Multiple sequence alignment - TraesCS1A01G108100

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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 TraesCS1A01G108100 chr1A 100.000 4535 0 0 1 4535 107111090 107106556 0.000000e+00 8375
1 TraesCS1A01G108100 chr1A 100.000 40 0 0 4036 4075 107107015 107106976 1.750000e-09 75
2 TraesCS1A01G108100 chr1A 100.000 40 0 0 4076 4115 107107055 107107016 1.750000e-09 75
3 TraesCS1A01G108100 chr1D 95.943 3944 95 23 1 3894 106234268 106238196 0.000000e+00 6336
4 TraesCS1A01G108100 chr1D 93.714 350 16 3 4129 4477 106238232 106238576 1.870000e-143 520
5 TraesCS1A01G108100 chr1D 87.407 135 13 3 3926 4057 402722972 402722839 7.860000e-33 152
6 TraesCS1A01G108100 chr1D 98.387 62 1 0 4474 4535 106238600 106238661 4.800000e-20 110
7 TraesCS1A01G108100 chr1B 96.265 3802 107 16 1 3769 161213557 161209758 0.000000e+00 6202
8 TraesCS1A01G108100 chr1B 91.429 350 18 6 4129 4477 161209640 161209302 1.910000e-128 470
9 TraesCS1A01G108100 chr1B 96.774 62 2 0 4474 4535 161209278 161209217 2.230000e-18 104
10 TraesCS1A01G108100 chr3B 86.466 133 16 1 3927 4057 207205322 207205454 1.310000e-30 145
11 TraesCS1A01G108100 chr5D 82.576 132 13 8 3929 4055 170266433 170266307 1.730000e-19 108


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 TraesCS1A01G108100 chr1A 107106556 107111090 4534 True 8375.000000 8375 100.000000 1 4535 1 chr1A.!!$R1 4534
1 TraesCS1A01G108100 chr1D 106234268 106238661 4393 False 2322.000000 6336 96.014667 1 4535 3 chr1D.!!$F1 4534
2 TraesCS1A01G108100 chr1B 161209217 161213557 4340 True 2258.666667 6202 94.822667 1 4535 3 chr1B.!!$R1 4534

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
108 110 1.008538 GCCCGCCGCAATTAATGAG 60.009 57.895 0.00 0.0 37.47 2.90 F
445 460 1.068921 GCTCTGGATCCTCCGCTTC 59.931 63.158 14.23 0.0 40.17 3.86 F
1122 1172 1.220206 CCTCATCAACTGCGGCTCT 59.780 57.895 0.00 0.0 0.00 4.09 F
1617 1667 0.104934 ATCCCTCCGGCCAGTATCTT 60.105 55.000 2.24 0.0 0.00 2.40 F
2973 3026 0.613260 CGGGACCTGAGTTGGATCAA 59.387 55.000 0.00 0.0 0.00 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1451 1501 1.066430 GCGAATACTCCCTGACCAACA 60.066 52.381 0.00 0.00 0.00 3.33 R
1587 1637 1.453155 CGGAGGGATTCACAGTTTGG 58.547 55.000 0.00 0.00 0.00 3.28 R
2973 3026 0.874390 CCGCAGTGCTAACATGTGTT 59.126 50.000 14.33 3.64 41.73 3.32 R
3424 3477 0.681887 TCTGCGGTACCGATCTCCAA 60.682 55.000 37.62 11.73 42.83 3.53 R
3828 3911 0.100146 GCAAGCTGCTTATGGTCTGC 59.900 55.000 15.51 9.52 40.96 4.26 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
68 69 5.243730 TCTTCAATTCATCTTCCCACCAAAC 59.756 40.000 0.00 0.00 0.00 2.93
74 75 1.975660 TCTTCCCACCAAACTTTCCG 58.024 50.000 0.00 0.00 0.00 4.30
108 110 1.008538 GCCCGCCGCAATTAATGAG 60.009 57.895 0.00 0.00 37.47 2.90
422 437 4.503714 TCAAGAAAAGACTGGTTCTGGT 57.496 40.909 3.11 0.00 34.33 4.00
445 460 1.068921 GCTCTGGATCCTCCGCTTC 59.931 63.158 14.23 0.00 40.17 3.86
458 473 4.660938 GCTTCCCCAACCGCCTGT 62.661 66.667 0.00 0.00 0.00 4.00
547 591 4.454717 GCGCCGCAAAGGTAACCG 62.455 66.667 3.15 0.00 43.70 4.44
583 627 2.110578 GGGGGATTGGGTTGATTTCAG 58.889 52.381 0.00 0.00 0.00 3.02
588 632 3.756434 GGATTGGGTTGATTTCAGTCGAA 59.244 43.478 0.00 0.00 0.00 3.71
626 670 2.036256 GGGCTCCTGCATGTTGGT 59.964 61.111 0.00 0.00 41.91 3.67
629 673 1.589716 GGCTCCTGCATGTTGGTGAC 61.590 60.000 10.77 5.62 41.91 3.67
644 688 5.529430 TGTTGGTGACGATACTGATTTTGTT 59.471 36.000 0.00 0.00 0.00 2.83
691 735 2.814604 CGGTGGATGGAGCGATGA 59.185 61.111 0.00 0.00 39.17 2.92
701 745 1.815421 GAGCGATGATGCGGGTGTT 60.815 57.895 0.00 0.00 40.67 3.32
771 819 2.738521 CCTGCCGACCAAGACACG 60.739 66.667 0.00 0.00 0.00 4.49
794 842 4.762251 GGAAAATCTAAGCCTGTTCACACT 59.238 41.667 0.00 0.00 0.00 3.55
1020 1070 2.125512 GGCACCACTACCGAGCAG 60.126 66.667 0.00 0.00 0.00 4.24
1122 1172 1.220206 CCTCATCAACTGCGGCTCT 59.780 57.895 0.00 0.00 0.00 4.09
1261 1311 5.187772 AGTTCTGACAATCCTGTGCTGTATA 59.812 40.000 0.00 0.00 35.30 1.47
1451 1501 1.448540 CGCCGAGCAATTCCTCACT 60.449 57.895 0.00 0.00 0.00 3.41
1515 1565 4.914983 TGATTCTCTCATTTGTGCCTCTT 58.085 39.130 0.00 0.00 0.00 2.85
1533 1583 4.038402 CCTCTTGGAAACAGCACATCTTTT 59.962 41.667 0.00 0.00 44.54 2.27
1587 1637 4.613925 TGATCTGATACAGGATTCAGCC 57.386 45.455 0.00 0.00 39.36 4.85
1617 1667 0.104934 ATCCCTCCGGCCAGTATCTT 60.105 55.000 2.24 0.00 0.00 2.40
2129 2179 2.759114 TGGGCCTTCCAGCTTGAG 59.241 61.111 4.53 0.00 41.46 3.02
2252 2302 4.401925 AGGAAACTGGCTATCATATTGGC 58.598 43.478 0.00 0.00 41.13 4.52
2973 3026 0.613260 CGGGACCTGAGTTGGATCAA 59.387 55.000 0.00 0.00 0.00 2.57
3099 3152 1.277557 GTCTTGCTGGAGGTGATCTGT 59.722 52.381 0.00 0.00 0.00 3.41
3272 3325 1.001597 GACGGTCGAGAAGTGTCTTGT 60.002 52.381 0.00 0.00 36.71 3.16
3285 3338 1.270412 TGTCTTGTGGATTACGGCGTT 60.270 47.619 21.24 0.00 0.00 4.84
3424 3477 1.611965 GCCAGAAGGATGGGCTCTT 59.388 57.895 0.00 0.00 44.32 2.85
3444 3506 1.359475 GGAGATCGGTACCGCAGAC 59.641 63.158 29.64 18.71 39.59 3.51
3445 3507 1.009900 GAGATCGGTACCGCAGACG 60.010 63.158 29.64 4.93 39.59 4.18
3446 3508 1.434622 GAGATCGGTACCGCAGACGA 61.435 60.000 29.64 11.72 43.93 4.20
3447 3509 1.028330 AGATCGGTACCGCAGACGAA 61.028 55.000 29.64 10.92 43.93 3.85
3448 3510 0.591741 GATCGGTACCGCAGACGAAG 60.592 60.000 29.64 0.00 43.93 3.79
3449 3511 2.609183 ATCGGTACCGCAGACGAAGC 62.609 60.000 29.64 0.00 43.93 3.86
3450 3512 2.260434 GGTACCGCAGACGAAGCA 59.740 61.111 0.00 0.00 43.93 3.91
3451 3513 1.805945 GGTACCGCAGACGAAGCAG 60.806 63.158 0.00 0.00 43.93 4.24
3452 3514 1.211969 GTACCGCAGACGAAGCAGA 59.788 57.895 0.00 0.00 43.93 4.26
3613 3675 4.391523 GGAGAAAAGAGATGTCTGTTGCTC 59.608 45.833 0.00 7.03 29.49 4.26
3628 3690 2.864343 GTTGCTCGTCCATACCATGTAC 59.136 50.000 0.00 0.00 0.00 2.90
3636 3698 4.092821 CGTCCATACCATGTACTGTTGTTG 59.907 45.833 0.00 0.00 0.00 3.33
3638 3700 4.009675 CCATACCATGTACTGTTGTTGCT 58.990 43.478 0.00 0.00 0.00 3.91
3769 3839 8.472007 ACCTATTTGGAACACATGAACTTAAA 57.528 30.769 0.00 0.00 39.29 1.52
3792 3862 8.922931 AAATATTCAGCCAAAAACAATTCCTT 57.077 26.923 0.00 0.00 0.00 3.36
3795 3865 5.860941 TCAGCCAAAAACAATTCCTTACA 57.139 34.783 0.00 0.00 0.00 2.41
3798 3868 7.106239 TCAGCCAAAAACAATTCCTTACAAAA 58.894 30.769 0.00 0.00 0.00 2.44
3827 3910 7.836842 ACAGAAAATTTGTACAGGAACACTTT 58.163 30.769 0.00 0.00 0.00 2.66
3828 3911 7.759433 ACAGAAAATTTGTACAGGAACACTTTG 59.241 33.333 0.00 0.00 0.00 2.77
3839 3922 4.074970 AGGAACACTTTGCAGACCATAAG 58.925 43.478 0.00 0.00 0.00 1.73
3894 3977 3.200958 TGCCTAAAAGGTACTCCCTCT 57.799 47.619 0.00 0.00 45.47 3.69
3895 3978 3.527937 TGCCTAAAAGGTACTCCCTCTT 58.472 45.455 0.00 0.00 45.47 2.85
3896 3979 4.691238 TGCCTAAAAGGTACTCCCTCTTA 58.309 43.478 0.00 0.00 45.47 2.10
3897 3980 4.715297 TGCCTAAAAGGTACTCCCTCTTAG 59.285 45.833 0.00 0.00 45.47 2.18
3898 3981 4.961099 GCCTAAAAGGTACTCCCTCTTAGA 59.039 45.833 3.56 0.00 45.47 2.10
3899 3982 5.069383 GCCTAAAAGGTACTCCCTCTTAGAG 59.931 48.000 1.56 1.56 45.47 2.43
3901 3984 6.896307 CCTAAAAGGTACTCCCTCTTAGAGAA 59.104 42.308 11.32 0.00 45.47 2.87
3903 3986 7.816300 AAAAGGTACTCCCTCTTAGAGAAAT 57.184 36.000 11.32 0.00 45.47 2.17
3904 3987 8.912614 AAAAGGTACTCCCTCTTAGAGAAATA 57.087 34.615 11.32 0.00 45.47 1.40
3905 3988 9.508721 AAAAGGTACTCCCTCTTAGAGAAATAT 57.491 33.333 11.32 0.00 45.47 1.28
3908 3991 9.816787 AGGTACTCCCTCTTAGAGAAATATAAG 57.183 37.037 11.32 0.39 40.71 1.73
3909 3992 9.810870 GGTACTCCCTCTTAGAGAAATATAAGA 57.189 37.037 11.32 0.00 36.04 2.10
3929 4012 8.894768 ATAAGAGTGTTTATAGATCACCAAGC 57.105 34.615 0.00 0.00 33.21 4.01
3931 4014 4.781934 AGTGTTTATAGATCACCAAGCCC 58.218 43.478 0.00 0.00 33.21 5.19
3932 4015 3.560068 GTGTTTATAGATCACCAAGCCCG 59.440 47.826 0.00 0.00 0.00 6.13
3933 4016 2.543777 TTATAGATCACCAAGCCCGC 57.456 50.000 0.00 0.00 0.00 6.13
3934 4017 0.317160 TATAGATCACCAAGCCCGCG 59.683 55.000 0.00 0.00 0.00 6.46
3935 4018 1.686325 ATAGATCACCAAGCCCGCGT 61.686 55.000 4.92 0.00 0.00 6.01
3936 4019 1.895020 TAGATCACCAAGCCCGCGTT 61.895 55.000 4.92 0.00 0.00 4.84
3937 4020 2.746277 ATCACCAAGCCCGCGTTC 60.746 61.111 4.92 0.00 0.00 3.95
3938 4021 3.545124 ATCACCAAGCCCGCGTTCA 62.545 57.895 4.92 0.00 0.00 3.18
3939 4022 3.726517 CACCAAGCCCGCGTTCAG 61.727 66.667 4.92 0.00 0.00 3.02
3941 4024 4.697756 CCAAGCCCGCGTTCAGGA 62.698 66.667 4.92 0.00 0.00 3.86
3942 4025 2.668212 CAAGCCCGCGTTCAGGAA 60.668 61.111 4.92 0.00 0.00 3.36
3943 4026 2.040544 CAAGCCCGCGTTCAGGAAT 61.041 57.895 4.92 0.00 0.00 3.01
3944 4027 1.303317 AAGCCCGCGTTCAGGAATT 60.303 52.632 4.92 0.00 0.00 2.17
3945 4028 1.305930 AAGCCCGCGTTCAGGAATTC 61.306 55.000 4.92 0.00 0.00 2.17
3946 4029 2.038269 GCCCGCGTTCAGGAATTCA 61.038 57.895 4.92 0.00 0.00 2.57
3947 4030 1.794222 CCCGCGTTCAGGAATTCAC 59.206 57.895 4.92 0.00 0.00 3.18
3948 4031 1.644786 CCCGCGTTCAGGAATTCACC 61.645 60.000 4.92 0.00 0.00 4.02
3949 4032 0.953471 CCGCGTTCAGGAATTCACCA 60.953 55.000 4.92 0.00 0.00 4.17
3950 4033 0.443869 CGCGTTCAGGAATTCACCAG 59.556 55.000 7.93 0.00 0.00 4.00
3951 4034 0.169009 GCGTTCAGGAATTCACCAGC 59.831 55.000 7.93 1.27 0.00 4.85
3952 4035 1.813513 CGTTCAGGAATTCACCAGCT 58.186 50.000 7.93 0.00 0.00 4.24
3953 4036 1.734465 CGTTCAGGAATTCACCAGCTC 59.266 52.381 7.93 0.00 0.00 4.09
3954 4037 2.087646 GTTCAGGAATTCACCAGCTCC 58.912 52.381 7.93 0.00 0.00 4.70
3955 4038 0.250234 TCAGGAATTCACCAGCTCCG 59.750 55.000 7.93 0.00 32.91 4.63
3956 4039 1.078143 AGGAATTCACCAGCTCCGC 60.078 57.895 7.93 0.00 32.91 5.54
3957 4040 1.377202 GGAATTCACCAGCTCCGCA 60.377 57.895 7.93 0.00 0.00 5.69
3958 4041 1.372087 GGAATTCACCAGCTCCGCAG 61.372 60.000 7.93 0.00 0.00 5.18
3959 4042 0.391661 GAATTCACCAGCTCCGCAGA 60.392 55.000 0.00 0.00 0.00 4.26
3960 4043 0.254178 AATTCACCAGCTCCGCAGAT 59.746 50.000 0.00 0.00 0.00 2.90
3961 4044 0.254178 ATTCACCAGCTCCGCAGATT 59.746 50.000 0.00 0.00 0.00 2.40
3962 4045 0.036732 TTCACCAGCTCCGCAGATTT 59.963 50.000 0.00 0.00 0.00 2.17
3963 4046 0.674581 TCACCAGCTCCGCAGATTTG 60.675 55.000 0.00 0.00 0.00 2.32
3989 4072 4.094684 CGGTTTGCTCGCTCCTAG 57.905 61.111 0.00 0.00 0.00 3.02
3990 4073 1.511305 CGGTTTGCTCGCTCCTAGA 59.489 57.895 0.00 0.00 0.00 2.43
3991 4074 0.103208 CGGTTTGCTCGCTCCTAGAT 59.897 55.000 0.00 0.00 0.00 1.98
3992 4075 1.471676 CGGTTTGCTCGCTCCTAGATT 60.472 52.381 0.00 0.00 0.00 2.40
3993 4076 2.633488 GGTTTGCTCGCTCCTAGATTT 58.367 47.619 0.00 0.00 0.00 2.17
3994 4077 3.010420 GGTTTGCTCGCTCCTAGATTTT 58.990 45.455 0.00 0.00 0.00 1.82
3995 4078 3.181506 GGTTTGCTCGCTCCTAGATTTTG 60.182 47.826 0.00 0.00 0.00 2.44
3996 4079 3.334583 TTGCTCGCTCCTAGATTTTGT 57.665 42.857 0.00 0.00 0.00 2.83
3997 4080 4.465632 TTGCTCGCTCCTAGATTTTGTA 57.534 40.909 0.00 0.00 0.00 2.41
3998 4081 3.782046 TGCTCGCTCCTAGATTTTGTAC 58.218 45.455 0.00 0.00 0.00 2.90
3999 4082 3.447586 TGCTCGCTCCTAGATTTTGTACT 59.552 43.478 0.00 0.00 0.00 2.73
4000 4083 4.643334 TGCTCGCTCCTAGATTTTGTACTA 59.357 41.667 0.00 0.00 0.00 1.82
4001 4084 5.216648 GCTCGCTCCTAGATTTTGTACTAG 58.783 45.833 0.00 0.00 36.73 2.57
4002 4085 5.008811 GCTCGCTCCTAGATTTTGTACTAGA 59.991 44.000 0.00 0.00 38.53 2.43
4003 4086 6.621316 TCGCTCCTAGATTTTGTACTAGAG 57.379 41.667 0.00 0.00 38.53 2.43
4004 4087 5.008811 TCGCTCCTAGATTTTGTACTAGAGC 59.991 44.000 0.00 0.05 38.53 4.09
4005 4088 5.009210 CGCTCCTAGATTTTGTACTAGAGCT 59.991 44.000 0.00 0.00 38.53 4.09
4006 4089 6.443792 GCTCCTAGATTTTGTACTAGAGCTC 58.556 44.000 5.27 5.27 38.53 4.09
4007 4090 6.516028 GCTCCTAGATTTTGTACTAGAGCTCC 60.516 46.154 10.93 0.00 38.53 4.70
4008 4091 5.531659 TCCTAGATTTTGTACTAGAGCTCCG 59.468 44.000 10.93 4.43 38.53 4.63
4009 4092 5.299782 CCTAGATTTTGTACTAGAGCTCCGT 59.700 44.000 10.93 10.77 38.53 4.69
4010 4093 5.251601 AGATTTTGTACTAGAGCTCCGTC 57.748 43.478 10.93 3.66 0.00 4.79
4011 4094 3.863142 TTTTGTACTAGAGCTCCGTCC 57.137 47.619 10.93 0.00 0.00 4.79
4012 4095 1.376543 TTGTACTAGAGCTCCGTCCG 58.623 55.000 10.93 0.00 0.00 4.79
4013 4096 1.094073 TGTACTAGAGCTCCGTCCGC 61.094 60.000 10.93 3.54 0.00 5.54
4014 4097 0.814812 GTACTAGAGCTCCGTCCGCT 60.815 60.000 10.93 0.00 41.15 5.52
4042 4125 0.676736 CTCCCGGAGCAGAGTATTCC 59.323 60.000 0.73 0.00 0.00 3.01
4043 4126 0.759436 TCCCGGAGCAGAGTATTCCC 60.759 60.000 0.73 0.00 0.00 3.97
4044 4127 1.048724 CCCGGAGCAGAGTATTCCCA 61.049 60.000 0.73 0.00 0.00 4.37
4045 4128 0.830648 CCGGAGCAGAGTATTCCCAA 59.169 55.000 0.00 0.00 0.00 4.12
4046 4129 1.209504 CCGGAGCAGAGTATTCCCAAA 59.790 52.381 0.00 0.00 0.00 3.28
4047 4130 2.280628 CGGAGCAGAGTATTCCCAAAC 58.719 52.381 0.00 0.00 0.00 2.93
4048 4131 2.354704 CGGAGCAGAGTATTCCCAAACA 60.355 50.000 0.00 0.00 0.00 2.83
4049 4132 3.274288 GGAGCAGAGTATTCCCAAACAG 58.726 50.000 0.00 0.00 0.00 3.16
4050 4133 3.274288 GAGCAGAGTATTCCCAAACAGG 58.726 50.000 0.00 0.00 37.03 4.00
4062 4145 3.434940 CCAAACAGGGCCTAAAGTAGT 57.565 47.619 5.28 0.00 0.00 2.73
4063 4146 3.081804 CCAAACAGGGCCTAAAGTAGTG 58.918 50.000 5.28 2.55 0.00 2.74
4064 4147 3.244770 CCAAACAGGGCCTAAAGTAGTGA 60.245 47.826 5.28 0.00 0.00 3.41
4065 4148 4.567747 CCAAACAGGGCCTAAAGTAGTGAT 60.568 45.833 5.28 0.00 0.00 3.06
4066 4149 3.914426 ACAGGGCCTAAAGTAGTGATG 57.086 47.619 5.28 0.00 0.00 3.07
4067 4150 3.182152 ACAGGGCCTAAAGTAGTGATGT 58.818 45.455 5.28 0.00 0.00 3.06
4068 4151 4.359105 ACAGGGCCTAAAGTAGTGATGTA 58.641 43.478 5.28 0.00 0.00 2.29
4069 4152 4.781087 ACAGGGCCTAAAGTAGTGATGTAA 59.219 41.667 5.28 0.00 0.00 2.41
4070 4153 5.249852 ACAGGGCCTAAAGTAGTGATGTAAA 59.750 40.000 5.28 0.00 0.00 2.01
4071 4154 5.585047 CAGGGCCTAAAGTAGTGATGTAAAC 59.415 44.000 5.28 0.00 0.00 2.01
4072 4155 4.569564 GGGCCTAAAGTAGTGATGTAAACG 59.430 45.833 0.84 0.00 0.00 3.60
4073 4156 4.033702 GGCCTAAAGTAGTGATGTAAACGC 59.966 45.833 0.00 0.00 0.00 4.84
4074 4157 4.868734 GCCTAAAGTAGTGATGTAAACGCT 59.131 41.667 0.00 0.00 32.78 5.07
4075 4158 6.038356 GCCTAAAGTAGTGATGTAAACGCTA 58.962 40.000 0.00 0.00 29.98 4.26
4076 4159 6.198591 GCCTAAAGTAGTGATGTAAACGCTAG 59.801 42.308 0.00 0.00 32.16 3.42
4077 4160 7.256286 CCTAAAGTAGTGATGTAAACGCTAGT 58.744 38.462 0.00 0.00 37.01 2.57
4078 4161 8.400947 CCTAAAGTAGTGATGTAAACGCTAGTA 58.599 37.037 0.00 0.00 34.77 1.82
4079 4162 9.947669 CTAAAGTAGTGATGTAAACGCTAGTAT 57.052 33.333 0.00 0.00 34.77 2.12
4081 4164 8.853469 AAGTAGTGATGTAAACGCTAGTATTC 57.147 34.615 0.00 0.00 34.77 1.75
4082 4165 7.424001 AGTAGTGATGTAAACGCTAGTATTCC 58.576 38.462 0.00 0.00 34.19 3.01
4083 4166 5.598769 AGTGATGTAAACGCTAGTATTCCC 58.401 41.667 0.00 0.00 0.00 3.97
4084 4167 5.128171 AGTGATGTAAACGCTAGTATTCCCA 59.872 40.000 0.00 0.00 0.00 4.37
4085 4168 5.813672 GTGATGTAAACGCTAGTATTCCCAA 59.186 40.000 0.00 0.00 0.00 4.12
4086 4169 6.314400 GTGATGTAAACGCTAGTATTCCCAAA 59.686 38.462 0.00 0.00 0.00 3.28
4087 4170 6.314400 TGATGTAAACGCTAGTATTCCCAAAC 59.686 38.462 0.00 0.00 0.00 2.93
4088 4171 5.549347 TGTAAACGCTAGTATTCCCAAACA 58.451 37.500 0.00 0.00 0.00 2.83
4089 4172 5.640357 TGTAAACGCTAGTATTCCCAAACAG 59.360 40.000 0.00 0.00 0.00 3.16
4090 4173 3.261981 ACGCTAGTATTCCCAAACAGG 57.738 47.619 0.00 0.00 37.03 4.00
4102 4185 3.434940 CCAAACAGGGCCTAAAGTAGT 57.565 47.619 5.28 0.00 0.00 2.73
4103 4186 3.081804 CCAAACAGGGCCTAAAGTAGTG 58.918 50.000 5.28 2.55 0.00 2.74
4104 4187 3.244770 CCAAACAGGGCCTAAAGTAGTGA 60.245 47.826 5.28 0.00 0.00 3.41
4105 4188 4.567747 CCAAACAGGGCCTAAAGTAGTGAT 60.568 45.833 5.28 0.00 0.00 3.06
4106 4189 3.914426 ACAGGGCCTAAAGTAGTGATG 57.086 47.619 5.28 0.00 0.00 3.07
4107 4190 3.182152 ACAGGGCCTAAAGTAGTGATGT 58.818 45.455 5.28 0.00 0.00 3.06
4108 4191 4.359105 ACAGGGCCTAAAGTAGTGATGTA 58.641 43.478 5.28 0.00 0.00 2.29
4119 4202 7.578169 AAAGTAGTGATGTAAACGCTCTTAC 57.422 36.000 0.00 0.00 29.98 2.34
4126 4209 5.813080 ATGTAAACGCTCTTACATTTCCC 57.187 39.130 12.21 0.00 45.83 3.97
4127 4210 4.901868 TGTAAACGCTCTTACATTTCCCT 58.098 39.130 3.99 0.00 36.97 4.20
4192 4277 3.802948 ATTTAGCTAGTGACGTCTGGG 57.197 47.619 17.92 5.65 0.00 4.45
4193 4278 2.502142 TTAGCTAGTGACGTCTGGGA 57.498 50.000 17.92 0.00 0.00 4.37
4220 4305 4.202202 ACTGATCATGCTAGCCAAGTCTAC 60.202 45.833 13.29 0.00 0.00 2.59
4231 4316 6.316390 GCTAGCCAAGTCTACATAACATTGTT 59.684 38.462 2.29 7.30 0.00 2.83
4279 4364 1.094785 GACAAGGCGGCATAACACAT 58.905 50.000 13.08 0.00 0.00 3.21
4389 4474 8.949177 TCGACAAACATACTAACATAGTCTACA 58.051 33.333 0.00 0.00 40.14 2.74
4424 4509 1.081892 CCCAAGAGACGATGCAACAG 58.918 55.000 0.00 0.00 0.00 3.16
4449 4534 3.312736 AATTCAAGTTGAGGGTGGTGT 57.687 42.857 5.56 0.00 0.00 4.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
38 39 3.691609 GGAAGATGAATTGAAGAGGCGTT 59.308 43.478 0.00 0.00 0.00 4.84
68 69 4.803908 GGGGCAGAGGGCGGAAAG 62.804 72.222 0.00 0.00 46.16 2.62
97 98 1.312815 AGGAGCGGCTCATTAATTGC 58.687 50.000 29.33 10.93 31.08 3.56
381 396 1.377856 GCCAGCCAAGAAGAGGGAC 60.378 63.158 0.00 0.00 0.00 4.46
445 460 3.190738 TTCAGACAGGCGGTTGGGG 62.191 63.158 0.00 0.00 0.00 4.96
458 473 1.374947 CCCCCGCAAGAACTTCAGA 59.625 57.895 0.00 0.00 43.02 3.27
498 528 2.817423 GCTGAATCGCCTCTTGCCG 61.817 63.158 0.00 0.00 36.24 5.69
532 576 4.111016 GGCGGTTACCTTTGCGGC 62.111 66.667 0.00 0.00 35.61 6.53
534 578 3.436924 GGGGCGGTTACCTTTGCG 61.437 66.667 0.00 0.00 0.00 4.85
547 591 4.154347 CCAGCTGAGACGAGGGGC 62.154 72.222 17.39 0.00 0.00 5.80
583 627 7.270579 CGGAAAAACAGAATAAAATCCTTCGAC 59.729 37.037 0.00 0.00 0.00 4.20
588 632 5.337250 GCCCGGAAAAACAGAATAAAATCCT 60.337 40.000 0.73 0.00 0.00 3.24
626 670 6.434596 CCACAAAACAAAATCAGTATCGTCA 58.565 36.000 0.00 0.00 0.00 4.35
629 673 5.856455 GTCCCACAAAACAAAATCAGTATCG 59.144 40.000 0.00 0.00 0.00 2.92
644 688 3.500448 TCTGCACAATAGTCCCACAAA 57.500 42.857 0.00 0.00 0.00 2.83
691 735 2.026262 ACCTTATCAAGAACACCCGCAT 60.026 45.455 0.00 0.00 0.00 4.73
701 745 3.758554 GGCAAGCAAGAACCTTATCAAGA 59.241 43.478 0.00 0.00 0.00 3.02
771 819 4.762251 AGTGTGAACAGGCTTAGATTTTCC 59.238 41.667 0.00 0.00 0.00 3.13
794 842 6.611381 CACTCGGAAATTGAAGCAATAGAAA 58.389 36.000 0.00 0.00 32.43 2.52
1020 1070 4.370917 CAAGAAGGAGCAGAGCTATCTTC 58.629 47.826 18.59 18.59 43.08 2.87
1122 1172 1.655484 TGAGATTAGCGTCGACCGTA 58.345 50.000 10.58 0.00 39.32 4.02
1141 1191 1.358152 TTGAAGACCCTCCCATCGTT 58.642 50.000 0.00 0.00 0.00 3.85
1261 1311 5.870978 GCACAATGAATATCCTTGCAGTTTT 59.129 36.000 0.00 0.00 0.00 2.43
1451 1501 1.066430 GCGAATACTCCCTGACCAACA 60.066 52.381 0.00 0.00 0.00 3.33
1515 1565 6.647334 TTGATAAAAGATGTGCTGTTTCCA 57.353 33.333 0.00 0.00 0.00 3.53
1587 1637 1.453155 CGGAGGGATTCACAGTTTGG 58.547 55.000 0.00 0.00 0.00 3.28
1617 1667 3.286751 GACTGCGTTGCAAGGCCA 61.287 61.111 33.93 22.83 38.41 5.36
1662 1712 2.603776 GTCACCTCCCGTCCACCT 60.604 66.667 0.00 0.00 0.00 4.00
2129 2179 1.514087 CCATCTGGTGCCACATTGC 59.486 57.895 0.00 0.00 0.00 3.56
2252 2302 1.481056 AACACCTCCGAGAACAGGGG 61.481 60.000 0.00 0.00 39.39 4.79
2706 2759 3.193263 CACCAAGATCATCTCGTTCTGG 58.807 50.000 1.27 1.27 0.00 3.86
2973 3026 0.874390 CCGCAGTGCTAACATGTGTT 59.126 50.000 14.33 3.64 41.73 3.32
3099 3152 2.355445 GATCGATGACTGGCCTCGCA 62.355 60.000 0.54 0.00 32.62 5.10
3117 3170 1.176619 TGTCTCTTGGAAGCGTCGGA 61.177 55.000 0.00 0.00 0.00 4.55
3272 3325 1.446445 CGGTCAACGCCGTAATCCA 60.446 57.895 0.00 0.00 46.11 3.41
3285 3338 2.994699 CCCATTGTAGGGCGGTCA 59.005 61.111 0.00 0.00 43.10 4.02
3297 3350 1.371467 TCCACAGGACATCACCCATT 58.629 50.000 0.00 0.00 0.00 3.16
3424 3477 0.681887 TCTGCGGTACCGATCTCCAA 60.682 55.000 37.62 11.73 42.83 3.53
3444 3506 3.181967 CGGCCTTCGTCTGCTTCG 61.182 66.667 0.00 0.00 0.00 3.79
3445 3507 3.491652 GCGGCCTTCGTCTGCTTC 61.492 66.667 0.00 0.00 41.72 3.86
3446 3508 4.314440 TGCGGCCTTCGTCTGCTT 62.314 61.111 0.00 0.00 41.72 3.91
3466 3528 4.981054 CGACATCTGAGAGTAATCCATGTG 59.019 45.833 0.00 0.00 0.00 3.21
3636 3698 1.545582 TGCAATTAAGGGCTTGTCAGC 59.454 47.619 3.22 0.00 46.52 4.26
3638 3700 3.831333 TGAATGCAATTAAGGGCTTGTCA 59.169 39.130 0.00 1.93 36.07 3.58
3698 3760 6.238320 GCTGACAAACATCTAACAGATCATCC 60.238 42.308 0.00 0.00 31.32 3.51
3769 3839 8.592809 TGTAAGGAATTGTTTTTGGCTGAATAT 58.407 29.630 0.00 0.00 0.00 1.28
3771 3841 6.825610 TGTAAGGAATTGTTTTTGGCTGAAT 58.174 32.000 0.00 0.00 0.00 2.57
3795 3865 9.883142 TTCCTGTACAAATTTTCTGTCAATTTT 57.117 25.926 0.00 0.00 32.57 1.82
3798 3868 7.920682 GTGTTCCTGTACAAATTTTCTGTCAAT 59.079 33.333 0.00 0.00 0.00 2.57
3812 3882 3.202906 GTCTGCAAAGTGTTCCTGTACA 58.797 45.455 0.00 0.00 0.00 2.90
3815 3898 1.064758 TGGTCTGCAAAGTGTTCCTGT 60.065 47.619 0.00 0.00 0.00 4.00
3827 3910 1.456296 CAAGCTGCTTATGGTCTGCA 58.544 50.000 15.51 0.00 35.30 4.41
3828 3911 0.100146 GCAAGCTGCTTATGGTCTGC 59.900 55.000 15.51 9.52 40.96 4.26
3839 3922 1.334243 GAATCAGGATCAGCAAGCTGC 59.666 52.381 16.89 4.30 45.46 5.25
3867 3950 4.501071 GAGTACCTTTTAGGCATCGTGAA 58.499 43.478 0.00 0.00 39.63 3.18
3903 3986 9.982651 GCTTGGTGATCTATAAACACTCTTATA 57.017 33.333 0.00 0.00 35.28 0.98
3904 3987 7.934120 GGCTTGGTGATCTATAAACACTCTTAT 59.066 37.037 0.00 0.00 35.28 1.73
3905 3988 7.272978 GGCTTGGTGATCTATAAACACTCTTA 58.727 38.462 0.00 0.00 35.28 2.10
3906 3989 6.116126 GGCTTGGTGATCTATAAACACTCTT 58.884 40.000 0.00 0.00 35.28 2.85
3908 3991 4.816925 GGGCTTGGTGATCTATAAACACTC 59.183 45.833 0.00 0.00 35.28 3.51
3909 3992 4.683400 CGGGCTTGGTGATCTATAAACACT 60.683 45.833 0.00 0.00 35.28 3.55
3910 3993 3.560068 CGGGCTTGGTGATCTATAAACAC 59.440 47.826 0.00 0.00 0.00 3.32
3911 3994 3.804036 CGGGCTTGGTGATCTATAAACA 58.196 45.455 0.00 0.00 0.00 2.83
3913 3996 2.805295 CGCGGGCTTGGTGATCTATAAA 60.805 50.000 0.00 0.00 0.00 1.40
3916 3999 1.069765 CGCGGGCTTGGTGATCTAT 59.930 57.895 0.00 0.00 0.00 1.98
3918 4001 3.254024 AACGCGGGCTTGGTGATCT 62.254 57.895 12.47 0.00 0.00 2.75
3919 4002 2.746277 AACGCGGGCTTGGTGATC 60.746 61.111 12.47 0.00 0.00 2.92
3920 4003 2.746277 GAACGCGGGCTTGGTGAT 60.746 61.111 12.47 0.00 0.00 3.06
3922 4005 3.726517 CTGAACGCGGGCTTGGTG 61.727 66.667 12.47 0.00 0.00 4.17
3924 4007 4.697756 TCCTGAACGCGGGCTTGG 62.698 66.667 12.47 6.06 40.61 3.61
3927 4010 1.745489 GAATTCCTGAACGCGGGCT 60.745 57.895 12.47 0.00 40.61 5.19
3928 4011 2.038269 TGAATTCCTGAACGCGGGC 61.038 57.895 12.47 1.50 40.61 6.13
3929 4012 1.644786 GGTGAATTCCTGAACGCGGG 61.645 60.000 12.47 0.89 42.30 6.13
3931 4014 0.443869 CTGGTGAATTCCTGAACGCG 59.556 55.000 3.53 3.53 0.00 6.01
3932 4015 0.169009 GCTGGTGAATTCCTGAACGC 59.831 55.000 2.27 0.00 0.00 4.84
3933 4016 1.734465 GAGCTGGTGAATTCCTGAACG 59.266 52.381 2.27 0.00 0.00 3.95
3934 4017 2.087646 GGAGCTGGTGAATTCCTGAAC 58.912 52.381 2.27 0.00 0.00 3.18
3935 4018 1.339055 CGGAGCTGGTGAATTCCTGAA 60.339 52.381 2.27 0.00 0.00 3.02
3936 4019 0.250234 CGGAGCTGGTGAATTCCTGA 59.750 55.000 2.27 0.00 0.00 3.86
3937 4020 2.772739 CGGAGCTGGTGAATTCCTG 58.227 57.895 2.27 0.00 0.00 3.86
3955 4038 4.543084 GCCGCTCCGCAAATCTGC 62.543 66.667 0.00 0.00 45.75 4.26
3956 4039 4.228097 CGCCGCTCCGCAAATCTG 62.228 66.667 0.00 0.00 0.00 2.90
3972 4055 0.103208 ATCTAGGAGCGAGCAAACCG 59.897 55.000 0.00 0.00 0.00 4.44
3973 4056 2.317530 AATCTAGGAGCGAGCAAACC 57.682 50.000 0.00 0.00 0.00 3.27
3974 4057 3.437049 ACAAAATCTAGGAGCGAGCAAAC 59.563 43.478 0.00 0.00 0.00 2.93
3975 4058 3.674997 ACAAAATCTAGGAGCGAGCAAA 58.325 40.909 0.00 0.00 0.00 3.68
3976 4059 3.334583 ACAAAATCTAGGAGCGAGCAA 57.665 42.857 0.00 0.00 0.00 3.91
3977 4060 3.447586 AGTACAAAATCTAGGAGCGAGCA 59.552 43.478 0.00 0.00 0.00 4.26
3978 4061 4.048241 AGTACAAAATCTAGGAGCGAGC 57.952 45.455 0.00 0.00 0.00 5.03
3979 4062 6.621316 TCTAGTACAAAATCTAGGAGCGAG 57.379 41.667 0.00 0.00 35.65 5.03
3980 4063 5.008811 GCTCTAGTACAAAATCTAGGAGCGA 59.991 44.000 0.00 0.00 35.65 4.93
3981 4064 5.009210 AGCTCTAGTACAAAATCTAGGAGCG 59.991 44.000 0.00 0.00 39.44 5.03
3982 4065 6.399639 AGCTCTAGTACAAAATCTAGGAGC 57.600 41.667 0.00 0.00 37.50 4.70
3983 4066 6.293735 CGGAGCTCTAGTACAAAATCTAGGAG 60.294 46.154 14.64 0.00 35.65 3.69
3984 4067 5.531659 CGGAGCTCTAGTACAAAATCTAGGA 59.468 44.000 14.64 0.00 35.65 2.94
3985 4068 5.299782 ACGGAGCTCTAGTACAAAATCTAGG 59.700 44.000 14.64 0.00 35.65 3.02
3986 4069 6.380095 ACGGAGCTCTAGTACAAAATCTAG 57.620 41.667 14.64 0.00 36.10 2.43
3987 4070 5.298777 GGACGGAGCTCTAGTACAAAATCTA 59.701 44.000 14.64 0.00 0.00 1.98
3988 4071 4.098196 GGACGGAGCTCTAGTACAAAATCT 59.902 45.833 14.64 0.00 0.00 2.40
3989 4072 4.361420 GGACGGAGCTCTAGTACAAAATC 58.639 47.826 14.64 1.05 0.00 2.17
3990 4073 3.181489 CGGACGGAGCTCTAGTACAAAAT 60.181 47.826 14.64 0.00 0.00 1.82
3991 4074 2.163010 CGGACGGAGCTCTAGTACAAAA 59.837 50.000 14.64 0.00 0.00 2.44
3992 4075 1.741706 CGGACGGAGCTCTAGTACAAA 59.258 52.381 14.64 0.00 0.00 2.83
3993 4076 1.376543 CGGACGGAGCTCTAGTACAA 58.623 55.000 14.64 0.00 0.00 2.41
3994 4077 1.094073 GCGGACGGAGCTCTAGTACA 61.094 60.000 14.64 0.00 0.00 2.90
3995 4078 0.814812 AGCGGACGGAGCTCTAGTAC 60.815 60.000 14.64 13.65 41.83 2.73
3996 4079 1.525923 AGCGGACGGAGCTCTAGTA 59.474 57.895 14.64 0.00 41.83 1.82
3997 4080 2.272797 AGCGGACGGAGCTCTAGT 59.727 61.111 14.64 14.08 41.83 2.57
4023 4106 0.676736 GGAATACTCTGCTCCGGGAG 59.323 60.000 19.95 19.95 35.86 4.30
4024 4107 0.759436 GGGAATACTCTGCTCCGGGA 60.759 60.000 0.00 0.00 0.00 5.14
4025 4108 1.048724 TGGGAATACTCTGCTCCGGG 61.049 60.000 0.00 0.00 0.00 5.73
4026 4109 0.830648 TTGGGAATACTCTGCTCCGG 59.169 55.000 0.00 0.00 0.00 5.14
4027 4110 2.280628 GTTTGGGAATACTCTGCTCCG 58.719 52.381 0.00 0.00 0.00 4.63
4028 4111 3.274288 CTGTTTGGGAATACTCTGCTCC 58.726 50.000 0.00 0.00 0.00 4.70
4029 4112 3.274288 CCTGTTTGGGAATACTCTGCTC 58.726 50.000 0.00 0.00 0.00 4.26
4030 4113 3.356529 CCTGTTTGGGAATACTCTGCT 57.643 47.619 0.00 0.00 0.00 4.24
4042 4125 3.081804 CACTACTTTAGGCCCTGTTTGG 58.918 50.000 0.00 0.00 0.00 3.28
4043 4126 4.015872 TCACTACTTTAGGCCCTGTTTG 57.984 45.455 0.00 0.00 0.00 2.93
4044 4127 4.042934 ACATCACTACTTTAGGCCCTGTTT 59.957 41.667 0.00 0.00 0.00 2.83
4045 4128 3.587506 ACATCACTACTTTAGGCCCTGTT 59.412 43.478 0.00 0.00 0.00 3.16
4046 4129 3.182152 ACATCACTACTTTAGGCCCTGT 58.818 45.455 0.00 0.00 0.00 4.00
4047 4130 3.914426 ACATCACTACTTTAGGCCCTG 57.086 47.619 0.00 0.00 0.00 4.45
4048 4131 5.626116 CGTTTACATCACTACTTTAGGCCCT 60.626 44.000 0.00 0.00 0.00 5.19
4049 4132 4.569564 CGTTTACATCACTACTTTAGGCCC 59.430 45.833 0.00 0.00 0.00 5.80
4050 4133 4.033702 GCGTTTACATCACTACTTTAGGCC 59.966 45.833 0.00 0.00 0.00 5.19
4051 4134 4.868734 AGCGTTTACATCACTACTTTAGGC 59.131 41.667 0.00 0.00 0.00 3.93
4052 4135 7.256286 ACTAGCGTTTACATCACTACTTTAGG 58.744 38.462 0.00 0.00 0.00 2.69
4053 4136 9.947669 ATACTAGCGTTTACATCACTACTTTAG 57.052 33.333 0.00 0.00 0.00 1.85
4055 4138 9.298774 GAATACTAGCGTTTACATCACTACTTT 57.701 33.333 0.00 0.00 0.00 2.66
4056 4139 7.919621 GGAATACTAGCGTTTACATCACTACTT 59.080 37.037 0.00 0.00 0.00 2.24
4057 4140 7.424001 GGAATACTAGCGTTTACATCACTACT 58.576 38.462 0.00 0.00 0.00 2.57
4058 4141 6.640092 GGGAATACTAGCGTTTACATCACTAC 59.360 42.308 0.00 0.00 0.00 2.73
4059 4142 6.321945 TGGGAATACTAGCGTTTACATCACTA 59.678 38.462 0.00 0.00 0.00 2.74
4060 4143 5.128171 TGGGAATACTAGCGTTTACATCACT 59.872 40.000 0.00 0.00 0.00 3.41
4061 4144 5.353938 TGGGAATACTAGCGTTTACATCAC 58.646 41.667 0.00 0.00 0.00 3.06
4062 4145 5.601583 TGGGAATACTAGCGTTTACATCA 57.398 39.130 0.00 0.00 0.00 3.07
4063 4146 6.314400 TGTTTGGGAATACTAGCGTTTACATC 59.686 38.462 0.00 0.00 0.00 3.06
4064 4147 6.174760 TGTTTGGGAATACTAGCGTTTACAT 58.825 36.000 0.00 0.00 0.00 2.29
4065 4148 5.549347 TGTTTGGGAATACTAGCGTTTACA 58.451 37.500 0.00 0.00 0.00 2.41
4066 4149 5.064325 CCTGTTTGGGAATACTAGCGTTTAC 59.936 44.000 0.00 0.00 0.00 2.01
4067 4150 5.180271 CCTGTTTGGGAATACTAGCGTTTA 58.820 41.667 0.00 0.00 0.00 2.01
4068 4151 4.007659 CCTGTTTGGGAATACTAGCGTTT 58.992 43.478 0.00 0.00 0.00 3.60
4069 4152 3.606687 CCTGTTTGGGAATACTAGCGTT 58.393 45.455 0.00 0.00 0.00 4.84
4070 4153 3.261981 CCTGTTTGGGAATACTAGCGT 57.738 47.619 0.00 0.00 0.00 5.07
4082 4165 3.081804 CACTACTTTAGGCCCTGTTTGG 58.918 50.000 0.00 0.00 0.00 3.28
4083 4166 4.015872 TCACTACTTTAGGCCCTGTTTG 57.984 45.455 0.00 0.00 0.00 2.93
4084 4167 4.042934 ACATCACTACTTTAGGCCCTGTTT 59.957 41.667 0.00 0.00 0.00 2.83
4085 4168 3.587506 ACATCACTACTTTAGGCCCTGTT 59.412 43.478 0.00 0.00 0.00 3.16
4086 4169 3.182152 ACATCACTACTTTAGGCCCTGT 58.818 45.455 0.00 0.00 0.00 4.00
4087 4170 3.914426 ACATCACTACTTTAGGCCCTG 57.086 47.619 0.00 0.00 0.00 4.45
4088 4171 5.626116 CGTTTACATCACTACTTTAGGCCCT 60.626 44.000 0.00 0.00 0.00 5.19
4089 4172 4.569564 CGTTTACATCACTACTTTAGGCCC 59.430 45.833 0.00 0.00 0.00 5.80
4090 4173 4.033702 GCGTTTACATCACTACTTTAGGCC 59.966 45.833 0.00 0.00 0.00 5.19
4091 4174 4.868734 AGCGTTTACATCACTACTTTAGGC 59.131 41.667 0.00 0.00 0.00 3.93
4092 4175 6.331061 AGAGCGTTTACATCACTACTTTAGG 58.669 40.000 0.00 0.00 0.00 2.69
4093 4176 7.813852 AAGAGCGTTTACATCACTACTTTAG 57.186 36.000 0.00 0.00 0.00 1.85
4094 4177 8.298854 TGTAAGAGCGTTTACATCACTACTTTA 58.701 33.333 10.73 0.00 38.31 1.85
4095 4178 7.149973 TGTAAGAGCGTTTACATCACTACTTT 58.850 34.615 10.73 0.00 38.31 2.66
4096 4179 6.684686 TGTAAGAGCGTTTACATCACTACTT 58.315 36.000 10.73 0.00 38.31 2.24
4097 4180 6.263516 TGTAAGAGCGTTTACATCACTACT 57.736 37.500 10.73 0.00 38.31 2.57
4105 4188 4.901868 AGGGAAATGTAAGAGCGTTTACA 58.098 39.130 15.31 15.31 44.87 2.41
4106 4189 5.005107 CGTAGGGAAATGTAAGAGCGTTTAC 59.995 44.000 6.48 6.48 34.78 2.01
4107 4190 5.104374 CGTAGGGAAATGTAAGAGCGTTTA 58.896 41.667 0.00 0.00 0.00 2.01
4108 4191 3.930848 CGTAGGGAAATGTAAGAGCGTTT 59.069 43.478 0.00 0.00 0.00 3.60
4126 4209 3.002038 ACTGTTCTACTCCCTCCGTAG 57.998 52.381 0.00 0.00 36.53 3.51
4127 4210 3.521126 ACTACTGTTCTACTCCCTCCGTA 59.479 47.826 0.00 0.00 0.00 4.02
4192 4277 3.273434 TGGCTAGCATGATCAGTGTTTC 58.727 45.455 18.24 0.00 0.00 2.78
4193 4278 3.354948 TGGCTAGCATGATCAGTGTTT 57.645 42.857 18.24 0.00 0.00 2.83
4255 4340 2.017049 GTTATGCCGCCTTGTCTGAAT 58.983 47.619 0.00 0.00 0.00 2.57
4279 4364 7.895975 TTTTCATGTTTGACAAATGTTGACA 57.104 28.000 3.49 0.00 33.73 3.58
4389 4474 2.871096 TGGGCCGAACTCTTATGTTT 57.129 45.000 0.00 0.00 0.00 2.83
4424 4509 5.016831 ACCACCCTCAACTTGAATTAATCC 58.983 41.667 0.00 0.00 0.00 3.01
4449 4534 0.950555 GAGTGATGGTGAACGCTGCA 60.951 55.000 0.00 0.00 0.00 4.41
4490 4602 2.753029 GGCAACAGCCTGAGTCCT 59.247 61.111 0.00 0.00 45.21 3.85


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

AutoCloner maintained by Alex Coulton.