Multiple sequence alignment - TraesCS7A01G279800

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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 TraesCS7A01G279800 chr7A 100.000 2666 0 0 1 2666 299325916 299323251 0.000000e+00 4924.0
1 TraesCS7A01G279800 chr7A 100.000 94 0 0 1 94 429734612 429734705 9.810000e-40 174.0
2 TraesCS7A01G279800 chr7A 100.000 94 0 0 1 94 717258918 717258825 9.810000e-40 174.0
3 TraesCS7A01G279800 chr7A 98.148 54 1 0 1499 1552 299324364 299324311 7.860000e-16 95.3
4 TraesCS7A01G279800 chr7A 98.148 54 1 0 1553 1606 299324418 299324365 7.860000e-16 95.3
5 TraesCS7A01G279800 chr7A 85.185 54 6 2 110 162 19863284 19863336 1.000000e-03 54.7
6 TraesCS7A01G279800 chr5A 95.968 1389 54 2 163 1550 659259338 659257951 0.000000e+00 2254.0
7 TraesCS7A01G279800 chr5A 91.491 1140 41 30 1553 2661 659258002 659256888 0.000000e+00 1517.0
8 TraesCS7A01G279800 chr5A 98.413 63 1 0 2019 2081 659257567 659257505 7.800000e-21 111.0
9 TraesCS7A01G279800 chr6B 95.458 1387 59 3 166 1550 690479516 690478132 0.000000e+00 2209.0
10 TraesCS7A01G279800 chr6B 95.688 487 20 1 2181 2666 690477754 690477268 0.000000e+00 782.0
11 TraesCS7A01G279800 chr6B 96.789 436 14 0 1553 1988 690478183 690477748 0.000000e+00 728.0
12 TraesCS7A01G279800 chr6B 95.146 103 4 1 1 102 579885522 579885624 7.640000e-36 161.0
13 TraesCS7A01G279800 chr2A 94.233 1023 44 4 934 1950 8917326 8916313 0.000000e+00 1548.0
14 TraesCS7A01G279800 chr2A 94.060 1027 43 4 934 1950 9510872 9511890 0.000000e+00 1543.0
15 TraesCS7A01G279800 chr2A 93.379 1027 44 4 934 1950 9537060 9538072 0.000000e+00 1498.0
16 TraesCS7A01G279800 chr2A 92.816 1044 47 6 927 1950 9563283 9564318 0.000000e+00 1487.0
17 TraesCS7A01G279800 chr2A 96.414 753 24 2 1915 2666 8916311 8915561 0.000000e+00 1238.0
18 TraesCS7A01G279800 chr2A 95.275 783 34 2 164 945 8935346 8934566 0.000000e+00 1238.0
19 TraesCS7A01G279800 chr2A 95.275 783 34 2 164 945 9467010 9467790 0.000000e+00 1238.0
20 TraesCS7A01G279800 chr2A 95.147 783 35 2 164 945 9431878 9432658 0.000000e+00 1232.0
21 TraesCS7A01G279800 chr2A 96.282 753 25 2 1915 2666 9564320 9565070 0.000000e+00 1232.0
22 TraesCS7A01G279800 chr2A 95.026 784 35 3 164 945 9545389 9546170 0.000000e+00 1229.0
23 TraesCS7A01G279800 chr2A 96.016 753 27 2 1915 2666 9511892 9512642 0.000000e+00 1221.0
24 TraesCS7A01G279800 chr2A 94.770 784 37 3 164 945 9453643 9454424 0.000000e+00 1218.0
25 TraesCS7A01G279800 chr2A 94.770 784 37 3 164 945 9519129 9519910 0.000000e+00 1218.0
26 TraesCS7A01G279800 chr2A 94.643 784 38 3 164 945 9492753 9493534 0.000000e+00 1212.0
27 TraesCS7A01G279800 chr2A 95.750 753 28 3 1915 2666 9538074 9538823 0.000000e+00 1210.0
28 TraesCS7A01G279800 chr2A 94.643 56 2 1 1496 1550 8916714 8916659 4.730000e-13 86.1
29 TraesCS7A01G279800 chr2A 96.226 53 1 1 1496 1547 9511489 9511541 4.730000e-13 86.1
30 TraesCS7A01G279800 chr3A 89.139 267 25 3 1906 2169 60909164 60908899 1.980000e-86 329.0
31 TraesCS7A01G279800 chr3A 94.828 58 3 0 105 162 695773229 695773172 1.020000e-14 91.6
32 TraesCS7A01G279800 chr3A 87.037 54 7 0 110 163 16685070 16685017 7.970000e-06 62.1
33 TraesCS7A01G279800 chr1D 82.800 250 33 7 1908 2151 454445056 454444811 5.780000e-52 215.0
34 TraesCS7A01G279800 chr2D 82.329 249 36 6 1908 2151 38522846 38522601 2.690000e-50 209.0
35 TraesCS7A01G279800 chr2D 97.917 96 2 0 1 96 284560082 284560177 1.640000e-37 167.0
36 TraesCS7A01G279800 chr2D 94.521 73 3 1 90 162 130088557 130088628 7.800000e-21 111.0
37 TraesCS7A01G279800 chr1A 98.936 94 1 0 1 94 351584526 351584433 4.560000e-38 169.0
38 TraesCS7A01G279800 chr3D 97.917 96 2 0 1 96 108290968 108291063 1.640000e-37 167.0
39 TraesCS7A01G279800 chr1B 96.970 99 2 1 1 98 530868117 530868215 5.900000e-37 165.0
40 TraesCS7A01G279800 chr3B 95.098 102 4 1 3 104 792031982 792032082 2.750000e-35 159.0
41 TraesCS7A01G279800 chr7B 94.231 104 5 1 1 103 606210257 606210360 9.880000e-35 158.0
42 TraesCS7A01G279800 chr4A 81.967 183 26 5 1304 1482 423586067 423586246 5.950000e-32 148.0
43 TraesCS7A01G279800 chr2B 91.549 71 6 0 93 163 6042704 6042774 6.070000e-17 99.0
44 TraesCS7A01G279800 chr2B 92.857 56 4 0 94 149 742173290 742173235 6.120000e-12 82.4
45 TraesCS7A01G279800 chr4B 90.769 65 6 0 94 158 575830673 575830609 1.310000e-13 87.9
46 TraesCS7A01G279800 chr4B 90.769 65 6 0 94 158 575855637 575855573 1.310000e-13 87.9


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 TraesCS7A01G279800 chr7A 299323251 299325916 2665 True 1704.866667 4924 98.765333 1 2666 3 chr7A.!!$R2 2665
1 TraesCS7A01G279800 chr5A 659256888 659259338 2450 True 1294.000000 2254 95.290667 163 2661 3 chr5A.!!$R1 2498
2 TraesCS7A01G279800 chr6B 690477268 690479516 2248 True 1239.666667 2209 95.978333 166 2666 3 chr6B.!!$R1 2500
3 TraesCS7A01G279800 chr2A 9563283 9565070 1787 False 1359.500000 1487 94.549000 927 2666 2 chr2A.!!$F9 1739
4 TraesCS7A01G279800 chr2A 9537060 9538823 1763 False 1354.000000 1498 94.564500 934 2666 2 chr2A.!!$F8 1732
5 TraesCS7A01G279800 chr2A 8934566 8935346 780 True 1238.000000 1238 95.275000 164 945 1 chr2A.!!$R1 781
6 TraesCS7A01G279800 chr2A 9467010 9467790 780 False 1238.000000 1238 95.275000 164 945 1 chr2A.!!$F3 781
7 TraesCS7A01G279800 chr2A 9431878 9432658 780 False 1232.000000 1232 95.147000 164 945 1 chr2A.!!$F1 781
8 TraesCS7A01G279800 chr2A 9545389 9546170 781 False 1229.000000 1229 95.026000 164 945 1 chr2A.!!$F6 781
9 TraesCS7A01G279800 chr2A 9453643 9454424 781 False 1218.000000 1218 94.770000 164 945 1 chr2A.!!$F2 781
10 TraesCS7A01G279800 chr2A 9519129 9519910 781 False 1218.000000 1218 94.770000 164 945 1 chr2A.!!$F5 781
11 TraesCS7A01G279800 chr2A 9492753 9493534 781 False 1212.000000 1212 94.643000 164 945 1 chr2A.!!$F4 781
12 TraesCS7A01G279800 chr2A 8915561 8917326 1765 True 957.366667 1548 95.096667 934 2666 3 chr2A.!!$R2 1732
13 TraesCS7A01G279800 chr2A 9510872 9512642 1770 False 950.033333 1543 95.434000 934 2666 3 chr2A.!!$F7 1732

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
145 146 0.249114 TACGAAGAAGTGTGCGTGCA 60.249 50.000 0.00 0.00 37.56 4.57 F
146 147 1.083401 CGAAGAAGTGTGCGTGCAC 60.083 57.895 17.72 17.72 46.33 4.57 F
1005 1007 1.735926 TACACCACCAACCCATGAGA 58.264 50.000 0.00 0.00 0.00 3.27 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1522 1587 0.111253 CCTCTCAAACCTGGCACCTT 59.889 55.000 0.00 0.0 0.00 3.50 R
1527 1592 0.823356 TTGCACCTCTCAAACCTGGC 60.823 55.000 0.00 0.0 0.00 4.85 R
2268 2522 1.142531 CGCTCTGCAGTGATGCCTA 59.857 57.895 19.61 0.0 30.94 3.93 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
57 58 2.629051 GTCAAATTGACGACCTAGGGG 58.371 52.381 14.81 7.16 37.67 4.79
58 59 2.027469 GTCAAATTGACGACCTAGGGGT 60.027 50.000 14.81 10.74 42.37 4.95
59 60 3.196254 GTCAAATTGACGACCTAGGGGTA 59.804 47.826 14.81 0.00 40.90 3.69
60 61 4.916984 GTCAAATTGACGACCTAGGGGTAC 60.917 50.000 14.81 2.61 40.90 3.34
74 75 4.781959 GTACGCGCACGCCCTGTA 62.782 66.667 5.73 3.39 45.53 2.74
75 76 4.053526 TACGCGCACGCCCTGTAA 62.054 61.111 5.73 0.00 45.53 2.41
76 77 3.570621 TACGCGCACGCCCTGTAAA 62.571 57.895 5.73 0.00 45.53 2.01
77 78 4.439472 CGCGCACGCCCTGTAAAC 62.439 66.667 8.75 0.00 37.98 2.01
78 79 3.047877 GCGCACGCCCTGTAAACT 61.048 61.111 0.30 0.00 34.56 2.66
79 80 2.860293 CGCACGCCCTGTAAACTG 59.140 61.111 0.00 0.00 0.00 3.16
80 81 1.666553 CGCACGCCCTGTAAACTGA 60.667 57.895 0.00 0.00 0.00 3.41
81 82 1.626654 CGCACGCCCTGTAAACTGAG 61.627 60.000 0.00 0.00 0.00 3.35
82 83 0.320421 GCACGCCCTGTAAACTGAGA 60.320 55.000 0.00 0.00 0.00 3.27
83 84 1.714794 CACGCCCTGTAAACTGAGAG 58.285 55.000 0.00 0.00 0.00 3.20
84 85 1.272490 CACGCCCTGTAAACTGAGAGA 59.728 52.381 0.00 0.00 0.00 3.10
85 86 1.546476 ACGCCCTGTAAACTGAGAGAG 59.454 52.381 0.00 0.00 0.00 3.20
86 87 1.819288 CGCCCTGTAAACTGAGAGAGA 59.181 52.381 0.00 0.00 0.00 3.10
87 88 2.159310 CGCCCTGTAAACTGAGAGAGAG 60.159 54.545 0.00 0.00 0.00 3.20
88 89 2.167487 GCCCTGTAAACTGAGAGAGAGG 59.833 54.545 0.00 0.00 0.00 3.69
89 90 3.702792 CCCTGTAAACTGAGAGAGAGGA 58.297 50.000 0.00 0.00 0.00 3.71
90 91 4.090090 CCCTGTAAACTGAGAGAGAGGAA 58.910 47.826 0.00 0.00 0.00 3.36
91 92 4.159506 CCCTGTAAACTGAGAGAGAGGAAG 59.840 50.000 0.00 0.00 0.00 3.46
92 93 4.770010 CCTGTAAACTGAGAGAGAGGAAGT 59.230 45.833 0.00 0.00 0.00 3.01
93 94 5.946972 CCTGTAAACTGAGAGAGAGGAAGTA 59.053 44.000 0.00 0.00 0.00 2.24
94 95 6.127842 CCTGTAAACTGAGAGAGAGGAAGTAC 60.128 46.154 0.00 0.00 0.00 2.73
95 96 6.304624 TGTAAACTGAGAGAGAGGAAGTACA 58.695 40.000 0.00 0.00 0.00 2.90
96 97 5.715434 AAACTGAGAGAGAGGAAGTACAC 57.285 43.478 0.00 0.00 0.00 2.90
97 98 4.374689 ACTGAGAGAGAGGAAGTACACA 57.625 45.455 0.00 0.00 0.00 3.72
98 99 4.929479 ACTGAGAGAGAGGAAGTACACAT 58.071 43.478 0.00 0.00 0.00 3.21
99 100 4.704540 ACTGAGAGAGAGGAAGTACACATG 59.295 45.833 0.00 0.00 0.00 3.21
100 101 4.667573 TGAGAGAGAGGAAGTACACATGT 58.332 43.478 0.00 0.00 0.00 3.21
101 102 4.460731 TGAGAGAGAGGAAGTACACATGTG 59.539 45.833 24.25 24.25 0.00 3.21
102 103 4.667573 AGAGAGAGGAAGTACACATGTGA 58.332 43.478 31.94 12.93 0.00 3.58
103 104 4.704540 AGAGAGAGGAAGTACACATGTGAG 59.295 45.833 31.94 7.29 0.00 3.51
104 105 4.411927 AGAGAGGAAGTACACATGTGAGT 58.588 43.478 31.94 13.41 0.00 3.41
105 106 5.571285 AGAGAGGAAGTACACATGTGAGTA 58.429 41.667 31.94 12.32 0.00 2.59
106 107 6.010850 AGAGAGGAAGTACACATGTGAGTAA 58.989 40.000 31.94 11.33 0.00 2.24
107 108 6.026947 AGAGGAAGTACACATGTGAGTAAC 57.973 41.667 31.94 21.04 0.00 2.50
108 109 5.538813 AGAGGAAGTACACATGTGAGTAACA 59.461 40.000 31.94 6.85 44.79 2.41
109 110 6.041637 AGAGGAAGTACACATGTGAGTAACAA 59.958 38.462 31.94 5.50 43.61 2.83
110 111 6.223852 AGGAAGTACACATGTGAGTAACAAG 58.776 40.000 31.94 2.46 43.61 3.16
111 112 5.107065 GGAAGTACACATGTGAGTAACAAGC 60.107 44.000 31.94 14.70 43.61 4.01
112 113 4.315803 AGTACACATGTGAGTAACAAGCC 58.684 43.478 31.94 2.60 43.61 4.35
113 114 2.143122 ACACATGTGAGTAACAAGCCG 58.857 47.619 31.94 0.88 43.61 5.52
114 115 1.464608 CACATGTGAGTAACAAGCCGG 59.535 52.381 21.64 0.00 43.61 6.13
115 116 0.447801 CATGTGAGTAACAAGCCGGC 59.552 55.000 21.89 21.89 43.61 6.13
116 117 0.676782 ATGTGAGTAACAAGCCGGCC 60.677 55.000 26.15 6.38 43.61 6.13
117 118 2.047655 TGAGTAACAAGCCGGCCG 60.048 61.111 26.15 21.04 0.00 6.13
118 119 3.497031 GAGTAACAAGCCGGCCGC 61.497 66.667 26.15 16.01 37.98 6.53
141 142 1.719780 GTTCCTACGAAGAAGTGTGCG 59.280 52.381 0.00 0.00 0.00 5.34
142 143 0.956633 TCCTACGAAGAAGTGTGCGT 59.043 50.000 0.00 0.00 40.42 5.24
143 144 1.060713 CCTACGAAGAAGTGTGCGTG 58.939 55.000 0.00 0.00 37.56 5.34
144 145 0.435008 CTACGAAGAAGTGTGCGTGC 59.565 55.000 0.00 0.00 37.56 5.34
145 146 0.249114 TACGAAGAAGTGTGCGTGCA 60.249 50.000 0.00 0.00 37.56 4.57
146 147 1.083401 CGAAGAAGTGTGCGTGCAC 60.083 57.895 17.72 17.72 46.33 4.57
153 154 2.755836 AGTGTGCGTGCACTTTTTAG 57.244 45.000 23.86 0.00 46.45 1.85
154 155 2.285083 AGTGTGCGTGCACTTTTTAGA 58.715 42.857 23.86 0.84 46.45 2.10
155 156 2.878406 AGTGTGCGTGCACTTTTTAGAT 59.122 40.909 23.86 0.88 46.45 1.98
156 157 3.315191 AGTGTGCGTGCACTTTTTAGATT 59.685 39.130 23.86 0.00 46.45 2.40
157 158 4.041723 GTGTGCGTGCACTTTTTAGATTT 58.958 39.130 23.86 0.00 46.30 2.17
158 159 4.502645 GTGTGCGTGCACTTTTTAGATTTT 59.497 37.500 23.86 0.00 46.30 1.82
159 160 5.683743 GTGTGCGTGCACTTTTTAGATTTTA 59.316 36.000 23.86 0.00 46.30 1.52
160 161 5.912396 TGTGCGTGCACTTTTTAGATTTTAG 59.088 36.000 23.86 0.00 46.30 1.85
161 162 5.342259 GTGCGTGCACTTTTTAGATTTTAGG 59.658 40.000 17.32 0.00 43.12 2.69
449 450 6.998673 AGCTTTAAACACTATTGTGAAGGAGT 59.001 34.615 14.37 0.00 46.55 3.85
455 456 6.780706 ACACTATTGTGAAGGAGTTTTACG 57.219 37.500 14.37 0.00 46.55 3.18
463 464 2.381725 AGGAGTTTTACGTAGGCTGC 57.618 50.000 0.00 0.00 0.00 5.25
598 599 7.171678 GGTGTAGGAGAATCAAACACTATATGC 59.828 40.741 11.33 0.00 45.77 3.14
666 668 6.653020 TGTAGCTAACAAGATCAACCATCAT 58.347 36.000 0.00 0.00 34.29 2.45
814 816 9.606631 CTAGGCAAGAACTTGATAAACTATTCT 57.393 33.333 17.19 0.00 42.93 2.40
837 839 2.632643 TGCGATTGAAGCAGCAAGT 58.367 47.368 0.00 0.00 40.01 3.16
875 877 2.289506 GGACGAAGAAAGCTTACCTGGT 60.290 50.000 4.05 4.05 33.61 4.00
1005 1007 1.735926 TACACCACCAACCCATGAGA 58.264 50.000 0.00 0.00 0.00 3.27
1105 1107 7.817478 CGGTTTATGATTCTATATGTGCCTGTA 59.183 37.037 0.00 0.00 0.00 2.74
1510 1575 4.601019 ACTCTTGAGCAAAATTGAACACG 58.399 39.130 0.00 0.00 0.00 4.49
1511 1576 4.335315 ACTCTTGAGCAAAATTGAACACGA 59.665 37.500 0.00 0.00 0.00 4.35
1512 1577 4.597079 TCTTGAGCAAAATTGAACACGAC 58.403 39.130 0.00 0.00 0.00 4.34
1513 1578 4.095632 TCTTGAGCAAAATTGAACACGACA 59.904 37.500 0.00 0.00 0.00 4.35
1514 1579 4.362932 TGAGCAAAATTGAACACGACAA 57.637 36.364 0.00 0.00 0.00 3.18
1515 1580 4.738124 TGAGCAAAATTGAACACGACAAA 58.262 34.783 0.00 0.00 0.00 2.83
1516 1581 4.797868 TGAGCAAAATTGAACACGACAAAG 59.202 37.500 0.00 0.00 0.00 2.77
1517 1582 3.551485 AGCAAAATTGAACACGACAAAGC 59.449 39.130 0.00 0.00 0.00 3.51
1518 1583 3.305629 GCAAAATTGAACACGACAAAGCA 59.694 39.130 0.00 0.00 0.00 3.91
1519 1584 4.025813 GCAAAATTGAACACGACAAAGCAT 60.026 37.500 0.00 0.00 0.00 3.79
1520 1585 5.502220 GCAAAATTGAACACGACAAAGCATT 60.502 36.000 0.00 0.00 0.00 3.56
1521 1586 6.476896 CAAAATTGAACACGACAAAGCATTT 58.523 32.000 0.00 0.00 40.26 2.32
1522 1587 7.616673 CAAAATTGAACACGACAAAGCATTTA 58.383 30.769 0.00 0.00 35.03 1.40
1523 1588 7.763172 AAATTGAACACGACAAAGCATTTAA 57.237 28.000 0.00 0.00 35.03 1.52
1524 1589 6.991485 ATTGAACACGACAAAGCATTTAAG 57.009 33.333 0.00 0.00 35.03 1.85
1525 1590 4.854399 TGAACACGACAAAGCATTTAAGG 58.146 39.130 0.00 0.00 35.03 2.69
1526 1591 4.336993 TGAACACGACAAAGCATTTAAGGT 59.663 37.500 0.00 0.00 35.03 3.50
1527 1592 4.223320 ACACGACAAAGCATTTAAGGTG 57.777 40.909 0.00 0.00 35.03 4.00
1528 1593 2.979813 CACGACAAAGCATTTAAGGTGC 59.020 45.455 6.77 6.77 35.03 5.01
1529 1594 2.030274 ACGACAAAGCATTTAAGGTGCC 60.030 45.455 10.28 0.00 43.50 5.01
1530 1595 2.030363 CGACAAAGCATTTAAGGTGCCA 60.030 45.455 10.28 0.00 43.50 4.92
1531 1596 3.578688 GACAAAGCATTTAAGGTGCCAG 58.421 45.455 10.28 4.97 43.50 4.85
1532 1597 2.299867 ACAAAGCATTTAAGGTGCCAGG 59.700 45.455 10.28 4.42 43.50 4.45
1533 1598 2.299867 CAAAGCATTTAAGGTGCCAGGT 59.700 45.455 10.28 0.00 43.50 4.00
1534 1599 2.309136 AGCATTTAAGGTGCCAGGTT 57.691 45.000 10.28 0.00 43.50 3.50
1535 1600 2.608623 AGCATTTAAGGTGCCAGGTTT 58.391 42.857 10.28 0.00 43.50 3.27
1536 1601 2.299867 AGCATTTAAGGTGCCAGGTTTG 59.700 45.455 10.28 0.00 43.50 2.93
1537 1602 2.298729 GCATTTAAGGTGCCAGGTTTGA 59.701 45.455 4.13 0.00 36.61 2.69
1538 1603 3.614870 GCATTTAAGGTGCCAGGTTTGAG 60.615 47.826 4.13 0.00 36.61 3.02
1539 1604 3.586470 TTTAAGGTGCCAGGTTTGAGA 57.414 42.857 0.00 0.00 0.00 3.27
1540 1605 2.859165 TAAGGTGCCAGGTTTGAGAG 57.141 50.000 0.00 0.00 0.00 3.20
1541 1606 0.111253 AAGGTGCCAGGTTTGAGAGG 59.889 55.000 0.00 0.00 0.00 3.69
1542 1607 1.062488 AGGTGCCAGGTTTGAGAGGT 61.062 55.000 0.00 0.00 0.00 3.85
1543 1608 0.890996 GGTGCCAGGTTTGAGAGGTG 60.891 60.000 0.00 0.00 0.00 4.00
1544 1609 1.228245 TGCCAGGTTTGAGAGGTGC 60.228 57.895 0.00 0.00 0.00 5.01
1545 1610 1.228245 GCCAGGTTTGAGAGGTGCA 60.228 57.895 0.00 0.00 0.00 4.57
1546 1611 0.823356 GCCAGGTTTGAGAGGTGCAA 60.823 55.000 0.00 0.00 0.00 4.08
1547 1612 0.954452 CCAGGTTTGAGAGGTGCAAC 59.046 55.000 0.00 0.00 0.00 4.17
1548 1613 1.679139 CAGGTTTGAGAGGTGCAACA 58.321 50.000 3.64 0.00 39.98 3.33
1549 1614 1.605710 CAGGTTTGAGAGGTGCAACAG 59.394 52.381 3.64 0.00 39.98 3.16
1550 1615 1.212935 AGGTTTGAGAGGTGCAACAGT 59.787 47.619 3.64 0.00 39.98 3.55
1551 1616 1.334869 GGTTTGAGAGGTGCAACAGTG 59.665 52.381 3.64 0.00 39.98 3.66
1552 1617 2.288666 GTTTGAGAGGTGCAACAGTGA 58.711 47.619 3.64 0.00 39.98 3.41
1553 1618 2.682856 GTTTGAGAGGTGCAACAGTGAA 59.317 45.455 3.64 0.00 39.98 3.18
1554 1619 2.708216 TGAGAGGTGCAACAGTGAAA 57.292 45.000 3.64 0.00 39.98 2.69
1555 1620 2.997980 TGAGAGGTGCAACAGTGAAAA 58.002 42.857 3.64 0.00 39.98 2.29
1556 1621 3.554934 TGAGAGGTGCAACAGTGAAAAT 58.445 40.909 3.64 0.00 39.98 1.82
1557 1622 3.953612 TGAGAGGTGCAACAGTGAAAATT 59.046 39.130 3.64 0.00 39.98 1.82
1558 1623 4.202040 TGAGAGGTGCAACAGTGAAAATTG 60.202 41.667 3.64 0.00 39.98 2.32
1559 1624 3.953612 AGAGGTGCAACAGTGAAAATTGA 59.046 39.130 3.64 0.00 39.98 2.57
1560 1625 4.402155 AGAGGTGCAACAGTGAAAATTGAA 59.598 37.500 3.64 0.00 39.98 2.69
1561 1626 4.432712 AGGTGCAACAGTGAAAATTGAAC 58.567 39.130 3.64 0.00 39.98 3.18
1562 1627 4.081752 AGGTGCAACAGTGAAAATTGAACA 60.082 37.500 3.64 0.00 39.98 3.18
1563 1628 4.032786 GGTGCAACAGTGAAAATTGAACAC 59.967 41.667 0.00 0.00 39.98 3.32
1604 1723 3.560025 CCAGGTTTGAGAGGTGCAATAGT 60.560 47.826 0.00 0.00 0.00 2.12
1698 1817 2.365105 CCCGCCCTCAACCCTCTA 60.365 66.667 0.00 0.00 0.00 2.43
1714 1833 3.006537 CCCTCTACGAGTGAAGTTTGGAA 59.993 47.826 0.00 0.00 0.00 3.53
1785 1912 2.608752 GGTAGGAACTCTTCGCGTTCAA 60.609 50.000 5.77 0.00 41.86 2.69
2031 2226 7.208777 TGAAAATTTTGCTTTGCAGTCATCTA 58.791 30.769 8.47 0.00 40.61 1.98
2171 2424 8.574251 AACCATACAAATCTACAAAGTATGCA 57.426 30.769 0.00 0.00 40.21 3.96
2178 2431 7.554118 ACAAATCTACAAAGTATGCAGCATAGT 59.446 33.333 15.81 15.91 32.07 2.12
2179 2432 9.045223 CAAATCTACAAAGTATGCAGCATAGTA 57.955 33.333 20.98 15.04 30.75 1.82
2241 2494 6.095160 GGATGATATTCCTATCTACGAACCGT 59.905 42.308 0.00 0.00 36.84 4.83
2264 2517 2.814336 GGAGGCCTAAACAACAACTCAG 59.186 50.000 4.42 0.00 0.00 3.35
2268 2522 4.709886 AGGCCTAAACAACAACTCAGTTTT 59.290 37.500 1.29 0.00 36.85 2.43
2444 2699 7.153985 CCAACAAAGCCTATCTTTCATTTCAA 58.846 34.615 0.00 0.00 42.82 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 8.932791 CGTCAATTTGACTAACCTAATACAAGT 58.067 33.333 23.29 0.00 44.85 3.16
23 24 9.146984 TCGTCAATTTGACTAACCTAATACAAG 57.853 33.333 23.29 6.50 44.85 3.16
24 25 8.928733 GTCGTCAATTTGACTAACCTAATACAA 58.071 33.333 23.29 0.00 44.85 2.41
25 26 7.546667 GGTCGTCAATTTGACTAACCTAATACA 59.453 37.037 27.23 2.94 44.85 2.29
26 27 7.903062 GGTCGTCAATTTGACTAACCTAATAC 58.097 38.462 27.23 13.72 44.85 1.89
28 29 6.980051 GGTCGTCAATTTGACTAACCTAAT 57.020 37.500 27.23 0.00 44.85 1.73
31 32 4.618920 AGGTCGTCAATTTGACTAACCT 57.381 40.909 29.44 29.44 46.82 3.50
32 33 4.868734 CCTAGGTCGTCAATTTGACTAACC 59.131 45.833 27.23 27.23 44.85 2.85
33 34 4.868734 CCCTAGGTCGTCAATTTGACTAAC 59.131 45.833 23.29 19.89 44.85 2.34
34 35 4.081309 CCCCTAGGTCGTCAATTTGACTAA 60.081 45.833 23.29 11.42 44.85 2.24
35 36 3.449737 CCCCTAGGTCGTCAATTTGACTA 59.550 47.826 23.29 12.80 44.85 2.59
36 37 2.236395 CCCCTAGGTCGTCAATTTGACT 59.764 50.000 23.29 10.24 44.85 3.41
37 38 2.027469 ACCCCTAGGTCGTCAATTTGAC 60.027 50.000 17.76 17.76 46.45 3.18
38 39 2.262637 ACCCCTAGGTCGTCAATTTGA 58.737 47.619 8.29 0.00 46.45 2.69
39 40 2.781681 ACCCCTAGGTCGTCAATTTG 57.218 50.000 8.29 0.00 46.45 2.32
40 41 2.167075 CGTACCCCTAGGTCGTCAATTT 59.833 50.000 8.29 0.00 46.45 1.82
41 42 1.753073 CGTACCCCTAGGTCGTCAATT 59.247 52.381 8.29 0.00 46.45 2.32
42 43 1.396653 CGTACCCCTAGGTCGTCAAT 58.603 55.000 8.29 0.00 46.45 2.57
43 44 1.315257 GCGTACCCCTAGGTCGTCAA 61.315 60.000 8.29 0.00 46.45 3.18
44 45 1.750399 GCGTACCCCTAGGTCGTCA 60.750 63.158 8.29 0.00 46.45 4.35
45 46 2.828128 CGCGTACCCCTAGGTCGTC 61.828 68.421 8.29 3.46 46.45 4.20
46 47 2.825836 CGCGTACCCCTAGGTCGT 60.826 66.667 8.29 6.00 46.45 4.34
47 48 4.261781 GCGCGTACCCCTAGGTCG 62.262 72.222 8.43 8.12 46.45 4.79
48 49 3.142838 TGCGCGTACCCCTAGGTC 61.143 66.667 8.43 0.00 46.45 3.85
50 51 4.564116 CGTGCGCGTACCCCTAGG 62.564 72.222 21.71 0.06 40.04 3.02
57 58 4.781959 TACAGGGCGTGCGCGTAC 62.782 66.667 22.18 17.94 43.06 3.67
58 59 3.570621 TTTACAGGGCGTGCGCGTA 62.571 57.895 22.18 0.00 43.06 4.42
59 60 4.973055 TTTACAGGGCGTGCGCGT 62.973 61.111 22.18 2.94 43.06 6.01
60 61 4.439472 GTTTACAGGGCGTGCGCG 62.439 66.667 16.86 16.86 43.06 6.86
61 62 3.047877 AGTTTACAGGGCGTGCGC 61.048 61.111 7.17 8.17 41.06 6.09
62 63 1.626654 CTCAGTTTACAGGGCGTGCG 61.627 60.000 7.17 0.00 0.00 5.34
63 64 0.320421 TCTCAGTTTACAGGGCGTGC 60.320 55.000 7.17 0.00 0.00 5.34
64 65 1.272490 TCTCTCAGTTTACAGGGCGTG 59.728 52.381 5.50 5.50 0.00 5.34
65 66 1.546476 CTCTCTCAGTTTACAGGGCGT 59.454 52.381 0.00 0.00 0.00 5.68
66 67 1.819288 TCTCTCTCAGTTTACAGGGCG 59.181 52.381 0.00 0.00 0.00 6.13
67 68 2.167487 CCTCTCTCTCAGTTTACAGGGC 59.833 54.545 0.00 0.00 0.00 5.19
68 69 3.702792 TCCTCTCTCTCAGTTTACAGGG 58.297 50.000 0.00 0.00 0.00 4.45
69 70 4.770010 ACTTCCTCTCTCTCAGTTTACAGG 59.230 45.833 0.00 0.00 0.00 4.00
70 71 5.975693 ACTTCCTCTCTCTCAGTTTACAG 57.024 43.478 0.00 0.00 0.00 2.74
71 72 6.207025 GTGTACTTCCTCTCTCTCAGTTTACA 59.793 42.308 0.00 0.00 0.00 2.41
72 73 6.207025 TGTGTACTTCCTCTCTCTCAGTTTAC 59.793 42.308 0.00 0.00 0.00 2.01
73 74 6.304624 TGTGTACTTCCTCTCTCTCAGTTTA 58.695 40.000 0.00 0.00 0.00 2.01
74 75 5.141182 TGTGTACTTCCTCTCTCTCAGTTT 58.859 41.667 0.00 0.00 0.00 2.66
75 76 4.730966 TGTGTACTTCCTCTCTCTCAGTT 58.269 43.478 0.00 0.00 0.00 3.16
76 77 4.374689 TGTGTACTTCCTCTCTCTCAGT 57.625 45.455 0.00 0.00 0.00 3.41
77 78 4.704540 ACATGTGTACTTCCTCTCTCTCAG 59.295 45.833 0.00 0.00 0.00 3.35
78 79 4.460731 CACATGTGTACTTCCTCTCTCTCA 59.539 45.833 18.03 0.00 0.00 3.27
79 80 4.702612 TCACATGTGTACTTCCTCTCTCTC 59.297 45.833 24.63 0.00 0.00 3.20
80 81 4.667573 TCACATGTGTACTTCCTCTCTCT 58.332 43.478 24.63 0.00 0.00 3.10
81 82 4.461081 ACTCACATGTGTACTTCCTCTCTC 59.539 45.833 24.63 0.00 0.00 3.20
82 83 4.411927 ACTCACATGTGTACTTCCTCTCT 58.588 43.478 24.63 0.00 0.00 3.10
83 84 4.792521 ACTCACATGTGTACTTCCTCTC 57.207 45.455 24.63 0.00 0.00 3.20
84 85 5.538813 TGTTACTCACATGTGTACTTCCTCT 59.461 40.000 24.63 1.92 0.00 3.69
85 86 5.779922 TGTTACTCACATGTGTACTTCCTC 58.220 41.667 24.63 9.94 0.00 3.71
86 87 5.801531 TGTTACTCACATGTGTACTTCCT 57.198 39.130 24.63 4.26 0.00 3.36
87 88 5.107065 GCTTGTTACTCACATGTGTACTTCC 60.107 44.000 24.63 10.61 34.43 3.46
88 89 5.107065 GGCTTGTTACTCACATGTGTACTTC 60.107 44.000 24.63 13.97 34.43 3.01
89 90 4.755123 GGCTTGTTACTCACATGTGTACTT 59.245 41.667 24.63 10.41 34.43 2.24
90 91 4.315803 GGCTTGTTACTCACATGTGTACT 58.684 43.478 24.63 11.07 34.43 2.73
91 92 3.122948 CGGCTTGTTACTCACATGTGTAC 59.877 47.826 24.63 17.55 34.43 2.90
92 93 3.322369 CGGCTTGTTACTCACATGTGTA 58.678 45.455 24.63 8.82 34.43 2.90
93 94 2.143122 CGGCTTGTTACTCACATGTGT 58.857 47.619 24.63 9.87 34.43 3.72
94 95 1.464608 CCGGCTTGTTACTCACATGTG 59.535 52.381 20.18 20.18 34.43 3.21
95 96 1.808411 CCGGCTTGTTACTCACATGT 58.192 50.000 0.00 0.00 34.43 3.21
96 97 0.447801 GCCGGCTTGTTACTCACATG 59.552 55.000 22.15 0.00 34.43 3.21
97 98 0.676782 GGCCGGCTTGTTACTCACAT 60.677 55.000 28.56 0.00 34.43 3.21
98 99 1.302192 GGCCGGCTTGTTACTCACA 60.302 57.895 28.56 0.00 0.00 3.58
99 100 2.388232 CGGCCGGCTTGTTACTCAC 61.388 63.158 28.56 3.90 0.00 3.51
100 101 2.047655 CGGCCGGCTTGTTACTCA 60.048 61.111 28.56 0.00 0.00 3.41
101 102 3.497031 GCGGCCGGCTTGTTACTC 61.497 66.667 29.38 5.59 39.11 2.59
121 122 1.719780 CGCACACTTCTTCGTAGGAAC 59.280 52.381 0.00 0.00 0.00 3.62
122 123 1.338973 ACGCACACTTCTTCGTAGGAA 59.661 47.619 0.00 0.00 33.02 3.36
123 124 0.956633 ACGCACACTTCTTCGTAGGA 59.043 50.000 0.00 0.00 33.02 2.94
124 125 1.060713 CACGCACACTTCTTCGTAGG 58.939 55.000 0.00 0.00 33.51 3.18
125 126 0.435008 GCACGCACACTTCTTCGTAG 59.565 55.000 0.00 0.00 33.51 3.51
126 127 0.249114 TGCACGCACACTTCTTCGTA 60.249 50.000 0.00 0.00 33.51 3.43
127 128 1.520564 TGCACGCACACTTCTTCGT 60.521 52.632 0.00 0.00 35.35 3.85
128 129 1.083401 GTGCACGCACACTTCTTCG 60.083 57.895 17.03 0.00 45.53 3.79
129 130 4.901627 GTGCACGCACACTTCTTC 57.098 55.556 17.03 0.00 45.53 2.87
137 138 5.342259 CCTAAAATCTAAAAAGTGCACGCAC 59.658 40.000 14.28 14.28 46.50 5.34
138 139 5.239744 TCCTAAAATCTAAAAAGTGCACGCA 59.760 36.000 12.01 0.00 0.00 5.24
139 140 5.695818 TCCTAAAATCTAAAAAGTGCACGC 58.304 37.500 12.01 0.00 0.00 5.34
140 141 7.526608 TCATCCTAAAATCTAAAAAGTGCACG 58.473 34.615 12.01 0.00 0.00 5.34
225 226 5.241403 TGAACTGTACTCAAATCACCCAT 57.759 39.130 0.00 0.00 0.00 4.00
449 450 1.153353 GTGCTGCAGCCTACGTAAAA 58.847 50.000 34.64 11.00 41.18 1.52
455 456 1.449246 CTCTGGTGCTGCAGCCTAC 60.449 63.158 34.64 26.02 41.18 3.18
463 464 3.201290 GGATTCATGTACTCTGGTGCTG 58.799 50.000 0.00 0.00 0.00 4.41
598 599 7.061441 CGAACAAGATTGAATTTTGATGGACTG 59.939 37.037 14.39 0.00 0.00 3.51
666 668 9.119418 TGATTTCTTGAATGTTTGTAGACTCAA 57.881 29.630 0.00 0.00 0.00 3.02
814 816 4.077844 TGCTTCAATCGCAGGCAA 57.922 50.000 0.00 0.00 32.80 4.52
837 839 0.040646 TCCTCTTCCACCGCCTCTTA 59.959 55.000 0.00 0.00 0.00 2.10
875 877 2.417257 GCATTGAATCTGCCGGCCA 61.417 57.895 26.77 11.66 33.44 5.36
956 958 1.144057 CCTCCGGCACAGATACACC 59.856 63.158 0.00 0.00 0.00 4.16
958 960 0.613572 TGACCTCCGGCACAGATACA 60.614 55.000 0.00 0.00 0.00 2.29
1052 1054 4.901785 ACTCCCAGTATCTTCTTCCCTA 57.098 45.455 0.00 0.00 0.00 3.53
1105 1107 7.979537 TGTGTCTCGCTAGAAATTAATACACAT 59.020 33.333 8.64 0.00 32.16 3.21
1340 1357 1.568504 TGTGTCCGCTCTATTTCCCT 58.431 50.000 0.00 0.00 0.00 4.20
1510 1575 3.578688 CTGGCACCTTAAATGCTTTGTC 58.421 45.455 10.35 0.00 42.93 3.18
1511 1576 2.299867 CCTGGCACCTTAAATGCTTTGT 59.700 45.455 10.35 0.00 42.93 2.83
1512 1577 2.299867 ACCTGGCACCTTAAATGCTTTG 59.700 45.455 10.35 3.44 42.93 2.77
1513 1578 2.608623 ACCTGGCACCTTAAATGCTTT 58.391 42.857 10.35 0.00 42.93 3.51
1514 1579 2.309136 ACCTGGCACCTTAAATGCTT 57.691 45.000 10.35 0.00 42.93 3.91
1515 1580 2.299867 CAAACCTGGCACCTTAAATGCT 59.700 45.455 10.35 0.00 42.93 3.79
1516 1581 2.298729 TCAAACCTGGCACCTTAAATGC 59.701 45.455 0.00 3.27 42.62 3.56
1517 1582 3.826157 TCTCAAACCTGGCACCTTAAATG 59.174 43.478 0.00 0.00 0.00 2.32
1518 1583 4.082125 CTCTCAAACCTGGCACCTTAAAT 58.918 43.478 0.00 0.00 0.00 1.40
1519 1584 3.486383 CTCTCAAACCTGGCACCTTAAA 58.514 45.455 0.00 0.00 0.00 1.52
1520 1585 2.224769 CCTCTCAAACCTGGCACCTTAA 60.225 50.000 0.00 0.00 0.00 1.85
1521 1586 1.351017 CCTCTCAAACCTGGCACCTTA 59.649 52.381 0.00 0.00 0.00 2.69
1522 1587 0.111253 CCTCTCAAACCTGGCACCTT 59.889 55.000 0.00 0.00 0.00 3.50
1523 1588 1.062488 ACCTCTCAAACCTGGCACCT 61.062 55.000 0.00 0.00 0.00 4.00
1524 1589 0.890996 CACCTCTCAAACCTGGCACC 60.891 60.000 0.00 0.00 0.00 5.01
1525 1590 1.518903 GCACCTCTCAAACCTGGCAC 61.519 60.000 0.00 0.00 0.00 5.01
1526 1591 1.228245 GCACCTCTCAAACCTGGCA 60.228 57.895 0.00 0.00 0.00 4.92
1527 1592 0.823356 TTGCACCTCTCAAACCTGGC 60.823 55.000 0.00 0.00 0.00 4.85
1528 1593 0.954452 GTTGCACCTCTCAAACCTGG 59.046 55.000 0.00 0.00 0.00 4.45
1529 1594 1.605710 CTGTTGCACCTCTCAAACCTG 59.394 52.381 0.00 0.00 0.00 4.00
1530 1595 1.212935 ACTGTTGCACCTCTCAAACCT 59.787 47.619 0.00 0.00 0.00 3.50
1531 1596 1.334869 CACTGTTGCACCTCTCAAACC 59.665 52.381 0.00 0.00 0.00 3.27
1532 1597 2.288666 TCACTGTTGCACCTCTCAAAC 58.711 47.619 0.00 0.00 0.00 2.93
1533 1598 2.708216 TCACTGTTGCACCTCTCAAA 57.292 45.000 0.00 0.00 0.00 2.69
1534 1599 2.708216 TTCACTGTTGCACCTCTCAA 57.292 45.000 0.00 0.00 0.00 3.02
1535 1600 2.708216 TTTCACTGTTGCACCTCTCA 57.292 45.000 0.00 0.00 0.00 3.27
1536 1601 4.036734 TCAATTTTCACTGTTGCACCTCTC 59.963 41.667 0.00 0.00 0.00 3.20
1537 1602 3.953612 TCAATTTTCACTGTTGCACCTCT 59.046 39.130 0.00 0.00 0.00 3.69
1538 1603 4.305989 TCAATTTTCACTGTTGCACCTC 57.694 40.909 0.00 0.00 0.00 3.85
1539 1604 4.081752 TGTTCAATTTTCACTGTTGCACCT 60.082 37.500 0.00 0.00 0.00 4.00
1540 1605 4.032786 GTGTTCAATTTTCACTGTTGCACC 59.967 41.667 0.00 0.00 0.00 5.01
1541 1606 4.259371 CGTGTTCAATTTTCACTGTTGCAC 60.259 41.667 0.00 0.00 0.00 4.57
1542 1607 3.856521 CGTGTTCAATTTTCACTGTTGCA 59.143 39.130 0.00 0.00 0.00 4.08
1543 1608 4.027702 GTCGTGTTCAATTTTCACTGTTGC 60.028 41.667 0.00 0.00 0.00 4.17
1544 1609 5.092105 TGTCGTGTTCAATTTTCACTGTTG 58.908 37.500 0.00 0.00 0.00 3.33
1545 1610 5.303747 TGTCGTGTTCAATTTTCACTGTT 57.696 34.783 0.00 0.00 0.00 3.16
1546 1611 4.955925 TGTCGTGTTCAATTTTCACTGT 57.044 36.364 0.00 0.00 0.00 3.55
1547 1612 5.275881 GCTTTGTCGTGTTCAATTTTCACTG 60.276 40.000 0.00 0.00 0.00 3.66
1548 1613 4.798387 GCTTTGTCGTGTTCAATTTTCACT 59.202 37.500 0.00 0.00 0.00 3.41
1549 1614 4.560819 TGCTTTGTCGTGTTCAATTTTCAC 59.439 37.500 0.00 0.00 0.00 3.18
1550 1615 4.738124 TGCTTTGTCGTGTTCAATTTTCA 58.262 34.783 0.00 0.00 0.00 2.69
1551 1616 5.888412 ATGCTTTGTCGTGTTCAATTTTC 57.112 34.783 0.00 0.00 0.00 2.29
1552 1617 6.660887 AAATGCTTTGTCGTGTTCAATTTT 57.339 29.167 0.00 0.00 0.00 1.82
1553 1618 7.042791 CCTTAAATGCTTTGTCGTGTTCAATTT 60.043 33.333 0.00 0.00 0.00 1.82
1554 1619 6.420604 CCTTAAATGCTTTGTCGTGTTCAATT 59.579 34.615 0.00 0.00 0.00 2.32
1555 1620 5.920273 CCTTAAATGCTTTGTCGTGTTCAAT 59.080 36.000 0.00 0.00 0.00 2.57
1556 1621 5.163602 ACCTTAAATGCTTTGTCGTGTTCAA 60.164 36.000 0.00 0.00 0.00 2.69
1557 1622 4.336993 ACCTTAAATGCTTTGTCGTGTTCA 59.663 37.500 0.00 0.00 0.00 3.18
1558 1623 4.675114 CACCTTAAATGCTTTGTCGTGTTC 59.325 41.667 0.00 0.00 0.00 3.18
1559 1624 4.606961 CACCTTAAATGCTTTGTCGTGTT 58.393 39.130 0.00 0.00 0.00 3.32
1560 1625 3.550030 GCACCTTAAATGCTTTGTCGTGT 60.550 43.478 4.48 0.00 40.08 4.49
1561 1626 2.979813 GCACCTTAAATGCTTTGTCGTG 59.020 45.455 4.48 0.00 40.08 4.35
1562 1627 2.030274 GGCACCTTAAATGCTTTGTCGT 60.030 45.455 10.35 0.00 42.93 4.34
1563 1628 2.030363 TGGCACCTTAAATGCTTTGTCG 60.030 45.455 10.35 0.00 42.93 4.35
1604 1723 2.038952 CCCACATTCTTCTGAGGTGACA 59.961 50.000 0.00 0.00 33.79 3.58
1698 1817 2.561569 CCTGTTCCAAACTTCACTCGT 58.438 47.619 0.00 0.00 0.00 4.18
1747 1874 3.875134 CCTACCGGTATTTGTTGGATGAC 59.125 47.826 16.25 0.00 30.20 3.06
1925 2089 2.234414 GCCATGGTCCATGTGTTGAAAT 59.766 45.455 26.73 0.00 39.94 2.17
1996 2191 9.759259 GCAAAGCAAAATTTTCATATCCTAAAC 57.241 29.630 0.00 0.00 0.00 2.01
1997 2192 9.499479 TGCAAAGCAAAATTTTCATATCCTAAA 57.501 25.926 0.00 0.00 34.76 1.85
1998 2193 9.153721 CTGCAAAGCAAAATTTTCATATCCTAA 57.846 29.630 0.00 0.00 38.41 2.69
1999 2194 8.313292 ACTGCAAAGCAAAATTTTCATATCCTA 58.687 29.630 0.00 0.00 38.41 2.94
2000 2195 7.163441 ACTGCAAAGCAAAATTTTCATATCCT 58.837 30.769 0.00 0.00 38.41 3.24
2001 2196 7.118101 TGACTGCAAAGCAAAATTTTCATATCC 59.882 33.333 0.00 0.00 38.41 2.59
2002 2197 8.020861 TGACTGCAAAGCAAAATTTTCATATC 57.979 30.769 0.00 0.00 38.41 1.63
2003 2198 7.966246 TGACTGCAAAGCAAAATTTTCATAT 57.034 28.000 0.00 0.00 38.41 1.78
2004 2199 7.874016 AGATGACTGCAAAGCAAAATTTTCATA 59.126 29.630 0.00 0.00 38.41 2.15
2005 2200 6.708949 AGATGACTGCAAAGCAAAATTTTCAT 59.291 30.769 0.00 0.00 38.41 2.57
2006 2201 6.050432 AGATGACTGCAAAGCAAAATTTTCA 58.950 32.000 0.00 0.00 38.41 2.69
2007 2202 6.535274 AGATGACTGCAAAGCAAAATTTTC 57.465 33.333 0.00 0.00 38.41 2.29
2008 2203 9.880157 ATATAGATGACTGCAAAGCAAAATTTT 57.120 25.926 0.00 0.00 38.41 1.82
2009 2204 9.309516 CATATAGATGACTGCAAAGCAAAATTT 57.690 29.630 0.00 0.00 34.76 1.82
2010 2205 7.924412 CCATATAGATGACTGCAAAGCAAAATT 59.076 33.333 0.00 0.00 34.76 1.82
2011 2206 7.431249 CCATATAGATGACTGCAAAGCAAAAT 58.569 34.615 0.00 0.00 34.76 1.82
2012 2207 6.681120 GCCATATAGATGACTGCAAAGCAAAA 60.681 38.462 0.00 0.00 34.76 2.44
2013 2208 5.221106 GCCATATAGATGACTGCAAAGCAAA 60.221 40.000 0.00 0.00 34.76 3.68
2014 2209 4.276678 GCCATATAGATGACTGCAAAGCAA 59.723 41.667 0.00 0.00 34.76 3.91
2015 2210 3.817084 GCCATATAGATGACTGCAAAGCA 59.183 43.478 0.00 0.00 34.73 3.91
2016 2211 4.070716 AGCCATATAGATGACTGCAAAGC 58.929 43.478 0.00 0.00 34.73 3.51
2017 2212 5.608676 CAGCCATATAGATGACTGCAAAG 57.391 43.478 0.52 0.00 36.84 2.77
2031 2226 5.628130 AGTCATTACTCAATGCAGCCATAT 58.372 37.500 0.00 0.00 41.21 1.78
2241 2494 3.649023 TGAGTTGTTGTTTAGGCCTCCTA 59.351 43.478 9.68 0.00 34.61 2.94
2264 2517 2.159462 GCTCTGCAGTGATGCCTAAAAC 60.159 50.000 19.61 0.00 0.00 2.43
2268 2522 1.142531 CGCTCTGCAGTGATGCCTA 59.857 57.895 19.61 0.00 30.94 3.93


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

AutoCloner maintained by Alex Coulton.