Multiple sequence alignment - TraesCS3B01G276500

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 TraesCS3B01G276500 chr3B 100.000 3939 0 0 1 3939 446632928 446636866 0.000000e+00 7275.0
1 TraesCS3B01G276500 chr3A 96.000 3275 86 14 219 3471 456923554 456920303 0.000000e+00 5280.0
2 TraesCS3B01G276500 chr3A 98.500 200 2 1 1 200 456924077 456923879 6.260000e-93 351.0
3 TraesCS3B01G276500 chr3D 97.217 3126 61 9 293 3407 346726701 346729811 0.000000e+00 5267.0
4 TraesCS3B01G276500 chr3D 99.528 212 0 1 1 212 346726052 346726262 6.170000e-103 385.0
5 TraesCS3B01G276500 chr3D 92.157 51 3 1 3422 3471 346729810 346729860 1.960000e-08 71.3


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS3B01G276500 chr3B 446632928 446636866 3938 False 7275.000000 7275 100.000000 1 3939 1 chr3B.!!$F1 3938
1 TraesCS3B01G276500 chr3A 456920303 456924077 3774 True 2815.500000 5280 97.250000 1 3471 2 chr3A.!!$R1 3470
2 TraesCS3B01G276500 chr3D 346726052 346729860 3808 False 1907.766667 5267 96.300667 1 3471 3 chr3D.!!$F1 3470

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
268 652 1.314730 AAAACACGCCTTGATTCCGT 58.685 45.000 0.0 0.0 35.29 4.69 F
693 1078 1.383523 GAGGCAGCATTTAGTCCACC 58.616 55.000 0.0 0.0 0.00 4.61 F
2548 2943 1.150081 GGACCAGCCCTGATGATGG 59.850 63.158 0.0 0.0 38.83 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1861 2254 2.142756 TGGCCCATGGGATAATTCAGA 58.857 47.619 36.00 2.87 37.5 3.27 R
2589 2984 0.112218 TTACCTGCACAATGGCCACT 59.888 50.000 8.16 0.00 0.0 4.00 R
3660 4069 0.108615 GAGCGAGCCTCTGTAAGCAA 60.109 55.000 0.00 0.00 37.6 3.91 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
222 529 2.409975 GCTAACGAGCCACAGTTAACA 58.590 47.619 8.61 0.00 43.49 2.41
249 556 4.841813 TGTAGAAGAGGAACACAACCCATA 59.158 41.667 0.00 0.00 0.00 2.74
268 652 1.314730 AAAACACGCCTTGATTCCGT 58.685 45.000 0.00 0.00 35.29 4.69
570 955 4.281657 AGGGAAGAATATCAAAAGGCCAC 58.718 43.478 5.01 0.00 0.00 5.01
690 1075 2.225467 GATGGAGGCAGCATTTAGTCC 58.775 52.381 0.00 0.00 0.00 3.85
693 1078 1.383523 GAGGCAGCATTTAGTCCACC 58.616 55.000 0.00 0.00 0.00 4.61
724 1109 8.882736 CATATCACTTCTTTACAATGCTACACA 58.117 33.333 0.00 0.00 0.00 3.72
747 1132 7.813627 CACAAACATGGTCAATTGTTATCATGA 59.186 33.333 21.19 0.00 35.09 3.07
769 1154 2.696775 TCACAAAGAGGGGTCCTACAA 58.303 47.619 0.00 0.00 31.76 2.41
770 1155 3.050089 TCACAAAGAGGGGTCCTACAAA 58.950 45.455 0.00 0.00 31.76 2.83
771 1156 3.146847 CACAAAGAGGGGTCCTACAAAC 58.853 50.000 0.00 0.00 31.76 2.93
772 1157 2.781174 ACAAAGAGGGGTCCTACAAACA 59.219 45.455 0.00 0.00 31.76 2.83
782 1167 5.047590 GGGGTCCTACAAACATAAGTTTTGG 60.048 44.000 0.00 0.00 45.32 3.28
1283 1676 4.102210 AGCCATATCTAGAGCATGTTGTGT 59.898 41.667 13.37 0.00 0.00 3.72
1563 1956 5.196341 TGAAGTCGTTTCATCTGTACACT 57.804 39.130 0.00 0.00 40.82 3.55
1709 2102 8.567948 TCCAGTGATCTTAAACATTTCAGAAAC 58.432 33.333 0.00 0.00 0.00 2.78
1800 2193 7.389053 CAGTGGCATTTACTTTAGAACTTCTCT 59.611 37.037 0.00 0.00 38.28 3.10
1801 2194 8.594550 AGTGGCATTTACTTTAGAACTTCTCTA 58.405 33.333 0.00 0.00 35.41 2.43
1890 2283 1.205966 CCCATGGGCCATTGTCAAAT 58.794 50.000 20.41 0.00 0.00 2.32
2410 2805 6.539173 TGAAGATAAACTCTGTAAAGCCCAA 58.461 36.000 0.00 0.00 33.29 4.12
2416 2811 5.959618 AACTCTGTAAAGCCCAATTACAC 57.040 39.130 0.00 0.00 38.10 2.90
2484 2879 8.244113 GCTCTACAAACAAAAATTATAGCCTGT 58.756 33.333 0.00 0.00 0.00 4.00
2515 2910 3.025322 AGATGCTACTGTCACTAGGCT 57.975 47.619 0.00 0.00 0.00 4.58
2548 2943 1.150081 GGACCAGCCCTGATGATGG 59.850 63.158 0.00 0.00 38.83 3.51
2589 2984 1.603456 TGCGTGGAATCTTGCTCAAA 58.397 45.000 0.00 0.00 0.00 2.69
2620 3015 3.181434 TGTGCAGGTAAGGTTTTCTCCAT 60.181 43.478 0.00 0.00 0.00 3.41
2642 3037 1.963515 GTTTCCCTTGAGCCATGTGTT 59.036 47.619 0.00 0.00 0.00 3.32
3055 3452 3.446799 CATGGGTGTGAATATTTTGCCG 58.553 45.455 0.00 0.00 0.00 5.69
3074 3471 2.223711 CCGGGCTGTAAATATTTGTGCC 60.224 50.000 22.03 22.03 38.28 5.01
3114 3511 2.030274 GTGTGGTGACCCAACATAAAGC 60.030 50.000 0.00 0.00 44.15 3.51
3123 3520 8.154856 GGTGACCCAACATAAAGCTAAGATATA 58.845 37.037 0.00 0.00 0.00 0.86
3172 3569 5.449553 AGTTCCCAGTCATTTCCATTATCC 58.550 41.667 0.00 0.00 0.00 2.59
3181 3578 2.971660 TTCCATTATCCGCGAACAGA 57.028 45.000 8.23 0.00 0.00 3.41
3251 3648 3.066621 TGCTTTGTTTCTCACGAGCATTT 59.933 39.130 0.00 0.00 39.16 2.32
3373 3775 2.481104 CGAACAGAGAAGAGGATCAGCC 60.481 54.545 0.00 0.00 37.82 4.85
3385 3793 0.972134 GATCAGCCCATCCGATCAGA 59.028 55.000 0.00 0.00 36.41 3.27
3388 3796 0.395686 CAGCCCATCCGATCAGACAT 59.604 55.000 0.00 0.00 0.00 3.06
3402 3810 6.155136 CGATCAGACATCAGCACTATGTTAT 58.845 40.000 0.00 0.00 37.69 1.89
3411 3819 0.859232 CACTATGTTATCGGTGGCGC 59.141 55.000 0.00 0.00 0.00 6.53
3415 3823 0.107897 ATGTTATCGGTGGCGCTCAA 60.108 50.000 7.64 0.00 0.00 3.02
3418 3826 1.436195 TTATCGGTGGCGCTCAATGC 61.436 55.000 7.64 0.00 38.57 3.56
3455 3863 0.733150 GCGTACCATTTCCTGCTTCC 59.267 55.000 0.00 0.00 0.00 3.46
3459 3868 0.779997 ACCATTTCCTGCTTCCTGGT 59.220 50.000 0.00 0.00 32.28 4.00
3489 3898 2.558313 GCGGCAGCTGTTCACTTC 59.442 61.111 16.64 0.00 41.01 3.01
3490 3899 2.253758 GCGGCAGCTGTTCACTTCA 61.254 57.895 16.64 0.00 41.01 3.02
3491 3900 1.864862 CGGCAGCTGTTCACTTCAG 59.135 57.895 16.64 0.00 36.18 3.02
3497 3906 3.011085 CTGTTCACTTCAGCAGCCA 57.989 52.632 0.00 0.00 0.00 4.75
3498 3907 0.873054 CTGTTCACTTCAGCAGCCAG 59.127 55.000 0.00 0.00 0.00 4.85
3499 3908 1.168407 TGTTCACTTCAGCAGCCAGC 61.168 55.000 0.00 0.00 46.19 4.85
3520 3929 2.697431 CCGAACGGCAAAAGATTGAA 57.303 45.000 0.00 0.00 38.94 2.69
3521 3930 2.584791 CCGAACGGCAAAAGATTGAAG 58.415 47.619 0.00 0.00 38.94 3.02
3522 3931 1.978782 CGAACGGCAAAAGATTGAAGC 59.021 47.619 0.00 0.00 38.94 3.86
3523 3932 2.328473 GAACGGCAAAAGATTGAAGCC 58.672 47.619 0.00 0.00 38.94 4.35
3524 3933 1.620822 ACGGCAAAAGATTGAAGCCT 58.379 45.000 0.00 0.00 43.07 4.58
3525 3934 1.270550 ACGGCAAAAGATTGAAGCCTG 59.729 47.619 0.00 0.00 43.07 4.85
3526 3935 1.270550 CGGCAAAAGATTGAAGCCTGT 59.729 47.619 0.00 0.00 43.07 4.00
3527 3936 2.680577 GGCAAAAGATTGAAGCCTGTG 58.319 47.619 0.00 0.00 42.01 3.66
3528 3937 2.036346 GGCAAAAGATTGAAGCCTGTGT 59.964 45.455 0.00 0.00 42.01 3.72
3529 3938 3.493176 GGCAAAAGATTGAAGCCTGTGTT 60.493 43.478 0.00 0.00 42.01 3.32
3530 3939 4.122046 GCAAAAGATTGAAGCCTGTGTTT 58.878 39.130 0.00 0.00 38.94 2.83
3531 3940 4.025480 GCAAAAGATTGAAGCCTGTGTTTG 60.025 41.667 0.00 0.00 38.94 2.93
3532 3941 4.326504 AAAGATTGAAGCCTGTGTTTGG 57.673 40.909 0.00 0.00 0.00 3.28
3533 3942 3.228188 AGATTGAAGCCTGTGTTTGGA 57.772 42.857 0.00 0.00 0.00 3.53
3534 3943 2.887152 AGATTGAAGCCTGTGTTTGGAC 59.113 45.455 0.00 0.00 0.00 4.02
3535 3944 1.021202 TTGAAGCCTGTGTTTGGACG 58.979 50.000 0.00 0.00 0.00 4.79
3536 3945 1.282875 GAAGCCTGTGTTTGGACGC 59.717 57.895 0.00 0.00 36.81 5.19
3537 3946 1.444119 GAAGCCTGTGTTTGGACGCA 61.444 55.000 0.00 0.00 43.59 5.24
3538 3947 0.823356 AAGCCTGTGTTTGGACGCAT 60.823 50.000 0.00 0.00 44.62 4.73
3539 3948 1.081242 GCCTGTGTTTGGACGCATG 60.081 57.895 0.00 0.00 44.62 4.06
3540 3949 1.514678 GCCTGTGTTTGGACGCATGA 61.515 55.000 0.00 0.00 44.62 3.07
3541 3950 0.950836 CCTGTGTTTGGACGCATGAA 59.049 50.000 0.00 0.00 44.62 2.57
3542 3951 1.541147 CCTGTGTTTGGACGCATGAAT 59.459 47.619 0.00 0.00 44.62 2.57
3543 3952 2.030007 CCTGTGTTTGGACGCATGAATT 60.030 45.455 0.00 0.00 44.62 2.17
3544 3953 2.981805 CTGTGTTTGGACGCATGAATTG 59.018 45.455 0.00 0.00 44.62 2.32
3545 3954 2.360483 TGTGTTTGGACGCATGAATTGT 59.640 40.909 0.00 0.00 41.12 2.71
3546 3955 2.725723 GTGTTTGGACGCATGAATTGTG 59.274 45.455 0.00 0.00 41.78 3.33
3547 3956 1.720852 GTTTGGACGCATGAATTGTGC 59.279 47.619 0.00 2.98 39.56 4.57
3557 3966 5.362556 GCATGAATTGTGCGGTATATTCT 57.637 39.130 0.00 0.00 32.29 2.40
3558 3967 5.149273 GCATGAATTGTGCGGTATATTCTG 58.851 41.667 0.00 0.00 32.29 3.02
3559 3968 5.049474 GCATGAATTGTGCGGTATATTCTGA 60.049 40.000 0.00 0.00 32.29 3.27
3560 3969 5.984233 TGAATTGTGCGGTATATTCTGAC 57.016 39.130 0.00 0.00 0.00 3.51
3561 3970 5.670485 TGAATTGTGCGGTATATTCTGACT 58.330 37.500 0.00 0.00 0.00 3.41
3562 3971 6.811954 TGAATTGTGCGGTATATTCTGACTA 58.188 36.000 0.00 0.00 0.00 2.59
3563 3972 6.923508 TGAATTGTGCGGTATATTCTGACTAG 59.076 38.462 0.00 0.00 0.00 2.57
3564 3973 4.848562 TGTGCGGTATATTCTGACTAGG 57.151 45.455 0.00 0.00 0.00 3.02
3565 3974 4.466827 TGTGCGGTATATTCTGACTAGGA 58.533 43.478 0.00 0.00 0.00 2.94
3566 3975 4.519350 TGTGCGGTATATTCTGACTAGGAG 59.481 45.833 0.00 0.00 0.00 3.69
3567 3976 4.079970 TGCGGTATATTCTGACTAGGAGG 58.920 47.826 0.00 0.00 0.00 4.30
3568 3977 3.119424 GCGGTATATTCTGACTAGGAGGC 60.119 52.174 0.00 0.00 0.00 4.70
3569 3978 4.079970 CGGTATATTCTGACTAGGAGGCA 58.920 47.826 0.00 0.00 0.00 4.75
3570 3979 4.523173 CGGTATATTCTGACTAGGAGGCAA 59.477 45.833 0.00 0.00 29.23 4.52
3571 3980 5.565045 CGGTATATTCTGACTAGGAGGCAAC 60.565 48.000 0.00 0.00 29.23 4.17
3587 3996 4.853924 GGCAACTGAATTTCTGAAGGAA 57.146 40.909 9.92 0.00 0.00 3.36
3588 3997 4.550422 GGCAACTGAATTTCTGAAGGAAC 58.450 43.478 9.92 0.00 33.13 3.62
3590 3999 5.473504 GGCAACTGAATTTCTGAAGGAACTA 59.526 40.000 9.92 0.00 38.49 2.24
3591 4000 6.374578 GCAACTGAATTTCTGAAGGAACTAC 58.625 40.000 9.92 0.00 38.49 2.73
3592 4001 6.205658 GCAACTGAATTTCTGAAGGAACTACT 59.794 38.462 9.92 0.00 38.49 2.57
3593 4002 7.572168 GCAACTGAATTTCTGAAGGAACTACTC 60.572 40.741 9.92 0.00 38.49 2.59
3594 4003 6.468543 ACTGAATTTCTGAAGGAACTACTCC 58.531 40.000 9.92 0.00 45.81 3.85
3595 4004 5.805728 TGAATTTCTGAAGGAACTACTCCC 58.194 41.667 0.00 0.00 46.81 4.30
3596 4005 5.548056 TGAATTTCTGAAGGAACTACTCCCT 59.452 40.000 0.00 0.00 46.81 4.20
3597 4006 6.044404 TGAATTTCTGAAGGAACTACTCCCTT 59.956 38.462 0.00 0.00 46.81 3.95
3598 4007 4.891992 TTCTGAAGGAACTACTCCCTTG 57.108 45.455 0.00 0.00 46.81 3.61
3599 4008 3.173965 TCTGAAGGAACTACTCCCTTGG 58.826 50.000 0.00 0.00 46.81 3.61
3600 4009 2.907042 CTGAAGGAACTACTCCCTTGGT 59.093 50.000 0.00 0.00 46.81 3.67
3601 4010 2.904434 TGAAGGAACTACTCCCTTGGTC 59.096 50.000 0.00 0.00 46.81 4.02
3602 4011 1.954035 AGGAACTACTCCCTTGGTCC 58.046 55.000 0.00 0.00 46.81 4.46
3603 4012 0.910338 GGAACTACTCCCTTGGTCCC 59.090 60.000 0.00 0.00 38.44 4.46
3604 4013 1.652947 GAACTACTCCCTTGGTCCCA 58.347 55.000 0.00 0.00 0.00 4.37
3605 4014 2.197465 GAACTACTCCCTTGGTCCCAT 58.803 52.381 0.00 0.00 0.00 4.00
3606 4015 3.381335 GAACTACTCCCTTGGTCCCATA 58.619 50.000 0.00 0.00 0.00 2.74
3607 4016 3.502051 ACTACTCCCTTGGTCCCATAA 57.498 47.619 0.00 0.00 0.00 1.90
3608 4017 4.022359 ACTACTCCCTTGGTCCCATAAT 57.978 45.455 0.00 0.00 0.00 1.28
3609 4018 5.166013 ACTACTCCCTTGGTCCCATAATA 57.834 43.478 0.00 0.00 0.00 0.98
3610 4019 5.544682 ACTACTCCCTTGGTCCCATAATAA 58.455 41.667 0.00 0.00 0.00 1.40
3611 4020 5.607171 ACTACTCCCTTGGTCCCATAATAAG 59.393 44.000 0.00 0.00 0.00 1.73
3612 4021 3.722101 ACTCCCTTGGTCCCATAATAAGG 59.278 47.826 0.00 0.00 38.07 2.69
3613 4022 3.980698 CTCCCTTGGTCCCATAATAAGGA 59.019 47.826 5.21 0.00 40.18 3.36
3614 4023 3.980698 TCCCTTGGTCCCATAATAAGGAG 59.019 47.826 5.21 0.00 40.18 3.69
3615 4024 3.980698 CCCTTGGTCCCATAATAAGGAGA 59.019 47.826 5.21 0.00 40.18 3.71
3616 4025 4.415512 CCCTTGGTCCCATAATAAGGAGAA 59.584 45.833 5.21 0.00 40.18 2.87
3617 4026 5.377478 CCTTGGTCCCATAATAAGGAGAAC 58.623 45.833 0.00 0.00 40.18 3.01
3618 4027 5.132816 CCTTGGTCCCATAATAAGGAGAACT 59.867 44.000 0.00 0.00 40.18 3.01
3619 4028 6.329197 CCTTGGTCCCATAATAAGGAGAACTA 59.671 42.308 0.00 0.00 40.18 2.24
3620 4029 6.742559 TGGTCCCATAATAAGGAGAACTAC 57.257 41.667 0.00 0.00 31.17 2.73
3621 4030 6.206787 TGGTCCCATAATAAGGAGAACTACA 58.793 40.000 0.00 0.00 31.17 2.74
3622 4031 6.674861 TGGTCCCATAATAAGGAGAACTACAA 59.325 38.462 0.00 0.00 31.17 2.41
3623 4032 7.349859 TGGTCCCATAATAAGGAGAACTACAAT 59.650 37.037 0.00 0.00 31.17 2.71
3624 4033 8.877195 GGTCCCATAATAAGGAGAACTACAATA 58.123 37.037 0.00 0.00 31.17 1.90
3635 4044 8.522542 AGGAGAACTACAATATTTCGTAGAGT 57.477 34.615 16.07 6.73 38.76 3.24
3636 4045 8.407064 AGGAGAACTACAATATTTCGTAGAGTG 58.593 37.037 16.07 0.00 38.76 3.51
3637 4046 8.404000 GGAGAACTACAATATTTCGTAGAGTGA 58.596 37.037 16.07 0.00 38.76 3.41
3638 4047 9.953697 GAGAACTACAATATTTCGTAGAGTGAT 57.046 33.333 16.07 2.39 38.76 3.06
3654 4063 9.871299 CGTAGAGTGATATACTGATATGTATGC 57.129 37.037 0.00 0.00 40.53 3.14
3657 4066 8.412456 AGAGTGATATACTGATATGTATGCAGC 58.588 37.037 0.00 0.00 40.53 5.25
3658 4067 7.199078 AGTGATATACTGATATGTATGCAGCG 58.801 38.462 0.00 0.00 38.49 5.18
3659 4068 7.067494 AGTGATATACTGATATGTATGCAGCGA 59.933 37.037 0.00 0.00 38.49 4.93
3660 4069 7.864882 GTGATATACTGATATGTATGCAGCGAT 59.135 37.037 0.00 0.00 35.14 4.58
3661 4070 8.416329 TGATATACTGATATGTATGCAGCGATT 58.584 33.333 0.00 0.00 35.14 3.34
3662 4071 6.898912 ATACTGATATGTATGCAGCGATTG 57.101 37.500 0.00 0.00 32.51 2.67
3674 4083 3.071580 GCGATTGCTTACAGAGGCT 57.928 52.632 0.00 0.00 38.39 4.58
3675 4084 0.933796 GCGATTGCTTACAGAGGCTC 59.066 55.000 6.34 6.34 38.39 4.70
3676 4085 1.203928 CGATTGCTTACAGAGGCTCG 58.796 55.000 9.22 6.83 0.00 5.03
3677 4086 0.933796 GATTGCTTACAGAGGCTCGC 59.066 55.000 9.22 6.62 0.00 5.03
3678 4087 0.539051 ATTGCTTACAGAGGCTCGCT 59.461 50.000 9.22 0.24 0.00 4.93
3679 4088 0.108615 TTGCTTACAGAGGCTCGCTC 60.109 55.000 9.22 0.00 0.00 5.03
3680 4089 1.587613 GCTTACAGAGGCTCGCTCG 60.588 63.158 9.22 1.85 0.00 5.03
3681 4090 1.587613 CTTACAGAGGCTCGCTCGC 60.588 63.158 9.22 0.00 0.00 5.03
3682 4091 1.999071 CTTACAGAGGCTCGCTCGCT 61.999 60.000 9.22 0.00 0.00 4.93
3683 4092 1.994507 TTACAGAGGCTCGCTCGCTC 61.995 60.000 9.22 0.00 0.00 5.03
3684 4093 4.903355 CAGAGGCTCGCTCGCTCG 62.903 72.222 9.22 0.00 0.00 5.03
3688 4097 4.973360 GGCTCGCTCGCTCGCTAG 62.973 72.222 0.00 0.00 0.00 3.42
3701 4110 3.333969 GCTAGCTGATGCGGTCGC 61.334 66.667 7.70 8.54 45.42 5.19
3702 4111 2.415010 CTAGCTGATGCGGTCGCT 59.585 61.111 16.36 2.22 45.42 4.93
3703 4112 1.659954 CTAGCTGATGCGGTCGCTC 60.660 63.158 16.36 11.28 45.42 5.03
3704 4113 2.341807 CTAGCTGATGCGGTCGCTCA 62.342 60.000 16.36 14.68 45.42 4.26
3705 4114 2.613739 TAGCTGATGCGGTCGCTCAC 62.614 60.000 16.36 8.14 45.42 3.51
3706 4115 2.887568 CTGATGCGGTCGCTCACC 60.888 66.667 16.36 0.00 42.69 4.02
3707 4116 3.362399 CTGATGCGGTCGCTCACCT 62.362 63.158 16.36 0.00 44.21 4.00
3708 4117 2.887568 GATGCGGTCGCTCACCTG 60.888 66.667 16.36 0.00 44.21 4.00
3712 4121 4.056125 CGGTCGCTCACCTGCTCA 62.056 66.667 0.63 0.00 44.21 4.26
3713 4122 2.581354 GGTCGCTCACCTGCTCAT 59.419 61.111 0.00 0.00 42.84 2.90
3714 4123 1.078848 GGTCGCTCACCTGCTCATT 60.079 57.895 0.00 0.00 42.84 2.57
3715 4124 1.086634 GGTCGCTCACCTGCTCATTC 61.087 60.000 0.00 0.00 42.84 2.67
3716 4125 0.390340 GTCGCTCACCTGCTCATTCA 60.390 55.000 0.00 0.00 0.00 2.57
3717 4126 0.390340 TCGCTCACCTGCTCATTCAC 60.390 55.000 0.00 0.00 0.00 3.18
3718 4127 1.690283 CGCTCACCTGCTCATTCACG 61.690 60.000 0.00 0.00 0.00 4.35
3719 4128 0.671781 GCTCACCTGCTCATTCACGT 60.672 55.000 0.00 0.00 0.00 4.49
3720 4129 1.800805 CTCACCTGCTCATTCACGTT 58.199 50.000 0.00 0.00 0.00 3.99
3721 4130 2.146342 CTCACCTGCTCATTCACGTTT 58.854 47.619 0.00 0.00 0.00 3.60
3722 4131 2.549754 CTCACCTGCTCATTCACGTTTT 59.450 45.455 0.00 0.00 0.00 2.43
3723 4132 2.290367 TCACCTGCTCATTCACGTTTTG 59.710 45.455 0.00 0.00 0.00 2.44
3724 4133 1.001378 ACCTGCTCATTCACGTTTTGC 60.001 47.619 0.00 0.00 0.00 3.68
3725 4134 1.001487 CCTGCTCATTCACGTTTTGCA 60.001 47.619 0.00 0.00 0.00 4.08
3726 4135 2.352030 CCTGCTCATTCACGTTTTGCAT 60.352 45.455 0.00 0.00 0.00 3.96
3727 4136 3.311106 CTGCTCATTCACGTTTTGCATT 58.689 40.909 0.00 0.00 0.00 3.56
3728 4137 3.715495 TGCTCATTCACGTTTTGCATTT 58.285 36.364 0.00 0.00 0.00 2.32
3729 4138 4.118410 TGCTCATTCACGTTTTGCATTTT 58.882 34.783 0.00 0.00 0.00 1.82
3730 4139 4.569966 TGCTCATTCACGTTTTGCATTTTT 59.430 33.333 0.00 0.00 0.00 1.94
3766 4175 7.410800 AACGTTTTTCTTTTTCCGTTTTTCT 57.589 28.000 0.00 0.00 35.24 2.52
3767 4176 7.041187 ACGTTTTTCTTTTTCCGTTTTTCTC 57.959 32.000 0.00 0.00 0.00 2.87
3768 4177 6.089820 ACGTTTTTCTTTTTCCGTTTTTCTCC 59.910 34.615 0.00 0.00 0.00 3.71
3769 4178 6.089685 CGTTTTTCTTTTTCCGTTTTTCTCCA 59.910 34.615 0.00 0.00 0.00 3.86
3770 4179 6.954616 TTTTCTTTTTCCGTTTTTCTCCAC 57.045 33.333 0.00 0.00 0.00 4.02
3771 4180 5.646577 TTCTTTTTCCGTTTTTCTCCACA 57.353 34.783 0.00 0.00 0.00 4.17
3772 4181 5.646577 TCTTTTTCCGTTTTTCTCCACAA 57.353 34.783 0.00 0.00 0.00 3.33
3773 4182 6.026947 TCTTTTTCCGTTTTTCTCCACAAA 57.973 33.333 0.00 0.00 0.00 2.83
3774 4183 6.635755 TCTTTTTCCGTTTTTCTCCACAAAT 58.364 32.000 0.00 0.00 0.00 2.32
3775 4184 7.100409 TCTTTTTCCGTTTTTCTCCACAAATT 58.900 30.769 0.00 0.00 0.00 1.82
3776 4185 7.604545 TCTTTTTCCGTTTTTCTCCACAAATTT 59.395 29.630 0.00 0.00 0.00 1.82
3777 4186 6.654793 TTTCCGTTTTTCTCCACAAATTTG 57.345 33.333 16.67 16.67 0.00 2.32
3778 4187 4.688021 TCCGTTTTTCTCCACAAATTTGG 58.312 39.130 21.74 6.48 38.10 3.28
3779 4188 4.402793 TCCGTTTTTCTCCACAAATTTGGA 59.597 37.500 21.74 10.64 43.83 3.53
3780 4189 5.105310 TCCGTTTTTCTCCACAAATTTGGAA 60.105 36.000 21.74 12.28 45.37 3.53
3781 4190 5.757808 CCGTTTTTCTCCACAAATTTGGAAT 59.242 36.000 21.74 0.00 45.37 3.01
3782 4191 6.259829 CCGTTTTTCTCCACAAATTTGGAATT 59.740 34.615 21.74 0.00 45.37 2.17
3783 4192 7.125113 CGTTTTTCTCCACAAATTTGGAATTG 58.875 34.615 21.74 10.75 45.37 2.32
3784 4193 7.201600 CGTTTTTCTCCACAAATTTGGAATTGT 60.202 33.333 21.74 0.00 45.37 2.71
3785 4194 8.458052 GTTTTTCTCCACAAATTTGGAATTGTT 58.542 29.630 21.74 0.00 45.37 2.83
3786 4195 7.784633 TTTCTCCACAAATTTGGAATTGTTC 57.215 32.000 21.74 0.00 45.37 3.18
3787 4196 6.477053 TCTCCACAAATTTGGAATTGTTCA 57.523 33.333 21.74 0.00 45.37 3.18
3788 4197 6.279882 TCTCCACAAATTTGGAATTGTTCAC 58.720 36.000 21.74 0.00 45.37 3.18
3789 4198 5.046529 TCCACAAATTTGGAATTGTTCACG 58.953 37.500 21.74 0.00 43.04 4.35
3790 4199 5.046529 CCACAAATTTGGAATTGTTCACGA 58.953 37.500 21.74 0.00 39.24 4.35
3791 4200 5.175491 CCACAAATTTGGAATTGTTCACGAG 59.825 40.000 21.74 0.00 39.24 4.18
3792 4201 5.748152 CACAAATTTGGAATTGTTCACGAGT 59.252 36.000 21.74 0.00 37.66 4.18
3793 4202 6.255453 CACAAATTTGGAATTGTTCACGAGTT 59.745 34.615 21.74 0.00 37.66 3.01
3794 4203 6.816140 ACAAATTTGGAATTGTTCACGAGTTT 59.184 30.769 21.74 0.00 36.39 2.66
3795 4204 7.976734 ACAAATTTGGAATTGTTCACGAGTTTA 59.023 29.630 21.74 0.00 36.39 2.01
3796 4205 8.812329 CAAATTTGGAATTGTTCACGAGTTTAA 58.188 29.630 10.49 0.00 0.00 1.52
3797 4206 8.934507 AATTTGGAATTGTTCACGAGTTTAAA 57.065 26.923 0.00 0.00 0.00 1.52
3798 4207 8.934507 ATTTGGAATTGTTCACGAGTTTAAAA 57.065 26.923 0.00 0.00 0.00 1.52
3799 4208 8.758633 TTTGGAATTGTTCACGAGTTTAAAAA 57.241 26.923 0.00 0.00 0.00 1.94
3895 4304 9.940166 AAAAATCACAAATTTCAAAAGCTGATC 57.060 25.926 0.00 0.00 32.78 2.92
3896 4305 8.665643 AAATCACAAATTTCAAAAGCTGATCA 57.334 26.923 0.00 0.00 32.78 2.92
3897 4306 7.647907 ATCACAAATTTCAAAAGCTGATCAC 57.352 32.000 0.00 0.00 32.78 3.06
3898 4307 6.571605 TCACAAATTTCAAAAGCTGATCACA 58.428 32.000 0.00 0.00 32.78 3.58
3899 4308 7.040494 TCACAAATTTCAAAAGCTGATCACAA 58.960 30.769 0.00 0.00 32.78 3.33
3900 4309 7.548427 TCACAAATTTCAAAAGCTGATCACAAA 59.452 29.630 0.00 0.00 32.78 2.83
3901 4310 8.339714 CACAAATTTCAAAAGCTGATCACAAAT 58.660 29.630 0.00 0.00 32.78 2.32
3902 4311 8.895737 ACAAATTTCAAAAGCTGATCACAAATT 58.104 25.926 0.00 0.00 32.78 1.82
3903 4312 9.377383 CAAATTTCAAAAGCTGATCACAAATTC 57.623 29.630 0.00 0.00 32.78 2.17
3904 4313 8.665643 AATTTCAAAAGCTGATCACAAATTCA 57.334 26.923 0.00 0.00 32.78 2.57
3905 4314 8.665643 ATTTCAAAAGCTGATCACAAATTCAA 57.334 26.923 0.00 0.00 32.78 2.69
3906 4315 8.489990 TTTCAAAAGCTGATCACAAATTCAAA 57.510 26.923 0.00 0.00 32.78 2.69
3907 4316 8.489990 TTCAAAAGCTGATCACAAATTCAAAA 57.510 26.923 0.00 0.00 32.78 2.44
3908 4317 8.489990 TCAAAAGCTGATCACAAATTCAAAAA 57.510 26.923 0.00 0.00 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
120 121 7.670364 ACAGTTTAAAGGCAGAATAGCATTTT 58.330 30.769 3.91 0.00 44.99 1.82
212 213 4.883083 TCTTCTACAGCCTGTTAACTGTG 58.117 43.478 1.02 4.57 46.31 3.66
214 215 4.220821 TCCTCTTCTACAGCCTGTTAACTG 59.779 45.833 1.02 6.33 39.86 3.16
215 216 4.417437 TCCTCTTCTACAGCCTGTTAACT 58.583 43.478 1.02 0.00 0.00 2.24
216 217 4.803098 TCCTCTTCTACAGCCTGTTAAC 57.197 45.455 1.02 0.00 0.00 2.01
217 218 4.591498 TGTTCCTCTTCTACAGCCTGTTAA 59.409 41.667 1.02 0.00 0.00 2.01
222 529 2.609747 TGTGTTCCTCTTCTACAGCCT 58.390 47.619 0.00 0.00 0.00 4.58
249 556 1.314730 ACGGAATCAAGGCGTGTTTT 58.685 45.000 0.00 0.00 0.00 2.43
570 955 6.429385 GGGCAATCTAGGATATTTGAGAAGTG 59.571 42.308 0.00 0.00 0.00 3.16
721 1106 7.813627 TCATGATAACAATTGACCATGTTTGTG 59.186 33.333 13.59 0.00 40.14 3.33
724 1109 9.590451 GAATCATGATAACAATTGACCATGTTT 57.410 29.630 13.59 16.96 40.14 2.83
747 1132 3.256704 TGTAGGACCCCTCTTTGTGAAT 58.743 45.455 0.00 0.00 34.61 2.57
769 1154 9.965824 CTTAACATCTGAACCAAAACTTATGTT 57.034 29.630 0.00 0.00 39.11 2.71
770 1155 9.131791 ACTTAACATCTGAACCAAAACTTATGT 57.868 29.630 0.00 0.00 0.00 2.29
782 1167 6.856426 GCACCTTTGTTACTTAACATCTGAAC 59.144 38.462 2.71 0.00 44.72 3.18
1283 1676 3.507162 TGAGCCAATCAAACTTCTCCA 57.493 42.857 0.00 0.00 34.02 3.86
1861 2254 2.142756 TGGCCCATGGGATAATTCAGA 58.857 47.619 36.00 2.87 37.50 3.27
1890 2283 4.979335 TGACACATGATAGGTTTGGAACA 58.021 39.130 0.00 0.00 0.00 3.18
1981 2375 7.040132 ACCTGCTTCTTCCTCATCTTTAAAAAG 60.040 37.037 0.00 0.00 37.36 2.27
2212 2607 5.653507 TGATAATTGCTGCATTCCAGTTTC 58.346 37.500 1.84 0.00 43.71 2.78
2484 2879 5.480422 TGACAGTAGCATCTTCTTAGTTCCA 59.520 40.000 0.00 0.00 0.00 3.53
2515 2910 3.008049 GCTGGTCCTAGAAAGAACCTGAA 59.992 47.826 0.00 0.00 33.86 3.02
2548 2943 2.501723 TCCCAACAGCATAGGAAGAGAC 59.498 50.000 0.00 0.00 0.00 3.36
2589 2984 0.112218 TTACCTGCACAATGGCCACT 59.888 50.000 8.16 0.00 0.00 4.00
2620 3015 1.962807 CACATGGCTCAAGGGAAACAA 59.037 47.619 0.00 0.00 0.00 2.83
2642 3037 7.306457 CGCATTTATGAATTTTCACACACACAA 60.306 33.333 0.00 0.00 40.49 3.33
3028 3425 0.330941 TATTCACACCCATGCAGCCA 59.669 50.000 0.00 0.00 0.00 4.75
3029 3426 1.696063 ATATTCACACCCATGCAGCC 58.304 50.000 0.00 0.00 0.00 4.85
3030 3427 3.806625 AAATATTCACACCCATGCAGC 57.193 42.857 0.00 0.00 0.00 5.25
3031 3428 3.866910 GCAAAATATTCACACCCATGCAG 59.133 43.478 0.00 0.00 0.00 4.41
3032 3429 3.369261 GGCAAAATATTCACACCCATGCA 60.369 43.478 0.00 0.00 33.14 3.96
3033 3430 3.197265 GGCAAAATATTCACACCCATGC 58.803 45.455 0.00 0.00 0.00 4.06
3034 3431 3.446799 CGGCAAAATATTCACACCCATG 58.553 45.455 0.00 0.00 0.00 3.66
3035 3432 2.430332 CCGGCAAAATATTCACACCCAT 59.570 45.455 0.00 0.00 0.00 4.00
3055 3452 2.425668 ACGGCACAAATATTTACAGCCC 59.574 45.455 22.08 10.34 37.38 5.19
3074 3471 1.014044 CCACACGATCCAAGTCCACG 61.014 60.000 0.00 0.00 0.00 4.94
3114 3511 7.687347 CGGTCGTCGAGTACAAATATATCTTAG 59.313 40.741 0.00 0.00 42.43 2.18
3123 3520 0.241749 TGCGGTCGTCGAGTACAAAT 59.758 50.000 0.00 0.00 42.43 2.32
3172 3569 1.125021 CACAAGTTAGCTCTGTTCGCG 59.875 52.381 0.00 0.00 0.00 5.87
3181 3578 1.672356 CTGCGGGCACAAGTTAGCT 60.672 57.895 0.00 0.00 0.00 3.32
3251 3648 2.664851 CAGGCGCCTGTTCGACAA 60.665 61.111 42.09 0.00 40.62 3.18
3373 3775 1.069668 TGCTGATGTCTGATCGGATGG 59.930 52.381 7.68 0.00 0.00 3.51
3385 3793 4.371786 CACCGATAACATAGTGCTGATGT 58.628 43.478 0.00 0.00 39.22 3.06
3388 3796 2.483013 GCCACCGATAACATAGTGCTGA 60.483 50.000 0.00 0.00 0.00 4.26
3411 3819 2.544685 CTCGACCCTACTTGCATTGAG 58.455 52.381 0.00 0.00 0.00 3.02
3415 3823 0.613260 TTGCTCGACCCTACTTGCAT 59.387 50.000 0.00 0.00 0.00 3.96
3418 3826 0.741221 GCCTTGCTCGACCCTACTTG 60.741 60.000 0.00 0.00 0.00 3.16
3472 3881 2.180131 CTGAAGTGAACAGCTGCCGC 62.180 60.000 15.27 12.74 0.00 6.53
3473 3882 1.864862 CTGAAGTGAACAGCTGCCG 59.135 57.895 15.27 0.00 0.00 5.69
3479 3888 0.873054 CTGGCTGCTGAAGTGAACAG 59.127 55.000 0.00 0.00 38.27 3.16
3480 3889 1.168407 GCTGGCTGCTGAAGTGAACA 61.168 55.000 9.31 0.00 38.95 3.18
3481 3890 1.578423 GCTGGCTGCTGAAGTGAAC 59.422 57.895 9.31 0.00 38.95 3.18
3482 3891 1.962822 CGCTGGCTGCTGAAGTGAA 60.963 57.895 14.58 0.00 40.11 3.18
3483 3892 2.357881 CGCTGGCTGCTGAAGTGA 60.358 61.111 14.58 0.00 40.11 3.41
3484 3893 4.099170 GCGCTGGCTGCTGAAGTG 62.099 66.667 14.58 3.35 40.11 3.16
3501 3910 2.584791 CTTCAATCTTTTGCCGTTCGG 58.415 47.619 6.90 6.90 32.61 4.30
3502 3911 1.978782 GCTTCAATCTTTTGCCGTTCG 59.021 47.619 0.00 0.00 32.61 3.95
3503 3912 2.328473 GGCTTCAATCTTTTGCCGTTC 58.672 47.619 0.00 0.00 33.96 3.95
3504 3913 2.438868 GGCTTCAATCTTTTGCCGTT 57.561 45.000 0.00 0.00 33.96 4.44
3507 3916 2.036346 ACACAGGCTTCAATCTTTTGCC 59.964 45.455 0.00 0.00 43.52 4.52
3508 3917 3.375782 ACACAGGCTTCAATCTTTTGC 57.624 42.857 0.00 0.00 32.61 3.68
3509 3918 4.508861 CCAAACACAGGCTTCAATCTTTTG 59.491 41.667 0.00 0.00 0.00 2.44
3510 3919 4.405358 TCCAAACACAGGCTTCAATCTTTT 59.595 37.500 0.00 0.00 0.00 2.27
3511 3920 3.960102 TCCAAACACAGGCTTCAATCTTT 59.040 39.130 0.00 0.00 0.00 2.52
3512 3921 3.319122 GTCCAAACACAGGCTTCAATCTT 59.681 43.478 0.00 0.00 0.00 2.40
3513 3922 2.887152 GTCCAAACACAGGCTTCAATCT 59.113 45.455 0.00 0.00 0.00 2.40
3514 3923 2.350772 CGTCCAAACACAGGCTTCAATC 60.351 50.000 0.00 0.00 0.00 2.67
3515 3924 1.608590 CGTCCAAACACAGGCTTCAAT 59.391 47.619 0.00 0.00 0.00 2.57
3516 3925 1.021202 CGTCCAAACACAGGCTTCAA 58.979 50.000 0.00 0.00 0.00 2.69
3517 3926 1.444119 GCGTCCAAACACAGGCTTCA 61.444 55.000 0.00 0.00 0.00 3.02
3518 3927 1.282875 GCGTCCAAACACAGGCTTC 59.717 57.895 0.00 0.00 0.00 3.86
3519 3928 0.823356 ATGCGTCCAAACACAGGCTT 60.823 50.000 0.00 0.00 0.00 4.35
3520 3929 1.228245 ATGCGTCCAAACACAGGCT 60.228 52.632 0.00 0.00 0.00 4.58
3521 3930 1.081242 CATGCGTCCAAACACAGGC 60.081 57.895 0.00 0.00 0.00 4.85
3522 3931 0.950836 TTCATGCGTCCAAACACAGG 59.049 50.000 0.00 0.00 0.00 4.00
3523 3932 2.981805 CAATTCATGCGTCCAAACACAG 59.018 45.455 0.00 0.00 0.00 3.66
3524 3933 2.360483 ACAATTCATGCGTCCAAACACA 59.640 40.909 0.00 0.00 0.00 3.72
3525 3934 2.725723 CACAATTCATGCGTCCAAACAC 59.274 45.455 0.00 0.00 0.00 3.32
3526 3935 2.861750 GCACAATTCATGCGTCCAAACA 60.862 45.455 0.00 0.00 32.45 2.83
3527 3936 1.720852 GCACAATTCATGCGTCCAAAC 59.279 47.619 0.00 0.00 32.45 2.93
3528 3937 2.063156 GCACAATTCATGCGTCCAAA 57.937 45.000 0.00 0.00 32.45 3.28
3529 3938 3.790744 GCACAATTCATGCGTCCAA 57.209 47.368 0.00 0.00 32.45 3.53
3535 3944 5.049474 TCAGAATATACCGCACAATTCATGC 60.049 40.000 1.71 1.71 39.81 4.06
3536 3945 6.203530 AGTCAGAATATACCGCACAATTCATG 59.796 38.462 0.00 0.00 32.04 3.07
3537 3946 6.291377 AGTCAGAATATACCGCACAATTCAT 58.709 36.000 0.00 0.00 32.04 2.57
3538 3947 5.670485 AGTCAGAATATACCGCACAATTCA 58.330 37.500 0.00 0.00 32.04 2.57
3539 3948 6.366332 CCTAGTCAGAATATACCGCACAATTC 59.634 42.308 0.00 0.00 0.00 2.17
3540 3949 6.041637 TCCTAGTCAGAATATACCGCACAATT 59.958 38.462 0.00 0.00 0.00 2.32
3541 3950 5.538813 TCCTAGTCAGAATATACCGCACAAT 59.461 40.000 0.00 0.00 0.00 2.71
3542 3951 4.891168 TCCTAGTCAGAATATACCGCACAA 59.109 41.667 0.00 0.00 0.00 3.33
3543 3952 4.466827 TCCTAGTCAGAATATACCGCACA 58.533 43.478 0.00 0.00 0.00 4.57
3544 3953 4.082679 CCTCCTAGTCAGAATATACCGCAC 60.083 50.000 0.00 0.00 0.00 5.34
3545 3954 4.079970 CCTCCTAGTCAGAATATACCGCA 58.920 47.826 0.00 0.00 0.00 5.69
3546 3955 3.119424 GCCTCCTAGTCAGAATATACCGC 60.119 52.174 0.00 0.00 0.00 5.68
3547 3956 4.079970 TGCCTCCTAGTCAGAATATACCG 58.920 47.826 0.00 0.00 0.00 4.02
3548 3957 5.540719 AGTTGCCTCCTAGTCAGAATATACC 59.459 44.000 0.00 0.00 0.00 2.73
3549 3958 6.265649 TCAGTTGCCTCCTAGTCAGAATATAC 59.734 42.308 0.00 0.00 0.00 1.47
3550 3959 6.373759 TCAGTTGCCTCCTAGTCAGAATATA 58.626 40.000 0.00 0.00 0.00 0.86
3551 3960 5.211973 TCAGTTGCCTCCTAGTCAGAATAT 58.788 41.667 0.00 0.00 0.00 1.28
3552 3961 4.610333 TCAGTTGCCTCCTAGTCAGAATA 58.390 43.478 0.00 0.00 0.00 1.75
3553 3962 3.445008 TCAGTTGCCTCCTAGTCAGAAT 58.555 45.455 0.00 0.00 0.00 2.40
3554 3963 2.889512 TCAGTTGCCTCCTAGTCAGAA 58.110 47.619 0.00 0.00 0.00 3.02
3555 3964 2.604912 TCAGTTGCCTCCTAGTCAGA 57.395 50.000 0.00 0.00 0.00 3.27
3556 3965 3.902881 ATTCAGTTGCCTCCTAGTCAG 57.097 47.619 0.00 0.00 0.00 3.51
3557 3966 4.287067 AGAAATTCAGTTGCCTCCTAGTCA 59.713 41.667 0.00 0.00 0.00 3.41
3558 3967 4.633565 CAGAAATTCAGTTGCCTCCTAGTC 59.366 45.833 0.00 0.00 0.00 2.59
3559 3968 4.287067 TCAGAAATTCAGTTGCCTCCTAGT 59.713 41.667 0.00 0.00 0.00 2.57
3560 3969 4.836825 TCAGAAATTCAGTTGCCTCCTAG 58.163 43.478 0.00 0.00 0.00 3.02
3561 3970 4.908601 TCAGAAATTCAGTTGCCTCCTA 57.091 40.909 0.00 0.00 0.00 2.94
3562 3971 3.795688 TCAGAAATTCAGTTGCCTCCT 57.204 42.857 0.00 0.00 0.00 3.69
3563 3972 3.192212 CCTTCAGAAATTCAGTTGCCTCC 59.808 47.826 0.00 0.00 0.00 4.30
3564 3973 4.074970 TCCTTCAGAAATTCAGTTGCCTC 58.925 43.478 0.00 0.00 0.00 4.70
3565 3974 4.104383 TCCTTCAGAAATTCAGTTGCCT 57.896 40.909 0.00 0.00 0.00 4.75
3566 3975 4.279420 AGTTCCTTCAGAAATTCAGTTGCC 59.721 41.667 0.00 0.00 35.85 4.52
3567 3976 5.444663 AGTTCCTTCAGAAATTCAGTTGC 57.555 39.130 0.00 0.00 35.85 4.17
3568 3977 7.095017 GGAGTAGTTCCTTCAGAAATTCAGTTG 60.095 40.741 0.00 0.00 43.16 3.16
3569 3978 6.937465 GGAGTAGTTCCTTCAGAAATTCAGTT 59.063 38.462 0.00 0.00 43.16 3.16
3570 3979 6.468543 GGAGTAGTTCCTTCAGAAATTCAGT 58.531 40.000 0.00 0.00 43.16 3.41
3571 3980 5.877564 GGGAGTAGTTCCTTCAGAAATTCAG 59.122 44.000 0.00 0.00 45.98 3.02
3572 3981 5.548056 AGGGAGTAGTTCCTTCAGAAATTCA 59.452 40.000 0.00 0.00 45.98 2.57
3573 3982 6.056090 AGGGAGTAGTTCCTTCAGAAATTC 57.944 41.667 0.00 0.00 45.98 2.17
3574 3983 6.241645 CAAGGGAGTAGTTCCTTCAGAAATT 58.758 40.000 7.23 0.00 45.98 1.82
3575 3984 5.280727 CCAAGGGAGTAGTTCCTTCAGAAAT 60.281 44.000 7.23 0.00 45.98 2.17
3576 3985 4.041691 CCAAGGGAGTAGTTCCTTCAGAAA 59.958 45.833 7.23 0.00 45.98 2.52
3577 3986 3.583086 CCAAGGGAGTAGTTCCTTCAGAA 59.417 47.826 7.23 0.00 45.98 3.02
3578 3987 3.173965 CCAAGGGAGTAGTTCCTTCAGA 58.826 50.000 7.23 0.00 45.98 3.27
3579 3988 2.907042 ACCAAGGGAGTAGTTCCTTCAG 59.093 50.000 7.23 5.03 45.98 3.02
3580 3989 2.904434 GACCAAGGGAGTAGTTCCTTCA 59.096 50.000 7.23 0.00 45.98 3.02
3581 3990 2.236644 GGACCAAGGGAGTAGTTCCTTC 59.763 54.545 7.23 0.00 45.98 3.46
3582 3991 2.267192 GGACCAAGGGAGTAGTTCCTT 58.733 52.381 4.04 4.04 45.98 3.36
3583 3992 1.555058 GGGACCAAGGGAGTAGTTCCT 60.555 57.143 0.00 0.00 45.98 3.36
3584 3993 0.910338 GGGACCAAGGGAGTAGTTCC 59.090 60.000 0.00 0.00 46.00 3.62
3585 3994 1.652947 TGGGACCAAGGGAGTAGTTC 58.347 55.000 0.00 0.00 0.00 3.01
3586 3995 2.361085 ATGGGACCAAGGGAGTAGTT 57.639 50.000 0.00 0.00 0.00 2.24
3587 3996 3.502051 TTATGGGACCAAGGGAGTAGT 57.498 47.619 0.00 0.00 0.00 2.73
3588 3997 5.013183 CCTTATTATGGGACCAAGGGAGTAG 59.987 48.000 0.00 0.00 33.56 2.57
3589 3998 4.911522 CCTTATTATGGGACCAAGGGAGTA 59.088 45.833 0.00 0.00 33.56 2.59
3590 3999 3.722101 CCTTATTATGGGACCAAGGGAGT 59.278 47.826 0.00 0.00 33.56 3.85
3591 4000 3.980698 TCCTTATTATGGGACCAAGGGAG 59.019 47.826 6.26 0.00 37.07 4.30
3592 4001 3.980698 CTCCTTATTATGGGACCAAGGGA 59.019 47.826 6.26 0.06 37.07 4.20
3593 4002 3.980698 TCTCCTTATTATGGGACCAAGGG 59.019 47.826 6.26 0.00 37.07 3.95
3594 4003 5.132816 AGTTCTCCTTATTATGGGACCAAGG 59.867 44.000 0.00 0.00 37.66 3.61
3595 4004 6.253946 AGTTCTCCTTATTATGGGACCAAG 57.746 41.667 0.00 0.00 0.00 3.61
3596 4005 6.674861 TGTAGTTCTCCTTATTATGGGACCAA 59.325 38.462 0.00 0.00 0.00 3.67
3597 4006 6.206787 TGTAGTTCTCCTTATTATGGGACCA 58.793 40.000 0.00 0.00 0.00 4.02
3598 4007 6.742559 TGTAGTTCTCCTTATTATGGGACC 57.257 41.667 0.00 0.00 0.00 4.46
3609 4018 8.968969 ACTCTACGAAATATTGTAGTTCTCCTT 58.031 33.333 10.95 0.00 42.15 3.36
3610 4019 8.407064 CACTCTACGAAATATTGTAGTTCTCCT 58.593 37.037 10.95 0.00 42.15 3.69
3611 4020 8.404000 TCACTCTACGAAATATTGTAGTTCTCC 58.596 37.037 10.95 0.00 42.15 3.71
3612 4021 9.953697 ATCACTCTACGAAATATTGTAGTTCTC 57.046 33.333 10.95 0.00 42.15 2.87
3628 4037 9.871299 GCATACATATCAGTATATCACTCTACG 57.129 37.037 0.00 0.00 34.26 3.51
3631 4040 8.412456 GCTGCATACATATCAGTATATCACTCT 58.588 37.037 0.00 0.00 34.26 3.24
3632 4041 7.378194 CGCTGCATACATATCAGTATATCACTC 59.622 40.741 0.00 0.00 34.26 3.51
3633 4042 7.067494 TCGCTGCATACATATCAGTATATCACT 59.933 37.037 0.00 0.00 38.32 3.41
3634 4043 7.196331 TCGCTGCATACATATCAGTATATCAC 58.804 38.462 0.00 0.00 33.12 3.06
3635 4044 7.333528 TCGCTGCATACATATCAGTATATCA 57.666 36.000 0.00 0.00 33.12 2.15
3636 4045 8.697960 CAATCGCTGCATACATATCAGTATATC 58.302 37.037 0.00 0.00 33.12 1.63
3637 4046 8.585189 CAATCGCTGCATACATATCAGTATAT 57.415 34.615 0.00 0.00 33.12 0.86
3638 4047 7.992180 CAATCGCTGCATACATATCAGTATA 57.008 36.000 0.00 0.00 33.12 1.47
3639 4048 6.898912 CAATCGCTGCATACATATCAGTAT 57.101 37.500 0.00 0.00 35.14 2.12
3656 4065 0.933796 GAGCCTCTGTAAGCAATCGC 59.066 55.000 0.00 0.00 38.99 4.58
3657 4066 1.203928 CGAGCCTCTGTAAGCAATCG 58.796 55.000 0.00 0.00 0.00 3.34
3658 4067 0.933796 GCGAGCCTCTGTAAGCAATC 59.066 55.000 0.00 0.00 0.00 2.67
3659 4068 0.539051 AGCGAGCCTCTGTAAGCAAT 59.461 50.000 0.00 0.00 0.00 3.56
3660 4069 0.108615 GAGCGAGCCTCTGTAAGCAA 60.109 55.000 0.00 0.00 37.60 3.91
3661 4070 1.513158 GAGCGAGCCTCTGTAAGCA 59.487 57.895 0.00 0.00 37.60 3.91
3662 4071 1.587613 CGAGCGAGCCTCTGTAAGC 60.588 63.158 0.00 0.00 38.49 3.09
3663 4072 1.587613 GCGAGCGAGCCTCTGTAAG 60.588 63.158 0.00 0.00 38.49 2.34
3664 4073 1.994507 GAGCGAGCGAGCCTCTGTAA 61.995 60.000 2.87 0.00 38.49 2.41
3665 4074 2.438614 AGCGAGCGAGCCTCTGTA 60.439 61.111 2.87 0.00 38.49 2.74
3666 4075 3.821055 GAGCGAGCGAGCCTCTGT 61.821 66.667 2.87 0.00 38.49 3.41
3667 4076 4.903355 CGAGCGAGCGAGCCTCTG 62.903 72.222 2.87 0.00 38.49 3.35
3671 4080 4.973360 CTAGCGAGCGAGCGAGCC 62.973 72.222 12.45 0.00 43.00 4.70
3684 4093 3.333969 GCGACCGCATCAGCTAGC 61.334 66.667 6.62 6.62 41.49 3.42
3685 4094 1.659954 GAGCGACCGCATCAGCTAG 60.660 63.158 16.97 0.00 44.88 3.42
3686 4095 2.413351 GAGCGACCGCATCAGCTA 59.587 61.111 16.97 0.00 44.88 3.32
3687 4096 3.763356 TGAGCGACCGCATCAGCT 61.763 61.111 16.97 4.70 44.88 4.24
3688 4097 3.558411 GTGAGCGACCGCATCAGC 61.558 66.667 16.97 8.26 44.88 4.26
3689 4098 2.887568 GGTGAGCGACCGCATCAG 60.888 66.667 16.97 0.00 44.88 2.90
3696 4105 1.078848 AATGAGCAGGTGAGCGACC 60.079 57.895 0.00 0.00 46.58 4.79
3697 4106 0.390340 TGAATGAGCAGGTGAGCGAC 60.390 55.000 0.00 0.00 40.15 5.19
3698 4107 0.390340 GTGAATGAGCAGGTGAGCGA 60.390 55.000 0.00 0.00 40.15 4.93
3699 4108 1.690283 CGTGAATGAGCAGGTGAGCG 61.690 60.000 0.00 0.00 40.15 5.03
3700 4109 0.671781 ACGTGAATGAGCAGGTGAGC 60.672 55.000 0.00 0.00 35.75 4.26
3701 4110 1.800805 AACGTGAATGAGCAGGTGAG 58.199 50.000 0.00 0.00 37.02 3.51
3702 4111 2.254546 AAACGTGAATGAGCAGGTGA 57.745 45.000 0.00 0.00 37.02 4.02
3703 4112 2.653890 CAAAACGTGAATGAGCAGGTG 58.346 47.619 0.00 0.00 37.02 4.00
3704 4113 1.001378 GCAAAACGTGAATGAGCAGGT 60.001 47.619 0.00 0.00 38.40 4.00
3705 4114 1.001487 TGCAAAACGTGAATGAGCAGG 60.001 47.619 0.00 0.00 0.00 4.85
3706 4115 2.404265 TGCAAAACGTGAATGAGCAG 57.596 45.000 0.00 0.00 0.00 4.24
3707 4116 3.367992 AATGCAAAACGTGAATGAGCA 57.632 38.095 0.00 0.00 34.78 4.26
3708 4117 4.713854 AAAATGCAAAACGTGAATGAGC 57.286 36.364 0.00 0.00 0.00 4.26
3742 4151 7.359431 GGAGAAAAACGGAAAAAGAAAAACGTT 60.359 33.333 0.00 0.00 45.05 3.99
3743 4152 6.089820 GGAGAAAAACGGAAAAAGAAAAACGT 59.910 34.615 0.00 0.00 35.95 3.99
3744 4153 6.089685 TGGAGAAAAACGGAAAAAGAAAAACG 59.910 34.615 0.00 0.00 0.00 3.60
3745 4154 7.095565 TGTGGAGAAAAACGGAAAAAGAAAAAC 60.096 33.333 0.00 0.00 0.00 2.43
3746 4155 6.929606 TGTGGAGAAAAACGGAAAAAGAAAAA 59.070 30.769 0.00 0.00 0.00 1.94
3747 4156 6.456501 TGTGGAGAAAAACGGAAAAAGAAAA 58.543 32.000 0.00 0.00 0.00 2.29
3748 4157 6.026947 TGTGGAGAAAAACGGAAAAAGAAA 57.973 33.333 0.00 0.00 0.00 2.52
3749 4158 5.646577 TGTGGAGAAAAACGGAAAAAGAA 57.353 34.783 0.00 0.00 0.00 2.52
3750 4159 5.646577 TTGTGGAGAAAAACGGAAAAAGA 57.353 34.783 0.00 0.00 0.00 2.52
3751 4160 6.902224 ATTTGTGGAGAAAAACGGAAAAAG 57.098 33.333 0.00 0.00 0.00 2.27
3752 4161 7.361286 CCAAATTTGTGGAGAAAAACGGAAAAA 60.361 33.333 16.73 0.00 41.65 1.94
3753 4162 6.092807 CCAAATTTGTGGAGAAAAACGGAAAA 59.907 34.615 16.73 0.00 41.65 2.29
3754 4163 5.582665 CCAAATTTGTGGAGAAAAACGGAAA 59.417 36.000 16.73 0.00 41.65 3.13
3755 4164 5.105310 TCCAAATTTGTGGAGAAAAACGGAA 60.105 36.000 16.73 0.00 42.97 4.30
3756 4165 4.402793 TCCAAATTTGTGGAGAAAAACGGA 59.597 37.500 16.73 0.00 42.97 4.69
3757 4166 4.688021 TCCAAATTTGTGGAGAAAAACGG 58.312 39.130 16.73 0.00 42.97 4.44
3766 4175 5.046529 CGTGAACAATTCCAAATTTGTGGA 58.953 37.500 16.73 6.10 46.24 4.02
3767 4176 5.046529 TCGTGAACAATTCCAAATTTGTGG 58.953 37.500 16.73 3.58 36.26 4.17
3768 4177 5.748152 ACTCGTGAACAATTCCAAATTTGTG 59.252 36.000 16.73 10.60 36.26 3.33
3769 4178 5.901552 ACTCGTGAACAATTCCAAATTTGT 58.098 33.333 16.73 0.00 37.66 2.83
3770 4179 6.826893 AACTCGTGAACAATTCCAAATTTG 57.173 33.333 11.40 11.40 0.00 2.32
3771 4180 8.934507 TTAAACTCGTGAACAATTCCAAATTT 57.065 26.923 0.00 0.00 0.00 1.82
3772 4181 8.934507 TTTAAACTCGTGAACAATTCCAAATT 57.065 26.923 0.00 0.00 0.00 1.82
3773 4182 8.934507 TTTTAAACTCGTGAACAATTCCAAAT 57.065 26.923 0.00 0.00 0.00 2.32
3774 4183 8.758633 TTTTTAAACTCGTGAACAATTCCAAA 57.241 26.923 0.00 0.00 0.00 3.28
3869 4278 9.940166 GATCAGCTTTTGAAATTTGTGATTTTT 57.060 25.926 0.00 0.00 39.77 1.94
3870 4279 9.111613 TGATCAGCTTTTGAAATTTGTGATTTT 57.888 25.926 0.00 0.00 39.77 1.82
3871 4280 8.553696 GTGATCAGCTTTTGAAATTTGTGATTT 58.446 29.630 0.00 0.00 39.77 2.17
3872 4281 7.711772 TGTGATCAGCTTTTGAAATTTGTGATT 59.288 29.630 0.00 0.00 39.77 2.57
3873 4282 7.211573 TGTGATCAGCTTTTGAAATTTGTGAT 58.788 30.769 0.00 0.00 39.77 3.06
3874 4283 6.571605 TGTGATCAGCTTTTGAAATTTGTGA 58.428 32.000 0.00 0.00 39.77 3.58
3875 4284 6.831727 TGTGATCAGCTTTTGAAATTTGTG 57.168 33.333 0.00 0.00 39.77 3.33
3876 4285 7.846644 TTTGTGATCAGCTTTTGAAATTTGT 57.153 28.000 0.00 0.00 39.77 2.83
3877 4286 9.377383 GAATTTGTGATCAGCTTTTGAAATTTG 57.623 29.630 0.00 0.00 39.77 2.32
3878 4287 9.111613 TGAATTTGTGATCAGCTTTTGAAATTT 57.888 25.926 0.00 0.00 39.77 1.82
3879 4288 8.665643 TGAATTTGTGATCAGCTTTTGAAATT 57.334 26.923 0.00 0.00 39.77 1.82
3880 4289 8.665643 TTGAATTTGTGATCAGCTTTTGAAAT 57.334 26.923 0.00 0.00 39.77 2.17
3881 4290 8.489990 TTTGAATTTGTGATCAGCTTTTGAAA 57.510 26.923 0.00 0.00 39.77 2.69
3882 4291 8.489990 TTTTGAATTTGTGATCAGCTTTTGAA 57.510 26.923 0.00 0.00 39.77 2.69
3883 4292 8.489990 TTTTTGAATTTGTGATCAGCTTTTGA 57.510 26.923 0.00 0.00 40.85 2.69


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

AutoCloner maintained by Alex Coulton.