Multiple sequence alignment - TraesCS6D01G166400

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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 TraesCS6D01G166400 chr6D 100.000 5147 0 0 1 5147 147886932 147881786 0.000000e+00 9505
1 TraesCS6D01G166400 chr6A 95.917 2229 65 18 832 3048 199806786 199809000 0.000000e+00 3589
2 TraesCS6D01G166400 chr6A 88.406 2001 141 43 3195 5147 199808995 199810952 0.000000e+00 2326
3 TraesCS6D01G166400 chr6A 90.728 151 11 3 3046 3194 82107355 82107504 1.130000e-46 198
4 TraesCS6D01G166400 chr6B 97.516 1610 30 5 832 2437 260551643 260550040 0.000000e+00 2743
5 TraesCS6D01G166400 chr6B 87.883 1403 103 32 3195 4575 260549204 260547847 0.000000e+00 1587
6 TraesCS6D01G166400 chr6B 93.201 603 31 6 2446 3048 260549791 260549199 0.000000e+00 878
7 TraesCS6D01G166400 chr6B 86.473 584 41 18 4587 5147 260547861 260547293 1.580000e-169 606
8 TraesCS6D01G166400 chr4D 100.000 835 0 0 1 835 405764210 405763376 0.000000e+00 1543
9 TraesCS6D01G166400 chr4D 89.103 156 13 4 3044 3197 74079351 74079504 1.890000e-44 191
10 TraesCS6D01G166400 chr2B 100.000 834 0 0 1 834 216552157 216551324 0.000000e+00 1541
11 TraesCS6D01G166400 chr2B 100.000 833 0 0 1 833 753688810 753687978 0.000000e+00 1539
12 TraesCS6D01G166400 chr2B 99.760 833 2 0 1 833 317723780 317724612 0.000000e+00 1528
13 TraesCS6D01G166400 chrUn 100.000 833 0 0 1 833 315121049 315120217 0.000000e+00 1539
14 TraesCS6D01G166400 chrUn 100.000 832 0 0 1 832 268927539 268926708 0.000000e+00 1537
15 TraesCS6D01G166400 chr7D 99.881 837 0 1 1 836 395853898 395854734 0.000000e+00 1539
16 TraesCS6D01G166400 chr3D 100.000 833 0 0 1 833 336829183 336828351 0.000000e+00 1539
17 TraesCS6D01G166400 chr3A 86.364 484 62 4 1238 1719 435808354 435807873 4.570000e-145 525
18 TraesCS6D01G166400 chr3A 91.733 375 16 7 1 362 176143399 176143027 1.650000e-139 507
19 TraesCS6D01G166400 chr3A 95.819 287 11 1 550 835 176136507 176136221 3.630000e-126 462
20 TraesCS6D01G166400 chr3A 91.626 203 15 1 361 561 176139430 176139228 3.920000e-71 279
21 TraesCS6D01G166400 chr7B 87.730 163 16 4 3036 3197 155471160 155471319 2.450000e-43 187
22 TraesCS6D01G166400 chr7B 87.195 164 18 3 3044 3205 453623443 453623281 3.170000e-42 183
23 TraesCS6D01G166400 chr5D 88.387 155 15 3 3044 3197 256749951 256749799 3.170000e-42 183
24 TraesCS6D01G166400 chr2D 87.500 160 18 2 3039 3197 88290213 88290055 3.170000e-42 183
25 TraesCS6D01G166400 chr4B 87.975 158 14 5 3044 3199 78607768 78607614 1.140000e-41 182
26 TraesCS6D01G166400 chr7A 86.585 164 19 3 3044 3205 486930093 486929931 1.470000e-40 178
27 TraesCS6D01G166400 chr4A 86.667 165 16 6 3035 3197 460230641 460230801 1.470000e-40 178


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 TraesCS6D01G166400 chr6D 147881786 147886932 5146 True 9505.0 9505 100.000000 1 5147 1 chr6D.!!$R1 5146
1 TraesCS6D01G166400 chr6A 199806786 199810952 4166 False 2957.5 3589 92.161500 832 5147 2 chr6A.!!$F2 4315
2 TraesCS6D01G166400 chr6B 260547293 260551643 4350 True 1453.5 2743 91.268250 832 5147 4 chr6B.!!$R1 4315
3 TraesCS6D01G166400 chr4D 405763376 405764210 834 True 1543.0 1543 100.000000 1 835 1 chr4D.!!$R1 834
4 TraesCS6D01G166400 chr2B 216551324 216552157 833 True 1541.0 1541 100.000000 1 834 1 chr2B.!!$R1 833
5 TraesCS6D01G166400 chr2B 753687978 753688810 832 True 1539.0 1539 100.000000 1 833 1 chr2B.!!$R2 832
6 TraesCS6D01G166400 chr2B 317723780 317724612 832 False 1528.0 1528 99.760000 1 833 1 chr2B.!!$F1 832
7 TraesCS6D01G166400 chrUn 315120217 315121049 832 True 1539.0 1539 100.000000 1 833 1 chrUn.!!$R2 832
8 TraesCS6D01G166400 chrUn 268926708 268927539 831 True 1537.0 1537 100.000000 1 832 1 chrUn.!!$R1 831
9 TraesCS6D01G166400 chr7D 395853898 395854734 836 False 1539.0 1539 99.881000 1 836 1 chr7D.!!$F1 835
10 TraesCS6D01G166400 chr3D 336828351 336829183 832 True 1539.0 1539 100.000000 1 833 1 chr3D.!!$R1 832
11 TraesCS6D01G166400 chr3A 176136221 176143399 7178 True 416.0 507 93.059333 1 835 3 chr3A.!!$R2 834

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
980 7332 1.068121 ATCCTCCATCCCGGGAATTC 58.932 55.000 30.84 0.00 36.27 2.17 F
1727 8079 1.373570 GCCAATCAGGTACACTCAGC 58.626 55.000 0.00 0.00 40.61 4.26 F
2939 9548 1.001815 CCACGGCAAAACCAACTAGTG 60.002 52.381 0.00 0.00 39.03 2.74 F
3608 10219 0.250124 TTTCTCGCGCCTTCCTGAAA 60.250 50.000 0.00 1.08 0.00 2.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2919 9528 1.001815 CACTAGTTGGTTTTGCCGTGG 60.002 52.381 0.00 0.0 41.21 4.94 R
3588 10199 0.250124 TTCAGGAAGGCGCGAGAAAA 60.250 50.000 12.10 0.0 0.00 2.29 R
3936 10555 0.250727 CCAGGGGAGAAAACTGCGAA 60.251 55.000 0.00 0.0 0.00 4.70 R
4914 11568 0.321298 CCAACCGGACGAATGGAAGT 60.321 55.000 9.46 0.0 34.82 3.01 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
922 7269 3.160478 AACCCTCCCCTGCCCAAAC 62.160 63.158 0.00 0.00 0.00 2.93
980 7332 1.068121 ATCCTCCATCCCGGGAATTC 58.932 55.000 30.84 0.00 36.27 2.17
1015 7367 3.083349 CCATGGAGTCCGGCCTCA 61.083 66.667 15.51 0.76 32.91 3.86
1524 7876 1.805945 CTTCTTCGGCGTCTTCGGG 60.806 63.158 6.85 0.00 37.56 5.14
1727 8079 1.373570 GCCAATCAGGTACACTCAGC 58.626 55.000 0.00 0.00 40.61 4.26
1760 8112 2.878406 CGTTCCGGAATCTTGGCAATAT 59.122 45.455 22.04 0.00 0.00 1.28
1871 8226 3.067461 AGAATCAGTCGCAGTAGATGGTC 59.933 47.826 0.00 0.00 0.00 4.02
1874 8233 2.092592 TCAGTCGCAGTAGATGGTCCTA 60.093 50.000 0.00 0.00 0.00 2.94
1951 8310 4.203654 AGAGGCTAAAGAGTTTTACCCG 57.796 45.455 0.00 0.00 32.17 5.28
1954 8313 2.418976 GGCTAAAGAGTTTTACCCGCTG 59.581 50.000 0.00 0.00 0.00 5.18
2317 8679 3.106827 TGAAGGTGCTGGTATCATCTCA 58.893 45.455 0.00 0.00 0.00 3.27
2437 8799 9.911788 AAGTTCATCCATAAATCATGACTTACT 57.088 29.630 0.00 0.00 36.69 2.24
2438 8800 9.911788 AGTTCATCCATAAATCATGACTTACTT 57.088 29.630 0.00 0.00 36.69 2.24
2440 8802 9.904198 TTCATCCATAAATCATGACTTACTTCA 57.096 29.630 0.00 0.00 36.69 3.02
2939 9548 1.001815 CCACGGCAAAACCAACTAGTG 60.002 52.381 0.00 0.00 39.03 2.74
2950 9560 8.028938 GCAAAACCAACTAGTGATGTTTCATAT 58.971 33.333 14.43 1.78 33.56 1.78
2958 9568 8.862325 ACTAGTGATGTTTCATATGGTTTTGA 57.138 30.769 2.13 0.00 33.56 2.69
2959 9569 8.730680 ACTAGTGATGTTTCATATGGTTTTGAC 58.269 33.333 2.13 0.00 33.56 3.18
2977 9587 7.928167 GGTTTTGACTTTCCAAGATCTGAAATT 59.072 33.333 8.28 4.05 30.67 1.82
3019 9629 3.354089 AAAAACAGAACGTGCCATCAG 57.646 42.857 0.00 0.00 0.00 2.90
3021 9631 1.967319 AACAGAACGTGCCATCAGTT 58.033 45.000 0.00 0.00 0.00 3.16
3048 9658 9.998106 ATGATGGTTATGTTAGTATGGTACTTC 57.002 33.333 0.00 0.00 40.14 3.01
3049 9659 8.426489 TGATGGTTATGTTAGTATGGTACTTCC 58.574 37.037 0.00 0.00 40.14 3.46
3050 9660 7.983166 TGGTTATGTTAGTATGGTACTTCCT 57.017 36.000 0.00 0.00 40.14 3.36
3051 9661 8.015185 TGGTTATGTTAGTATGGTACTTCCTC 57.985 38.462 0.00 0.00 40.14 3.71
3052 9662 7.070322 TGGTTATGTTAGTATGGTACTTCCTCC 59.930 40.741 0.00 0.00 40.14 4.30
3053 9663 5.786264 ATGTTAGTATGGTACTTCCTCCG 57.214 43.478 0.00 0.00 40.14 4.63
3054 9664 4.603131 TGTTAGTATGGTACTTCCTCCGT 58.397 43.478 0.00 0.00 40.14 4.69
3055 9665 5.018809 TGTTAGTATGGTACTTCCTCCGTT 58.981 41.667 0.00 0.00 40.14 4.44
3056 9666 5.126061 TGTTAGTATGGTACTTCCTCCGTTC 59.874 44.000 0.00 0.00 40.14 3.95
3057 9667 3.029570 AGTATGGTACTTCCTCCGTTCC 58.970 50.000 0.00 0.00 34.86 3.62
3058 9668 1.946984 ATGGTACTTCCTCCGTTCCA 58.053 50.000 0.00 0.00 36.47 3.53
3059 9669 1.719529 TGGTACTTCCTCCGTTCCAA 58.280 50.000 0.00 0.00 37.07 3.53
3060 9670 2.048601 TGGTACTTCCTCCGTTCCAAA 58.951 47.619 0.00 0.00 37.07 3.28
3061 9671 2.640826 TGGTACTTCCTCCGTTCCAAAT 59.359 45.455 0.00 0.00 37.07 2.32
3062 9672 3.073356 TGGTACTTCCTCCGTTCCAAATT 59.927 43.478 0.00 0.00 37.07 1.82
3063 9673 4.286549 TGGTACTTCCTCCGTTCCAAATTA 59.713 41.667 0.00 0.00 37.07 1.40
3064 9674 4.633126 GGTACTTCCTCCGTTCCAAATTAC 59.367 45.833 0.00 0.00 0.00 1.89
3065 9675 4.360951 ACTTCCTCCGTTCCAAATTACA 57.639 40.909 0.00 0.00 0.00 2.41
3066 9676 4.721132 ACTTCCTCCGTTCCAAATTACAA 58.279 39.130 0.00 0.00 0.00 2.41
3067 9677 4.760204 ACTTCCTCCGTTCCAAATTACAAG 59.240 41.667 0.00 0.00 0.00 3.16
3068 9678 4.627284 TCCTCCGTTCCAAATTACAAGA 57.373 40.909 0.00 0.00 0.00 3.02
3069 9679 5.174037 TCCTCCGTTCCAAATTACAAGAT 57.826 39.130 0.00 0.00 0.00 2.40
3070 9680 4.941263 TCCTCCGTTCCAAATTACAAGATG 59.059 41.667 0.00 0.00 0.00 2.90
3071 9681 4.700213 CCTCCGTTCCAAATTACAAGATGT 59.300 41.667 0.00 0.00 0.00 3.06
3072 9682 5.183140 CCTCCGTTCCAAATTACAAGATGTT 59.817 40.000 0.00 0.00 0.00 2.71
3073 9683 6.249035 TCCGTTCCAAATTACAAGATGTTC 57.751 37.500 0.00 0.00 0.00 3.18
3074 9684 6.001460 TCCGTTCCAAATTACAAGATGTTCT 58.999 36.000 0.00 0.00 0.00 3.01
3075 9685 7.162761 TCCGTTCCAAATTACAAGATGTTCTA 58.837 34.615 0.00 0.00 0.00 2.10
3076 9686 7.662258 TCCGTTCCAAATTACAAGATGTTCTAA 59.338 33.333 0.00 0.00 0.00 2.10
3077 9687 7.962918 CCGTTCCAAATTACAAGATGTTCTAAG 59.037 37.037 0.00 0.00 0.00 2.18
3078 9688 8.504005 CGTTCCAAATTACAAGATGTTCTAAGT 58.496 33.333 0.00 0.00 0.00 2.24
3107 9717 9.914131 TTTCTCTGAATTGGATGTATATAGACG 57.086 33.333 0.00 0.00 0.00 4.18
3108 9718 8.637196 TCTCTGAATTGGATGTATATAGACGT 57.363 34.615 0.00 0.00 0.00 4.34
3109 9719 8.515414 TCTCTGAATTGGATGTATATAGACGTG 58.485 37.037 0.00 0.00 0.00 4.49
3110 9720 8.178313 TCTGAATTGGATGTATATAGACGTGT 57.822 34.615 0.00 0.00 0.00 4.49
3111 9721 8.638873 TCTGAATTGGATGTATATAGACGTGTT 58.361 33.333 0.00 0.00 0.00 3.32
3112 9722 9.261180 CTGAATTGGATGTATATAGACGTGTTT 57.739 33.333 0.00 0.00 0.00 2.83
3113 9723 9.607988 TGAATTGGATGTATATAGACGTGTTTT 57.392 29.630 0.00 0.00 0.00 2.43
3126 9736 6.243811 AGACGTGTTTTAGTTTGTTTGTCA 57.756 33.333 0.00 0.00 0.00 3.58
3127 9737 6.081693 AGACGTGTTTTAGTTTGTTTGTCAC 58.918 36.000 0.00 0.00 0.00 3.67
3128 9738 6.004408 ACGTGTTTTAGTTTGTTTGTCACT 57.996 33.333 0.00 0.00 0.00 3.41
3129 9739 6.081693 ACGTGTTTTAGTTTGTTTGTCACTC 58.918 36.000 0.00 0.00 0.00 3.51
3130 9740 6.081049 CGTGTTTTAGTTTGTTTGTCACTCA 58.919 36.000 0.00 0.00 0.00 3.41
3131 9741 6.745450 CGTGTTTTAGTTTGTTTGTCACTCAT 59.255 34.615 0.00 0.00 0.00 2.90
3132 9742 7.272515 CGTGTTTTAGTTTGTTTGTCACTCATT 59.727 33.333 0.00 0.00 0.00 2.57
3133 9743 8.921670 GTGTTTTAGTTTGTTTGTCACTCATTT 58.078 29.630 0.00 0.00 0.00 2.32
3134 9744 9.134734 TGTTTTAGTTTGTTTGTCACTCATTTC 57.865 29.630 0.00 0.00 0.00 2.17
3135 9745 9.134734 GTTTTAGTTTGTTTGTCACTCATTTCA 57.865 29.630 0.00 0.00 0.00 2.69
3136 9746 8.909708 TTTAGTTTGTTTGTCACTCATTTCAG 57.090 30.769 0.00 0.00 0.00 3.02
3137 9747 6.515272 AGTTTGTTTGTCACTCATTTCAGT 57.485 33.333 0.00 0.00 0.00 3.41
3138 9748 6.555315 AGTTTGTTTGTCACTCATTTCAGTC 58.445 36.000 0.00 0.00 0.00 3.51
3139 9749 5.499139 TTGTTTGTCACTCATTTCAGTCC 57.501 39.130 0.00 0.00 0.00 3.85
3140 9750 3.559655 TGTTTGTCACTCATTTCAGTCCG 59.440 43.478 0.00 0.00 0.00 4.79
3141 9751 3.469008 TTGTCACTCATTTCAGTCCGT 57.531 42.857 0.00 0.00 0.00 4.69
3142 9752 4.594123 TTGTCACTCATTTCAGTCCGTA 57.406 40.909 0.00 0.00 0.00 4.02
3143 9753 4.801330 TGTCACTCATTTCAGTCCGTAT 57.199 40.909 0.00 0.00 0.00 3.06
3144 9754 4.494484 TGTCACTCATTTCAGTCCGTATG 58.506 43.478 0.00 0.00 0.00 2.39
3145 9755 4.021456 TGTCACTCATTTCAGTCCGTATGT 60.021 41.667 0.00 0.00 0.00 2.29
3146 9756 5.184287 TGTCACTCATTTCAGTCCGTATGTA 59.816 40.000 0.00 0.00 0.00 2.29
3147 9757 5.744345 GTCACTCATTTCAGTCCGTATGTAG 59.256 44.000 0.00 0.00 0.00 2.74
3148 9758 5.417894 TCACTCATTTCAGTCCGTATGTAGT 59.582 40.000 0.00 0.00 0.00 2.73
3149 9759 5.744345 CACTCATTTCAGTCCGTATGTAGTC 59.256 44.000 0.00 0.00 0.00 2.59
3150 9760 5.163540 ACTCATTTCAGTCCGTATGTAGTCC 60.164 44.000 0.00 0.00 0.00 3.85
3151 9761 4.707934 TCATTTCAGTCCGTATGTAGTCCA 59.292 41.667 0.00 0.00 0.00 4.02
3152 9762 5.362717 TCATTTCAGTCCGTATGTAGTCCAT 59.637 40.000 0.00 0.00 37.58 3.41
3153 9763 6.548251 TCATTTCAGTCCGTATGTAGTCCATA 59.452 38.462 0.00 0.00 34.86 2.74
3154 9764 6.971726 TTTCAGTCCGTATGTAGTCCATAT 57.028 37.500 0.00 0.00 38.29 1.78
3155 9765 6.971726 TTCAGTCCGTATGTAGTCCATATT 57.028 37.500 0.00 0.00 38.29 1.28
3156 9766 6.327279 TCAGTCCGTATGTAGTCCATATTG 57.673 41.667 0.00 0.00 38.29 1.90
3157 9767 6.066032 TCAGTCCGTATGTAGTCCATATTGA 58.934 40.000 0.00 0.00 38.29 2.57
3158 9768 6.548251 TCAGTCCGTATGTAGTCCATATTGAA 59.452 38.462 0.00 0.00 38.29 2.69
3159 9769 7.068962 TCAGTCCGTATGTAGTCCATATTGAAA 59.931 37.037 0.00 0.00 38.29 2.69
3160 9770 7.872993 CAGTCCGTATGTAGTCCATATTGAAAT 59.127 37.037 0.00 0.00 38.29 2.17
3161 9771 9.085645 AGTCCGTATGTAGTCCATATTGAAATA 57.914 33.333 0.00 0.00 38.29 1.40
3162 9772 9.871238 GTCCGTATGTAGTCCATATTGAAATAT 57.129 33.333 0.00 0.00 38.29 1.28
3164 9774 9.314321 CCGTATGTAGTCCATATTGAAATATCC 57.686 37.037 0.00 0.00 38.29 2.59
3165 9775 9.869757 CGTATGTAGTCCATATTGAAATATCCA 57.130 33.333 0.00 0.00 38.29 3.41
3195 9805 9.244292 TGTCTTATAATAGTGAACAGAGTGAGT 57.756 33.333 0.00 0.00 0.00 3.41
3214 9824 6.768381 AGTGAGTACTTTTAAGCTTCTTTGCT 59.232 34.615 0.00 0.00 38.35 3.91
3215 9825 6.853362 GTGAGTACTTTTAAGCTTCTTTGCTG 59.147 38.462 0.00 0.00 43.24 4.41
3241 9851 9.859692 GTGTATCAGTTTAGTACAGTTCAAAAC 57.140 33.333 0.00 0.00 0.00 2.43
3288 9898 9.606631 AGATAAGGAAGAATGTGAATAGAACAC 57.393 33.333 0.00 0.00 38.55 3.32
3481 10092 9.243637 TGTTTAAGTTGTTGTGCTTCATTATTC 57.756 29.630 0.00 0.00 0.00 1.75
3484 10095 9.677567 TTAAGTTGTTGTGCTTCATTATTCTTC 57.322 29.630 0.00 0.00 0.00 2.87
3536 10147 6.421485 AGAATCCTTGCTCAATGTTATCTGT 58.579 36.000 0.00 0.00 0.00 3.41
3539 10150 5.181009 TCCTTGCTCAATGTTATCTGTCAG 58.819 41.667 0.00 0.00 0.00 3.51
3568 10179 3.277142 ACTCGTTTGTTGTTCCCTCTT 57.723 42.857 0.00 0.00 0.00 2.85
3576 10187 6.565999 CGTTTGTTGTTCCCTCTTCTAATGAC 60.566 42.308 0.00 0.00 0.00 3.06
3583 10194 5.843019 TCCCTCTTCTAATGACAAAAGGT 57.157 39.130 0.00 0.00 0.00 3.50
3588 10199 5.376625 TCTTCTAATGACAAAAGGTGTGCT 58.623 37.500 0.00 0.00 41.96 4.40
3595 10206 3.181501 TGACAAAAGGTGTGCTTTTCTCG 60.182 43.478 0.00 0.00 41.96 4.04
3599 10210 2.127232 GTGTGCTTTTCTCGCGCC 60.127 61.111 0.00 0.00 37.09 6.53
3608 10219 0.250124 TTTCTCGCGCCTTCCTGAAA 60.250 50.000 0.00 1.08 0.00 2.69
3609 10220 0.670546 TTCTCGCGCCTTCCTGAAAG 60.671 55.000 0.00 0.00 34.52 2.62
3660 10271 7.336679 TCAGAAATTTTATGATGAAGAGCCGAA 59.663 33.333 2.41 0.00 0.00 4.30
3661 10272 7.642978 CAGAAATTTTATGATGAAGAGCCGAAG 59.357 37.037 0.00 0.00 0.00 3.79
3668 10283 1.300971 TGAAGAGCCGAAGCATGCAC 61.301 55.000 21.98 12.47 43.56 4.57
3672 10287 0.740868 GAGCCGAAGCATGCACTGTA 60.741 55.000 21.98 0.00 43.56 2.74
3703 10318 6.536224 GCCTTGATGCTTGCTTTAACAAATAT 59.464 34.615 0.00 0.00 0.00 1.28
3768 10387 6.767902 TCTTGTCATGATTATAGGTCAAAGGC 59.232 38.462 0.00 0.00 0.00 4.35
3861 10480 2.655090 TGTCATTTGGGTCTCTTGCA 57.345 45.000 0.00 0.00 0.00 4.08
3945 10564 0.391263 GGTCCCTCGATTCGCAGTTT 60.391 55.000 0.00 0.00 0.00 2.66
4056 10675 2.162408 CGGCTCCCTTCAAGAAAATGTC 59.838 50.000 0.00 0.00 0.00 3.06
4067 10686 0.449388 GAAAATGTCGCCAGCCAGAG 59.551 55.000 0.00 0.00 0.00 3.35
4178 10797 6.449041 TCCACCCCCAGAAATTTAGTTAGTAT 59.551 38.462 0.00 0.00 0.00 2.12
4223 10846 3.465218 TTGGTTGGGCCTGCCATGT 62.465 57.895 17.78 0.00 38.35 3.21
4248 10871 1.064003 TGCTGGGAAAGGCAGTAGAA 58.936 50.000 0.00 0.00 34.22 2.10
4260 10883 7.040823 GGAAAGGCAGTAGAATGATTGATAAGG 60.041 40.741 0.00 0.00 0.00 2.69
4321 10944 5.784750 TTTTGACTTCATGCGAGTATCTG 57.215 39.130 2.11 0.00 0.00 2.90
4326 10949 3.243569 ACTTCATGCGAGTATCTGTAGCC 60.244 47.826 0.35 0.00 0.00 3.93
4328 10951 0.039074 ATGCGAGTATCTGTAGCCGC 60.039 55.000 0.00 0.00 42.52 6.53
4329 10952 1.371881 GCGAGTATCTGTAGCCGCC 60.372 63.158 0.00 0.00 37.09 6.13
4330 10953 1.082038 CGAGTATCTGTAGCCGCCG 60.082 63.158 0.00 0.00 0.00 6.46
4331 10954 1.783031 CGAGTATCTGTAGCCGCCGT 61.783 60.000 0.00 0.00 0.00 5.68
4332 10955 0.384669 GAGTATCTGTAGCCGCCGTT 59.615 55.000 0.00 0.00 0.00 4.44
4334 10957 2.026641 AGTATCTGTAGCCGCCGTTTA 58.973 47.619 0.00 0.00 0.00 2.01
4335 10958 2.122564 GTATCTGTAGCCGCCGTTTAC 58.877 52.381 0.00 0.00 0.00 2.01
4336 10959 0.822164 ATCTGTAGCCGCCGTTTACT 59.178 50.000 0.00 0.00 0.00 2.24
4354 10979 6.543736 GTTTACTTATCTGTAGCTGTTTGGC 58.456 40.000 0.00 0.00 0.00 4.52
4360 10985 2.158827 TCTGTAGCTGTTTGGCTTGTCA 60.159 45.455 0.00 0.00 42.97 3.58
4362 10987 1.266989 GTAGCTGTTTGGCTTGTCACC 59.733 52.381 0.00 0.00 42.97 4.02
4448 11073 9.716531 CTTTCACAGATCTATTAATCCATGCTA 57.283 33.333 0.00 0.00 0.00 3.49
4487 11121 6.701400 CCTTGTTTTGCTACTGCTTGTTATTT 59.299 34.615 0.00 0.00 40.48 1.40
4519 11153 4.806247 CCTAATCGTTCTGAACACTGATCC 59.194 45.833 19.56 0.00 0.00 3.36
4525 11159 3.744238 TCTGAACACTGATCCGACAAA 57.256 42.857 0.00 0.00 0.00 2.83
4526 11160 4.066646 TCTGAACACTGATCCGACAAAA 57.933 40.909 0.00 0.00 0.00 2.44
4527 11161 4.641396 TCTGAACACTGATCCGACAAAAT 58.359 39.130 0.00 0.00 0.00 1.82
4528 11162 4.452114 TCTGAACACTGATCCGACAAAATG 59.548 41.667 0.00 0.00 0.00 2.32
4531 11165 5.408299 TGAACACTGATCCGACAAAATGTAG 59.592 40.000 0.00 0.00 0.00 2.74
4535 11169 4.929808 ACTGATCCGACAAAATGTAGTCAC 59.070 41.667 0.00 0.00 34.48 3.67
4541 11175 2.066262 ACAAAATGTAGTCACGAGCCG 58.934 47.619 0.00 0.00 0.00 5.52
4558 11192 3.347216 AGCCGTGTCTAATTCTTGCATT 58.653 40.909 0.00 0.00 0.00 3.56
4563 11197 6.851330 GCCGTGTCTAATTCTTGCATTAATAC 59.149 38.462 0.00 0.00 0.00 1.89
4621 11255 6.497624 AATATGGCATAAATCCCTGCAAAA 57.502 33.333 11.86 0.00 40.18 2.44
4624 11258 5.946942 TGGCATAAATCCCTGCAAAATTA 57.053 34.783 0.00 0.00 40.18 1.40
4626 11260 6.347696 TGGCATAAATCCCTGCAAAATTAAG 58.652 36.000 0.00 0.00 40.18 1.85
4627 11261 6.155910 TGGCATAAATCCCTGCAAAATTAAGA 59.844 34.615 0.00 0.00 40.18 2.10
4634 11268 6.345096 TCCCTGCAAAATTAAGAAAAGGAG 57.655 37.500 0.00 0.00 0.00 3.69
4648 11282 2.881111 AAGGAGGTGCCCTTAAGAAC 57.119 50.000 3.36 0.00 44.28 3.01
4654 11288 4.349930 GGAGGTGCCCTTAAGAACCATATA 59.650 45.833 18.46 0.00 35.01 0.86
4659 11293 6.062095 GTGCCCTTAAGAACCATATATGTGT 58.938 40.000 11.73 6.51 0.00 3.72
4660 11294 6.017109 GTGCCCTTAAGAACCATATATGTGTG 60.017 42.308 11.73 0.00 0.00 3.82
4679 11314 1.234821 GCACATTTTCCGGACTGACA 58.765 50.000 1.83 0.00 0.00 3.58
4683 11318 2.228822 ACATTTTCCGGACTGACATTGC 59.771 45.455 1.83 0.00 0.00 3.56
4688 11323 0.734889 CCGGACTGACATTGCCAATC 59.265 55.000 0.00 0.00 0.00 2.67
4692 11327 3.879295 CGGACTGACATTGCCAATCTATT 59.121 43.478 0.00 0.00 0.00 1.73
4701 11336 9.964354 TGACATTGCCAATCTATTAGCTATATT 57.036 29.630 0.00 0.00 0.00 1.28
4705 11340 8.942338 TTGCCAATCTATTAGCTATATTACGG 57.058 34.615 0.00 0.00 0.00 4.02
4706 11341 8.301252 TGCCAATCTATTAGCTATATTACGGA 57.699 34.615 0.00 0.00 0.00 4.69
4707 11342 8.414003 TGCCAATCTATTAGCTATATTACGGAG 58.586 37.037 0.00 0.00 0.00 4.63
4708 11343 7.868415 GCCAATCTATTAGCTATATTACGGAGG 59.132 40.741 0.00 0.00 0.00 4.30
4709 11344 9.132923 CCAATCTATTAGCTATATTACGGAGGA 57.867 37.037 0.00 0.00 0.00 3.71
4714 11349 9.737427 CTATTAGCTATATTACGGAGGATGTTG 57.263 37.037 0.00 0.00 0.00 3.33
4716 11351 5.784177 AGCTATATTACGGAGGATGTTGTG 58.216 41.667 0.00 0.00 0.00 3.33
4717 11352 4.389077 GCTATATTACGGAGGATGTTGTGC 59.611 45.833 0.00 0.00 0.00 4.57
4720 11355 1.195442 TACGGAGGATGTTGTGCCCA 61.195 55.000 0.00 0.00 0.00 5.36
4721 11356 1.303236 CGGAGGATGTTGTGCCCAA 60.303 57.895 0.00 0.00 0.00 4.12
4722 11357 0.680921 CGGAGGATGTTGTGCCCAAT 60.681 55.000 0.00 0.00 32.11 3.16
4736 11372 6.656632 TGTGCCCAATCTTAACAAAACATA 57.343 33.333 0.00 0.00 0.00 2.29
4738 11374 6.266558 TGTGCCCAATCTTAACAAAACATAGT 59.733 34.615 0.00 0.00 0.00 2.12
4783 11419 2.826725 CCTAGTTCTTCACTCTTCCCGT 59.173 50.000 0.00 0.00 36.88 5.28
4793 11429 4.142790 TCACTCTTCCCGTCCTACATATC 58.857 47.826 0.00 0.00 0.00 1.63
4794 11430 4.141228 TCACTCTTCCCGTCCTACATATCT 60.141 45.833 0.00 0.00 0.00 1.98
4795 11431 5.072736 TCACTCTTCCCGTCCTACATATCTA 59.927 44.000 0.00 0.00 0.00 1.98
4796 11432 5.768662 CACTCTTCCCGTCCTACATATCTAA 59.231 44.000 0.00 0.00 0.00 2.10
4797 11433 6.264744 CACTCTTCCCGTCCTACATATCTAAA 59.735 42.308 0.00 0.00 0.00 1.85
4851 11492 2.751166 ATATAGCATGTCCGAGTGCC 57.249 50.000 0.00 0.00 42.20 5.01
4896 11550 0.832135 TCACCCTCTCTTTCACCGCT 60.832 55.000 0.00 0.00 0.00 5.52
4916 11570 2.338577 GGCATAGTCTTCATGGCACT 57.661 50.000 4.66 0.00 45.57 4.40
4928 11582 1.375396 TGGCACTTCCATTCGTCCG 60.375 57.895 0.00 0.00 40.72 4.79
5048 11702 1.480545 ACAACAGACCAAAGGCCAAAC 59.519 47.619 5.01 0.00 0.00 2.93
5100 11756 4.530875 AGAGGAAAATGTATTCAGCAGGG 58.469 43.478 0.00 0.00 0.00 4.45
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
980 7332 3.787001 GGGCGGAGAAGGTGGGAG 61.787 72.222 0.00 0.00 0.00 4.30
1015 7367 4.722700 AAGGCGGTGGCTTGCGAT 62.723 61.111 4.70 0.00 46.51 4.58
1059 7411 3.402681 CGGAGGAGGTGGGCATGT 61.403 66.667 0.00 0.00 0.00 3.21
1524 7876 1.334779 CGCATAGGGTAGAGCACGTAC 60.335 57.143 0.00 0.00 0.00 3.67
1632 7984 2.849294 AGAAGAGGCAGAAACTCCAC 57.151 50.000 0.00 0.00 35.58 4.02
1760 8112 2.419297 GGACCCAACAATTTTGCACACA 60.419 45.455 0.00 0.00 0.00 3.72
2317 8679 3.202818 TGTGGCAAGATCCCTCACATATT 59.797 43.478 0.00 0.00 34.01 1.28
2472 9074 5.278957 GGGAACTGCAACAGAACAACATAAT 60.279 40.000 0.78 0.00 35.18 1.28
2895 9503 9.449896 TGGGTTCCCAAGTACTATATTATACAA 57.550 33.333 8.26 0.00 32.48 2.41
2896 9504 8.873144 GTGGGTTCCCAAGTACTATATTATACA 58.127 37.037 12.54 0.00 37.91 2.29
2897 9505 8.031277 CGTGGGTTCCCAAGTACTATATTATAC 58.969 40.741 12.54 0.00 37.91 1.47
2898 9506 7.178983 CCGTGGGTTCCCAAGTACTATATTATA 59.821 40.741 19.17 0.00 37.91 0.98
2899 9507 6.013984 CCGTGGGTTCCCAAGTACTATATTAT 60.014 42.308 19.17 0.00 37.91 1.28
2900 9508 5.305128 CCGTGGGTTCCCAAGTACTATATTA 59.695 44.000 19.17 0.00 37.91 0.98
2910 9518 1.395826 TTTTGCCGTGGGTTCCCAAG 61.396 55.000 12.54 14.00 37.91 3.61
2911 9519 1.381327 TTTTGCCGTGGGTTCCCAA 60.381 52.632 12.54 0.00 37.91 4.12
2919 9528 1.001815 CACTAGTTGGTTTTGCCGTGG 60.002 52.381 0.00 0.00 41.21 4.94
2939 9548 8.087750 TGGAAAGTCAAAACCATATGAAACATC 58.912 33.333 3.65 0.00 0.00 3.06
2950 9560 5.445069 TCAGATCTTGGAAAGTCAAAACCA 58.555 37.500 0.00 0.00 46.34 3.67
2998 9608 3.880490 ACTGATGGCACGTTCTGTTTTTA 59.120 39.130 0.00 0.00 0.00 1.52
2999 9609 2.687935 ACTGATGGCACGTTCTGTTTTT 59.312 40.909 0.00 0.00 0.00 1.94
3028 9638 7.144000 CGGAGGAAGTACCATACTAACATAAC 58.856 42.308 0.00 0.00 42.04 1.89
3035 9645 4.210331 GGAACGGAGGAAGTACCATACTA 58.790 47.826 0.00 0.00 42.04 1.82
3037 9647 2.762327 TGGAACGGAGGAAGTACCATAC 59.238 50.000 0.00 0.00 42.04 2.39
3044 9654 4.360951 TGTAATTTGGAACGGAGGAAGT 57.639 40.909 0.00 0.00 0.00 3.01
3045 9655 5.001232 TCTTGTAATTTGGAACGGAGGAAG 58.999 41.667 0.00 0.00 0.00 3.46
3046 9656 4.975631 TCTTGTAATTTGGAACGGAGGAA 58.024 39.130 0.00 0.00 0.00 3.36
3047 9657 4.627284 TCTTGTAATTTGGAACGGAGGA 57.373 40.909 0.00 0.00 0.00 3.71
3048 9658 4.700213 ACATCTTGTAATTTGGAACGGAGG 59.300 41.667 0.00 0.00 0.00 4.30
3049 9659 5.880054 ACATCTTGTAATTTGGAACGGAG 57.120 39.130 0.00 0.00 0.00 4.63
3050 9660 6.001460 AGAACATCTTGTAATTTGGAACGGA 58.999 36.000 0.00 0.00 0.00 4.69
3051 9661 6.254281 AGAACATCTTGTAATTTGGAACGG 57.746 37.500 0.00 0.00 0.00 4.44
3052 9662 8.504005 ACTTAGAACATCTTGTAATTTGGAACG 58.496 33.333 0.00 0.00 0.00 3.95
3081 9691 9.914131 CGTCTATATACATCCAATTCAGAGAAA 57.086 33.333 0.00 0.00 0.00 2.52
3082 9692 9.078990 ACGTCTATATACATCCAATTCAGAGAA 57.921 33.333 0.00 0.00 0.00 2.87
3083 9693 8.515414 CACGTCTATATACATCCAATTCAGAGA 58.485 37.037 0.00 0.00 0.00 3.10
3084 9694 8.300286 ACACGTCTATATACATCCAATTCAGAG 58.700 37.037 0.00 0.00 0.00 3.35
3085 9695 8.178313 ACACGTCTATATACATCCAATTCAGA 57.822 34.615 0.00 0.00 0.00 3.27
3086 9696 8.818141 AACACGTCTATATACATCCAATTCAG 57.182 34.615 0.00 0.00 0.00 3.02
3087 9697 9.607988 AAAACACGTCTATATACATCCAATTCA 57.392 29.630 0.00 0.00 0.00 2.57
3100 9710 9.096160 TGACAAACAAACTAAAACACGTCTATA 57.904 29.630 0.00 0.00 0.00 1.31
3101 9711 7.906527 GTGACAAACAAACTAAAACACGTCTAT 59.093 33.333 0.00 0.00 0.00 1.98
3102 9712 7.118101 AGTGACAAACAAACTAAAACACGTCTA 59.882 33.333 0.00 0.00 0.00 2.59
3103 9713 6.072893 AGTGACAAACAAACTAAAACACGTCT 60.073 34.615 0.00 0.00 0.00 4.18
3104 9714 6.081693 AGTGACAAACAAACTAAAACACGTC 58.918 36.000 0.00 0.00 0.00 4.34
3105 9715 6.004408 AGTGACAAACAAACTAAAACACGT 57.996 33.333 0.00 0.00 0.00 4.49
3106 9716 6.081049 TGAGTGACAAACAAACTAAAACACG 58.919 36.000 0.00 0.00 0.00 4.49
3107 9717 8.460831 AATGAGTGACAAACAAACTAAAACAC 57.539 30.769 0.00 0.00 0.00 3.32
3108 9718 9.134734 GAAATGAGTGACAAACAAACTAAAACA 57.865 29.630 0.00 0.00 0.00 2.83
3109 9719 9.134734 TGAAATGAGTGACAAACAAACTAAAAC 57.865 29.630 0.00 0.00 0.00 2.43
3110 9720 9.352784 CTGAAATGAGTGACAAACAAACTAAAA 57.647 29.630 0.00 0.00 0.00 1.52
3111 9721 8.519526 ACTGAAATGAGTGACAAACAAACTAAA 58.480 29.630 0.00 0.00 0.00 1.85
3112 9722 8.050778 ACTGAAATGAGTGACAAACAAACTAA 57.949 30.769 0.00 0.00 0.00 2.24
3113 9723 7.201696 GGACTGAAATGAGTGACAAACAAACTA 60.202 37.037 0.00 0.00 0.00 2.24
3114 9724 6.404734 GGACTGAAATGAGTGACAAACAAACT 60.405 38.462 0.00 0.00 0.00 2.66
3115 9725 5.743872 GGACTGAAATGAGTGACAAACAAAC 59.256 40.000 0.00 0.00 0.00 2.93
3116 9726 5.448496 CGGACTGAAATGAGTGACAAACAAA 60.448 40.000 0.00 0.00 0.00 2.83
3117 9727 4.035091 CGGACTGAAATGAGTGACAAACAA 59.965 41.667 0.00 0.00 0.00 2.83
3118 9728 3.559655 CGGACTGAAATGAGTGACAAACA 59.440 43.478 0.00 0.00 0.00 2.83
3119 9729 3.560068 ACGGACTGAAATGAGTGACAAAC 59.440 43.478 0.00 0.00 0.00 2.93
3120 9730 3.804036 ACGGACTGAAATGAGTGACAAA 58.196 40.909 0.00 0.00 0.00 2.83
3121 9731 3.469008 ACGGACTGAAATGAGTGACAA 57.531 42.857 0.00 0.00 0.00 3.18
3122 9732 4.021456 ACATACGGACTGAAATGAGTGACA 60.021 41.667 7.93 0.00 0.00 3.58
3123 9733 4.495422 ACATACGGACTGAAATGAGTGAC 58.505 43.478 7.93 0.00 0.00 3.67
3124 9734 4.801330 ACATACGGACTGAAATGAGTGA 57.199 40.909 7.93 0.00 0.00 3.41
3125 9735 5.651530 ACTACATACGGACTGAAATGAGTG 58.348 41.667 7.93 0.00 0.00 3.51
3126 9736 5.163540 GGACTACATACGGACTGAAATGAGT 60.164 44.000 7.93 7.04 0.00 3.41
3127 9737 5.163550 TGGACTACATACGGACTGAAATGAG 60.164 44.000 7.93 4.83 0.00 2.90
3128 9738 4.707934 TGGACTACATACGGACTGAAATGA 59.292 41.667 7.93 0.00 0.00 2.57
3129 9739 5.006153 TGGACTACATACGGACTGAAATG 57.994 43.478 0.00 0.00 0.00 2.32
3130 9740 5.871396 ATGGACTACATACGGACTGAAAT 57.129 39.130 0.00 0.00 38.26 2.17
3131 9741 6.971726 ATATGGACTACATACGGACTGAAA 57.028 37.500 0.00 0.00 44.41 2.69
3132 9742 6.548251 TCAATATGGACTACATACGGACTGAA 59.452 38.462 0.00 0.00 44.41 3.02
3133 9743 6.066032 TCAATATGGACTACATACGGACTGA 58.934 40.000 0.00 0.00 44.41 3.41
3134 9744 6.327279 TCAATATGGACTACATACGGACTG 57.673 41.667 0.00 0.00 44.41 3.51
3135 9745 6.971726 TTCAATATGGACTACATACGGACT 57.028 37.500 0.00 0.00 44.41 3.85
3136 9746 9.871238 ATATTTCAATATGGACTACATACGGAC 57.129 33.333 0.00 0.00 44.41 4.79
3138 9748 9.314321 GGATATTTCAATATGGACTACATACGG 57.686 37.037 0.00 0.00 44.41 4.02
3139 9749 9.869757 TGGATATTTCAATATGGACTACATACG 57.130 33.333 0.00 0.00 44.41 3.06
3169 9779 9.244292 ACTCACTCTGTTCACTATTATAAGACA 57.756 33.333 0.00 0.00 0.00 3.41
3178 9788 9.915629 CTTAAAAGTACTCACTCTGTTCACTAT 57.084 33.333 0.00 0.00 32.29 2.12
3179 9789 7.866393 GCTTAAAAGTACTCACTCTGTTCACTA 59.134 37.037 0.00 0.00 32.29 2.74
3180 9790 6.702282 GCTTAAAAGTACTCACTCTGTTCACT 59.298 38.462 0.00 0.00 32.29 3.41
3181 9791 6.702282 AGCTTAAAAGTACTCACTCTGTTCAC 59.298 38.462 0.00 0.00 32.29 3.18
3182 9792 6.817184 AGCTTAAAAGTACTCACTCTGTTCA 58.183 36.000 0.00 0.00 32.29 3.18
3183 9793 7.654116 AGAAGCTTAAAAGTACTCACTCTGTTC 59.346 37.037 0.00 0.00 32.29 3.18
3184 9794 7.501844 AGAAGCTTAAAAGTACTCACTCTGTT 58.498 34.615 0.00 0.00 32.29 3.16
3185 9795 7.056844 AGAAGCTTAAAAGTACTCACTCTGT 57.943 36.000 0.00 0.00 32.29 3.41
3186 9796 7.954788 AAGAAGCTTAAAAGTACTCACTCTG 57.045 36.000 0.00 0.00 32.29 3.35
3187 9797 7.041712 GCAAAGAAGCTTAAAAGTACTCACTCT 60.042 37.037 0.00 0.00 32.29 3.24
3188 9798 7.041712 AGCAAAGAAGCTTAAAAGTACTCACTC 60.042 37.037 0.00 0.00 43.70 3.51
3189 9799 6.768381 AGCAAAGAAGCTTAAAAGTACTCACT 59.232 34.615 0.00 0.00 43.70 3.41
3190 9800 6.853362 CAGCAAAGAAGCTTAAAAGTACTCAC 59.147 38.462 0.00 0.00 43.70 3.51
3191 9801 6.542370 ACAGCAAAGAAGCTTAAAAGTACTCA 59.458 34.615 0.00 0.00 43.70 3.41
3192 9802 6.853362 CACAGCAAAGAAGCTTAAAAGTACTC 59.147 38.462 0.00 0.00 43.70 2.59
3193 9803 6.318900 ACACAGCAAAGAAGCTTAAAAGTACT 59.681 34.615 0.00 0.00 43.70 2.73
3194 9804 6.495706 ACACAGCAAAGAAGCTTAAAAGTAC 58.504 36.000 0.00 0.00 43.70 2.73
3195 9805 6.693315 ACACAGCAAAGAAGCTTAAAAGTA 57.307 33.333 0.00 0.00 43.70 2.24
3214 9824 9.602568 TTTTGAACTGTACTAAACTGATACACA 57.397 29.630 0.00 0.00 0.00 3.72
3215 9825 9.859692 GTTTTGAACTGTACTAAACTGATACAC 57.140 33.333 0.00 0.00 33.09 2.90
3481 10092 5.005779 CGAGACAATTACGATTGGAAGGAAG 59.994 44.000 0.00 0.00 45.56 3.46
3484 10095 3.001330 GCGAGACAATTACGATTGGAAGG 59.999 47.826 0.00 0.00 45.56 3.46
3536 10147 6.509656 ACAACAAACGAGTACAGATAACTGA 58.490 36.000 7.05 0.00 46.03 3.41
3539 10150 6.347160 GGGAACAACAAACGAGTACAGATAAC 60.347 42.308 0.00 0.00 0.00 1.89
3551 10162 5.468746 TCATTAGAAGAGGGAACAACAAACG 59.531 40.000 0.00 0.00 0.00 3.60
3583 10194 1.841663 GAAGGCGCGAGAAAAGCACA 61.842 55.000 12.10 0.00 34.19 4.57
3588 10199 0.250124 TTCAGGAAGGCGCGAGAAAA 60.250 50.000 12.10 0.00 0.00 2.29
3595 10206 2.793278 TTTTTCTTTCAGGAAGGCGC 57.207 45.000 0.00 0.00 35.98 6.53
3651 10262 1.002868 AGTGCATGCTTCGGCTCTT 60.003 52.632 20.33 0.00 42.37 2.85
3653 10264 0.740868 TACAGTGCATGCTTCGGCTC 60.741 55.000 20.33 0.99 42.37 4.70
3655 10266 1.298157 TGTACAGTGCATGCTTCGGC 61.298 55.000 20.33 5.59 42.19 5.54
3656 10267 0.443869 GTGTACAGTGCATGCTTCGG 59.556 55.000 20.33 14.46 0.00 4.30
3657 10268 1.127397 CTGTGTACAGTGCATGCTTCG 59.873 52.381 20.33 9.18 39.09 3.79
3660 10271 0.957395 GCCTGTGTACAGTGCATGCT 60.957 55.000 20.33 0.00 42.27 3.79
3661 10272 1.503542 GCCTGTGTACAGTGCATGC 59.496 57.895 11.82 11.82 42.27 4.06
3668 10283 1.089920 GCATCAAGGCCTGTGTACAG 58.910 55.000 5.69 5.05 43.40 2.74
3672 10287 1.530013 GCAAGCATCAAGGCCTGTGT 61.530 55.000 5.69 0.00 0.00 3.72
3750 10369 4.829492 GCCTTGCCTTTGACCTATAATCAT 59.171 41.667 0.00 0.00 0.00 2.45
3768 10387 2.372264 ACCACATCTATTGCTGCCTTG 58.628 47.619 0.00 0.00 0.00 3.61
3861 10480 1.223187 CAAGGTACGGCGTTGAGTTT 58.777 50.000 21.24 3.41 43.45 2.66
3936 10555 0.250727 CCAGGGGAGAAAACTGCGAA 60.251 55.000 0.00 0.00 0.00 4.70
3945 10564 0.540365 CTTGCTTTGCCAGGGGAGAA 60.540 55.000 0.00 0.00 0.00 2.87
3998 10617 5.044428 GACTTGAGCTGTCGTTTCTACTA 57.956 43.478 0.00 0.00 0.00 1.82
3999 10618 3.903360 GACTTGAGCTGTCGTTTCTACT 58.097 45.455 0.00 0.00 0.00 2.57
4067 10686 2.505557 CCGTACCGTTCGTGGAGC 60.506 66.667 0.00 0.00 0.00 4.70
4113 10732 2.883888 GCCAGATTTTTCAGGGGCAGTA 60.884 50.000 0.00 0.00 41.02 2.74
4178 10797 4.142271 ACGTTTGCTTCCATCAAAAACTCA 60.142 37.500 0.00 0.00 35.49 3.41
4199 10819 2.912025 AGGCCCAACCAAGCAACG 60.912 61.111 0.00 0.00 43.14 4.10
4223 10846 2.759114 CCTTTCCCAGCAGCTCCA 59.241 61.111 0.00 0.00 0.00 3.86
4248 10871 8.810041 GGCCATCTTATTTTCCTTATCAATCAT 58.190 33.333 0.00 0.00 0.00 2.45
4260 10883 6.151817 ACAGAAGAACAGGCCATCTTATTTTC 59.848 38.462 15.81 6.22 36.08 2.29
4321 10944 2.793232 CAGATAAGTAAACGGCGGCTAC 59.207 50.000 13.24 12.08 0.00 3.58
4326 10949 3.486108 CAGCTACAGATAAGTAAACGGCG 59.514 47.826 4.80 4.80 0.00 6.46
4328 10951 6.183360 CCAAACAGCTACAGATAAGTAAACGG 60.183 42.308 0.00 0.00 0.00 4.44
4329 10952 6.672357 GCCAAACAGCTACAGATAAGTAAACG 60.672 42.308 0.00 0.00 0.00 3.60
4330 10953 6.371825 AGCCAAACAGCTACAGATAAGTAAAC 59.628 38.462 0.00 0.00 42.70 2.01
4331 10954 6.472887 AGCCAAACAGCTACAGATAAGTAAA 58.527 36.000 0.00 0.00 42.70 2.01
4332 10955 6.049955 AGCCAAACAGCTACAGATAAGTAA 57.950 37.500 0.00 0.00 42.70 2.24
4334 10957 4.559862 AGCCAAACAGCTACAGATAAGT 57.440 40.909 0.00 0.00 42.70 2.24
4335 10958 4.697352 ACAAGCCAAACAGCTACAGATAAG 59.303 41.667 0.00 0.00 44.11 1.73
4336 10959 4.651778 ACAAGCCAAACAGCTACAGATAA 58.348 39.130 0.00 0.00 44.11 1.75
4354 10979 4.665833 TTCATATCTACGGGGTGACAAG 57.334 45.455 0.00 0.00 0.00 3.16
4360 10985 8.491958 AGAAAAATAGTTTCATATCTACGGGGT 58.508 33.333 2.00 0.00 0.00 4.95
4453 11078 2.590821 AGCAAAACAAGGAGCAGTGAT 58.409 42.857 0.00 0.00 0.00 3.06
4455 11080 2.880890 AGTAGCAAAACAAGGAGCAGTG 59.119 45.455 0.00 0.00 0.00 3.66
4459 11093 1.882623 AGCAGTAGCAAAACAAGGAGC 59.117 47.619 0.00 0.00 45.49 4.70
4462 11096 3.715628 ACAAGCAGTAGCAAAACAAGG 57.284 42.857 0.00 0.00 45.49 3.61
4463 11097 7.698836 AAATAACAAGCAGTAGCAAAACAAG 57.301 32.000 0.00 0.00 45.49 3.16
4495 11129 5.394224 GGATCAGTGTTCAGAACGATTAGGA 60.394 44.000 8.80 1.42 0.00 2.94
4503 11137 3.026630 TGTCGGATCAGTGTTCAGAAC 57.973 47.619 6.32 6.32 0.00 3.01
4519 11153 2.092211 GGCTCGTGACTACATTTTGTCG 59.908 50.000 0.00 0.00 36.10 4.35
4535 11169 1.324736 GCAAGAATTAGACACGGCTCG 59.675 52.381 0.00 0.00 0.00 5.03
4558 11192 7.238486 ACACAAGAATTTTGGGCATGTATTA 57.762 32.000 0.00 0.00 0.00 0.98
4563 11197 4.815308 TGAAACACAAGAATTTTGGGCATG 59.185 37.500 0.00 0.00 0.00 4.06
4592 11226 6.239402 GCAGGGATTTATGCCATATTTTGAGT 60.239 38.462 3.01 0.00 41.29 3.41
4594 11228 5.601729 TGCAGGGATTTATGCCATATTTTGA 59.398 36.000 3.01 0.00 41.29 2.69
4602 11236 4.840716 AATTTTGCAGGGATTTATGCCA 57.159 36.364 3.01 0.00 41.29 4.92
4603 11237 6.581712 TCTTAATTTTGCAGGGATTTATGCC 58.418 36.000 0.00 0.00 41.85 4.40
4607 11241 8.875168 TCCTTTTCTTAATTTTGCAGGGATTTA 58.125 29.630 0.00 0.00 0.00 1.40
4610 11244 6.070596 CCTCCTTTTCTTAATTTTGCAGGGAT 60.071 38.462 0.00 0.00 0.00 3.85
4611 11245 5.245977 CCTCCTTTTCTTAATTTTGCAGGGA 59.754 40.000 0.00 0.00 0.00 4.20
4659 11293 1.234821 GTCAGTCCGGAAAATGTGCA 58.765 50.000 5.23 0.00 0.00 4.57
4660 11294 1.234821 TGTCAGTCCGGAAAATGTGC 58.765 50.000 5.23 4.59 0.00 4.57
4671 11305 5.049129 GCTAATAGATTGGCAATGTCAGTCC 60.049 44.000 19.07 0.75 42.87 3.85
4679 11314 9.547753 CCGTAATATAGCTAATAGATTGGCAAT 57.452 33.333 13.54 13.54 45.35 3.56
4683 11318 9.132923 TCCTCCGTAATATAGCTAATAGATTGG 57.867 37.037 0.00 0.00 0.00 3.16
4688 11323 9.737427 CAACATCCTCCGTAATATAGCTAATAG 57.263 37.037 0.00 0.00 0.00 1.73
4692 11327 6.571731 GCACAACATCCTCCGTAATATAGCTA 60.572 42.308 0.00 0.00 0.00 3.32
4701 11336 1.195442 TGGGCACAACATCCTCCGTA 61.195 55.000 0.00 0.00 0.00 4.02
4702 11337 2.063015 TTGGGCACAACATCCTCCGT 62.063 55.000 0.00 0.00 0.00 4.69
4703 11338 0.680921 ATTGGGCACAACATCCTCCG 60.681 55.000 1.86 0.00 39.87 4.63
4704 11339 1.106285 GATTGGGCACAACATCCTCC 58.894 55.000 1.86 0.00 39.87 4.30
4705 11340 2.134789 AGATTGGGCACAACATCCTC 57.865 50.000 1.86 0.00 39.87 3.71
4706 11341 2.610438 AAGATTGGGCACAACATCCT 57.390 45.000 1.86 0.00 39.87 3.24
4707 11342 3.509575 TGTTAAGATTGGGCACAACATCC 59.490 43.478 1.86 0.00 39.87 3.51
4708 11343 4.782019 TGTTAAGATTGGGCACAACATC 57.218 40.909 1.86 0.00 39.87 3.06
4709 11344 5.543507 TTTGTTAAGATTGGGCACAACAT 57.456 34.783 1.86 0.00 39.87 2.71
4710 11345 5.112686 GTTTTGTTAAGATTGGGCACAACA 58.887 37.500 1.86 0.00 39.87 3.33
4711 11346 5.112686 TGTTTTGTTAAGATTGGGCACAAC 58.887 37.500 1.86 0.00 39.87 3.32
4714 11349 6.687604 ACTATGTTTTGTTAAGATTGGGCAC 58.312 36.000 0.00 0.00 0.00 5.01
4716 11351 6.071616 TGGACTATGTTTTGTTAAGATTGGGC 60.072 38.462 0.00 0.00 0.00 5.36
4717 11352 7.461182 TGGACTATGTTTTGTTAAGATTGGG 57.539 36.000 0.00 0.00 0.00 4.12
4738 11374 9.670442 AGGTATCTTGTCCTATATAAACTTGGA 57.330 33.333 0.00 0.00 31.66 3.53
4750 11386 7.411808 AGTGAAGAACTAGGTATCTTGTCCTA 58.588 38.462 11.11 0.00 37.36 2.94
4805 11441 9.214962 AGCTAACACTAGGAATTAGAGGTTTAT 57.785 33.333 11.88 0.00 34.60 1.40
4842 11483 2.917227 TGCTGACAGGCACTCGGA 60.917 61.111 4.26 0.00 34.60 4.55
4896 11550 1.561076 AGTGCCATGAAGACTATGCCA 59.439 47.619 0.00 0.00 0.00 4.92
4914 11568 0.321298 CCAACCGGACGAATGGAAGT 60.321 55.000 9.46 0.00 34.82 3.01
4916 11570 1.673009 GCCAACCGGACGAATGGAA 60.673 57.895 9.46 0.00 34.82 3.53
4924 11578 0.521735 GTGAAGAATGCCAACCGGAC 59.478 55.000 9.46 0.00 0.00 4.79
4928 11582 0.804989 CTCGGTGAAGAATGCCAACC 59.195 55.000 0.00 0.00 0.00 3.77
4998 11652 2.012051 GCAGTGCCGCCTGTTTACTAT 61.012 52.381 2.85 0.00 34.84 2.12
5084 11740 1.392589 CGCCCCTGCTGAATACATTT 58.607 50.000 0.00 0.00 34.43 2.32
5100 11756 0.389948 TTCTTCTTCCTTCTCGCGCC 60.390 55.000 0.00 0.00 0.00 6.53


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

AutoCloner maintained by Alex Coulton.