Multiple sequence alignment - TraesCS5B01G302900

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS5B01G302900 chr5B 100.000 4366 0 0 1 4366 487436635 487441000 0.000000e+00 8063.0
1 TraesCS5B01G302900 chr5B 86.969 1412 162 18 1765 3165 505276215 505277615 0.000000e+00 1568.0
2 TraesCS5B01G302900 chr5B 86.610 1404 166 15 1765 3162 505379199 505380586 0.000000e+00 1531.0
3 TraesCS5B01G302900 chr5B 84.116 831 84 32 1024 1830 505378335 505379141 0.000000e+00 760.0
4 TraesCS5B01G302900 chr5B 88.131 396 16 14 3992 4361 487481869 487482259 4.010000e-120 442.0
5 TraesCS5B01G302900 chr5B 85.098 255 13 11 3650 3895 487481432 487481670 2.030000e-58 237.0
6 TraesCS5B01G302900 chr5D 91.854 3474 164 56 489 3895 406414911 406418332 0.000000e+00 4737.0
7 TraesCS5B01G302900 chr5D 89.315 365 18 8 4012 4361 406418670 406419028 5.180000e-119 438.0
8 TraesCS5B01G302900 chr5D 83.726 467 54 11 1 451 406414452 406414912 5.220000e-114 422.0
9 TraesCS5B01G302900 chr5D 89.189 74 5 1 3916 3986 406418490 406418563 6.010000e-14 89.8
10 TraesCS5B01G302900 chr5A 92.587 3116 167 37 300 3385 512058831 512061912 0.000000e+00 4416.0
11 TraesCS5B01G302900 chr5A 87.510 1313 147 15 1859 3165 532740690 532741991 0.000000e+00 1500.0
12 TraesCS5B01G302900 chr5A 88.991 218 13 8 3478 3694 512061959 512062166 4.330000e-65 259.0
13 TraesCS5B01G302900 chr5A 89.595 173 8 7 3733 3895 512062161 512062333 1.230000e-50 211.0
14 TraesCS5B01G302900 chr5A 82.171 258 32 7 2 248 512055203 512055457 4.420000e-50 209.0
15 TraesCS5B01G302900 chr6D 87.913 2209 222 24 993 3167 36252638 36254835 0.000000e+00 2558.0
16 TraesCS5B01G302900 chr6B 87.409 2208 235 23 993 3167 75941512 75943709 0.000000e+00 2497.0
17 TraesCS5B01G302900 chr1B 87.236 2178 231 26 1017 3169 598190650 598192805 0.000000e+00 2438.0
18 TraesCS5B01G302900 chr1B 73.256 258 58 10 268 520 497823573 497823322 2.800000e-12 84.2
19 TraesCS5B01G302900 chr1D 87.082 2183 227 29 1017 3167 440718422 440720581 0.000000e+00 2418.0
20 TraesCS5B01G302900 chr1A 87.196 2179 214 33 1023 3167 537347813 537345666 0.000000e+00 2418.0
21 TraesCS5B01G302900 chr1A 76.720 189 32 7 268 446 11666414 11666600 1.290000e-15 95.3
22 TraesCS5B01G302900 chr6A 86.546 2215 241 32 993 3167 40297943 40300140 0.000000e+00 2386.0
23 TraesCS5B01G302900 chr6A 81.818 132 20 2 362 489 583013061 583012930 1.660000e-19 108.0
24 TraesCS5B01G302900 chr7D 88.676 1722 154 16 1133 2841 509632426 509630733 0.000000e+00 2061.0
25 TraesCS5B01G302900 chr7B 87.466 1827 167 25 1025 2841 538053825 538052051 0.000000e+00 2049.0
26 TraesCS5B01G302900 chr7A 87.774 1505 143 17 1347 2841 580633350 580631877 0.000000e+00 1722.0
27 TraesCS5B01G302900 chr7A 76.410 195 35 7 255 439 652674676 652674869 1.290000e-15 95.3
28 TraesCS5B01G302900 chr4B 78.987 395 38 26 4010 4361 11742669 11743061 1.220000e-55 228.0
29 TraesCS5B01G302900 chr4B 89.157 83 9 0 3925 4007 11742283 11742365 2.150000e-18 104.0
30 TraesCS5B01G302900 chr4D 81.188 303 27 17 4088 4361 6586671 6586972 2.640000e-52 217.0
31 TraesCS5B01G302900 chr4D 90.361 83 8 0 3925 4007 6586185 6586267 4.620000e-20 110.0
32 TraesCS5B01G302900 chr4A 90.683 161 13 2 4202 4361 596820146 596819987 3.420000e-51 213.0
33 TraesCS5B01G302900 chr4A 87.952 83 10 0 3925 4007 596820773 596820691 9.990000e-17 99.0
34 TraesCS5B01G302900 chr2B 76.147 218 44 7 269 483 677870825 677870613 1.660000e-19 108.0
35 TraesCS5B01G302900 chr3B 89.157 83 9 0 3925 4007 550797259 550797341 2.150000e-18 104.0
36 TraesCS5B01G302900 chr2A 74.886 219 48 6 268 483 780720794 780721008 4.650000e-15 93.5
37 TraesCS5B01G302900 chr3A 74.766 214 47 6 273 483 530441658 530441867 6.010000e-14 89.8
38 TraesCS5B01G302900 chr3A 74.429 219 49 6 268 483 686167416 686167630 2.160000e-13 87.9
39 TraesCS5B01G302900 chr2D 74.654 217 48 6 269 482 565521403 565521191 6.010000e-14 89.8
40 TraesCS5B01G302900 chr2D 84.127 63 9 1 255 317 338660557 338660496 4.720000e-05 60.2
41 TraesCS5B01G302900 chrUn 74.257 202 39 8 254 444 28774142 28774341 6.060000e-09 73.1


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 TraesCS5B01G302900 chr5B 487436635 487441000 4365 False 8063.00 8063 100.0000 1 4366 1 chr5B.!!$F1 4365
1 TraesCS5B01G302900 chr5B 505276215 505277615 1400 False 1568.00 1568 86.9690 1765 3165 1 chr5B.!!$F2 1400
2 TraesCS5B01G302900 chr5B 505378335 505380586 2251 False 1145.50 1531 85.3630 1024 3162 2 chr5B.!!$F4 2138
3 TraesCS5B01G302900 chr5B 487481432 487482259 827 False 339.50 442 86.6145 3650 4361 2 chr5B.!!$F3 711
4 TraesCS5B01G302900 chr5D 406414452 406419028 4576 False 1421.70 4737 88.5210 1 4361 4 chr5D.!!$F1 4360
5 TraesCS5B01G302900 chr5A 532740690 532741991 1301 False 1500.00 1500 87.5100 1859 3165 1 chr5A.!!$F1 1306
6 TraesCS5B01G302900 chr5A 512055203 512062333 7130 False 1273.75 4416 88.3360 2 3895 4 chr5A.!!$F2 3893
7 TraesCS5B01G302900 chr6D 36252638 36254835 2197 False 2558.00 2558 87.9130 993 3167 1 chr6D.!!$F1 2174
8 TraesCS5B01G302900 chr6B 75941512 75943709 2197 False 2497.00 2497 87.4090 993 3167 1 chr6B.!!$F1 2174
9 TraesCS5B01G302900 chr1B 598190650 598192805 2155 False 2438.00 2438 87.2360 1017 3169 1 chr1B.!!$F1 2152
10 TraesCS5B01G302900 chr1D 440718422 440720581 2159 False 2418.00 2418 87.0820 1017 3167 1 chr1D.!!$F1 2150
11 TraesCS5B01G302900 chr1A 537345666 537347813 2147 True 2418.00 2418 87.1960 1023 3167 1 chr1A.!!$R1 2144
12 TraesCS5B01G302900 chr6A 40297943 40300140 2197 False 2386.00 2386 86.5460 993 3167 1 chr6A.!!$F1 2174
13 TraesCS5B01G302900 chr7D 509630733 509632426 1693 True 2061.00 2061 88.6760 1133 2841 1 chr7D.!!$R1 1708
14 TraesCS5B01G302900 chr7B 538052051 538053825 1774 True 2049.00 2049 87.4660 1025 2841 1 chr7B.!!$R1 1816
15 TraesCS5B01G302900 chr7A 580631877 580633350 1473 True 1722.00 1722 87.7740 1347 2841 1 chr7A.!!$R1 1494

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
820 4225 0.588252 CACGCATAATGGCTGCTACC 59.412 55.000 0.0 0.0 37.48 3.18 F
2527 6156 1.067084 CTGCATCTCCGTCTGCGAT 59.933 57.895 0.0 0.0 41.32 4.58 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2815 6446 0.526211 CCTCGTCGAACTCCATGTCA 59.474 55.0 0.0 0.0 0.0 3.58 R
3990 7880 0.108804 GCGGAAGGTGATCAAGTCGA 60.109 55.0 0.0 0.0 0.0 4.20 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
57 58 4.020543 GAGGTAGGAGATGGCTATCGAAT 58.979 47.826 4.21 0.00 38.38 3.34
59 60 3.118956 GGTAGGAGATGGCTATCGAATGG 60.119 52.174 4.21 0.00 38.38 3.16
73 74 1.243902 GAATGGCAGAAACAACCCGA 58.756 50.000 0.00 0.00 0.00 5.14
120 121 3.637273 GTCCCAGGTCGGTTGCCT 61.637 66.667 0.00 0.00 36.66 4.75
121 122 2.120940 TCCCAGGTCGGTTGCCTA 59.879 61.111 0.00 0.00 34.45 3.93
123 124 0.912487 TCCCAGGTCGGTTGCCTAAT 60.912 55.000 0.00 0.00 34.45 1.73
134 135 7.015877 AGGTCGGTTGCCTAATGACTATTATTA 59.984 37.037 0.00 0.00 33.97 0.98
137 138 8.812972 TCGGTTGCCTAATGACTATTATTATCT 58.187 33.333 0.00 0.00 0.00 1.98
184 186 3.952323 GGGCAAGTTTATTAGGGGAAGAC 59.048 47.826 0.00 0.00 0.00 3.01
218 230 2.616893 CAATGGGGGTGGGGAGGA 60.617 66.667 0.00 0.00 0.00 3.71
292 3637 3.560636 CCACCAGGGTACAAATCCTAG 57.439 52.381 0.00 0.00 0.00 3.02
297 3642 5.424252 CACCAGGGTACAAATCCTAGACTTA 59.576 44.000 0.00 0.00 0.00 2.24
324 3669 7.136289 CATTGGTGCTTGCATTTTATTTTCT 57.864 32.000 0.00 0.00 0.00 2.52
333 3678 5.862845 TGCATTTTATTTTCTGGCTTTCCA 58.137 33.333 0.00 0.00 40.85 3.53
348 3693 1.872388 TTCCAGCGATGTTCGTTCAA 58.128 45.000 0.00 0.00 42.81 2.69
354 3699 3.842428 CAGCGATGTTCGTTCAATGAAAG 59.158 43.478 0.00 0.00 42.81 2.62
358 3703 3.896648 TGTTCGTTCAATGAAAGGAGC 57.103 42.857 8.90 7.04 0.00 4.70
360 3705 2.552315 GTTCGTTCAATGAAAGGAGCCA 59.448 45.455 8.90 0.00 0.00 4.75
365 3710 4.082571 CGTTCAATGAAAGGAGCCATTTCT 60.083 41.667 0.00 0.00 37.51 2.52
367 3712 3.194116 TCAATGAAAGGAGCCATTTCTGC 59.806 43.478 11.67 0.00 37.51 4.26
414 3761 7.230108 ACTTCATCAATCTTGAGATGTTGTGTT 59.770 33.333 0.00 0.00 41.74 3.32
415 3762 7.137490 TCATCAATCTTGAGATGTTGTGTTC 57.863 36.000 0.00 0.00 41.74 3.18
451 3839 1.774856 GGTGCTCATAGGGGTATGGTT 59.225 52.381 0.00 0.00 0.00 3.67
453 3841 3.214328 GTGCTCATAGGGGTATGGTTTG 58.786 50.000 0.00 0.00 0.00 2.93
455 3843 2.422803 GCTCATAGGGGTATGGTTTGCA 60.423 50.000 0.00 0.00 0.00 4.08
456 3844 3.751893 GCTCATAGGGGTATGGTTTGCAT 60.752 47.826 0.00 0.00 0.00 3.96
457 3845 3.822735 CTCATAGGGGTATGGTTTGCATG 59.177 47.826 0.00 0.00 0.00 4.06
458 3846 3.204158 TCATAGGGGTATGGTTTGCATGT 59.796 43.478 0.00 0.00 0.00 3.21
459 3847 1.851304 AGGGGTATGGTTTGCATGTG 58.149 50.000 0.00 0.00 0.00 3.21
460 3848 1.077005 AGGGGTATGGTTTGCATGTGT 59.923 47.619 0.00 0.00 0.00 3.72
461 3849 2.310349 AGGGGTATGGTTTGCATGTGTA 59.690 45.455 0.00 0.00 0.00 2.90
462 3850 2.425668 GGGGTATGGTTTGCATGTGTAC 59.574 50.000 0.00 0.00 0.00 2.90
463 3851 3.085533 GGGTATGGTTTGCATGTGTACA 58.914 45.455 0.00 0.00 0.00 2.90
464 3852 3.508012 GGGTATGGTTTGCATGTGTACAA 59.492 43.478 0.00 0.00 0.00 2.41
465 3853 4.159506 GGGTATGGTTTGCATGTGTACAAT 59.840 41.667 0.00 0.00 0.00 2.71
466 3854 5.358442 GGGTATGGTTTGCATGTGTACAATA 59.642 40.000 0.00 0.00 0.00 1.90
467 3855 6.040391 GGGTATGGTTTGCATGTGTACAATAT 59.960 38.462 0.00 0.00 0.00 1.28
468 3856 7.229707 GGGTATGGTTTGCATGTGTACAATATA 59.770 37.037 0.00 0.00 0.00 0.86
469 3857 8.289618 GGTATGGTTTGCATGTGTACAATATAG 58.710 37.037 0.00 0.00 0.00 1.31
470 3858 9.051679 GTATGGTTTGCATGTGTACAATATAGA 57.948 33.333 0.00 0.00 0.00 1.98
471 3859 7.552458 TGGTTTGCATGTGTACAATATAGAG 57.448 36.000 0.00 0.00 0.00 2.43
472 3860 6.542005 TGGTTTGCATGTGTACAATATAGAGG 59.458 38.462 0.00 0.00 0.00 3.69
473 3861 6.542370 GGTTTGCATGTGTACAATATAGAGGT 59.458 38.462 0.00 0.00 0.00 3.85
474 3862 7.409697 GTTTGCATGTGTACAATATAGAGGTG 58.590 38.462 0.00 0.00 0.00 4.00
475 3863 6.478512 TGCATGTGTACAATATAGAGGTGA 57.521 37.500 0.00 0.00 0.00 4.02
476 3864 6.515832 TGCATGTGTACAATATAGAGGTGAG 58.484 40.000 0.00 0.00 0.00 3.51
477 3865 6.098266 TGCATGTGTACAATATAGAGGTGAGT 59.902 38.462 0.00 0.00 0.00 3.41
478 3866 6.422100 GCATGTGTACAATATAGAGGTGAGTG 59.578 42.308 0.00 0.00 0.00 3.51
479 3867 7.492524 CATGTGTACAATATAGAGGTGAGTGT 58.507 38.462 0.00 0.00 0.00 3.55
480 3868 8.630037 CATGTGTACAATATAGAGGTGAGTGTA 58.370 37.037 0.00 0.00 0.00 2.90
481 3869 8.762481 TGTGTACAATATAGAGGTGAGTGTAT 57.238 34.615 0.00 0.00 0.00 2.29
482 3870 8.630037 TGTGTACAATATAGAGGTGAGTGTATG 58.370 37.037 0.00 0.00 0.00 2.39
483 3871 8.630917 GTGTACAATATAGAGGTGAGTGTATGT 58.369 37.037 0.00 0.00 0.00 2.29
484 3872 8.630037 TGTACAATATAGAGGTGAGTGTATGTG 58.370 37.037 0.00 0.00 0.00 3.21
485 3873 7.898014 ACAATATAGAGGTGAGTGTATGTGA 57.102 36.000 0.00 0.00 0.00 3.58
486 3874 7.946207 ACAATATAGAGGTGAGTGTATGTGAG 58.054 38.462 0.00 0.00 0.00 3.51
487 3875 4.927978 ATAGAGGTGAGTGTATGTGAGC 57.072 45.455 0.00 0.00 0.00 4.26
488 3876 1.474478 AGAGGTGAGTGTATGTGAGCG 59.526 52.381 0.00 0.00 0.00 5.03
489 3877 1.202582 GAGGTGAGTGTATGTGAGCGT 59.797 52.381 0.00 0.00 0.00 5.07
490 3878 1.202582 AGGTGAGTGTATGTGAGCGTC 59.797 52.381 0.00 0.00 0.00 5.19
491 3879 1.067846 GGTGAGTGTATGTGAGCGTCA 60.068 52.381 0.00 0.00 0.00 4.35
492 3880 2.417379 GGTGAGTGTATGTGAGCGTCAT 60.417 50.000 0.00 0.00 0.00 3.06
493 3881 3.254060 GTGAGTGTATGTGAGCGTCATT 58.746 45.455 0.00 0.00 0.00 2.57
494 3882 3.061295 GTGAGTGTATGTGAGCGTCATTG 59.939 47.826 0.00 0.00 0.00 2.82
495 3883 3.056891 TGAGTGTATGTGAGCGTCATTGA 60.057 43.478 0.00 0.00 0.00 2.57
514 3902 9.509855 GTCATTGATGTAGTGTGTTAAAAACAA 57.490 29.630 0.00 0.00 44.16 2.83
537 3925 9.128107 ACAAGATTTTGCTATAAATTTGACGTG 57.872 29.630 0.00 0.00 37.85 4.49
543 3931 9.554724 TTTTGCTATAAATTTGACGTGAGATTC 57.445 29.630 0.00 0.00 0.00 2.52
559 3947 6.054295 GTGAGATTCTTAGACATGGCAGATT 58.946 40.000 0.00 0.00 0.00 2.40
560 3948 6.018098 GTGAGATTCTTAGACATGGCAGATTG 60.018 42.308 0.00 0.00 0.00 2.67
566 3954 3.996921 AGACATGGCAGATTGAACTCT 57.003 42.857 0.00 0.00 0.00 3.24
567 3955 3.871485 AGACATGGCAGATTGAACTCTC 58.129 45.455 0.00 0.00 0.00 3.20
575 3963 3.122297 CAGATTGAACTCTCGAGATGGC 58.878 50.000 17.03 8.49 0.00 4.40
599 3987 5.947228 AATTATATTGCCACGAGGATGTG 57.053 39.130 1.86 0.00 39.60 3.21
679 4068 6.973229 ATTGCCATGATTGCTAAAGAAAAC 57.027 33.333 0.00 0.00 0.00 2.43
681 4072 5.472148 TGCCATGATTGCTAAAGAAAACTG 58.528 37.500 0.00 0.00 0.00 3.16
682 4073 5.010922 TGCCATGATTGCTAAAGAAAACTGT 59.989 36.000 0.00 0.00 0.00 3.55
688 4079 6.545666 TGATTGCTAAAGAAAACTGTTCCTCA 59.454 34.615 0.00 0.00 0.00 3.86
699 4090 3.914312 ACTGTTCCTCACGACAACATAG 58.086 45.455 0.00 0.00 29.82 2.23
703 4094 4.509970 TGTTCCTCACGACAACATAGTTTG 59.490 41.667 0.00 0.00 0.00 2.93
707 4099 3.472652 TCACGACAACATAGTTTGCCTT 58.527 40.909 0.00 0.00 0.00 4.35
740 4132 5.054390 TGATTTGCCGTGTCTAAAAATCC 57.946 39.130 0.00 0.00 36.74 3.01
744 4136 2.675844 TGCCGTGTCTAAAAATCCGATG 59.324 45.455 0.00 0.00 0.00 3.84
745 4137 2.676342 GCCGTGTCTAAAAATCCGATGT 59.324 45.455 0.00 0.00 0.00 3.06
747 4139 3.308866 CCGTGTCTAAAAATCCGATGTCC 59.691 47.826 0.00 0.00 0.00 4.02
760 4152 4.258543 TCCGATGTCCATTTTCAAGTACC 58.741 43.478 0.00 0.00 0.00 3.34
762 4154 4.006989 CGATGTCCATTTTCAAGTACCCA 58.993 43.478 0.00 0.00 0.00 4.51
820 4225 0.588252 CACGCATAATGGCTGCTACC 59.412 55.000 0.00 0.00 37.48 3.18
926 4334 3.838317 TCCTCTCCCAATCCATATAACCG 59.162 47.826 0.00 0.00 0.00 4.44
938 4350 2.634815 TATAACCGACGCCTCTCTCT 57.365 50.000 0.00 0.00 0.00 3.10
963 4375 6.531923 TCCAGATCAAATCAATCAGATCTCC 58.468 40.000 0.00 0.00 43.83 3.71
979 4397 1.211456 CTCCATTCTTCTCCCCAGCT 58.789 55.000 0.00 0.00 0.00 4.24
1619 5062 1.719378 AGGTGAGGAGGAAGGAGAAGA 59.281 52.381 0.00 0.00 0.00 2.87
2266 5895 4.379243 CAGCGGTGGTCGGAGCTT 62.379 66.667 6.74 0.00 37.94 3.74
2527 6156 1.067084 CTGCATCTCCGTCTGCGAT 59.933 57.895 0.00 0.00 41.32 4.58
2530 6159 1.211818 GCATCTCCGTCTGCGATGTC 61.212 60.000 0.00 0.00 41.33 3.06
2700 6331 4.170256 GAGAAGATGAGTTTCGTGGAGAC 58.830 47.826 0.00 0.00 0.00 3.36
2815 6446 3.070446 TCAGGACCATTTTCGTGTACAGT 59.930 43.478 0.00 0.00 33.86 3.55
2986 6644 1.733399 GAAGTCGACGCCAGTGACC 60.733 63.158 10.46 0.00 32.57 4.02
3032 6690 1.003233 AGCGGCTTCTCCAAGAACC 60.003 57.895 0.00 0.00 29.89 3.62
3220 6889 4.388773 TGTTGATTCTCAGAATTCGAACCG 59.611 41.667 0.16 0.00 0.00 4.44
3234 6903 0.898326 GAACCGAAACCCCATGCCTT 60.898 55.000 0.00 0.00 0.00 4.35
3236 6905 1.000896 CCGAAACCCCATGCCTTCT 60.001 57.895 0.00 0.00 0.00 2.85
3251 6920 6.407299 CCATGCCTTCTAATGCAATAGGTTTT 60.407 38.462 8.92 0.00 41.50 2.43
3256 6925 6.093495 CCTTCTAATGCAATAGGTTTTCGTCA 59.907 38.462 8.92 0.00 0.00 4.35
3277 6946 5.355071 GTCATTGAACATGATGGTTGAGCTA 59.645 40.000 0.00 0.00 0.00 3.32
3290 6959 4.716784 TGGTTGAGCTAGTAGGATGATTGT 59.283 41.667 0.00 0.00 0.00 2.71
3331 7001 6.153851 TCCAGTTTAGTGATGAATCGTCCTTA 59.846 38.462 0.00 0.00 0.00 2.69
3416 7086 8.977267 TTTTCTGAATCCAAACCAAAATCATT 57.023 26.923 0.00 0.00 0.00 2.57
3430 7100 8.887036 ACCAAAATCATTCTTGTAACCTTTTC 57.113 30.769 0.00 0.00 0.00 2.29
3442 7112 6.827586 TGTAACCTTTTCTCTCTCTCTCTC 57.172 41.667 0.00 0.00 0.00 3.20
3449 7119 3.348647 TCTCTCTCTCTCTCTGTGGTG 57.651 52.381 0.00 0.00 0.00 4.17
3463 7133 1.214175 TGTGGTGTGGTGATTGGACTT 59.786 47.619 0.00 0.00 0.00 3.01
3466 7136 2.108075 TGGTGTGGTGATTGGACTTGAT 59.892 45.455 0.00 0.00 0.00 2.57
3467 7137 3.329225 TGGTGTGGTGATTGGACTTGATA 59.671 43.478 0.00 0.00 0.00 2.15
3468 7138 3.689649 GGTGTGGTGATTGGACTTGATAC 59.310 47.826 0.00 0.00 0.00 2.24
3469 7139 4.565652 GGTGTGGTGATTGGACTTGATACT 60.566 45.833 0.00 0.00 0.00 2.12
3470 7140 4.393062 GTGTGGTGATTGGACTTGATACTG 59.607 45.833 0.00 0.00 0.00 2.74
3471 7141 4.041567 TGTGGTGATTGGACTTGATACTGT 59.958 41.667 0.00 0.00 0.00 3.55
3472 7142 5.247337 TGTGGTGATTGGACTTGATACTGTA 59.753 40.000 0.00 0.00 0.00 2.74
3474 7144 6.092259 GTGGTGATTGGACTTGATACTGTAAC 59.908 42.308 0.00 0.00 0.00 2.50
3475 7145 6.170506 GGTGATTGGACTTGATACTGTAACA 58.829 40.000 0.00 0.00 0.00 2.41
3521 7209 5.642063 AGGTAGTTGTATTGTTGATCCAACG 59.358 40.000 5.51 0.00 46.13 4.10
3589 7282 6.610075 AATTTGCCAGTTCATTTGGATAGT 57.390 33.333 0.00 0.00 37.96 2.12
3636 7329 1.686355 TGTGGTGTTTGTCATGGTCC 58.314 50.000 0.00 0.00 0.00 4.46
3642 7335 2.293399 GTGTTTGTCATGGTCCTGTTCC 59.707 50.000 0.00 0.00 0.00 3.62
3653 7346 2.644676 GTCCTGTTCCTGCCCTTTATC 58.355 52.381 0.00 0.00 0.00 1.75
3668 7369 4.397103 CCCTTTATCCGGTTTAGTTTGTCC 59.603 45.833 0.00 0.00 0.00 4.02
3678 7379 5.622687 CGGTTTAGTTTGTCCTGGTGTTTTT 60.623 40.000 0.00 0.00 0.00 1.94
3679 7380 5.579119 GGTTTAGTTTGTCCTGGTGTTTTTG 59.421 40.000 0.00 0.00 0.00 2.44
3680 7381 3.885724 AGTTTGTCCTGGTGTTTTTGG 57.114 42.857 0.00 0.00 0.00 3.28
3682 7383 3.580895 AGTTTGTCCTGGTGTTTTTGGTT 59.419 39.130 0.00 0.00 0.00 3.67
3683 7384 4.773149 AGTTTGTCCTGGTGTTTTTGGTTA 59.227 37.500 0.00 0.00 0.00 2.85
3684 7385 4.993029 TTGTCCTGGTGTTTTTGGTTAG 57.007 40.909 0.00 0.00 0.00 2.34
3685 7386 2.691011 TGTCCTGGTGTTTTTGGTTAGC 59.309 45.455 0.00 0.00 0.00 3.09
3686 7387 2.956333 GTCCTGGTGTTTTTGGTTAGCT 59.044 45.455 0.00 0.00 0.00 3.32
3687 7388 3.383505 GTCCTGGTGTTTTTGGTTAGCTT 59.616 43.478 0.00 0.00 0.00 3.74
3688 7389 3.634910 TCCTGGTGTTTTTGGTTAGCTTC 59.365 43.478 0.00 0.00 0.00 3.86
3689 7390 3.636764 CCTGGTGTTTTTGGTTAGCTTCT 59.363 43.478 0.00 0.00 0.00 2.85
3690 7391 4.099419 CCTGGTGTTTTTGGTTAGCTTCTT 59.901 41.667 0.00 0.00 0.00 2.52
3691 7392 5.004922 TGGTGTTTTTGGTTAGCTTCTTG 57.995 39.130 0.00 0.00 0.00 3.02
3692 7393 4.464597 TGGTGTTTTTGGTTAGCTTCTTGT 59.535 37.500 0.00 0.00 0.00 3.16
3693 7394 5.046950 TGGTGTTTTTGGTTAGCTTCTTGTT 60.047 36.000 0.00 0.00 0.00 2.83
3694 7395 5.872617 GGTGTTTTTGGTTAGCTTCTTGTTT 59.127 36.000 0.00 0.00 0.00 2.83
3695 7396 6.035650 GGTGTTTTTGGTTAGCTTCTTGTTTC 59.964 38.462 0.00 0.00 0.00 2.78
3696 7397 6.588373 GTGTTTTTGGTTAGCTTCTTGTTTCA 59.412 34.615 0.00 0.00 0.00 2.69
3697 7398 6.811170 TGTTTTTGGTTAGCTTCTTGTTTCAG 59.189 34.615 0.00 0.00 0.00 3.02
3698 7399 5.514274 TTTGGTTAGCTTCTTGTTTCAGG 57.486 39.130 0.00 0.00 0.00 3.86
3699 7400 4.431416 TGGTTAGCTTCTTGTTTCAGGA 57.569 40.909 0.00 0.00 0.00 3.86
3700 7401 4.389374 TGGTTAGCTTCTTGTTTCAGGAG 58.611 43.478 0.00 0.00 0.00 3.69
3701 7402 4.141482 TGGTTAGCTTCTTGTTTCAGGAGT 60.141 41.667 0.00 0.00 0.00 3.85
3702 7403 4.822350 GGTTAGCTTCTTGTTTCAGGAGTT 59.178 41.667 0.00 0.00 0.00 3.01
3703 7404 5.278022 GGTTAGCTTCTTGTTTCAGGAGTTG 60.278 44.000 0.00 0.00 0.00 3.16
3704 7405 2.620585 AGCTTCTTGTTTCAGGAGTTGC 59.379 45.455 0.00 0.00 0.00 4.17
3705 7406 2.603173 GCTTCTTGTTTCAGGAGTTGCG 60.603 50.000 0.00 0.00 0.00 4.85
3706 7407 2.613026 TCTTGTTTCAGGAGTTGCGA 57.387 45.000 0.00 0.00 0.00 5.10
3707 7408 2.912771 TCTTGTTTCAGGAGTTGCGAA 58.087 42.857 0.00 0.00 0.00 4.70
3708 7409 3.275143 TCTTGTTTCAGGAGTTGCGAAA 58.725 40.909 0.00 0.00 0.00 3.46
3709 7410 3.692101 TCTTGTTTCAGGAGTTGCGAAAA 59.308 39.130 0.00 0.00 30.91 2.29
3710 7411 3.414549 TGTTTCAGGAGTTGCGAAAAC 57.585 42.857 0.00 0.00 30.91 2.43
3711 7412 2.750166 TGTTTCAGGAGTTGCGAAAACA 59.250 40.909 4.51 0.00 30.91 2.83
3712 7413 3.191581 TGTTTCAGGAGTTGCGAAAACAA 59.808 39.130 4.51 0.00 30.91 2.83
3713 7414 4.170256 GTTTCAGGAGTTGCGAAAACAAA 58.830 39.130 4.51 0.00 30.91 2.83
3714 7415 4.442375 TTCAGGAGTTGCGAAAACAAAA 57.558 36.364 4.51 0.00 0.00 2.44
3715 7416 3.765026 TCAGGAGTTGCGAAAACAAAAC 58.235 40.909 4.51 0.00 0.00 2.43
3716 7417 3.191581 TCAGGAGTTGCGAAAACAAAACA 59.808 39.130 4.51 0.00 0.00 2.83
3717 7418 3.923461 CAGGAGTTGCGAAAACAAAACAA 59.077 39.130 4.51 0.00 0.00 2.83
3718 7419 4.387256 CAGGAGTTGCGAAAACAAAACAAA 59.613 37.500 4.51 0.00 0.00 2.83
3719 7420 4.991687 AGGAGTTGCGAAAACAAAACAAAA 59.008 33.333 4.51 0.00 0.00 2.44
3720 7421 5.467063 AGGAGTTGCGAAAACAAAACAAAAA 59.533 32.000 4.51 0.00 0.00 1.94
3831 7575 2.206576 ATTCAGTTCAGGGCCAGAAC 57.793 50.000 28.58 28.58 44.32 3.01
3837 7581 0.693049 TTCAGGGCCAGAACTTCTCC 59.307 55.000 7.35 0.00 0.00 3.71
3857 7601 2.213499 CGTTTCTGCAGGACAAGAGTT 58.787 47.619 15.13 0.00 0.00 3.01
3877 7623 7.049133 AGAGTTCAGGAATCAGAGAATGAATG 58.951 38.462 0.00 0.00 42.53 2.67
3895 7641 2.766345 TGAAATGGCTTTGAATGGGC 57.234 45.000 0.00 0.00 0.00 5.36
3897 7643 2.027929 TGAAATGGCTTTGAATGGGCAG 60.028 45.455 0.00 0.00 41.10 4.85
3898 7644 0.906775 AATGGCTTTGAATGGGCAGG 59.093 50.000 0.00 0.00 41.10 4.85
3900 7646 0.178938 TGGCTTTGAATGGGCAGGAA 60.179 50.000 0.00 0.00 34.08 3.36
3901 7647 0.247460 GGCTTTGAATGGGCAGGAAC 59.753 55.000 0.00 0.00 0.00 3.62
3902 7648 0.968405 GCTTTGAATGGGCAGGAACA 59.032 50.000 0.00 0.00 0.00 3.18
3903 7649 1.067354 GCTTTGAATGGGCAGGAACAG 60.067 52.381 0.00 0.00 0.00 3.16
3904 7650 1.547372 CTTTGAATGGGCAGGAACAGG 59.453 52.381 0.00 0.00 0.00 4.00
3906 7652 0.329261 TGAATGGGCAGGAACAGGAG 59.671 55.000 0.00 0.00 0.00 3.69
3907 7653 0.394899 GAATGGGCAGGAACAGGAGG 60.395 60.000 0.00 0.00 0.00 4.30
3908 7654 1.142688 AATGGGCAGGAACAGGAGGT 61.143 55.000 0.00 0.00 0.00 3.85
3909 7655 1.142688 ATGGGCAGGAACAGGAGGTT 61.143 55.000 0.00 0.00 44.10 3.50
3910 7656 1.303643 GGGCAGGAACAGGAGGTTG 60.304 63.158 0.00 0.00 40.63 3.77
3913 7659 0.890996 GCAGGAACAGGAGGTTGGTG 60.891 60.000 0.00 0.00 40.63 4.17
3915 7661 0.765510 AGGAACAGGAGGTTGGTGAC 59.234 55.000 0.00 0.00 40.63 3.67
3965 7855 1.534595 GAGCCTTCAGTGTTGCTCTTG 59.465 52.381 17.89 0.00 45.21 3.02
3966 7856 1.141657 AGCCTTCAGTGTTGCTCTTGA 59.858 47.619 0.00 0.00 0.00 3.02
3970 7860 3.683822 CCTTCAGTGTTGCTCTTGAGATC 59.316 47.826 1.30 0.00 0.00 2.75
3975 7865 4.458295 CAGTGTTGCTCTTGAGATCCAAAT 59.542 41.667 1.30 0.00 33.76 2.32
3986 7876 3.443681 TGAGATCCAAATTTTTCCGAGGC 59.556 43.478 0.00 0.00 0.00 4.70
4013 7984 1.556911 ACTTGATCACCTTCCGCAGAT 59.443 47.619 0.00 0.00 0.00 2.90
4050 8023 6.321717 TCCAATTTAAAGCAGCATAAACTCG 58.678 36.000 0.00 0.00 0.00 4.18
4052 8025 6.586082 CCAATTTAAAGCAGCATAAACTCGTT 59.414 34.615 0.00 0.00 0.00 3.85
4056 8029 9.855021 ATTTAAAGCAGCATAAACTCGTTAAAT 57.145 25.926 0.00 0.00 0.00 1.40
4057 8030 8.667987 TTAAAGCAGCATAAACTCGTTAAATG 57.332 30.769 0.00 0.00 0.00 2.32
4058 8031 6.494893 AAGCAGCATAAACTCGTTAAATGA 57.505 33.333 0.00 0.00 0.00 2.57
4059 8032 6.683974 AGCAGCATAAACTCGTTAAATGAT 57.316 33.333 0.00 1.45 0.00 2.45
4060 8033 7.786178 AGCAGCATAAACTCGTTAAATGATA 57.214 32.000 0.00 0.00 0.00 2.15
4061 8034 7.630924 AGCAGCATAAACTCGTTAAATGATAC 58.369 34.615 0.00 0.04 0.00 2.24
4062 8035 6.570058 GCAGCATAAACTCGTTAAATGATACG 59.430 38.462 8.43 0.00 39.03 3.06
4129 8111 0.612229 ACCACAGAGCAGGACATCTG 59.388 55.000 0.81 0.81 46.76 2.90
4184 8168 5.106396 GCATCTGCCATCACCTTATTACATC 60.106 44.000 0.00 0.00 34.31 3.06
4194 8181 9.046846 CATCACCTTATTACATCCTCCCTATAA 57.953 37.037 0.00 0.00 0.00 0.98
4284 8293 2.751259 GTGCAGAGAGAATGCCATCAAA 59.249 45.455 0.00 0.00 43.18 2.69
4285 8294 2.751259 TGCAGAGAGAATGCCATCAAAC 59.249 45.455 0.00 0.00 43.18 2.93
4341 8351 7.797819 ACGAGACATTTTCTAGTTGTCAAATC 58.202 34.615 15.17 7.49 36.87 2.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
57 58 1.440938 CGTTCGGGTTGTTTCTGCCA 61.441 55.000 0.00 0.00 0.00 4.92
59 60 1.161563 TCCGTTCGGGTTGTTTCTGC 61.162 55.000 11.37 0.00 37.00 4.26
99 100 2.122547 AACCGACCTGGGACCAGT 60.123 61.111 16.61 5.51 44.64 4.00
134 135 5.423290 TCGGCATGTCCATTATCATCTAGAT 59.577 40.000 0.00 0.00 36.36 1.98
137 138 4.283212 TGTCGGCATGTCCATTATCATCTA 59.717 41.667 6.92 0.00 34.01 1.98
138 139 3.071457 TGTCGGCATGTCCATTATCATCT 59.929 43.478 6.92 0.00 34.01 2.90
155 156 3.315191 CCTAATAAACTTGCCCATGTCGG 59.685 47.826 0.00 0.00 0.00 4.79
156 157 3.315191 CCCTAATAAACTTGCCCATGTCG 59.685 47.826 0.00 0.00 0.00 4.35
195 197 1.206811 CCCCACCCCCATTGCATTTT 61.207 55.000 0.00 0.00 0.00 1.82
258 3603 2.597510 GTGGGCTGGTTCCACCAC 60.598 66.667 13.34 13.34 44.79 4.16
324 3669 1.298157 CGAACATCGCTGGAAAGCCA 61.298 55.000 0.00 0.00 43.25 4.75
333 3678 3.120199 CCTTTCATTGAACGAACATCGCT 60.120 43.478 4.57 0.00 45.12 4.93
336 3681 4.406943 GCTCCTTTCATTGAACGAACATC 58.593 43.478 4.57 0.00 0.00 3.06
348 3693 2.105766 GGCAGAAATGGCTCCTTTCAT 58.894 47.619 9.34 0.00 35.51 2.57
354 3699 1.745653 GTAGTTGGCAGAAATGGCTCC 59.254 52.381 3.39 0.00 35.21 4.70
358 3703 2.223340 GCATCGTAGTTGGCAGAAATGG 60.223 50.000 0.00 0.00 0.00 3.16
360 3705 1.665679 CGCATCGTAGTTGGCAGAAAT 59.334 47.619 0.00 0.00 0.00 2.17
365 3710 1.005512 ACACGCATCGTAGTTGGCA 60.006 52.632 0.00 0.00 38.32 4.92
367 3712 1.324435 CATCACACGCATCGTAGTTGG 59.676 52.381 0.00 0.00 38.32 3.77
401 3748 3.792401 ACTGAACGAACACAACATCTCA 58.208 40.909 0.00 0.00 0.00 3.27
402 3749 4.051922 AGACTGAACGAACACAACATCTC 58.948 43.478 0.00 0.00 0.00 2.75
414 3761 1.535896 CACCTTCGAGAGACTGAACGA 59.464 52.381 0.00 0.00 41.84 3.85
415 3762 1.970447 CACCTTCGAGAGACTGAACG 58.030 55.000 0.00 0.00 41.84 3.95
451 3839 6.883744 TCACCTCTATATTGTACACATGCAA 58.116 36.000 0.00 0.00 34.70 4.08
453 3841 6.422100 CACTCACCTCTATATTGTACACATGC 59.578 42.308 0.00 0.00 0.00 4.06
455 3843 7.661536 ACACTCACCTCTATATTGTACACAT 57.338 36.000 0.00 0.00 0.00 3.21
456 3844 8.630037 CATACACTCACCTCTATATTGTACACA 58.370 37.037 0.00 0.00 0.00 3.72
457 3845 8.630917 ACATACACTCACCTCTATATTGTACAC 58.369 37.037 0.00 0.00 0.00 2.90
458 3846 8.630037 CACATACACTCACCTCTATATTGTACA 58.370 37.037 0.00 0.00 0.00 2.90
459 3847 8.847196 TCACATACACTCACCTCTATATTGTAC 58.153 37.037 0.00 0.00 0.00 2.90
460 3848 8.990163 TCACATACACTCACCTCTATATTGTA 57.010 34.615 0.00 0.00 0.00 2.41
461 3849 7.470702 GCTCACATACACTCACCTCTATATTGT 60.471 40.741 0.00 0.00 0.00 2.71
462 3850 6.865726 GCTCACATACACTCACCTCTATATTG 59.134 42.308 0.00 0.00 0.00 1.90
463 3851 6.294231 CGCTCACATACACTCACCTCTATATT 60.294 42.308 0.00 0.00 0.00 1.28
464 3852 5.182190 CGCTCACATACACTCACCTCTATAT 59.818 44.000 0.00 0.00 0.00 0.86
465 3853 4.515567 CGCTCACATACACTCACCTCTATA 59.484 45.833 0.00 0.00 0.00 1.31
466 3854 3.316588 CGCTCACATACACTCACCTCTAT 59.683 47.826 0.00 0.00 0.00 1.98
467 3855 2.683362 CGCTCACATACACTCACCTCTA 59.317 50.000 0.00 0.00 0.00 2.43
468 3856 1.474478 CGCTCACATACACTCACCTCT 59.526 52.381 0.00 0.00 0.00 3.69
469 3857 1.202582 ACGCTCACATACACTCACCTC 59.797 52.381 0.00 0.00 0.00 3.85
470 3858 1.202582 GACGCTCACATACACTCACCT 59.797 52.381 0.00 0.00 0.00 4.00
471 3859 1.067846 TGACGCTCACATACACTCACC 60.068 52.381 0.00 0.00 0.00 4.02
472 3860 2.347697 TGACGCTCACATACACTCAC 57.652 50.000 0.00 0.00 0.00 3.51
473 3861 3.056891 TCAATGACGCTCACATACACTCA 60.057 43.478 0.00 0.00 0.00 3.41
474 3862 3.511699 TCAATGACGCTCACATACACTC 58.488 45.455 0.00 0.00 0.00 3.51
475 3863 3.592898 TCAATGACGCTCACATACACT 57.407 42.857 0.00 0.00 0.00 3.55
476 3864 3.618594 ACATCAATGACGCTCACATACAC 59.381 43.478 0.00 0.00 0.00 2.90
477 3865 3.860641 ACATCAATGACGCTCACATACA 58.139 40.909 0.00 0.00 0.00 2.29
478 3866 5.043903 ACTACATCAATGACGCTCACATAC 58.956 41.667 0.00 0.00 0.00 2.39
479 3867 5.043248 CACTACATCAATGACGCTCACATA 58.957 41.667 0.00 0.00 0.00 2.29
480 3868 3.867493 CACTACATCAATGACGCTCACAT 59.133 43.478 0.00 0.00 0.00 3.21
481 3869 3.253230 CACTACATCAATGACGCTCACA 58.747 45.455 0.00 0.00 0.00 3.58
482 3870 3.061295 CACACTACATCAATGACGCTCAC 59.939 47.826 0.00 0.00 0.00 3.51
483 3871 3.253230 CACACTACATCAATGACGCTCA 58.747 45.455 0.00 0.00 0.00 4.26
484 3872 3.254060 ACACACTACATCAATGACGCTC 58.746 45.455 0.00 0.00 0.00 5.03
485 3873 3.319137 ACACACTACATCAATGACGCT 57.681 42.857 0.00 0.00 0.00 5.07
486 3874 5.524511 TTAACACACTACATCAATGACGC 57.475 39.130 0.00 0.00 0.00 5.19
487 3875 7.853437 TGTTTTTAACACACTACATCAATGACG 59.147 33.333 0.00 0.00 36.25 4.35
488 3876 9.509855 TTGTTTTTAACACACTACATCAATGAC 57.490 29.630 0.00 0.00 41.97 3.06
489 3877 9.729023 CTTGTTTTTAACACACTACATCAATGA 57.271 29.630 0.00 0.00 41.97 2.57
490 3878 9.729023 TCTTGTTTTTAACACACTACATCAATG 57.271 29.630 0.00 0.00 41.97 2.82
514 3902 8.946085 TCTCACGTCAAATTTATAGCAAAATCT 58.054 29.630 0.00 0.00 0.00 2.40
519 3907 8.492673 AGAATCTCACGTCAAATTTATAGCAA 57.507 30.769 0.00 0.00 0.00 3.91
537 3925 6.286758 TCAATCTGCCATGTCTAAGAATCTC 58.713 40.000 0.00 0.00 0.00 2.75
543 3931 5.426504 AGAGTTCAATCTGCCATGTCTAAG 58.573 41.667 0.00 0.00 0.00 2.18
559 3947 3.616956 ATTTGCCATCTCGAGAGTTCA 57.383 42.857 21.52 14.18 0.00 3.18
560 3948 7.897575 ATATAATTTGCCATCTCGAGAGTTC 57.102 36.000 21.52 11.79 0.00 3.01
575 3963 6.017192 TCACATCCTCGTGGCAATATAATTTG 60.017 38.462 0.00 0.00 37.50 2.32
589 3977 5.705441 TGCTAAAGAAAATTCACATCCTCGT 59.295 36.000 0.00 0.00 0.00 4.18
590 3978 6.182039 TGCTAAAGAAAATTCACATCCTCG 57.818 37.500 0.00 0.00 0.00 4.63
594 3982 6.151691 TGTGCTGCTAAAGAAAATTCACATC 58.848 36.000 0.00 0.00 0.00 3.06
599 3987 4.386954 GCCTTGTGCTGCTAAAGAAAATTC 59.613 41.667 13.96 0.00 36.87 2.17
679 4068 3.914312 ACTATGTTGTCGTGAGGAACAG 58.086 45.455 0.00 0.00 37.31 3.16
681 4072 4.610680 GCAAACTATGTTGTCGTGAGGAAC 60.611 45.833 0.00 0.00 0.00 3.62
682 4073 3.496884 GCAAACTATGTTGTCGTGAGGAA 59.503 43.478 0.00 0.00 0.00 3.36
688 4079 6.380095 TTTTAAGGCAAACTATGTTGTCGT 57.620 33.333 0.00 0.00 38.17 4.34
718 4110 4.378978 CGGATTTTTAGACACGGCAAATCA 60.379 41.667 0.00 0.00 36.13 2.57
740 4132 4.006989 TGGGTACTTGAAAATGGACATCG 58.993 43.478 0.00 0.00 0.00 3.84
744 4136 5.784578 AGTTTGGGTACTTGAAAATGGAC 57.215 39.130 0.00 0.00 0.00 4.02
745 4137 6.800072 AAAGTTTGGGTACTTGAAAATGGA 57.200 33.333 0.00 0.00 38.33 3.41
781 4173 7.568433 TGCGTGGTTTAATTTTGCTTAATTTC 58.432 30.769 2.68 0.00 0.00 2.17
797 4202 0.173255 GCAGCCATTATGCGTGGTTT 59.827 50.000 0.00 0.00 39.01 3.27
820 4225 1.006825 TCGTGCTTCGAACCGACATG 61.007 55.000 0.00 0.00 45.98 3.21
850 4258 4.191485 GTTGATCGGCGTCGCGTG 62.191 66.667 11.75 6.44 36.13 5.34
926 4334 2.875188 TCTGGAAGAGAGAGGCGTC 58.125 57.895 0.00 0.00 38.67 5.19
938 4350 6.996879 GGAGATCTGATTGATTTGATCTGGAA 59.003 38.462 0.00 0.00 43.67 3.53
963 4375 2.570135 GCTAAGCTGGGGAGAAGAATG 58.430 52.381 0.00 0.00 0.00 2.67
979 4397 3.145551 GTCGAGGGAGCGGGCTAA 61.146 66.667 0.00 0.00 0.00 3.09
1510 4953 0.535797 CGGGGAAGTCCTTGAGGTAC 59.464 60.000 0.00 0.00 36.34 3.34
2003 5632 4.394712 CCTCTTCTTGCCGCCGGT 62.395 66.667 4.45 0.00 0.00 5.28
2131 5760 2.701780 CGTGAGCTGGGCGTACTCT 61.702 63.158 0.00 0.00 0.00 3.24
2527 6156 3.002583 TCCATGCTGCCGGAGACA 61.003 61.111 5.05 0.00 0.00 3.41
2636 6265 2.801631 GGTGGATCTCGGGCCTCTG 61.802 68.421 0.84 0.00 0.00 3.35
2700 6331 2.679837 GTGTTCATGTCCCACTGCATAG 59.320 50.000 0.00 0.00 0.00 2.23
2815 6446 0.526211 CCTCGTCGAACTCCATGTCA 59.474 55.000 0.00 0.00 0.00 3.58
3032 6690 5.418676 GTTCTTCAGGAAGATCTTGAGGAG 58.581 45.833 14.00 6.53 45.78 3.69
3154 6823 9.507329 AAAAGAACTGATCAAACTAAGCTGATA 57.493 29.630 0.00 0.00 32.40 2.15
3220 6889 2.101415 GCATTAGAAGGCATGGGGTTTC 59.899 50.000 0.00 0.00 35.46 2.78
3224 6893 1.779221 TTGCATTAGAAGGCATGGGG 58.221 50.000 2.04 0.00 45.77 4.96
3225 6894 3.508793 CCTATTGCATTAGAAGGCATGGG 59.491 47.826 15.59 2.40 45.77 4.00
3234 6903 7.335673 TCAATGACGAAAACCTATTGCATTAGA 59.664 33.333 15.59 0.00 0.00 2.10
3236 6905 7.384439 TCAATGACGAAAACCTATTGCATTA 57.616 32.000 0.00 0.00 0.00 1.90
3251 6920 4.322567 TCAACCATCATGTTCAATGACGA 58.677 39.130 0.00 0.00 0.00 4.20
3256 6925 5.503927 ACTAGCTCAACCATCATGTTCAAT 58.496 37.500 0.00 0.00 0.00 2.57
3277 6946 6.058183 GCTAAACCATGACAATCATCCTACT 58.942 40.000 0.00 0.00 34.28 2.57
3290 6959 8.107095 ACTAAACTGGATAAAGCTAAACCATGA 58.893 33.333 0.00 0.00 0.00 3.07
3331 7001 5.733620 AGTTCATTCATGCACTCCAAATT 57.266 34.783 0.00 0.00 28.02 1.82
3416 7086 7.007723 AGAGAGAGAGAGAAAAGGTTACAAGA 58.992 38.462 0.00 0.00 0.00 3.02
3430 7100 2.749076 CACACCACAGAGAGAGAGAGAG 59.251 54.545 0.00 0.00 0.00 3.20
3442 7112 1.202806 AGTCCAATCACCACACCACAG 60.203 52.381 0.00 0.00 0.00 3.66
3449 7119 4.579869 ACAGTATCAAGTCCAATCACCAC 58.420 43.478 0.00 0.00 0.00 4.16
3463 7133 4.703093 TCAGTGGACGATGTTACAGTATCA 59.297 41.667 0.00 0.00 0.00 2.15
3466 7136 4.430137 GTCAGTGGACGATGTTACAGTA 57.570 45.455 0.00 0.00 33.68 2.74
3467 7137 3.299340 GTCAGTGGACGATGTTACAGT 57.701 47.619 0.00 0.00 33.68 3.55
3521 7209 2.294233 TGCAGGAACAAAGAAGCATGTC 59.706 45.455 0.00 0.00 0.00 3.06
3599 7292 5.927689 CACCACAACAATTGTATTTCAGCAT 59.072 36.000 12.39 0.00 43.23 3.79
3636 7329 1.668419 CGGATAAAGGGCAGGAACAG 58.332 55.000 0.00 0.00 0.00 3.16
3642 7335 3.277142 ACTAAACCGGATAAAGGGCAG 57.723 47.619 9.46 0.00 0.00 4.85
3653 7346 1.877443 CACCAGGACAAACTAAACCGG 59.123 52.381 0.00 0.00 0.00 5.28
3668 7369 4.918810 AGAAGCTAACCAAAAACACCAG 57.081 40.909 0.00 0.00 0.00 4.00
3678 7379 4.141482 ACTCCTGAAACAAGAAGCTAACCA 60.141 41.667 0.00 0.00 0.00 3.67
3679 7380 4.390264 ACTCCTGAAACAAGAAGCTAACC 58.610 43.478 0.00 0.00 0.00 2.85
3680 7381 5.752712 CAACTCCTGAAACAAGAAGCTAAC 58.247 41.667 0.00 0.00 0.00 2.34
3682 7383 3.815401 GCAACTCCTGAAACAAGAAGCTA 59.185 43.478 0.00 0.00 0.00 3.32
3683 7384 2.620585 GCAACTCCTGAAACAAGAAGCT 59.379 45.455 0.00 0.00 0.00 3.74
3684 7385 2.603173 CGCAACTCCTGAAACAAGAAGC 60.603 50.000 0.00 0.00 0.00 3.86
3685 7386 2.872245 TCGCAACTCCTGAAACAAGAAG 59.128 45.455 0.00 0.00 0.00 2.85
3686 7387 2.912771 TCGCAACTCCTGAAACAAGAA 58.087 42.857 0.00 0.00 0.00 2.52
3687 7388 2.613026 TCGCAACTCCTGAAACAAGA 57.387 45.000 0.00 0.00 0.00 3.02
3688 7389 3.691049 TTTCGCAACTCCTGAAACAAG 57.309 42.857 0.00 0.00 0.00 3.16
3689 7390 3.191581 TGTTTTCGCAACTCCTGAAACAA 59.808 39.130 0.00 0.00 31.81 2.83
3690 7391 2.750166 TGTTTTCGCAACTCCTGAAACA 59.250 40.909 0.00 0.00 31.81 2.83
3691 7392 3.414549 TGTTTTCGCAACTCCTGAAAC 57.585 42.857 0.00 0.00 31.81 2.78
3692 7393 4.442375 TTTGTTTTCGCAACTCCTGAAA 57.558 36.364 0.00 0.00 0.00 2.69
3693 7394 4.170256 GTTTTGTTTTCGCAACTCCTGAA 58.830 39.130 0.00 0.00 0.00 3.02
3694 7395 3.191581 TGTTTTGTTTTCGCAACTCCTGA 59.808 39.130 0.00 0.00 0.00 3.86
3695 7396 3.506810 TGTTTTGTTTTCGCAACTCCTG 58.493 40.909 0.00 0.00 0.00 3.86
3696 7397 3.859411 TGTTTTGTTTTCGCAACTCCT 57.141 38.095 0.00 0.00 0.00 3.69
3697 7398 4.912528 TTTGTTTTGTTTTCGCAACTCC 57.087 36.364 0.00 0.00 0.00 3.85
3727 7428 7.614124 AAAGCAACATGTTCAACAGATTTTT 57.386 28.000 8.48 0.00 0.00 1.94
3728 7429 7.981225 ACTAAAGCAACATGTTCAACAGATTTT 59.019 29.630 8.48 4.95 0.00 1.82
3729 7430 7.491682 ACTAAAGCAACATGTTCAACAGATTT 58.508 30.769 8.48 10.75 0.00 2.17
3730 7431 7.042797 ACTAAAGCAACATGTTCAACAGATT 57.957 32.000 8.48 0.00 0.00 2.40
3731 7432 6.639632 ACTAAAGCAACATGTTCAACAGAT 57.360 33.333 8.48 0.00 0.00 2.90
3831 7575 1.270305 TGTCCTGCAGAAACGGAGAAG 60.270 52.381 17.39 0.00 0.00 2.85
3837 7581 1.871080 ACTCTTGTCCTGCAGAAACG 58.129 50.000 17.39 0.00 0.00 3.60
3857 7601 7.284716 CCATTTCATTCATTCTCTGATTCCTGA 59.715 37.037 0.00 0.00 32.72 3.86
3877 7623 2.624636 CTGCCCATTCAAAGCCATTTC 58.375 47.619 0.00 0.00 0.00 2.17
3895 7641 0.764890 TCACCAACCTCCTGTTCCTG 59.235 55.000 0.00 0.00 34.00 3.86
3897 7643 0.250770 GGTCACCAACCTCCTGTTCC 60.251 60.000 0.00 0.00 45.45 3.62
3898 7644 3.324207 GGTCACCAACCTCCTGTTC 57.676 57.895 0.00 0.00 45.45 3.18
3907 7653 3.067833 GAGAAGTTGCTAGGTCACCAAC 58.932 50.000 0.00 0.00 39.20 3.77
3908 7654 2.038557 GGAGAAGTTGCTAGGTCACCAA 59.961 50.000 0.00 0.00 0.00 3.67
3909 7655 1.623811 GGAGAAGTTGCTAGGTCACCA 59.376 52.381 0.00 0.00 0.00 4.17
3910 7656 1.404315 CGGAGAAGTTGCTAGGTCACC 60.404 57.143 0.00 0.00 0.00 4.02
3913 7659 0.533032 AGCGGAGAAGTTGCTAGGTC 59.467 55.000 0.00 0.00 37.15 3.85
3915 7661 0.532573 TCAGCGGAGAAGTTGCTAGG 59.467 55.000 0.00 0.00 37.15 3.02
3917 7663 0.246635 GGTCAGCGGAGAAGTTGCTA 59.753 55.000 0.00 0.00 37.15 3.49
3920 7666 2.383527 GCGGTCAGCGGAGAAGTTG 61.384 63.158 0.00 0.00 35.41 3.16
3921 7667 2.048127 GCGGTCAGCGGAGAAGTT 60.048 61.111 0.00 0.00 35.41 2.66
3965 7855 3.181486 GGCCTCGGAAAAATTTGGATCTC 60.181 47.826 0.00 0.00 0.00 2.75
3966 7856 2.760650 GGCCTCGGAAAAATTTGGATCT 59.239 45.455 0.00 0.00 0.00 2.75
3970 7860 3.416955 CGGCCTCGGAAAAATTTGG 57.583 52.632 0.00 0.00 0.00 3.28
3986 7876 0.246635 AAGGTGATCAAGTCGACCGG 59.753 55.000 13.01 0.00 34.89 5.28
3989 7879 1.630148 CGGAAGGTGATCAAGTCGAC 58.370 55.000 7.70 7.70 0.00 4.20
3990 7880 0.108804 GCGGAAGGTGATCAAGTCGA 60.109 55.000 0.00 0.00 0.00 4.20
4013 7984 7.398618 TGCTTTAAATTGGATGAGGAATAACCA 59.601 33.333 0.00 0.00 42.04 3.67
4056 8029 8.767085 CCAACTTTGTTTTAGTTCTACGTATCA 58.233 33.333 0.00 0.00 33.73 2.15
4057 8030 8.225777 CCCAACTTTGTTTTAGTTCTACGTATC 58.774 37.037 0.00 0.00 33.73 2.24
4058 8031 7.173735 CCCCAACTTTGTTTTAGTTCTACGTAT 59.826 37.037 0.00 0.00 33.73 3.06
4059 8032 6.482973 CCCCAACTTTGTTTTAGTTCTACGTA 59.517 38.462 0.00 0.00 33.73 3.57
4060 8033 5.297527 CCCCAACTTTGTTTTAGTTCTACGT 59.702 40.000 0.00 0.00 33.73 3.57
4061 8034 5.754778 CCCCAACTTTGTTTTAGTTCTACG 58.245 41.667 0.00 0.00 33.73 3.51
4062 8035 5.068067 TGCCCCAACTTTGTTTTAGTTCTAC 59.932 40.000 0.00 0.00 33.73 2.59
4129 8111 9.175312 TGTATCTTATATCCGGTCTGTATCTTC 57.825 37.037 0.00 0.00 0.00 2.87
4184 8168 6.881602 GCCAACTATTCAGAATTATAGGGAGG 59.118 42.308 0.00 0.00 0.00 4.30
4194 8181 4.018960 ACTCCACTGCCAACTATTCAGAAT 60.019 41.667 0.20 0.20 0.00 2.40
4284 8293 3.133003 CCGGTTGTATCTCTGAATCCTGT 59.867 47.826 0.00 0.00 0.00 4.00
4285 8294 3.493350 CCCGGTTGTATCTCTGAATCCTG 60.493 52.174 0.00 0.00 0.00 3.86


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

AutoCloner maintained by Alex Coulton.