Multiple sequence alignment - TraesCS2D01G088300

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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 TraesCS2D01G088300 chr2D 100.000 2933 0 0 1 2933 38218592 38215660 0.000000e+00 5417
1 TraesCS2D01G088300 chr2D 81.218 2348 352 52 1 2289 38252646 38250329 0.000000e+00 1810
2 TraesCS2D01G088300 chr2D 83.367 1954 286 23 6 1934 38441950 38440011 0.000000e+00 1772
3 TraesCS2D01G088300 chr2D 82.366 1826 285 25 7 1809 38238866 38237055 0.000000e+00 1554
4 TraesCS2D01G088300 chr2D 87.988 333 35 5 1606 1935 38242788 38242458 3.540000e-104 388
5 TraesCS2D01G088300 chr2D 92.529 174 12 1 2484 2656 445386630 445386803 6.280000e-62 248
6 TraesCS2D01G088300 chr2A 88.072 2515 243 35 8 2497 43282117 43279635 0.000000e+00 2929
7 TraesCS2D01G088300 chr2A 83.061 1895 282 15 1 1866 43304735 43302851 0.000000e+00 1685
8 TraesCS2D01G088300 chr2A 81.872 2019 302 34 1 1977 43299568 43297572 0.000000e+00 1642
9 TraesCS2D01G088300 chr2A 88.811 1135 114 6 854 1985 43286429 43285305 0.000000e+00 1380
10 TraesCS2D01G088300 chr2A 94.500 200 11 0 2655 2854 43279638 43279439 2.840000e-80 309
11 TraesCS2D01G088300 chr2B 90.636 1730 126 12 783 2497 66766565 66764857 0.000000e+00 2265
12 TraesCS2D01G088300 chr2B 83.350 1976 285 22 1 1948 67081672 67079713 0.000000e+00 1786
13 TraesCS2D01G088300 chr2B 88.845 1013 113 0 973 1985 66949813 66948801 0.000000e+00 1245
14 TraesCS2D01G088300 chr2B 81.645 1204 179 21 1 1173 67217680 67216488 0.000000e+00 961
15 TraesCS2D01G088300 chr2B 79.208 606 104 6 41 628 66961708 66961107 4.550000e-108 401
16 TraesCS2D01G088300 chr2B 94.872 195 10 0 2655 2849 66764860 66764666 3.670000e-79 305
17 TraesCS2D01G088300 chr3D 93.220 177 9 3 2486 2661 32278176 32278350 1.040000e-64 257
18 TraesCS2D01G088300 chr3D 92.697 178 12 1 2481 2657 548009847 548009670 3.750000e-64 255
19 TraesCS2D01G088300 chr3D 92.614 176 12 1 2482 2656 402850621 402850796 4.850000e-63 252
20 TraesCS2D01G088300 chr3D 96.296 81 3 0 2853 2933 98879790 98879870 1.830000e-27 134
21 TraesCS2D01G088300 chr5D 93.605 172 9 2 2494 2663 432167259 432167430 3.750000e-64 255
22 TraesCS2D01G088300 chr5D 94.083 169 9 1 2493 2660 451486594 451486426 3.750000e-64 255
23 TraesCS2D01G088300 chr5D 97.531 81 2 0 2853 2933 9216816 9216736 3.940000e-29 139
24 TraesCS2D01G088300 chr5D 97.500 80 2 0 2853 2932 9211802 9211723 1.420000e-28 137
25 TraesCS2D01G088300 chr5D 97.500 80 2 0 2854 2933 59029226 59029305 1.420000e-28 137
26 TraesCS2D01G088300 chr5D 96.296 81 3 0 2853 2933 59015677 59015757 1.830000e-27 134
27 TraesCS2D01G088300 chrUn 94.545 165 8 1 2493 2656 131947974 131947810 1.350000e-63 254
28 TraesCS2D01G088300 chr6D 93.567 171 10 1 2491 2660 115782927 115783097 1.350000e-63 254
29 TraesCS2D01G088300 chr1D 92.265 181 11 2 2494 2671 19791790 19791970 1.350000e-63 254
30 TraesCS2D01G088300 chr7B 97.531 81 2 0 2853 2933 635246998 635247078 3.940000e-29 139
31 TraesCS2D01G088300 chr7B 96.341 82 3 0 2852 2933 635199947 635200028 5.100000e-28 135
32 TraesCS2D01G088300 chr7A 95.122 82 4 0 2852 2933 111887373 111887454 2.370000e-26 130
33 TraesCS2D01G088300 chr7D 95.062 81 4 0 2853 2933 556237198 556237118 8.530000e-26 128


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 TraesCS2D01G088300 chr2D 38215660 38218592 2932 True 5417.000000 5417 100.0000 1 2933 1 chr2D.!!$R1 2932
1 TraesCS2D01G088300 chr2D 38250329 38252646 2317 True 1810.000000 1810 81.2180 1 2289 1 chr2D.!!$R2 2288
2 TraesCS2D01G088300 chr2D 38440011 38441950 1939 True 1772.000000 1772 83.3670 6 1934 1 chr2D.!!$R3 1928
3 TraesCS2D01G088300 chr2D 38237055 38242788 5733 True 971.000000 1554 85.1770 7 1935 2 chr2D.!!$R4 1928
4 TraesCS2D01G088300 chr2A 43297572 43304735 7163 True 1663.500000 1685 82.4665 1 1977 2 chr2A.!!$R2 1976
5 TraesCS2D01G088300 chr2A 43279439 43286429 6990 True 1539.333333 2929 90.4610 8 2854 3 chr2A.!!$R1 2846
6 TraesCS2D01G088300 chr2B 67079713 67081672 1959 True 1786.000000 1786 83.3500 1 1948 1 chr2B.!!$R3 1947
7 TraesCS2D01G088300 chr2B 66764666 66766565 1899 True 1285.000000 2265 92.7540 783 2849 2 chr2B.!!$R5 2066
8 TraesCS2D01G088300 chr2B 66948801 66949813 1012 True 1245.000000 1245 88.8450 973 1985 1 chr2B.!!$R1 1012
9 TraesCS2D01G088300 chr2B 67216488 67217680 1192 True 961.000000 961 81.6450 1 1173 1 chr2B.!!$R4 1172
10 TraesCS2D01G088300 chr2B 66961107 66961708 601 True 401.000000 401 79.2080 41 628 1 chr2B.!!$R2 587

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
232 6204 0.250234 CATGGCCTTCTTCGTCTCCA 59.750 55.0 3.32 0.0 0.0 3.86 F
293 6272 0.391597 TTGGGTCTCCTCAACGACAC 59.608 55.0 0.00 0.0 34.2 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1650 12845 0.168128 CTTCCGTGTTGAATTCCCGC 59.832 55.000 2.27 0.0 0.0 6.13 R
2146 13361 2.977914 ACGACTAGTCAGCGGTACTTA 58.022 47.619 22.37 0.0 0.0 2.24 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
50 6004 1.811266 CGGTTGAGGTCATGCCGAG 60.811 63.158 14.64 0.00 42.94 4.63
77 6031 0.603707 CTGATGCTGACCAACGGTGT 60.604 55.000 0.00 0.00 35.25 4.16
83 6037 0.880278 CTGACCAACGGTGTCACCAG 60.880 60.000 21.91 15.86 38.47 4.00
87 6041 1.133915 ACCAACGGTGTCACCAGAAAT 60.134 47.619 21.91 1.15 38.47 2.17
96 6050 5.010282 GGTGTCACCAGAAATATGAAAGGT 58.990 41.667 17.59 0.00 38.42 3.50
112 6066 1.684734 GGTCAGGCCTTCTACCCGA 60.685 63.158 0.00 0.00 0.00 5.14
170 6136 0.456221 TCCTTCTCGACCATCTTCGC 59.544 55.000 0.00 0.00 38.95 4.70
171 6137 0.867753 CCTTCTCGACCATCTTCGCG 60.868 60.000 0.00 0.00 38.95 5.87
177 6143 2.048597 ACCATCTTCGCGTTCGCA 60.049 55.556 16.98 2.08 35.26 5.10
232 6204 0.250234 CATGGCCTTCTTCGTCTCCA 59.750 55.000 3.32 0.00 0.00 3.86
239 6211 2.028112 CCTTCTTCGTCTCCACATCCAA 60.028 50.000 0.00 0.00 0.00 3.53
273 6252 3.605664 GCGTTGCCAGGCCAGTTT 61.606 61.111 9.64 0.00 0.00 2.66
293 6272 0.391597 TTGGGTCTCCTCAACGACAC 59.608 55.000 0.00 0.00 34.20 3.67
360 6339 1.860078 GTTCCAAGACGCCGAGTTG 59.140 57.895 0.00 0.00 0.00 3.16
363 6342 2.250939 CCAAGACGCCGAGTTGCAA 61.251 57.895 0.00 0.00 0.00 4.08
370 6349 1.421485 GCCGAGTTGCAAGACATCG 59.579 57.895 0.00 7.81 0.00 3.84
413 6392 2.655364 CGATAGCCTGGTGTCGCG 60.655 66.667 0.00 0.00 0.00 5.87
415 6394 4.530857 ATAGCCTGGTGTCGCGCC 62.531 66.667 0.00 0.00 34.12 6.53
435 6414 1.201424 GTTCCCACTTCTCCGGGTAT 58.799 55.000 0.00 0.00 43.57 2.73
453 6439 3.243636 GGTATTACGATGATGACACCGGT 60.244 47.826 0.00 0.00 37.35 5.28
459 6445 3.194861 CGATGATGACACCGGTATGTTT 58.805 45.455 6.87 0.00 31.24 2.83
504 6490 0.777446 AGGCCATACAAGTGTGGGTT 59.223 50.000 16.27 0.00 41.51 4.11
516 6502 1.338973 GTGTGGGTTGACTACGACAGA 59.661 52.381 0.00 0.00 32.40 3.41
588 6582 4.664267 AGGCCCCTCCTGCAGACA 62.664 66.667 17.39 0.00 45.54 3.41
605 6599 1.880675 GACAACAGTCGACCTCTCTGA 59.119 52.381 13.01 0.00 33.93 3.27
647 6641 0.868406 GTTGGGTTCTCGTCAGCAAG 59.132 55.000 0.00 0.00 0.00 4.01
648 6642 0.468226 TTGGGTTCTCGTCAGCAAGT 59.532 50.000 0.00 0.00 0.00 3.16
676 6670 2.355837 TCAGCGCACGACACTTCC 60.356 61.111 11.47 0.00 0.00 3.46
681 6675 1.006102 CGCACGACACTTCCTCCTT 60.006 57.895 0.00 0.00 0.00 3.36
715 6709 3.092511 TGGATGGGCCAGCTCCTC 61.093 66.667 22.72 8.75 43.33 3.71
728 6722 2.027377 CAGCTCCTCCACTGAACATCTT 60.027 50.000 0.00 0.00 35.90 2.40
757 6772 1.595093 GGCCCTTCCATCAACCAACG 61.595 60.000 0.00 0.00 34.01 4.10
777 6792 1.504912 CATGGTCCCTGTCCATCTCT 58.495 55.000 0.00 0.00 42.92 3.10
828 6846 2.347322 GCTGGTTTTGGCGGGCATA 61.347 57.895 4.64 0.00 0.00 3.14
837 6855 1.656587 TGGCGGGCATAGGAATCTAT 58.343 50.000 0.00 0.00 36.68 1.98
867 6891 0.520404 GACGGCGTCTCAAGTACTCA 59.480 55.000 31.15 0.00 0.00 3.41
892 6916 2.435805 GTGCATGAGGACTGGGAGATTA 59.564 50.000 0.00 0.00 32.70 1.75
894 6918 2.435805 GCATGAGGACTGGGAGATTACA 59.564 50.000 0.00 0.00 0.00 2.41
898 6922 4.361783 TGAGGACTGGGAGATTACATTCA 58.638 43.478 0.00 0.00 0.00 2.57
900 6924 4.366267 AGGACTGGGAGATTACATTCAGT 58.634 43.478 0.00 0.00 38.05 3.41
969 6993 2.290641 CAGTGACAACAACCTACTTGGC 59.709 50.000 0.00 0.00 40.22 4.52
1080 7104 2.912956 AGGAGTAAGGGAGTTCATTGCA 59.087 45.455 0.00 0.00 0.00 4.08
1227 7251 0.673437 ACACAAGAAATGGCCCAACG 59.327 50.000 0.00 0.00 0.00 4.10
1366 7390 8.829746 TGCTATTGGATAGTAAGATGAATGGAT 58.170 33.333 0.00 0.00 35.29 3.41
1585 7611 1.208535 AGAACAGTCGGGTGTTGTTGA 59.791 47.619 7.88 0.00 40.83 3.18
1631 12826 0.391661 AACGGCTCAATGCTCGACAT 60.392 50.000 0.00 0.00 42.30 3.06
1650 12845 2.494918 GTGGATCCACGACTCGGG 59.505 66.667 28.52 0.00 37.19 5.14
1955 13153 8.918202 TGAAGTGTGTATTTAATTGACCTCTT 57.082 30.769 0.00 0.00 0.00 2.85
2146 13361 6.543831 GCATAGATTTGAAGGTTGGAGTGTAT 59.456 38.462 0.00 0.00 0.00 2.29
2154 13369 4.996788 AGGTTGGAGTGTATAAGTACCG 57.003 45.455 0.00 0.00 0.00 4.02
2298 13521 3.267597 ATTGGCTTGCGGCGTGAAC 62.268 57.895 9.37 0.00 42.94 3.18
2310 13533 0.672711 GCGTGAACTAACCCTGGGAC 60.673 60.000 22.23 3.86 0.00 4.46
2312 13535 0.036671 GTGAACTAACCCTGGGACGG 60.037 60.000 22.23 10.64 0.00 4.79
2344 13567 1.134530 GCTCGTGATCGTGAGTTCGG 61.135 60.000 13.61 0.00 38.33 4.30
2348 13571 1.337821 GTGATCGTGAGTTCGGTGAC 58.662 55.000 0.00 0.00 32.54 3.67
2397 13620 3.003480 GCCCTATCTGATATTTGTCCGC 58.997 50.000 0.00 0.00 0.00 5.54
2438 13661 3.664537 GCTAGCTAGCGTTTGTTGTGTTC 60.665 47.826 28.89 0.00 39.82 3.18
2471 13700 6.976934 GGAATTGGATCCTTTTAATGCCTA 57.023 37.500 14.23 0.00 36.50 3.93
2497 13726 2.359214 TCACGAGGCATGTGATCTACTC 59.641 50.000 7.62 0.00 41.20 2.59
2498 13727 1.683917 ACGAGGCATGTGATCTACTCC 59.316 52.381 0.00 0.00 0.00 3.85
2499 13728 1.000283 CGAGGCATGTGATCTACTCCC 60.000 57.143 0.00 0.00 0.00 4.30
2500 13729 2.324541 GAGGCATGTGATCTACTCCCT 58.675 52.381 0.00 0.00 0.00 4.20
2501 13730 2.298729 GAGGCATGTGATCTACTCCCTC 59.701 54.545 0.00 0.67 34.16 4.30
2502 13731 1.346068 GGCATGTGATCTACTCCCTCC 59.654 57.143 0.00 0.00 0.00 4.30
2503 13732 1.000283 GCATGTGATCTACTCCCTCCG 60.000 57.143 0.00 0.00 0.00 4.63
2504 13733 2.311463 CATGTGATCTACTCCCTCCGT 58.689 52.381 0.00 0.00 0.00 4.69
2505 13734 2.526888 TGTGATCTACTCCCTCCGTT 57.473 50.000 0.00 0.00 0.00 4.44
2506 13735 2.376109 TGTGATCTACTCCCTCCGTTC 58.624 52.381 0.00 0.00 0.00 3.95
2507 13736 1.682323 GTGATCTACTCCCTCCGTTCC 59.318 57.143 0.00 0.00 0.00 3.62
2508 13737 1.569548 TGATCTACTCCCTCCGTTCCT 59.430 52.381 0.00 0.00 0.00 3.36
2509 13738 2.781757 TGATCTACTCCCTCCGTTCCTA 59.218 50.000 0.00 0.00 0.00 2.94
2510 13739 3.203710 TGATCTACTCCCTCCGTTCCTAA 59.796 47.826 0.00 0.00 0.00 2.69
2511 13740 3.744940 TCTACTCCCTCCGTTCCTAAA 57.255 47.619 0.00 0.00 0.00 1.85
2512 13741 4.261411 TCTACTCCCTCCGTTCCTAAAT 57.739 45.455 0.00 0.00 0.00 1.40
2513 13742 5.393068 TCTACTCCCTCCGTTCCTAAATA 57.607 43.478 0.00 0.00 0.00 1.40
2514 13743 5.136105 TCTACTCCCTCCGTTCCTAAATAC 58.864 45.833 0.00 0.00 0.00 1.89
2515 13744 3.991683 ACTCCCTCCGTTCCTAAATACT 58.008 45.455 0.00 0.00 0.00 2.12
2516 13745 4.359996 ACTCCCTCCGTTCCTAAATACTT 58.640 43.478 0.00 0.00 0.00 2.24
2517 13746 4.161754 ACTCCCTCCGTTCCTAAATACTTG 59.838 45.833 0.00 0.00 0.00 3.16
2518 13747 4.098894 TCCCTCCGTTCCTAAATACTTGT 58.901 43.478 0.00 0.00 0.00 3.16
2519 13748 4.161001 TCCCTCCGTTCCTAAATACTTGTC 59.839 45.833 0.00 0.00 0.00 3.18
2520 13749 4.161754 CCCTCCGTTCCTAAATACTTGTCT 59.838 45.833 0.00 0.00 0.00 3.41
2521 13750 5.338137 CCCTCCGTTCCTAAATACTTGTCTT 60.338 44.000 0.00 0.00 0.00 3.01
2522 13751 6.171213 CCTCCGTTCCTAAATACTTGTCTTT 58.829 40.000 0.00 0.00 0.00 2.52
2523 13752 6.313164 CCTCCGTTCCTAAATACTTGTCTTTC 59.687 42.308 0.00 0.00 0.00 2.62
2524 13753 7.001099 TCCGTTCCTAAATACTTGTCTTTCT 57.999 36.000 0.00 0.00 0.00 2.52
2525 13754 8.125978 TCCGTTCCTAAATACTTGTCTTTCTA 57.874 34.615 0.00 0.00 0.00 2.10
2526 13755 8.248945 TCCGTTCCTAAATACTTGTCTTTCTAG 58.751 37.037 0.00 0.00 0.00 2.43
2527 13756 7.491696 CCGTTCCTAAATACTTGTCTTTCTAGG 59.508 40.741 0.00 0.00 0.00 3.02
2528 13757 7.010275 CGTTCCTAAATACTTGTCTTTCTAGGC 59.990 40.741 0.00 0.00 0.00 3.93
2529 13758 7.490657 TCCTAAATACTTGTCTTTCTAGGCA 57.509 36.000 0.00 0.00 33.22 4.75
2530 13759 8.090788 TCCTAAATACTTGTCTTTCTAGGCAT 57.909 34.615 0.00 0.00 35.56 4.40
2531 13760 8.548877 TCCTAAATACTTGTCTTTCTAGGCATT 58.451 33.333 0.00 0.00 35.56 3.56
2532 13761 9.178758 CCTAAATACTTGTCTTTCTAGGCATTT 57.821 33.333 0.00 0.00 35.56 2.32
2534 13763 8.635765 AAATACTTGTCTTTCTAGGCATTTCA 57.364 30.769 0.00 0.00 35.56 2.69
2535 13764 8.635765 AATACTTGTCTTTCTAGGCATTTCAA 57.364 30.769 0.00 0.00 35.56 2.69
2536 13765 6.959639 ACTTGTCTTTCTAGGCATTTCAAA 57.040 33.333 0.00 0.00 35.56 2.69
2537 13766 7.530426 ACTTGTCTTTCTAGGCATTTCAAAT 57.470 32.000 0.00 0.00 35.56 2.32
2538 13767 7.373493 ACTTGTCTTTCTAGGCATTTCAAATG 58.627 34.615 5.68 5.68 35.56 2.32
2539 13768 7.231317 ACTTGTCTTTCTAGGCATTTCAAATGA 59.769 33.333 14.65 0.00 35.56 2.57
2540 13769 6.913170 TGTCTTTCTAGGCATTTCAAATGAC 58.087 36.000 14.65 11.48 29.10 3.06
2541 13770 6.716628 TGTCTTTCTAGGCATTTCAAATGACT 59.283 34.615 22.35 22.35 41.04 3.41
2542 13771 7.882791 TGTCTTTCTAGGCATTTCAAATGACTA 59.117 33.333 22.19 22.19 38.54 2.59
2543 13772 8.897752 GTCTTTCTAGGCATTTCAAATGACTAT 58.102 33.333 23.50 4.64 38.80 2.12
2544 13773 9.113838 TCTTTCTAGGCATTTCAAATGACTATC 57.886 33.333 23.50 1.52 38.80 2.08
2545 13774 8.806429 TTTCTAGGCATTTCAAATGACTATCA 57.194 30.769 23.50 12.23 38.80 2.15
2546 13775 7.792374 TCTAGGCATTTCAAATGACTATCAC 57.208 36.000 23.50 0.15 38.80 3.06
2547 13776 7.337938 TCTAGGCATTTCAAATGACTATCACA 58.662 34.615 23.50 5.75 38.80 3.58
2548 13777 7.994911 TCTAGGCATTTCAAATGACTATCACAT 59.005 33.333 23.50 1.77 38.80 3.21
2549 13778 9.276590 CTAGGCATTTCAAATGACTATCACATA 57.723 33.333 23.50 4.36 38.80 2.29
2550 13779 7.934457 AGGCATTTCAAATGACTATCACATAC 58.066 34.615 17.52 0.00 35.20 2.39
2551 13780 6.852853 GGCATTTCAAATGACTATCACATACG 59.147 38.462 14.65 0.00 0.00 3.06
2552 13781 6.852853 GCATTTCAAATGACTATCACATACGG 59.147 38.462 14.65 0.00 0.00 4.02
2553 13782 7.254761 GCATTTCAAATGACTATCACATACGGA 60.255 37.037 14.65 0.00 0.00 4.69
2554 13783 8.777413 CATTTCAAATGACTATCACATACGGAT 58.223 33.333 3.82 0.00 0.00 4.18
2555 13784 7.713764 TTCAAATGACTATCACATACGGATG 57.286 36.000 5.94 5.94 39.16 3.51
2557 13786 7.947282 TCAAATGACTATCACATACGGATGTA 58.053 34.615 14.23 2.61 44.82 2.29
2558 13787 8.585018 TCAAATGACTATCACATACGGATGTAT 58.415 33.333 14.23 10.02 44.82 2.29
2574 13803 8.701908 ACGGATGTATGTAGACCTAATTTAGA 57.298 34.615 4.96 0.00 0.00 2.10
2575 13804 8.794553 ACGGATGTATGTAGACCTAATTTAGAG 58.205 37.037 4.96 0.00 0.00 2.43
2576 13805 8.794553 CGGATGTATGTAGACCTAATTTAGAGT 58.205 37.037 4.96 1.73 0.00 3.24
2577 13806 9.915629 GGATGTATGTAGACCTAATTTAGAGTG 57.084 37.037 4.96 0.00 0.00 3.51
2599 13828 8.553459 AGTGTAGATTCACTCATTTTACAAGG 57.447 34.615 0.00 0.00 44.07 3.61
2600 13829 7.607991 AGTGTAGATTCACTCATTTTACAAGGG 59.392 37.037 0.00 0.00 44.07 3.95
2601 13830 7.390718 GTGTAGATTCACTCATTTTACAAGGGT 59.609 37.037 0.00 0.00 35.68 4.34
2602 13831 6.824305 AGATTCACTCATTTTACAAGGGTG 57.176 37.500 0.00 0.00 0.00 4.61
2603 13832 6.306987 AGATTCACTCATTTTACAAGGGTGT 58.693 36.000 0.00 0.00 42.09 4.16
2604 13833 7.458397 AGATTCACTCATTTTACAAGGGTGTA 58.542 34.615 0.00 0.00 39.30 2.90
2605 13834 7.607991 AGATTCACTCATTTTACAAGGGTGTAG 59.392 37.037 0.00 0.00 41.25 2.74
2606 13835 6.182507 TCACTCATTTTACAAGGGTGTAGT 57.817 37.500 0.00 0.00 41.25 2.73
2607 13836 6.228258 TCACTCATTTTACAAGGGTGTAGTC 58.772 40.000 0.00 0.00 41.25 2.59
2608 13837 5.995282 CACTCATTTTACAAGGGTGTAGTCA 59.005 40.000 0.00 0.00 41.25 3.41
2609 13838 5.995897 ACTCATTTTACAAGGGTGTAGTCAC 59.004 40.000 0.00 0.00 41.25 3.67
2610 13839 6.182507 TCATTTTACAAGGGTGTAGTCACT 57.817 37.500 0.00 0.00 41.25 3.41
2611 13840 6.597562 TCATTTTACAAGGGTGTAGTCACTT 58.402 36.000 0.00 0.00 41.25 3.16
2612 13841 6.485313 TCATTTTACAAGGGTGTAGTCACTTG 59.515 38.462 7.07 7.07 41.25 3.16
2613 13842 5.362105 TTTACAAGGGTGTAGTCACTTGT 57.638 39.130 16.49 16.49 41.25 3.16
2614 13843 3.926058 ACAAGGGTGTAGTCACTTGTT 57.074 42.857 8.27 0.00 38.73 2.83
2615 13844 6.482898 TTACAAGGGTGTAGTCACTTGTTA 57.517 37.500 17.27 7.80 41.25 2.41
2616 13845 5.362105 ACAAGGGTGTAGTCACTTGTTAA 57.638 39.130 8.27 0.00 38.73 2.01
2617 13846 5.747342 ACAAGGGTGTAGTCACTTGTTAAA 58.253 37.500 8.27 0.00 38.73 1.52
2618 13847 6.181908 ACAAGGGTGTAGTCACTTGTTAAAA 58.818 36.000 8.27 0.00 38.73 1.52
2619 13848 6.831868 ACAAGGGTGTAGTCACTTGTTAAAAT 59.168 34.615 8.27 0.00 38.73 1.82
2620 13849 6.877611 AGGGTGTAGTCACTTGTTAAAATG 57.122 37.500 0.00 0.00 43.41 2.32
2621 13850 5.240844 AGGGTGTAGTCACTTGTTAAAATGC 59.759 40.000 0.00 0.00 43.41 3.56
2622 13851 5.458015 GGTGTAGTCACTTGTTAAAATGCC 58.542 41.667 0.00 0.00 43.41 4.40
2623 13852 5.240844 GGTGTAGTCACTTGTTAAAATGCCT 59.759 40.000 0.00 0.00 43.41 4.75
2624 13853 6.428771 GGTGTAGTCACTTGTTAAAATGCCTA 59.571 38.462 0.00 0.00 43.41 3.93
2625 13854 7.360946 GGTGTAGTCACTTGTTAAAATGCCTAG 60.361 40.741 0.00 0.00 43.41 3.02
2626 13855 7.386848 GTGTAGTCACTTGTTAAAATGCCTAGA 59.613 37.037 0.00 0.00 40.98 2.43
2627 13856 7.934665 TGTAGTCACTTGTTAAAATGCCTAGAA 59.065 33.333 0.00 0.00 0.00 2.10
2628 13857 7.817418 AGTCACTTGTTAAAATGCCTAGAAA 57.183 32.000 0.00 0.00 0.00 2.52
2629 13858 7.875971 AGTCACTTGTTAAAATGCCTAGAAAG 58.124 34.615 0.00 0.00 0.00 2.62
2630 13859 7.719633 AGTCACTTGTTAAAATGCCTAGAAAGA 59.280 33.333 0.00 0.00 0.00 2.52
2631 13860 8.515414 GTCACTTGTTAAAATGCCTAGAAAGAT 58.485 33.333 0.00 0.00 0.00 2.40
2632 13861 9.733556 TCACTTGTTAAAATGCCTAGAAAGATA 57.266 29.630 0.00 0.00 0.00 1.98
2646 13875 9.194271 GCCTAGAAAGATAAGTATTTAGGAACG 57.806 37.037 0.00 0.00 0.00 3.95
2647 13876 9.694137 CCTAGAAAGATAAGTATTTAGGAACGG 57.306 37.037 0.00 0.00 0.00 4.44
2650 13879 8.422566 AGAAAGATAAGTATTTAGGAACGGAGG 58.577 37.037 0.00 0.00 0.00 4.30
2651 13880 6.667558 AGATAAGTATTTAGGAACGGAGGG 57.332 41.667 0.00 0.00 0.00 4.30
2652 13881 6.379579 AGATAAGTATTTAGGAACGGAGGGA 58.620 40.000 0.00 0.00 0.00 4.20
2653 13882 6.494146 AGATAAGTATTTAGGAACGGAGGGAG 59.506 42.308 0.00 0.00 0.00 4.30
2654 13883 3.991683 AGTATTTAGGAACGGAGGGAGT 58.008 45.455 0.00 0.00 0.00 3.85
2655 13884 5.134725 AGTATTTAGGAACGGAGGGAGTA 57.865 43.478 0.00 0.00 0.00 2.59
2656 13885 4.892345 AGTATTTAGGAACGGAGGGAGTAC 59.108 45.833 0.00 0.00 0.00 2.73
2657 13886 3.463048 TTTAGGAACGGAGGGAGTACT 57.537 47.619 0.00 0.00 0.00 2.73
2664 13893 3.446442 ACGGAGGGAGTACTTCTACAA 57.554 47.619 0.01 0.00 0.00 2.41
2673 13902 5.105432 GGGAGTACTTCTACAAGGGTAAGTG 60.105 48.000 0.01 0.00 33.37 3.16
2706 13935 3.202818 TCATCAGGAAGCATTACCATGGT 59.797 43.478 23.55 23.55 43.24 3.55
2743 13972 0.403655 TGTGTATTTCCAGGCTGGCA 59.596 50.000 29.02 16.46 37.47 4.92
2854 14083 1.651987 CGATGTATCGCCAAAGGTGT 58.348 50.000 0.92 0.00 43.84 4.16
2855 14084 2.816689 CGATGTATCGCCAAAGGTGTA 58.183 47.619 0.92 0.00 43.84 2.90
2856 14085 3.191669 CGATGTATCGCCAAAGGTGTAA 58.808 45.455 0.92 0.00 43.84 2.41
2857 14086 3.619483 CGATGTATCGCCAAAGGTGTAAA 59.381 43.478 0.92 0.00 43.84 2.01
2858 14087 4.260212 CGATGTATCGCCAAAGGTGTAAAG 60.260 45.833 0.92 0.00 43.84 1.85
2859 14088 4.274602 TGTATCGCCAAAGGTGTAAAGA 57.725 40.909 0.00 0.00 34.40 2.52
2860 14089 4.839121 TGTATCGCCAAAGGTGTAAAGAT 58.161 39.130 0.00 0.00 34.40 2.40
2861 14090 5.250200 TGTATCGCCAAAGGTGTAAAGATT 58.750 37.500 0.00 0.00 34.40 2.40
2862 14091 4.701956 ATCGCCAAAGGTGTAAAGATTG 57.298 40.909 0.00 0.00 34.40 2.67
2863 14092 2.817258 TCGCCAAAGGTGTAAAGATTGG 59.183 45.455 0.00 0.00 42.68 3.16
2864 14093 2.817258 CGCCAAAGGTGTAAAGATTGGA 59.183 45.455 7.01 0.00 42.46 3.53
2865 14094 3.119849 CGCCAAAGGTGTAAAGATTGGAG 60.120 47.826 7.01 0.00 42.46 3.86
2866 14095 3.193479 GCCAAAGGTGTAAAGATTGGAGG 59.807 47.826 7.01 0.00 42.46 4.30
2867 14096 4.662278 CCAAAGGTGTAAAGATTGGAGGA 58.338 43.478 0.00 0.00 42.46 3.71
2868 14097 5.076873 CCAAAGGTGTAAAGATTGGAGGAA 58.923 41.667 0.00 0.00 42.46 3.36
2869 14098 5.183904 CCAAAGGTGTAAAGATTGGAGGAAG 59.816 44.000 0.00 0.00 42.46 3.46
2870 14099 3.956744 AGGTGTAAAGATTGGAGGAAGC 58.043 45.455 0.00 0.00 0.00 3.86
2871 14100 2.678336 GGTGTAAAGATTGGAGGAAGCG 59.322 50.000 0.00 0.00 0.00 4.68
2872 14101 3.335579 GTGTAAAGATTGGAGGAAGCGT 58.664 45.455 0.00 0.00 0.00 5.07
2873 14102 3.751698 GTGTAAAGATTGGAGGAAGCGTT 59.248 43.478 0.00 0.00 0.00 4.84
2874 14103 3.751175 TGTAAAGATTGGAGGAAGCGTTG 59.249 43.478 0.00 0.00 0.00 4.10
2875 14104 2.859165 AAGATTGGAGGAAGCGTTGA 57.141 45.000 0.00 0.00 0.00 3.18
2876 14105 2.859165 AGATTGGAGGAAGCGTTGAA 57.141 45.000 0.00 0.00 0.00 2.69
2877 14106 2.427506 AGATTGGAGGAAGCGTTGAAC 58.572 47.619 0.00 0.00 0.00 3.18
2878 14107 1.468914 GATTGGAGGAAGCGTTGAACC 59.531 52.381 0.00 0.00 0.00 3.62
2879 14108 0.536460 TTGGAGGAAGCGTTGAACCC 60.536 55.000 0.00 0.00 0.00 4.11
2880 14109 1.375326 GGAGGAAGCGTTGAACCCT 59.625 57.895 0.00 0.00 0.00 4.34
2881 14110 0.250770 GGAGGAAGCGTTGAACCCTT 60.251 55.000 0.00 0.00 0.00 3.95
2882 14111 1.605753 GAGGAAGCGTTGAACCCTTT 58.394 50.000 0.00 0.00 0.00 3.11
2883 14112 1.266989 GAGGAAGCGTTGAACCCTTTG 59.733 52.381 0.00 0.00 0.00 2.77
2884 14113 0.313987 GGAAGCGTTGAACCCTTTGG 59.686 55.000 0.00 0.00 37.80 3.28
2893 14122 3.647771 ACCCTTTGGTCTCGGGCC 61.648 66.667 0.00 0.00 43.06 5.80
2894 14123 4.778143 CCCTTTGGTCTCGGGCCG 62.778 72.222 22.51 22.51 0.00 6.13
2895 14124 4.016706 CCTTTGGTCTCGGGCCGT 62.017 66.667 27.32 0.00 0.00 5.68
2896 14125 2.032071 CTTTGGTCTCGGGCCGTT 59.968 61.111 27.32 0.00 0.00 4.44
2897 14126 2.281208 TTTGGTCTCGGGCCGTTG 60.281 61.111 27.32 19.50 0.00 4.10
2898 14127 3.109592 TTTGGTCTCGGGCCGTTGT 62.110 57.895 27.32 0.00 0.00 3.32
2899 14128 1.756408 TTTGGTCTCGGGCCGTTGTA 61.756 55.000 27.32 5.16 0.00 2.41
2900 14129 1.546589 TTGGTCTCGGGCCGTTGTAT 61.547 55.000 27.32 0.00 0.00 2.29
2901 14130 0.683828 TGGTCTCGGGCCGTTGTATA 60.684 55.000 27.32 3.85 0.00 1.47
2902 14131 0.677842 GGTCTCGGGCCGTTGTATAT 59.322 55.000 27.32 0.00 0.00 0.86
2903 14132 1.888512 GGTCTCGGGCCGTTGTATATA 59.111 52.381 27.32 2.13 0.00 0.86
2904 14133 2.494870 GGTCTCGGGCCGTTGTATATAT 59.505 50.000 27.32 0.00 0.00 0.86
2905 14134 3.056322 GGTCTCGGGCCGTTGTATATATT 60.056 47.826 27.32 0.00 0.00 1.28
2906 14135 3.924686 GTCTCGGGCCGTTGTATATATTG 59.075 47.826 27.32 3.14 0.00 1.90
2907 14136 3.827876 TCTCGGGCCGTTGTATATATTGA 59.172 43.478 27.32 0.00 0.00 2.57
2908 14137 4.082408 TCTCGGGCCGTTGTATATATTGAG 60.082 45.833 27.32 10.96 0.00 3.02
2909 14138 3.827876 TCGGGCCGTTGTATATATTGAGA 59.172 43.478 27.32 0.00 0.00 3.27
2910 14139 4.281435 TCGGGCCGTTGTATATATTGAGAA 59.719 41.667 27.32 0.00 0.00 2.87
2911 14140 5.046878 TCGGGCCGTTGTATATATTGAGAAT 60.047 40.000 27.32 0.00 0.00 2.40
2912 14141 5.291128 CGGGCCGTTGTATATATTGAGAATC 59.709 44.000 19.97 0.00 0.00 2.52
2913 14142 6.407202 GGGCCGTTGTATATATTGAGAATCT 58.593 40.000 0.00 0.00 34.92 2.40
2914 14143 6.313905 GGGCCGTTGTATATATTGAGAATCTG 59.686 42.308 0.00 0.00 34.92 2.90
2915 14144 6.874134 GGCCGTTGTATATATTGAGAATCTGT 59.126 38.462 0.00 0.00 34.92 3.41
2916 14145 7.063544 GGCCGTTGTATATATTGAGAATCTGTC 59.936 40.741 0.00 0.00 34.92 3.51
2917 14146 7.201359 GCCGTTGTATATATTGAGAATCTGTCG 60.201 40.741 0.00 0.00 34.92 4.35
2918 14147 7.808381 CCGTTGTATATATTGAGAATCTGTCGT 59.192 37.037 0.00 0.00 34.92 4.34
2919 14148 8.630840 CGTTGTATATATTGAGAATCTGTCGTG 58.369 37.037 0.00 0.00 34.92 4.35
2920 14149 8.916654 GTTGTATATATTGAGAATCTGTCGTGG 58.083 37.037 0.00 0.00 34.92 4.94
2921 14150 7.602753 TGTATATATTGAGAATCTGTCGTGGG 58.397 38.462 0.00 0.00 34.92 4.61
2922 14151 6.672266 ATATATTGAGAATCTGTCGTGGGT 57.328 37.500 0.00 0.00 34.92 4.51
2923 14152 3.703001 ATTGAGAATCTGTCGTGGGTT 57.297 42.857 0.00 0.00 34.92 4.11
2924 14153 4.819105 ATTGAGAATCTGTCGTGGGTTA 57.181 40.909 0.00 0.00 34.92 2.85
2925 14154 3.587797 TGAGAATCTGTCGTGGGTTAC 57.412 47.619 0.00 0.00 34.92 2.50
2926 14155 2.894765 TGAGAATCTGTCGTGGGTTACA 59.105 45.455 0.00 0.00 34.92 2.41
2927 14156 3.322541 TGAGAATCTGTCGTGGGTTACAA 59.677 43.478 0.00 0.00 34.92 2.41
2928 14157 3.926616 AGAATCTGTCGTGGGTTACAAG 58.073 45.455 0.00 0.00 0.00 3.16
2929 14158 3.323979 AGAATCTGTCGTGGGTTACAAGT 59.676 43.478 0.00 0.00 0.00 3.16
2930 14159 3.764237 ATCTGTCGTGGGTTACAAGTT 57.236 42.857 0.00 0.00 0.00 2.66
2931 14160 3.547054 TCTGTCGTGGGTTACAAGTTT 57.453 42.857 0.00 0.00 0.00 2.66
2932 14161 3.199677 TCTGTCGTGGGTTACAAGTTTG 58.800 45.455 0.00 0.00 0.00 2.93
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
50 6004 4.166888 TCAGCATCAGGAGGCCGC 62.167 66.667 0.00 0.00 39.20 6.53
60 6014 0.602638 TGACACCGTTGGTCAGCATC 60.603 55.000 0.00 0.00 40.16 3.91
77 6031 5.500234 CCTGACCTTTCATATTTCTGGTGA 58.500 41.667 0.00 0.00 0.00 4.02
96 6050 0.759436 GGATCGGGTAGAAGGCCTGA 60.759 60.000 5.69 0.00 44.59 3.86
170 6136 1.906994 TTGGCCGAAGATTGCGAACG 61.907 55.000 0.00 0.00 0.00 3.95
171 6137 0.451783 ATTGGCCGAAGATTGCGAAC 59.548 50.000 0.00 0.00 0.00 3.95
177 6143 1.135527 TCGTCGTATTGGCCGAAGATT 59.864 47.619 0.00 0.00 37.78 2.40
232 6204 0.908198 GAGAGCACCTCCTTGGATGT 59.092 55.000 0.00 0.00 39.71 3.06
273 6252 1.124780 TGTCGTTGAGGAGACCCAAA 58.875 50.000 0.00 0.00 36.61 3.28
279 6258 4.503910 CATTATTGGTGTCGTTGAGGAGA 58.496 43.478 0.00 0.00 0.00 3.71
293 6272 1.066002 CGCTCTGGTTGCCATTATTGG 59.934 52.381 0.00 0.00 46.66 3.16
322 6301 2.102553 GTCTAGCTCCACGGCGAC 59.897 66.667 16.62 0.00 37.29 5.19
360 6339 1.601903 TGGTTGTTGTCGATGTCTTGC 59.398 47.619 0.00 0.00 0.00 4.01
363 6342 1.202486 ACGTGGTTGTTGTCGATGTCT 60.202 47.619 0.00 0.00 0.00 3.41
413 6392 2.434359 CGGAGAAGTGGGAACGGC 60.434 66.667 0.00 0.00 0.00 5.68
421 6400 3.317149 TCATCGTAATACCCGGAGAAGTG 59.683 47.826 0.73 0.00 0.00 3.16
422 6401 3.559069 TCATCGTAATACCCGGAGAAGT 58.441 45.455 0.73 0.00 0.00 3.01
424 6403 4.022589 GTCATCATCGTAATACCCGGAGAA 60.023 45.833 0.73 0.00 0.00 2.87
425 6404 3.504906 GTCATCATCGTAATACCCGGAGA 59.495 47.826 0.73 0.00 0.00 3.71
427 6406 3.005050 GTGTCATCATCGTAATACCCGGA 59.995 47.826 0.73 0.00 0.00 5.14
435 6414 3.382227 ACATACCGGTGTCATCATCGTAA 59.618 43.478 19.93 0.00 45.47 3.18
453 6439 5.755409 TCAGGCTTAGGTTCTGAAACATA 57.245 39.130 8.34 0.00 37.10 2.29
459 6445 3.134804 GGCTTATCAGGCTTAGGTTCTGA 59.865 47.826 0.00 0.00 42.53 3.27
492 6478 1.758280 TCGTAGTCAACCCACACTTGT 59.242 47.619 0.00 0.00 0.00 3.16
504 6490 2.739292 GTTGCAGTTCTGTCGTAGTCA 58.261 47.619 1.78 0.00 0.00 3.41
516 6502 1.148310 CCGTGATCTTCGTTGCAGTT 58.852 50.000 9.24 0.00 0.00 3.16
588 6582 2.230025 CACATCAGAGAGGTCGACTGTT 59.770 50.000 16.46 1.21 33.93 3.16
658 6652 2.658707 GGAAGTGTCGTGCGCTGAC 61.659 63.158 21.45 21.45 38.09 3.51
659 6653 2.355837 GGAAGTGTCGTGCGCTGA 60.356 61.111 9.73 3.44 38.09 4.26
661 6655 2.049063 GAGGAAGTGTCGTGCGCT 60.049 61.111 9.73 0.00 40.11 5.92
662 6656 3.112709 GGAGGAAGTGTCGTGCGC 61.113 66.667 0.00 0.00 0.00 6.09
711 6705 2.568956 CCTCAAGATGTTCAGTGGAGGA 59.431 50.000 0.00 0.00 42.32 3.71
715 6709 2.082231 CAGCCTCAAGATGTTCAGTGG 58.918 52.381 0.00 0.00 0.00 4.00
742 6736 1.135315 CCATGCGTTGGTTGATGGAAG 60.135 52.381 0.00 0.00 40.99 3.46
744 6738 2.565647 CCATGCGTTGGTTGATGGA 58.434 52.632 0.00 0.00 40.99 3.41
757 6772 0.179034 GAGATGGACAGGGACCATGC 60.179 60.000 5.94 0.00 46.48 4.06
766 6781 5.459768 CACGATCTTCATAGAGATGGACAG 58.540 45.833 4.29 0.00 36.54 3.51
777 6792 1.123077 AGGCCAGCACGATCTTCATA 58.877 50.000 5.01 0.00 0.00 2.15
828 6846 8.407064 CGCCGTCTTATAAAGATATAGATTCCT 58.593 37.037 0.00 0.00 40.18 3.36
837 6855 6.039047 ACTTGAGACGCCGTCTTATAAAGATA 59.961 38.462 22.17 0.00 43.53 1.98
867 6891 1.270414 CCCAGTCCTCATGCACCTCT 61.270 60.000 0.00 0.00 0.00 3.69
892 6916 4.003648 GAGAATCGGTTTGGACTGAATGT 58.996 43.478 0.00 0.00 44.03 2.71
894 6918 4.559862 AGAGAATCGGTTTGGACTGAAT 57.440 40.909 0.00 0.00 44.03 2.57
898 6922 4.884668 TGTAAGAGAATCGGTTTGGACT 57.115 40.909 0.00 0.00 42.67 3.85
900 6924 5.699458 GTCTTTGTAAGAGAATCGGTTTGGA 59.301 40.000 0.00 0.00 42.67 3.53
969 6993 1.133482 ACACTTCCAAAACCTCCCCTG 60.133 52.381 0.00 0.00 0.00 4.45
1080 7104 0.326264 GACCAATGCTCACCACCTCT 59.674 55.000 0.00 0.00 0.00 3.69
1114 7138 7.633621 CAGTAGCCTAACAATTGTGTGATATG 58.366 38.462 12.82 1.61 38.27 1.78
1227 7251 0.912486 ACCTCTGGGACCAACATAGC 59.088 55.000 0.00 0.00 36.25 2.97
1366 7390 2.297597 CCAAACCAAAATCGCCTAACCA 59.702 45.455 0.00 0.00 0.00 3.67
1585 7611 1.078848 GCTCAAGCACCCACTCGAT 60.079 57.895 0.00 0.00 41.59 3.59
1650 12845 0.168128 CTTCCGTGTTGAATTCCCGC 59.832 55.000 2.27 0.00 0.00 6.13
1955 13153 5.523588 AGAGAGAGAGAGAGAGAGAGAGAA 58.476 45.833 0.00 0.00 0.00 2.87
2043 13253 4.003648 AGAAAATGGACAGTTCCGACATC 58.996 43.478 0.00 0.00 46.37 3.06
2115 13330 6.095860 TCCAACCTTCAAATCTATGCATGAAG 59.904 38.462 10.16 13.49 45.22 3.02
2146 13361 2.977914 ACGACTAGTCAGCGGTACTTA 58.022 47.619 22.37 0.00 0.00 2.24
2298 13521 1.565067 AGTTACCGTCCCAGGGTTAG 58.435 55.000 5.01 0.00 37.56 2.34
2310 13533 1.068055 ACGAGCACAACCTAGTTACCG 60.068 52.381 0.00 0.00 0.00 4.02
2312 13535 3.293311 TCACGAGCACAACCTAGTTAC 57.707 47.619 0.00 0.00 0.00 2.50
2383 13606 1.667236 TGCCAGCGGACAAATATCAG 58.333 50.000 0.00 0.00 0.00 2.90
2384 13607 1.948834 CATGCCAGCGGACAAATATCA 59.051 47.619 0.00 0.00 0.00 2.15
2385 13608 1.949525 ACATGCCAGCGGACAAATATC 59.050 47.619 0.00 0.00 0.00 1.63
2386 13609 2.057137 ACATGCCAGCGGACAAATAT 57.943 45.000 0.00 0.00 0.00 1.28
2387 13610 1.832883 AACATGCCAGCGGACAAATA 58.167 45.000 0.00 0.00 0.00 1.40
2397 13620 3.981211 AGCTGTTTTTGTAACATGCCAG 58.019 40.909 0.00 0.00 0.00 4.85
2471 13700 1.478631 TCACATGCCTCGTGATCTCT 58.521 50.000 0.00 0.00 38.45 3.10
2497 13726 4.161754 AGACAAGTATTTAGGAACGGAGGG 59.838 45.833 0.00 0.00 0.00 4.30
2498 13727 5.340439 AGACAAGTATTTAGGAACGGAGG 57.660 43.478 0.00 0.00 0.00 4.30
2499 13728 7.097834 AGAAAGACAAGTATTTAGGAACGGAG 58.902 38.462 0.00 0.00 0.00 4.63
2500 13729 7.001099 AGAAAGACAAGTATTTAGGAACGGA 57.999 36.000 0.00 0.00 0.00 4.69
2501 13730 7.491696 CCTAGAAAGACAAGTATTTAGGAACGG 59.508 40.741 4.01 0.00 26.70 4.44
2502 13731 7.010275 GCCTAGAAAGACAAGTATTTAGGAACG 59.990 40.741 11.40 0.00 26.70 3.95
2503 13732 7.822822 TGCCTAGAAAGACAAGTATTTAGGAAC 59.177 37.037 11.40 0.00 26.70 3.62
2504 13733 7.913789 TGCCTAGAAAGACAAGTATTTAGGAA 58.086 34.615 11.40 1.02 26.70 3.36
2505 13734 7.490657 TGCCTAGAAAGACAAGTATTTAGGA 57.509 36.000 11.40 0.00 26.70 2.94
2506 13735 8.738645 AATGCCTAGAAAGACAAGTATTTAGG 57.261 34.615 5.26 5.26 0.00 2.69
2508 13737 9.733556 TGAAATGCCTAGAAAGACAAGTATTTA 57.266 29.630 0.00 0.00 0.00 1.40
2509 13738 8.635765 TGAAATGCCTAGAAAGACAAGTATTT 57.364 30.769 0.00 0.00 0.00 1.40
2510 13739 8.635765 TTGAAATGCCTAGAAAGACAAGTATT 57.364 30.769 0.00 0.00 0.00 1.89
2511 13740 8.635765 TTTGAAATGCCTAGAAAGACAAGTAT 57.364 30.769 0.00 0.00 0.00 2.12
2512 13741 8.514594 CATTTGAAATGCCTAGAAAGACAAGTA 58.485 33.333 4.82 0.00 0.00 2.24
2513 13742 6.959639 TTTGAAATGCCTAGAAAGACAAGT 57.040 33.333 0.00 0.00 0.00 3.16
2514 13743 7.540055 GTCATTTGAAATGCCTAGAAAGACAAG 59.460 37.037 12.86 0.00 0.00 3.16
2515 13744 7.231317 AGTCATTTGAAATGCCTAGAAAGACAA 59.769 33.333 12.86 0.00 0.00 3.18
2516 13745 6.716628 AGTCATTTGAAATGCCTAGAAAGACA 59.283 34.615 12.86 0.00 0.00 3.41
2517 13746 7.150783 AGTCATTTGAAATGCCTAGAAAGAC 57.849 36.000 12.86 3.23 0.00 3.01
2518 13747 9.113838 GATAGTCATTTGAAATGCCTAGAAAGA 57.886 33.333 13.20 0.00 0.00 2.52
2519 13748 8.896744 TGATAGTCATTTGAAATGCCTAGAAAG 58.103 33.333 13.20 0.00 0.00 2.62
2520 13749 8.677300 GTGATAGTCATTTGAAATGCCTAGAAA 58.323 33.333 13.20 0.91 0.00 2.52
2521 13750 7.828717 TGTGATAGTCATTTGAAATGCCTAGAA 59.171 33.333 13.20 2.99 0.00 2.10
2522 13751 7.337938 TGTGATAGTCATTTGAAATGCCTAGA 58.662 34.615 13.20 1.78 0.00 2.43
2523 13752 7.558161 TGTGATAGTCATTTGAAATGCCTAG 57.442 36.000 13.20 0.00 0.00 3.02
2524 13753 9.056005 GTATGTGATAGTCATTTGAAATGCCTA 57.944 33.333 10.59 10.59 0.00 3.93
2525 13754 7.254898 CGTATGTGATAGTCATTTGAAATGCCT 60.255 37.037 12.86 9.73 0.00 4.75
2526 13755 6.852853 CGTATGTGATAGTCATTTGAAATGCC 59.147 38.462 12.86 1.61 0.00 4.40
2527 13756 6.852853 CCGTATGTGATAGTCATTTGAAATGC 59.147 38.462 12.86 8.33 0.00 3.56
2528 13757 8.141835 TCCGTATGTGATAGTCATTTGAAATG 57.858 34.615 11.54 11.54 0.00 2.32
2529 13758 8.777413 CATCCGTATGTGATAGTCATTTGAAAT 58.223 33.333 0.00 0.00 0.00 2.17
2530 13759 7.768582 ACATCCGTATGTGATAGTCATTTGAAA 59.231 33.333 0.00 0.00 44.79 2.69
2531 13760 7.272244 ACATCCGTATGTGATAGTCATTTGAA 58.728 34.615 0.00 0.00 44.79 2.69
2532 13761 6.816136 ACATCCGTATGTGATAGTCATTTGA 58.184 36.000 0.00 0.00 44.79 2.69
2533 13762 8.650714 CATACATCCGTATGTGATAGTCATTTG 58.349 37.037 3.56 0.00 46.70 2.32
2534 13763 8.763049 CATACATCCGTATGTGATAGTCATTT 57.237 34.615 3.56 0.00 46.70 2.32
2548 13777 9.797642 TCTAAATTAGGTCTACATACATCCGTA 57.202 33.333 0.00 0.00 0.00 4.02
2549 13778 8.701908 TCTAAATTAGGTCTACATACATCCGT 57.298 34.615 0.00 0.00 0.00 4.69
2550 13779 8.794553 ACTCTAAATTAGGTCTACATACATCCG 58.205 37.037 0.00 0.00 0.00 4.18
2551 13780 9.915629 CACTCTAAATTAGGTCTACATACATCC 57.084 37.037 0.00 0.00 0.00 3.51
2561 13790 9.482175 AGTGAATCTACACTCTAAATTAGGTCT 57.518 33.333 0.00 0.00 46.36 3.85
2575 13804 7.390718 ACCCTTGTAAAATGAGTGAATCTACAC 59.609 37.037 0.00 0.00 40.60 2.90
2576 13805 7.390440 CACCCTTGTAAAATGAGTGAATCTACA 59.610 37.037 0.00 0.00 0.00 2.74
2577 13806 7.390718 ACACCCTTGTAAAATGAGTGAATCTAC 59.609 37.037 0.00 0.00 32.60 2.59
2578 13807 7.458397 ACACCCTTGTAAAATGAGTGAATCTA 58.542 34.615 0.00 0.00 32.60 1.98
2579 13808 6.306987 ACACCCTTGTAAAATGAGTGAATCT 58.693 36.000 0.00 0.00 32.60 2.40
2580 13809 6.575162 ACACCCTTGTAAAATGAGTGAATC 57.425 37.500 0.00 0.00 32.60 2.52
2581 13810 7.231467 ACTACACCCTTGTAAAATGAGTGAAT 58.769 34.615 0.00 0.00 37.77 2.57
2582 13811 6.597562 ACTACACCCTTGTAAAATGAGTGAA 58.402 36.000 0.00 0.00 37.77 3.18
2583 13812 6.182507 ACTACACCCTTGTAAAATGAGTGA 57.817 37.500 0.00 0.00 37.77 3.41
2584 13813 5.995282 TGACTACACCCTTGTAAAATGAGTG 59.005 40.000 0.00 0.00 37.77 3.51
2585 13814 5.995897 GTGACTACACCCTTGTAAAATGAGT 59.004 40.000 0.00 0.00 37.77 3.41
2586 13815 6.231211 AGTGACTACACCCTTGTAAAATGAG 58.769 40.000 0.00 0.00 46.99 2.90
2587 13816 6.182507 AGTGACTACACCCTTGTAAAATGA 57.817 37.500 0.00 0.00 46.99 2.57
2588 13817 6.262273 ACAAGTGACTACACCCTTGTAAAATG 59.738 38.462 2.30 0.00 46.99 2.32
2589 13818 6.362248 ACAAGTGACTACACCCTTGTAAAAT 58.638 36.000 2.30 0.00 46.99 1.82
2590 13819 5.747342 ACAAGTGACTACACCCTTGTAAAA 58.253 37.500 2.30 0.00 46.99 1.52
2591 13820 5.362105 ACAAGTGACTACACCCTTGTAAA 57.638 39.130 2.30 0.00 46.99 2.01
2592 13821 5.362105 AACAAGTGACTACACCCTTGTAA 57.638 39.130 4.51 0.00 46.99 2.41
2593 13822 6.482898 TTAACAAGTGACTACACCCTTGTA 57.517 37.500 4.51 0.00 46.99 2.41
2594 13823 3.926058 AACAAGTGACTACACCCTTGT 57.074 42.857 0.00 0.00 46.99 3.16
2595 13824 6.687081 TTTTAACAAGTGACTACACCCTTG 57.313 37.500 0.00 0.00 46.99 3.61
2596 13825 6.238925 GCATTTTAACAAGTGACTACACCCTT 60.239 38.462 0.00 0.00 46.99 3.95
2597 13826 5.240844 GCATTTTAACAAGTGACTACACCCT 59.759 40.000 0.00 0.00 46.99 4.34
2598 13827 5.458015 GCATTTTAACAAGTGACTACACCC 58.542 41.667 0.00 0.00 46.99 4.61
2599 13828 5.240844 AGGCATTTTAACAAGTGACTACACC 59.759 40.000 0.00 0.00 46.99 4.16
2600 13829 6.313744 AGGCATTTTAACAAGTGACTACAC 57.686 37.500 0.00 0.00 36.22 2.90
2601 13830 7.446769 TCTAGGCATTTTAACAAGTGACTACA 58.553 34.615 0.00 0.00 38.82 2.74
2602 13831 7.900782 TCTAGGCATTTTAACAAGTGACTAC 57.099 36.000 0.00 0.00 38.82 2.73
2603 13832 8.911918 TTTCTAGGCATTTTAACAAGTGACTA 57.088 30.769 0.00 0.00 38.82 2.59
2604 13833 7.719633 TCTTTCTAGGCATTTTAACAAGTGACT 59.280 33.333 0.00 0.00 40.91 3.41
2605 13834 7.871853 TCTTTCTAGGCATTTTAACAAGTGAC 58.128 34.615 0.00 0.00 0.00 3.67
2606 13835 8.635765 ATCTTTCTAGGCATTTTAACAAGTGA 57.364 30.769 0.00 0.00 0.00 3.41
2620 13849 9.194271 CGTTCCTAAATACTTATCTTTCTAGGC 57.806 37.037 0.00 0.00 0.00 3.93
2621 13850 9.694137 CCGTTCCTAAATACTTATCTTTCTAGG 57.306 37.037 0.00 0.00 0.00 3.02
2624 13853 8.422566 CCTCCGTTCCTAAATACTTATCTTTCT 58.577 37.037 0.00 0.00 0.00 2.52
2625 13854 7.656542 CCCTCCGTTCCTAAATACTTATCTTTC 59.343 40.741 0.00 0.00 0.00 2.62
2626 13855 7.346436 TCCCTCCGTTCCTAAATACTTATCTTT 59.654 37.037 0.00 0.00 0.00 2.52
2627 13856 6.842807 TCCCTCCGTTCCTAAATACTTATCTT 59.157 38.462 0.00 0.00 0.00 2.40
2628 13857 6.379579 TCCCTCCGTTCCTAAATACTTATCT 58.620 40.000 0.00 0.00 0.00 1.98
2629 13858 6.267242 ACTCCCTCCGTTCCTAAATACTTATC 59.733 42.308 0.00 0.00 0.00 1.75
2630 13859 6.141790 ACTCCCTCCGTTCCTAAATACTTAT 58.858 40.000 0.00 0.00 0.00 1.73
2631 13860 5.522641 ACTCCCTCCGTTCCTAAATACTTA 58.477 41.667 0.00 0.00 0.00 2.24
2632 13861 4.359996 ACTCCCTCCGTTCCTAAATACTT 58.640 43.478 0.00 0.00 0.00 2.24
2633 13862 3.991683 ACTCCCTCCGTTCCTAAATACT 58.008 45.455 0.00 0.00 0.00 2.12
2634 13863 4.892345 AGTACTCCCTCCGTTCCTAAATAC 59.108 45.833 0.00 0.00 0.00 1.89
2635 13864 5.134725 AGTACTCCCTCCGTTCCTAAATA 57.865 43.478 0.00 0.00 0.00 1.40
2636 13865 3.991683 AGTACTCCCTCCGTTCCTAAAT 58.008 45.455 0.00 0.00 0.00 1.40
2637 13866 3.463048 AGTACTCCCTCCGTTCCTAAA 57.537 47.619 0.00 0.00 0.00 1.85
2638 13867 3.011032 AGAAGTACTCCCTCCGTTCCTAA 59.989 47.826 0.00 0.00 0.00 2.69
2639 13868 2.579860 AGAAGTACTCCCTCCGTTCCTA 59.420 50.000 0.00 0.00 0.00 2.94
2640 13869 1.358445 AGAAGTACTCCCTCCGTTCCT 59.642 52.381 0.00 0.00 0.00 3.36
2641 13870 1.849977 AGAAGTACTCCCTCCGTTCC 58.150 55.000 0.00 0.00 0.00 3.62
2642 13871 3.350833 TGTAGAAGTACTCCCTCCGTTC 58.649 50.000 0.00 0.00 0.00 3.95
2643 13872 3.446442 TGTAGAAGTACTCCCTCCGTT 57.554 47.619 0.00 0.00 0.00 4.44
2644 13873 3.354467 CTTGTAGAAGTACTCCCTCCGT 58.646 50.000 0.00 0.00 0.00 4.69
2645 13874 2.688958 CCTTGTAGAAGTACTCCCTCCG 59.311 54.545 0.00 0.00 0.00 4.63
2646 13875 3.032459 CCCTTGTAGAAGTACTCCCTCC 58.968 54.545 0.00 0.00 0.00 4.30
2647 13876 3.710724 ACCCTTGTAGAAGTACTCCCTC 58.289 50.000 0.00 0.00 0.00 4.30
2648 13877 3.848978 ACCCTTGTAGAAGTACTCCCT 57.151 47.619 0.00 0.00 0.00 4.20
2649 13878 5.022122 ACTTACCCTTGTAGAAGTACTCCC 58.978 45.833 0.00 0.00 0.00 4.30
2650 13879 5.713861 TCACTTACCCTTGTAGAAGTACTCC 59.286 44.000 0.00 0.00 0.00 3.85
2651 13880 6.830873 TCACTTACCCTTGTAGAAGTACTC 57.169 41.667 0.00 0.00 0.00 2.59
2652 13881 6.295180 GCTTCACTTACCCTTGTAGAAGTACT 60.295 42.308 0.00 0.00 34.90 2.73
2653 13882 5.868258 GCTTCACTTACCCTTGTAGAAGTAC 59.132 44.000 0.00 0.00 34.90 2.73
2654 13883 5.778750 AGCTTCACTTACCCTTGTAGAAGTA 59.221 40.000 0.00 0.00 34.90 2.24
2655 13884 4.593634 AGCTTCACTTACCCTTGTAGAAGT 59.406 41.667 0.00 0.00 34.90 3.01
2656 13885 5.153950 AGCTTCACTTACCCTTGTAGAAG 57.846 43.478 0.00 0.00 35.38 2.85
2657 13886 5.562298 AAGCTTCACTTACCCTTGTAGAA 57.438 39.130 0.00 0.00 36.62 2.10
2664 13893 7.175104 TGATGAAAATAAGCTTCACTTACCCT 58.825 34.615 0.00 0.00 43.60 4.34
2673 13902 6.199937 TGCTTCCTGATGAAAATAAGCTTC 57.800 37.500 0.00 0.00 39.93 3.86
2806 14035 5.220322 CGTACAATGCATTTACAAGCTACGA 60.220 40.000 9.83 0.00 0.00 3.43
2849 14078 3.619979 CGCTTCCTCCAATCTTTACACCT 60.620 47.826 0.00 0.00 0.00 4.00
2854 14083 4.280436 TCAACGCTTCCTCCAATCTTTA 57.720 40.909 0.00 0.00 0.00 1.85
2855 14084 3.140325 TCAACGCTTCCTCCAATCTTT 57.860 42.857 0.00 0.00 0.00 2.52
2856 14085 2.814336 GTTCAACGCTTCCTCCAATCTT 59.186 45.455 0.00 0.00 0.00 2.40
2857 14086 2.427506 GTTCAACGCTTCCTCCAATCT 58.572 47.619 0.00 0.00 0.00 2.40
2858 14087 1.468914 GGTTCAACGCTTCCTCCAATC 59.531 52.381 0.00 0.00 0.00 2.67
2859 14088 1.534729 GGTTCAACGCTTCCTCCAAT 58.465 50.000 0.00 0.00 0.00 3.16
2860 14089 0.536460 GGGTTCAACGCTTCCTCCAA 60.536 55.000 0.00 0.00 0.00 3.53
2861 14090 1.072505 GGGTTCAACGCTTCCTCCA 59.927 57.895 0.00 0.00 0.00 3.86
2862 14091 0.250770 AAGGGTTCAACGCTTCCTCC 60.251 55.000 13.89 0.00 46.59 4.30
2863 14092 3.324207 AAGGGTTCAACGCTTCCTC 57.676 52.632 13.89 0.00 46.59 3.71
2878 14107 3.546714 AACGGCCCGAGACCAAAGG 62.547 63.158 11.71 0.00 0.00 3.11
2879 14108 2.032071 AACGGCCCGAGACCAAAG 59.968 61.111 11.71 0.00 0.00 2.77
2880 14109 1.756408 TACAACGGCCCGAGACCAAA 61.756 55.000 11.71 0.00 0.00 3.28
2881 14110 1.546589 ATACAACGGCCCGAGACCAA 61.547 55.000 11.71 0.00 0.00 3.67
2882 14111 0.683828 TATACAACGGCCCGAGACCA 60.684 55.000 11.71 0.00 0.00 4.02
2883 14112 0.677842 ATATACAACGGCCCGAGACC 59.322 55.000 11.71 0.00 0.00 3.85
2884 14113 3.863142 ATATATACAACGGCCCGAGAC 57.137 47.619 11.71 0.00 0.00 3.36
2885 14114 3.827876 TCAATATATACAACGGCCCGAGA 59.172 43.478 11.71 0.00 0.00 4.04
2886 14115 4.082408 TCTCAATATATACAACGGCCCGAG 60.082 45.833 11.71 4.15 0.00 4.63
2887 14116 3.827876 TCTCAATATATACAACGGCCCGA 59.172 43.478 11.71 0.00 0.00 5.14
2888 14117 4.182693 TCTCAATATATACAACGGCCCG 57.817 45.455 0.00 0.00 0.00 6.13
2889 14118 6.313905 CAGATTCTCAATATATACAACGGCCC 59.686 42.308 0.00 0.00 0.00 5.80
2890 14119 6.874134 ACAGATTCTCAATATATACAACGGCC 59.126 38.462 0.00 0.00 0.00 6.13
2891 14120 7.201359 CGACAGATTCTCAATATATACAACGGC 60.201 40.741 0.00 0.00 0.00 5.68
2892 14121 7.808381 ACGACAGATTCTCAATATATACAACGG 59.192 37.037 0.00 0.00 0.00 4.44
2893 14122 8.630840 CACGACAGATTCTCAATATATACAACG 58.369 37.037 0.00 0.00 0.00 4.10
2894 14123 8.916654 CCACGACAGATTCTCAATATATACAAC 58.083 37.037 0.00 0.00 0.00 3.32
2895 14124 8.088365 CCCACGACAGATTCTCAATATATACAA 58.912 37.037 0.00 0.00 0.00 2.41
2896 14125 7.232737 ACCCACGACAGATTCTCAATATATACA 59.767 37.037 0.00 0.00 0.00 2.29
2897 14126 7.603651 ACCCACGACAGATTCTCAATATATAC 58.396 38.462 0.00 0.00 0.00 1.47
2898 14127 7.776618 ACCCACGACAGATTCTCAATATATA 57.223 36.000 0.00 0.00 0.00 0.86
2899 14128 6.672266 ACCCACGACAGATTCTCAATATAT 57.328 37.500 0.00 0.00 0.00 0.86
2900 14129 6.479972 AACCCACGACAGATTCTCAATATA 57.520 37.500 0.00 0.00 0.00 0.86
2901 14130 5.359194 AACCCACGACAGATTCTCAATAT 57.641 39.130 0.00 0.00 0.00 1.28
2902 14131 4.819105 AACCCACGACAGATTCTCAATA 57.181 40.909 0.00 0.00 0.00 1.90
2903 14132 3.703001 AACCCACGACAGATTCTCAAT 57.297 42.857 0.00 0.00 0.00 2.57
2904 14133 3.322541 TGTAACCCACGACAGATTCTCAA 59.677 43.478 0.00 0.00 0.00 3.02
2905 14134 2.894765 TGTAACCCACGACAGATTCTCA 59.105 45.455 0.00 0.00 0.00 3.27
2906 14135 3.587797 TGTAACCCACGACAGATTCTC 57.412 47.619 0.00 0.00 0.00 2.87
2907 14136 3.323979 ACTTGTAACCCACGACAGATTCT 59.676 43.478 0.00 0.00 0.00 2.40
2908 14137 3.660865 ACTTGTAACCCACGACAGATTC 58.339 45.455 0.00 0.00 0.00 2.52
2909 14138 3.764237 ACTTGTAACCCACGACAGATT 57.236 42.857 0.00 0.00 0.00 2.40
2910 14139 3.764237 AACTTGTAACCCACGACAGAT 57.236 42.857 0.00 0.00 0.00 2.90
2911 14140 3.199677 CAAACTTGTAACCCACGACAGA 58.800 45.455 0.00 0.00 0.00 3.41
2912 14141 3.602390 CAAACTTGTAACCCACGACAG 57.398 47.619 0.00 0.00 0.00 3.51


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

AutoCloner maintained by Alex Coulton.