CAGTGGGTGGAAGTAATATAGATGGTA 59.765 40.741 0.00 0.00 0.00 3.25
113 114 6.043243 CAGTGGGTGGAAGTAATATAGATGGT 59.957 42.308 0.00 0.00 0.00 3.55
114 115 6.043243 ACAGTGGGTGGAAGTAATATAGATGG 59.957 42.308 0.00 0.00 0.00 3.51
115 116 6.931281 CACAGTGGGTGGAAGTAATATAGATG 59.069 42.308 0.00 0.00 44.04 2.90
116 117 7.067496 CACAGTGGGTGGAAGTAATATAGAT 57.933 40.000 0.00 0.00 44.04 1.98
117 118 6.479972 CACAGTGGGTGGAAGTAATATAGA 57.520 41.667 0.00 0.00 44.04 1.98
130 131 6.882140 TGTTTATAGAATAACCACAGTGGGTG 59.118 38.462 21.54 0.00 38.40 4.61
131 132 6.882678 GTGTTTATAGAATAACCACAGTGGGT 59.117 38.462 24.13 20.54 43.37 4.51
132 133 6.882140 TGTGTTTATAGAATAACCACAGTGGG 59.118 38.462 24.13 6.03 43.37 4.61
133 134 7.915293 TGTGTTTATAGAATAACCACAGTGG 57.085 36.000 18.93 18.93 45.02 4.00
134 135 8.779303 TGTTGTGTTTATAGAATAACCACAGTG 58.221 33.333 9.14 0.00 0.00 3.66
135 136 8.780249 GTGTTGTGTTTATAGAATAACCACAGT 58.220 33.333 9.14 0.00 0.00 3.55
136 137 8.779303 TGTGTTGTGTTTATAGAATAACCACAG 58.221 33.333 9.14 0.00 0.00 3.66
137 138 8.678593 TGTGTTGTGTTTATAGAATAACCACA 57.321 30.769 6.08 6.08 0.00 4.17
138 139 8.995220 TCTGTGTTGTGTTTATAGAATAACCAC 58.005 33.333 1.64 1.64 0.00 4.16
139 140 8.995220 GTCTGTGTTGTGTTTATAGAATAACCA 58.005 33.333 0.00 0.00 0.00 3.67
140 141 8.448615 GGTCTGTGTTGTGTTTATAGAATAACC 58.551 37.037 0.00 0.00 0.00 2.85
141 142 8.166706 CGGTCTGTGTTGTGTTTATAGAATAAC 58.833 37.037 0.00 0.00 0.00 1.89
142 143 8.089597 TCGGTCTGTGTTGTGTTTATAGAATAA 58.910 33.333 0.00 0.00 0.00 1.40
143 144 7.604549 TCGGTCTGTGTTGTGTTTATAGAATA 58.395 34.615 0.00 0.00 0.00 1.75
144 145 6.460781 TCGGTCTGTGTTGTGTTTATAGAAT 58.539 36.000 0.00 0.00 0.00 2.40
145 146 5.845103 TCGGTCTGTGTTGTGTTTATAGAA 58.155 37.500 0.00 0.00 0.00 2.10
146 147 5.456548 TCGGTCTGTGTTGTGTTTATAGA 57.543 39.130 0.00 0.00 0.00 1.98
147 148 4.625742 CCTCGGTCTGTGTTGTGTTTATAG 59.374 45.833 0.00 0.00 0.00 1.31
148 149 4.562082 CCTCGGTCTGTGTTGTGTTTATA 58.438 43.478 0.00 0.00 0.00 0.98
149 150 3.399330 CCTCGGTCTGTGTTGTGTTTAT 58.601 45.455 0.00 0.00 0.00 1.40
150 151 2.828877 CCTCGGTCTGTGTTGTGTTTA 58.171 47.619 0.00 0.00 0.00 2.01
151 152 1.663695 CCTCGGTCTGTGTTGTGTTT 58.336 50.000 0.00 0.00 0.00 2.83
152 153 0.814010 GCCTCGGTCTGTGTTGTGTT 60.814 55.000 0.00 0.00 0.00 3.32
153 154 1.227556 GCCTCGGTCTGTGTTGTGT 60.228 57.895 0.00 0.00 0.00 3.72
154 155 1.069765 AGCCTCGGTCTGTGTTGTG 59.930 57.895 0.00 0.00 0.00 3.33
155 156 1.069765 CAGCCTCGGTCTGTGTTGT 59.930 57.895 0.00 0.00 0.00 3.32
156 157 2.320587 GCAGCCTCGGTCTGTGTTG 61.321 63.158 8.46 0.00 34.21 3.33
157 158 2.031163 GCAGCCTCGGTCTGTGTT 59.969 61.111 8.46 0.00 34.21 3.32
158 159 2.044806 AAAGCAGCCTCGGTCTGTGT 62.045 55.000 0.00 0.00 34.21 3.72
159 160 1.294659 GAAAGCAGCCTCGGTCTGTG 61.295 60.000 0.00 0.00 34.21 3.66
160 161 1.004440 GAAAGCAGCCTCGGTCTGT 60.004 57.895 0.00 0.00 34.21 3.41
161 162 2.097038 CGAAAGCAGCCTCGGTCTG 61.097 63.158 6.60 3.88 34.79 3.51
162 163 2.262915 CGAAAGCAGCCTCGGTCT 59.737 61.111 6.60 0.00 0.00 3.85
163 164 2.048127 ACGAAAGCAGCCTCGGTC 60.048 61.111 16.61 0.00 39.38 4.79
164 165 2.357517 CACGAAAGCAGCCTCGGT 60.358 61.111 16.61 2.72 39.38 4.69
187 188 2.432146 TGAGATGAAATGACGGAGGAGG 59.568 50.000 0.00 0.00 0.00 4.30
312 325 2.095466 GCGTGATTGATCCGGACAAAAA 60.095 45.455 18.93 7.72 0.00 1.94
315 328 0.742990 GGCGTGATTGATCCGGACAA 60.743 55.000 6.12 14.10 0.00 3.18
317 330 1.887707 GGGCGTGATTGATCCGGAC 60.888 63.158 6.12 0.90 0.00 4.79
368 381 3.283751 CCTGGTCTAGTCTCTAGTGTGG 58.716 54.545 4.13 0.85 0.00 4.17
370 383 2.681390 CGCCTGGTCTAGTCTCTAGTGT 60.681 54.545 0.00 0.00 0.00 3.55
371 384 1.944024 CGCCTGGTCTAGTCTCTAGTG 59.056 57.143 0.00 0.00 0.00 2.74
372 385 1.838715 TCGCCTGGTCTAGTCTCTAGT 59.161 52.381 0.00 0.00 0.00 2.57
373 386 2.215196 GTCGCCTGGTCTAGTCTCTAG 58.785 57.143 0.00 0.00 0.00 2.43
374 387 1.134159 GGTCGCCTGGTCTAGTCTCTA 60.134 57.143 0.00 0.00 0.00 2.43
375 388 0.394625 GGTCGCCTGGTCTAGTCTCT 60.395 60.000 0.00 0.00 0.00 3.10
376 389 0.680280 TGGTCGCCTGGTCTAGTCTC 60.680 60.000 0.00 0.00 0.00 3.36
377 390 0.681564 CTGGTCGCCTGGTCTAGTCT 60.682 60.000 0.00 0.00 0.00 3.24
378 391 1.810532 CTGGTCGCCTGGTCTAGTC 59.189 63.158 0.00 0.00 0.00 2.59
379 392 2.352032 GCTGGTCGCCTGGTCTAGT 61.352 63.158 0.00 0.00 0.00 2.57
380 393 2.496817 GCTGGTCGCCTGGTCTAG 59.503 66.667 0.00 0.00 0.00 2.43
407 420 1.515521 CGTTCCCTTTCACCACAGGC 61.516 60.000 0.00 0.00 0.00 4.85
413 426 0.249996 TCCGTTCGTTCCCTTTCACC 60.250 55.000 0.00 0.00 0.00 4.02
492 509 2.051345 CTGGAAAACGCACGCACC 60.051 61.111 0.00 0.00 0.00 5.01
600 617 0.105709 GGGGAGAGGGAGAAGGAGAG 60.106 65.000 0.00 0.00 0.00 3.20
638 669 4.337836 GGAGAAAAGTAGTAGTACGGGAGG 59.662 50.000 2.04 0.00 33.97 4.30
647 678 4.202131 GGTGGATCCGGAGAAAAGTAGTAG 60.202 50.000 11.34 0.00 0.00 2.57
650 681 3.180891 GGTGGATCCGGAGAAAAGTAG 57.819 52.381 11.34 0.00 0.00 2.57
759 832 1.074850 GGGAAGGAGGAGGGAGGAG 60.075 68.421 0.00 0.00 0.00 3.69
795 871 3.965539 CTGGAGCAGCAGGGGAACG 62.966 68.421 0.00 0.00 0.00 3.95
796 872 2.045536 CTGGAGCAGCAGGGGAAC 60.046 66.667 0.00 0.00 0.00 3.62
825 901 2.002127 CGATTGGAGAGCAGAACGC 58.998 57.895 0.00 0.00 42.91 4.84
826 902 0.459237 AGCGATTGGAGAGCAGAACG 60.459 55.000 0.00 0.00 0.00 3.95
827 903 1.285578 GAGCGATTGGAGAGCAGAAC 58.714 55.000 0.00 0.00 0.00 3.01
828 904 0.176680 GGAGCGATTGGAGAGCAGAA 59.823 55.000 0.00 0.00 0.00 3.02
829 905 1.819229 GGAGCGATTGGAGAGCAGA 59.181 57.895 0.00 0.00 0.00 4.26
830 906 1.591059 CGGAGCGATTGGAGAGCAG 60.591 63.158 0.00 0.00 0.00 4.24
831 907 2.496341 CGGAGCGATTGGAGAGCA 59.504 61.111 0.00 0.00 0.00 4.26
832 908 2.279784 CCGGAGCGATTGGAGAGC 60.280 66.667 0.00 0.00 0.00 4.09
833 909 1.066587 GTCCGGAGCGATTGGAGAG 59.933 63.158 3.06 0.00 31.04 3.20
834 910 2.423898 GGTCCGGAGCGATTGGAGA 61.424 63.158 19.39 0.00 31.04 3.71
835 911 2.107141 GGTCCGGAGCGATTGGAG 59.893 66.667 19.39 0.00 31.04 3.86
863 961 4.783450 GCTCCGCAAGTATTTCGATCTTTG 60.783 45.833 0.00 0.00 0.00 2.77
879 977 0.106708 AAAGAACTGTCAGCTCCGCA 59.893 50.000 0.00 0.00 0.00 5.69
998 1100 1.076777 CTCCGGCAATTCCCCATGT 60.077 57.895 0.00 0.00 0.00 3.21
1132 1234 2.494073 AGCTGGAAAAACAACAAACCGA 59.506 40.909 0.00 0.00 0.00 4.69
1173 1277 1.194121 AATCCAGCAAACAAGGCCCC 61.194 55.000 0.00 0.00 0.00 5.80
1178 1282 3.719924 TGCAAAGAATCCAGCAAACAAG 58.280 40.909 0.00 0.00 33.48 3.16
1282 1386 1.524008 GCCGAACCAAGAACAAGGGG 61.524 60.000 0.00 0.00 0.00 4.79
1376 1487 3.782889 AAGCAGAAATGGTAAATCCGC 57.217 42.857 0.00 0.00 39.52 5.54
1398 1509 2.813754 TCAGGCGTTCATTTCTTCCAAG 59.186 45.455 0.00 0.00 0.00 3.61
1405 1516 4.798574 AGTTCAATTCAGGCGTTCATTTC 58.201 39.130 0.00 0.00 0.00 2.17
1410 1521 5.803020 ATAAGAGTTCAATTCAGGCGTTC 57.197 39.130 0.00 0.00 0.00 3.95
1493 1604 3.947196 CTGCTAATGGCCACAGATACAAA 59.053 43.478 8.16 0.00 40.92 2.83
1500 1614 0.254178 AGGTCTGCTAATGGCCACAG 59.746 55.000 8.16 11.69 40.92 3.66
1517 1632 8.147058 AGACAAGTACTAATATGATTCTGCAGG 58.853 37.037 15.13 0.00 0.00 4.85
1537 1652 1.021202 TTCCAACGGTGCAAGACAAG 58.979 50.000 0.00 0.00 0.00 3.16
1584 1700 6.543430 AAATGCAGTTGGAATGCCTTATAA 57.457 33.333 0.00 0.00 43.18 0.98
1630 1746 1.157870 AGGACGGTCAACAAACTGCG 61.158 55.000 10.76 0.00 0.00 5.18
1631 1747 0.307760 CAGGACGGTCAACAAACTGC 59.692 55.000 10.76 0.00 0.00 4.40
1754 1973 8.690680 AAACAATTTAAACAGAGCAAACGTAA 57.309 26.923 0.00 0.00 0.00 3.18
1793 2012 8.080417 CAGATCATAGGGAAATATTGCAAACAG 58.920 37.037 1.71 0.00 0.00 3.16
1959 2178 2.486472 ATCACTGAAGGAAGTGCAGG 57.514 50.000 0.00 0.00 45.93 4.85
1983 2204 4.532126 TGTCATATCAAGGTGTTCCAGAGT 59.468 41.667 0.00 0.00 35.89 3.24
1984 2205 5.089970 TGTCATATCAAGGTGTTCCAGAG 57.910 43.478 0.00 0.00 35.89 3.35
1995 2218 7.688167 GTGTGAAACGTGTAATGTCATATCAAG 59.312 37.037 0.00 0.00 42.39 3.02
2012 2235 4.446385 TCTTATGGTTCGAAGTGTGAAACG 59.554 41.667 0.00 0.00 42.39 3.60
2066 2290 6.408858 TCGAAGTGCAAAATGACTCTTATC 57.591 37.500 0.00 0.00 0.00 1.75
2201 2425 2.810852 GCTGTATTCCATCAAGCTAGCC 59.189 50.000 12.13 0.00 0.00 3.93
2222 2515 7.558161 TGTACTTGAATAAGATTCATGCAGG 57.442 36.000 12.51 0.00 37.36 4.85
2235 2528 9.571810 GCAATCAAACAATCATGTACTTGAATA 57.428 29.630 14.70 0.00 38.87 1.75
2278 2571 3.732849 GTGGCTCTTGGGGGAGGG 61.733 72.222 0.00 0.00 34.21 4.30
2279 2572 3.732849 GGTGGCTCTTGGGGGAGG 61.733 72.222 0.00 0.00 34.21 4.30
2302 2595 5.182760 AGGAAAAATACAGAGCTCTTTGCAG 59.817 40.000 15.27 4.82 45.94 4.41
2349 2956 7.946381 TGGGCATACATAATTCAACAGTTAA 57.054 32.000 0.00 0.00 0.00 2.01
2447 3054 4.934075 TGAAGAGCGAACATCATTTCAG 57.066 40.909 0.00 0.00 0.00 3.02
2533 3141 9.847224 GTAAATCTCCTATCTCTCTAGGGATAG 57.153 40.741 16.83 16.83 39.08 2.08
3133 3758 1.331756 GAGCATCCAACAAGCCATACG 59.668 52.381 0.00 0.00 0.00 3.06
3342 3967 7.427989 ACTAGATCACCCTAACGGAAAAATA 57.572 36.000 0.00 0.00 34.64 1.40
3357 3982 6.716934 TCCAAGTCATCCTTACTAGATCAC 57.283 41.667 0.00 0.00 0.00 3.06
3471 4098 0.737715 CTGGTTGTAGCGCTGTCCTC 60.738 60.000 22.90 7.56 0.00 3.71
3531 4158 6.041296 ACAGAATTTTCAGAACCAAGCATCTT 59.959 34.615 0.00 0.00 0.00 2.40
3615 4242 2.421314 GGGCAAAACTGGTGGTGC 59.579 61.111 0.00 0.00 36.24 5.01
3639 4266 1.056660 GAAGGAGGAGGTGGTGTCAA 58.943 55.000 0.00 0.00 0.00 3.18
3695 4322 2.222931 GCTTGCGGTTTGGTTTTTGTTC 60.223 45.455 0.00 0.00 0.00 3.18
4012 4640 7.596494 CCTGCAAAATAGAAGTCAGAATTTCA 58.404 34.615 0.00 0.00 0.00 2.69
4062 4690 0.514691 CTTCACAGGCTGTTTCGAGC 59.485 55.000 19.43 0.00 38.34 5.03
4164 4792 6.701841 CGTAGGCATGTTTTATCAGTGTAGAT 59.298 38.462 0.00 0.00 0.00 1.98
4249 4877 5.164233 TCTTACAGCGTTGAGAAGAATGAG 58.836 41.667 6.16 0.00 31.53 2.90
4302 4930 6.401688 CGCGACAACATTTCAACCTAGAATAA 60.402 38.462 0.00 0.00 0.00 1.40
4424 5052 1.131126 CCGTGCAAGTGCTCAAATAGG 59.869 52.381 4.69 0.00 42.66 2.57
4537 5171 5.059710 GCAACAGAAATGTTTCGATGTTAGC 59.940 40.000 10.75 11.97 41.92 3.09
4731 5365 0.672401 TTCCAGTCATCGCCGAAACC 60.672 55.000 0.00 0.00 0.00 3.27
4763 5397 3.196469 ACTCTTCAGGCTCATCGAATTCA 59.804 43.478 6.22 0.00 0.00 2.57
4920 5554 2.167281 CTGATCTGAGTGTCGGGTCAAT 59.833 50.000 0.56 0.00 41.90 2.57
4922 5556 1.177401 CTGATCTGAGTGTCGGGTCA 58.823 55.000 0.00 0.00 40.37 4.02
5045 5679 2.430332 CTGAGAGAACCCAGTGATCTCC 59.570 54.545 13.58 8.41 40.34 3.71
5211 5845 3.263425 TGCCTAAGGAGTAAGAAACCCAG 59.737 47.826 0.00 0.00 0.00 4.45
5226 5860 1.210478 ACACCTGTATGCCTGCCTAAG 59.790 52.381 0.00 0.00 0.00 2.18
5483 6125 2.066262 GATCGACACGAGAGCCAAAAA 58.934 47.619 0.00 0.00 39.91 1.94
5782 6448 2.432628 CGGCAAGGAGTGGTCGAC 60.433 66.667 7.13 7.13 0.00 4.20
5994 6662 2.750637 GAGACGCCTCCGAGGTCA 60.751 66.667 16.09 0.00 37.80 4.02


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

AutoCloner maintained by Alex Coulton.