Multiple sequence alignment - TraesCS5B01G149500

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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 TraesCS5B01G149500 chr5B 100.000 6767 0 0 1 6767 277638487 277631721 0.000000e+00 12497.0
1 TraesCS5B01G149500 chr5A 93.135 3933 166 34 1 3875 328719313 328715427 0.000000e+00 5672.0
2 TraesCS5B01G149500 chr5A 93.658 883 43 11 5893 6767 328715228 328714351 0.000000e+00 1308.0
3 TraesCS5B01G149500 chr5A 96.744 215 7 0 5598 5812 328715440 328715226 6.450000e-95 359.0
4 TraesCS5B01G149500 chr5D 94.395 2837 104 17 424 3245 244369631 244366835 0.000000e+00 4307.0
5 TraesCS5B01G149500 chr5D 98.296 1702 25 2 3908 5606 363183920 363182220 0.000000e+00 2979.0
6 TraesCS5B01G149500 chr5D 93.497 1138 52 16 5617 6750 244366844 244365725 0.000000e+00 1672.0
7 TraesCS5B01G149500 chr5D 93.023 215 9 4 202 414 244369982 244369772 6.590000e-80 309.0
8 TraesCS5B01G149500 chr5D 85.526 228 9 12 1 204 244370289 244370062 4.110000e-52 217.0
9 TraesCS5B01G149500 chr1D 98.409 1697 24 1 3908 5601 107612439 107614135 0.000000e+00 2981.0
10 TraesCS5B01G149500 chr1D 100.000 28 0 0 3874 3901 107612415 107612442 1.200000e-02 52.8
11 TraesCS5B01G149500 chr6A 98.289 1695 26 1 3908 5599 610917447 610915753 0.000000e+00 2966.0
12 TraesCS5B01G149500 chr6A 100.000 28 0 0 3874 3901 610917471 610917444 1.200000e-02 52.8
13 TraesCS5B01G149500 chr6D 97.691 1732 24 5 3874 5602 72034640 72032922 0.000000e+00 2963.0
14 TraesCS5B01G149500 chr6B 97.940 1699 30 3 3908 5602 413737471 413735774 0.000000e+00 2939.0
15 TraesCS5B01G149500 chr6B 100.000 28 0 0 3874 3901 413737495 413737468 1.200000e-02 52.8
16 TraesCS5B01G149500 chr2A 97.475 1703 39 2 3908 5606 642735359 642737061 0.000000e+00 2904.0
17 TraesCS5B01G149500 chr7A 97.527 1698 39 1 3908 5602 652169806 652168109 0.000000e+00 2900.0
18 TraesCS5B01G149500 chr7A 100.000 28 0 0 3874 3901 652169830 652169803 1.200000e-02 52.8
19 TraesCS5B01G149500 chr4B 97.415 1702 36 2 3908 5601 246312938 246314639 0.000000e+00 2892.0
20 TraesCS5B01G149500 chr4A 96.309 1734 44 3 3874 5604 680330467 680328751 0.000000e+00 2830.0
21 TraesCS5B01G149500 chr2B 94.814 1697 84 2 3908 5601 216989848 216988153 0.000000e+00 2643.0
22 TraesCS5B01G149500 chr7D 92.391 184 4 3 3874 4057 95075317 95075490 3.130000e-63 254.0


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 TraesCS5B01G149500 chr5B 277631721 277638487 6766 True 12497.000000 12497 100.000000 1 6767 1 chr5B.!!$R1 6766
1 TraesCS5B01G149500 chr5A 328714351 328719313 4962 True 2446.333333 5672 94.512333 1 6767 3 chr5A.!!$R1 6766
2 TraesCS5B01G149500 chr5D 363182220 363183920 1700 True 2979.000000 2979 98.296000 3908 5606 1 chr5D.!!$R1 1698
3 TraesCS5B01G149500 chr5D 244365725 244370289 4564 True 1626.250000 4307 91.610250 1 6750 4 chr5D.!!$R2 6749
4 TraesCS5B01G149500 chr1D 107612415 107614135 1720 False 1516.900000 2981 99.204500 3874 5601 2 chr1D.!!$F1 1727
5 TraesCS5B01G149500 chr6A 610915753 610917471 1718 True 1509.400000 2966 99.144500 3874 5599 2 chr6A.!!$R1 1725
6 TraesCS5B01G149500 chr6D 72032922 72034640 1718 True 2963.000000 2963 97.691000 3874 5602 1 chr6D.!!$R1 1728
7 TraesCS5B01G149500 chr6B 413735774 413737495 1721 True 1495.900000 2939 98.970000 3874 5602 2 chr6B.!!$R1 1728
8 TraesCS5B01G149500 chr2A 642735359 642737061 1702 False 2904.000000 2904 97.475000 3908 5606 1 chr2A.!!$F1 1698
9 TraesCS5B01G149500 chr7A 652168109 652169830 1721 True 1476.400000 2900 98.763500 3874 5602 2 chr7A.!!$R1 1728
10 TraesCS5B01G149500 chr4B 246312938 246314639 1701 False 2892.000000 2892 97.415000 3908 5601 1 chr4B.!!$F1 1693
11 TraesCS5B01G149500 chr4A 680328751 680330467 1716 True 2830.000000 2830 96.309000 3874 5604 1 chr4A.!!$R1 1730
12 TraesCS5B01G149500 chr2B 216988153 216989848 1695 True 2643.000000 2643 94.814000 3908 5601 1 chr2B.!!$R1 1693

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
489 741 1.150135 TGGAGGGTCCTCTCTTTGTCT 59.850 52.381 15.74 0.0 42.38 3.41 F
1191 1471 0.322456 CCCCGTGCCTTTTCATCTCA 60.322 55.000 0.00 0.0 0.00 3.27 F
1401 1681 0.618968 ACCCGCTCCTCTTCATCCTT 60.619 55.000 0.00 0.0 0.00 3.36 F
3253 3537 1.032114 GCAAGGGGCATACTCACACC 61.032 60.000 0.00 0.0 43.97 4.16 F
3902 4193 0.039978 CGCTGCTATTCGTCCTCGAT 60.040 55.000 0.00 0.0 45.65 3.59 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1761 2041 0.178891 TGCTCTTCTCCACCTCCCTT 60.179 55.000 0.0 0.0 0.00 3.95 R
2140 2420 1.593006 CACGAGTGAACCTGTTGTGAC 59.407 52.381 0.0 0.0 0.00 3.67 R
3259 3543 1.299541 CATGGACAGATAACCACGCC 58.700 55.000 0.0 0.0 39.06 5.68 R
4864 5159 3.684788 ACAAGCATCCATAACGTGAAGAC 59.315 43.478 0.0 0.0 0.00 3.01 R
5858 6166 0.466124 AAGCGATAACCCTCAGGAGC 59.534 55.000 0.0 0.0 36.73 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
100 101 3.429410 GCTACACCCAGATGCAATTTTCC 60.429 47.826 0.00 0.00 0.00 3.13
131 156 2.772077 TACGGCTGCTAACATCCAAA 57.228 45.000 0.00 0.00 31.11 3.28
135 160 3.206150 CGGCTGCTAACATCCAAACTAT 58.794 45.455 0.00 0.00 31.11 2.12
137 162 4.211374 CGGCTGCTAACATCCAAACTATAC 59.789 45.833 0.00 0.00 31.11 1.47
150 175 8.589338 CATCCAAACTATACTACTGCCTAGATT 58.411 37.037 0.00 0.00 0.00 2.40
151 176 9.824216 ATCCAAACTATACTACTGCCTAGATTA 57.176 33.333 0.00 0.00 0.00 1.75
152 177 9.075678 TCCAAACTATACTACTGCCTAGATTAC 57.924 37.037 0.00 0.00 0.00 1.89
153 178 8.305317 CCAAACTATACTACTGCCTAGATTACC 58.695 40.741 0.00 0.00 0.00 2.85
154 179 8.305317 CAAACTATACTACTGCCTAGATTACCC 58.695 40.741 0.00 0.00 0.00 3.69
221 332 8.902806 TGATGTGTAGTTTCTCAGAAAAATTGT 58.097 29.630 0.00 0.00 0.00 2.71
241 352 3.242706 TGTGCTGATCAACTGTTGAAACG 60.243 43.478 25.26 16.61 43.95 3.60
242 353 2.286950 TGCTGATCAACTGTTGAAACGC 60.287 45.455 25.26 23.81 43.95 4.84
370 489 1.878656 CTGACCGACCGGCTTTCTCT 61.879 60.000 8.55 0.00 39.32 3.10
385 506 4.381079 GCTTTCTCTGATCTACGGACACTT 60.381 45.833 0.00 0.00 0.00 3.16
403 524 6.204495 GGACACTTCGAACCTATACCTACTAG 59.796 46.154 0.00 0.00 0.00 2.57
404 525 6.657875 ACACTTCGAACCTATACCTACTAGT 58.342 40.000 0.00 0.00 0.00 2.57
405 526 7.796054 ACACTTCGAACCTATACCTACTAGTA 58.204 38.462 1.89 1.89 0.00 1.82
489 741 1.150135 TGGAGGGTCCTCTCTTTGTCT 59.850 52.381 15.74 0.00 42.38 3.41
517 769 3.328931 TGAATTCAGAAGCCCTTGTCTCT 59.671 43.478 3.38 0.00 0.00 3.10
532 791 3.463944 TGTCTCTTGAACCGAGAAAACC 58.536 45.455 0.00 0.00 39.08 3.27
541 800 1.202651 ACCGAGAAAACCACTGTCCAG 60.203 52.381 0.00 0.00 0.00 3.86
585 844 4.201940 TGGATCTTAATTCACAATGCAGCG 60.202 41.667 0.00 0.00 0.00 5.18
597 856 3.181503 ACAATGCAGCGAACATCTGATTC 60.182 43.478 0.00 0.00 33.54 2.52
671 938 3.773860 TTTGTTGCCGTATGCTTATGG 57.226 42.857 12.51 12.51 42.00 2.74
686 953 3.608474 GCTTATGGTCGTTTTTCGCTGTT 60.608 43.478 0.00 0.00 39.67 3.16
746 1013 2.105477 ACCAGACACAGCAAGAGAACAT 59.895 45.455 0.00 0.00 0.00 2.71
750 1017 2.740981 GACACAGCAAGAGAACATCAGG 59.259 50.000 0.00 0.00 0.00 3.86
804 1071 6.427547 TGCCATGATCCTTGATTTTTCAAAAC 59.572 34.615 0.00 0.00 0.00 2.43
908 1175 2.307098 AGAACTGTAGAAGCAGGGCAAT 59.693 45.455 0.00 0.00 40.59 3.56
909 1176 3.519510 AGAACTGTAGAAGCAGGGCAATA 59.480 43.478 0.00 0.00 40.59 1.90
910 1177 4.164988 AGAACTGTAGAAGCAGGGCAATAT 59.835 41.667 0.00 0.00 40.59 1.28
911 1178 3.813443 ACTGTAGAAGCAGGGCAATATG 58.187 45.455 0.00 0.00 40.59 1.78
912 1179 3.455910 ACTGTAGAAGCAGGGCAATATGA 59.544 43.478 0.00 0.00 40.59 2.15
913 1180 4.103785 ACTGTAGAAGCAGGGCAATATGAT 59.896 41.667 0.00 0.00 40.59 2.45
956 1230 2.726832 AGTAAAGAGGACGTGCAGAC 57.273 50.000 10.52 0.03 0.00 3.51
1191 1471 0.322456 CCCCGTGCCTTTTCATCTCA 60.322 55.000 0.00 0.00 0.00 3.27
1216 1496 2.766229 GCCACTCCTCCCTCTCCC 60.766 72.222 0.00 0.00 0.00 4.30
1221 1501 3.695825 TCCTCCCTCTCCCACCCC 61.696 72.222 0.00 0.00 0.00 4.95
1277 1557 3.732849 GCCACCCTCCTCCCCTTG 61.733 72.222 0.00 0.00 0.00 3.61
1305 1585 3.701604 CTTCTTCTCGTCCCGCCGG 62.702 68.421 0.00 0.00 0.00 6.13
1401 1681 0.618968 ACCCGCTCCTCTTCATCCTT 60.619 55.000 0.00 0.00 0.00 3.36
1425 1705 4.493747 CCCTCCGCTTCCGACGAC 62.494 72.222 0.00 0.00 36.29 4.34
1570 1850 4.697756 CGCCCTTCCCGTTGCTGA 62.698 66.667 0.00 0.00 0.00 4.26
1571 1851 3.056328 GCCCTTCCCGTTGCTGAC 61.056 66.667 0.00 0.00 0.00 3.51
1635 1915 1.755783 CATTGGGGAGCAGAAGGCC 60.756 63.158 0.00 0.00 46.50 5.19
1742 2022 1.418097 ATGTATGCCGGGATGCTCCA 61.418 55.000 23.48 12.60 38.64 3.86
1743 2023 1.376466 GTATGCCGGGATGCTCCAT 59.624 57.895 20.08 6.20 38.64 3.41
1761 2041 1.342496 CATAGGATGGAGAAGCTCGCA 59.658 52.381 0.00 0.00 0.00 5.10
1989 2269 8.679288 AAGTTTTAATCGAAAATGATCAGCTG 57.321 30.769 7.63 7.63 39.22 4.24
2140 2420 8.146479 TCTGGTCAATATTTGATTCTCATTCG 57.854 34.615 0.00 0.00 42.47 3.34
2234 2515 1.337703 TGCTCAATTGGTTGTCAGCAC 59.662 47.619 11.90 0.00 36.69 4.40
2447 2728 7.879070 TGCTTGATTCCATGAGCTAAAATATC 58.121 34.615 0.00 0.00 36.16 1.63
2519 2800 2.926778 AGAGCTGCTCTTGTTCAAGT 57.073 45.000 25.80 1.22 37.60 3.16
2565 2846 6.946009 TGAGTTGGAGAAAGGGTTTATAAAGG 59.054 38.462 0.00 0.00 0.00 3.11
2590 2871 1.556911 GCCAGTCCTGAGATTTGGAGA 59.443 52.381 0.00 0.00 33.58 3.71
2636 2917 3.181472 GGGCCCTTGATATGCAAAAGAAG 60.181 47.826 17.04 0.00 35.74 2.85
2951 3234 5.355910 TCTGAAAAAGCCTTTACACGAAACT 59.644 36.000 0.00 0.00 0.00 2.66
2968 3251 9.019764 ACACGAAACTGAAAAGTAAAATGAATG 57.980 29.630 0.00 0.00 0.00 2.67
2969 3252 9.232082 CACGAAACTGAAAAGTAAAATGAATGA 57.768 29.630 0.00 0.00 0.00 2.57
3172 3456 4.410492 AATTGATTGCTCGAGTCAACAC 57.590 40.909 19.72 16.93 34.98 3.32
3253 3537 1.032114 GCAAGGGGCATACTCACACC 61.032 60.000 0.00 0.00 43.97 4.16
3259 3543 0.870307 GGCATACTCACACCGCGTAG 60.870 60.000 4.92 0.00 0.00 3.51
3376 3660 5.587844 CCAGTTAGTACAGACTACATACGGT 59.412 44.000 0.00 0.00 37.91 4.83
3545 3836 1.853963 TCTGGGTCCAGAGCTAGTTC 58.146 55.000 15.14 0.00 46.80 3.01
3601 3892 4.473444 ACATGAGGTGAGAACAAAATGGT 58.527 39.130 0.00 0.00 0.00 3.55
3674 3965 4.796038 AAGGCGCTACTGTTCTTACTTA 57.204 40.909 7.64 0.00 0.00 2.24
3707 3998 0.815734 GTACTAGAGGTGCAGGCGAA 59.184 55.000 0.00 0.00 0.00 4.70
3744 4035 3.947834 AGAACAATGGGAATTTAGCCTCG 59.052 43.478 0.00 0.00 0.00 4.63
3746 4037 1.338020 CAATGGGAATTTAGCCTCGCC 59.662 52.381 0.00 0.00 0.00 5.54
3765 4056 1.698506 CAAGGTGGTGGCCTTTTGTA 58.301 50.000 3.32 0.00 45.91 2.41
3786 4077 8.795842 TTGTAGTTTGAGGTCTTAAAAACTGA 57.204 30.769 9.82 0.00 41.60 3.41
3834 4125 2.238521 TGTTGTTGGAATGCCTTCTCC 58.761 47.619 1.62 0.00 34.31 3.71
3838 4129 1.004745 GTTGGAATGCCTTCTCCCTGA 59.995 52.381 1.62 0.00 34.31 3.86
3843 4134 2.797177 ATGCCTTCTCCCTGAAAGAC 57.203 50.000 0.00 0.00 34.07 3.01
3865 4156 3.243367 CCAATCCTCTGTTGCGTCAAAAA 60.243 43.478 0.00 0.00 0.00 1.94
3866 4157 3.904136 ATCCTCTGTTGCGTCAAAAAG 57.096 42.857 0.00 0.00 0.00 2.27
3867 4158 2.639065 TCCTCTGTTGCGTCAAAAAGT 58.361 42.857 0.00 0.00 0.00 2.66
3868 4159 3.013921 TCCTCTGTTGCGTCAAAAAGTT 58.986 40.909 0.00 0.00 0.00 2.66
3869 4160 3.442273 TCCTCTGTTGCGTCAAAAAGTTT 59.558 39.130 0.00 0.00 0.00 2.66
3870 4161 4.636648 TCCTCTGTTGCGTCAAAAAGTTTA 59.363 37.500 0.00 0.00 0.00 2.01
3871 4162 5.124138 TCCTCTGTTGCGTCAAAAAGTTTAA 59.876 36.000 0.00 0.00 0.00 1.52
3872 4163 5.455525 CCTCTGTTGCGTCAAAAAGTTTAAG 59.544 40.000 0.00 0.00 0.00 1.85
3897 4188 3.330853 CGCCGCTGCTATTCGTCC 61.331 66.667 0.00 0.00 34.43 4.79
3898 4189 2.107141 GCCGCTGCTATTCGTCCT 59.893 61.111 0.00 0.00 33.53 3.85
3899 4190 1.951631 GCCGCTGCTATTCGTCCTC 60.952 63.158 0.00 0.00 33.53 3.71
3900 4191 1.658717 CCGCTGCTATTCGTCCTCG 60.659 63.158 0.00 0.00 38.55 4.63
3901 4192 1.355563 CGCTGCTATTCGTCCTCGA 59.644 57.895 0.00 0.00 44.66 4.04
3902 4193 0.039978 CGCTGCTATTCGTCCTCGAT 60.040 55.000 0.00 0.00 45.65 3.59
3903 4194 1.692296 GCTGCTATTCGTCCTCGATC 58.308 55.000 0.00 0.00 45.65 3.69
3904 4195 1.268352 GCTGCTATTCGTCCTCGATCT 59.732 52.381 0.00 0.00 45.65 2.75
3905 4196 2.667171 GCTGCTATTCGTCCTCGATCTC 60.667 54.545 0.00 0.00 45.65 2.75
3906 4197 1.531578 TGCTATTCGTCCTCGATCTCG 59.468 52.381 0.00 0.00 45.65 4.04
4116 4408 2.357154 GGGTCTATGCACCAACTTCCAT 60.357 50.000 0.00 0.00 38.32 3.41
4802 5097 3.785859 GCGTGAGGCCCTCCATGA 61.786 66.667 8.62 0.00 34.80 3.07
4864 5159 1.379044 GGTGCCCACATCCTCCAAG 60.379 63.158 0.40 0.00 0.00 3.61
4935 5230 6.668541 ACTGACGATGACATTATTTGGAAG 57.331 37.500 0.00 0.00 0.00 3.46
5320 5616 1.134431 CCTGCTTGCAAAACCCAAACT 60.134 47.619 0.00 0.00 0.00 2.66
5659 5967 0.603569 ACTCGAGTAGTTGCCACTGG 59.396 55.000 18.46 0.00 33.35 4.00
5717 6025 5.875224 TGTCCATGTGATTCTGTAGGAAAA 58.125 37.500 0.00 0.00 37.49 2.29
5738 6046 1.541310 CGGAACCTGGTGCTGAGGTA 61.541 60.000 8.02 0.00 43.42 3.08
5801 6109 3.260884 TCTTTCGGTCTCAGCAAGGTATT 59.739 43.478 0.00 0.00 0.00 1.89
5802 6110 3.695830 TTCGGTCTCAGCAAGGTATTT 57.304 42.857 0.00 0.00 0.00 1.40
5817 6125 5.117406 AGGTATTTCCTGAATTGGGACTC 57.883 43.478 0.00 0.00 46.19 3.36
5818 6126 4.790790 AGGTATTTCCTGAATTGGGACTCT 59.209 41.667 0.00 0.00 46.19 3.24
5819 6127 5.254032 AGGTATTTCCTGAATTGGGACTCTT 59.746 40.000 0.00 0.00 46.19 2.85
5820 6128 5.358160 GGTATTTCCTGAATTGGGACTCTTG 59.642 44.000 0.00 0.00 31.94 3.02
5821 6129 4.453480 TTTCCTGAATTGGGACTCTTGT 57.547 40.909 0.00 0.00 31.94 3.16
5822 6130 5.576563 TTTCCTGAATTGGGACTCTTGTA 57.423 39.130 0.00 0.00 31.94 2.41
5823 6131 5.576563 TTCCTGAATTGGGACTCTTGTAA 57.423 39.130 0.00 0.00 31.94 2.41
5824 6132 5.576563 TCCTGAATTGGGACTCTTGTAAA 57.423 39.130 0.00 0.00 0.00 2.01
5825 6133 5.947663 TCCTGAATTGGGACTCTTGTAAAA 58.052 37.500 0.00 0.00 0.00 1.52
5826 6134 5.768164 TCCTGAATTGGGACTCTTGTAAAAC 59.232 40.000 0.00 0.00 0.00 2.43
5827 6135 5.770162 CCTGAATTGGGACTCTTGTAAAACT 59.230 40.000 0.00 0.00 0.00 2.66
5828 6136 6.265422 CCTGAATTGGGACTCTTGTAAAACTT 59.735 38.462 0.00 0.00 0.00 2.66
5829 6137 7.447238 CCTGAATTGGGACTCTTGTAAAACTTA 59.553 37.037 0.00 0.00 0.00 2.24
5830 6138 8.161699 TGAATTGGGACTCTTGTAAAACTTAC 57.838 34.615 0.00 0.00 0.00 2.34
5831 6139 7.996644 TGAATTGGGACTCTTGTAAAACTTACT 59.003 33.333 0.00 0.00 0.00 2.24
5832 6140 7.981102 ATTGGGACTCTTGTAAAACTTACTC 57.019 36.000 0.00 0.00 0.00 2.59
5833 6141 6.742559 TGGGACTCTTGTAAAACTTACTCT 57.257 37.500 0.00 0.00 0.00 3.24
5834 6142 7.133133 TGGGACTCTTGTAAAACTTACTCTT 57.867 36.000 0.00 0.00 0.00 2.85
5835 6143 6.990349 TGGGACTCTTGTAAAACTTACTCTTG 59.010 38.462 0.00 0.00 0.00 3.02
5836 6144 6.990939 GGGACTCTTGTAAAACTTACTCTTGT 59.009 38.462 0.00 0.00 0.00 3.16
5837 6145 8.146412 GGGACTCTTGTAAAACTTACTCTTGTA 58.854 37.037 0.00 0.00 0.00 2.41
5838 6146 9.538508 GGACTCTTGTAAAACTTACTCTTGTAA 57.461 33.333 0.00 0.00 37.16 2.41
5845 6153 9.777575 TGTAAAACTTACTCTTGTAAAACTTGC 57.222 29.630 0.00 0.00 38.09 4.01
5846 6154 9.999009 GTAAAACTTACTCTTGTAAAACTTGCT 57.001 29.630 0.00 0.00 38.09 3.91
5848 6156 9.569167 AAAACTTACTCTTGTAAAACTTGCTTC 57.431 29.630 0.00 0.00 38.09 3.86
5849 6157 7.859325 ACTTACTCTTGTAAAACTTGCTTCA 57.141 32.000 0.00 0.00 38.09 3.02
5850 6158 8.276252 ACTTACTCTTGTAAAACTTGCTTCAA 57.724 30.769 0.00 0.00 38.09 2.69
5851 6159 8.903820 ACTTACTCTTGTAAAACTTGCTTCAAT 58.096 29.630 0.00 0.00 38.09 2.57
5852 6160 9.173939 CTTACTCTTGTAAAACTTGCTTCAATG 57.826 33.333 0.00 0.00 38.09 2.82
5853 6161 7.100458 ACTCTTGTAAAACTTGCTTCAATGT 57.900 32.000 0.00 0.00 0.00 2.71
5854 6162 7.196331 ACTCTTGTAAAACTTGCTTCAATGTC 58.804 34.615 0.00 0.00 0.00 3.06
5855 6163 7.067494 ACTCTTGTAAAACTTGCTTCAATGTCT 59.933 33.333 0.00 0.00 0.00 3.41
5856 6164 7.195646 TCTTGTAAAACTTGCTTCAATGTCTG 58.804 34.615 0.00 0.00 0.00 3.51
5857 6165 6.449635 TGTAAAACTTGCTTCAATGTCTGT 57.550 33.333 0.00 0.00 0.00 3.41
5858 6166 6.264832 TGTAAAACTTGCTTCAATGTCTGTG 58.735 36.000 0.00 0.00 0.00 3.66
5859 6167 3.360249 AACTTGCTTCAATGTCTGTGC 57.640 42.857 0.00 0.00 0.00 4.57
5860 6168 2.579873 ACTTGCTTCAATGTCTGTGCT 58.420 42.857 0.00 0.00 0.00 4.40
5861 6169 2.551459 ACTTGCTTCAATGTCTGTGCTC 59.449 45.455 0.00 0.00 0.00 4.26
5862 6170 1.527034 TGCTTCAATGTCTGTGCTCC 58.473 50.000 0.00 0.00 0.00 4.70
5863 6171 1.072806 TGCTTCAATGTCTGTGCTCCT 59.927 47.619 0.00 0.00 0.00 3.69
5864 6172 1.467734 GCTTCAATGTCTGTGCTCCTG 59.532 52.381 0.00 0.00 0.00 3.86
5865 6173 2.873245 GCTTCAATGTCTGTGCTCCTGA 60.873 50.000 0.00 0.00 0.00 3.86
5866 6174 2.756840 TCAATGTCTGTGCTCCTGAG 57.243 50.000 0.00 0.00 0.00 3.35
5867 6175 1.277273 TCAATGTCTGTGCTCCTGAGG 59.723 52.381 0.00 0.00 0.00 3.86
5868 6176 0.617413 AATGTCTGTGCTCCTGAGGG 59.383 55.000 0.00 0.00 0.00 4.30
5869 6177 0.546267 ATGTCTGTGCTCCTGAGGGT 60.546 55.000 0.00 0.00 0.00 4.34
5870 6178 0.764369 TGTCTGTGCTCCTGAGGGTT 60.764 55.000 0.00 0.00 0.00 4.11
5871 6179 1.267121 GTCTGTGCTCCTGAGGGTTA 58.733 55.000 0.00 0.00 0.00 2.85
5872 6180 1.834263 GTCTGTGCTCCTGAGGGTTAT 59.166 52.381 0.00 0.00 0.00 1.89
5873 6181 2.111384 TCTGTGCTCCTGAGGGTTATC 58.889 52.381 0.00 0.00 0.00 1.75
5874 6182 0.824109 TGTGCTCCTGAGGGTTATCG 59.176 55.000 0.00 0.00 0.00 2.92
5875 6183 0.530870 GTGCTCCTGAGGGTTATCGC 60.531 60.000 0.00 0.00 0.00 4.58
5876 6184 0.687757 TGCTCCTGAGGGTTATCGCT 60.688 55.000 0.00 0.00 39.56 4.93
5877 6185 0.466124 GCTCCTGAGGGTTATCGCTT 59.534 55.000 0.00 0.00 36.98 4.68
5878 6186 1.687123 GCTCCTGAGGGTTATCGCTTA 59.313 52.381 0.00 0.00 36.98 3.09
5879 6187 2.546162 GCTCCTGAGGGTTATCGCTTAC 60.546 54.545 0.00 0.00 36.98 2.34
5880 6188 2.959707 CTCCTGAGGGTTATCGCTTACT 59.040 50.000 0.00 0.00 36.98 2.24
5881 6189 2.957006 TCCTGAGGGTTATCGCTTACTC 59.043 50.000 0.00 0.00 36.98 2.59
5882 6190 2.959707 CCTGAGGGTTATCGCTTACTCT 59.040 50.000 0.00 0.00 36.98 3.24
5883 6191 3.385111 CCTGAGGGTTATCGCTTACTCTT 59.615 47.826 0.00 0.00 36.98 2.85
5884 6192 4.141914 CCTGAGGGTTATCGCTTACTCTTT 60.142 45.833 0.00 0.00 36.98 2.52
5885 6193 5.416271 TGAGGGTTATCGCTTACTCTTTT 57.584 39.130 0.00 0.00 36.98 2.27
5886 6194 5.175859 TGAGGGTTATCGCTTACTCTTTTG 58.824 41.667 0.00 0.00 36.98 2.44
5887 6195 5.161943 AGGGTTATCGCTTACTCTTTTGT 57.838 39.130 0.00 0.00 32.92 2.83
5888 6196 6.071221 TGAGGGTTATCGCTTACTCTTTTGTA 60.071 38.462 0.00 0.00 36.98 2.41
5889 6197 6.338937 AGGGTTATCGCTTACTCTTTTGTAG 58.661 40.000 0.00 0.00 32.92 2.74
5890 6198 6.070938 AGGGTTATCGCTTACTCTTTTGTAGT 60.071 38.462 0.00 0.00 32.92 2.73
5891 6199 6.592994 GGGTTATCGCTTACTCTTTTGTAGTT 59.407 38.462 0.00 0.00 0.00 2.24
5979 6361 8.717717 AGGGTGACTAATTGATGATCTTGATTA 58.282 33.333 0.00 0.00 0.00 1.75
6014 6396 6.978343 TTCGTTCATATTGGAACTGGTAAG 57.022 37.500 0.00 0.00 43.87 2.34
6050 6432 4.529897 AGATTCCAGCACATTTCATAGCA 58.470 39.130 0.00 0.00 0.00 3.49
6056 6438 4.037089 CCAGCACATTTCATAGCATGCTAA 59.963 41.667 30.06 16.80 41.32 3.09
6140 6523 2.094803 TGAAATGTTGCTATGTTGGCGG 60.095 45.455 0.00 0.00 0.00 6.13
6183 6568 6.878923 TGTATAACATATCAACCAGCCTATGC 59.121 38.462 0.00 0.00 37.95 3.14
6222 6607 3.865011 ACTCTCTCTGCAGTGTGTATG 57.135 47.619 14.67 9.40 0.00 2.39
6443 6828 5.304357 TGATGCTCCTCCTATTCGTTTATCA 59.696 40.000 0.00 0.00 0.00 2.15
6531 6916 9.812347 TTATGGAGATAATGATTTGTTATGGCT 57.188 29.630 0.00 0.00 0.00 4.75
6549 6934 9.546909 GTTATGGCTATTATGATTCGTTGATTG 57.453 33.333 0.00 0.00 0.00 2.67
6641 7027 2.480244 GCCCTCGAAAAATCAGGCAATC 60.480 50.000 0.00 0.00 40.20 2.67
6642 7028 3.019564 CCCTCGAAAAATCAGGCAATCT 58.980 45.455 0.00 0.00 0.00 2.40
6643 7029 3.065925 CCCTCGAAAAATCAGGCAATCTC 59.934 47.826 0.00 0.00 0.00 2.75
6644 7030 3.242543 CCTCGAAAAATCAGGCAATCTCG 60.243 47.826 0.00 0.00 0.00 4.04
6645 7031 2.095853 TCGAAAAATCAGGCAATCTCGC 59.904 45.455 0.00 0.00 0.00 5.03
6646 7032 2.096496 CGAAAAATCAGGCAATCTCGCT 59.904 45.455 0.00 0.00 0.00 4.93
6647 7033 3.689346 GAAAAATCAGGCAATCTCGCTC 58.311 45.455 0.00 0.00 0.00 5.03
6648 7034 2.408271 AAATCAGGCAATCTCGCTCA 57.592 45.000 0.00 0.00 0.00 4.26
6649 7035 1.950828 AATCAGGCAATCTCGCTCAG 58.049 50.000 0.00 0.00 0.00 3.35
6650 7036 0.532417 ATCAGGCAATCTCGCTCAGC 60.532 55.000 0.00 0.00 0.00 4.26
6651 7037 1.153409 CAGGCAATCTCGCTCAGCT 60.153 57.895 0.00 0.00 0.00 4.24
6652 7038 0.743701 CAGGCAATCTCGCTCAGCTT 60.744 55.000 0.00 0.00 0.00 3.74
6654 7040 0.807496 GGCAATCTCGCTCAGCTTTT 59.193 50.000 0.00 0.00 0.00 2.27
6728 7114 0.673644 ATTTGACACGAAGGGGCTCG 60.674 55.000 0.00 0.00 44.50 5.03
6735 7121 2.998949 GAAGGGGCTCGGATTGGT 59.001 61.111 0.00 0.00 0.00 3.67
6742 7129 1.534729 GGCTCGGATTGGTTGACTTT 58.465 50.000 0.00 0.00 0.00 2.66
6745 7132 3.694566 GGCTCGGATTGGTTGACTTTAAT 59.305 43.478 0.00 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
131 156 7.345958 AGGGTAATCTAGGCAGTAGTATAGT 57.654 40.000 0.00 0.00 0.00 2.12
135 160 6.022107 TGAAGGGTAATCTAGGCAGTAGTA 57.978 41.667 0.00 0.00 0.00 1.82
137 162 4.896482 ACTGAAGGGTAATCTAGGCAGTAG 59.104 45.833 0.00 0.00 33.99 2.57
150 175 1.053424 ACGGCTGAAACTGAAGGGTA 58.947 50.000 0.00 0.00 0.00 3.69
151 176 0.182775 AACGGCTGAAACTGAAGGGT 59.817 50.000 0.00 0.00 0.00 4.34
152 177 1.318576 AAACGGCTGAAACTGAAGGG 58.681 50.000 0.00 0.00 0.00 3.95
153 178 4.215399 TGATAAAACGGCTGAAACTGAAGG 59.785 41.667 0.00 0.00 0.00 3.46
154 179 5.049405 AGTGATAAAACGGCTGAAACTGAAG 60.049 40.000 0.00 0.00 0.00 3.02
221 332 2.286950 GCGTTTCAACAGTTGATCAGCA 60.287 45.455 16.89 0.00 39.84 4.41
241 352 1.895131 ACAATCCATCCAACACAAGGC 59.105 47.619 0.00 0.00 0.00 4.35
242 353 3.156293 TGACAATCCATCCAACACAAGG 58.844 45.455 0.00 0.00 0.00 3.61
370 489 2.163010 GGTTCGAAGTGTCCGTAGATCA 59.837 50.000 0.00 0.00 0.00 2.92
404 525 8.898761 GCAGCAGCTTAGATAGATACTTAGATA 58.101 37.037 0.00 0.00 37.91 1.98
405 526 7.771183 GCAGCAGCTTAGATAGATACTTAGAT 58.229 38.462 0.00 0.00 37.91 1.98
513 765 3.134081 AGTGGTTTTCTCGGTTCAAGAGA 59.866 43.478 0.00 0.00 42.39 3.10
517 769 2.940410 GACAGTGGTTTTCTCGGTTCAA 59.060 45.455 0.00 0.00 0.00 2.69
532 791 3.458189 AGAAACGAGAAACTGGACAGTG 58.542 45.455 5.63 0.00 41.58 3.66
562 821 4.201940 CGCTGCATTGTGAATTAAGATCCA 60.202 41.667 0.00 0.00 0.00 3.41
574 833 1.465777 TCAGATGTTCGCTGCATTGTG 59.534 47.619 0.00 0.00 33.45 3.33
578 837 1.596260 CGAATCAGATGTTCGCTGCAT 59.404 47.619 0.00 0.00 41.43 3.96
585 844 6.146184 TCAGTTCAGTTTCGAATCAGATGTTC 59.854 38.462 8.83 0.00 0.00 3.18
597 856 3.519908 TCGCATTTCAGTTCAGTTTCG 57.480 42.857 0.00 0.00 0.00 3.46
671 938 2.284232 GCAAACAACAGCGAAAAACGAC 60.284 45.455 0.00 0.00 45.77 4.34
686 953 4.020543 AGTAAACAACAGGAAGGCAAACA 58.979 39.130 0.00 0.00 0.00 2.83
746 1013 1.564348 GGGCCTGAATCTAAACCCTGA 59.436 52.381 0.84 0.00 34.34 3.86
750 1017 1.101635 GCCGGGCCTGAATCTAAACC 61.102 60.000 15.09 0.00 0.00 3.27
781 1048 7.966246 TGTTTTGAAAAATCAAGGATCATGG 57.034 32.000 0.00 0.00 0.00 3.66
804 1071 9.136952 GATCTTTTGAAACCATCTTCAAGAATG 57.863 33.333 0.00 0.00 44.06 2.67
900 1167 2.578786 TCTGCACATCATATTGCCCTG 58.421 47.619 0.00 0.00 38.00 4.45
908 1175 2.279741 GACCGCTTTCTGCACATCATA 58.720 47.619 0.00 0.00 43.06 2.15
909 1176 1.089920 GACCGCTTTCTGCACATCAT 58.910 50.000 0.00 0.00 43.06 2.45
910 1177 1.291184 CGACCGCTTTCTGCACATCA 61.291 55.000 0.00 0.00 43.06 3.07
911 1178 1.291877 ACGACCGCTTTCTGCACATC 61.292 55.000 0.00 0.00 43.06 3.06
912 1179 0.884704 AACGACCGCTTTCTGCACAT 60.885 50.000 0.00 0.00 43.06 3.21
913 1180 1.522806 AACGACCGCTTTCTGCACA 60.523 52.632 0.00 0.00 43.06 4.57
928 1202 5.029014 CACGTCCTCTTTACTATCTCAACG 58.971 45.833 0.00 0.00 0.00 4.10
956 1230 2.094338 GGGGACGTGTAAAGGTCAGTAG 60.094 54.545 7.98 0.00 34.87 2.57
1134 1414 1.305623 GTAGTCGGAGAGGGTGGGA 59.694 63.158 0.00 0.00 36.95 4.37
1191 1471 2.066999 GGAGGAGTGGCCGGAGATT 61.067 63.158 5.05 0.00 43.43 2.40
1216 1496 2.284921 TGAGAGGGAGCAGGGGTG 60.285 66.667 0.00 0.00 0.00 4.61
1221 1501 1.120795 GGGGATCTGAGAGGGAGCAG 61.121 65.000 0.00 0.00 0.00 4.24
1260 1540 3.732849 CAAGGGGAGGAGGGTGGC 61.733 72.222 0.00 0.00 0.00 5.01
1401 1681 2.683933 GAAGCGGAGGGGGAGACA 60.684 66.667 0.00 0.00 0.00 3.41
1425 1705 1.608717 CGAAGGAGTGGGTGGAGAGG 61.609 65.000 0.00 0.00 0.00 3.69
1623 1903 3.082579 ATCGACGGCCTTCTGCTCC 62.083 63.158 7.75 0.00 40.92 4.70
1635 1915 2.104132 TCCACCATCGCATCGACG 59.896 61.111 0.00 0.00 39.18 5.12
1742 2022 1.709578 TGCGAGCTTCTCCATCCTAT 58.290 50.000 0.00 0.00 0.00 2.57
1743 2023 1.410517 CTTGCGAGCTTCTCCATCCTA 59.589 52.381 0.00 0.00 0.00 2.94
1761 2041 0.178891 TGCTCTTCTCCACCTCCCTT 60.179 55.000 0.00 0.00 0.00 3.95
1862 2142 0.740737 ATGGTTTGCGCAATAGCTCC 59.259 50.000 25.64 19.64 39.10 4.70
1989 2269 2.973694 TAATAGTCACCGTTGCTCCC 57.026 50.000 0.00 0.00 0.00 4.30
2093 2373 7.337184 CCAGAATGACTAGTTCTCTACACTACA 59.663 40.741 0.00 0.00 39.69 2.74
2094 2374 7.337436 ACCAGAATGACTAGTTCTCTACACTAC 59.663 40.741 0.00 0.00 39.69 2.73
2095 2375 7.403671 ACCAGAATGACTAGTTCTCTACACTA 58.596 38.462 0.00 0.00 39.69 2.74
2096 2376 6.249951 ACCAGAATGACTAGTTCTCTACACT 58.750 40.000 0.00 0.00 39.69 3.55
2097 2377 6.151312 TGACCAGAATGACTAGTTCTCTACAC 59.849 42.308 0.00 0.00 39.69 2.90
2140 2420 1.593006 CACGAGTGAACCTGTTGTGAC 59.407 52.381 0.00 0.00 0.00 3.67
2406 2687 1.751927 GCATCTTGGTGGAGGCAGG 60.752 63.158 0.00 0.00 41.80 4.85
2447 2728 7.339466 AGCCATTTTACTGGGACTTTATAGTTG 59.661 37.037 0.00 0.00 36.75 3.16
2519 2800 3.751175 CAGTATGTTCCGCCTTTTCTTGA 59.249 43.478 0.00 0.00 0.00 3.02
2636 2917 7.826260 TTCCACAAGAAAAACTGATTTGTTC 57.174 32.000 0.00 0.00 30.15 3.18
2737 3018 3.574614 ACATTTAAAATGTGGCAGCGAC 58.425 40.909 0.00 0.00 0.00 5.19
2808 3089 5.706916 TCGGTATATTTAGTGAGATTCGCC 58.293 41.667 0.00 0.00 0.00 5.54
2851 3132 7.120923 AGCCTTATCTGATTTGCATTTTCAT 57.879 32.000 0.00 0.00 0.00 2.57
2967 3250 9.944376 ACACTGATAGTATTTTAGCTTTCTTCA 57.056 29.630 0.00 0.00 0.00 3.02
2969 3252 8.669243 GCACACTGATAGTATTTTAGCTTTCTT 58.331 33.333 0.00 0.00 0.00 2.52
3008 3291 2.418628 TGAGTTTGCCAGCTAAATACGC 59.581 45.455 0.00 0.00 0.00 4.42
3172 3456 3.004524 GTGTAGTAGATAGCAGGTTCCCG 59.995 52.174 0.00 0.00 0.00 5.14
3259 3543 1.299541 CATGGACAGATAACCACGCC 58.700 55.000 0.00 0.00 39.06 5.68
3410 3694 4.129148 GCCAAGCCCTGGGGTAGG 62.129 72.222 19.43 13.35 46.54 3.18
3411 3695 4.129148 GGCCAAGCCCTGGGGTAG 62.129 72.222 19.43 13.88 46.54 3.18
3601 3892 5.729229 TCCCATAATTGTCTCTTAACCTCCA 59.271 40.000 0.00 0.00 0.00 3.86
3640 3931 0.660300 GCGCCTTTTCCAAACTGACG 60.660 55.000 0.00 0.00 0.00 4.35
3641 3932 0.668535 AGCGCCTTTTCCAAACTGAC 59.331 50.000 2.29 0.00 0.00 3.51
3642 3933 1.877443 GTAGCGCCTTTTCCAAACTGA 59.123 47.619 2.29 0.00 0.00 3.41
3643 3934 1.880027 AGTAGCGCCTTTTCCAAACTG 59.120 47.619 2.29 0.00 0.00 3.16
3644 3935 1.880027 CAGTAGCGCCTTTTCCAAACT 59.120 47.619 2.29 0.00 0.00 2.66
3645 3936 1.607148 ACAGTAGCGCCTTTTCCAAAC 59.393 47.619 2.29 0.00 0.00 2.93
3674 3965 2.648304 TCTAGTACTGACTCCCACCAGT 59.352 50.000 5.39 0.00 44.81 4.00
3707 3998 5.535333 CATTGTTCTGCTCAATGGAAAACT 58.465 37.500 9.80 0.00 44.56 2.66
3757 4048 9.297586 GTTTTTAAGACCTCAAACTACAAAAGG 57.702 33.333 0.00 0.00 0.00 3.11
3765 4056 6.657541 TGTGTCAGTTTTTAAGACCTCAAACT 59.342 34.615 0.00 0.00 39.52 2.66
3786 4077 7.228108 CCTATATGAAAGATCATGCACTTGTGT 59.772 37.037 0.00 0.00 45.82 3.72
3834 4125 3.710209 ACAGAGGATTGGTCTTTCAGG 57.290 47.619 0.00 0.00 0.00 3.86
3838 4129 2.154462 CGCAACAGAGGATTGGTCTTT 58.846 47.619 0.00 0.00 0.00 2.52
3843 4134 1.522668 TTGACGCAACAGAGGATTGG 58.477 50.000 0.00 0.00 0.00 3.16
3897 4188 0.501854 CAATTGCGAGCGAGATCGAG 59.498 55.000 15.14 0.00 45.56 4.04
3898 4189 0.100503 TCAATTGCGAGCGAGATCGA 59.899 50.000 15.14 0.00 45.56 3.59
3899 4190 0.228238 GTCAATTGCGAGCGAGATCG 59.772 55.000 6.37 6.37 45.48 3.69
3900 4191 0.579156 GGTCAATTGCGAGCGAGATC 59.421 55.000 0.00 0.00 0.00 2.75
3901 4192 0.811616 GGGTCAATTGCGAGCGAGAT 60.812 55.000 0.00 0.00 34.16 2.75
3902 4193 1.447838 GGGTCAATTGCGAGCGAGA 60.448 57.895 0.00 0.00 34.16 4.04
3903 4194 2.802667 CGGGTCAATTGCGAGCGAG 61.803 63.158 0.00 0.00 34.16 5.03
3904 4195 2.813474 CGGGTCAATTGCGAGCGA 60.813 61.111 0.00 0.00 34.16 4.93
3905 4196 4.520846 GCGGGTCAATTGCGAGCG 62.521 66.667 7.95 0.00 34.16 5.03
3906 4197 2.583685 GAAGCGGGTCAATTGCGAGC 62.584 60.000 7.95 7.34 0.00 5.03
4802 5097 5.762218 CCGATCTTAAGAATCCAAGCATCTT 59.238 40.000 9.71 0.00 37.23 2.40
4864 5159 3.684788 ACAAGCATCCATAACGTGAAGAC 59.315 43.478 0.00 0.00 0.00 3.01
5616 5924 3.615155 CAAATCCTCTCACTTCCCCTTC 58.385 50.000 0.00 0.00 0.00 3.46
5659 5967 2.672874 TCAATAACAGAGCGCACACATC 59.327 45.455 11.47 0.00 0.00 3.06
5717 6025 3.241530 TCAGCACCAGGTTCCGCT 61.242 61.111 0.00 0.00 34.29 5.52
5738 6046 2.031163 GCAGTCCCGCTGTCTTGT 59.969 61.111 0.00 0.00 46.64 3.16
5801 6109 5.576563 TTACAAGAGTCCCAATTCAGGAA 57.423 39.130 0.00 0.00 34.43 3.36
5802 6110 5.576563 TTTACAAGAGTCCCAATTCAGGA 57.423 39.130 0.00 0.00 0.00 3.86
5809 6117 7.133133 AGAGTAAGTTTTACAAGAGTCCCAA 57.867 36.000 2.24 0.00 0.00 4.12
5810 6118 6.742559 AGAGTAAGTTTTACAAGAGTCCCA 57.257 37.500 2.24 0.00 0.00 4.37
5811 6119 6.990939 ACAAGAGTAAGTTTTACAAGAGTCCC 59.009 38.462 2.24 0.00 0.00 4.46
5812 6120 9.538508 TTACAAGAGTAAGTTTTACAAGAGTCC 57.461 33.333 2.24 0.00 35.37 3.85
5819 6127 9.777575 GCAAGTTTTACAAGAGTAAGTTTTACA 57.222 29.630 2.24 0.00 41.00 2.41
5820 6128 9.999009 AGCAAGTTTTACAAGAGTAAGTTTTAC 57.001 29.630 0.00 0.00 41.00 2.01
5822 6130 9.569167 GAAGCAAGTTTTACAAGAGTAAGTTTT 57.431 29.630 0.00 0.00 41.00 2.43
5823 6131 8.736244 TGAAGCAAGTTTTACAAGAGTAAGTTT 58.264 29.630 0.00 0.00 41.00 2.66
5824 6132 8.276252 TGAAGCAAGTTTTACAAGAGTAAGTT 57.724 30.769 0.00 0.00 41.00 2.66
5825 6133 7.859325 TGAAGCAAGTTTTACAAGAGTAAGT 57.141 32.000 0.00 0.00 41.00 2.24
5826 6134 9.173939 CATTGAAGCAAGTTTTACAAGAGTAAG 57.826 33.333 0.00 0.00 41.00 2.34
5827 6135 8.682710 ACATTGAAGCAAGTTTTACAAGAGTAA 58.317 29.630 0.00 0.00 38.40 2.24
5828 6136 8.220755 ACATTGAAGCAAGTTTTACAAGAGTA 57.779 30.769 0.00 0.00 0.00 2.59
5829 6137 7.067494 AGACATTGAAGCAAGTTTTACAAGAGT 59.933 33.333 0.00 0.00 0.00 3.24
5830 6138 7.377928 CAGACATTGAAGCAAGTTTTACAAGAG 59.622 37.037 0.00 0.00 0.00 2.85
5831 6139 7.148086 ACAGACATTGAAGCAAGTTTTACAAGA 60.148 33.333 0.00 0.00 0.00 3.02
5832 6140 6.974622 ACAGACATTGAAGCAAGTTTTACAAG 59.025 34.615 0.00 0.00 0.00 3.16
5833 6141 6.751425 CACAGACATTGAAGCAAGTTTTACAA 59.249 34.615 0.00 0.00 0.00 2.41
5834 6142 6.264832 CACAGACATTGAAGCAAGTTTTACA 58.735 36.000 0.00 0.00 0.00 2.41
5835 6143 5.173854 GCACAGACATTGAAGCAAGTTTTAC 59.826 40.000 0.00 0.00 33.62 2.01
5836 6144 5.067674 AGCACAGACATTGAAGCAAGTTTTA 59.932 36.000 0.00 0.00 35.07 1.52
5837 6145 4.114794 GCACAGACATTGAAGCAAGTTTT 58.885 39.130 0.00 0.00 33.62 2.43
5838 6146 3.382546 AGCACAGACATTGAAGCAAGTTT 59.617 39.130 0.00 0.00 35.07 2.66
5839 6147 2.954318 AGCACAGACATTGAAGCAAGTT 59.046 40.909 0.00 0.00 35.07 2.66
5840 6148 2.551459 GAGCACAGACATTGAAGCAAGT 59.449 45.455 0.00 0.00 35.07 3.16
5841 6149 2.095364 GGAGCACAGACATTGAAGCAAG 60.095 50.000 0.00 0.00 35.07 4.01
5842 6150 1.881973 GGAGCACAGACATTGAAGCAA 59.118 47.619 0.00 0.00 35.07 3.91
5843 6151 1.072806 AGGAGCACAGACATTGAAGCA 59.927 47.619 0.00 0.00 35.07 3.91
5844 6152 1.467734 CAGGAGCACAGACATTGAAGC 59.532 52.381 0.00 0.00 0.00 3.86
5845 6153 3.001414 CTCAGGAGCACAGACATTGAAG 58.999 50.000 0.00 0.00 0.00 3.02
5846 6154 2.289882 CCTCAGGAGCACAGACATTGAA 60.290 50.000 0.00 0.00 0.00 2.69
5847 6155 1.277273 CCTCAGGAGCACAGACATTGA 59.723 52.381 0.00 0.00 0.00 2.57
5848 6156 1.678123 CCCTCAGGAGCACAGACATTG 60.678 57.143 0.00 0.00 33.47 2.82
5849 6157 0.617413 CCCTCAGGAGCACAGACATT 59.383 55.000 0.00 0.00 33.47 2.71
5850 6158 0.546267 ACCCTCAGGAGCACAGACAT 60.546 55.000 0.00 0.00 36.73 3.06
5851 6159 0.764369 AACCCTCAGGAGCACAGACA 60.764 55.000 0.00 0.00 36.73 3.41
5852 6160 1.267121 TAACCCTCAGGAGCACAGAC 58.733 55.000 0.00 0.00 36.73 3.51
5853 6161 2.111384 GATAACCCTCAGGAGCACAGA 58.889 52.381 0.00 0.00 36.73 3.41
5854 6162 1.202463 CGATAACCCTCAGGAGCACAG 60.202 57.143 0.00 0.00 36.73 3.66
5855 6163 0.824109 CGATAACCCTCAGGAGCACA 59.176 55.000 0.00 0.00 36.73 4.57
5856 6164 0.530870 GCGATAACCCTCAGGAGCAC 60.531 60.000 0.00 0.00 36.73 4.40
5857 6165 0.687757 AGCGATAACCCTCAGGAGCA 60.688 55.000 0.00 0.00 36.73 4.26
5858 6166 0.466124 AAGCGATAACCCTCAGGAGC 59.534 55.000 0.00 0.00 36.73 4.70
5859 6167 2.959707 AGTAAGCGATAACCCTCAGGAG 59.040 50.000 0.00 0.00 36.73 3.69
5860 6168 2.957006 GAGTAAGCGATAACCCTCAGGA 59.043 50.000 0.00 0.00 36.73 3.86
5861 6169 2.959707 AGAGTAAGCGATAACCCTCAGG 59.040 50.000 0.00 0.00 40.04 3.86
5862 6170 4.657436 AAGAGTAAGCGATAACCCTCAG 57.343 45.455 0.00 0.00 0.00 3.35
5863 6171 5.175859 CAAAAGAGTAAGCGATAACCCTCA 58.824 41.667 0.00 0.00 0.00 3.86
5864 6172 5.176592 ACAAAAGAGTAAGCGATAACCCTC 58.823 41.667 0.00 0.00 0.00 4.30
5865 6173 5.161943 ACAAAAGAGTAAGCGATAACCCT 57.838 39.130 0.00 0.00 0.00 4.34
5866 6174 6.104665 ACTACAAAAGAGTAAGCGATAACCC 58.895 40.000 0.00 0.00 0.00 4.11
5867 6175 7.592439 AACTACAAAAGAGTAAGCGATAACC 57.408 36.000 0.00 0.00 0.00 2.85
5868 6176 9.314501 CAAAACTACAAAAGAGTAAGCGATAAC 57.685 33.333 0.00 0.00 0.00 1.89
5869 6177 9.048446 ACAAAACTACAAAAGAGTAAGCGATAA 57.952 29.630 0.00 0.00 0.00 1.75
5870 6178 8.597662 ACAAAACTACAAAAGAGTAAGCGATA 57.402 30.769 0.00 0.00 0.00 2.92
5871 6179 7.492352 ACAAAACTACAAAAGAGTAAGCGAT 57.508 32.000 0.00 0.00 0.00 4.58
5872 6180 6.913873 ACAAAACTACAAAAGAGTAAGCGA 57.086 33.333 0.00 0.00 0.00 4.93
5873 6181 7.317269 CGTAACAAAACTACAAAAGAGTAAGCG 59.683 37.037 0.00 0.00 0.00 4.68
5874 6182 8.330302 TCGTAACAAAACTACAAAAGAGTAAGC 58.670 33.333 0.00 0.00 0.00 3.09
5875 6183 9.628983 GTCGTAACAAAACTACAAAAGAGTAAG 57.371 33.333 0.00 0.00 0.00 2.34
5876 6184 8.603181 GGTCGTAACAAAACTACAAAAGAGTAA 58.397 33.333 0.00 0.00 0.00 2.24
5877 6185 7.981225 AGGTCGTAACAAAACTACAAAAGAGTA 59.019 33.333 0.00 0.00 0.00 2.59
5878 6186 6.820152 AGGTCGTAACAAAACTACAAAAGAGT 59.180 34.615 0.00 0.00 0.00 3.24
5879 6187 7.242914 AGGTCGTAACAAAACTACAAAAGAG 57.757 36.000 0.00 0.00 0.00 2.85
5880 6188 7.981225 AGTAGGTCGTAACAAAACTACAAAAGA 59.019 33.333 0.00 0.00 34.71 2.52
5881 6189 8.134905 AGTAGGTCGTAACAAAACTACAAAAG 57.865 34.615 0.00 0.00 34.71 2.27
5882 6190 8.491331 AAGTAGGTCGTAACAAAACTACAAAA 57.509 30.769 0.00 0.00 34.71 2.44
5883 6191 7.981225 AGAAGTAGGTCGTAACAAAACTACAAA 59.019 33.333 0.00 0.00 34.71 2.83
5884 6192 7.436080 CAGAAGTAGGTCGTAACAAAACTACAA 59.564 37.037 0.00 0.00 34.71 2.41
5885 6193 6.919662 CAGAAGTAGGTCGTAACAAAACTACA 59.080 38.462 0.00 0.00 34.71 2.74
5886 6194 6.920210 ACAGAAGTAGGTCGTAACAAAACTAC 59.080 38.462 0.00 0.00 0.00 2.73
5887 6195 7.042797 ACAGAAGTAGGTCGTAACAAAACTA 57.957 36.000 0.00 0.00 0.00 2.24
5888 6196 5.910614 ACAGAAGTAGGTCGTAACAAAACT 58.089 37.500 0.00 0.00 0.00 2.66
5889 6197 6.594284 AACAGAAGTAGGTCGTAACAAAAC 57.406 37.500 0.00 0.00 0.00 2.43
5890 6198 7.264221 TGTAACAGAAGTAGGTCGTAACAAAA 58.736 34.615 0.00 0.00 0.00 2.44
5891 6199 6.804677 TGTAACAGAAGTAGGTCGTAACAAA 58.195 36.000 0.00 0.00 0.00 2.83
5979 6361 7.822334 TCCAATATGAACGAAATGAACTAGTGT 59.178 33.333 0.00 0.00 0.00 3.55
6014 6396 1.855360 GGAATCTCGAGACGTGCAATC 59.145 52.381 19.30 7.43 0.00 2.67
6050 6432 6.780457 ACCAAATAGTTGCAGAATTAGCAT 57.220 33.333 5.95 0.00 42.33 3.79
6056 6438 6.389906 GCAAAGTACCAAATAGTTGCAGAAT 58.610 36.000 0.00 0.00 33.01 2.40
6183 6568 5.360591 AGAGTTAGGTGAAACACAAGTCAG 58.639 41.667 0.00 0.00 39.98 3.51
6253 6638 0.107703 TGCACGATCAATCCCTGACC 60.108 55.000 0.00 0.00 36.69 4.02
6310 6695 2.346803 CACACCATCTTTCACCCTACG 58.653 52.381 0.00 0.00 0.00 3.51
6311 6696 2.084546 GCACACCATCTTTCACCCTAC 58.915 52.381 0.00 0.00 0.00 3.18
6364 6749 2.096069 CAGCACCATCAGTTTCTCAACG 60.096 50.000 0.00 0.00 38.03 4.10
6368 6753 0.807496 GCCAGCACCATCAGTTTCTC 59.193 55.000 0.00 0.00 0.00 2.87
6443 6828 0.108186 TCAGTCCGCTCAATCGCATT 60.108 50.000 0.00 0.00 0.00 3.56
6541 6926 8.647226 AGTTCAAAAAGAAAAGAACAATCAACG 58.353 29.630 0.00 0.00 42.01 4.10
6641 7027 3.123621 ACGTCATTAAAAAGCTGAGCGAG 59.876 43.478 0.00 0.00 0.00 5.03
6642 7028 3.064207 ACGTCATTAAAAAGCTGAGCGA 58.936 40.909 0.00 0.00 0.00 4.93
6643 7029 3.155998 CACGTCATTAAAAAGCTGAGCG 58.844 45.455 0.00 0.00 0.00 5.03
6644 7030 3.058224 ACCACGTCATTAAAAAGCTGAGC 60.058 43.478 0.00 0.00 0.00 4.26
6645 7031 4.466828 CACCACGTCATTAAAAAGCTGAG 58.533 43.478 0.00 0.00 0.00 3.35
6646 7032 3.252215 CCACCACGTCATTAAAAAGCTGA 59.748 43.478 0.00 0.00 0.00 4.26
6647 7033 3.564511 CCACCACGTCATTAAAAAGCTG 58.435 45.455 0.00 0.00 0.00 4.24
6648 7034 2.030274 GCCACCACGTCATTAAAAAGCT 60.030 45.455 0.00 0.00 0.00 3.74
6649 7035 2.324860 GCCACCACGTCATTAAAAAGC 58.675 47.619 0.00 0.00 0.00 3.51
6650 7036 2.556622 AGGCCACCACGTCATTAAAAAG 59.443 45.455 5.01 0.00 0.00 2.27
6651 7037 2.554893 GAGGCCACCACGTCATTAAAAA 59.445 45.455 5.01 0.00 0.00 1.94
6652 7038 2.156098 GAGGCCACCACGTCATTAAAA 58.844 47.619 5.01 0.00 0.00 1.52
6654 7040 0.035820 GGAGGCCACCACGTCATTAA 60.036 55.000 15.24 0.00 0.00 1.40


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

AutoCloner maintained by Alex Coulton.