Multiple sequence alignment - TraesCS5D01G316800

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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 TraesCS5D01G316800 chr5D 100.000 4526 0 0 1 4526 410423850 410419325 0.000000e+00 8359
1 TraesCS5D01G316800 chr5A 95.153 1898 57 12 1800 3670 522058038 522056149 0.000000e+00 2963
2 TraesCS5D01G316800 chr5A 89.901 1109 72 20 610 1689 522059204 522058107 0.000000e+00 1391
3 TraesCS5D01G316800 chr5A 92.459 610 34 7 1 607 522060066 522059466 0.000000e+00 861
4 TraesCS5D01G316800 chr5A 86.508 504 35 14 3786 4272 522032988 522032501 1.440000e-144 523
5 TraesCS5D01G316800 chr5A 83.704 135 15 4 4343 4470 522032382 522032248 2.210000e-23 121
6 TraesCS5D01G316800 chr5B 94.421 1936 59 20 1750 3639 492537945 492536013 0.000000e+00 2931
7 TraesCS5D01G316800 chr5B 92.834 628 45 0 1123 1750 492538602 492537975 0.000000e+00 911
8 TraesCS5D01G316800 chr5B 92.557 618 35 7 475 1086 492539223 492538611 0.000000e+00 876
9 TraesCS5D01G316800 chr5B 94.345 336 14 5 1 332 492539605 492539271 1.120000e-140 510
10 TraesCS5D01G316800 chr5B 83.755 277 35 8 4112 4383 492535193 492534922 2.090000e-63 254
11 TraesCS5D01G316800 chr5B 91.057 123 8 3 4380 4500 492534641 492534520 3.620000e-36 163


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 TraesCS5D01G316800 chr5D 410419325 410423850 4525 True 8359.000000 8359 100.000000 1 4526 1 chr5D.!!$R1 4525
1 TraesCS5D01G316800 chr5A 522056149 522060066 3917 True 1738.333333 2963 92.504333 1 3670 3 chr5A.!!$R2 3669
2 TraesCS5D01G316800 chr5A 522032248 522032988 740 True 322.000000 523 85.106000 3786 4470 2 chr5A.!!$R1 684
3 TraesCS5D01G316800 chr5B 492534520 492539605 5085 True 940.833333 2931 91.494833 1 4500 6 chr5B.!!$R1 4499

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
189 194 0.324943 GGTGCACCTGACTGTACCAT 59.675 55.000 29.12 0.0 44.19 3.55 F
1060 1353 0.629596 AGGATGGGAGGAGTACGTGA 59.370 55.000 0.00 0.0 0.00 4.35 F
1298 1593 0.034896 TGAGGTTCCAACTTCTCGGC 59.965 55.000 3.53 0.0 36.15 5.54 F
2648 3004 1.066573 CCTGCTCCAGGTCAACTACAG 60.067 57.143 3.09 0.0 45.82 2.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1223 1518 0.443869 CTTCGGTCGTGATTGCCTTG 59.556 55.000 0.0 0.0 0.00 3.61 R
2656 3012 2.040544 CCTGGTTGATGGTGACCGC 61.041 63.158 0.0 0.0 38.81 5.68 R
3000 3356 2.691771 GCTCGACTCCGACAGCAGA 61.692 63.158 0.0 0.0 40.30 4.26 R
4282 5054 0.030235 GTGGACAAAAACGTGGAGCC 59.970 55.000 0.0 0.0 0.00 4.70 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
73 74 9.985730 TTCTTTTCTGCTTCATCAATAAAATGT 57.014 25.926 0.00 0.00 0.00 2.71
86 87 7.857404 TCAATAAAATGTGGTAGGGGAAAAA 57.143 32.000 0.00 0.00 0.00 1.94
87 88 7.902087 TCAATAAAATGTGGTAGGGGAAAAAG 58.098 34.615 0.00 0.00 0.00 2.27
189 194 0.324943 GGTGCACCTGACTGTACCAT 59.675 55.000 29.12 0.00 44.19 3.55
190 195 1.271379 GGTGCACCTGACTGTACCATT 60.271 52.381 29.12 0.00 44.19 3.16
256 261 6.524101 AAAGAAGTGGCTGACTTTTGTTTA 57.476 33.333 3.61 0.00 45.48 2.01
269 274 6.320672 TGACTTTTGTTTATTTTCGTACCCCA 59.679 34.615 0.00 0.00 0.00 4.96
285 290 3.631250 ACCCCAAAGCACTACATTATGG 58.369 45.455 0.00 0.00 0.00 2.74
323 329 7.921786 ATGGTCGATGAAAGAAACATTTCTA 57.078 32.000 7.29 0.00 46.22 2.10
382 390 6.068010 TCTGTTGTCAACTCCACCAAATTAT 58.932 36.000 16.45 0.00 0.00 1.28
392 400 6.367983 ACTCCACCAAATTATAGATGCATGT 58.632 36.000 2.46 1.37 0.00 3.21
396 404 6.441274 CACCAAATTATAGATGCATGTGGAC 58.559 40.000 2.46 0.00 0.00 4.02
421 429 3.612004 GCGCCATGTAGATGTAGTAGTCC 60.612 52.174 0.00 0.00 0.00 3.85
423 431 4.320567 CGCCATGTAGATGTAGTAGTCCTG 60.321 50.000 0.00 0.00 0.00 3.86
509 517 2.484264 GTGTGTAATCTGTTGCTGGTCC 59.516 50.000 0.00 0.00 0.00 4.46
546 554 6.147492 GCTATTTCTCAATAGGATGAGCACAG 59.853 42.308 4.55 0.00 45.21 3.66
607 615 3.447586 TCATTAGCTGGACCTGACACTAC 59.552 47.826 1.91 0.00 0.00 2.73
608 616 1.848652 TAGCTGGACCTGACACTACC 58.151 55.000 1.91 0.00 0.00 3.18
713 981 8.706936 CGTATCAAACTTGATCTCCATCTAATG 58.293 37.037 8.19 0.00 44.17 1.90
727 995 7.446319 TCTCCATCTAATGTTAGCATGGATTTG 59.554 37.037 21.12 15.15 41.33 2.32
736 1004 1.547372 AGCATGGATTTGTTCAGCACC 59.453 47.619 0.00 0.00 0.00 5.01
954 1247 1.924524 CGGAAAACTGTATCGTCGCAT 59.075 47.619 0.00 0.00 0.00 4.73
957 1250 2.554806 AAACTGTATCGTCGCATCGA 57.445 45.000 2.88 2.88 43.86 3.59
972 1265 2.227089 ATCGACCGGTGTGCTTCTCC 62.227 60.000 14.63 0.00 0.00 3.71
982 1275 3.031736 GTGTGCTTCTCCTATAGGTCCA 58.968 50.000 18.51 7.01 36.34 4.02
983 1276 3.643792 GTGTGCTTCTCCTATAGGTCCAT 59.356 47.826 18.51 0.00 36.34 3.41
984 1277 4.833380 GTGTGCTTCTCCTATAGGTCCATA 59.167 45.833 18.51 5.68 36.34 2.74
987 1280 6.892456 TGTGCTTCTCCTATAGGTCCATATAG 59.108 42.308 18.51 6.85 36.08 1.31
1026 1319 5.820947 GGTGAACTTCTCCAAGAAACTAACA 59.179 40.000 5.19 0.00 33.19 2.41
1060 1353 0.629596 AGGATGGGAGGAGTACGTGA 59.370 55.000 0.00 0.00 0.00 4.35
1071 1366 4.566987 AGGAGTACGTGAAATTTCCTCAC 58.433 43.478 15.48 7.17 39.89 3.51
1076 1371 7.329588 AGTACGTGAAATTTCCTCACTTTTT 57.670 32.000 15.48 0.00 40.90 1.94
1097 1392 2.876581 TGGTCAACTAGACTCTGCTCA 58.123 47.619 0.00 0.00 46.72 4.26
1119 1414 7.482654 TCATCTGTTGTTCTACTCTGTTTTG 57.517 36.000 0.00 0.00 0.00 2.44
1141 1436 5.181009 TGTCAGTCCTGATGAAACATCATC 58.819 41.667 13.54 11.02 44.89 2.92
1212 1507 1.700955 AGAGTGAAGGTGTACACGGT 58.299 50.000 19.41 9.72 41.22 4.83
1223 1518 0.234884 GTACACGGTGCAGACAAAGC 59.765 55.000 8.30 0.00 0.00 3.51
1255 1550 2.052157 GACCGAAGACGTGTTCTGAAG 58.948 52.381 20.90 10.79 33.46 3.02
1276 1571 4.342359 AGGATTTCTCAAAGCTGCTTGAT 58.658 39.130 16.73 0.00 34.86 2.57
1297 1592 2.028112 TGATGAGGTTCCAACTTCTCGG 60.028 50.000 3.53 0.00 36.15 4.63
1298 1593 0.034896 TGAGGTTCCAACTTCTCGGC 59.965 55.000 3.53 0.00 36.15 5.54
1319 1614 4.520846 CCAATCGGCTTCACGCGC 62.521 66.667 5.73 0.00 40.44 6.86
1539 1835 3.606595 TGATCTTGTCAGGCTTCTGAG 57.393 47.619 0.00 0.00 46.98 3.35
1555 1851 3.017442 TCTGAGGTTCGTCGATCTCAAT 58.983 45.455 21.32 2.13 36.06 2.57
1579 1875 2.417936 GCGGTCCGGAAGATCCTC 59.582 66.667 14.38 0.00 33.30 3.71
1600 1896 3.439129 TCAAGAAGTTCGATGAGCGTCTA 59.561 43.478 9.50 0.00 41.80 2.59
1615 1911 3.635836 AGCGTCTAGGGTATAAGTTCACC 59.364 47.826 0.00 0.00 0.00 4.02
1707 2003 5.059404 AGTTAATTGGCCAACATCTTTCG 57.941 39.130 23.27 0.00 0.00 3.46
1728 2024 3.670627 CGGGCTTGCTACTTTCACATTTC 60.671 47.826 0.00 0.00 0.00 2.17
1737 2033 7.587629 TGCTACTTTCACATTTCAATCTGAAG 58.412 34.615 0.00 0.00 37.70 3.02
1762 2088 9.563748 AGATGAATTCAACCATTTCAAATTTGT 57.436 25.926 17.47 0.00 33.45 2.83
1765 2091 8.828644 TGAATTCAACCATTTCAAATTTGTCTG 58.171 29.630 17.47 12.55 0.00 3.51
1900 2227 2.159226 CGAGGAGCGTGAAGGAAGTTAT 60.159 50.000 0.00 0.00 34.64 1.89
1973 2319 4.882671 TGTGCTTTCTCTTTTCAGTGTC 57.117 40.909 0.00 0.00 0.00 3.67
2140 2496 2.728443 GATCAGGCAGGGGAGCATCG 62.728 65.000 0.00 0.00 34.37 3.84
2648 3004 1.066573 CCTGCTCCAGGTCAACTACAG 60.067 57.143 3.09 0.00 45.82 2.74
2656 3012 3.369471 CCAGGTCAACTACAGGGTGTATG 60.369 52.174 0.00 0.00 31.66 2.39
3565 3937 3.028019 CGTCACGGTGTCACGGTG 61.028 66.667 28.63 28.63 46.67 4.94
3566 3938 2.105528 GTCACGGTGTCACGGTGT 59.894 61.111 31.14 13.88 45.82 4.16
3567 3939 2.105328 TCACGGTGTCACGGTGTG 59.895 61.111 31.14 22.27 45.82 3.82
3568 3940 2.202824 CACGGTGTCACGGTGTGT 60.203 61.111 27.04 6.57 42.30 3.72
3600 3985 0.232303 GTTGTTTGTGACTCGCGAGG 59.768 55.000 36.93 20.54 0.00 4.63
3604 3989 0.874175 TTTGTGACTCGCGAGGTGTG 60.874 55.000 36.93 15.77 0.00 3.82
3676 4065 3.542676 ACGGTGCGTCAGGTTGGA 61.543 61.111 0.00 0.00 33.69 3.53
3677 4066 2.047274 CGGTGCGTCAGGTTGGAT 60.047 61.111 0.00 0.00 0.00 3.41
3678 4067 2.100631 CGGTGCGTCAGGTTGGATC 61.101 63.158 0.00 0.00 0.00 3.36
3679 4068 1.745489 GGTGCGTCAGGTTGGATCC 60.745 63.158 4.20 4.20 0.00 3.36
3680 4069 1.003839 GTGCGTCAGGTTGGATCCA 60.004 57.895 11.44 11.44 0.00 3.41
3681 4070 0.392998 GTGCGTCAGGTTGGATCCAT 60.393 55.000 17.06 0.00 0.00 3.41
3682 4071 0.327924 TGCGTCAGGTTGGATCCATT 59.672 50.000 17.06 1.30 0.00 3.16
3683 4072 1.271871 TGCGTCAGGTTGGATCCATTT 60.272 47.619 17.06 0.89 0.00 2.32
3684 4073 1.401905 GCGTCAGGTTGGATCCATTTC 59.598 52.381 17.06 9.27 0.00 2.17
3685 4074 1.665679 CGTCAGGTTGGATCCATTTCG 59.334 52.381 17.06 10.94 0.00 3.46
3686 4075 1.401905 GTCAGGTTGGATCCATTTCGC 59.598 52.381 17.06 3.89 0.00 4.70
3687 4076 1.004161 TCAGGTTGGATCCATTTCGCA 59.996 47.619 17.06 0.00 0.00 5.10
3688 4077 1.402968 CAGGTTGGATCCATTTCGCAG 59.597 52.381 17.06 0.00 0.00 5.18
3689 4078 0.101219 GGTTGGATCCATTTCGCAGC 59.899 55.000 17.06 5.19 0.00 5.25
3690 4079 0.248215 GTTGGATCCATTTCGCAGCG 60.248 55.000 17.06 9.06 0.00 5.18
3691 4080 0.392327 TTGGATCCATTTCGCAGCGA 60.392 50.000 17.06 15.11 0.00 4.93
3692 4081 0.179048 TGGATCCATTTCGCAGCGAT 60.179 50.000 20.32 1.25 35.23 4.58
3693 4082 0.947244 GGATCCATTTCGCAGCGATT 59.053 50.000 20.32 6.64 35.23 3.34
3694 4083 1.334869 GGATCCATTTCGCAGCGATTT 59.665 47.619 20.32 6.23 35.23 2.17
3695 4084 2.378806 GATCCATTTCGCAGCGATTTG 58.621 47.619 20.32 18.09 35.23 2.32
3696 4085 1.164411 TCCATTTCGCAGCGATTTGT 58.836 45.000 20.32 1.97 35.23 2.83
3697 4086 1.135717 TCCATTTCGCAGCGATTTGTG 60.136 47.619 20.32 14.18 35.23 3.33
3698 4087 1.135717 CCATTTCGCAGCGATTTGTGA 60.136 47.619 20.32 0.00 35.23 3.58
3699 4088 2.171567 CATTTCGCAGCGATTTGTGAG 58.828 47.619 20.32 1.00 38.66 3.51
3700 4089 0.516877 TTTCGCAGCGATTTGTGAGG 59.483 50.000 20.32 0.00 38.66 3.86
3701 4090 0.320334 TTCGCAGCGATTTGTGAGGA 60.320 50.000 20.32 0.00 38.66 3.71
3702 4091 0.108186 TCGCAGCGATTTGTGAGGAT 60.108 50.000 15.11 0.00 32.97 3.24
3703 4092 1.136110 TCGCAGCGATTTGTGAGGATA 59.864 47.619 15.11 0.00 32.97 2.59
3704 4093 1.933181 CGCAGCGATTTGTGAGGATAA 59.067 47.619 9.98 0.00 0.00 1.75
3705 4094 2.033407 CGCAGCGATTTGTGAGGATAAG 60.033 50.000 9.98 0.00 0.00 1.73
3706 4095 3.198068 GCAGCGATTTGTGAGGATAAGA 58.802 45.455 0.00 0.00 0.00 2.10
3707 4096 3.247173 GCAGCGATTTGTGAGGATAAGAG 59.753 47.826 0.00 0.00 0.00 2.85
3708 4097 4.437239 CAGCGATTTGTGAGGATAAGAGT 58.563 43.478 0.00 0.00 0.00 3.24
3709 4098 4.872691 CAGCGATTTGTGAGGATAAGAGTT 59.127 41.667 0.00 0.00 0.00 3.01
3710 4099 5.006165 CAGCGATTTGTGAGGATAAGAGTTC 59.994 44.000 0.00 0.00 0.00 3.01
3711 4100 4.271291 GCGATTTGTGAGGATAAGAGTTCC 59.729 45.833 0.00 0.00 0.00 3.62
3712 4101 4.811557 CGATTTGTGAGGATAAGAGTTCCC 59.188 45.833 0.00 0.00 33.45 3.97
3713 4102 4.569719 TTTGTGAGGATAAGAGTTCCCC 57.430 45.455 0.00 0.00 33.45 4.81
3714 4103 2.478292 TGTGAGGATAAGAGTTCCCCC 58.522 52.381 0.00 0.00 33.45 5.40
3715 4104 2.045885 TGTGAGGATAAGAGTTCCCCCT 59.954 50.000 0.00 0.00 33.45 4.79
3716 4105 2.701423 GTGAGGATAAGAGTTCCCCCTC 59.299 54.545 0.00 0.00 40.30 4.30
3717 4106 2.331166 GAGGATAAGAGTTCCCCCTCC 58.669 57.143 0.00 0.00 35.39 4.30
3718 4107 1.061268 AGGATAAGAGTTCCCCCTCCC 60.061 57.143 0.00 0.00 33.45 4.30
3719 4108 1.061268 GGATAAGAGTTCCCCCTCCCT 60.061 57.143 0.00 0.00 31.53 4.20
3720 4109 2.331166 GATAAGAGTTCCCCCTCCCTC 58.669 57.143 0.00 0.00 31.53 4.30
3721 4110 0.342313 TAAGAGTTCCCCCTCCCTCC 59.658 60.000 0.00 0.00 31.53 4.30
3722 4111 2.367107 GAGTTCCCCCTCCCTCCC 60.367 72.222 0.00 0.00 0.00 4.30
3723 4112 2.882143 AGTTCCCCCTCCCTCCCT 60.882 66.667 0.00 0.00 0.00 4.20
3724 4113 2.367107 GTTCCCCCTCCCTCCCTC 60.367 72.222 0.00 0.00 0.00 4.30
3725 4114 3.707189 TTCCCCCTCCCTCCCTCC 61.707 72.222 0.00 0.00 0.00 4.30
3728 4117 4.179599 CCCCTCCCTCCCTCCCTC 62.180 77.778 0.00 0.00 0.00 4.30
3729 4118 4.179599 CCCTCCCTCCCTCCCTCC 62.180 77.778 0.00 0.00 0.00 4.30
3730 4119 4.179599 CCTCCCTCCCTCCCTCCC 62.180 77.778 0.00 0.00 0.00 4.30
3731 4120 3.039526 CTCCCTCCCTCCCTCCCT 61.040 72.222 0.00 0.00 0.00 4.20
3732 4121 3.036959 TCCCTCCCTCCCTCCCTC 61.037 72.222 0.00 0.00 0.00 4.30
3733 4122 4.179599 CCCTCCCTCCCTCCCTCC 62.180 77.778 0.00 0.00 0.00 4.30
3734 4123 4.179599 CCTCCCTCCCTCCCTCCC 62.180 77.778 0.00 0.00 0.00 4.30
3735 4124 3.039526 CTCCCTCCCTCCCTCCCT 61.040 72.222 0.00 0.00 0.00 4.20
3736 4125 3.036959 TCCCTCCCTCCCTCCCTC 61.037 72.222 0.00 0.00 0.00 4.30
3737 4126 4.548513 CCCTCCCTCCCTCCCTCG 62.549 77.778 0.00 0.00 0.00 4.63
3817 4524 1.335132 TATCACCGCTGTTCTCCCCC 61.335 60.000 0.00 0.00 0.00 5.40
3819 4526 3.003763 ACCGCTGTTCTCCCCCTC 61.004 66.667 0.00 0.00 0.00 4.30
3824 4531 1.394151 CTGTTCTCCCCCTCCCTCT 59.606 63.158 0.00 0.00 0.00 3.69
3825 4532 0.689412 CTGTTCTCCCCCTCCCTCTC 60.689 65.000 0.00 0.00 0.00 3.20
3826 4533 1.383386 GTTCTCCCCCTCCCTCTCC 60.383 68.421 0.00 0.00 0.00 3.71
3827 4534 2.647949 TTCTCCCCCTCCCTCTCCC 61.648 68.421 0.00 0.00 0.00 4.30
3828 4535 3.039526 CTCCCCCTCCCTCTCCCT 61.040 72.222 0.00 0.00 0.00 4.20
3829 4536 3.036959 TCCCCCTCCCTCTCCCTC 61.037 72.222 0.00 0.00 0.00 4.30
3830 4537 4.548513 CCCCCTCCCTCTCCCTCG 62.549 77.778 0.00 0.00 0.00 4.63
3918 4626 1.048160 TATGGTGATCGGCTCCTGCA 61.048 55.000 0.00 0.00 41.91 4.41
3984 4693 0.457851 CCGTGCTCTTCTTCCTCGAT 59.542 55.000 0.00 0.00 0.00 3.59
3993 4702 2.898729 TCTTCCTCGATGAAGATGGC 57.101 50.000 23.98 0.00 44.35 4.40
4051 4760 1.136891 CCGACATGCCACATAGACTCA 59.863 52.381 0.00 0.00 0.00 3.41
4056 4765 4.592942 ACATGCCACATAGACTCAATGTT 58.407 39.130 0.00 0.00 35.39 2.71
4065 4774 7.981789 CCACATAGACTCAATGTTGTACACTAT 59.018 37.037 0.00 0.00 35.39 2.12
4082 4791 1.676006 CTATGGCGGGTTGTTTCATCC 59.324 52.381 0.00 0.00 0.00 3.51
4152 4901 2.028020 GTCCCTCTCTTTTCGATGGTGT 60.028 50.000 0.00 0.00 0.00 4.16
4154 4903 2.744202 CCCTCTCTTTTCGATGGTGTTG 59.256 50.000 0.00 0.00 0.00 3.33
4229 4981 8.764287 GGAGTCAATTGTAATTTGTCCTTTTTG 58.236 33.333 5.13 0.00 0.00 2.44
4240 4993 6.860790 TTTGTCCTTTTTGGTAGTCCTTTT 57.139 33.333 0.00 0.00 37.07 2.27
4254 5007 3.006217 AGTCCTTTTTGCCAAGCTTCATC 59.994 43.478 0.00 0.00 0.00 2.92
4261 5014 2.241160 TGCCAAGCTTCATCACATTGT 58.759 42.857 0.00 0.00 0.00 2.71
4279 5051 4.794248 TTGTTGTTCTTGATGTCTCGTG 57.206 40.909 0.00 0.00 0.00 4.35
4282 5054 2.754472 TGTTCTTGATGTCTCGTGTGG 58.246 47.619 0.00 0.00 0.00 4.17
4284 5056 0.037326 TCTTGATGTCTCGTGTGGGC 60.037 55.000 0.00 0.00 0.00 5.36
4285 5057 0.036952 CTTGATGTCTCGTGTGGGCT 60.037 55.000 0.00 0.00 0.00 5.19
4286 5058 0.037326 TTGATGTCTCGTGTGGGCTC 60.037 55.000 0.00 0.00 0.00 4.70
4287 5059 1.153549 GATGTCTCGTGTGGGCTCC 60.154 63.158 0.00 0.00 0.00 4.70
4288 5060 1.888436 GATGTCTCGTGTGGGCTCCA 61.888 60.000 0.00 0.00 0.00 3.86
4297 5069 2.112029 GTGGGCTCCACGTTTTTGT 58.888 52.632 8.37 0.00 44.95 2.83
4298 5070 0.030235 GTGGGCTCCACGTTTTTGTC 59.970 55.000 8.37 0.00 44.95 3.18
4299 5071 1.104577 TGGGCTCCACGTTTTTGTCC 61.105 55.000 0.00 0.00 0.00 4.02
4301 5073 0.030235 GGCTCCACGTTTTTGTCCAC 59.970 55.000 0.00 0.00 0.00 4.02
4302 5074 0.316689 GCTCCACGTTTTTGTCCACG 60.317 55.000 0.00 0.00 42.29 4.94
4314 5086 6.351749 GTTTTTGTCCACGTATTTGAAATGC 58.648 36.000 0.00 0.00 0.00 3.56
4319 5091 2.256445 ACGTATTTGAAATGCGTGGC 57.744 45.000 28.03 0.25 38.80 5.01
4331 5103 5.048364 TGAAATGCGTGGCTACTGTTTTTAT 60.048 36.000 0.00 0.00 0.00 1.40
4334 5106 5.539582 TGCGTGGCTACTGTTTTTATAAG 57.460 39.130 0.00 0.00 0.00 1.73
4335 5107 4.998672 TGCGTGGCTACTGTTTTTATAAGT 59.001 37.500 0.00 0.00 0.00 2.24
4338 5110 7.172875 TGCGTGGCTACTGTTTTTATAAGTTTA 59.827 33.333 0.00 0.00 0.00 2.01
4339 5111 7.479603 GCGTGGCTACTGTTTTTATAAGTTTAC 59.520 37.037 0.00 0.00 0.00 2.01
4398 5485 6.920569 AGCATTAGTAACCATTTTCTACCG 57.079 37.500 0.00 0.00 0.00 4.02
4399 5486 5.296035 AGCATTAGTAACCATTTTCTACCGC 59.704 40.000 0.00 0.00 0.00 5.68
4416 5503 2.554032 ACCGCTGAAGGTTGAAAATCAG 59.446 45.455 0.00 0.00 43.00 2.90
4441 5528 3.651206 TGTTGTAACCGTTAGATTCGCA 58.349 40.909 0.00 0.00 0.00 5.10
4490 5578 2.291465 TCTCTGCAATGCAACTTGTGTC 59.709 45.455 9.92 0.00 38.41 3.67
4491 5579 2.022934 TCTGCAATGCAACTTGTGTCA 58.977 42.857 9.92 0.00 38.41 3.58
4492 5580 2.033675 TCTGCAATGCAACTTGTGTCAG 59.966 45.455 9.92 0.00 38.41 3.51
4493 5581 1.750206 TGCAATGCAACTTGTGTCAGT 59.250 42.857 5.01 0.00 34.76 3.41
4494 5582 2.121786 GCAATGCAACTTGTGTCAGTG 58.878 47.619 0.00 0.00 0.00 3.66
4495 5583 2.121786 CAATGCAACTTGTGTCAGTGC 58.878 47.619 0.00 0.00 0.00 4.40
4502 5590 2.957576 CTTGTGTCAGTGCAAGTAGC 57.042 50.000 0.00 0.00 45.96 3.58
4503 5591 1.532868 CTTGTGTCAGTGCAAGTAGCC 59.467 52.381 0.00 0.00 44.83 3.93
4504 5592 0.758734 TGTGTCAGTGCAAGTAGCCT 59.241 50.000 0.00 0.00 44.83 4.58
4505 5593 1.140852 TGTGTCAGTGCAAGTAGCCTT 59.859 47.619 0.00 0.00 44.83 4.35
4506 5594 2.222027 GTGTCAGTGCAAGTAGCCTTT 58.778 47.619 0.00 0.00 44.83 3.11
4507 5595 3.181459 TGTGTCAGTGCAAGTAGCCTTTA 60.181 43.478 0.00 0.00 44.83 1.85
4508 5596 3.813166 GTGTCAGTGCAAGTAGCCTTTAA 59.187 43.478 0.00 0.00 44.83 1.52
4509 5597 4.455877 GTGTCAGTGCAAGTAGCCTTTAAT 59.544 41.667 0.00 0.00 44.83 1.40
4510 5598 4.695455 TGTCAGTGCAAGTAGCCTTTAATC 59.305 41.667 0.00 0.00 44.83 1.75
4511 5599 4.695455 GTCAGTGCAAGTAGCCTTTAATCA 59.305 41.667 0.00 0.00 44.83 2.57
4512 5600 4.695455 TCAGTGCAAGTAGCCTTTAATCAC 59.305 41.667 0.00 0.00 44.83 3.06
4513 5601 3.684788 AGTGCAAGTAGCCTTTAATCACG 59.315 43.478 0.00 0.00 44.83 4.35
4514 5602 3.435671 GTGCAAGTAGCCTTTAATCACGT 59.564 43.478 0.00 0.00 44.83 4.49
4515 5603 4.069304 TGCAAGTAGCCTTTAATCACGTT 58.931 39.130 0.00 0.00 44.83 3.99
4516 5604 4.083537 TGCAAGTAGCCTTTAATCACGTTG 60.084 41.667 0.00 0.00 44.83 4.10
4517 5605 4.083484 GCAAGTAGCCTTTAATCACGTTGT 60.083 41.667 0.00 0.00 37.23 3.32
4518 5606 5.121142 GCAAGTAGCCTTTAATCACGTTGTA 59.879 40.000 0.00 0.00 37.23 2.41
4519 5607 6.183360 GCAAGTAGCCTTTAATCACGTTGTAT 60.183 38.462 0.00 0.00 37.23 2.29
4520 5608 7.625606 GCAAGTAGCCTTTAATCACGTTGTATT 60.626 37.037 0.00 0.00 37.23 1.89
4521 5609 7.916914 AGTAGCCTTTAATCACGTTGTATTT 57.083 32.000 0.00 0.00 0.00 1.40
4522 5610 9.439500 AAGTAGCCTTTAATCACGTTGTATTTA 57.561 29.630 0.00 0.00 0.00 1.40
4523 5611 9.439500 AGTAGCCTTTAATCACGTTGTATTTAA 57.561 29.630 0.00 0.00 0.00 1.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
73 74 3.236047 GAAAAGGCTTTTTCCCCTACCA 58.764 45.455 24.79 0.00 44.08 3.25
108 110 2.067365 ACCTTTCCACGGAAGCTTTT 57.933 45.000 0.00 0.00 35.38 2.27
112 114 2.347731 CTCTTACCTTTCCACGGAAGC 58.652 52.381 0.00 0.00 35.38 3.86
198 203 6.092807 GTGGAGAGAAAATGTCATCTTACACC 59.907 42.308 0.00 0.00 30.75 4.16
256 261 2.871453 AGTGCTTTGGGGTACGAAAAT 58.129 42.857 0.00 0.00 0.00 1.82
269 274 7.362920 GGTTGACAATCCATAATGTAGTGCTTT 60.363 37.037 0.00 0.00 0.00 3.51
382 390 0.179076 CGCCTGTCCACATGCATCTA 60.179 55.000 0.00 0.00 37.35 1.98
392 400 1.337384 ATCTACATGGCGCCTGTCCA 61.337 55.000 29.70 17.57 38.09 4.02
396 404 1.069204 ACTACATCTACATGGCGCCTG 59.931 52.381 29.70 24.04 33.82 4.85
401 409 4.021894 CCAGGACTACTACATCTACATGGC 60.022 50.000 0.00 0.00 33.82 4.40
470 478 9.632638 ATTACACACCTGCAAAGAATATAGATT 57.367 29.630 0.00 0.00 0.00 2.40
472 480 8.486210 AGATTACACACCTGCAAAGAATATAGA 58.514 33.333 0.00 0.00 0.00 1.98
509 517 6.662414 TTGAGAAATAGCCATCAACTAACG 57.338 37.500 0.00 0.00 0.00 3.18
713 981 4.168760 GTGCTGAACAAATCCATGCTAAC 58.831 43.478 0.00 0.00 0.00 2.34
736 1004 7.793888 CACGTTGGATGAACTGATTATTAATCG 59.206 37.037 10.94 8.58 40.84 3.34
954 1247 2.649034 GAGAAGCACACCGGTCGA 59.351 61.111 2.59 0.00 0.00 4.20
957 1250 2.032620 CTATAGGAGAAGCACACCGGT 58.967 52.381 0.00 0.00 34.46 5.28
1008 1301 6.017852 GGTCTGTTGTTAGTTTCTTGGAGAAG 60.018 42.308 0.00 0.00 35.37 2.85
1026 1319 1.352352 CATCCTGGAACCTGGTCTGTT 59.648 52.381 14.68 0.00 36.57 3.16
1076 1371 3.230976 TGAGCAGAGTCTAGTTGACCAA 58.769 45.455 0.81 0.00 46.46 3.67
1079 1374 4.157656 ACAGATGAGCAGAGTCTAGTTGAC 59.842 45.833 0.00 0.00 45.67 3.18
1088 1383 4.526262 AGTAGAACAACAGATGAGCAGAGT 59.474 41.667 0.00 0.00 0.00 3.24
1089 1384 5.070770 AGTAGAACAACAGATGAGCAGAG 57.929 43.478 0.00 0.00 0.00 3.35
1091 1386 4.863689 CAGAGTAGAACAACAGATGAGCAG 59.136 45.833 0.00 0.00 0.00 4.24
1092 1387 4.281941 ACAGAGTAGAACAACAGATGAGCA 59.718 41.667 0.00 0.00 0.00 4.26
1093 1388 4.815269 ACAGAGTAGAACAACAGATGAGC 58.185 43.478 0.00 0.00 0.00 4.26
1097 1392 7.047891 TGACAAAACAGAGTAGAACAACAGAT 58.952 34.615 0.00 0.00 0.00 2.90
1141 1436 3.629398 ACCTGAAAGAAACAAGCAGACAG 59.371 43.478 0.00 0.00 34.07 3.51
1212 1507 1.000060 GATTGCCTTGCTTTGTCTGCA 60.000 47.619 0.00 0.00 38.80 4.41
1223 1518 0.443869 CTTCGGTCGTGATTGCCTTG 59.556 55.000 0.00 0.00 0.00 3.61
1255 1550 4.157289 TCATCAAGCAGCTTTGAGAAATCC 59.843 41.667 4.38 0.00 40.16 3.01
1276 1571 2.028112 CCGAGAAGTTGGAACCTCATCA 60.028 50.000 0.00 0.00 0.00 3.07
1297 1592 1.796796 GTGAAGCCGATTGGACTGC 59.203 57.895 1.98 0.00 37.49 4.40
1298 1593 1.970917 GCGTGAAGCCGATTGGACTG 61.971 60.000 1.98 0.00 40.81 3.51
1423 1719 0.466555 GCTTCCCTAGCTCCTCGAGA 60.467 60.000 15.71 0.00 46.77 4.04
1539 1835 0.931005 GGCATTGAGATCGACGAACC 59.069 55.000 0.00 0.00 0.00 3.62
1579 1875 2.600731 AGACGCTCATCGAACTTCTTG 58.399 47.619 0.00 0.00 41.67 3.02
1600 1896 7.508296 ACATAGTAATCGGTGAACTTATACCCT 59.492 37.037 0.00 0.00 33.32 4.34
1615 1911 4.837896 TCTGCTCCTGACATAGTAATCG 57.162 45.455 0.00 0.00 0.00 3.34
1707 2003 3.255642 TGAAATGTGAAAGTAGCAAGCCC 59.744 43.478 0.00 0.00 0.00 5.19
1728 2024 8.997621 AAATGGTTGAATTCATCTTCAGATTG 57.002 30.769 9.40 0.00 36.55 2.67
1737 2033 9.815936 GACAAATTTGAAATGGTTGAATTCATC 57.184 29.630 24.64 8.51 33.45 2.92
1815 2142 6.901300 TCCAATACCCTACTCATAGTTCAAGT 59.099 38.462 0.00 0.00 0.00 3.16
1824 2151 1.971357 CGGCTCCAATACCCTACTCAT 59.029 52.381 0.00 0.00 0.00 2.90
1843 2170 1.586154 GAGACAATGCCCCCACAACG 61.586 60.000 0.00 0.00 0.00 4.10
1900 2227 6.042093 GTGGGTTCTGGTCATAGATATTCAGA 59.958 42.308 0.00 0.00 0.00 3.27
1973 2319 5.294306 AGCCACATATAAGAACAACACGATG 59.706 40.000 0.00 0.00 0.00 3.84
2143 2499 3.878519 CTCCTCCGGCGAGTCGTC 61.879 72.222 15.08 11.37 33.93 4.20
2656 3012 2.040544 CCTGGTTGATGGTGACCGC 61.041 63.158 0.00 0.00 38.81 5.68
2772 3128 3.382832 CCCTGACGGCGACCTTCT 61.383 66.667 16.62 0.00 0.00 2.85
3000 3356 2.691771 GCTCGACTCCGACAGCAGA 61.692 63.158 0.00 0.00 40.30 4.26
3560 3932 1.609555 ACAACACAAAACACACACCGT 59.390 42.857 0.00 0.00 0.00 4.83
3561 3933 1.982223 CACAACACAAAACACACACCG 59.018 47.619 0.00 0.00 0.00 4.94
3562 3934 3.019933 ACACAACACAAAACACACACC 57.980 42.857 0.00 0.00 0.00 4.16
3563 3935 3.799420 ACAACACAACACAAAACACACAC 59.201 39.130 0.00 0.00 0.00 3.82
3565 3937 5.193936 CAAACAACACAACACAAAACACAC 58.806 37.500 0.00 0.00 0.00 3.82
3566 3938 4.870426 ACAAACAACACAACACAAAACACA 59.130 33.333 0.00 0.00 0.00 3.72
3567 3939 5.005779 TCACAAACAACACAACACAAAACAC 59.994 36.000 0.00 0.00 0.00 3.32
3568 3940 5.005779 GTCACAAACAACACAACACAAAACA 59.994 36.000 0.00 0.00 0.00 2.83
3569 3941 5.233263 AGTCACAAACAACACAACACAAAAC 59.767 36.000 0.00 0.00 0.00 2.43
3570 3942 5.352284 AGTCACAAACAACACAACACAAAA 58.648 33.333 0.00 0.00 0.00 2.44
3571 3943 4.938080 AGTCACAAACAACACAACACAAA 58.062 34.783 0.00 0.00 0.00 2.83
3572 3944 4.541779 GAGTCACAAACAACACAACACAA 58.458 39.130 0.00 0.00 0.00 3.33
3573 3945 3.364465 CGAGTCACAAACAACACAACACA 60.364 43.478 0.00 0.00 0.00 3.72
3574 3946 3.160545 CGAGTCACAAACAACACAACAC 58.839 45.455 0.00 0.00 0.00 3.32
3575 3947 2.413502 GCGAGTCACAAACAACACAACA 60.414 45.455 0.00 0.00 0.00 3.33
3576 3948 2.173964 GCGAGTCACAAACAACACAAC 58.826 47.619 0.00 0.00 0.00 3.32
3647 4036 0.662970 CGCACCGTCCAATTGGTTTG 60.663 55.000 23.76 16.20 35.96 2.93
3670 4059 0.101219 GCTGCGAAATGGATCCAACC 59.899 55.000 20.67 9.79 0.00 3.77
3671 4060 0.248215 CGCTGCGAAATGGATCCAAC 60.248 55.000 20.67 12.26 0.00 3.77
3672 4061 0.392327 TCGCTGCGAAATGGATCCAA 60.392 50.000 23.88 1.96 31.06 3.53
3673 4062 0.179048 ATCGCTGCGAAATGGATCCA 60.179 50.000 29.48 18.88 39.99 3.41
3674 4063 0.947244 AATCGCTGCGAAATGGATCC 59.053 50.000 29.48 4.20 39.99 3.36
3675 4064 2.223340 ACAAATCGCTGCGAAATGGATC 60.223 45.455 30.40 0.00 39.99 3.36
3676 4065 1.745087 ACAAATCGCTGCGAAATGGAT 59.255 42.857 30.40 14.54 39.99 3.41
3677 4066 1.135717 CACAAATCGCTGCGAAATGGA 60.136 47.619 30.40 12.13 39.99 3.41
3678 4067 1.135717 TCACAAATCGCTGCGAAATGG 60.136 47.619 30.40 22.40 39.99 3.16
3679 4068 2.171567 CTCACAAATCGCTGCGAAATG 58.828 47.619 29.48 28.35 39.99 2.32
3680 4069 1.131126 CCTCACAAATCGCTGCGAAAT 59.869 47.619 29.48 17.79 39.99 2.17
3681 4070 0.516877 CCTCACAAATCGCTGCGAAA 59.483 50.000 29.48 7.46 39.99 3.46
3682 4071 0.320334 TCCTCACAAATCGCTGCGAA 60.320 50.000 29.48 12.61 39.99 4.70
3683 4072 0.108186 ATCCTCACAAATCGCTGCGA 60.108 50.000 28.01 28.01 41.13 5.10
3684 4073 1.570813 TATCCTCACAAATCGCTGCG 58.429 50.000 17.25 17.25 0.00 5.18
3685 4074 3.198068 TCTTATCCTCACAAATCGCTGC 58.802 45.455 0.00 0.00 0.00 5.25
3686 4075 4.437239 ACTCTTATCCTCACAAATCGCTG 58.563 43.478 0.00 0.00 0.00 5.18
3687 4076 4.744795 ACTCTTATCCTCACAAATCGCT 57.255 40.909 0.00 0.00 0.00 4.93
3688 4077 4.271291 GGAACTCTTATCCTCACAAATCGC 59.729 45.833 0.00 0.00 33.98 4.58
3689 4078 4.811557 GGGAACTCTTATCCTCACAAATCG 59.188 45.833 0.00 0.00 37.14 3.34
3690 4079 5.126779 GGGGAACTCTTATCCTCACAAATC 58.873 45.833 0.00 0.00 37.40 2.17
3691 4080 4.079730 GGGGGAACTCTTATCCTCACAAAT 60.080 45.833 0.00 0.00 39.36 2.32
3692 4081 3.265995 GGGGGAACTCTTATCCTCACAAA 59.734 47.826 0.00 0.00 39.36 2.83
3693 4082 2.844348 GGGGGAACTCTTATCCTCACAA 59.156 50.000 0.00 0.00 39.36 3.33
3694 4083 2.045885 AGGGGGAACTCTTATCCTCACA 59.954 50.000 0.00 0.00 38.96 3.58
3695 4084 2.701423 GAGGGGGAACTCTTATCCTCAC 59.299 54.545 0.00 0.00 45.79 3.51
3696 4085 2.360423 GGAGGGGGAACTCTTATCCTCA 60.360 54.545 9.06 0.00 45.79 3.86
3697 4086 2.331166 GGAGGGGGAACTCTTATCCTC 58.669 57.143 0.00 0.00 45.79 3.71
3698 4087 1.061268 GGGAGGGGGAACTCTTATCCT 60.061 57.143 0.00 0.00 45.79 3.24
3699 4088 1.061268 AGGGAGGGGGAACTCTTATCC 60.061 57.143 0.00 0.00 45.79 2.59
3700 4089 2.331166 GAGGGAGGGGGAACTCTTATC 58.669 57.143 0.00 0.00 45.79 1.75
3701 4090 1.061268 GGAGGGAGGGGGAACTCTTAT 60.061 57.143 0.00 0.00 45.79 1.73
3702 4091 0.342313 GGAGGGAGGGGGAACTCTTA 59.658 60.000 0.00 0.00 45.79 2.10
3703 4092 1.083141 GGAGGGAGGGGGAACTCTT 59.917 63.158 0.00 0.00 45.79 2.85
3705 4094 2.367107 GGGAGGGAGGGGGAACTC 60.367 72.222 0.00 0.00 36.76 3.01
3706 4095 2.882143 AGGGAGGGAGGGGGAACT 60.882 66.667 0.00 0.00 0.00 3.01
3707 4096 2.367107 GAGGGAGGGAGGGGGAAC 60.367 72.222 0.00 0.00 0.00 3.62
3708 4097 3.707189 GGAGGGAGGGAGGGGGAA 61.707 72.222 0.00 0.00 0.00 3.97
3711 4100 4.179599 GAGGGAGGGAGGGAGGGG 62.180 77.778 0.00 0.00 0.00 4.79
3712 4101 4.179599 GGAGGGAGGGAGGGAGGG 62.180 77.778 0.00 0.00 0.00 4.30
3713 4102 4.179599 GGGAGGGAGGGAGGGAGG 62.180 77.778 0.00 0.00 0.00 4.30
3714 4103 3.039526 AGGGAGGGAGGGAGGGAG 61.040 72.222 0.00 0.00 0.00 4.30
3715 4104 3.036959 GAGGGAGGGAGGGAGGGA 61.037 72.222 0.00 0.00 0.00 4.20
3716 4105 4.179599 GGAGGGAGGGAGGGAGGG 62.180 77.778 0.00 0.00 0.00 4.30
3717 4106 4.179599 GGGAGGGAGGGAGGGAGG 62.180 77.778 0.00 0.00 0.00 4.30
3718 4107 3.039526 AGGGAGGGAGGGAGGGAG 61.040 72.222 0.00 0.00 0.00 4.30
3719 4108 3.036959 GAGGGAGGGAGGGAGGGA 61.037 72.222 0.00 0.00 0.00 4.20
3720 4109 4.548513 CGAGGGAGGGAGGGAGGG 62.549 77.778 0.00 0.00 0.00 4.30
3817 4524 2.520741 GAGGCGAGGGAGAGGGAG 60.521 72.222 0.00 0.00 0.00 4.30
3819 4526 4.465446 TGGAGGCGAGGGAGAGGG 62.465 72.222 0.00 0.00 0.00 4.30
3826 4533 3.965539 CCACAAGCTGGAGGCGAGG 62.966 68.421 0.00 0.00 43.95 4.63
3827 4534 2.435586 CCACAAGCTGGAGGCGAG 60.436 66.667 0.00 0.00 43.95 5.03
3828 4535 4.704833 GCCACAAGCTGGAGGCGA 62.705 66.667 14.26 0.00 43.95 5.54
3918 4626 2.620585 GCTTCAAGACAACAAGCCTTCT 59.379 45.455 0.00 0.00 37.20 2.85
4005 4714 1.613317 ATCATCCGAGTGTCCGCCAA 61.613 55.000 0.00 0.00 0.00 4.52
4051 4760 2.026636 ACCCGCCATAGTGTACAACATT 60.027 45.455 0.00 0.00 0.00 2.71
4056 4765 0.978151 ACAACCCGCCATAGTGTACA 59.022 50.000 0.00 0.00 0.00 2.90
4065 4774 1.969064 CGGATGAAACAACCCGCCA 60.969 57.895 0.00 0.00 35.29 5.69
4082 4791 2.345641 CACCATCACTACTTTTCGAGCG 59.654 50.000 0.00 0.00 0.00 5.03
4152 4901 0.533308 GGTCACCACCGCAAGTACAA 60.533 55.000 0.00 0.00 31.06 2.41
4154 4903 3.961729 GGTCACCACCGCAAGTAC 58.038 61.111 0.00 0.00 31.06 2.73
4229 4981 2.239400 AGCTTGGCAAAAAGGACTACC 58.761 47.619 0.00 0.00 0.00 3.18
4240 4993 2.629137 ACAATGTGATGAAGCTTGGCAA 59.371 40.909 2.10 0.00 0.00 4.52
4254 5007 5.142265 CGAGACATCAAGAACAACAATGTG 58.858 41.667 0.00 0.00 40.46 3.21
4261 5014 3.130633 CCACACGAGACATCAAGAACAA 58.869 45.455 0.00 0.00 0.00 2.83
4282 5054 0.030235 GTGGACAAAAACGTGGAGCC 59.970 55.000 0.00 0.00 0.00 4.70
4284 5056 3.817960 CGTGGACAAAAACGTGGAG 57.182 52.632 0.00 0.00 35.13 3.86
4289 5061 6.568057 CATTTCAAATACGTGGACAAAAACG 58.432 36.000 0.00 0.00 45.15 3.60
4290 5062 6.351749 GCATTTCAAATACGTGGACAAAAAC 58.648 36.000 0.00 0.00 0.00 2.43
4291 5063 5.174035 CGCATTTCAAATACGTGGACAAAAA 59.826 36.000 0.00 0.00 0.00 1.94
4293 5065 4.222886 CGCATTTCAAATACGTGGACAAA 58.777 39.130 0.00 0.00 0.00 2.83
4295 5067 2.809119 ACGCATTTCAAATACGTGGACA 59.191 40.909 7.61 0.00 35.33 4.02
4296 5068 3.465122 ACGCATTTCAAATACGTGGAC 57.535 42.857 7.61 0.00 35.33 4.02
4301 5073 2.542766 AGCCACGCATTTCAAATACG 57.457 45.000 0.96 0.96 0.00 3.06
4302 5074 4.142687 ACAGTAGCCACGCATTTCAAATAC 60.143 41.667 0.00 0.00 0.00 1.89
4303 5075 4.006989 ACAGTAGCCACGCATTTCAAATA 58.993 39.130 0.00 0.00 0.00 1.40
4305 5077 2.226330 ACAGTAGCCACGCATTTCAAA 58.774 42.857 0.00 0.00 0.00 2.69
4306 5078 1.890876 ACAGTAGCCACGCATTTCAA 58.109 45.000 0.00 0.00 0.00 2.69
4314 5086 8.715088 AGTAAACTTATAAAAACAGTAGCCACG 58.285 33.333 0.00 0.00 0.00 4.94
4338 5110 9.477484 GTTTGTCCGAACATAAGATATGATAGT 57.523 33.333 4.47 0.00 34.73 2.12
4339 5111 9.698309 AGTTTGTCCGAACATAAGATATGATAG 57.302 33.333 4.47 0.00 34.73 2.08
4398 5485 6.218746 ACAATTCTGATTTTCAACCTTCAGC 58.781 36.000 0.00 0.00 36.41 4.26
4399 5486 7.707893 ACAACAATTCTGATTTTCAACCTTCAG 59.292 33.333 0.00 0.00 37.52 3.02
4416 5503 5.731263 GCGAATCTAACGGTTACAACAATTC 59.269 40.000 0.00 2.15 0.00 2.17
4441 5528 7.414540 GCTCTCATGTTCGGATAAGACAAAATT 60.415 37.037 0.00 0.00 0.00 1.82
4490 5578 4.436050 CGTGATTAAAGGCTACTTGCACTG 60.436 45.833 0.00 0.00 45.15 3.66
4491 5579 3.684788 CGTGATTAAAGGCTACTTGCACT 59.315 43.478 0.00 0.00 45.15 4.40
4492 5580 3.435671 ACGTGATTAAAGGCTACTTGCAC 59.564 43.478 0.00 0.00 45.15 4.57
4493 5581 3.670625 ACGTGATTAAAGGCTACTTGCA 58.329 40.909 0.00 0.00 45.15 4.08
4494 5582 4.083484 ACAACGTGATTAAAGGCTACTTGC 60.083 41.667 0.00 0.00 36.93 4.01
4495 5583 5.607119 ACAACGTGATTAAAGGCTACTTG 57.393 39.130 0.00 0.00 36.93 3.16


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

AutoCloner maintained by Alex Coulton.