Multiple sequence alignment - TraesCS3B01G411000

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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 TraesCS3B01G411000 chr3B 100.000 3842 0 0 1 3842 647678195 647682036 0.000000e+00 7095
1 TraesCS3B01G411000 chr3B 99.394 165 0 1 3678 3842 652763034 652762871 8.070000e-77 298
2 TraesCS3B01G411000 chr3D 92.919 3700 138 55 1 3609 484820456 484824122 0.000000e+00 5267
3 TraesCS3B01G411000 chr3A 91.256 3751 182 68 1 3672 627862356 627866039 0.000000e+00 4975
4 TraesCS3B01G411000 chr3A 98.810 168 1 1 3676 3842 624252130 624252297 8.070000e-77 298
5 TraesCS3B01G411000 chr1D 78.131 1006 159 40 1876 2842 367430161 367429178 1.990000e-162 582
6 TraesCS3B01G411000 chr1B 77.612 1005 164 40 1876 2842 491983648 491982667 1.560000e-153 553
7 TraesCS3B01G411000 chr1B 88.119 101 12 0 1489 1589 491983948 491983848 1.870000e-23 121
8 TraesCS3B01G411000 chr1A 77.712 1014 153 43 1876 2842 466928349 466927362 1.560000e-153 553
9 TraesCS3B01G411000 chr1A 87.000 100 13 0 1489 1588 466928712 466928613 3.140000e-21 113
10 TraesCS3B01G411000 chr6B 98.824 170 2 0 3673 3842 223537889 223537720 1.730000e-78 303
11 TraesCS3B01G411000 chr6B 97.633 169 3 1 3674 3842 210039688 210039521 4.860000e-74 289
12 TraesCS3B01G411000 chr6B 93.264 193 7 6 3650 3842 110435471 110435657 2.920000e-71 279
13 TraesCS3B01G411000 chr5A 99.390 164 1 0 3679 3842 67086589 67086426 8.070000e-77 298
14 TraesCS3B01G411000 chr7B 98.225 169 3 0 3674 3842 332136806 332136974 2.900000e-76 296
15 TraesCS3B01G411000 chr7B 96.610 177 3 3 3669 3842 280135142 280135318 1.350000e-74 291
16 TraesCS3B01G411000 chr7B 85.926 135 18 1 2518 2652 427302955 427302822 4.000000e-30 143
17 TraesCS3B01G411000 chr5B 96.571 175 5 1 3668 3842 383163942 383164115 4.860000e-74 289
18 TraesCS3B01G411000 chr2D 88.095 126 15 0 2527 2652 644095596 644095721 2.390000e-32 150
19 TraesCS3B01G411000 chr7D 85.926 135 18 1 2518 2652 412885774 412885641 4.000000e-30 143
20 TraesCS3B01G411000 chr2A 82.781 151 25 1 2524 2674 769222992 769223141 2.410000e-27 134


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 TraesCS3B01G411000 chr3B 647678195 647682036 3841 False 7095 7095 100.0000 1 3842 1 chr3B.!!$F1 3841
1 TraesCS3B01G411000 chr3D 484820456 484824122 3666 False 5267 5267 92.9190 1 3609 1 chr3D.!!$F1 3608
2 TraesCS3B01G411000 chr3A 627862356 627866039 3683 False 4975 4975 91.2560 1 3672 1 chr3A.!!$F2 3671
3 TraesCS3B01G411000 chr1D 367429178 367430161 983 True 582 582 78.1310 1876 2842 1 chr1D.!!$R1 966
4 TraesCS3B01G411000 chr1B 491982667 491983948 1281 True 337 553 82.8655 1489 2842 2 chr1B.!!$R1 1353
5 TraesCS3B01G411000 chr1A 466927362 466928712 1350 True 333 553 82.3560 1489 2842 2 chr1A.!!$R1 1353

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
621 651 0.034756 TCCAGCTGTCTTGCGCTTAA 59.965 50.0 13.81 0.00 38.13 1.85 F
631 661 0.863144 TTGCGCTTAAAGTGACGTCC 59.137 50.0 14.12 4.42 0.00 4.79 F
881 915 0.984230 AATCTTTCCGAGGAGGTGCA 59.016 50.0 0.00 0.00 41.99 4.57 F
1122 1164 1.075601 ATCACAAGGGGAAGGCTCAA 58.924 50.0 0.00 0.00 0.00 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2044 2236 2.224305 GGTAAGCTTGGTGTCACACTCT 60.224 50.000 9.86 0.0 34.40 3.24 R
2157 2349 2.225467 GAGTTGAACCTTCTGCTGCTT 58.775 47.619 0.00 0.0 0.00 3.91 R
2709 2952 1.649321 ACTGCAGGATGACCTTCTCA 58.351 50.000 19.93 0.0 45.36 3.27 R
2939 3187 0.111001 CGACGGCGAAACGAAAACAT 60.111 50.000 16.62 0.0 40.82 2.71 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
408 425 1.069049 GTTTGGTTCTGCAAGGCACAT 59.931 47.619 0.00 0.00 33.79 3.21
409 426 0.675083 TTGGTTCTGCAAGGCACATG 59.325 50.000 0.00 0.00 33.79 3.21
458 475 3.509575 AGAAATTGGCGGCAACTAATTGA 59.490 39.130 27.95 1.62 38.15 2.57
465 482 3.438360 GCGGCAACTAATTGAGATTTGG 58.562 45.455 0.00 0.00 38.15 3.28
541 571 0.108585 AAACATGTGACGTGCCCTCT 59.891 50.000 4.41 0.00 0.00 3.69
559 589 3.265791 CTCTGGTAGCCAAACTGTCATC 58.734 50.000 0.00 0.00 30.80 2.92
621 651 0.034756 TCCAGCTGTCTTGCGCTTAA 59.965 50.000 13.81 0.00 38.13 1.85
631 661 0.863144 TTGCGCTTAAAGTGACGTCC 59.137 50.000 14.12 4.42 0.00 4.79
800 834 1.888512 GCCTTGTTTGCTCATGGAGAA 59.111 47.619 11.08 0.00 35.49 2.87
881 915 0.984230 AATCTTTCCGAGGAGGTGCA 59.016 50.000 0.00 0.00 41.99 4.57
898 932 4.219944 AGGTGCAGTAATCTACTTGTTCGA 59.780 41.667 0.00 0.00 36.76 3.71
917 959 2.292016 CGATGTTCTATCGACTGGAGCT 59.708 50.000 3.39 0.00 43.59 4.09
1104 1146 3.688414 GCCTTTATGGTCTTACTGGGCAT 60.688 47.826 0.00 0.00 38.35 4.40
1122 1164 1.075601 ATCACAAGGGGAAGGCTCAA 58.924 50.000 0.00 0.00 0.00 3.02
1143 1185 6.070656 TCAAAGTTCATTGGATGACTTCCTT 58.929 36.000 8.71 0.00 45.68 3.36
1257 1299 2.356278 TGGCCATCCAGGAAGCAC 59.644 61.111 0.00 6.73 41.22 4.40
1408 1450 2.095567 CGGACATCCTTTGCTGAAAGTG 60.096 50.000 0.00 0.00 37.47 3.16
1421 1463 6.049955 TGCTGAAAGTGCCTACTACTATTT 57.950 37.500 0.00 0.00 35.69 1.40
1452 1494 3.144506 CTGTGAGCAGTGGACATCTTTT 58.855 45.455 0.00 0.00 37.92 2.27
1746 1894 4.002906 TCTGCCTCGTTTCATGTAAACT 57.997 40.909 14.59 0.00 44.49 2.66
1793 1942 6.991938 TGGGAAATGTTTTTCTGTATGAAGG 58.008 36.000 0.00 0.00 40.91 3.46
1994 2144 3.012518 CCTACATTGGAAAGCTGAGGTG 58.987 50.000 0.00 0.00 0.00 4.00
2044 2236 5.964758 ACTTTTGACATTCTGCTTGTTTGA 58.035 33.333 0.00 0.00 0.00 2.69
2298 2490 1.971481 GCATCATGCACTCCATACCA 58.029 50.000 4.20 0.00 44.26 3.25
2902 3150 1.227089 GGCGCAGATGATCAGACGT 60.227 57.895 10.83 0.00 0.00 4.34
2903 3151 1.211818 GGCGCAGATGATCAGACGTC 61.212 60.000 10.83 7.70 0.00 4.34
2904 3152 1.535636 GCGCAGATGATCAGACGTCG 61.536 60.000 10.46 5.48 0.00 5.12
2905 3153 1.535636 CGCAGATGATCAGACGTCGC 61.536 60.000 10.46 3.02 0.00 5.19
2928 3176 1.002773 TCGCCCTGGTTCTTTAGGTTC 59.997 52.381 0.00 0.00 31.99 3.62
2931 3179 3.307199 CGCCCTGGTTCTTTAGGTTCTTA 60.307 47.826 0.00 0.00 31.99 2.10
2932 3180 4.625564 CGCCCTGGTTCTTTAGGTTCTTAT 60.626 45.833 0.00 0.00 31.99 1.73
2936 3184 6.542735 CCCTGGTTCTTTAGGTTCTTATTAGC 59.457 42.308 0.00 0.00 31.99 3.09
2939 3187 7.913789 TGGTTCTTTAGGTTCTTATTAGCTCA 58.086 34.615 0.00 0.00 0.00 4.26
2960 3208 0.715959 GTTTTCGTTTCGCCGTCGTC 60.716 55.000 0.00 0.00 36.96 4.20
2970 3218 1.866925 GCCGTCGTCTTTTTCCTGG 59.133 57.895 0.00 0.00 0.00 4.45
3011 3259 5.011635 TGCTGTAGTATTGAAGAACTGGACA 59.988 40.000 0.00 0.00 0.00 4.02
3012 3260 5.348997 GCTGTAGTATTGAAGAACTGGACAC 59.651 44.000 0.00 0.00 0.00 3.67
3013 3261 5.466819 TGTAGTATTGAAGAACTGGACACG 58.533 41.667 0.00 0.00 0.00 4.49
3067 3318 2.968574 GCCCTCTCTCTTCCATGATACA 59.031 50.000 0.00 0.00 0.00 2.29
3074 3325 3.195610 TCTCTTCCATGATACAACGTGCT 59.804 43.478 0.00 0.00 0.00 4.40
3079 3330 0.179084 ATGATACAACGTGCTCCCGG 60.179 55.000 0.00 0.00 0.00 5.73
3080 3331 1.217244 GATACAACGTGCTCCCGGT 59.783 57.895 0.00 0.00 0.00 5.28
3082 3333 2.234913 ATACAACGTGCTCCCGGTCC 62.235 60.000 0.00 0.00 0.00 4.46
3083 3334 4.308458 CAACGTGCTCCCGGTCCA 62.308 66.667 0.00 0.00 0.00 4.02
3084 3335 3.319198 AACGTGCTCCCGGTCCAT 61.319 61.111 0.00 0.00 0.00 3.41
3087 3338 2.911143 GTGCTCCCGGTCCATCAT 59.089 61.111 0.00 0.00 0.00 2.45
3088 3339 1.227674 GTGCTCCCGGTCCATCATC 60.228 63.158 0.00 0.00 0.00 2.92
3092 3343 0.035881 CTCCCGGTCCATCATCCATG 59.964 60.000 0.00 0.00 0.00 3.66
3180 3466 1.225855 CAACTGTCCTGTGCGCTTTA 58.774 50.000 9.73 0.00 0.00 1.85
3200 3486 6.741358 GCTTTAGTACATGATTTCCGAAACAC 59.259 38.462 0.00 0.00 0.00 3.32
3282 3569 3.444805 GTCCCTGTCGCTCTCGCT 61.445 66.667 0.00 0.00 35.26 4.93
3337 3630 1.063469 CGTGCCGCTTTTATTAGTGGG 59.937 52.381 5.48 0.00 44.32 4.61
3351 3644 1.073025 GTGGGCATGGTCAGTCACA 59.927 57.895 0.00 0.00 0.00 3.58
3363 3656 4.417641 GTCACAGAGACGGAGGGA 57.582 61.111 0.00 0.00 37.53 4.20
3379 3672 4.295119 GACGGTGACCACGCCTGT 62.295 66.667 1.11 0.00 43.77 4.00
3392 3685 2.042259 GCCTGTGCTGTGCTATGCA 61.042 57.895 0.00 0.00 36.79 3.96
3417 3710 0.732571 AGTGCGGGTTAATCATTGCG 59.267 50.000 0.00 0.00 0.00 4.85
3418 3711 0.865639 GTGCGGGTTAATCATTGCGC 60.866 55.000 0.00 0.00 0.00 6.09
3420 3713 2.010670 CGGGTTAATCATTGCGCGA 58.989 52.632 12.10 0.00 39.15 5.87
3421 3714 0.375454 CGGGTTAATCATTGCGCGAA 59.625 50.000 12.10 0.00 39.15 4.70
3579 3888 3.179048 GCCGTGCCAACATCTTTTAATC 58.821 45.455 0.00 0.00 0.00 1.75
3580 3889 3.366883 GCCGTGCCAACATCTTTTAATCA 60.367 43.478 0.00 0.00 0.00 2.57
3626 3935 3.200593 CATGCACGCAGGGAGCTC 61.201 66.667 4.71 4.71 42.61 4.09
3627 3936 4.827087 ATGCACGCAGGGAGCTCG 62.827 66.667 7.83 0.00 42.61 5.03
3635 3944 2.044252 AGGGAGCTCGCCGAGTAA 60.044 61.111 25.68 0.00 31.39 2.24
3636 3945 1.681327 AGGGAGCTCGCCGAGTAAA 60.681 57.895 25.68 0.00 31.39 2.01
3637 3946 1.227002 GGGAGCTCGCCGAGTAAAG 60.227 63.158 19.61 0.00 31.39 1.85
3639 3948 1.664321 GGAGCTCGCCGAGTAAAGGA 61.664 60.000 16.50 0.00 31.39 3.36
3640 3949 0.248702 GAGCTCGCCGAGTAAAGGAG 60.249 60.000 16.50 0.00 31.39 3.69
3672 3990 1.305930 ATCGAAAGGGCGAGCAAACC 61.306 55.000 0.00 0.00 44.26 3.27
3673 3991 1.966451 CGAAAGGGCGAGCAAACCT 60.966 57.895 0.00 0.00 35.78 3.50
3674 3992 1.581447 GAAAGGGCGAGCAAACCTG 59.419 57.895 0.00 0.00 34.17 4.00
3675 3993 1.866853 GAAAGGGCGAGCAAACCTGG 61.867 60.000 0.00 0.00 34.17 4.45
3676 3994 3.868200 AAGGGCGAGCAAACCTGGG 62.868 63.158 0.00 0.00 34.17 4.45
3680 3998 2.668632 CGAGCAAACCTGGGCCTA 59.331 61.111 4.53 0.00 0.00 3.93
3681 3999 1.224592 CGAGCAAACCTGGGCCTAT 59.775 57.895 4.53 0.00 0.00 2.57
3682 4000 1.097547 CGAGCAAACCTGGGCCTATG 61.098 60.000 4.53 0.00 0.00 2.23
3683 4001 0.034089 GAGCAAACCTGGGCCTATGT 60.034 55.000 4.53 0.00 0.00 2.29
3684 4002 0.034089 AGCAAACCTGGGCCTATGTC 60.034 55.000 4.53 0.00 0.00 3.06
3685 4003 0.323360 GCAAACCTGGGCCTATGTCA 60.323 55.000 4.53 0.00 0.00 3.58
3686 4004 1.755179 CAAACCTGGGCCTATGTCAG 58.245 55.000 4.53 0.00 0.00 3.51
3696 4014 3.209091 CTATGTCAGGACCCCGACT 57.791 57.895 11.80 2.48 31.80 4.18
3697 4015 1.033574 CTATGTCAGGACCCCGACTC 58.966 60.000 11.80 0.00 31.80 3.36
3698 4016 0.333652 TATGTCAGGACCCCGACTCA 59.666 55.000 11.80 0.00 31.80 3.41
3699 4017 0.544357 ATGTCAGGACCCCGACTCAA 60.544 55.000 11.80 0.00 31.80 3.02
3700 4018 0.544357 TGTCAGGACCCCGACTCAAT 60.544 55.000 11.80 0.00 31.80 2.57
3701 4019 0.108138 GTCAGGACCCCGACTCAATG 60.108 60.000 4.70 0.00 0.00 2.82
3702 4020 1.450312 CAGGACCCCGACTCAATGC 60.450 63.158 0.00 0.00 0.00 3.56
3703 4021 2.124695 GGACCCCGACTCAATGCC 60.125 66.667 0.00 0.00 0.00 4.40
3704 4022 2.668632 GACCCCGACTCAATGCCA 59.331 61.111 0.00 0.00 0.00 4.92
3705 4023 1.745489 GACCCCGACTCAATGCCAC 60.745 63.158 0.00 0.00 0.00 5.01
3706 4024 2.350895 CCCCGACTCAATGCCACA 59.649 61.111 0.00 0.00 0.00 4.17
3707 4025 1.077501 CCCCGACTCAATGCCACAT 60.078 57.895 0.00 0.00 0.00 3.21
3708 4026 1.097547 CCCCGACTCAATGCCACATC 61.098 60.000 0.00 0.00 0.00 3.06
3709 4027 1.431488 CCCGACTCAATGCCACATCG 61.431 60.000 0.00 0.00 0.00 3.84
3710 4028 0.460109 CCGACTCAATGCCACATCGA 60.460 55.000 0.00 0.00 0.00 3.59
3711 4029 1.575244 CGACTCAATGCCACATCGAT 58.425 50.000 0.00 0.00 0.00 3.59
3712 4030 1.524355 CGACTCAATGCCACATCGATC 59.476 52.381 0.00 0.00 0.00 3.69
3713 4031 2.800985 CGACTCAATGCCACATCGATCT 60.801 50.000 0.00 0.00 0.00 2.75
3714 4032 3.550842 CGACTCAATGCCACATCGATCTA 60.551 47.826 0.00 0.00 0.00 1.98
3715 4033 3.986572 GACTCAATGCCACATCGATCTAG 59.013 47.826 0.00 0.00 0.00 2.43
3716 4034 2.735663 CTCAATGCCACATCGATCTAGC 59.264 50.000 0.00 0.00 0.00 3.42
3717 4035 2.102925 TCAATGCCACATCGATCTAGCA 59.897 45.455 13.38 13.38 34.28 3.49
3718 4036 3.072211 CAATGCCACATCGATCTAGCAT 58.928 45.455 16.08 16.08 42.44 3.79
3719 4037 2.159327 TGCCACATCGATCTAGCATG 57.841 50.000 8.31 0.00 0.00 4.06
3720 4038 1.413812 TGCCACATCGATCTAGCATGT 59.586 47.619 8.31 0.00 0.00 3.21
3721 4039 2.627699 TGCCACATCGATCTAGCATGTA 59.372 45.455 8.31 0.00 0.00 2.29
3722 4040 3.069443 TGCCACATCGATCTAGCATGTAA 59.931 43.478 8.31 0.00 0.00 2.41
3723 4041 3.430218 GCCACATCGATCTAGCATGTAAC 59.570 47.826 0.00 0.00 0.00 2.50
3724 4042 4.620982 CCACATCGATCTAGCATGTAACA 58.379 43.478 0.00 0.00 0.00 2.41
3725 4043 4.445718 CCACATCGATCTAGCATGTAACAC 59.554 45.833 0.00 0.00 0.00 3.32
3726 4044 4.445718 CACATCGATCTAGCATGTAACACC 59.554 45.833 0.00 0.00 0.00 4.16
3727 4045 4.342378 ACATCGATCTAGCATGTAACACCT 59.658 41.667 0.00 0.00 0.00 4.00
3728 4046 4.569761 TCGATCTAGCATGTAACACCTC 57.430 45.455 0.00 0.00 0.00 3.85
3729 4047 3.951680 TCGATCTAGCATGTAACACCTCA 59.048 43.478 0.00 0.00 0.00 3.86
3730 4048 4.584743 TCGATCTAGCATGTAACACCTCAT 59.415 41.667 0.00 0.00 0.00 2.90
3731 4049 5.768164 TCGATCTAGCATGTAACACCTCATA 59.232 40.000 0.00 0.00 0.00 2.15
3732 4050 6.434340 TCGATCTAGCATGTAACACCTCATAT 59.566 38.462 0.00 0.00 0.00 1.78
3733 4051 6.749578 CGATCTAGCATGTAACACCTCATATC 59.250 42.308 0.00 0.00 0.00 1.63
3734 4052 6.976934 TCTAGCATGTAACACCTCATATCA 57.023 37.500 0.00 0.00 0.00 2.15
3735 4053 6.749139 TCTAGCATGTAACACCTCATATCAC 58.251 40.000 0.00 0.00 0.00 3.06
3736 4054 5.620738 AGCATGTAACACCTCATATCACT 57.379 39.130 0.00 0.00 0.00 3.41
3737 4055 5.994250 AGCATGTAACACCTCATATCACTT 58.006 37.500 0.00 0.00 0.00 3.16
3738 4056 6.418101 AGCATGTAACACCTCATATCACTTT 58.582 36.000 0.00 0.00 0.00 2.66
3739 4057 6.317140 AGCATGTAACACCTCATATCACTTTG 59.683 38.462 0.00 0.00 0.00 2.77
3740 4058 6.489675 CATGTAACACCTCATATCACTTTGC 58.510 40.000 0.00 0.00 0.00 3.68
3741 4059 4.629634 TGTAACACCTCATATCACTTTGCG 59.370 41.667 0.00 0.00 0.00 4.85
3742 4060 2.632377 ACACCTCATATCACTTTGCGG 58.368 47.619 0.00 0.00 0.00 5.69
3743 4061 1.331756 CACCTCATATCACTTTGCGGC 59.668 52.381 0.00 0.00 0.00 6.53
3744 4062 0.947244 CCTCATATCACTTTGCGGCC 59.053 55.000 0.00 0.00 0.00 6.13
3745 4063 1.475751 CCTCATATCACTTTGCGGCCT 60.476 52.381 0.00 0.00 0.00 5.19
3746 4064 1.869767 CTCATATCACTTTGCGGCCTC 59.130 52.381 0.00 0.00 0.00 4.70
3747 4065 1.209261 TCATATCACTTTGCGGCCTCA 59.791 47.619 0.00 0.00 0.00 3.86
3748 4066 1.331756 CATATCACTTTGCGGCCTCAC 59.668 52.381 0.00 0.00 0.00 3.51
3749 4067 0.739462 TATCACTTTGCGGCCTCACG 60.739 55.000 0.00 0.00 0.00 4.35
3757 4075 4.508128 CGGCCTCACGCACGGTAT 62.508 66.667 0.00 0.00 40.31 2.73
3758 4076 2.585247 GGCCTCACGCACGGTATC 60.585 66.667 0.00 0.00 40.31 2.24
3759 4077 2.585247 GCCTCACGCACGGTATCC 60.585 66.667 0.00 0.00 37.47 2.59
3760 4078 2.106332 CCTCACGCACGGTATCCC 59.894 66.667 0.00 0.00 0.00 3.85
3761 4079 2.106332 CTCACGCACGGTATCCCC 59.894 66.667 0.00 0.00 0.00 4.81
3762 4080 2.680707 TCACGCACGGTATCCCCA 60.681 61.111 0.00 0.00 0.00 4.96
3763 4081 2.510691 CACGCACGGTATCCCCAC 60.511 66.667 0.00 0.00 0.00 4.61
3764 4082 4.137872 ACGCACGGTATCCCCACG 62.138 66.667 0.00 0.00 0.00 4.94
3765 4083 4.884257 CGCACGGTATCCCCACGG 62.884 72.222 0.00 0.00 0.00 4.94
3766 4084 4.540735 GCACGGTATCCCCACGGG 62.541 72.222 0.00 0.00 46.11 5.28
3767 4085 3.078836 CACGGTATCCCCACGGGT 61.079 66.667 0.41 0.00 44.74 5.28
3768 4086 3.078836 ACGGTATCCCCACGGGTG 61.079 66.667 0.41 0.00 44.74 4.61
3769 4087 3.078836 CGGTATCCCCACGGGTGT 61.079 66.667 0.41 0.00 44.74 4.16
3770 4088 2.905681 GGTATCCCCACGGGTGTC 59.094 66.667 0.41 0.00 44.74 3.67
3771 4089 2.497770 GTATCCCCACGGGTGTCG 59.502 66.667 0.41 0.00 44.74 4.35
3772 4090 3.463585 TATCCCCACGGGTGTCGC 61.464 66.667 0.41 0.00 44.74 5.19
3775 4093 4.715523 CCCCACGGGTGTCGCATT 62.716 66.667 0.41 0.00 43.89 3.56
3776 4094 2.266372 CCCACGGGTGTCGCATTA 59.734 61.111 0.00 0.00 43.89 1.90
3777 4095 2.104253 CCCACGGGTGTCGCATTAC 61.104 63.158 0.00 0.00 43.89 1.89
3778 4096 2.104253 CCACGGGTGTCGCATTACC 61.104 63.158 0.00 0.00 43.89 2.85
3779 4097 1.079405 CACGGGTGTCGCATTACCT 60.079 57.895 0.00 0.00 43.89 3.08
3780 4098 0.672401 CACGGGTGTCGCATTACCTT 60.672 55.000 0.00 0.00 43.89 3.50
3781 4099 0.035739 ACGGGTGTCGCATTACCTTT 59.964 50.000 0.00 0.00 43.89 3.11
3782 4100 0.446222 CGGGTGTCGCATTACCTTTG 59.554 55.000 0.00 0.00 37.15 2.77
3783 4101 0.170339 GGGTGTCGCATTACCTTTGC 59.830 55.000 0.00 0.00 37.15 3.68
3784 4102 0.170339 GGTGTCGCATTACCTTTGCC 59.830 55.000 0.00 0.00 36.75 4.52
3785 4103 0.170339 GTGTCGCATTACCTTTGCCC 59.830 55.000 0.00 0.00 36.75 5.36
3786 4104 1.302383 TGTCGCATTACCTTTGCCCG 61.302 55.000 0.00 0.00 36.75 6.13
3787 4105 1.747367 TCGCATTACCTTTGCCCGG 60.747 57.895 0.00 0.00 36.75 5.73
3788 4106 2.770589 CGCATTACCTTTGCCCGGG 61.771 63.158 19.09 19.09 36.75 5.73
3789 4107 1.379309 GCATTACCTTTGCCCGGGA 60.379 57.895 29.31 6.60 33.95 5.14
3790 4108 1.663379 GCATTACCTTTGCCCGGGAC 61.663 60.000 29.31 16.95 33.95 4.46
3791 4109 1.035385 CATTACCTTTGCCCGGGACC 61.035 60.000 29.31 8.20 0.00 4.46
3792 4110 2.546114 ATTACCTTTGCCCGGGACCG 62.546 60.000 29.31 8.74 39.44 4.79
3794 4112 4.653888 CCTTTGCCCGGGACCGTT 62.654 66.667 29.31 0.00 37.81 4.44
3795 4113 2.596338 CTTTGCCCGGGACCGTTT 60.596 61.111 29.31 0.00 37.81 3.60
3796 4114 2.907917 TTTGCCCGGGACCGTTTG 60.908 61.111 29.31 0.00 37.81 2.93
3803 4121 3.292159 GGGACCGTTTGCGCCTTT 61.292 61.111 4.18 0.00 36.67 3.11
3804 4122 2.725641 GGACCGTTTGCGCCTTTT 59.274 55.556 4.18 0.00 36.67 2.27
3805 4123 1.660264 GGACCGTTTGCGCCTTTTG 60.660 57.895 4.18 0.00 36.67 2.44
3806 4124 1.660264 GACCGTTTGCGCCTTTTGG 60.660 57.895 4.18 2.72 44.18 3.28
3820 4138 4.273005 CCTTTTGGCACACGTATATGAC 57.727 45.455 0.00 0.00 39.29 3.06
3821 4139 3.687212 CCTTTTGGCACACGTATATGACA 59.313 43.478 0.00 0.00 39.29 3.58
3822 4140 4.201812 CCTTTTGGCACACGTATATGACAG 60.202 45.833 0.00 0.00 39.29 3.51
3823 4141 3.603158 TTGGCACACGTATATGACAGT 57.397 42.857 0.00 0.00 39.29 3.55
3824 4142 2.887337 TGGCACACGTATATGACAGTG 58.113 47.619 0.00 5.89 38.06 3.66
3825 4143 2.232696 TGGCACACGTATATGACAGTGT 59.767 45.455 0.00 0.00 42.54 3.55
3826 4144 2.858344 GGCACACGTATATGACAGTGTC 59.142 50.000 16.68 16.68 41.02 3.67
3827 4145 2.530297 GCACACGTATATGACAGTGTCG 59.470 50.000 18.17 8.40 41.02 4.35
3828 4146 2.530297 CACACGTATATGACAGTGTCGC 59.470 50.000 18.17 5.39 41.02 5.19
3829 4147 2.422479 ACACGTATATGACAGTGTCGCT 59.578 45.455 18.17 10.61 39.80 4.93
3830 4148 3.624410 ACACGTATATGACAGTGTCGCTA 59.376 43.478 18.17 12.38 39.80 4.26
3831 4149 4.212150 CACGTATATGACAGTGTCGCTAG 58.788 47.826 18.17 9.64 34.95 3.42
3832 4150 3.227147 CGTATATGACAGTGTCGCTAGC 58.773 50.000 18.17 4.06 34.95 3.42
3833 4151 3.303791 CGTATATGACAGTGTCGCTAGCA 60.304 47.826 18.17 0.52 34.95 3.49
3834 4152 4.613850 CGTATATGACAGTGTCGCTAGCAT 60.614 45.833 18.17 8.25 34.95 3.79
3835 4153 2.215907 ATGACAGTGTCGCTAGCATC 57.784 50.000 18.17 7.35 34.95 3.91
3836 4154 0.173481 TGACAGTGTCGCTAGCATCC 59.827 55.000 18.17 1.76 34.95 3.51
3837 4155 0.173481 GACAGTGTCGCTAGCATCCA 59.827 55.000 16.45 4.65 0.00 3.41
3838 4156 0.826715 ACAGTGTCGCTAGCATCCAT 59.173 50.000 16.45 0.00 0.00 3.41
3839 4157 2.031870 ACAGTGTCGCTAGCATCCATA 58.968 47.619 16.45 0.00 0.00 2.74
3840 4158 2.630098 ACAGTGTCGCTAGCATCCATAT 59.370 45.455 16.45 0.00 0.00 1.78
3841 4159 2.991866 CAGTGTCGCTAGCATCCATATG 59.008 50.000 16.45 7.17 36.09 1.78
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 0.593773 CGCACAAAAACAGAACCCCG 60.594 55.000 0.00 0.00 0.00 5.73
295 307 6.208988 AGGATGTACGTATGGTATAGCATG 57.791 41.667 24.30 12.90 31.09 4.06
305 317 8.589335 AGCAAGTTTAATAGGATGTACGTATG 57.411 34.615 0.00 0.00 31.22 2.39
370 387 1.404843 ACCATAGCCCTCTCTTCGTC 58.595 55.000 0.00 0.00 0.00 4.20
408 425 8.834749 TGCATTTTGAAGATGAAATGAAATCA 57.165 26.923 11.69 0.00 42.85 2.57
458 475 2.949447 AGCACCAAGAACACCAAATCT 58.051 42.857 0.00 0.00 0.00 2.40
465 482 1.529865 GGAACGTAGCACCAAGAACAC 59.470 52.381 0.00 0.00 0.00 3.32
541 571 2.906389 AGAGATGACAGTTTGGCTACCA 59.094 45.455 0.00 0.00 0.00 3.25
559 589 0.953960 TGCATGCACAGTGCTGAGAG 60.954 55.000 25.83 11.94 45.31 3.20
589 619 3.222603 ACAGCTGGAAGTTTCGGAAAAT 58.777 40.909 19.93 0.39 35.30 1.82
621 651 4.460948 ACATATAAACCGGACGTCACTT 57.539 40.909 18.91 6.87 0.00 3.16
631 661 6.745450 CACACTTTTTGGCTACATATAAACCG 59.255 38.462 0.00 0.00 0.00 4.44
800 834 3.319122 GCTGTCCCTGTGAGAACAAAAAT 59.681 43.478 0.00 0.00 0.00 1.82
881 915 9.953697 GATAGAACATCGAACAAGTAGATTACT 57.046 33.333 0.00 0.00 41.73 2.24
917 959 6.071278 ACAAGGTTACCAACAAACTTTTAGCA 60.071 34.615 3.51 0.00 33.11 3.49
980 1022 1.380246 TAAGCCAGCCAATGCCAGG 60.380 57.895 0.00 0.00 38.69 4.45
1104 1146 0.850100 TTTGAGCCTTCCCCTTGTGA 59.150 50.000 0.00 0.00 0.00 3.58
1143 1185 4.471025 TCTTGAATTACAGGAGCTGGATCA 59.529 41.667 0.00 0.00 35.51 2.92
1388 1430 2.352127 GCACTTTCAGCAAAGGATGTCC 60.352 50.000 2.03 0.00 43.12 4.02
1432 1474 2.936919 AAAGATGTCCACTGCTCACA 57.063 45.000 0.00 0.00 0.00 3.58
1452 1494 3.586100 TGTAGCGTATGAAGCACAAGA 57.414 42.857 0.00 0.00 37.01 3.02
1703 1851 6.854892 CAGAACAGTCAATTTAAGCACTCAAG 59.145 38.462 0.00 0.00 0.00 3.02
1746 1894 7.378966 CCATGTCACAAGTTAGAACTAGAGAA 58.621 38.462 0.00 0.00 38.57 2.87
1793 1942 6.008960 AGGAGATAATTCAGGCATTTGATCC 58.991 40.000 0.00 0.00 0.00 3.36
1873 2023 3.369892 GCAGATAAGAGGAACTTGCCAGA 60.370 47.826 0.00 0.00 41.55 3.86
2044 2236 2.224305 GGTAAGCTTGGTGTCACACTCT 60.224 50.000 9.86 0.00 34.40 3.24
2157 2349 2.225467 GAGTTGAACCTTCTGCTGCTT 58.775 47.619 0.00 0.00 0.00 3.91
2709 2952 1.649321 ACTGCAGGATGACCTTCTCA 58.351 50.000 19.93 0.00 45.36 3.27
2904 3152 2.791501 TAAAGAACCAGGGCGACGGC 62.792 60.000 13.84 13.84 38.90 5.68
2905 3153 0.739813 CTAAAGAACCAGGGCGACGG 60.740 60.000 0.00 0.00 0.00 4.79
2928 3176 6.192863 GCGAAACGAAAACATGAGCTAATAAG 59.807 38.462 0.00 0.00 0.00 1.73
2931 3179 4.403453 GCGAAACGAAAACATGAGCTAAT 58.597 39.130 0.00 0.00 0.00 1.73
2932 3180 3.364565 GGCGAAACGAAAACATGAGCTAA 60.365 43.478 0.00 0.00 0.00 3.09
2936 3184 1.070175 ACGGCGAAACGAAAACATGAG 60.070 47.619 16.62 0.00 37.61 2.90
2939 3187 0.111001 CGACGGCGAAACGAAAACAT 60.111 50.000 16.62 0.00 40.82 2.71
2945 3193 0.871163 AAAAGACGACGGCGAAACGA 60.871 50.000 22.49 0.00 41.64 3.85
2960 3208 5.600696 AGCACAATTACAACCAGGAAAAAG 58.399 37.500 0.00 0.00 0.00 2.27
3067 3318 3.310860 GATGGACCGGGAGCACGTT 62.311 63.158 6.32 0.00 0.00 3.99
3074 3325 2.055689 GCATGGATGATGGACCGGGA 62.056 60.000 6.32 0.00 31.99 5.14
3092 3343 2.542597 CATGTTACATTGCACCATGGC 58.457 47.619 13.04 0.00 31.49 4.40
3135 3405 7.359849 GGTCAATGGTACGTAACTTTCTTCTTC 60.360 40.741 12.67 0.00 0.00 2.87
3180 3466 4.154195 GCAGTGTTTCGGAAATCATGTACT 59.846 41.667 6.43 2.90 0.00 2.73
3200 3486 1.870993 GCCAGCTTTTGTTTCCTGCAG 60.871 52.381 6.78 6.78 0.00 4.41
3337 3630 1.719600 GTCTCTGTGACTGACCATGC 58.280 55.000 2.77 0.00 42.21 4.06
3351 3644 2.361357 CACCGTCCCTCCGTCTCT 60.361 66.667 0.00 0.00 0.00 3.10
3363 3656 4.602259 CACAGGCGTGGTCACCGT 62.602 66.667 11.67 0.00 39.64 4.83
3379 3672 0.889306 TTGCATTGCATAGCACAGCA 59.111 45.000 12.95 11.85 43.37 4.41
3392 3685 2.166829 TGATTAACCCGCACTTGCATT 58.833 42.857 1.48 0.00 42.21 3.56
3420 3713 3.387947 ATCGGAAGGGGCGTCGTT 61.388 61.111 0.00 0.00 0.00 3.85
3421 3714 4.143333 CATCGGAAGGGGCGTCGT 62.143 66.667 0.00 0.00 0.00 4.34
3579 3888 3.146066 TGATGAAAGAAACCCGAACCTG 58.854 45.455 0.00 0.00 0.00 4.00
3580 3889 3.502123 TGATGAAAGAAACCCGAACCT 57.498 42.857 0.00 0.00 0.00 3.50
3623 3932 0.172803 TTCTCCTTTACTCGGCGAGC 59.827 55.000 34.76 0.00 32.04 5.03
3624 3933 2.531206 CTTTCTCCTTTACTCGGCGAG 58.469 52.381 33.42 33.42 35.52 5.03
3625 3934 1.203994 CCTTTCTCCTTTACTCGGCGA 59.796 52.381 10.14 10.14 0.00 5.54
3626 3935 1.641577 CCTTTCTCCTTTACTCGGCG 58.358 55.000 0.00 0.00 0.00 6.46
3627 3936 1.407025 CCCCTTTCTCCTTTACTCGGC 60.407 57.143 0.00 0.00 0.00 5.54
3628 3937 2.185387 TCCCCTTTCTCCTTTACTCGG 58.815 52.381 0.00 0.00 0.00 4.63
3629 3938 3.975168 TTCCCCTTTCTCCTTTACTCG 57.025 47.619 0.00 0.00 0.00 4.18
3631 3940 5.924769 TCTTTTCCCCTTTCTCCTTTACT 57.075 39.130 0.00 0.00 0.00 2.24
3632 3941 5.354513 CGATCTTTTCCCCTTTCTCCTTTAC 59.645 44.000 0.00 0.00 0.00 2.01
3633 3942 5.249852 TCGATCTTTTCCCCTTTCTCCTTTA 59.750 40.000 0.00 0.00 0.00 1.85
3635 3944 3.587506 TCGATCTTTTCCCCTTTCTCCTT 59.412 43.478 0.00 0.00 0.00 3.36
3636 3945 3.182152 TCGATCTTTTCCCCTTTCTCCT 58.818 45.455 0.00 0.00 0.00 3.69
3637 3946 3.629142 TCGATCTTTTCCCCTTTCTCC 57.371 47.619 0.00 0.00 0.00 3.71
3639 3948 4.336280 CCTTTCGATCTTTTCCCCTTTCT 58.664 43.478 0.00 0.00 0.00 2.52
3640 3949 3.444034 CCCTTTCGATCTTTTCCCCTTTC 59.556 47.826 0.00 0.00 0.00 2.62
3668 3986 0.625849 CCTGACATAGGCCCAGGTTT 59.374 55.000 14.98 0.00 41.81 3.27
3672 3990 1.700042 GGGTCCTGACATAGGCCCAG 61.700 65.000 15.90 0.00 46.89 4.45
3673 3991 1.692749 GGGTCCTGACATAGGCCCA 60.693 63.158 15.90 0.00 46.89 5.36
3675 3993 2.808206 CGGGGTCCTGACATAGGCC 61.808 68.421 0.00 0.00 46.87 5.19
3676 3994 1.760875 TCGGGGTCCTGACATAGGC 60.761 63.158 0.00 0.00 46.87 3.93
3683 4001 1.899437 GCATTGAGTCGGGGTCCTGA 61.899 60.000 0.00 0.00 0.00 3.86
3684 4002 1.450312 GCATTGAGTCGGGGTCCTG 60.450 63.158 0.00 0.00 0.00 3.86
3685 4003 2.670148 GGCATTGAGTCGGGGTCCT 61.670 63.158 0.00 0.00 0.00 3.85
3686 4004 2.124695 GGCATTGAGTCGGGGTCC 60.125 66.667 0.00 0.00 0.00 4.46
3687 4005 1.745489 GTGGCATTGAGTCGGGGTC 60.745 63.158 0.00 0.00 0.00 4.46
3688 4006 1.852157 ATGTGGCATTGAGTCGGGGT 61.852 55.000 0.00 0.00 0.00 4.95
3689 4007 1.077501 ATGTGGCATTGAGTCGGGG 60.078 57.895 0.00 0.00 0.00 5.73
3690 4008 1.431488 CGATGTGGCATTGAGTCGGG 61.431 60.000 0.00 0.00 0.00 5.14
3691 4009 0.460109 TCGATGTGGCATTGAGTCGG 60.460 55.000 0.00 0.00 0.00 4.79
3692 4010 1.524355 GATCGATGTGGCATTGAGTCG 59.476 52.381 0.54 0.00 0.00 4.18
3693 4011 2.831333 AGATCGATGTGGCATTGAGTC 58.169 47.619 0.54 4.06 0.00 3.36
3694 4012 2.996249 AGATCGATGTGGCATTGAGT 57.004 45.000 0.54 0.00 0.00 3.41
3695 4013 2.735663 GCTAGATCGATGTGGCATTGAG 59.264 50.000 23.30 4.17 0.00 3.02
3696 4014 2.102925 TGCTAGATCGATGTGGCATTGA 59.897 45.455 26.29 6.99 32.82 2.57
3697 4015 2.486918 TGCTAGATCGATGTGGCATTG 58.513 47.619 26.29 2.21 32.82 2.82
3698 4016 2.916702 TGCTAGATCGATGTGGCATT 57.083 45.000 26.29 0.00 32.82 3.56
3699 4017 2.038164 ACATGCTAGATCGATGTGGCAT 59.962 45.455 31.92 31.92 46.44 4.40
3700 4018 1.413812 ACATGCTAGATCGATGTGGCA 59.586 47.619 30.60 30.60 41.44 4.92
3701 4019 2.160822 ACATGCTAGATCGATGTGGC 57.839 50.000 21.82 21.82 0.00 5.01
3702 4020 4.445718 GTGTTACATGCTAGATCGATGTGG 59.554 45.833 0.54 0.91 32.59 4.17
3703 4021 4.445718 GGTGTTACATGCTAGATCGATGTG 59.554 45.833 0.54 0.00 32.59 3.21
3704 4022 4.342378 AGGTGTTACATGCTAGATCGATGT 59.658 41.667 0.54 0.00 34.68 3.06
3705 4023 4.876125 AGGTGTTACATGCTAGATCGATG 58.124 43.478 0.54 0.00 0.00 3.84
3706 4024 4.584743 TGAGGTGTTACATGCTAGATCGAT 59.415 41.667 0.00 0.00 0.00 3.59
3707 4025 3.951680 TGAGGTGTTACATGCTAGATCGA 59.048 43.478 0.00 0.00 0.00 3.59
3708 4026 4.307443 TGAGGTGTTACATGCTAGATCG 57.693 45.455 0.00 0.00 0.00 3.69
3709 4027 7.543868 GTGATATGAGGTGTTACATGCTAGATC 59.456 40.741 0.00 0.00 0.00 2.75
3710 4028 7.234371 AGTGATATGAGGTGTTACATGCTAGAT 59.766 37.037 0.00 0.00 0.00 1.98
3711 4029 6.551227 AGTGATATGAGGTGTTACATGCTAGA 59.449 38.462 0.00 0.00 0.00 2.43
3712 4030 6.753180 AGTGATATGAGGTGTTACATGCTAG 58.247 40.000 0.00 0.00 0.00 3.42
3713 4031 6.731292 AGTGATATGAGGTGTTACATGCTA 57.269 37.500 0.00 0.00 0.00 3.49
3714 4032 5.620738 AGTGATATGAGGTGTTACATGCT 57.379 39.130 0.00 0.00 0.00 3.79
3715 4033 6.489675 CAAAGTGATATGAGGTGTTACATGC 58.510 40.000 0.00 0.00 0.00 4.06
3716 4034 6.489675 GCAAAGTGATATGAGGTGTTACATG 58.510 40.000 0.00 0.00 0.00 3.21
3717 4035 5.294306 CGCAAAGTGATATGAGGTGTTACAT 59.706 40.000 0.00 0.00 0.00 2.29
3718 4036 4.629634 CGCAAAGTGATATGAGGTGTTACA 59.370 41.667 0.00 0.00 0.00 2.41
3719 4037 4.034048 CCGCAAAGTGATATGAGGTGTTAC 59.966 45.833 0.00 0.00 32.55 2.50
3720 4038 4.188462 CCGCAAAGTGATATGAGGTGTTA 58.812 43.478 0.00 0.00 32.55 2.41
3721 4039 3.009723 CCGCAAAGTGATATGAGGTGTT 58.990 45.455 0.00 0.00 32.55 3.32
3722 4040 2.632377 CCGCAAAGTGATATGAGGTGT 58.368 47.619 0.00 0.00 32.55 4.16
3723 4041 1.331756 GCCGCAAAGTGATATGAGGTG 59.668 52.381 0.00 0.00 38.58 4.00
3724 4042 1.668419 GCCGCAAAGTGATATGAGGT 58.332 50.000 0.00 0.00 38.58 3.85
3725 4043 0.947244 GGCCGCAAAGTGATATGAGG 59.053 55.000 0.00 0.00 39.25 3.86
3726 4044 1.869767 GAGGCCGCAAAGTGATATGAG 59.130 52.381 0.00 0.00 0.00 2.90
3727 4045 1.209261 TGAGGCCGCAAAGTGATATGA 59.791 47.619 6.75 0.00 0.00 2.15
3728 4046 1.331756 GTGAGGCCGCAAAGTGATATG 59.668 52.381 12.05 0.00 0.00 1.78
3729 4047 1.668419 GTGAGGCCGCAAAGTGATAT 58.332 50.000 12.05 0.00 0.00 1.63
3730 4048 0.739462 CGTGAGGCCGCAAAGTGATA 60.739 55.000 12.05 0.00 0.00 2.15
3731 4049 2.034879 CGTGAGGCCGCAAAGTGAT 61.035 57.895 12.05 0.00 0.00 3.06
3732 4050 2.664851 CGTGAGGCCGCAAAGTGA 60.665 61.111 12.05 0.00 0.00 3.41
3740 4058 4.508128 ATACCGTGCGTGAGGCCG 62.508 66.667 0.00 0.00 42.61 6.13
3741 4059 2.585247 GATACCGTGCGTGAGGCC 60.585 66.667 0.00 0.00 42.61 5.19
3742 4060 2.585247 GGATACCGTGCGTGAGGC 60.585 66.667 0.00 0.00 43.96 4.70
3759 4077 2.104253 GTAATGCGACACCCGTGGG 61.104 63.158 2.58 2.58 41.15 4.61
3760 4078 2.104253 GGTAATGCGACACCCGTGG 61.104 63.158 0.00 0.00 41.15 4.94
3761 4079 0.672401 AAGGTAATGCGACACCCGTG 60.672 55.000 0.00 0.00 41.15 4.94
3762 4080 0.035739 AAAGGTAATGCGACACCCGT 59.964 50.000 0.00 0.00 41.15 5.28
3763 4081 0.446222 CAAAGGTAATGCGACACCCG 59.554 55.000 0.00 0.00 42.21 5.28
3764 4082 0.170339 GCAAAGGTAATGCGACACCC 59.830 55.000 0.00 0.00 35.25 4.61
3765 4083 0.170339 GGCAAAGGTAATGCGACACC 59.830 55.000 0.00 0.00 44.75 4.16
3766 4084 0.170339 GGGCAAAGGTAATGCGACAC 59.830 55.000 0.00 0.00 44.75 3.67
3767 4085 1.302383 CGGGCAAAGGTAATGCGACA 61.302 55.000 0.00 0.00 44.75 4.35
3768 4086 1.427819 CGGGCAAAGGTAATGCGAC 59.572 57.895 0.00 0.00 44.75 5.19
3769 4087 1.747367 CCGGGCAAAGGTAATGCGA 60.747 57.895 0.00 0.00 44.75 5.10
3770 4088 2.770589 CCCGGGCAAAGGTAATGCG 61.771 63.158 8.08 0.00 44.75 4.73
3771 4089 1.379309 TCCCGGGCAAAGGTAATGC 60.379 57.895 18.49 0.00 43.08 3.56
3772 4090 1.035385 GGTCCCGGGCAAAGGTAATG 61.035 60.000 18.49 0.00 0.00 1.90
3773 4091 1.305287 GGTCCCGGGCAAAGGTAAT 59.695 57.895 18.49 0.00 0.00 1.89
3774 4092 2.758434 GGTCCCGGGCAAAGGTAA 59.242 61.111 18.49 0.00 0.00 2.85
3775 4093 3.708544 CGGTCCCGGGCAAAGGTA 61.709 66.667 18.49 0.00 35.56 3.08
3777 4095 4.653888 AACGGTCCCGGGCAAAGG 62.654 66.667 18.49 5.40 44.69 3.11
3778 4096 2.596338 AAACGGTCCCGGGCAAAG 60.596 61.111 18.49 9.68 44.69 2.77
3779 4097 2.907917 CAAACGGTCCCGGGCAAA 60.908 61.111 18.49 0.00 44.69 3.68
3786 4104 2.852180 AAAAGGCGCAAACGGTCCC 61.852 57.895 10.83 0.00 40.57 4.46
3787 4105 1.660264 CAAAAGGCGCAAACGGTCC 60.660 57.895 10.83 0.00 40.57 4.46
3788 4106 1.660264 CCAAAAGGCGCAAACGGTC 60.660 57.895 10.83 0.00 40.57 4.79
3789 4107 2.415426 CCAAAAGGCGCAAACGGT 59.585 55.556 10.83 0.00 40.57 4.83
3790 4108 3.035503 GCCAAAAGGCGCAAACGG 61.036 61.111 10.83 3.45 40.57 4.44
3791 4109 2.279120 TGCCAAAAGGCGCAAACG 60.279 55.556 10.83 0.00 44.07 3.60
3792 4110 3.318875 GTGCCAAAAGGCGCAAAC 58.681 55.556 10.83 0.00 43.85 2.93
3796 4114 2.195123 ATACGTGTGCCAAAAGGCGC 62.195 55.000 12.80 12.80 44.56 6.53
3797 4115 1.080298 TATACGTGTGCCAAAAGGCG 58.920 50.000 0.00 0.00 37.77 5.52
3798 4116 2.680841 TCATATACGTGTGCCAAAAGGC 59.319 45.455 0.00 0.00 0.00 4.35
3799 4117 3.687212 TGTCATATACGTGTGCCAAAAGG 59.313 43.478 0.00 0.00 0.00 3.11
3800 4118 4.391830 ACTGTCATATACGTGTGCCAAAAG 59.608 41.667 0.00 0.00 0.00 2.27
3801 4119 4.153296 CACTGTCATATACGTGTGCCAAAA 59.847 41.667 0.00 0.00 31.56 2.44
3802 4120 3.682377 CACTGTCATATACGTGTGCCAAA 59.318 43.478 0.00 0.00 31.56 3.28
3803 4121 3.258228 CACTGTCATATACGTGTGCCAA 58.742 45.455 0.00 0.00 31.56 4.52
3804 4122 2.232696 ACACTGTCATATACGTGTGCCA 59.767 45.455 0.00 0.00 41.22 4.92
3805 4123 2.858344 GACACTGTCATATACGTGTGCC 59.142 50.000 0.00 0.00 42.11 5.01
3806 4124 2.530297 CGACACTGTCATATACGTGTGC 59.470 50.000 9.84 0.00 42.11 4.57
3807 4125 2.530297 GCGACACTGTCATATACGTGTG 59.470 50.000 9.84 0.00 42.11 3.82
3808 4126 2.422479 AGCGACACTGTCATATACGTGT 59.578 45.455 9.84 0.00 43.57 4.49
3809 4127 3.066369 AGCGACACTGTCATATACGTG 57.934 47.619 9.84 0.00 38.07 4.49
3810 4128 3.303857 GCTAGCGACACTGTCATATACGT 60.304 47.826 9.84 0.00 32.09 3.57
3811 4129 3.227147 GCTAGCGACACTGTCATATACG 58.773 50.000 9.84 0.00 32.09 3.06
3812 4130 4.224715 TGCTAGCGACACTGTCATATAC 57.775 45.455 10.77 0.00 32.09 1.47
3813 4131 4.082733 GGATGCTAGCGACACTGTCATATA 60.083 45.833 10.77 0.00 32.09 0.86
3814 4132 3.305676 GGATGCTAGCGACACTGTCATAT 60.306 47.826 10.77 0.00 32.09 1.78
3815 4133 2.034685 GGATGCTAGCGACACTGTCATA 59.965 50.000 10.77 1.24 32.09 2.15
3816 4134 1.202463 GGATGCTAGCGACACTGTCAT 60.202 52.381 10.77 0.00 32.09 3.06
3817 4135 0.173481 GGATGCTAGCGACACTGTCA 59.827 55.000 10.77 0.00 32.09 3.58
3818 4136 0.173481 TGGATGCTAGCGACACTGTC 59.827 55.000 10.77 0.00 0.00 3.51
3819 4137 0.826715 ATGGATGCTAGCGACACTGT 59.173 50.000 10.77 0.00 0.00 3.55
3820 4138 2.800881 TATGGATGCTAGCGACACTG 57.199 50.000 10.77 0.00 0.00 3.66
3821 4139 3.309961 CATATGGATGCTAGCGACACT 57.690 47.619 10.77 0.00 0.00 3.55


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

AutoCloner maintained by Alex Coulton.