Multiple sequence alignment - TraesCS5D01G046700

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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 TraesCS5D01G046700 chr5D 100.000 2999 0 0 1 2999 45264233 45261235 0.000000e+00 5539.0
1 TraesCS5D01G046700 chr5D 89.753 566 39 9 569 1126 45361334 45360780 0.000000e+00 706.0
2 TraesCS5D01G046700 chr5D 81.328 798 111 21 1135 1910 45360291 45359510 5.490000e-172 614.0
3 TraesCS5D01G046700 chr5D 90.692 419 24 5 714 1126 45345543 45345134 7.310000e-151 544.0
4 TraesCS5D01G046700 chr5D 91.339 381 30 1 1089 1469 45344508 45344131 4.430000e-143 518.0
5 TraesCS5D01G046700 chr5D 81.195 686 85 22 1135 1798 45367014 45366351 2.060000e-141 512.0
6 TraesCS5D01G046700 chr5D 87.009 331 40 1 1232 1562 45373610 45373283 1.310000e-98 370.0
7 TraesCS5D01G046700 chr5D 85.047 321 21 12 153 449 45346456 45346139 4.860000e-78 302.0
8 TraesCS5D01G046700 chr5D 87.273 275 21 7 209 476 45361758 45361491 4.860000e-78 302.0
9 TraesCS5D01G046700 chr5D 81.877 309 42 5 1603 1910 45366249 45365954 6.420000e-62 248.0
10 TraesCS5D01G046700 chr5D 91.477 176 5 3 1892 2057 45343525 45343350 1.800000e-57 233.0
11 TraesCS5D01G046700 chr5D 96.040 101 4 0 1892 1992 45366032 45365932 6.650000e-37 165.0
12 TraesCS5D01G046700 chr5D 94.937 79 4 0 1832 1910 45262342 45262264 1.130000e-24 124.0
13 TraesCS5D01G046700 chr5D 94.937 79 4 0 1892 1970 45262402 45262324 1.130000e-24 124.0
14 TraesCS5D01G046700 chr5D 94.545 55 2 1 516 569 220694072 220694018 1.920000e-12 84.2
15 TraesCS5D01G046700 chr5D 94.643 56 0 3 515 569 426250444 426250497 1.920000e-12 84.2
16 TraesCS5D01G046700 chr5D 97.436 39 0 1 209 247 45281466 45281429 6.940000e-07 65.8
17 TraesCS5D01G046700 chr5D 100.000 33 0 0 1603 1635 45344969 45344937 8.980000e-06 62.1
18 TraesCS5D01G046700 chr5A 95.180 1473 34 6 1094 2557 36254704 36253260 0.000000e+00 2292.0
19 TraesCS5D01G046700 chr5A 98.284 408 5 1 2592 2999 36252835 36252430 0.000000e+00 713.0
20 TraesCS5D01G046700 chr5A 89.485 447 27 6 672 1114 36255189 36254759 5.650000e-152 547.0
21 TraesCS5D01G046700 chr5A 81.618 680 91 14 1136 1798 36326238 36325576 1.580000e-147 532.0
22 TraesCS5D01G046700 chr5A 91.339 381 30 1 1089 1469 36289060 36288683 4.430000e-143 518.0
23 TraesCS5D01G046700 chr5A 88.732 426 25 9 714 1126 36290110 36289695 1.610000e-137 499.0
24 TraesCS5D01G046700 chr5A 87.674 430 46 5 1135 1562 36320604 36320180 7.470000e-136 494.0
25 TraesCS5D01G046700 chr5A 91.843 331 24 3 797 1126 36321421 36321093 2.720000e-125 459.0
26 TraesCS5D01G046700 chr5A 90.496 242 14 5 209 449 36322049 36321816 8.070000e-81 311.0
27 TraesCS5D01G046700 chr5A 87.168 226 11 10 180 388 36290944 36290720 1.070000e-59 241.0
28 TraesCS5D01G046700 chr5A 81.230 309 44 5 1603 1910 36288294 36287999 1.390000e-58 237.0
29 TraesCS5D01G046700 chr5A 81.230 309 44 5 1603 1910 36325474 36325179 1.390000e-58 237.0
30 TraesCS5D01G046700 chr5A 91.477 176 6 3 1890 2057 36288079 36287905 1.800000e-57 233.0
31 TraesCS5D01G046700 chr5A 88.636 176 16 3 569 740 36321604 36321429 8.420000e-51 211.0
32 TraesCS5D01G046700 chr5A 97.030 101 3 0 1892 1992 36325257 36325157 1.430000e-38 171.0
33 TraesCS5D01G046700 chr5A 81.982 222 16 11 272 474 36255835 36255619 1.850000e-37 167.0
34 TraesCS5D01G046700 chr5A 80.702 228 32 3 1571 1798 36320126 36319911 1.850000e-37 167.0
35 TraesCS5D01G046700 chr5A 88.618 123 14 0 1778 1900 36319493 36319371 1.860000e-32 150.0
36 TraesCS5D01G046700 chr5A 93.671 79 5 0 1832 1910 36253897 36253819 5.250000e-23 119.0
37 TraesCS5D01G046700 chr5A 97.101 69 2 0 1892 1960 36253957 36253889 1.890000e-22 117.0
38 TraesCS5D01G046700 chr5A 94.643 56 0 3 515 569 155735555 155735608 1.920000e-12 84.2
39 TraesCS5D01G046700 chr5A 78.095 105 19 4 1603 1705 36289521 36289419 2.500000e-06 63.9
40 TraesCS5D01G046700 chr5B 95.032 624 19 3 1296 1910 45246066 45245446 0.000000e+00 970.0
41 TraesCS5D01G046700 chr5B 87.135 684 49 14 1892 2557 45245524 45244862 0.000000e+00 739.0
42 TraesCS5D01G046700 chr5B 81.853 788 105 22 1135 1900 45358364 45357593 1.960000e-176 628.0
43 TraesCS5D01G046700 chr5B 93.882 425 7 3 829 1246 45246482 45246070 9.130000e-175 623.0
44 TraesCS5D01G046700 chr5B 90.524 401 32 6 49 447 45246909 45246513 2.650000e-145 525.0
45 TraesCS5D01G046700 chr5B 81.314 685 91 22 1133 1798 45386456 45385790 3.430000e-144 521.0
46 TraesCS5D01G046700 chr5B 90.634 331 24 4 797 1126 45359177 45358853 1.650000e-117 433.0
47 TraesCS5D01G046700 chr5B 89.212 241 13 3 714 950 45270903 45270672 3.780000e-74 289.0
48 TraesCS5D01G046700 chr5B 81.877 309 42 5 1603 1910 45385688 45385393 6.420000e-62 248.0
49 TraesCS5D01G046700 chr5B 87.264 212 21 5 2557 2763 45244826 45244616 1.390000e-58 237.0
50 TraesCS5D01G046700 chr5B 89.205 176 14 4 569 740 45359359 45359185 6.510000e-52 215.0
51 TraesCS5D01G046700 chr5B 98.020 101 2 0 1892 1992 45385471 45385371 3.070000e-40 176.0
52 TraesCS5D01G046700 chr5B 85.271 129 9 3 170 289 45360053 45359926 1.130000e-24 124.0
53 TraesCS5D01G046700 chr5B 82.432 148 10 9 334 476 45359925 45359789 6.790000e-22 115.0
54 TraesCS5D01G046700 chr5B 94.915 59 2 1 512 569 705084035 705083977 1.140000e-14 91.6
55 TraesCS5D01G046700 chr5B 92.683 41 3 0 569 609 45271850 45271810 3.230000e-05 60.2
56 TraesCS5D01G046700 chr7A 91.570 344 20 3 573 909 520160289 520159948 1.630000e-127 466.0
57 TraesCS5D01G046700 chr7A 90.076 131 3 4 325 447 520160443 520160315 8.600000e-36 161.0
58 TraesCS5D01G046700 chr7A 94.643 56 0 3 515 569 534333511 534333564 1.920000e-12 84.2
59 TraesCS5D01G046700 chr7A 93.750 48 2 1 473 519 80081399 80081352 1.490000e-08 71.3
60 TraesCS5D01G046700 chr4A 91.463 82 2 4 847 923 526608076 526608157 1.140000e-19 108.0
61 TraesCS5D01G046700 chr4A 94.737 57 0 3 515 570 253682186 253682240 5.330000e-13 86.1
62 TraesCS5D01G046700 chr7B 93.103 58 2 2 514 569 487811872 487811815 1.920000e-12 84.2
63 TraesCS5D01G046700 chr7B 95.455 44 2 0 481 524 708958922 708958879 1.490000e-08 71.3
64 TraesCS5D01G046700 chr7B 85.938 64 6 2 461 521 119736306 119736369 6.940000e-07 65.8
65 TraesCS5D01G046700 chr1D 87.013 77 3 5 497 569 31301608 31301681 2.480000e-11 80.5
66 TraesCS5D01G046700 chr1D 97.561 41 1 0 481 521 16503726 16503766 1.490000e-08 71.3
67 TraesCS5D01G046700 chr1B 85.897 78 4 2 492 569 426463928 426463858 3.210000e-10 76.8
68 TraesCS5D01G046700 chr6A 97.561 41 1 0 481 521 613831892 613831852 1.490000e-08 71.3
69 TraesCS5D01G046700 chr4D 97.561 41 1 0 481 521 28554587 28554627 1.490000e-08 71.3
70 TraesCS5D01G046700 chr3A 93.750 48 1 2 481 527 109150922 109150968 1.490000e-08 71.3
71 TraesCS5D01G046700 chr2B 100.000 28 0 0 2793 2820 425644016 425643989 5.000000e-03 52.8
72 TraesCS5D01G046700 chr1A 100.000 28 0 0 2793 2820 174008446 174008419 5.000000e-03 52.8
73 TraesCS5D01G046700 chr1A 100.000 28 0 0 2793 2820 174040744 174040717 5.000000e-03 52.8


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 TraesCS5D01G046700 chr5D 45261235 45264233 2998 True 1929.000000 5539 96.624667 1 2999 3 chr5D.!!$R4 2998
1 TraesCS5D01G046700 chr5D 45359510 45361758 2248 True 540.666667 706 86.118000 209 1910 3 chr5D.!!$R6 1701
2 TraesCS5D01G046700 chr5D 45343350 45346456 3106 True 331.820000 544 91.711000 153 2057 5 chr5D.!!$R5 1904
3 TraesCS5D01G046700 chr5D 45365932 45367014 1082 True 308.333333 512 86.370667 1135 1992 3 chr5D.!!$R7 857
4 TraesCS5D01G046700 chr5A 36252430 36255835 3405 True 659.166667 2292 92.617167 272 2999 6 chr5A.!!$R1 2727
5 TraesCS5D01G046700 chr5A 36319371 36326238 6867 True 303.555556 532 87.538556 209 1992 9 chr5A.!!$R3 1783
6 TraesCS5D01G046700 chr5A 36287905 36290944 3039 True 298.650000 518 86.340167 180 2057 6 chr5A.!!$R2 1877
7 TraesCS5D01G046700 chr5B 45244616 45246909 2293 True 618.800000 970 90.767400 49 2763 5 chr5B.!!$R2 2714
8 TraesCS5D01G046700 chr5B 45385371 45386456 1085 True 315.000000 521 87.070333 1133 1992 3 chr5B.!!$R5 859
9 TraesCS5D01G046700 chr5B 45357593 45360053 2460 True 303.000000 628 85.879000 170 1900 5 chr5B.!!$R4 1730

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
21 22 0.036294 CTCCAAACTCCCGTTCCCTC 60.036 60.0 0.0 0.0 31.66 4.30 F
25 26 0.178900 AAACTCCCGTTCCCTCTCCT 60.179 55.0 0.0 0.0 31.66 3.69 F
480 4764 0.178998 TCGAATACTCCCTCCCTCCG 60.179 60.0 0.0 0.0 0.00 4.63 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1908 8948 0.249489 ACACTCGTGTTGGACAGCTC 60.249 55.000 0.0 0.0 41.83 4.09 R
1909 8949 1.823295 ACACTCGTGTTGGACAGCT 59.177 52.632 0.0 0.0 41.83 4.24 R
2279 9397 1.478510 ACCATCAAGCACCGAGTCTAG 59.521 52.381 0.0 0.0 0.00 2.43 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
18 19 3.228499 GTCTCCAAACTCCCGTTCC 57.772 57.895 0.00 0.00 31.66 3.62
20 21 0.473117 TCTCCAAACTCCCGTTCCCT 60.473 55.000 0.00 0.00 31.66 4.20
21 22 0.036294 CTCCAAACTCCCGTTCCCTC 60.036 60.000 0.00 0.00 31.66 4.30
24 25 0.036294 CAAACTCCCGTTCCCTCTCC 60.036 60.000 0.00 0.00 31.66 3.71
25 26 0.178900 AAACTCCCGTTCCCTCTCCT 60.179 55.000 0.00 0.00 31.66 3.69
26 27 0.905337 AACTCCCGTTCCCTCTCCTG 60.905 60.000 0.00 0.00 0.00 3.86
28 29 1.305046 TCCCGTTCCCTCTCCTGTC 60.305 63.158 0.00 0.00 0.00 3.51
29 30 2.711922 CCCGTTCCCTCTCCTGTCG 61.712 68.421 0.00 0.00 0.00 4.35
32 33 1.171308 CGTTCCCTCTCCTGTCGTTA 58.829 55.000 0.00 0.00 0.00 3.18
33 34 1.135460 CGTTCCCTCTCCTGTCGTTAC 60.135 57.143 0.00 0.00 0.00 2.50
34 35 1.204231 GTTCCCTCTCCTGTCGTTACC 59.796 57.143 0.00 0.00 0.00 2.85
35 36 0.406750 TCCCTCTCCTGTCGTTACCA 59.593 55.000 0.00 0.00 0.00 3.25
36 37 1.203087 TCCCTCTCCTGTCGTTACCAA 60.203 52.381 0.00 0.00 0.00 3.67
37 38 1.621814 CCCTCTCCTGTCGTTACCAAA 59.378 52.381 0.00 0.00 0.00 3.28
38 39 2.612221 CCCTCTCCTGTCGTTACCAAAC 60.612 54.545 0.00 0.00 0.00 2.93
39 40 2.036733 CCTCTCCTGTCGTTACCAAACA 59.963 50.000 0.00 0.00 35.16 2.83
40 41 3.057734 CTCTCCTGTCGTTACCAAACAC 58.942 50.000 0.00 0.00 35.16 3.32
41 42 1.790623 CTCCTGTCGTTACCAAACACG 59.209 52.381 0.00 0.00 35.16 4.49
42 43 0.233848 CCTGTCGTTACCAAACACGC 59.766 55.000 0.00 0.00 36.32 5.34
43 44 1.214367 CTGTCGTTACCAAACACGCT 58.786 50.000 0.00 0.00 36.32 5.07
44 45 0.931702 TGTCGTTACCAAACACGCTG 59.068 50.000 0.00 0.00 36.32 5.18
45 46 0.932399 GTCGTTACCAAACACGCTGT 59.068 50.000 0.00 0.00 36.32 4.40
47 48 2.097250 GTCGTTACCAAACACGCTGTAC 60.097 50.000 0.00 0.00 36.32 2.90
63 64 4.628333 CGCTGTACGGATAAAGAAAAGGAA 59.372 41.667 5.68 0.00 38.44 3.36
64 65 5.445540 CGCTGTACGGATAAAGAAAAGGAAC 60.446 44.000 5.68 0.00 38.44 3.62
82 83 2.604046 ACGAAGCGATATTGAAGCCT 57.396 45.000 0.00 0.00 0.00 4.58
93 94 6.144724 GCGATATTGAAGCCTAGTTTACTCTG 59.855 42.308 0.00 0.00 0.00 3.35
96 97 4.803098 TGAAGCCTAGTTTACTCTGACC 57.197 45.455 0.00 0.00 0.00 4.02
150 151 3.861263 GCGCCGCCGGTTCTTAAG 61.861 66.667 4.45 0.00 34.32 1.85
166 168 0.475044 TAAGCCCGTTTGTTGACCCT 59.525 50.000 0.00 0.00 0.00 4.34
215 217 1.494960 GTCTCCCTTCTCCTGCTCAT 58.505 55.000 0.00 0.00 0.00 2.90
251 4237 2.952310 CTCACCGTGGATCTCACTCATA 59.048 50.000 11.12 0.00 43.94 2.15
289 4275 2.029623 CCCTTCCGTTTAGATCCTCGA 58.970 52.381 0.00 0.00 0.00 4.04
323 4311 0.725784 CTGATTTGGTGCGTGCGTTC 60.726 55.000 0.00 0.00 0.00 3.95
454 4736 4.006319 AGCCACTTCTTCTTCTTATGCAC 58.994 43.478 0.00 0.00 0.00 4.57
463 4745 7.936950 TCTTCTTCTTATGCACATCTTATCG 57.063 36.000 0.00 0.00 0.00 2.92
476 4760 4.773149 ACATCTTATCGAATACTCCCTCCC 59.227 45.833 0.00 0.00 0.00 4.30
480 4764 0.178998 TCGAATACTCCCTCCCTCCG 60.179 60.000 0.00 0.00 0.00 4.63
481 4765 0.467659 CGAATACTCCCTCCCTCCGT 60.468 60.000 0.00 0.00 0.00 4.69
483 4767 2.554785 CGAATACTCCCTCCCTCCGTAT 60.555 54.545 0.00 0.00 0.00 3.06
484 4768 3.307975 CGAATACTCCCTCCCTCCGTATA 60.308 52.174 0.00 0.00 0.00 1.47
488 4772 2.246849 ACTCCCTCCCTCCGTATAAAGT 59.753 50.000 0.00 0.00 0.00 2.66
496 4806 4.159135 TCCCTCCGTATAAAGTTGAGACAC 59.841 45.833 0.00 0.00 0.00 3.67
503 5051 9.715121 TCCGTATAAAGTTGAGACACTTATTTT 57.285 29.630 0.00 0.00 35.87 1.82
520 5068 2.715763 TTTGGGACAGAGGGAGTACT 57.284 50.000 0.00 0.00 42.39 2.73
527 5075 4.198530 GGACAGAGGGAGTACTGTACTAC 58.801 52.174 19.80 19.80 45.54 2.73
528 5076 4.080413 GGACAGAGGGAGTACTGTACTACT 60.080 50.000 25.19 21.80 45.54 2.57
529 5077 5.101648 ACAGAGGGAGTACTGTACTACTC 57.898 47.826 27.71 27.71 44.06 2.59
535 5083 4.135747 GAGTACTGTACTACTCCTCCGT 57.864 50.000 19.73 0.00 39.59 4.69
536 5084 4.119136 GAGTACTGTACTACTCCTCCGTC 58.881 52.174 19.73 1.17 39.59 4.79
537 5085 2.416680 ACTGTACTACTCCTCCGTCC 57.583 55.000 0.00 0.00 0.00 4.79
538 5086 1.064832 ACTGTACTACTCCTCCGTCCC 60.065 57.143 0.00 0.00 0.00 4.46
539 5087 0.994247 TGTACTACTCCTCCGTCCCA 59.006 55.000 0.00 0.00 0.00 4.37
540 5088 1.567649 TGTACTACTCCTCCGTCCCAT 59.432 52.381 0.00 0.00 0.00 4.00
541 5089 2.779430 TGTACTACTCCTCCGTCCCATA 59.221 50.000 0.00 0.00 0.00 2.74
542 5090 3.202818 TGTACTACTCCTCCGTCCCATAA 59.797 47.826 0.00 0.00 0.00 1.90
543 5091 3.614568 ACTACTCCTCCGTCCCATAAT 57.385 47.619 0.00 0.00 0.00 1.28
544 5092 4.736611 ACTACTCCTCCGTCCCATAATA 57.263 45.455 0.00 0.00 0.00 0.98
545 5093 5.272405 ACTACTCCTCCGTCCCATAATAT 57.728 43.478 0.00 0.00 0.00 1.28
546 5094 6.398655 ACTACTCCTCCGTCCCATAATATA 57.601 41.667 0.00 0.00 0.00 0.86
547 5095 6.797707 ACTACTCCTCCGTCCCATAATATAA 58.202 40.000 0.00 0.00 0.00 0.98
548 5096 6.890814 ACTACTCCTCCGTCCCATAATATAAG 59.109 42.308 0.00 0.00 0.00 1.73
549 5097 5.900437 ACTCCTCCGTCCCATAATATAAGA 58.100 41.667 0.00 0.00 0.00 2.10
550 5098 6.320518 ACTCCTCCGTCCCATAATATAAGAA 58.679 40.000 0.00 0.00 0.00 2.52
551 5099 6.210984 ACTCCTCCGTCCCATAATATAAGAAC 59.789 42.308 0.00 0.00 0.00 3.01
552 5100 5.184479 TCCTCCGTCCCATAATATAAGAACG 59.816 44.000 0.00 0.00 0.00 3.95
553 5101 5.047519 CCTCCGTCCCATAATATAAGAACGT 60.048 44.000 0.00 0.00 0.00 3.99
554 5102 6.409524 TCCGTCCCATAATATAAGAACGTT 57.590 37.500 0.00 0.00 0.00 3.99
555 5103 6.819284 TCCGTCCCATAATATAAGAACGTTT 58.181 36.000 0.46 0.00 0.00 3.60
556 5104 7.274447 TCCGTCCCATAATATAAGAACGTTTT 58.726 34.615 0.46 0.00 0.00 2.43
557 5105 7.769970 TCCGTCCCATAATATAAGAACGTTTTT 59.230 33.333 9.22 9.22 0.00 1.94
558 5106 7.853929 CCGTCCCATAATATAAGAACGTTTTTG 59.146 37.037 13.87 0.00 0.00 2.44
559 5107 8.605746 CGTCCCATAATATAAGAACGTTTTTGA 58.394 33.333 13.87 2.81 0.00 2.69
560 5108 9.712359 GTCCCATAATATAAGAACGTTTTTGAC 57.288 33.333 13.87 5.89 0.00 3.18
561 5109 9.451002 TCCCATAATATAAGAACGTTTTTGACA 57.549 29.630 13.87 0.01 0.00 3.58
562 5110 9.498307 CCCATAATATAAGAACGTTTTTGACAC 57.502 33.333 13.87 0.00 0.00 3.67
596 5144 0.879765 AGCAATTGACTGCAGCTCAC 59.120 50.000 15.27 3.72 45.18 3.51
741 5576 7.605691 CCTCTCTTCACATGTTAGATTTTCAGT 59.394 37.037 0.00 0.00 0.00 3.41
742 5577 8.908786 TCTCTTCACATGTTAGATTTTCAGTT 57.091 30.769 0.00 0.00 0.00 3.16
743 5578 9.342308 TCTCTTCACATGTTAGATTTTCAGTTT 57.658 29.630 0.00 0.00 0.00 2.66
744 5579 9.956720 CTCTTCACATGTTAGATTTTCAGTTTT 57.043 29.630 0.00 0.00 0.00 2.43
748 5583 9.515020 TCACATGTTAGATTTTCAGTTTTTCAC 57.485 29.630 0.00 0.00 0.00 3.18
897 5753 6.483307 GGCTATATTCTGTTGCATCTACACAA 59.517 38.462 0.00 0.00 0.00 3.33
968 5825 2.472695 TGTCTCATGTTTTCCCCTCG 57.527 50.000 0.00 0.00 0.00 4.63
1230 7313 4.792068 TCAAGGATCAGGAACACAAAGTT 58.208 39.130 0.00 0.00 44.93 2.66
1293 7376 1.024271 GTTGCCAGCAGAACAAGTCA 58.976 50.000 0.00 0.00 0.00 3.41
1294 7377 1.024271 TTGCCAGCAGAACAAGTCAC 58.976 50.000 0.00 0.00 0.00 3.67
1510 7632 3.944650 TCAGGATCAGAGAGAGAACTTCG 59.055 47.826 0.00 0.00 0.00 3.79
1586 7753 0.913934 TGCAGTCCAATAGCCAGGGA 60.914 55.000 0.00 0.00 0.00 4.20
1676 7843 8.051535 TCCTCAGAAAAGAAGATCAATATTGCT 58.948 33.333 10.76 0.29 0.00 3.91
1836 8876 0.324943 TTAGCTGTGGTCAGGAAGGC 59.675 55.000 0.00 0.00 41.57 4.35
1859 8899 2.360475 GGCCAGGAGCTGTCCAAC 60.360 66.667 0.00 0.00 46.80 3.77
1860 8900 2.431683 GCCAGGAGCTGTCCAACA 59.568 61.111 0.00 0.00 46.80 3.33
1861 8901 1.968540 GCCAGGAGCTGTCCAACAC 60.969 63.158 0.00 0.00 46.80 3.32
1862 8902 1.669115 CCAGGAGCTGTCCAACACG 60.669 63.158 0.00 0.00 46.80 4.49
1863 8903 1.367471 CAGGAGCTGTCCAACACGA 59.633 57.895 0.00 0.00 46.80 4.35
1864 8904 0.668706 CAGGAGCTGTCCAACACGAG 60.669 60.000 0.00 0.00 46.80 4.18
1865 8905 1.115930 AGGAGCTGTCCAACACGAGT 61.116 55.000 0.00 0.00 46.80 4.18
1866 8906 0.946221 GGAGCTGTCCAACACGAGTG 60.946 60.000 0.00 1.13 43.31 3.51
1867 8907 3.563301 GGAGCTGTCCAACACGAGTGT 62.563 57.143 2.62 2.62 43.31 3.55
1879 8919 4.465632 ACACGAGTGTTTATATGCTCCA 57.534 40.909 2.62 0.00 41.83 3.86
1880 8920 5.023533 ACACGAGTGTTTATATGCTCCAT 57.976 39.130 2.62 0.00 41.83 3.41
1881 8921 6.156748 ACACGAGTGTTTATATGCTCCATA 57.843 37.500 2.62 0.00 41.83 2.74
1882 8922 6.759272 ACACGAGTGTTTATATGCTCCATAT 58.241 36.000 2.62 3.52 41.83 1.78
1883 8923 6.646653 ACACGAGTGTTTATATGCTCCATATG 59.353 38.462 2.62 0.00 41.83 1.78
1884 8924 5.639506 ACGAGTGTTTATATGCTCCATATGC 59.360 40.000 7.74 0.00 37.57 3.14
1885 8925 5.639082 CGAGTGTTTATATGCTCCATATGCA 59.361 40.000 7.74 0.00 44.95 3.96
1886 8926 6.147656 CGAGTGTTTATATGCTCCATATGCAA 59.852 38.462 7.74 0.00 44.01 4.08
1887 8927 7.148356 CGAGTGTTTATATGCTCCATATGCAAT 60.148 37.037 7.74 4.37 44.01 3.56
1888 8928 7.823665 AGTGTTTATATGCTCCATATGCAATG 58.176 34.615 7.74 0.00 44.01 2.82
1889 8929 7.666804 AGTGTTTATATGCTCCATATGCAATGA 59.333 33.333 7.74 0.00 44.01 2.57
1890 8930 8.298854 GTGTTTATATGCTCCATATGCAATGAA 58.701 33.333 7.74 0.00 44.01 2.57
1891 8931 8.517056 TGTTTATATGCTCCATATGCAATGAAG 58.483 33.333 7.74 1.76 44.01 3.02
1892 8932 8.733458 GTTTATATGCTCCATATGCAATGAAGA 58.267 33.333 7.74 1.19 44.01 2.87
1893 8933 8.866970 TTATATGCTCCATATGCAATGAAGAA 57.133 30.769 7.74 0.00 44.01 2.52
1894 8934 5.707242 ATGCTCCATATGCAATGAAGAAG 57.293 39.130 9.56 4.46 44.01 2.85
1895 8935 3.887110 TGCTCCATATGCAATGAAGAAGG 59.113 43.478 9.56 0.00 37.51 3.46
1896 8936 3.305199 GCTCCATATGCAATGAAGAAGGC 60.305 47.826 9.56 0.00 0.00 4.35
1897 8937 3.225104 TCCATATGCAATGAAGAAGGCC 58.775 45.455 0.00 0.00 0.00 5.19
1898 8938 2.960384 CCATATGCAATGAAGAAGGCCA 59.040 45.455 5.01 0.00 0.00 5.36
1899 8939 3.243636 CCATATGCAATGAAGAAGGCCAC 60.244 47.826 5.01 0.00 0.00 5.01
1900 8940 1.927487 ATGCAATGAAGAAGGCCACA 58.073 45.000 5.01 0.00 0.00 4.17
1901 8941 1.250328 TGCAATGAAGAAGGCCACAG 58.750 50.000 5.01 0.00 0.00 3.66
1902 8942 0.529378 GCAATGAAGAAGGCCACAGG 59.471 55.000 5.01 0.00 0.00 4.00
1903 8943 1.180029 CAATGAAGAAGGCCACAGGG 58.820 55.000 5.01 0.00 37.18 4.45
1913 8953 4.421515 CCACAGGGCCAGGAGCTG 62.422 72.222 6.18 4.50 43.05 4.24
1914 8954 3.644606 CACAGGGCCAGGAGCTGT 61.645 66.667 6.18 5.27 43.05 4.40
1915 8955 3.325753 ACAGGGCCAGGAGCTGTC 61.326 66.667 6.18 0.00 43.05 3.51
1916 8956 4.106925 CAGGGCCAGGAGCTGTCC 62.107 72.222 6.18 0.00 44.33 4.02
1917 8957 4.664267 AGGGCCAGGAGCTGTCCA 62.664 66.667 6.18 0.00 46.80 4.02
1918 8958 3.650950 GGGCCAGGAGCTGTCCAA 61.651 66.667 4.39 0.00 46.80 3.53
2036 9144 5.614668 CGGTTAAGCAAACAGTGATACACAG 60.615 44.000 5.38 0.00 40.08 3.66
2075 9186 6.373495 ACATTTTTCTTACGGGTGATCTAACC 59.627 38.462 0.00 0.00 39.71 2.85
2076 9187 5.750352 TTTTCTTACGGGTGATCTAACCT 57.250 39.130 2.49 0.00 40.35 3.50
2078 9189 6.461110 TTTCTTACGGGTGATCTAACCTAG 57.539 41.667 2.49 0.80 40.35 3.02
2079 9190 5.378230 TCTTACGGGTGATCTAACCTAGA 57.622 43.478 2.49 0.00 40.35 2.43
2080 9191 5.759059 TCTTACGGGTGATCTAACCTAGAA 58.241 41.667 2.49 0.00 40.35 2.10
2081 9192 6.371278 TCTTACGGGTGATCTAACCTAGAAT 58.629 40.000 2.49 0.00 40.35 2.40
2082 9193 6.837568 TCTTACGGGTGATCTAACCTAGAATT 59.162 38.462 2.49 0.00 40.35 2.17
2323 9443 2.471743 GTCGACGGAAGCATTATAGCAC 59.528 50.000 0.00 0.00 36.85 4.40
2557 9677 5.000591 TGTCGTTCTTGCCAGAAATTCATA 58.999 37.500 1.10 0.00 40.90 2.15
2558 9678 5.647658 TGTCGTTCTTGCCAGAAATTCATAT 59.352 36.000 1.10 0.00 40.90 1.78
2560 9680 6.470235 GTCGTTCTTGCCAGAAATTCATATTG 59.530 38.462 1.10 0.00 40.90 1.90
2561 9681 6.150976 TCGTTCTTGCCAGAAATTCATATTGT 59.849 34.615 1.10 0.00 40.90 2.71
2562 9682 7.335673 TCGTTCTTGCCAGAAATTCATATTGTA 59.664 33.333 1.10 0.00 40.90 2.41
2564 9684 7.333528 TCTTGCCAGAAATTCATATTGTACC 57.666 36.000 0.00 0.00 0.00 3.34
2570 9729 9.289782 GCCAGAAATTCATATTGTACCTCTTAT 57.710 33.333 0.00 0.00 0.00 1.73
2587 9746 8.102484 ACCTCTTATTAATGATGTAACCCTGT 57.898 34.615 0.00 0.00 0.00 4.00
2589 9748 9.408648 CCTCTTATTAATGATGTAACCCTGTTT 57.591 33.333 0.00 0.00 0.00 2.83
2737 10249 7.924940 AGAAAGCAAAAGACTAGACAGAAAAG 58.075 34.615 0.00 0.00 0.00 2.27
2911 10423 1.002087 GTGTCCACCGGAGATCTGTTT 59.998 52.381 9.46 0.00 29.39 2.83
2995 10507 7.396339 GGGAATCAGGGTTCTATAAACAAAACT 59.604 37.037 0.00 0.00 0.00 2.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 1.305381 ACAGGAGAGGGAACGGGAG 60.305 63.158 0.00 0.00 0.00 4.30
11 12 2.711922 CGACAGGAGAGGGAACGGG 61.712 68.421 0.00 0.00 0.00 5.28
12 13 1.533469 AACGACAGGAGAGGGAACGG 61.533 60.000 0.00 0.00 0.00 4.44
13 14 1.135460 GTAACGACAGGAGAGGGAACG 60.135 57.143 0.00 0.00 0.00 3.95
14 15 1.204231 GGTAACGACAGGAGAGGGAAC 59.796 57.143 0.00 0.00 0.00 3.62
15 16 1.203087 TGGTAACGACAGGAGAGGGAA 60.203 52.381 0.00 0.00 42.51 3.97
16 17 0.406750 TGGTAACGACAGGAGAGGGA 59.593 55.000 0.00 0.00 42.51 4.20
17 18 1.263356 TTGGTAACGACAGGAGAGGG 58.737 55.000 0.00 0.00 42.51 4.30
18 19 2.036733 TGTTTGGTAACGACAGGAGAGG 59.963 50.000 0.00 0.00 37.06 3.69
20 21 2.544277 CGTGTTTGGTAACGACAGGAGA 60.544 50.000 0.00 0.00 42.32 3.71
21 22 1.790623 CGTGTTTGGTAACGACAGGAG 59.209 52.381 0.00 0.00 42.32 3.69
24 25 1.070843 CAGCGTGTTTGGTAACGACAG 60.071 52.381 0.00 0.00 42.32 3.51
25 26 0.931702 CAGCGTGTTTGGTAACGACA 59.068 50.000 0.00 0.00 42.32 4.35
26 27 0.932399 ACAGCGTGTTTGGTAACGAC 59.068 50.000 0.00 0.00 42.32 4.34
28 29 1.136830 CGTACAGCGTGTTTGGTAACG 60.137 52.381 0.00 0.00 42.61 3.18
29 30 1.192980 CCGTACAGCGTGTTTGGTAAC 59.807 52.381 0.00 0.00 39.32 2.50
32 33 0.034337 ATCCGTACAGCGTGTTTGGT 59.966 50.000 0.00 0.00 39.32 3.67
33 34 1.999048 TATCCGTACAGCGTGTTTGG 58.001 50.000 0.00 0.58 39.32 3.28
34 35 3.676172 TCTTTATCCGTACAGCGTGTTTG 59.324 43.478 0.00 0.00 39.32 2.93
35 36 3.916761 TCTTTATCCGTACAGCGTGTTT 58.083 40.909 0.00 0.00 39.32 2.83
36 37 3.581024 TCTTTATCCGTACAGCGTGTT 57.419 42.857 0.00 0.00 39.32 3.32
37 38 3.581024 TTCTTTATCCGTACAGCGTGT 57.419 42.857 0.00 0.00 39.32 4.49
38 39 4.201685 CCTTTTCTTTATCCGTACAGCGTG 60.202 45.833 0.00 0.00 39.32 5.34
39 40 3.930848 CCTTTTCTTTATCCGTACAGCGT 59.069 43.478 0.00 0.00 39.32 5.07
40 41 4.178540 TCCTTTTCTTTATCCGTACAGCG 58.821 43.478 0.00 0.00 40.95 5.18
41 42 5.445540 CGTTCCTTTTCTTTATCCGTACAGC 60.446 44.000 0.00 0.00 0.00 4.40
42 43 5.865552 TCGTTCCTTTTCTTTATCCGTACAG 59.134 40.000 0.00 0.00 0.00 2.74
43 44 5.782047 TCGTTCCTTTTCTTTATCCGTACA 58.218 37.500 0.00 0.00 0.00 2.90
44 45 6.671641 GCTTCGTTCCTTTTCTTTATCCGTAC 60.672 42.308 0.00 0.00 0.00 3.67
45 46 5.349543 GCTTCGTTCCTTTTCTTTATCCGTA 59.650 40.000 0.00 0.00 0.00 4.02
47 48 4.648970 GCTTCGTTCCTTTTCTTTATCCG 58.351 43.478 0.00 0.00 0.00 4.18
55 56 5.464965 TCAATATCGCTTCGTTCCTTTTC 57.535 39.130 0.00 0.00 0.00 2.29
59 60 2.866762 GCTTCAATATCGCTTCGTTCCT 59.133 45.455 0.00 0.00 0.00 3.36
63 64 2.604046 AGGCTTCAATATCGCTTCGT 57.396 45.000 0.00 0.00 0.00 3.85
64 65 3.643763 ACTAGGCTTCAATATCGCTTCG 58.356 45.455 0.00 0.00 0.00 3.79
82 83 0.171903 GCGGCGGTCAGAGTAAACTA 59.828 55.000 9.78 0.00 0.00 2.24
133 134 3.861263 CTTAAGAACCGGCGGCGC 61.861 66.667 28.71 26.17 0.00 6.53
143 144 2.619646 GGTCAACAAACGGGCTTAAGAA 59.380 45.455 6.67 0.00 0.00 2.52
144 145 2.223745 GGTCAACAAACGGGCTTAAGA 58.776 47.619 6.67 0.00 0.00 2.10
146 147 1.133730 AGGGTCAACAAACGGGCTTAA 60.134 47.619 0.00 0.00 0.00 1.85
147 148 0.475044 AGGGTCAACAAACGGGCTTA 59.525 50.000 0.00 0.00 0.00 3.09
149 150 1.528309 CAGGGTCAACAAACGGGCT 60.528 57.895 0.00 0.00 0.00 5.19
150 151 3.039134 CAGGGTCAACAAACGGGC 58.961 61.111 0.00 0.00 0.00 6.13
215 217 0.755698 GTGAGATACCTGAGGGGCGA 60.756 60.000 2.38 0.00 39.10 5.54
251 4237 2.922283 AGGGGAACTGGATCAACAGAAT 59.078 45.455 6.04 0.00 40.97 2.40
289 4275 8.478877 GCACCAAATCAGCTACCTATACTATAT 58.521 37.037 0.00 0.00 0.00 0.86
323 4311 2.751166 ATTCACTCTCTGTTCCACCG 57.249 50.000 0.00 0.00 0.00 4.94
454 4736 5.020132 AGGGAGGGAGTATTCGATAAGATG 58.980 45.833 0.00 0.00 0.00 2.90
463 4745 2.671896 TACGGAGGGAGGGAGTATTC 57.328 55.000 0.00 0.00 0.00 1.75
476 4760 8.928270 AATAAGTGTCTCAACTTTATACGGAG 57.072 34.615 0.00 0.00 40.77 4.63
483 4767 7.776030 TGTCCCAAAATAAGTGTCTCAACTTTA 59.224 33.333 0.00 0.00 40.77 1.85
484 4768 6.605594 TGTCCCAAAATAAGTGTCTCAACTTT 59.394 34.615 0.00 0.00 40.77 2.66
488 4772 5.935945 TCTGTCCCAAAATAAGTGTCTCAA 58.064 37.500 0.00 0.00 0.00 3.02
496 4806 4.576330 ACTCCCTCTGTCCCAAAATAAG 57.424 45.455 0.00 0.00 0.00 1.73
503 5051 0.784495 ACAGTACTCCCTCTGTCCCA 59.216 55.000 0.00 0.00 40.28 4.37
520 5068 0.994247 TGGGACGGAGGAGTAGTACA 59.006 55.000 2.52 0.00 0.00 2.90
527 5075 6.625300 CGTTCTTATATTATGGGACGGAGGAG 60.625 46.154 0.00 0.00 0.00 3.69
528 5076 5.184479 CGTTCTTATATTATGGGACGGAGGA 59.816 44.000 0.00 0.00 0.00 3.71
529 5077 5.047519 ACGTTCTTATATTATGGGACGGAGG 60.048 44.000 13.18 0.00 0.00 4.30
531 5079 6.409524 AACGTTCTTATATTATGGGACGGA 57.590 37.500 0.00 0.00 0.00 4.69
533 5081 8.605746 TCAAAAACGTTCTTATATTATGGGACG 58.394 33.333 0.00 9.33 0.00 4.79
534 5082 9.712359 GTCAAAAACGTTCTTATATTATGGGAC 57.288 33.333 0.00 0.00 0.00 4.46
535 5083 9.451002 TGTCAAAAACGTTCTTATATTATGGGA 57.549 29.630 0.00 0.00 0.00 4.37
536 5084 9.498307 GTGTCAAAAACGTTCTTATATTATGGG 57.502 33.333 0.00 0.00 0.00 4.00
542 5090 9.485206 ACACTAGTGTCAAAAACGTTCTTATAT 57.515 29.630 22.95 0.00 40.24 0.86
543 5091 8.757789 CACACTAGTGTCAAAAACGTTCTTATA 58.242 33.333 25.63 0.00 42.83 0.98
544 5092 7.627340 CACACTAGTGTCAAAAACGTTCTTAT 58.373 34.615 25.63 0.00 42.83 1.73
545 5093 6.996106 CACACTAGTGTCAAAAACGTTCTTA 58.004 36.000 25.63 0.00 42.83 2.10
546 5094 5.864986 CACACTAGTGTCAAAAACGTTCTT 58.135 37.500 25.63 0.00 42.83 2.52
547 5095 5.464965 CACACTAGTGTCAAAAACGTTCT 57.535 39.130 25.63 0.00 42.83 3.01
596 5144 1.453155 AGACTAAACAGGGCAATGCG 58.547 50.000 0.00 0.00 0.00 4.73
670 5229 3.445450 TGACATACTGCCAAGAGAGAGAC 59.555 47.826 0.00 0.00 0.00 3.36
681 5476 0.804989 GCCTGTGTTGACATACTGCC 59.195 55.000 0.00 0.00 0.00 4.85
709 5542 2.915869 ACATGTGAAGAGAGGGGGTTA 58.084 47.619 0.00 0.00 0.00 2.85
711 5544 1.747444 AACATGTGAAGAGAGGGGGT 58.253 50.000 0.00 0.00 0.00 4.95
712 5545 3.107601 TCTAACATGTGAAGAGAGGGGG 58.892 50.000 0.00 0.00 0.00 5.40
741 5576 3.826157 CCTCCTACTGCCAATGTGAAAAA 59.174 43.478 0.00 0.00 0.00 1.94
742 5577 3.073798 TCCTCCTACTGCCAATGTGAAAA 59.926 43.478 0.00 0.00 0.00 2.29
743 5578 2.642311 TCCTCCTACTGCCAATGTGAAA 59.358 45.455 0.00 0.00 0.00 2.69
744 5579 2.265367 TCCTCCTACTGCCAATGTGAA 58.735 47.619 0.00 0.00 0.00 3.18
745 5580 1.951209 TCCTCCTACTGCCAATGTGA 58.049 50.000 0.00 0.00 0.00 3.58
746 5581 4.573900 GATATCCTCCTACTGCCAATGTG 58.426 47.826 0.00 0.00 0.00 3.21
747 5582 3.259374 CGATATCCTCCTACTGCCAATGT 59.741 47.826 0.00 0.00 0.00 2.71
748 5583 3.511540 TCGATATCCTCCTACTGCCAATG 59.488 47.826 0.00 0.00 0.00 2.82
751 5586 2.158519 TGTCGATATCCTCCTACTGCCA 60.159 50.000 0.00 0.00 0.00 4.92
968 5825 5.871396 TTCTGACCAGGGATAACAGATAC 57.129 43.478 0.00 0.00 37.43 2.24
1230 7313 7.042187 CCATTTTTGCTACAAACTGTGCAAATA 60.042 33.333 19.95 17.35 44.83 1.40
1293 7376 2.680913 GGTGCAAGCGCGATTCTGT 61.681 57.895 12.10 0.00 42.97 3.41
1294 7377 2.099062 GGTGCAAGCGCGATTCTG 59.901 61.111 12.10 0.00 42.97 3.02
1510 7632 1.874562 CAAGCCACAGAGCAGCTTC 59.125 57.895 0.00 0.00 44.76 3.86
1586 7753 8.275040 AGCATATCCTTGTCCTTAAGTTGTATT 58.725 33.333 0.97 0.00 0.00 1.89
1676 7843 6.707290 TCTTCAAATTCTTTGGATAGGTCGA 58.293 36.000 0.19 0.00 40.98 4.20
1704 8162 3.071602 TGGAGGATTTAGCTATGGTGCTC 59.928 47.826 11.24 11.24 42.97 4.26
1836 8876 4.421515 CAGCTCCTGGCCCTGTGG 62.422 72.222 0.00 0.00 43.05 4.17
1859 8899 6.401474 GCATATGGAGCATATAAACACTCGTG 60.401 42.308 4.56 0.00 35.18 4.35
1860 8900 5.639506 GCATATGGAGCATATAAACACTCGT 59.360 40.000 4.56 0.00 35.18 4.18
1861 8901 5.639082 TGCATATGGAGCATATAAACACTCG 59.361 40.000 4.56 0.00 35.18 4.18
1862 8902 7.439157 TTGCATATGGAGCATATAAACACTC 57.561 36.000 4.56 0.00 42.33 3.51
1863 8903 7.666804 TCATTGCATATGGAGCATATAAACACT 59.333 33.333 4.56 0.00 42.33 3.55
1864 8904 7.819644 TCATTGCATATGGAGCATATAAACAC 58.180 34.615 4.56 0.00 42.33 3.32
1865 8905 7.999450 TCATTGCATATGGAGCATATAAACA 57.001 32.000 4.56 0.00 42.33 2.83
1866 8906 8.733458 TCTTCATTGCATATGGAGCATATAAAC 58.267 33.333 4.56 0.00 42.33 2.01
1867 8907 8.866970 TCTTCATTGCATATGGAGCATATAAA 57.133 30.769 4.56 0.00 42.33 1.40
1868 8908 8.866970 TTCTTCATTGCATATGGAGCATATAA 57.133 30.769 4.56 0.82 42.33 0.98
1869 8909 7.555195 CCTTCTTCATTGCATATGGAGCATATA 59.445 37.037 4.56 0.00 42.33 0.86
1870 8910 6.377429 CCTTCTTCATTGCATATGGAGCATAT 59.623 38.462 4.56 0.00 42.33 1.78
1871 8911 5.708697 CCTTCTTCATTGCATATGGAGCATA 59.291 40.000 4.56 0.00 42.33 3.14
1872 8912 4.523173 CCTTCTTCATTGCATATGGAGCAT 59.477 41.667 4.56 0.00 42.33 3.79
1873 8913 3.887110 CCTTCTTCATTGCATATGGAGCA 59.113 43.478 4.56 0.00 40.85 4.26
1874 8914 3.305199 GCCTTCTTCATTGCATATGGAGC 60.305 47.826 4.56 0.00 0.00 4.70
1875 8915 3.255149 GGCCTTCTTCATTGCATATGGAG 59.745 47.826 4.56 9.63 0.00 3.86
1876 8916 3.225104 GGCCTTCTTCATTGCATATGGA 58.775 45.455 4.56 0.00 0.00 3.41
1877 8917 2.960384 TGGCCTTCTTCATTGCATATGG 59.040 45.455 3.32 0.00 0.00 2.74
1878 8918 3.382227 TGTGGCCTTCTTCATTGCATATG 59.618 43.478 3.32 0.00 0.00 1.78
1879 8919 3.634504 TGTGGCCTTCTTCATTGCATAT 58.365 40.909 3.32 0.00 0.00 1.78
1880 8920 3.018856 CTGTGGCCTTCTTCATTGCATA 58.981 45.455 3.32 0.00 0.00 3.14
1881 8921 1.822990 CTGTGGCCTTCTTCATTGCAT 59.177 47.619 3.32 0.00 0.00 3.96
1882 8922 1.250328 CTGTGGCCTTCTTCATTGCA 58.750 50.000 3.32 0.00 0.00 4.08
1883 8923 0.529378 CCTGTGGCCTTCTTCATTGC 59.471 55.000 3.32 0.00 0.00 3.56
1884 8924 1.180029 CCCTGTGGCCTTCTTCATTG 58.820 55.000 3.32 0.00 0.00 2.82
1885 8925 3.677963 CCCTGTGGCCTTCTTCATT 57.322 52.632 3.32 0.00 0.00 2.57
1896 8936 4.421515 CAGCTCCTGGCCCTGTGG 62.422 72.222 0.00 0.00 43.05 4.17
1897 8937 3.618780 GACAGCTCCTGGCCCTGTG 62.619 68.421 19.26 1.67 39.72 3.66
1898 8938 3.325753 GACAGCTCCTGGCCCTGT 61.326 66.667 15.77 15.77 42.10 4.00
1903 8943 1.968540 GTGTTGGACAGCTCCTGGC 60.969 63.158 0.00 0.00 39.10 4.85
1904 8944 1.669115 CGTGTTGGACAGCTCCTGG 60.669 63.158 0.00 0.00 37.48 4.45
1905 8945 0.668706 CTCGTGTTGGACAGCTCCTG 60.669 60.000 0.00 0.00 37.48 3.86
1906 8946 1.115930 ACTCGTGTTGGACAGCTCCT 61.116 55.000 0.00 0.00 37.48 3.69
1907 8947 0.946221 CACTCGTGTTGGACAGCTCC 60.946 60.000 0.00 0.00 37.04 4.70
1908 8948 0.249489 ACACTCGTGTTGGACAGCTC 60.249 55.000 0.00 0.00 41.83 4.09
1909 8949 1.823295 ACACTCGTGTTGGACAGCT 59.177 52.632 0.00 0.00 41.83 4.24
1910 8950 4.438346 ACACTCGTGTTGGACAGC 57.562 55.556 0.00 0.00 41.83 4.40
2075 9186 9.979270 GTATCACAAGAAACATGTCAATTCTAG 57.021 33.333 10.85 5.86 33.26 2.43
2076 9187 9.725019 AGTATCACAAGAAACATGTCAATTCTA 57.275 29.630 10.85 0.00 33.26 2.10
2078 9189 8.725148 AGAGTATCACAAGAAACATGTCAATTC 58.275 33.333 0.00 0.00 37.82 2.17
2079 9190 8.627208 AGAGTATCACAAGAAACATGTCAATT 57.373 30.769 0.00 0.00 37.82 2.32
2080 9191 9.376075 CTAGAGTATCACAAGAAACATGTCAAT 57.624 33.333 0.00 0.00 37.82 2.57
2081 9192 7.331934 GCTAGAGTATCACAAGAAACATGTCAA 59.668 37.037 0.00 0.00 37.82 3.18
2082 9193 6.813649 GCTAGAGTATCACAAGAAACATGTCA 59.186 38.462 0.00 0.00 37.82 3.58
2272 9390 3.746045 AGCACCGAGTCTAGTTTGAAA 57.254 42.857 0.00 0.00 0.00 2.69
2273 9391 3.069016 TCAAGCACCGAGTCTAGTTTGAA 59.931 43.478 0.00 0.00 30.14 2.69
2274 9392 2.626266 TCAAGCACCGAGTCTAGTTTGA 59.374 45.455 0.00 0.00 0.00 2.69
2275 9393 3.026630 TCAAGCACCGAGTCTAGTTTG 57.973 47.619 0.00 0.00 0.00 2.93
2276 9394 3.589988 CATCAAGCACCGAGTCTAGTTT 58.410 45.455 0.00 0.00 0.00 2.66
2277 9395 2.093973 CCATCAAGCACCGAGTCTAGTT 60.094 50.000 0.00 0.00 0.00 2.24
2279 9397 1.478510 ACCATCAAGCACCGAGTCTAG 59.521 52.381 0.00 0.00 0.00 2.43
2323 9443 5.403466 GCAAAACAGCAATCCTTCTTGTAAG 59.597 40.000 0.00 0.00 0.00 2.34
2558 9678 9.841295 GGGTTACATCATTAATAAGAGGTACAA 57.159 33.333 0.00 0.00 31.64 2.41
2560 9680 9.490379 CAGGGTTACATCATTAATAAGAGGTAC 57.510 37.037 1.14 0.00 31.64 3.34
2561 9681 9.220906 ACAGGGTTACATCATTAATAAGAGGTA 57.779 33.333 0.00 0.00 30.71 3.08
2562 9682 8.102484 ACAGGGTTACATCATTAATAAGAGGT 57.898 34.615 0.00 0.00 33.00 3.85
2737 10249 4.798574 CATTTGCCAAGTAGTTGTTCCTC 58.201 43.478 9.42 0.00 30.95 3.71
2858 10370 3.334583 AAAGCTTCCGTTCATAGCAGA 57.665 42.857 0.00 0.00 37.37 4.26
2859 10371 3.686726 AGAAAAGCTTCCGTTCATAGCAG 59.313 43.478 11.04 0.00 37.37 4.24
2911 10423 1.419762 TGCTCAGACAGGGTTGCTAAA 59.580 47.619 0.00 0.00 0.00 1.85


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

AutoCloner maintained by Alex Coulton.