Multiple sequence alignment - TraesCS6D01G020500

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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 TraesCS6D01G020500 chr6D 100.000 3307 0 0 1 3307 8139572 8142878 0.000000e+00 6107
1 TraesCS6D01G020500 chr6D 85.560 1759 209 17 562 2287 1540282 1538536 0.000000e+00 1799
2 TraesCS6D01G020500 chr6D 90.831 349 26 6 2964 3307 374103583 374103930 2.320000e-126 462
3 TraesCS6D01G020500 chr6D 91.304 161 11 2 2127 2284 3618463 3618303 2.000000e-52 217
4 TraesCS6D01G020500 chr6D 84.653 202 29 2 1029 1229 20475133 20474933 2.010000e-47 200
5 TraesCS6D01G020500 chr6A 95.769 2978 111 7 13 2978 8608080 8611054 0.000000e+00 4787
6 TraesCS6D01G020500 chr6A 87.963 2484 185 47 262 2667 8387216 8389663 0.000000e+00 2826
7 TraesCS6D01G020500 chr6A 94.052 269 15 1 1 268 8384183 8384451 1.100000e-109 407
8 TraesCS6D01G020500 chr6B 91.501 2365 153 21 1 2340 15105067 15107408 0.000000e+00 3210
9 TraesCS6D01G020500 chr6B 83.770 1756 241 20 563 2290 5715712 5713973 0.000000e+00 1624
10 TraesCS6D01G020500 chr6B 89.880 583 43 9 2395 2975 15107509 15108077 0.000000e+00 736
11 TraesCS6D01G020500 chr5D 84.964 1829 195 43 529 2287 119658763 119660581 0.000000e+00 1781
12 TraesCS6D01G020500 chr5D 93.210 324 20 2 2985 3307 50924722 50925044 2.990000e-130 475
13 TraesCS6D01G020500 chr5D 84.058 207 30 3 1034 1239 515094291 515094087 2.600000e-46 196
14 TraesCS6D01G020500 chr5B 84.961 1802 200 41 529 2287 132587779 132589552 0.000000e+00 1760
15 TraesCS6D01G020500 chr5B 83.333 354 50 8 2302 2652 547941692 547942039 5.330000e-83 318
16 TraesCS6D01G020500 chr5A 84.867 1804 210 32 529 2287 129749073 129750858 0.000000e+00 1760
17 TraesCS6D01G020500 chr7D 85.578 1366 164 15 562 1909 558888744 558887394 0.000000e+00 1400
18 TraesCS6D01G020500 chr7D 92.169 332 23 3 2979 3307 583072593 583072924 1.800000e-127 466
19 TraesCS6D01G020500 chr7D 84.795 342 42 6 1955 2287 558848876 558848536 5.290000e-88 335
20 TraesCS6D01G020500 chr4D 93.827 324 19 1 2985 3307 208556274 208556597 1.380000e-133 486
21 TraesCS6D01G020500 chr4D 93.210 324 21 1 2985 3307 203010750 203010427 2.990000e-130 475
22 TraesCS6D01G020500 chr4D 92.923 325 20 3 2985 3307 19347371 19347048 1.390000e-128 470
23 TraesCS6D01G020500 chr4D 92.424 330 22 3 2980 3307 396743770 396744098 5.000000e-128 468
24 TraesCS6D01G020500 chr4A 91.892 333 23 4 2979 3307 334464331 334464663 2.320000e-126 462
25 TraesCS6D01G020500 chr2D 91.892 333 23 3 2979 3307 336652321 336652653 2.320000e-126 462
26 TraesCS6D01G020500 chr2D 84.236 203 30 2 1034 1235 633259096 633258895 2.600000e-46 196
27 TraesCS6D01G020500 chr3A 78.613 692 126 16 1580 2256 623942449 623943133 3.920000e-119 438
28 TraesCS6D01G020500 chr3A 84.840 343 39 10 2308 2644 598892392 598892057 1.900000e-87 333
29 TraesCS6D01G020500 chr3B 78.657 670 117 19 1580 2233 642094655 642095314 3.950000e-114 422
30 TraesCS6D01G020500 chr1A 85.294 340 41 6 2308 2644 21467768 21467435 3.160000e-90 342
31 TraesCS6D01G020500 chrUn 83.908 348 42 11 2308 2650 71742351 71742689 1.480000e-83 320
32 TraesCS6D01G020500 chrUn 84.000 350 39 14 2308 2650 378829794 378829455 1.480000e-83 320
33 TraesCS6D01G020500 chr3D 83.662 355 43 12 2302 2650 559446853 559447198 1.480000e-83 320
34 TraesCS6D01G020500 chr7A 79.070 473 78 14 908 1371 8381145 8381605 4.150000e-79 305


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 TraesCS6D01G020500 chr6D 8139572 8142878 3306 False 6107.0 6107 100.0000 1 3307 1 chr6D.!!$F1 3306
1 TraesCS6D01G020500 chr6D 1538536 1540282 1746 True 1799.0 1799 85.5600 562 2287 1 chr6D.!!$R1 1725
2 TraesCS6D01G020500 chr6A 8608080 8611054 2974 False 4787.0 4787 95.7690 13 2978 1 chr6A.!!$F1 2965
3 TraesCS6D01G020500 chr6A 8384183 8389663 5480 False 1616.5 2826 91.0075 1 2667 2 chr6A.!!$F2 2666
4 TraesCS6D01G020500 chr6B 15105067 15108077 3010 False 1973.0 3210 90.6905 1 2975 2 chr6B.!!$F1 2974
5 TraesCS6D01G020500 chr6B 5713973 5715712 1739 True 1624.0 1624 83.7700 563 2290 1 chr6B.!!$R1 1727
6 TraesCS6D01G020500 chr5D 119658763 119660581 1818 False 1781.0 1781 84.9640 529 2287 1 chr5D.!!$F2 1758
7 TraesCS6D01G020500 chr5B 132587779 132589552 1773 False 1760.0 1760 84.9610 529 2287 1 chr5B.!!$F1 1758
8 TraesCS6D01G020500 chr5A 129749073 129750858 1785 False 1760.0 1760 84.8670 529 2287 1 chr5A.!!$F1 1758
9 TraesCS6D01G020500 chr7D 558887394 558888744 1350 True 1400.0 1400 85.5780 562 1909 1 chr7D.!!$R2 1347
10 TraesCS6D01G020500 chr3A 623942449 623943133 684 False 438.0 438 78.6130 1580 2256 1 chr3A.!!$F1 676
11 TraesCS6D01G020500 chr3B 642094655 642095314 659 False 422.0 422 78.6570 1580 2233 1 chr3B.!!$F1 653

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
593 3373 1.228228 GATCCATGGCTGGCTGGAA 59.772 57.895 20.21 9.12 44.41 3.53 F
1356 4202 0.617820 ACCGTGCCACCCTCTTAGAT 60.618 55.000 0.00 0.00 0.00 1.98 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2304 5230 1.732259 CCACTCCAGCGTCATGTAAAC 59.268 52.381 0.0 0.0 0.0 2.01 R
3071 6047 0.036765 TCTAATGTCCGCCCACACAC 60.037 55.000 0.0 0.0 0.0 3.82 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
440 3220 1.906966 GTTGCGATGATTTTGCTCGTG 59.093 47.619 0.00 0.00 35.56 4.35
593 3373 1.228228 GATCCATGGCTGGCTGGAA 59.772 57.895 20.21 9.12 44.41 3.53
721 3507 3.627577 TGCATGCGCTAGATATAGATCGA 59.372 43.478 14.09 0.00 39.64 3.59
776 3564 4.484236 GCGGATGTCATCAAACAAATTCA 58.516 39.130 14.72 0.00 31.81 2.57
890 3681 5.510690 GCTTCAATAAATAAATTCCCCCGGG 60.511 44.000 15.80 15.80 0.00 5.73
892 3683 5.390387 TCAATAAATAAATTCCCCCGGGAG 58.610 41.667 26.32 9.81 46.06 4.30
929 3722 2.378038 GCAGCAACCAAATCTCCCATA 58.622 47.619 0.00 0.00 0.00 2.74
1047 3862 1.739562 CGCAGAGGCAGGTGAGAAC 60.740 63.158 0.00 0.00 41.24 3.01
1065 3880 6.704937 GTGAGAACAAGATGATCATGCTCATA 59.295 38.462 14.30 0.00 36.01 2.15
1102 3917 1.183549 GTTCGAGGTAGAGGAGGCAA 58.816 55.000 0.00 0.00 0.00 4.52
1353 4199 1.122632 TCAACCGTGCCACCCTCTTA 61.123 55.000 0.00 0.00 0.00 2.10
1356 4202 0.617820 ACCGTGCCACCCTCTTAGAT 60.618 55.000 0.00 0.00 0.00 1.98
1629 4483 5.603170 AAATTGGTTAGGGCATCATCTTG 57.397 39.130 0.00 0.00 0.00 3.02
1630 4484 3.737559 TTGGTTAGGGCATCATCTTGT 57.262 42.857 0.00 0.00 0.00 3.16
1631 4485 3.003394 TGGTTAGGGCATCATCTTGTG 57.997 47.619 0.00 0.00 0.00 3.33
1751 4611 6.876155 TGTGCCAGCAAATTGTATATGATTT 58.124 32.000 0.00 0.00 0.00 2.17
2380 5306 2.558795 GAGCCGGCATGTATCTCTCTAA 59.441 50.000 31.54 0.00 0.00 2.10
2517 5489 0.313672 TTGTTGCGACCAATGAAGCC 59.686 50.000 0.45 0.00 32.75 4.35
2557 5529 1.066303 GGTGCGAGAGAATGAGTCGAT 59.934 52.381 0.00 0.00 35.70 3.59
2772 5746 4.515404 GGCCGTGTAGGTCATGTC 57.485 61.111 0.00 0.00 46.14 3.06
2915 5891 7.982354 TGGCGAAAAAGGAGAAAATAAAAAGAA 59.018 29.630 0.00 0.00 0.00 2.52
2978 5954 5.641636 TGTGCACGTCTGTTTTGTGATATAT 59.358 36.000 13.13 0.00 35.66 0.86
2979 5955 6.148645 TGTGCACGTCTGTTTTGTGATATATT 59.851 34.615 13.13 0.00 35.66 1.28
2980 5956 7.021196 GTGCACGTCTGTTTTGTGATATATTT 58.979 34.615 0.00 0.00 35.66 1.40
2981 5957 7.537306 GTGCACGTCTGTTTTGTGATATATTTT 59.463 33.333 0.00 0.00 35.66 1.82
2982 5958 8.079203 TGCACGTCTGTTTTGTGATATATTTTT 58.921 29.630 0.00 0.00 35.66 1.94
3000 5976 2.900716 TTTGACGCCGATATCCATCA 57.099 45.000 0.00 0.00 0.00 3.07
3001 5977 2.148916 TTGACGCCGATATCCATCAC 57.851 50.000 0.00 0.00 0.00 3.06
3002 5978 1.036707 TGACGCCGATATCCATCACA 58.963 50.000 0.00 0.00 0.00 3.58
3003 5979 1.269569 TGACGCCGATATCCATCACAC 60.270 52.381 0.00 0.00 0.00 3.82
3004 5980 0.318699 ACGCCGATATCCATCACACG 60.319 55.000 0.00 0.00 0.00 4.49
3005 5981 0.318699 CGCCGATATCCATCACACGT 60.319 55.000 0.00 0.00 0.00 4.49
3006 5982 1.139989 GCCGATATCCATCACACGTG 58.860 55.000 15.48 15.48 0.00 4.49
3007 5983 1.538204 GCCGATATCCATCACACGTGT 60.538 52.381 17.22 17.22 0.00 4.49
3008 5984 2.127251 CCGATATCCATCACACGTGTG 58.873 52.381 37.04 37.04 46.91 3.82
3009 5985 2.127251 CGATATCCATCACACGTGTGG 58.873 52.381 39.88 28.19 45.65 4.17
3010 5986 2.481276 CGATATCCATCACACGTGTGGT 60.481 50.000 39.88 34.78 45.65 4.16
3011 5987 3.243267 CGATATCCATCACACGTGTGGTA 60.243 47.826 39.88 26.81 45.65 3.25
3012 5988 4.558697 CGATATCCATCACACGTGTGGTAT 60.559 45.833 39.88 28.97 45.65 2.73
3013 5989 5.335348 CGATATCCATCACACGTGTGGTATA 60.335 44.000 39.88 29.95 45.65 1.47
3014 5990 4.955811 ATCCATCACACGTGTGGTATAT 57.044 40.909 39.88 28.36 45.65 0.86
3015 5991 4.746535 TCCATCACACGTGTGGTATATT 57.253 40.909 39.88 19.78 45.65 1.28
3016 5992 5.092554 TCCATCACACGTGTGGTATATTT 57.907 39.130 39.88 18.29 45.65 1.40
3017 5993 4.873259 TCCATCACACGTGTGGTATATTTG 59.127 41.667 39.88 24.03 45.65 2.32
3018 5994 4.873259 CCATCACACGTGTGGTATATTTGA 59.127 41.667 39.88 22.75 45.65 2.69
3019 5995 5.220586 CCATCACACGTGTGGTATATTTGAC 60.221 44.000 39.88 0.00 45.65 3.18
3020 5996 4.884247 TCACACGTGTGGTATATTTGACA 58.116 39.130 39.88 19.24 45.65 3.58
3021 5997 5.483811 TCACACGTGTGGTATATTTGACAT 58.516 37.500 39.88 3.56 45.65 3.06
3022 5998 5.350091 TCACACGTGTGGTATATTTGACATG 59.650 40.000 39.88 15.61 45.65 3.21
3023 5999 4.094294 ACACGTGTGGTATATTTGACATGC 59.906 41.667 22.71 0.00 34.19 4.06
3024 6000 3.308595 ACGTGTGGTATATTTGACATGCG 59.691 43.478 0.00 0.00 0.00 4.73
3025 6001 3.617669 GTGTGGTATATTTGACATGCGC 58.382 45.455 0.00 0.00 0.00 6.09
3026 6002 2.616376 TGTGGTATATTTGACATGCGCC 59.384 45.455 4.18 0.00 0.00 6.53
3027 6003 2.031157 GTGGTATATTTGACATGCGCCC 60.031 50.000 4.18 0.00 0.00 6.13
3028 6004 2.226330 GGTATATTTGACATGCGCCCA 58.774 47.619 4.18 0.00 0.00 5.36
3029 6005 2.031157 GGTATATTTGACATGCGCCCAC 60.031 50.000 4.18 0.00 0.00 4.61
3030 6006 1.761449 ATATTTGACATGCGCCCACA 58.239 45.000 4.18 0.00 0.00 4.17
3031 6007 0.808125 TATTTGACATGCGCCCACAC 59.192 50.000 4.18 0.00 0.00 3.82
3032 6008 1.177895 ATTTGACATGCGCCCACACA 61.178 50.000 4.18 0.00 0.00 3.72
3033 6009 1.177895 TTTGACATGCGCCCACACAT 61.178 50.000 4.18 0.00 0.00 3.21
3034 6010 1.585267 TTGACATGCGCCCACACATC 61.585 55.000 4.18 0.00 0.00 3.06
3035 6011 3.099619 GACATGCGCCCACACATCG 62.100 63.158 4.18 0.00 0.00 3.84
3036 6012 3.126879 CATGCGCCCACACATCGT 61.127 61.111 4.18 0.00 0.00 3.73
3037 6013 3.126879 ATGCGCCCACACATCGTG 61.127 61.111 4.18 0.00 45.92 4.35
3049 6025 1.508632 ACATCGTGTGTGGTGTAAGC 58.491 50.000 0.00 0.00 40.28 3.09
3050 6026 1.202592 ACATCGTGTGTGGTGTAAGCA 60.203 47.619 0.00 0.00 45.41 3.91
3065 6041 2.362120 GCAGAAGGCAGCCCACAT 60.362 61.111 8.22 0.00 43.97 3.21
3066 6042 2.707849 GCAGAAGGCAGCCCACATG 61.708 63.158 8.22 3.35 43.97 3.21
3067 6043 2.050350 CAGAAGGCAGCCCACATGG 61.050 63.158 8.22 0.00 37.09 3.66
3079 6055 4.597032 ACATGGGTTGTGTGTGGG 57.403 55.556 0.00 0.00 37.11 4.61
3080 6056 1.832167 ACATGGGTTGTGTGTGGGC 60.832 57.895 0.00 0.00 37.11 5.36
3081 6057 2.597217 ATGGGTTGTGTGTGGGCG 60.597 61.111 0.00 0.00 0.00 6.13
3082 6058 4.885270 TGGGTTGTGTGTGGGCGG 62.885 66.667 0.00 0.00 0.00 6.13
3083 6059 4.572571 GGGTTGTGTGTGGGCGGA 62.573 66.667 0.00 0.00 0.00 5.54
3084 6060 3.284449 GGTTGTGTGTGGGCGGAC 61.284 66.667 0.00 0.00 0.00 4.79
3085 6061 2.515057 GTTGTGTGTGGGCGGACA 60.515 61.111 0.00 0.00 0.00 4.02
3086 6062 1.896660 GTTGTGTGTGGGCGGACAT 60.897 57.895 0.00 0.00 0.00 3.06
3087 6063 1.152860 TTGTGTGTGGGCGGACATT 60.153 52.632 0.00 0.00 0.00 2.71
3088 6064 0.108774 TTGTGTGTGGGCGGACATTA 59.891 50.000 0.00 0.00 0.00 1.90
3089 6065 0.321210 TGTGTGTGGGCGGACATTAG 60.321 55.000 0.00 0.00 0.00 1.73
3090 6066 0.036765 GTGTGTGGGCGGACATTAGA 60.037 55.000 0.00 0.00 0.00 2.10
3091 6067 0.687920 TGTGTGGGCGGACATTAGAA 59.312 50.000 0.00 0.00 0.00 2.10
3092 6068 1.280710 TGTGTGGGCGGACATTAGAAT 59.719 47.619 0.00 0.00 0.00 2.40
3093 6069 2.290641 TGTGTGGGCGGACATTAGAATT 60.291 45.455 0.00 0.00 0.00 2.17
3094 6070 2.354821 GTGTGGGCGGACATTAGAATTC 59.645 50.000 0.00 0.00 0.00 2.17
3095 6071 1.947456 GTGGGCGGACATTAGAATTCC 59.053 52.381 0.65 0.00 0.00 3.01
3096 6072 1.133915 TGGGCGGACATTAGAATTCCC 60.134 52.381 0.65 0.00 0.00 3.97
3097 6073 1.133915 GGGCGGACATTAGAATTCCCA 60.134 52.381 0.65 0.00 32.89 4.37
3098 6074 2.489073 GGGCGGACATTAGAATTCCCAT 60.489 50.000 0.65 0.00 32.89 4.00
3099 6075 3.244770 GGGCGGACATTAGAATTCCCATA 60.245 47.826 0.65 0.00 32.89 2.74
3100 6076 3.751698 GGCGGACATTAGAATTCCCATAC 59.248 47.826 0.65 0.00 0.00 2.39
3101 6077 4.385825 GCGGACATTAGAATTCCCATACA 58.614 43.478 0.65 0.00 0.00 2.29
3102 6078 5.003804 GCGGACATTAGAATTCCCATACAT 58.996 41.667 0.65 0.00 0.00 2.29
3103 6079 5.106555 GCGGACATTAGAATTCCCATACATG 60.107 44.000 0.65 0.00 0.00 3.21
3104 6080 5.997746 CGGACATTAGAATTCCCATACATGT 59.002 40.000 2.69 2.69 0.00 3.21
3105 6081 6.073058 CGGACATTAGAATTCCCATACATGTG 60.073 42.308 9.11 0.00 0.00 3.21
3106 6082 6.207417 GGACATTAGAATTCCCATACATGTGG 59.793 42.308 9.11 1.40 39.05 4.17
3112 6088 3.279116 CCATACATGTGGGCGCGG 61.279 66.667 9.11 0.00 35.55 6.46
3113 6089 3.952675 CATACATGTGGGCGCGGC 61.953 66.667 26.39 26.39 0.00 6.53
3114 6090 4.175337 ATACATGTGGGCGCGGCT 62.175 61.111 32.30 14.00 0.00 5.52
3115 6091 2.802724 ATACATGTGGGCGCGGCTA 61.803 57.895 32.30 25.16 0.00 3.93
3116 6092 2.111999 ATACATGTGGGCGCGGCTAT 62.112 55.000 32.30 20.21 0.00 2.97
3117 6093 2.318519 TACATGTGGGCGCGGCTATT 62.319 55.000 32.30 15.31 0.00 1.73
3118 6094 2.124320 ATGTGGGCGCGGCTATTT 60.124 55.556 32.30 14.93 0.00 1.40
3119 6095 2.186826 ATGTGGGCGCGGCTATTTC 61.187 57.895 32.30 15.22 0.00 2.17
3120 6096 3.937062 GTGGGCGCGGCTATTTCG 61.937 66.667 32.30 0.00 0.00 3.46
3121 6097 4.460683 TGGGCGCGGCTATTTCGT 62.461 61.111 32.30 0.00 0.00 3.85
3122 6098 3.937062 GGGCGCGGCTATTTCGTG 61.937 66.667 32.30 0.00 40.58 4.35
3137 6113 3.522731 GTGCCACACGCCCAACAA 61.523 61.111 0.00 0.00 36.24 2.83
3138 6114 3.215568 TGCCACACGCCCAACAAG 61.216 61.111 0.00 0.00 36.24 3.16
3139 6115 3.216292 GCCACACGCCCAACAAGT 61.216 61.111 0.00 0.00 0.00 3.16
3140 6116 1.894756 GCCACACGCCCAACAAGTA 60.895 57.895 0.00 0.00 0.00 2.24
3141 6117 1.946267 CCACACGCCCAACAAGTAC 59.054 57.895 0.00 0.00 0.00 2.73
3142 6118 0.534203 CCACACGCCCAACAAGTACT 60.534 55.000 0.00 0.00 0.00 2.73
3143 6119 1.270412 CCACACGCCCAACAAGTACTA 60.270 52.381 0.00 0.00 0.00 1.82
3144 6120 1.796459 CACACGCCCAACAAGTACTAC 59.204 52.381 0.00 0.00 0.00 2.73
3145 6121 1.690352 ACACGCCCAACAAGTACTACT 59.310 47.619 0.00 0.00 0.00 2.57
3146 6122 2.288640 ACACGCCCAACAAGTACTACTC 60.289 50.000 0.00 0.00 0.00 2.59
3147 6123 1.965643 ACGCCCAACAAGTACTACTCA 59.034 47.619 0.00 0.00 0.00 3.41
3148 6124 2.565834 ACGCCCAACAAGTACTACTCAT 59.434 45.455 0.00 0.00 0.00 2.90
3149 6125 3.187700 CGCCCAACAAGTACTACTCATC 58.812 50.000 0.00 0.00 0.00 2.92
3150 6126 3.119101 CGCCCAACAAGTACTACTCATCT 60.119 47.826 0.00 0.00 0.00 2.90
3151 6127 4.434520 GCCCAACAAGTACTACTCATCTC 58.565 47.826 0.00 0.00 0.00 2.75
3152 6128 4.680975 GCCCAACAAGTACTACTCATCTCC 60.681 50.000 0.00 0.00 0.00 3.71
3153 6129 4.466370 CCCAACAAGTACTACTCATCTCCA 59.534 45.833 0.00 0.00 0.00 3.86
3154 6130 5.411781 CCAACAAGTACTACTCATCTCCAC 58.588 45.833 0.00 0.00 0.00 4.02
3155 6131 5.411781 CAACAAGTACTACTCATCTCCACC 58.588 45.833 0.00 0.00 0.00 4.61
3156 6132 4.024670 ACAAGTACTACTCATCTCCACCC 58.975 47.826 0.00 0.00 0.00 4.61
3157 6133 3.315880 AGTACTACTCATCTCCACCCC 57.684 52.381 0.00 0.00 0.00 4.95
3158 6134 1.955080 GTACTACTCATCTCCACCCCG 59.045 57.143 0.00 0.00 0.00 5.73
3159 6135 1.043673 ACTACTCATCTCCACCCCGC 61.044 60.000 0.00 0.00 0.00 6.13
3160 6136 2.076622 CTACTCATCTCCACCCCGCG 62.077 65.000 0.00 0.00 0.00 6.46
3161 6137 4.899239 CTCATCTCCACCCCGCGC 62.899 72.222 0.00 0.00 0.00 6.86
3185 6161 2.153039 GCACGAAGCAAAAATGCCC 58.847 52.632 0.00 0.00 44.79 5.36
3186 6162 0.599728 GCACGAAGCAAAAATGCCCA 60.600 50.000 0.00 0.00 44.79 5.36
3187 6163 1.139163 CACGAAGCAAAAATGCCCAC 58.861 50.000 0.00 0.00 34.90 4.61
3188 6164 0.749649 ACGAAGCAAAAATGCCCACA 59.250 45.000 0.00 0.00 34.90 4.17
3189 6165 1.139163 CGAAGCAAAAATGCCCACAC 58.861 50.000 0.00 0.00 34.90 3.82
3190 6166 1.537776 CGAAGCAAAAATGCCCACACA 60.538 47.619 0.00 0.00 34.90 3.72
3191 6167 2.769893 GAAGCAAAAATGCCCACACAT 58.230 42.857 0.00 0.00 34.90 3.21
3192 6168 2.460757 AGCAAAAATGCCCACACATC 57.539 45.000 0.00 0.00 34.90 3.06
3193 6169 1.002315 AGCAAAAATGCCCACACATCC 59.998 47.619 0.00 0.00 34.90 3.51
3194 6170 1.002315 GCAAAAATGCCCACACATCCT 59.998 47.619 0.00 0.00 0.00 3.24
3195 6171 2.690786 CAAAAATGCCCACACATCCTG 58.309 47.619 0.00 0.00 0.00 3.86
3196 6172 1.269012 AAAATGCCCACACATCCTGG 58.731 50.000 0.00 0.00 0.00 4.45
3197 6173 1.259840 AAATGCCCACACATCCTGGC 61.260 55.000 0.00 0.00 44.27 4.85
3200 6176 4.720902 CCCACACATCCTGGCGCA 62.721 66.667 10.83 0.00 0.00 6.09
3201 6177 3.129502 CCACACATCCTGGCGCAG 61.130 66.667 10.83 4.65 0.00 5.18
3215 6191 3.247033 CGCAGCTACGTTAGGTACC 57.753 57.895 2.73 2.73 34.67 3.34
3216 6192 0.248784 CGCAGCTACGTTAGGTACCC 60.249 60.000 8.74 0.00 34.67 3.69
3217 6193 0.248784 GCAGCTACGTTAGGTACCCG 60.249 60.000 8.74 7.96 34.67 5.28
3218 6194 0.248784 CAGCTACGTTAGGTACCCGC 60.249 60.000 8.74 0.00 34.67 6.13
3219 6195 0.680921 AGCTACGTTAGGTACCCGCA 60.681 55.000 8.74 0.00 34.21 5.69
3220 6196 0.386838 GCTACGTTAGGTACCCGCAT 59.613 55.000 8.74 0.00 0.00 4.73
3221 6197 1.866880 GCTACGTTAGGTACCCGCATG 60.867 57.143 8.74 0.56 0.00 4.06
3222 6198 1.677576 CTACGTTAGGTACCCGCATGA 59.322 52.381 8.74 0.00 0.00 3.07
3223 6199 1.117150 ACGTTAGGTACCCGCATGAT 58.883 50.000 8.74 0.00 0.00 2.45
3224 6200 1.202486 ACGTTAGGTACCCGCATGATG 60.202 52.381 8.74 0.00 0.00 3.07
3225 6201 1.067974 CGTTAGGTACCCGCATGATGA 59.932 52.381 8.74 0.00 0.00 2.92
3226 6202 2.480845 GTTAGGTACCCGCATGATGAC 58.519 52.381 8.74 0.00 0.00 3.06
3227 6203 1.783071 TAGGTACCCGCATGATGACA 58.217 50.000 8.74 0.00 0.00 3.58
3228 6204 0.908910 AGGTACCCGCATGATGACAA 59.091 50.000 8.74 0.00 0.00 3.18
3229 6205 1.490490 AGGTACCCGCATGATGACAAT 59.510 47.619 8.74 0.00 0.00 2.71
3230 6206 2.092429 AGGTACCCGCATGATGACAATT 60.092 45.455 8.74 0.00 0.00 2.32
3231 6207 2.687935 GGTACCCGCATGATGACAATTT 59.312 45.455 0.00 0.00 0.00 1.82
3232 6208 3.880490 GGTACCCGCATGATGACAATTTA 59.120 43.478 0.00 0.00 0.00 1.40
3233 6209 4.024048 GGTACCCGCATGATGACAATTTAG 60.024 45.833 0.00 0.00 0.00 1.85
3234 6210 3.620488 ACCCGCATGATGACAATTTAGT 58.380 40.909 0.00 0.00 0.00 2.24
3235 6211 4.016444 ACCCGCATGATGACAATTTAGTT 58.984 39.130 0.00 0.00 0.00 2.24
3236 6212 4.142403 ACCCGCATGATGACAATTTAGTTG 60.142 41.667 0.00 0.00 43.64 3.16
3237 6213 3.792956 CCGCATGATGACAATTTAGTTGC 59.207 43.478 0.00 0.00 41.69 4.17
3238 6214 3.792956 CGCATGATGACAATTTAGTTGCC 59.207 43.478 0.00 0.00 41.69 4.52
3239 6215 4.674885 CGCATGATGACAATTTAGTTGCCA 60.675 41.667 0.00 0.00 41.69 4.92
3240 6216 5.353938 GCATGATGACAATTTAGTTGCCAT 58.646 37.500 0.00 0.00 42.63 4.40
3243 6219 5.841957 GATGACAATTTAGTTGCCATCCT 57.158 39.130 5.68 0.00 46.13 3.24
3244 6220 6.942532 GATGACAATTTAGTTGCCATCCTA 57.057 37.500 5.68 0.00 46.13 2.94
3245 6221 6.949352 ATGACAATTTAGTTGCCATCCTAG 57.051 37.500 0.00 0.00 36.32 3.02
3246 6222 5.815581 TGACAATTTAGTTGCCATCCTAGT 58.184 37.500 0.00 0.00 41.69 2.57
3247 6223 6.245408 TGACAATTTAGTTGCCATCCTAGTT 58.755 36.000 0.00 0.00 41.69 2.24
3248 6224 6.150976 TGACAATTTAGTTGCCATCCTAGTTG 59.849 38.462 0.00 0.00 41.69 3.16
3249 6225 5.418840 ACAATTTAGTTGCCATCCTAGTTGG 59.581 40.000 4.88 4.88 41.69 3.77
3258 6234 4.000331 CCATCCTAGTTGGCAGATGTAG 58.000 50.000 11.33 1.62 35.42 2.74
3259 6235 3.389329 CCATCCTAGTTGGCAGATGTAGT 59.611 47.826 11.33 0.00 35.42 2.73
3260 6236 4.141620 CCATCCTAGTTGGCAGATGTAGTT 60.142 45.833 11.33 0.00 35.42 2.24
3261 6237 5.070446 CCATCCTAGTTGGCAGATGTAGTTA 59.930 44.000 11.33 0.00 35.42 2.24
3262 6238 6.239714 CCATCCTAGTTGGCAGATGTAGTTAT 60.240 42.308 11.33 0.00 35.42 1.89
3263 6239 6.808321 TCCTAGTTGGCAGATGTAGTTATT 57.192 37.500 0.00 0.00 35.26 1.40
3264 6240 6.817184 TCCTAGTTGGCAGATGTAGTTATTC 58.183 40.000 0.00 0.00 35.26 1.75
3265 6241 5.692204 CCTAGTTGGCAGATGTAGTTATTCG 59.308 44.000 0.00 0.00 0.00 3.34
3266 6242 4.442706 AGTTGGCAGATGTAGTTATTCGG 58.557 43.478 0.00 0.00 0.00 4.30
3267 6243 3.469008 TGGCAGATGTAGTTATTCGGG 57.531 47.619 0.00 0.00 0.00 5.14
3268 6244 3.035363 TGGCAGATGTAGTTATTCGGGA 58.965 45.455 0.00 0.00 0.00 5.14
3269 6245 3.646162 TGGCAGATGTAGTTATTCGGGAT 59.354 43.478 0.00 0.00 0.00 3.85
3270 6246 3.997021 GGCAGATGTAGTTATTCGGGATG 59.003 47.826 0.00 0.00 0.00 3.51
3271 6247 3.997021 GCAGATGTAGTTATTCGGGATGG 59.003 47.826 0.00 0.00 0.00 3.51
3272 6248 3.997021 CAGATGTAGTTATTCGGGATGGC 59.003 47.826 0.00 0.00 0.00 4.40
3273 6249 3.646162 AGATGTAGTTATTCGGGATGGCA 59.354 43.478 0.00 0.00 0.00 4.92
3274 6250 3.916359 TGTAGTTATTCGGGATGGCAA 57.084 42.857 0.00 0.00 0.00 4.52
3275 6251 3.804036 TGTAGTTATTCGGGATGGCAAG 58.196 45.455 0.00 0.00 0.00 4.01
3276 6252 3.199071 TGTAGTTATTCGGGATGGCAAGT 59.801 43.478 0.00 0.00 0.00 3.16
3277 6253 2.643551 AGTTATTCGGGATGGCAAGTG 58.356 47.619 0.00 0.00 0.00 3.16
3278 6254 2.026262 AGTTATTCGGGATGGCAAGTGT 60.026 45.455 0.00 0.00 0.00 3.55
3279 6255 3.199071 AGTTATTCGGGATGGCAAGTGTA 59.801 43.478 0.00 0.00 0.00 2.90
3280 6256 2.332063 ATTCGGGATGGCAAGTGTAG 57.668 50.000 0.00 0.00 0.00 2.74
3281 6257 0.981183 TTCGGGATGGCAAGTGTAGT 59.019 50.000 0.00 0.00 0.00 2.73
3282 6258 0.981183 TCGGGATGGCAAGTGTAGTT 59.019 50.000 0.00 0.00 0.00 2.24
3283 6259 1.086696 CGGGATGGCAAGTGTAGTTG 58.913 55.000 0.00 0.00 0.00 3.16
3284 6260 1.610624 CGGGATGGCAAGTGTAGTTGT 60.611 52.381 0.00 0.00 0.00 3.32
3285 6261 2.354303 CGGGATGGCAAGTGTAGTTGTA 60.354 50.000 0.00 0.00 0.00 2.41
3286 6262 3.681593 GGGATGGCAAGTGTAGTTGTAA 58.318 45.455 0.00 0.00 0.00 2.41
3287 6263 4.076394 GGGATGGCAAGTGTAGTTGTAAA 58.924 43.478 0.00 0.00 0.00 2.01
3288 6264 4.521256 GGGATGGCAAGTGTAGTTGTAAAA 59.479 41.667 0.00 0.00 0.00 1.52
3289 6265 5.335661 GGGATGGCAAGTGTAGTTGTAAAAG 60.336 44.000 0.00 0.00 0.00 2.27
3290 6266 4.561735 TGGCAAGTGTAGTTGTAAAAGC 57.438 40.909 1.82 0.00 0.00 3.51
3291 6267 3.948473 TGGCAAGTGTAGTTGTAAAAGCA 59.052 39.130 1.82 0.00 0.00 3.91
3292 6268 4.582656 TGGCAAGTGTAGTTGTAAAAGCAT 59.417 37.500 1.82 0.00 0.00 3.79
3293 6269 4.917415 GGCAAGTGTAGTTGTAAAAGCATG 59.083 41.667 1.82 0.00 0.00 4.06
3294 6270 4.917415 GCAAGTGTAGTTGTAAAAGCATGG 59.083 41.667 0.00 0.00 0.00 3.66
3295 6271 4.766404 AGTGTAGTTGTAAAAGCATGGC 57.234 40.909 0.00 0.00 0.00 4.40
3296 6272 4.141287 AGTGTAGTTGTAAAAGCATGGCA 58.859 39.130 0.00 0.00 0.00 4.92
3297 6273 4.582656 AGTGTAGTTGTAAAAGCATGGCAA 59.417 37.500 0.00 0.00 0.00 4.52
3298 6274 4.679654 GTGTAGTTGTAAAAGCATGGCAAC 59.320 41.667 0.00 0.00 39.52 4.17
3300 6276 4.243007 AGTTGTAAAAGCATGGCAACTC 57.757 40.909 0.00 0.00 44.10 3.01
3301 6277 3.891366 AGTTGTAAAAGCATGGCAACTCT 59.109 39.130 0.00 0.00 44.10 3.24
3302 6278 5.070001 AGTTGTAAAAGCATGGCAACTCTA 58.930 37.500 0.00 0.00 44.10 2.43
3303 6279 5.711976 AGTTGTAAAAGCATGGCAACTCTAT 59.288 36.000 0.00 0.00 44.10 1.98
3304 6280 5.818136 TGTAAAAGCATGGCAACTCTATC 57.182 39.130 0.00 0.00 37.61 2.08
3305 6281 5.500234 TGTAAAAGCATGGCAACTCTATCT 58.500 37.500 0.00 0.00 37.61 1.98
3306 6282 4.978083 AAAAGCATGGCAACTCTATCTG 57.022 40.909 0.00 0.00 37.61 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
236 238 6.036577 TGAAGATGTGAATGTAGTGCAGTA 57.963 37.500 0.00 0.00 0.00 2.74
283 3056 2.832129 TGGTACATCCCAGTCTCTTGAC 59.168 50.000 0.00 0.00 38.23 3.18
440 3220 2.821991 ACATCTGCCGGCTAGTATTC 57.178 50.000 29.70 0.00 0.00 1.75
593 3373 0.035056 CCCATTCTTGCGGAACCTCT 60.035 55.000 0.00 0.00 36.70 3.69
601 3381 1.080569 GTGCAACCCCATTCTTGCG 60.081 57.895 0.00 0.00 44.84 4.85
605 3386 2.035626 CCCGTGCAACCCCATTCT 59.964 61.111 0.00 0.00 0.00 2.40
721 3507 1.167851 CGAGCACACATTGGACCATT 58.832 50.000 0.00 0.00 0.00 3.16
890 3681 4.321966 GATGGGCCGGGCTAGCTC 62.322 72.222 28.80 13.76 0.00 4.09
929 3722 0.107459 GCGGCAGAGGAGAGGAAAAT 60.107 55.000 0.00 0.00 0.00 1.82
1007 3822 0.390492 CGCCATCACTGCTGGATCTA 59.610 55.000 2.92 0.00 35.70 1.98
1047 3862 6.035112 CAGACGATATGAGCATGATCATCTTG 59.965 42.308 28.56 23.44 33.59 3.02
1065 3880 1.323271 ACTCCATGCCGTCAGACGAT 61.323 55.000 24.88 7.95 46.05 3.73
1154 3991 1.735973 GGGATCGGAATGCCTTTGC 59.264 57.895 0.00 0.00 40.14 3.68
1264 4110 3.208884 GAGCCACGGTGTCAGACGT 62.209 63.158 7.45 0.00 45.25 4.34
1353 4199 6.569737 AGGATATCATACCTGGTTGAGATCT 58.430 40.000 26.71 18.16 39.43 2.75
1356 4202 6.143206 TGAAGGATATCATACCTGGTTGAGA 58.857 40.000 3.84 6.72 36.56 3.27
1629 4483 7.712639 ACATATCAGTGAAACATATCAGACCAC 59.287 37.037 0.00 0.00 41.43 4.16
1630 4484 7.712205 CACATATCAGTGAAACATATCAGACCA 59.288 37.037 0.00 0.00 42.05 4.02
1631 4485 7.307632 GCACATATCAGTGAAACATATCAGACC 60.308 40.741 0.00 0.00 42.05 3.85
1678 4535 9.844790 CACACTGATCATAATAAAGCTTCAAAA 57.155 29.630 0.00 0.00 0.00 2.44
1751 4611 3.610040 AGTCTCATGTTTCCGCATGTA 57.390 42.857 6.04 0.00 44.68 2.29
2064 4971 2.743636 TGCTGAAGGAAACTACGGAG 57.256 50.000 0.00 0.00 42.68 4.63
2304 5230 1.732259 CCACTCCAGCGTCATGTAAAC 59.268 52.381 0.00 0.00 0.00 2.01
2380 5306 3.180449 TGGACTTCACCATCCACCT 57.820 52.632 0.00 0.00 40.17 4.00
2517 5489 6.021596 GCACCACGACAAGTTAAATTGATAG 58.978 40.000 21.48 13.48 34.20 2.08
2557 5529 6.769134 TGACTCGTTGTAGATCATCCTTTA 57.231 37.500 0.00 0.00 0.00 1.85
2651 5623 4.705507 ACTACATCACATCACGTAGGACTT 59.294 41.667 0.00 0.00 36.48 3.01
2772 5746 4.882427 TGAGTAGAATCCTAACCTGACTCG 59.118 45.833 0.00 0.00 0.00 4.18
2915 5891 3.321968 GGAACATGTGCCTTCCTTTTTCT 59.678 43.478 16.47 0.00 34.20 2.52
2979 5955 3.311322 GTGATGGATATCGGCGTCAAAAA 59.689 43.478 6.85 0.00 36.04 1.94
2980 5956 2.869801 GTGATGGATATCGGCGTCAAAA 59.130 45.455 6.85 0.00 36.04 2.44
2981 5957 2.159028 TGTGATGGATATCGGCGTCAAA 60.159 45.455 6.85 0.00 36.04 2.69
2982 5958 1.410882 TGTGATGGATATCGGCGTCAA 59.589 47.619 6.85 0.00 36.04 3.18
2983 5959 1.036707 TGTGATGGATATCGGCGTCA 58.963 50.000 6.85 0.00 36.04 4.35
2984 5960 1.419374 GTGTGATGGATATCGGCGTC 58.581 55.000 6.85 0.00 36.04 5.19
2985 5961 0.318699 CGTGTGATGGATATCGGCGT 60.319 55.000 6.85 0.00 36.04 5.68
2986 5962 0.318699 ACGTGTGATGGATATCGGCG 60.319 55.000 0.00 0.00 36.04 6.46
2987 5963 1.139989 CACGTGTGATGGATATCGGC 58.860 55.000 7.58 0.00 36.04 5.54
2988 5964 2.509052 ACACGTGTGATGGATATCGG 57.491 50.000 22.71 0.00 36.04 4.18
2999 5975 5.559227 CATGTCAAATATACCACACGTGTG 58.441 41.667 36.13 36.13 45.23 3.82
3000 5976 4.094294 GCATGTCAAATATACCACACGTGT 59.906 41.667 17.22 17.22 0.00 4.49
3001 5977 4.587306 GCATGTCAAATATACCACACGTG 58.413 43.478 15.48 15.48 0.00 4.49
3002 5978 3.308595 CGCATGTCAAATATACCACACGT 59.691 43.478 0.00 0.00 0.00 4.49
3003 5979 3.844585 GCGCATGTCAAATATACCACACG 60.845 47.826 0.30 0.00 0.00 4.49
3004 5980 3.548014 GGCGCATGTCAAATATACCACAC 60.548 47.826 10.83 0.00 0.00 3.82
3005 5981 2.616376 GGCGCATGTCAAATATACCACA 59.384 45.455 10.83 0.00 0.00 4.17
3006 5982 2.031157 GGGCGCATGTCAAATATACCAC 60.031 50.000 10.83 0.00 0.00 4.16
3007 5983 2.226330 GGGCGCATGTCAAATATACCA 58.774 47.619 10.83 0.00 0.00 3.25
3008 5984 2.031157 GTGGGCGCATGTCAAATATACC 60.031 50.000 10.83 0.00 0.00 2.73
3009 5985 2.616376 TGTGGGCGCATGTCAAATATAC 59.384 45.455 10.83 0.00 0.00 1.47
3010 5986 2.616376 GTGTGGGCGCATGTCAAATATA 59.384 45.455 10.83 0.00 0.00 0.86
3011 5987 1.405105 GTGTGGGCGCATGTCAAATAT 59.595 47.619 10.83 0.00 0.00 1.28
3012 5988 0.808125 GTGTGGGCGCATGTCAAATA 59.192 50.000 10.83 0.00 0.00 1.40
3013 5989 1.177895 TGTGTGGGCGCATGTCAAAT 61.178 50.000 10.83 0.00 0.00 2.32
3014 5990 1.177895 ATGTGTGGGCGCATGTCAAA 61.178 50.000 10.83 0.00 43.45 2.69
3015 5991 1.585267 GATGTGTGGGCGCATGTCAA 61.585 55.000 10.83 0.00 44.91 3.18
3016 5992 2.033911 ATGTGTGGGCGCATGTCA 59.966 55.556 10.83 7.31 43.45 3.58
3017 5993 2.793946 GATGTGTGGGCGCATGTC 59.206 61.111 10.83 1.35 44.91 3.06
3018 5994 3.126879 CGATGTGTGGGCGCATGT 61.127 61.111 10.83 0.00 44.91 3.21
3019 5995 3.126879 ACGATGTGTGGGCGCATG 61.127 61.111 10.83 0.00 44.91 4.06
3030 6006 1.202592 TGCTTACACCACACACGATGT 60.203 47.619 0.00 0.00 44.81 3.06
3031 6007 1.460743 CTGCTTACACCACACACGATG 59.539 52.381 0.00 0.00 0.00 3.84
3032 6008 1.343142 TCTGCTTACACCACACACGAT 59.657 47.619 0.00 0.00 0.00 3.73
3033 6009 0.747852 TCTGCTTACACCACACACGA 59.252 50.000 0.00 0.00 0.00 4.35
3034 6010 1.526887 CTTCTGCTTACACCACACACG 59.473 52.381 0.00 0.00 0.00 4.49
3035 6011 1.873591 CCTTCTGCTTACACCACACAC 59.126 52.381 0.00 0.00 0.00 3.82
3036 6012 1.813862 GCCTTCTGCTTACACCACACA 60.814 52.381 0.00 0.00 36.87 3.72
3037 6013 0.875059 GCCTTCTGCTTACACCACAC 59.125 55.000 0.00 0.00 36.87 3.82
3038 6014 0.472044 TGCCTTCTGCTTACACCACA 59.528 50.000 0.00 0.00 42.00 4.17
3039 6015 1.160137 CTGCCTTCTGCTTACACCAC 58.840 55.000 0.00 0.00 42.00 4.16
3040 6016 0.606401 GCTGCCTTCTGCTTACACCA 60.606 55.000 0.00 0.00 42.00 4.17
3041 6017 1.308783 GGCTGCCTTCTGCTTACACC 61.309 60.000 12.43 0.00 42.00 4.16
3042 6018 1.308783 GGGCTGCCTTCTGCTTACAC 61.309 60.000 19.68 0.00 42.00 2.90
3043 6019 1.002134 GGGCTGCCTTCTGCTTACA 60.002 57.895 19.68 0.00 42.00 2.41
3044 6020 1.002134 TGGGCTGCCTTCTGCTTAC 60.002 57.895 19.68 0.00 42.00 2.34
3045 6021 1.002134 GTGGGCTGCCTTCTGCTTA 60.002 57.895 19.68 0.00 42.00 3.09
3046 6022 2.282745 GTGGGCTGCCTTCTGCTT 60.283 61.111 19.68 0.00 42.00 3.91
3047 6023 2.915504 ATGTGGGCTGCCTTCTGCT 61.916 57.895 19.68 0.00 42.00 4.24
3048 6024 2.362120 ATGTGGGCTGCCTTCTGC 60.362 61.111 19.68 1.35 41.77 4.26
3049 6025 2.050350 CCATGTGGGCTGCCTTCTG 61.050 63.158 19.68 10.79 0.00 3.02
3050 6026 2.357836 CCATGTGGGCTGCCTTCT 59.642 61.111 19.68 0.00 0.00 2.85
3062 6038 1.832167 GCCCACACACAACCCATGT 60.832 57.895 0.00 0.00 45.34 3.21
3063 6039 2.918345 CGCCCACACACAACCCATG 61.918 63.158 0.00 0.00 0.00 3.66
3064 6040 2.597217 CGCCCACACACAACCCAT 60.597 61.111 0.00 0.00 0.00 4.00
3065 6041 4.885270 CCGCCCACACACAACCCA 62.885 66.667 0.00 0.00 0.00 4.51
3066 6042 4.572571 TCCGCCCACACACAACCC 62.573 66.667 0.00 0.00 0.00 4.11
3067 6043 3.284449 GTCCGCCCACACACAACC 61.284 66.667 0.00 0.00 0.00 3.77
3068 6044 1.452145 AATGTCCGCCCACACACAAC 61.452 55.000 0.00 0.00 0.00 3.32
3069 6045 0.108774 TAATGTCCGCCCACACACAA 59.891 50.000 0.00 0.00 0.00 3.33
3070 6046 0.321210 CTAATGTCCGCCCACACACA 60.321 55.000 0.00 0.00 0.00 3.72
3071 6047 0.036765 TCTAATGTCCGCCCACACAC 60.037 55.000 0.00 0.00 0.00 3.82
3072 6048 0.687920 TTCTAATGTCCGCCCACACA 59.312 50.000 0.00 0.00 0.00 3.72
3073 6049 2.038387 ATTCTAATGTCCGCCCACAC 57.962 50.000 0.00 0.00 0.00 3.82
3074 6050 2.639065 GAATTCTAATGTCCGCCCACA 58.361 47.619 0.00 0.00 0.00 4.17
3075 6051 1.947456 GGAATTCTAATGTCCGCCCAC 59.053 52.381 5.23 0.00 0.00 4.61
3076 6052 1.133915 GGGAATTCTAATGTCCGCCCA 60.134 52.381 5.23 0.00 34.47 5.36
3077 6053 1.133915 TGGGAATTCTAATGTCCGCCC 60.134 52.381 5.23 0.00 31.73 6.13
3078 6054 2.341846 TGGGAATTCTAATGTCCGCC 57.658 50.000 5.23 0.00 31.73 6.13
3079 6055 4.385825 TGTATGGGAATTCTAATGTCCGC 58.614 43.478 5.23 0.00 31.73 5.54
3080 6056 5.997746 ACATGTATGGGAATTCTAATGTCCG 59.002 40.000 5.23 0.00 31.73 4.79
3081 6057 6.207417 CCACATGTATGGGAATTCTAATGTCC 59.793 42.308 5.23 0.00 35.95 4.02
3082 6058 7.206981 CCACATGTATGGGAATTCTAATGTC 57.793 40.000 5.23 0.00 35.95 3.06
3095 6071 3.279116 CCGCGCCCACATGTATGG 61.279 66.667 0.00 3.34 39.71 2.74
3096 6072 2.987282 TAGCCGCGCCCACATGTATG 62.987 60.000 0.00 0.00 0.00 2.39
3097 6073 2.111999 ATAGCCGCGCCCACATGTAT 62.112 55.000 0.00 0.00 0.00 2.29
3098 6074 2.318519 AATAGCCGCGCCCACATGTA 62.319 55.000 0.00 0.00 0.00 2.29
3099 6075 3.697439 AATAGCCGCGCCCACATGT 62.697 57.895 0.00 0.00 0.00 3.21
3100 6076 2.392613 GAAATAGCCGCGCCCACATG 62.393 60.000 0.00 0.00 0.00 3.21
3101 6077 2.124320 AAATAGCCGCGCCCACAT 60.124 55.556 0.00 0.00 0.00 3.21
3102 6078 2.822255 GAAATAGCCGCGCCCACA 60.822 61.111 0.00 0.00 0.00 4.17
3103 6079 3.937062 CGAAATAGCCGCGCCCAC 61.937 66.667 0.00 0.00 0.00 4.61
3104 6080 4.460683 ACGAAATAGCCGCGCCCA 62.461 61.111 0.00 0.00 0.00 5.36
3105 6081 3.937062 CACGAAATAGCCGCGCCC 61.937 66.667 0.00 0.00 0.00 6.13
3106 6082 4.591317 GCACGAAATAGCCGCGCC 62.591 66.667 0.00 0.00 0.00 6.53
3107 6083 4.591317 GGCACGAAATAGCCGCGC 62.591 66.667 0.00 0.00 41.70 6.86
3121 6097 2.610532 TACTTGTTGGGCGTGTGGCA 62.611 55.000 0.00 0.00 46.16 4.92
3122 6098 1.894756 TACTTGTTGGGCGTGTGGC 60.895 57.895 0.00 0.00 42.51 5.01
3123 6099 0.534203 AGTACTTGTTGGGCGTGTGG 60.534 55.000 0.00 0.00 0.00 4.17
3124 6100 1.796459 GTAGTACTTGTTGGGCGTGTG 59.204 52.381 0.00 0.00 0.00 3.82
3125 6101 1.690352 AGTAGTACTTGTTGGGCGTGT 59.310 47.619 0.00 0.00 0.00 4.49
3126 6102 2.288579 TGAGTAGTACTTGTTGGGCGTG 60.289 50.000 0.00 0.00 0.00 5.34
3127 6103 1.965643 TGAGTAGTACTTGTTGGGCGT 59.034 47.619 0.00 0.00 0.00 5.68
3128 6104 2.736144 TGAGTAGTACTTGTTGGGCG 57.264 50.000 0.00 0.00 0.00 6.13
3129 6105 4.434520 GAGATGAGTAGTACTTGTTGGGC 58.565 47.826 0.00 0.00 0.00 5.36
3130 6106 4.466370 TGGAGATGAGTAGTACTTGTTGGG 59.534 45.833 0.00 0.00 0.00 4.12
3131 6107 5.411781 GTGGAGATGAGTAGTACTTGTTGG 58.588 45.833 0.00 0.00 0.00 3.77
3132 6108 5.411781 GGTGGAGATGAGTAGTACTTGTTG 58.588 45.833 0.00 0.00 0.00 3.33
3133 6109 4.466726 GGGTGGAGATGAGTAGTACTTGTT 59.533 45.833 0.00 0.00 0.00 2.83
3134 6110 4.024670 GGGTGGAGATGAGTAGTACTTGT 58.975 47.826 0.00 0.00 0.00 3.16
3135 6111 3.385111 GGGGTGGAGATGAGTAGTACTTG 59.615 52.174 0.00 0.00 0.00 3.16
3136 6112 3.644335 GGGGTGGAGATGAGTAGTACTT 58.356 50.000 0.00 0.00 0.00 2.24
3137 6113 2.423088 CGGGGTGGAGATGAGTAGTACT 60.423 54.545 1.37 1.37 0.00 2.73
3138 6114 1.955080 CGGGGTGGAGATGAGTAGTAC 59.045 57.143 0.00 0.00 0.00 2.73
3139 6115 1.753141 GCGGGGTGGAGATGAGTAGTA 60.753 57.143 0.00 0.00 0.00 1.82
3140 6116 1.043673 GCGGGGTGGAGATGAGTAGT 61.044 60.000 0.00 0.00 0.00 2.73
3141 6117 1.742768 GCGGGGTGGAGATGAGTAG 59.257 63.158 0.00 0.00 0.00 2.57
3142 6118 2.125326 CGCGGGGTGGAGATGAGTA 61.125 63.158 0.00 0.00 0.00 2.59
3143 6119 3.461773 CGCGGGGTGGAGATGAGT 61.462 66.667 0.00 0.00 0.00 3.41
3144 6120 4.899239 GCGCGGGGTGGAGATGAG 62.899 72.222 8.83 0.00 0.00 2.90
3162 6138 1.522258 CATTTTTGCTTCGTGCCACAC 59.478 47.619 0.00 0.00 42.00 3.82
3163 6139 1.850377 CATTTTTGCTTCGTGCCACA 58.150 45.000 0.00 0.00 42.00 4.17
3164 6140 0.508213 GCATTTTTGCTTCGTGCCAC 59.492 50.000 1.30 0.00 42.00 5.01
3165 6141 2.897780 GCATTTTTGCTTCGTGCCA 58.102 47.368 1.30 0.00 42.00 4.92
3167 6143 0.599728 TGGGCATTTTTGCTTCGTGC 60.600 50.000 0.00 0.00 43.25 5.34
3168 6144 1.139163 GTGGGCATTTTTGCTTCGTG 58.861 50.000 0.00 0.00 34.73 4.35
3169 6145 0.749649 TGTGGGCATTTTTGCTTCGT 59.250 45.000 0.00 0.00 34.73 3.85
3170 6146 1.139163 GTGTGGGCATTTTTGCTTCG 58.861 50.000 0.00 0.00 34.73 3.79
3171 6147 2.237393 TGTGTGGGCATTTTTGCTTC 57.763 45.000 0.00 0.00 34.73 3.86
3172 6148 2.550639 GGATGTGTGGGCATTTTTGCTT 60.551 45.455 0.00 0.00 34.73 3.91
3173 6149 1.002315 GGATGTGTGGGCATTTTTGCT 59.998 47.619 0.00 0.00 34.73 3.91
3174 6150 1.002315 AGGATGTGTGGGCATTTTTGC 59.998 47.619 0.00 0.00 0.00 3.68
3175 6151 2.613474 CCAGGATGTGTGGGCATTTTTG 60.613 50.000 0.00 0.00 0.00 2.44
3176 6152 1.624813 CCAGGATGTGTGGGCATTTTT 59.375 47.619 0.00 0.00 0.00 1.94
3177 6153 1.269012 CCAGGATGTGTGGGCATTTT 58.731 50.000 0.00 0.00 0.00 1.82
3178 6154 1.259840 GCCAGGATGTGTGGGCATTT 61.260 55.000 0.00 0.00 45.70 2.32
3179 6155 1.683365 GCCAGGATGTGTGGGCATT 60.683 57.895 0.00 0.00 45.70 3.56
3180 6156 2.043652 GCCAGGATGTGTGGGCAT 60.044 61.111 0.00 0.00 45.70 4.40
3181 6157 4.720902 CGCCAGGATGTGTGGGCA 62.721 66.667 0.00 0.00 46.75 5.36
3183 6159 4.720902 TGCGCCAGGATGTGTGGG 62.721 66.667 4.18 0.00 35.39 4.61
3184 6160 3.129502 CTGCGCCAGGATGTGTGG 61.130 66.667 4.18 0.00 38.21 4.17
3185 6161 2.857575 TAGCTGCGCCAGGATGTGTG 62.858 60.000 4.18 0.00 31.21 3.82
3186 6162 2.659063 TAGCTGCGCCAGGATGTGT 61.659 57.895 4.18 0.00 31.21 3.72
3187 6163 2.176273 GTAGCTGCGCCAGGATGTG 61.176 63.158 4.18 0.00 31.21 3.21
3188 6164 2.187946 GTAGCTGCGCCAGGATGT 59.812 61.111 4.18 0.00 31.21 3.06
3189 6165 2.963854 CGTAGCTGCGCCAGGATG 60.964 66.667 12.24 0.00 31.21 3.51
3190 6166 1.672854 TAACGTAGCTGCGCCAGGAT 61.673 55.000 24.60 0.00 34.88 3.24
3191 6167 2.279502 CTAACGTAGCTGCGCCAGGA 62.280 60.000 24.60 4.16 34.88 3.86
3192 6168 1.878522 CTAACGTAGCTGCGCCAGG 60.879 63.158 24.60 8.26 34.88 4.45
3193 6169 1.878522 CCTAACGTAGCTGCGCCAG 60.879 63.158 24.60 19.44 34.88 4.85
3194 6170 1.314534 TACCTAACGTAGCTGCGCCA 61.315 55.000 24.60 11.00 34.88 5.69
3195 6171 0.869028 GTACCTAACGTAGCTGCGCC 60.869 60.000 24.60 0.00 34.88 6.53
3196 6172 0.869028 GGTACCTAACGTAGCTGCGC 60.869 60.000 24.60 0.00 41.39 6.09
3197 6173 3.247033 GGTACCTAACGTAGCTGCG 57.753 57.895 23.12 23.12 41.39 5.18
3210 6186 9.735275 CAACTAAATTGTCATCATGCGGGTACC 62.735 44.444 2.17 2.17 38.29 3.34
3211 6187 4.574828 ACTAAATTGTCATCATGCGGGTAC 59.425 41.667 0.00 0.00 0.00 3.34
3212 6188 4.776349 ACTAAATTGTCATCATGCGGGTA 58.224 39.130 0.00 0.00 0.00 3.69
3213 6189 3.620488 ACTAAATTGTCATCATGCGGGT 58.380 40.909 0.00 0.00 0.00 5.28
3214 6190 4.353737 CAACTAAATTGTCATCATGCGGG 58.646 43.478 0.00 0.00 33.20 6.13
3215 6191 3.792956 GCAACTAAATTGTCATCATGCGG 59.207 43.478 0.00 0.00 40.77 5.69
3216 6192 3.792956 GGCAACTAAATTGTCATCATGCG 59.207 43.478 0.00 0.00 42.89 4.73
3224 6200 6.404734 CCAACTAGGATGGCAACTAAATTGTC 60.405 42.308 16.43 0.00 41.07 3.18
3225 6201 5.418840 CCAACTAGGATGGCAACTAAATTGT 59.581 40.000 16.43 6.19 39.24 2.71
3226 6202 5.894807 CCAACTAGGATGGCAACTAAATTG 58.105 41.667 4.12 5.47 41.22 2.32
3237 6213 3.389329 ACTACATCTGCCAACTAGGATGG 59.611 47.826 11.46 11.46 41.22 3.51
3238 6214 4.679373 ACTACATCTGCCAACTAGGATG 57.321 45.455 0.00 0.00 41.22 3.51
3239 6215 7.380423 AATAACTACATCTGCCAACTAGGAT 57.620 36.000 0.00 0.00 41.22 3.24
3240 6216 6.461092 CGAATAACTACATCTGCCAACTAGGA 60.461 42.308 0.00 0.00 41.22 2.94
3241 6217 5.692204 CGAATAACTACATCTGCCAACTAGG 59.308 44.000 0.00 0.00 41.84 3.02
3242 6218 5.692204 CCGAATAACTACATCTGCCAACTAG 59.308 44.000 0.00 0.00 0.00 2.57
3243 6219 5.452776 CCCGAATAACTACATCTGCCAACTA 60.453 44.000 0.00 0.00 0.00 2.24
3244 6220 4.442706 CCGAATAACTACATCTGCCAACT 58.557 43.478 0.00 0.00 0.00 3.16
3245 6221 3.560068 CCCGAATAACTACATCTGCCAAC 59.440 47.826 0.00 0.00 0.00 3.77
3246 6222 3.452990 TCCCGAATAACTACATCTGCCAA 59.547 43.478 0.00 0.00 0.00 4.52
3247 6223 3.035363 TCCCGAATAACTACATCTGCCA 58.965 45.455 0.00 0.00 0.00 4.92
3248 6224 3.746045 TCCCGAATAACTACATCTGCC 57.254 47.619 0.00 0.00 0.00 4.85
3249 6225 3.997021 CCATCCCGAATAACTACATCTGC 59.003 47.826 0.00 0.00 0.00 4.26
3250 6226 3.997021 GCCATCCCGAATAACTACATCTG 59.003 47.826 0.00 0.00 0.00 2.90
3251 6227 3.646162 TGCCATCCCGAATAACTACATCT 59.354 43.478 0.00 0.00 0.00 2.90
3252 6228 4.002906 TGCCATCCCGAATAACTACATC 57.997 45.455 0.00 0.00 0.00 3.06
3253 6229 4.141482 ACTTGCCATCCCGAATAACTACAT 60.141 41.667 0.00 0.00 0.00 2.29
3254 6230 3.199071 ACTTGCCATCCCGAATAACTACA 59.801 43.478 0.00 0.00 0.00 2.74
3255 6231 3.560068 CACTTGCCATCCCGAATAACTAC 59.440 47.826 0.00 0.00 0.00 2.73
3256 6232 3.199071 ACACTTGCCATCCCGAATAACTA 59.801 43.478 0.00 0.00 0.00 2.24
3257 6233 2.026262 ACACTTGCCATCCCGAATAACT 60.026 45.455 0.00 0.00 0.00 2.24
3258 6234 2.365582 ACACTTGCCATCCCGAATAAC 58.634 47.619 0.00 0.00 0.00 1.89
3259 6235 2.799126 ACACTTGCCATCCCGAATAA 57.201 45.000 0.00 0.00 0.00 1.40
3260 6236 2.769663 ACTACACTTGCCATCCCGAATA 59.230 45.455 0.00 0.00 0.00 1.75
3261 6237 1.559682 ACTACACTTGCCATCCCGAAT 59.440 47.619 0.00 0.00 0.00 3.34
3262 6238 0.981183 ACTACACTTGCCATCCCGAA 59.019 50.000 0.00 0.00 0.00 4.30
3263 6239 0.981183 AACTACACTTGCCATCCCGA 59.019 50.000 0.00 0.00 0.00 5.14
3264 6240 1.086696 CAACTACACTTGCCATCCCG 58.913 55.000 0.00 0.00 0.00 5.14
3265 6241 2.200373 ACAACTACACTTGCCATCCC 57.800 50.000 0.00 0.00 0.00 3.85
3266 6242 5.699097 TTTTACAACTACACTTGCCATCC 57.301 39.130 0.00 0.00 0.00 3.51
3267 6243 5.154222 GCTTTTACAACTACACTTGCCATC 58.846 41.667 0.00 0.00 0.00 3.51
3268 6244 4.582656 TGCTTTTACAACTACACTTGCCAT 59.417 37.500 0.00 0.00 0.00 4.40
3269 6245 3.948473 TGCTTTTACAACTACACTTGCCA 59.052 39.130 0.00 0.00 0.00 4.92
3270 6246 4.561735 TGCTTTTACAACTACACTTGCC 57.438 40.909 0.00 0.00 0.00 4.52
3271 6247 4.917415 CCATGCTTTTACAACTACACTTGC 59.083 41.667 0.00 0.00 0.00 4.01
3272 6248 4.917415 GCCATGCTTTTACAACTACACTTG 59.083 41.667 0.00 0.00 0.00 3.16
3273 6249 4.582656 TGCCATGCTTTTACAACTACACTT 59.417 37.500 0.00 0.00 0.00 3.16
3274 6250 4.141287 TGCCATGCTTTTACAACTACACT 58.859 39.130 0.00 0.00 0.00 3.55
3275 6251 4.497473 TGCCATGCTTTTACAACTACAC 57.503 40.909 0.00 0.00 0.00 2.90
3276 6252 4.582656 AGTTGCCATGCTTTTACAACTACA 59.417 37.500 4.97 0.00 46.66 2.74
3277 6253 5.121221 AGTTGCCATGCTTTTACAACTAC 57.879 39.130 4.97 0.00 46.66 2.73
3280 6256 4.243007 AGAGTTGCCATGCTTTTACAAC 57.757 40.909 0.00 0.00 40.65 3.32
3281 6257 5.945784 AGATAGAGTTGCCATGCTTTTACAA 59.054 36.000 0.00 0.00 0.00 2.41
3282 6258 5.355071 CAGATAGAGTTGCCATGCTTTTACA 59.645 40.000 0.00 0.00 0.00 2.41
3283 6259 5.814783 CAGATAGAGTTGCCATGCTTTTAC 58.185 41.667 0.00 0.00 0.00 2.01
3285 6261 4.978083 CAGATAGAGTTGCCATGCTTTT 57.022 40.909 0.00 0.00 0.00 2.27


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

AutoCloner maintained by Alex Coulton.