Multiple sequence alignment - TraesCS3A01G346000

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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 TraesCS3A01G346000 chr3A 100.000 3554 0 0 1 3554 595336713 595340266 0.000000e+00 6564.0
1 TraesCS3A01G346000 chr3A 100.000 49 0 0 3049 3097 595339712 595339760 1.360000e-14 91.6
2 TraesCS3A01G346000 chr3A 100.000 49 0 0 3000 3048 595339761 595339809 1.360000e-14 91.6
3 TraesCS3A01G346000 chr3D 89.571 3097 158 77 24 3051 452953073 452956073 0.000000e+00 3777.0
4 TraesCS3A01G346000 chr3B 87.138 2900 185 88 223 3048 595266954 595269739 0.000000e+00 3116.0
5 TraesCS3A01G346000 chr3B 91.481 270 19 3 3286 3554 595269963 595270229 5.610000e-98 368.0
6 TraesCS3A01G346000 chr3B 90.171 234 15 7 3049 3277 595269691 595269921 7.460000e-77 298.0


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 TraesCS3A01G346000 chr3A 595336713 595340266 3553 False 2249.066667 6564 100.000000 1 3554 3 chr3A.!!$F1 3553
1 TraesCS3A01G346000 chr3D 452953073 452956073 3000 False 3777.000000 3777 89.571000 24 3051 1 chr3D.!!$F1 3027
2 TraesCS3A01G346000 chr3B 595266954 595270229 3275 False 1260.666667 3116 89.596667 223 3554 3 chr3B.!!$F1 3331


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
676 697 0.391927 TACCCGCACCTTCAATTCCG 60.392 55.0 0.0 0.0 0.0 4.3 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2564 2669 0.036306 ACCGGCCTCGTTTCATCTTT 59.964 50.0 0.0 0.0 33.95 2.52 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
21 22 4.280789 AGGATATAGAGGGGAACACACA 57.719 45.455 0.00 0.00 0.00 3.72
22 23 4.832492 AGGATATAGAGGGGAACACACAT 58.168 43.478 0.00 0.00 0.00 3.21
39 40 0.810031 CATCCCTAAAGTCGCCACCG 60.810 60.000 0.00 0.00 0.00 4.94
61 62 1.966451 CGCAAAGGAGGGACACCAC 60.966 63.158 0.00 0.00 43.22 4.16
79 80 2.689034 AGGCAGCCCTACCCAGAC 60.689 66.667 8.22 0.00 40.58 3.51
144 145 1.596934 GGTGGTGGCGAGATGAAGA 59.403 57.895 0.00 0.00 0.00 2.87
147 148 1.248101 TGGTGGCGAGATGAAGACGA 61.248 55.000 0.00 0.00 0.00 4.20
189 190 0.784778 CGGCGCGATCTAGGATTTTC 59.215 55.000 12.10 0.00 0.00 2.29
199 200 1.206371 CTAGGATTTTCCCCGTGTCGT 59.794 52.381 0.00 0.00 37.19 4.34
213 214 1.043116 TGTCGTGAGGGAGGGCTATG 61.043 60.000 0.00 0.00 0.00 2.23
240 241 3.770040 GGTGCGGGGCATTTTCCC 61.770 66.667 0.00 0.00 41.91 3.97
274 275 2.095919 GTGGCACCACGTCAACTTATTC 60.096 50.000 6.29 0.00 37.19 1.75
284 285 7.879160 ACCACGTCAACTTATTCTGGTTAATAA 59.121 33.333 0.00 0.00 32.00 1.40
319 320 5.761234 AGTTAGTTTGTTCCGAGCAAATACA 59.239 36.000 12.79 0.60 38.00 2.29
346 347 1.470632 CGACATGTCAAGGCCTCTCTC 60.471 57.143 24.93 0.00 0.00 3.20
354 355 2.023984 TCAAGGCCTCTCTCATACCAGA 60.024 50.000 5.23 0.00 0.00 3.86
357 358 2.111384 GGCCTCTCTCATACCAGAACA 58.889 52.381 0.00 0.00 0.00 3.18
364 365 5.019470 TCTCTCATACCAGAACAGTGACAT 58.981 41.667 0.00 0.00 0.00 3.06
387 388 5.084519 TGTCTCCTGTACATAGTGGACTTT 58.915 41.667 0.00 0.00 30.83 2.66
432 433 1.418637 AGCAGAAGGTAAACCGAACCA 59.581 47.619 0.00 0.00 42.08 3.67
463 465 1.510480 GCTCTGTCCACAGTGTTGCC 61.510 60.000 6.61 0.00 44.12 4.52
517 519 1.378382 CACACGCATCAATCCCCCA 60.378 57.895 0.00 0.00 0.00 4.96
555 569 7.060864 GCATAATCTTACTCGAATCTAACGACC 59.939 40.741 0.00 0.00 35.88 4.79
612 628 3.304911 TCTCCATCACCTAGTCTCCTG 57.695 52.381 0.00 0.00 0.00 3.86
614 630 1.930204 TCCATCACCTAGTCTCCTGGA 59.070 52.381 0.00 0.00 0.00 3.86
676 697 0.391927 TACCCGCACCTTCAATTCCG 60.392 55.000 0.00 0.00 0.00 4.30
677 698 1.376683 CCCGCACCTTCAATTCCGA 60.377 57.895 0.00 0.00 0.00 4.55
678 699 1.369091 CCCGCACCTTCAATTCCGAG 61.369 60.000 0.00 0.00 0.00 4.63
679 700 1.425428 CGCACCTTCAATTCCGAGC 59.575 57.895 0.00 0.00 0.00 5.03
680 701 1.803289 GCACCTTCAATTCCGAGCC 59.197 57.895 0.00 0.00 0.00 4.70
732 753 0.521735 GCGTAAAACCTCTGCCAAGG 59.478 55.000 0.04 0.04 42.55 3.61
737 758 2.296945 AAACCTCTGCCAAGGCCACA 62.297 55.000 5.01 0.00 40.34 4.17
738 759 2.360852 CCTCTGCCAAGGCCACAG 60.361 66.667 5.01 7.16 41.09 3.66
739 760 2.360852 CTCTGCCAAGGCCACAGG 60.361 66.667 5.01 4.35 41.09 4.00
785 806 4.516135 CACATGCGAGCTGCTGCG 62.516 66.667 7.01 11.85 46.63 5.18
818 839 2.072973 TCCCCCATCTATTTCCCCATG 58.927 52.381 0.00 0.00 0.00 3.66
834 856 2.563261 CATGGATGGATGAGGTGAGG 57.437 55.000 0.00 0.00 0.00 3.86
889 914 1.583054 GACCCCTCGCAATCATACAC 58.417 55.000 0.00 0.00 0.00 2.90
924 950 3.749064 TGACGAGTGAGCGAGGCC 61.749 66.667 0.00 0.00 34.83 5.19
928 954 4.828925 GAGTGAGCGAGGCCAGGC 62.829 72.222 5.01 1.26 0.00 4.85
1039 1068 4.792648 GTCTGCGCGCTGCTCTCT 62.793 66.667 33.29 0.00 46.63 3.10
1040 1069 4.488992 TCTGCGCGCTGCTCTCTC 62.489 66.667 33.29 0.00 46.63 3.20
1041 1070 4.495336 CTGCGCGCTGCTCTCTCT 62.495 66.667 33.29 0.00 46.63 3.10
1042 1071 4.488992 TGCGCGCTGCTCTCTCTC 62.489 66.667 33.29 0.00 46.63 3.20
1043 1072 4.191950 GCGCGCTGCTCTCTCTCT 62.192 66.667 26.67 0.00 41.73 3.10
1044 1073 2.024588 CGCGCTGCTCTCTCTCTC 59.975 66.667 5.56 0.00 0.00 3.20
1045 1074 2.472059 CGCGCTGCTCTCTCTCTCT 61.472 63.158 5.56 0.00 0.00 3.10
1046 1075 1.356624 GCGCTGCTCTCTCTCTCTC 59.643 63.158 0.00 0.00 0.00 3.20
1047 1076 1.097547 GCGCTGCTCTCTCTCTCTCT 61.098 60.000 0.00 0.00 0.00 3.10
1048 1077 0.940126 CGCTGCTCTCTCTCTCTCTC 59.060 60.000 0.00 0.00 0.00 3.20
1049 1078 1.473965 CGCTGCTCTCTCTCTCTCTCT 60.474 57.143 0.00 0.00 0.00 3.10
1050 1079 2.216898 GCTGCTCTCTCTCTCTCTCTC 58.783 57.143 0.00 0.00 0.00 3.20
1051 1080 2.158842 GCTGCTCTCTCTCTCTCTCTCT 60.159 54.545 0.00 0.00 0.00 3.10
1066 1095 5.272402 TCTCTCTCTCTCTCTCTCTCTTCA 58.728 45.833 0.00 0.00 0.00 3.02
1067 1096 5.721480 TCTCTCTCTCTCTCTCTCTCTTCAA 59.279 44.000 0.00 0.00 0.00 2.69
1187 1220 3.334054 GGGGACTCAGGGCTGCTT 61.334 66.667 0.00 0.00 0.00 3.91
1188 1221 2.045536 GGGACTCAGGGCTGCTTG 60.046 66.667 0.00 0.00 0.00 4.01
1189 1222 2.749441 GGACTCAGGGCTGCTTGC 60.749 66.667 0.00 0.00 41.94 4.01
1209 1242 1.185618 TACAAGAGGCAGTGGCGACT 61.186 55.000 11.51 11.85 42.47 4.18
1223 1256 4.459089 GACTGGTGAGGCCGAGGC 62.459 72.222 5.37 5.37 41.21 4.70
1319 1372 1.835494 GGGGCTTAAAAGGGAGTGAC 58.165 55.000 0.00 0.00 0.00 3.67
1433 1486 3.414700 CCTGTGCTTCGTCGTGGC 61.415 66.667 0.00 0.00 0.00 5.01
1434 1487 3.414700 CTGTGCTTCGTCGTGGCC 61.415 66.667 0.00 0.00 0.00 5.36
1446 1499 4.131088 GTGGCCGTCGTCTCCCTC 62.131 72.222 0.00 0.00 0.00 4.30
1508 1561 0.905337 AGTGGGAGGAGTACTGTGGC 60.905 60.000 0.00 0.00 0.00 5.01
1511 1564 1.982938 GGAGGAGTACTGTGGCGGT 60.983 63.158 0.00 0.00 0.00 5.68
1545 1598 1.222115 ACGAACTCAGCCTGCGTTTC 61.222 55.000 1.03 0.00 0.00 2.78
1565 1618 1.623973 GCTCCTACGTGCGGTTGTTC 61.624 60.000 0.00 0.00 0.00 3.18
1588 1641 2.284952 CCTCGTTTTGGCAAGCTTTTTG 59.715 45.455 0.00 0.00 0.00 2.44
1614 1673 3.609175 CGTTTCCATTGATCGTGTGCTTT 60.609 43.478 0.00 0.00 0.00 3.51
1624 1683 1.658409 GTGTGCTTTGCGCTGGTTC 60.658 57.895 9.73 0.00 40.03 3.62
1664 1731 2.844281 GCATCTCTTCTGCGTGTTTTC 58.156 47.619 0.00 0.00 0.00 2.29
1683 1750 2.722094 TCCATGGAGGTTTATGTGTGC 58.278 47.619 11.44 0.00 39.02 4.57
1695 1762 5.149977 GTTTATGTGTGCTCTGCTTCTTTC 58.850 41.667 0.00 0.00 0.00 2.62
1732 1799 2.606725 CTGCTGATGCTAGTTCTTTCCG 59.393 50.000 0.00 0.00 40.48 4.30
1755 1822 4.142600 GCCTGCAATAAAACTGGAGTGTAG 60.143 45.833 0.00 0.00 30.80 2.74
1768 1835 5.363292 ACTGGAGTGTAGATAGAGTCTCGTA 59.637 44.000 0.00 0.00 38.42 3.43
1769 1836 5.599732 TGGAGTGTAGATAGAGTCTCGTAC 58.400 45.833 0.00 0.00 38.42 3.67
1770 1837 5.363292 TGGAGTGTAGATAGAGTCTCGTACT 59.637 44.000 0.00 0.00 42.80 2.73
1784 1851 0.240145 CGTACTCTCGTTGTGCCAGA 59.760 55.000 0.00 0.00 0.00 3.86
1795 1862 1.737838 TGTGCCAGATTAAAGCCGAG 58.262 50.000 0.00 0.00 0.00 4.63
1801 1868 3.873910 CCAGATTAAAGCCGAGGAGAAA 58.126 45.455 0.00 0.00 0.00 2.52
1802 1869 3.623510 CCAGATTAAAGCCGAGGAGAAAC 59.376 47.826 0.00 0.00 0.00 2.78
1803 1870 4.253685 CAGATTAAAGCCGAGGAGAAACA 58.746 43.478 0.00 0.00 0.00 2.83
1804 1871 4.331168 CAGATTAAAGCCGAGGAGAAACAG 59.669 45.833 0.00 0.00 0.00 3.16
1808 1875 2.171341 AGCCGAGGAGAAACAGAAAC 57.829 50.000 0.00 0.00 0.00 2.78
1823 1894 6.780457 AACAGAAACAATATGGATCCTTGG 57.220 37.500 14.23 4.01 0.00 3.61
1842 1913 8.339344 TCCTTGGTATACATTGCATTATCATG 57.661 34.615 5.01 0.00 0.00 3.07
1875 1946 2.291153 ACTTTAGACCATGCATGCCTGT 60.291 45.455 21.69 13.75 0.00 4.00
1903 1974 4.330074 GTGAAATCACTCTGTCATAACCCG 59.670 45.833 6.30 0.00 43.25 5.28
1947 2018 2.158957 ACTTTTGGAGACGAACAGCAGA 60.159 45.455 0.00 0.00 31.96 4.26
2004 2075 4.168760 ACATTTGCTAAAATTCGCAGCTC 58.831 39.130 7.23 0.00 37.46 4.09
2042 2115 1.176527 CCGGGGTTTCACGTAGACTA 58.823 55.000 0.00 0.00 0.00 2.59
2134 2217 4.132441 ATGCCCCATGCGCAAACG 62.132 61.111 17.11 5.94 45.60 3.60
2136 2219 4.481112 GCCCCATGCGCAAACGAG 62.481 66.667 17.11 3.52 43.93 4.18
2163 2247 2.677003 CCGCCAAAGTAGGTGCACG 61.677 63.158 11.45 0.00 37.85 5.34
2239 2323 3.785859 GGCCATCTCCGACAGCCA 61.786 66.667 0.00 0.00 43.32 4.75
2324 2429 5.009010 GCACCATCTCATCCGTTGATTAATT 59.991 40.000 0.00 0.00 32.72 1.40
2343 2448 2.234300 TCGTTTCACCTTCACAGGAC 57.766 50.000 0.00 0.00 44.19 3.85
2350 2455 1.052124 ACCTTCACAGGACCGGTCAA 61.052 55.000 34.40 19.08 44.19 3.18
2575 2680 0.789383 GGCGACGCAAAGATGAAACG 60.789 55.000 23.09 0.00 0.00 3.60
2584 2689 0.673644 AAGATGAAACGAGGCCGGTG 60.674 55.000 1.90 0.00 40.78 4.94
2674 2779 1.729484 CGCAAGCTGACGAACGAGA 60.729 57.895 2.59 0.00 0.00 4.04
2675 2780 1.669158 CGCAAGCTGACGAACGAGAG 61.669 60.000 2.59 0.00 0.00 3.20
2677 2782 0.664466 CAAGCTGACGAACGAGAGCA 60.664 55.000 18.14 5.05 33.67 4.26
2678 2783 0.664767 AAGCTGACGAACGAGAGCAC 60.665 55.000 18.14 0.00 33.67 4.40
2689 2803 0.947244 CGAGAGCACCCATTATTGCC 59.053 55.000 0.00 0.00 39.75 4.52
2969 3095 0.108186 TGCACGTGTCCAGATCATCC 60.108 55.000 18.38 0.00 0.00 3.51
2970 3096 0.108186 GCACGTGTCCAGATCATCCA 60.108 55.000 18.38 0.00 0.00 3.41
2971 3097 1.473965 GCACGTGTCCAGATCATCCAT 60.474 52.381 18.38 0.00 0.00 3.41
2972 3098 2.477825 CACGTGTCCAGATCATCCATC 58.522 52.381 7.58 0.00 0.00 3.51
2995 3121 9.717892 CATCTGTTGATATGATTCTCTGTTTTG 57.282 33.333 0.00 0.00 0.00 2.44
3006 3146 5.479716 TTCTCTGTTTTGTTTCTTCCGTC 57.520 39.130 0.00 0.00 0.00 4.79
3010 3150 5.054477 TCTGTTTTGTTTCTTCCGTCTAGG 58.946 41.667 0.00 0.00 42.97 3.02
3045 3185 0.321346 TGCGCTGGTGATCTTCTTGA 59.679 50.000 9.73 0.00 0.00 3.02
3048 3188 1.743996 GCTGGTGATCTTCTTGACCC 58.256 55.000 0.00 0.00 0.00 4.46
3049 3189 1.280421 GCTGGTGATCTTCTTGACCCT 59.720 52.381 0.00 0.00 0.00 4.34
3051 3191 3.604582 CTGGTGATCTTCTTGACCCTTC 58.395 50.000 0.00 0.00 0.00 3.46
3052 3192 2.305927 TGGTGATCTTCTTGACCCTTCC 59.694 50.000 0.00 0.00 0.00 3.46
3053 3193 2.622436 GTGATCTTCTTGACCCTTCCG 58.378 52.381 0.00 0.00 0.00 4.30
3054 3194 2.028020 GTGATCTTCTTGACCCTTCCGT 60.028 50.000 0.00 0.00 0.00 4.69
3055 3195 2.233922 TGATCTTCTTGACCCTTCCGTC 59.766 50.000 0.00 0.00 0.00 4.79
3056 3196 2.011122 TCTTCTTGACCCTTCCGTCT 57.989 50.000 0.00 0.00 33.70 4.18
3057 3197 3.165087 TCTTCTTGACCCTTCCGTCTA 57.835 47.619 0.00 0.00 33.70 2.59
3058 3198 3.090037 TCTTCTTGACCCTTCCGTCTAG 58.910 50.000 0.00 0.00 37.08 2.43
3059 3199 1.848652 TCTTGACCCTTCCGTCTAGG 58.151 55.000 0.00 0.00 36.60 3.02
3072 3212 5.630415 TCCGTCTAGGATTTTGATCCATT 57.370 39.130 8.06 0.00 45.98 3.16
3073 3213 6.001449 TCCGTCTAGGATTTTGATCCATTT 57.999 37.500 8.06 0.00 45.98 2.32
3074 3214 6.423182 TCCGTCTAGGATTTTGATCCATTTT 58.577 36.000 8.06 0.00 45.98 1.82
3075 3215 6.889722 TCCGTCTAGGATTTTGATCCATTTTT 59.110 34.615 8.06 0.00 45.98 1.94
3076 3216 6.974622 CCGTCTAGGATTTTGATCCATTTTTG 59.025 38.462 8.06 0.00 45.00 2.44
3077 3217 6.473455 CGTCTAGGATTTTGATCCATTTTTGC 59.527 38.462 8.06 0.00 43.14 3.68
3078 3218 6.473455 GTCTAGGATTTTGATCCATTTTTGCG 59.527 38.462 8.06 0.00 43.14 4.85
3079 3219 3.934579 AGGATTTTGATCCATTTTTGCGC 59.065 39.130 0.00 0.00 43.14 6.09
3080 3220 3.934579 GGATTTTGATCCATTTTTGCGCT 59.065 39.130 9.73 0.00 40.43 5.92
3081 3221 4.201744 GGATTTTGATCCATTTTTGCGCTG 60.202 41.667 9.73 0.00 40.43 5.18
3082 3222 2.367030 TTGATCCATTTTTGCGCTGG 57.633 45.000 9.73 7.76 0.00 4.85
3083 3223 1.255882 TGATCCATTTTTGCGCTGGT 58.744 45.000 9.73 0.00 0.00 4.00
3084 3224 1.067706 TGATCCATTTTTGCGCTGGTG 60.068 47.619 9.73 0.22 0.00 4.17
3085 3225 1.202114 GATCCATTTTTGCGCTGGTGA 59.798 47.619 9.73 0.00 0.00 4.02
3086 3226 1.255882 TCCATTTTTGCGCTGGTGAT 58.744 45.000 9.73 0.00 0.00 3.06
3087 3227 1.202114 TCCATTTTTGCGCTGGTGATC 59.798 47.619 9.73 0.00 0.00 2.92
3088 3228 1.203052 CCATTTTTGCGCTGGTGATCT 59.797 47.619 9.73 0.00 0.00 2.75
3089 3229 2.353011 CCATTTTTGCGCTGGTGATCTT 60.353 45.455 9.73 0.00 0.00 2.40
3090 3230 2.704725 TTTTTGCGCTGGTGATCTTC 57.295 45.000 9.73 0.00 0.00 2.87
3091 3231 1.896220 TTTTGCGCTGGTGATCTTCT 58.104 45.000 9.73 0.00 0.00 2.85
3092 3232 1.896220 TTTGCGCTGGTGATCTTCTT 58.104 45.000 9.73 0.00 0.00 2.52
3093 3233 1.159285 TTGCGCTGGTGATCTTCTTG 58.841 50.000 9.73 0.00 0.00 3.02
3115 3255 1.721487 GCATGGCGTGTGATGTACC 59.279 57.895 8.75 0.00 0.00 3.34
3116 3256 2.005995 CATGGCGTGTGATGTACCG 58.994 57.895 0.00 0.00 0.00 4.02
3117 3257 0.739462 CATGGCGTGTGATGTACCGT 60.739 55.000 0.00 0.00 0.00 4.83
3119 3259 0.602060 TGGCGTGTGATGTACCGTAA 59.398 50.000 0.00 0.00 0.00 3.18
3120 3260 0.994263 GGCGTGTGATGTACCGTAAC 59.006 55.000 0.00 0.00 0.00 2.50
3121 3261 1.669502 GGCGTGTGATGTACCGTAACA 60.670 52.381 0.00 0.00 0.00 2.41
3122 3262 1.387756 GCGTGTGATGTACCGTAACAC 59.612 52.381 6.09 6.09 38.18 3.32
3123 3263 2.923605 GCGTGTGATGTACCGTAACACT 60.924 50.000 11.93 0.00 39.14 3.55
3124 3264 2.912967 CGTGTGATGTACCGTAACACTC 59.087 50.000 11.93 6.68 39.14 3.51
3125 3265 3.248266 GTGTGATGTACCGTAACACTCC 58.752 50.000 8.16 0.00 38.44 3.85
3126 3266 2.892215 TGTGATGTACCGTAACACTCCA 59.108 45.455 0.00 0.00 33.41 3.86
3127 3267 3.248266 GTGATGTACCGTAACACTCCAC 58.752 50.000 0.00 0.00 30.75 4.02
3128 3268 2.095110 TGATGTACCGTAACACTCCACG 60.095 50.000 0.00 0.00 37.89 4.94
3250 3390 4.568956 ACGATGTGTCAAATGTGATCTGA 58.431 39.130 0.00 0.00 35.80 3.27
3254 3394 4.959723 TGTGTCAAATGTGATCTGAGTGA 58.040 39.130 0.00 0.00 35.80 3.41
3277 3420 9.062524 GTGATCTGTGATCTATGACTACTAACT 57.937 37.037 8.71 0.00 0.00 2.24
3282 3425 9.938670 CTGTGATCTATGACTACTAACTAACAC 57.061 37.037 0.00 0.00 0.00 3.32
3283 3426 9.457436 TGTGATCTATGACTACTAACTAACACA 57.543 33.333 0.00 0.00 0.00 3.72
3311 3487 5.808042 ATCACTGCTCATGTGTGTAATTC 57.192 39.130 0.00 0.00 36.83 2.17
3324 3500 5.048364 TGTGTGTAATTCTGTGTATTTGGGC 60.048 40.000 0.00 0.00 0.00 5.36
3348 3524 3.243873 TGAATTATCGCAGGTAGAGGCAG 60.244 47.826 0.00 0.00 0.00 4.85
3429 3606 2.662700 GTAAGCAGGTCGATGTATCCG 58.337 52.381 0.00 0.00 0.00 4.18
3434 3611 0.111832 AGGTCGATGTATCCGCCCTA 59.888 55.000 0.00 0.00 0.00 3.53
3449 3626 2.417107 CGCCCTATTGATGCAAAGCAAA 60.417 45.455 0.00 0.00 43.62 3.68
3450 3627 3.598299 GCCCTATTGATGCAAAGCAAAA 58.402 40.909 0.00 0.00 43.62 2.44
3451 3628 3.619929 GCCCTATTGATGCAAAGCAAAAG 59.380 43.478 0.00 0.00 43.62 2.27
3460 3637 6.392354 TGATGCAAAGCAAAAGAATCTTAGG 58.608 36.000 0.00 0.00 43.62 2.69
3471 3648 7.926018 GCAAAAGAATCTTAGGAAAAGTGGAAA 59.074 33.333 0.00 0.00 0.00 3.13
3472 3649 9.468532 CAAAAGAATCTTAGGAAAAGTGGAAAG 57.531 33.333 0.00 0.00 0.00 2.62
3475 3652 5.966742 ATCTTAGGAAAAGTGGAAAGCAC 57.033 39.130 0.00 0.00 0.00 4.40
3482 3659 3.801114 AAAGTGGAAAGCACAGGTTTC 57.199 42.857 11.94 11.94 45.60 2.78
3487 3664 3.476552 TGGAAAGCACAGGTTTCTACTG 58.523 45.455 17.73 0.00 45.62 2.74
3500 3677 5.593095 AGGTTTCTACTGTGAAAAGGGTTTC 59.407 40.000 6.88 0.00 43.04 2.78
3522 3699 7.421530 TTCACAACCTCTTAAAAATCTCTCG 57.578 36.000 0.00 0.00 0.00 4.04
3526 3703 4.508662 ACCTCTTAAAAATCTCTCGGCTG 58.491 43.478 0.00 0.00 0.00 4.85
3544 3721 4.139038 GGCTGTAAAACCCTTGTCTTACA 58.861 43.478 0.00 0.00 34.14 2.41
3545 3722 4.023450 GGCTGTAAAACCCTTGTCTTACAC 60.023 45.833 0.00 0.00 32.38 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.280789 TGTGTGTTCCCCTCTATATCCT 57.719 45.455 0.00 0.00 0.00 3.24
3 4 3.910627 GGGATGTGTGTTCCCCTCTATAT 59.089 47.826 0.00 0.00 46.20 0.86
4 5 3.314693 GGGATGTGTGTTCCCCTCTATA 58.685 50.000 0.00 0.00 46.20 1.31
5 6 2.127708 GGGATGTGTGTTCCCCTCTAT 58.872 52.381 0.00 0.00 46.20 1.98
6 7 1.580059 GGGATGTGTGTTCCCCTCTA 58.420 55.000 0.00 0.00 46.20 2.43
7 8 2.387952 GGGATGTGTGTTCCCCTCT 58.612 57.895 0.00 0.00 46.20 3.69
12 13 3.000727 CGACTTTAGGGATGTGTGTTCC 58.999 50.000 0.00 0.00 0.00 3.62
13 14 2.415512 GCGACTTTAGGGATGTGTGTTC 59.584 50.000 0.00 0.00 0.00 3.18
14 15 2.423577 GCGACTTTAGGGATGTGTGTT 58.576 47.619 0.00 0.00 0.00 3.32
15 16 1.338769 GGCGACTTTAGGGATGTGTGT 60.339 52.381 0.00 0.00 0.00 3.72
16 17 1.338674 TGGCGACTTTAGGGATGTGTG 60.339 52.381 0.00 0.00 0.00 3.82
17 18 0.981183 TGGCGACTTTAGGGATGTGT 59.019 50.000 0.00 0.00 0.00 3.72
18 19 1.369625 GTGGCGACTTTAGGGATGTG 58.630 55.000 0.00 0.00 0.00 3.21
19 20 0.252197 GGTGGCGACTTTAGGGATGT 59.748 55.000 0.00 0.00 0.00 3.06
20 21 0.810031 CGGTGGCGACTTTAGGGATG 60.810 60.000 0.00 0.00 0.00 3.51
21 22 1.262640 ACGGTGGCGACTTTAGGGAT 61.263 55.000 0.00 0.00 0.00 3.85
22 23 1.880819 GACGGTGGCGACTTTAGGGA 61.881 60.000 0.00 0.00 0.00 4.20
39 40 3.119096 GTCCCTCCTTTGCGCGAC 61.119 66.667 12.10 0.88 0.00 5.19
61 62 2.688666 TCTGGGTAGGGCTGCCTG 60.689 66.667 19.68 0.98 35.54 4.85
144 145 0.325390 CTACCTCCCCTTCCCTTCGT 60.325 60.000 0.00 0.00 0.00 3.85
147 148 0.621862 CTGCTACCTCCCCTTCCCTT 60.622 60.000 0.00 0.00 0.00 3.95
176 177 3.729966 GACACGGGGAAAATCCTAGATC 58.270 50.000 0.00 0.00 36.57 2.75
189 190 3.760035 CTCCCTCACGACACGGGG 61.760 72.222 0.00 0.00 38.55 5.73
199 200 2.844362 CCGCATAGCCCTCCCTCA 60.844 66.667 0.00 0.00 0.00 3.86
221 222 3.770040 GAAAATGCCCCGCACCCC 61.770 66.667 0.00 0.00 43.04 4.95
222 223 3.770040 GGAAAATGCCCCGCACCC 61.770 66.667 0.00 0.00 43.04 4.61
223 224 3.770040 GGGAAAATGCCCCGCACC 61.770 66.667 0.00 0.00 43.04 5.01
274 275 9.490663 CTAACTTCTCGCAAAATTATTAACCAG 57.509 33.333 0.00 0.00 0.00 4.00
284 285 6.206498 GGAACAAACTAACTTCTCGCAAAAT 58.794 36.000 0.00 0.00 0.00 1.82
319 320 4.079253 AGGCCTTGACATGTCGTATTTTT 58.921 39.130 20.54 1.42 0.00 1.94
346 347 4.825422 AGACATGTCACTGTTCTGGTATG 58.175 43.478 27.02 0.00 0.00 2.39
354 355 3.641436 TGTACAGGAGACATGTCACTGTT 59.359 43.478 38.13 28.12 42.95 3.16
357 358 5.126222 CACTATGTACAGGAGACATGTCACT 59.874 44.000 27.02 20.53 38.03 3.41
364 365 4.317530 AGTCCACTATGTACAGGAGACA 57.682 45.455 13.15 0.00 0.00 3.41
612 628 1.200716 TGTCACAATCTACCGTCGTCC 59.799 52.381 0.00 0.00 0.00 4.79
614 630 1.884579 ACTGTCACAATCTACCGTCGT 59.115 47.619 0.00 0.00 0.00 4.34
740 761 2.676471 CCCGGAAAAGCCTGTGGG 60.676 66.667 0.73 0.00 0.00 4.61
741 762 2.676471 CCCCGGAAAAGCCTGTGG 60.676 66.667 0.73 0.00 0.00 4.17
742 763 1.675641 CTCCCCGGAAAAGCCTGTG 60.676 63.158 0.73 0.00 0.00 3.66
743 764 2.757077 CTCCCCGGAAAAGCCTGT 59.243 61.111 0.73 0.00 0.00 4.00
744 765 2.751837 GCTCCCCGGAAAAGCCTG 60.752 66.667 0.73 0.00 0.00 4.85
791 812 4.892291 TAGATGGGGGACGGGGGC 62.892 72.222 0.00 0.00 0.00 5.80
818 839 1.694696 GTACCCTCACCTCATCCATCC 59.305 57.143 0.00 0.00 0.00 3.51
889 914 1.816835 TCACCTCAGTACGCCTAGTTG 59.183 52.381 0.00 0.00 0.00 3.16
924 950 4.907034 CGTCGTCCGATCGGCCTG 62.907 72.222 29.62 19.79 39.56 4.85
955 981 1.140252 AGTCTACCAACACCTTTGCGT 59.860 47.619 0.00 0.00 0.00 5.24
1034 1063 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1035 1064 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1036 1065 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1037 1066 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1038 1067 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1039 1068 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1040 1069 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1041 1070 5.136068 AGAGAGAGAGAGAGAGAGAGAGA 57.864 47.826 0.00 0.00 0.00 3.10
1042 1071 5.362143 TGAAGAGAGAGAGAGAGAGAGAGAG 59.638 48.000 0.00 0.00 0.00 3.20
1043 1072 5.272402 TGAAGAGAGAGAGAGAGAGAGAGA 58.728 45.833 0.00 0.00 0.00 3.10
1044 1073 5.604758 TGAAGAGAGAGAGAGAGAGAGAG 57.395 47.826 0.00 0.00 0.00 3.20
1045 1074 5.627735 GCTTGAAGAGAGAGAGAGAGAGAGA 60.628 48.000 0.00 0.00 0.00 3.10
1046 1075 4.574013 GCTTGAAGAGAGAGAGAGAGAGAG 59.426 50.000 0.00 0.00 0.00 3.20
1047 1076 4.517285 GCTTGAAGAGAGAGAGAGAGAGA 58.483 47.826 0.00 0.00 0.00 3.10
1048 1077 3.629398 GGCTTGAAGAGAGAGAGAGAGAG 59.371 52.174 0.00 0.00 0.00 3.20
1049 1078 3.620488 GGCTTGAAGAGAGAGAGAGAGA 58.380 50.000 0.00 0.00 0.00 3.10
1050 1079 2.689983 GGGCTTGAAGAGAGAGAGAGAG 59.310 54.545 0.00 0.00 0.00 3.20
1051 1080 2.042297 TGGGCTTGAAGAGAGAGAGAGA 59.958 50.000 0.00 0.00 0.00 3.10
1066 1095 2.189676 TGGAATTGAATGCATGGGCTT 58.810 42.857 0.00 0.00 41.91 4.35
1067 1096 1.868713 TGGAATTGAATGCATGGGCT 58.131 45.000 0.00 0.00 41.91 5.19
1141 1174 1.213013 CTGTAGCGGCGTCAGAACT 59.787 57.895 17.71 5.55 0.00 3.01
1143 1176 1.080772 CACTGTAGCGGCGTCAGAA 60.081 57.895 25.22 4.16 33.93 3.02
1171 1204 2.045536 CAAGCAGCCCTGAGTCCC 60.046 66.667 0.00 0.00 0.00 4.46
1172 1205 2.749441 GCAAGCAGCCCTGAGTCC 60.749 66.667 0.00 0.00 37.23 3.85
1181 1214 0.957395 TGCCTCTTGTAGCAAGCAGC 60.957 55.000 12.67 12.67 46.19 5.25
1182 1215 1.085091 CTGCCTCTTGTAGCAAGCAG 58.915 55.000 4.16 5.79 41.43 4.24
1183 1216 0.397941 ACTGCCTCTTGTAGCAAGCA 59.602 50.000 4.16 0.12 38.82 3.91
1184 1217 0.801251 CACTGCCTCTTGTAGCAAGC 59.199 55.000 4.16 0.00 38.82 4.01
1185 1218 1.446907 CCACTGCCTCTTGTAGCAAG 58.553 55.000 2.71 2.71 38.82 4.01
1186 1219 0.606401 GCCACTGCCTCTTGTAGCAA 60.606 55.000 0.00 0.00 38.82 3.91
1187 1220 1.003355 GCCACTGCCTCTTGTAGCA 60.003 57.895 0.00 0.00 37.46 3.49
1188 1221 2.103042 CGCCACTGCCTCTTGTAGC 61.103 63.158 0.00 0.00 0.00 3.58
1189 1222 0.737715 GTCGCCACTGCCTCTTGTAG 60.738 60.000 0.00 0.00 0.00 2.74
1319 1372 1.970114 CCTGCAGCAGAACCACCAG 60.970 63.158 24.90 0.00 32.44 4.00
1433 1486 2.752238 AGCAGAGGGAGACGACGG 60.752 66.667 0.00 0.00 0.00 4.79
1434 1487 2.487428 CAGCAGAGGGAGACGACG 59.513 66.667 0.00 0.00 0.00 5.12
1435 1488 2.183046 GCAGCAGAGGGAGACGAC 59.817 66.667 0.00 0.00 0.00 4.34
1484 1537 0.616111 AGTACTCCTCCCACTGCAGG 60.616 60.000 19.93 6.95 0.00 4.85
1565 1618 1.463553 AAGCTTGCCAAAACGAGGGG 61.464 55.000 0.00 0.00 0.00 4.79
1588 1641 2.482721 ACACGATCAATGGAAACGAACC 59.517 45.455 6.98 0.00 33.40 3.62
1660 1727 4.021544 GCACACATAAACCTCCATGGAAAA 60.022 41.667 17.00 0.00 39.71 2.29
1664 1731 2.684881 GAGCACACATAAACCTCCATGG 59.315 50.000 4.97 4.97 42.93 3.66
1683 1750 0.248843 AGGGCGAGAAAGAAGCAGAG 59.751 55.000 0.00 0.00 0.00 3.35
1695 1762 1.141449 CAGCAGAAGAGAGGGCGAG 59.859 63.158 0.00 0.00 0.00 5.03
1732 1799 2.558359 ACACTCCAGTTTTATTGCAGGC 59.442 45.455 0.00 0.00 0.00 4.85
1769 1836 3.181516 GCTTTAATCTGGCACAACGAGAG 60.182 47.826 0.00 0.00 38.70 3.20
1770 1837 2.742053 GCTTTAATCTGGCACAACGAGA 59.258 45.455 0.00 0.00 38.70 4.04
1771 1838 2.159517 GGCTTTAATCTGGCACAACGAG 60.160 50.000 0.00 0.00 38.70 4.18
1772 1839 1.810151 GGCTTTAATCTGGCACAACGA 59.190 47.619 0.00 0.00 38.70 3.85
1773 1840 1.465689 CGGCTTTAATCTGGCACAACG 60.466 52.381 0.00 0.00 38.70 4.10
1774 1841 1.810151 TCGGCTTTAATCTGGCACAAC 59.190 47.619 0.00 0.00 38.70 3.32
1775 1842 2.083774 CTCGGCTTTAATCTGGCACAA 58.916 47.619 0.00 0.00 38.70 3.33
1784 1851 4.553330 TCTGTTTCTCCTCGGCTTTAAT 57.447 40.909 0.00 0.00 0.00 1.40
1795 1862 6.830838 AGGATCCATATTGTTTCTGTTTCTCC 59.169 38.462 15.82 0.00 0.00 3.71
1801 1868 5.831103 ACCAAGGATCCATATTGTTTCTGT 58.169 37.500 15.82 0.35 0.00 3.41
1802 1869 9.003658 GTATACCAAGGATCCATATTGTTTCTG 57.996 37.037 15.82 0.00 0.00 3.02
1803 1870 8.723365 TGTATACCAAGGATCCATATTGTTTCT 58.277 33.333 15.82 0.00 0.00 2.52
1804 1871 8.918202 TGTATACCAAGGATCCATATTGTTTC 57.082 34.615 15.82 0.00 0.00 2.78
1808 1875 7.394077 TGCAATGTATACCAAGGATCCATATTG 59.606 37.037 15.82 11.95 0.00 1.90
1823 1894 8.702438 GCCAAAACATGATAATGCAATGTATAC 58.298 33.333 0.00 0.00 0.00 1.47
1842 1913 6.612306 CATGGTCTAAAGTCTAAGCCAAAAC 58.388 40.000 0.00 0.00 0.00 2.43
1920 1991 2.808543 GTTCGTCTCCAAAAGTCTGCAT 59.191 45.455 0.00 0.00 0.00 3.96
1927 1998 2.483876 TCTGCTGTTCGTCTCCAAAAG 58.516 47.619 0.00 0.00 0.00 2.27
1947 2018 2.277084 GCACCTGATTACCGAACGATT 58.723 47.619 0.00 0.00 0.00 3.34
2004 2075 1.216941 GGAACGTACGGTGTGTGTGG 61.217 60.000 21.06 0.00 0.00 4.17
2027 2100 3.729716 GCATCGATAGTCTACGTGAAACC 59.270 47.826 0.00 0.00 37.40 3.27
2029 2102 4.895224 AGCATCGATAGTCTACGTGAAA 57.105 40.909 0.00 0.00 37.40 2.69
2042 2115 2.310327 TACGCAGGCCAAGCATCGAT 62.310 55.000 18.67 0.00 0.00 3.59
2134 2217 3.254024 TTTGGCGGGACCTCTGCTC 62.254 63.158 0.00 0.00 46.69 4.26
2136 2219 2.180159 TACTTTGGCGGGACCTCTGC 62.180 60.000 0.00 0.00 46.78 4.26
2324 2429 1.202604 GGTCCTGTGAAGGTGAAACGA 60.203 52.381 0.00 0.00 38.12 3.85
2560 2665 0.517316 GCCTCGTTTCATCTTTGCGT 59.483 50.000 0.00 0.00 0.00 5.24
2561 2666 0.179189 GGCCTCGTTTCATCTTTGCG 60.179 55.000 0.00 0.00 0.00 4.85
2562 2667 0.179189 CGGCCTCGTTTCATCTTTGC 60.179 55.000 0.00 0.00 0.00 3.68
2563 2668 0.447801 CCGGCCTCGTTTCATCTTTG 59.552 55.000 0.00 0.00 33.95 2.77
2564 2669 0.036306 ACCGGCCTCGTTTCATCTTT 59.964 50.000 0.00 0.00 33.95 2.52
2566 2671 1.079127 CACCGGCCTCGTTTCATCT 60.079 57.895 0.00 0.00 33.95 2.90
2569 2674 2.029964 GACACCGGCCTCGTTTCA 59.970 61.111 0.00 0.00 33.95 2.69
2570 2675 3.110178 CGACACCGGCCTCGTTTC 61.110 66.667 0.00 0.00 33.95 2.78
2669 2774 1.668419 GCAATAATGGGTGCTCTCGT 58.332 50.000 0.00 0.00 37.78 4.18
2670 2775 0.947244 GGCAATAATGGGTGCTCTCG 59.053 55.000 0.00 0.00 40.70 4.04
2674 2779 1.455587 CCGGGCAATAATGGGTGCT 60.456 57.895 0.00 0.00 40.70 4.40
2675 2780 2.498056 CCCGGGCAATAATGGGTGC 61.498 63.158 8.08 0.00 40.14 5.01
2677 2782 2.606449 CCCCGGGCAATAATGGGT 59.394 61.111 17.73 0.00 40.20 4.51
2911 3032 2.091555 ACTGTATCTCACTCTCCTCCCC 60.092 54.545 0.00 0.00 0.00 4.81
2917 3038 3.441922 TCAGTGCACTGTATCTCACTCTC 59.558 47.826 38.41 0.00 44.12 3.20
2918 3039 3.425659 TCAGTGCACTGTATCTCACTCT 58.574 45.455 38.41 3.58 44.12 3.24
2969 3095 9.717892 CAAAACAGAGAATCATATCAACAGATG 57.282 33.333 0.00 0.00 37.82 2.90
2970 3096 9.458727 ACAAAACAGAGAATCATATCAACAGAT 57.541 29.630 0.00 0.00 37.82 2.90
2971 3097 8.853077 ACAAAACAGAGAATCATATCAACAGA 57.147 30.769 0.00 0.00 37.82 3.41
2972 3098 9.903682 AAACAAAACAGAGAATCATATCAACAG 57.096 29.630 0.00 0.00 37.82 3.16
3010 3150 4.201744 CCAGCGCAAAAATGGATCAAAATC 60.202 41.667 11.47 0.00 36.09 2.17
3019 3159 1.203052 AGATCACCAGCGCAAAAATGG 59.797 47.619 11.47 11.09 40.10 3.16
3059 3199 4.201744 CCAGCGCAAAAATGGATCAAAATC 60.202 41.667 11.47 0.00 36.09 2.17
3060 3200 3.685756 CCAGCGCAAAAATGGATCAAAAT 59.314 39.130 11.47 0.00 36.09 1.82
3061 3201 3.065655 CCAGCGCAAAAATGGATCAAAA 58.934 40.909 11.47 0.00 36.09 2.44
3062 3202 2.036992 ACCAGCGCAAAAATGGATCAAA 59.963 40.909 18.50 0.00 37.54 2.69
3063 3203 1.617850 ACCAGCGCAAAAATGGATCAA 59.382 42.857 18.50 0.00 37.54 2.57
3064 3204 1.067706 CACCAGCGCAAAAATGGATCA 60.068 47.619 18.50 0.00 37.54 2.92
3065 3205 1.202114 TCACCAGCGCAAAAATGGATC 59.798 47.619 18.50 0.00 37.54 3.36
3066 3206 1.255882 TCACCAGCGCAAAAATGGAT 58.744 45.000 18.50 1.43 37.54 3.41
3067 3207 1.202114 GATCACCAGCGCAAAAATGGA 59.798 47.619 18.50 2.86 37.54 3.41
3068 3208 1.203052 AGATCACCAGCGCAAAAATGG 59.797 47.619 11.47 11.09 40.10 3.16
3069 3209 2.642139 AGATCACCAGCGCAAAAATG 57.358 45.000 11.47 0.00 0.00 2.32
3070 3210 2.821969 AGAAGATCACCAGCGCAAAAAT 59.178 40.909 11.47 0.00 0.00 1.82
3071 3211 2.229792 AGAAGATCACCAGCGCAAAAA 58.770 42.857 11.47 0.00 0.00 1.94
3072 3212 1.896220 AGAAGATCACCAGCGCAAAA 58.104 45.000 11.47 0.00 0.00 2.44
3073 3213 1.536766 CAAGAAGATCACCAGCGCAAA 59.463 47.619 11.47 0.00 0.00 3.68
3074 3214 1.159285 CAAGAAGATCACCAGCGCAA 58.841 50.000 11.47 0.00 0.00 4.85
3075 3215 0.321346 TCAAGAAGATCACCAGCGCA 59.679 50.000 11.47 0.00 0.00 6.09
3076 3216 0.723981 GTCAAGAAGATCACCAGCGC 59.276 55.000 0.00 0.00 0.00 5.92
3077 3217 1.363744 GGTCAAGAAGATCACCAGCG 58.636 55.000 0.00 0.00 0.00 5.18
3078 3218 1.363744 CGGTCAAGAAGATCACCAGC 58.636 55.000 0.00 0.00 0.00 4.85
3079 3219 1.338105 TGCGGTCAAGAAGATCACCAG 60.338 52.381 0.00 0.00 0.00 4.00
3080 3220 0.684535 TGCGGTCAAGAAGATCACCA 59.315 50.000 0.00 0.00 0.00 4.17
3081 3221 1.667724 CATGCGGTCAAGAAGATCACC 59.332 52.381 0.00 0.00 0.00 4.02
3082 3222 1.667724 CCATGCGGTCAAGAAGATCAC 59.332 52.381 0.00 0.00 0.00 3.06
3083 3223 2.013563 GCCATGCGGTCAAGAAGATCA 61.014 52.381 0.00 0.00 33.28 2.92
3084 3224 0.659957 GCCATGCGGTCAAGAAGATC 59.340 55.000 0.00 0.00 33.28 2.75
3085 3225 2.785868 GCCATGCGGTCAAGAAGAT 58.214 52.632 0.00 0.00 33.28 2.40
3086 3226 4.301505 GCCATGCGGTCAAGAAGA 57.698 55.556 0.00 0.00 33.28 2.87
3110 3250 1.536766 CTCGTGGAGTGTTACGGTACA 59.463 52.381 0.00 0.00 40.48 2.90
3111 3251 1.730446 GCTCGTGGAGTGTTACGGTAC 60.730 57.143 0.00 0.00 40.48 3.34
3112 3252 0.523072 GCTCGTGGAGTGTTACGGTA 59.477 55.000 0.00 0.00 40.48 4.02
3114 3254 0.732880 CTGCTCGTGGAGTGTTACGG 60.733 60.000 0.00 0.00 40.48 4.02
3115 3255 0.240145 TCTGCTCGTGGAGTGTTACG 59.760 55.000 5.89 0.00 41.38 3.18
3116 3256 1.540267 TCTCTGCTCGTGGAGTGTTAC 59.460 52.381 5.89 0.00 33.13 2.50
3117 3257 1.813178 CTCTCTGCTCGTGGAGTGTTA 59.187 52.381 5.89 0.00 33.13 2.41
3119 3259 1.247419 CCTCTCTGCTCGTGGAGTGT 61.247 60.000 5.89 0.00 33.13 3.55
3120 3260 0.962855 TCCTCTCTGCTCGTGGAGTG 60.963 60.000 5.89 3.95 33.13 3.51
3121 3261 0.033601 ATCCTCTCTGCTCGTGGAGT 60.034 55.000 5.89 0.00 33.13 3.85
3122 3262 0.385029 CATCCTCTCTGCTCGTGGAG 59.615 60.000 0.00 0.00 0.00 3.86
3123 3263 0.034089 TCATCCTCTCTGCTCGTGGA 60.034 55.000 0.00 0.00 0.00 4.02
3124 3264 1.039068 ATCATCCTCTCTGCTCGTGG 58.961 55.000 0.00 0.00 0.00 4.94
3125 3265 1.868930 GCATCATCCTCTCTGCTCGTG 60.869 57.143 0.00 0.00 0.00 4.35
3126 3266 0.388659 GCATCATCCTCTCTGCTCGT 59.611 55.000 0.00 0.00 0.00 4.18
3127 3267 0.319727 GGCATCATCCTCTCTGCTCG 60.320 60.000 0.00 0.00 35.03 5.03
3128 3268 0.319727 CGGCATCATCCTCTCTGCTC 60.320 60.000 0.00 0.00 35.03 4.26
3168 3308 3.004734 GCAGCACTCGCGTCTGTTC 62.005 63.158 5.77 0.00 45.49 3.18
3231 3371 5.554070 TCACTCAGATCACATTTGACACAT 58.446 37.500 0.00 0.00 33.38 3.21
3250 3390 9.062524 GTTAGTAGTCATAGATCACAGATCACT 57.937 37.037 9.43 6.42 0.00 3.41
3256 3396 9.938670 GTGTTAGTTAGTAGTCATAGATCACAG 57.061 37.037 0.00 0.00 0.00 3.66
3257 3397 9.457436 TGTGTTAGTTAGTAGTCATAGATCACA 57.543 33.333 0.00 0.00 0.00 3.58
3277 3420 7.500141 ACATGAGCAGTGATATACATGTGTTA 58.500 34.615 9.11 0.39 43.85 2.41
3278 3421 6.351711 ACATGAGCAGTGATATACATGTGTT 58.648 36.000 9.11 0.00 43.85 3.32
3282 3425 5.756833 ACACACATGAGCAGTGATATACATG 59.243 40.000 15.36 6.92 40.16 3.21
3283 3426 5.922053 ACACACATGAGCAGTGATATACAT 58.078 37.500 15.36 0.00 40.16 2.29
3284 3427 5.343307 ACACACATGAGCAGTGATATACA 57.657 39.130 15.36 0.00 40.16 2.29
3311 3487 6.201517 CGATAATTCAAGCCCAAATACACAG 58.798 40.000 0.00 0.00 0.00 3.66
3324 3500 3.743396 GCCTCTACCTGCGATAATTCAAG 59.257 47.826 0.00 0.00 0.00 3.02
3348 3524 0.456653 GTGAATTGTGGCGGCATGAC 60.457 55.000 17.19 2.41 0.00 3.06
3414 3591 4.655527 GGCGGATACATCGACCTG 57.344 61.111 0.00 0.00 0.00 4.00
3419 3596 3.190079 CATCAATAGGGCGGATACATCG 58.810 50.000 0.00 0.00 0.00 3.84
3429 3606 2.965572 TTGCTTTGCATCAATAGGGC 57.034 45.000 0.00 0.00 38.76 5.19
3434 3611 7.548075 CCTAAGATTCTTTTGCTTTGCATCAAT 59.452 33.333 3.86 0.00 38.76 2.57
3449 3626 6.777580 TGCTTTCCACTTTTCCTAAGATTCTT 59.222 34.615 4.03 4.03 0.00 2.52
3450 3627 6.207614 GTGCTTTCCACTTTTCCTAAGATTCT 59.792 38.462 0.00 0.00 41.35 2.40
3451 3628 6.016276 TGTGCTTTCCACTTTTCCTAAGATTC 60.016 38.462 0.00 0.00 44.92 2.52
3460 3637 3.801114 AACCTGTGCTTTCCACTTTTC 57.199 42.857 0.00 0.00 44.92 2.29
3475 3652 4.461198 ACCCTTTTCACAGTAGAAACCTG 58.539 43.478 0.00 0.00 37.24 4.00
3500 3677 5.390991 GCCGAGAGATTTTTAAGAGGTTGTG 60.391 44.000 0.00 0.00 0.00 3.33
3513 3690 3.344515 GGGTTTTACAGCCGAGAGATTT 58.655 45.455 0.00 0.00 31.79 2.17
3522 3699 4.139038 TGTAAGACAAGGGTTTTACAGCC 58.861 43.478 6.81 0.00 44.75 4.85
3526 3703 6.935208 AGATGAGTGTAAGACAAGGGTTTTAC 59.065 38.462 0.00 0.00 42.13 2.01



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

AutoCloner maintained by Alex Coulton.