Multiple sequence alignment - TraesCS3A01G350600

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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 TraesCS3A01G350600 chr3A 100.000 2771 0 0 1 2771 599324960 599327730 0.000000e+00 5118.0
1 TraesCS3A01G350600 chr3A 84.076 157 22 3 1254 1408 398879702 398879547 6.180000e-32 148.0
2 TraesCS3A01G350600 chr3D 93.926 2239 99 19 147 2370 456533381 456535597 0.000000e+00 3347.0
3 TraesCS3A01G350600 chr3D 94.643 392 17 2 2383 2771 456535656 456536046 3.050000e-169 604.0
4 TraesCS3A01G350600 chr3B 94.807 1579 53 10 817 2385 602782854 602781295 0.000000e+00 2435.0
5 TraesCS3A01G350600 chr3B 95.116 389 19 0 2383 2771 602781259 602780871 5.070000e-172 614.0
6 TraesCS3A01G350600 chr3B 85.870 92 10 3 740 828 602785157 602785066 8.170000e-16 95.3
7 TraesCS3A01G350600 chr5A 84.713 157 21 3 1254 1408 453519597 453519752 1.330000e-33 154.0
8 TraesCS3A01G350600 chr7D 83.636 165 24 3 1246 1408 243808148 243808311 4.780000e-33 152.0
9 TraesCS3A01G350600 chr7A 83.636 165 24 3 1246 1408 258824463 258824626 4.780000e-33 152.0
10 TraesCS3A01G350600 chr6A 84.076 157 22 3 1254 1408 116813117 116812962 6.180000e-32 148.0
11 TraesCS3A01G350600 chr5D 84.076 157 22 3 1254 1408 352454309 352454154 6.180000e-32 148.0
12 TraesCS3A01G350600 chr5B 84.076 157 22 3 1254 1408 415127618 415127463 6.180000e-32 148.0


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 TraesCS3A01G350600 chr3A 599324960 599327730 2770 False 5118.0 5118 100.0000 1 2771 1 chr3A.!!$F1 2770
1 TraesCS3A01G350600 chr3D 456533381 456536046 2665 False 1975.5 3347 94.2845 147 2771 2 chr3D.!!$F1 2624
2 TraesCS3A01G350600 chr3B 602780871 602785157 4286 True 1048.1 2435 91.9310 740 2771 3 chr3B.!!$R1 2031

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
123 124 0.106819 ATGGCTTCACATGCTCCTCC 60.107 55.0 0.00 0.0 0.00 4.30 F
140 141 0.320073 TCCGTTCGGTCACCAACATC 60.320 55.0 11.04 0.0 0.00 3.06 F
141 142 0.320421 CCGTTCGGTCACCAACATCT 60.320 55.0 0.00 0.0 0.00 2.90 F
956 3183 0.389948 GTGGATATCCGATCCCACGC 60.390 60.0 17.04 0.0 39.52 5.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1023 3254 0.740149 CTGTGTGCTGCTGGTTTCAA 59.260 50.000 0.00 0.0 0.00 2.69 R
1065 3296 1.347062 GGCTAGCTAGGAAGGATGCT 58.653 55.000 22.10 0.0 39.30 3.79 R
1427 3661 1.381872 AGCCCTCCTCGTGCTGTAT 60.382 57.895 0.00 0.0 33.23 2.29 R
2522 4821 1.127951 CATGTTCGCGGTTGTTAGACC 59.872 52.381 6.13 0.0 36.31 3.85 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
22 23 5.917541 GAGGAATACGAAGTGTGTGAAAA 57.082 39.130 0.00 0.00 45.73 2.29
23 24 6.295039 GAGGAATACGAAGTGTGTGAAAAA 57.705 37.500 0.00 0.00 45.73 1.94
24 25 6.877611 AGGAATACGAAGTGTGTGAAAAAT 57.122 33.333 0.00 0.00 45.73 1.82
25 26 7.972832 AGGAATACGAAGTGTGTGAAAAATA 57.027 32.000 0.00 0.00 45.73 1.40
26 27 8.029642 AGGAATACGAAGTGTGTGAAAAATAG 57.970 34.615 0.00 0.00 45.73 1.73
27 28 7.876068 AGGAATACGAAGTGTGTGAAAAATAGA 59.124 33.333 0.00 0.00 45.73 1.98
28 29 8.500773 GGAATACGAAGTGTGTGAAAAATAGAA 58.499 33.333 0.00 0.00 45.73 2.10
29 30 9.314501 GAATACGAAGTGTGTGAAAAATAGAAC 57.685 33.333 0.00 0.00 45.73 3.01
30 31 6.671614 ACGAAGTGTGTGAAAAATAGAACA 57.328 33.333 0.00 0.00 42.51 3.18
31 32 6.483687 ACGAAGTGTGTGAAAAATAGAACAC 58.516 36.000 0.00 0.00 42.51 3.32
35 36 7.391148 AGTGTGTGAAAAATAGAACACTTGT 57.609 32.000 6.38 0.00 44.24 3.16
36 37 7.250569 AGTGTGTGAAAAATAGAACACTTGTG 58.749 34.615 6.38 0.00 44.24 3.33
37 38 6.020678 GTGTGTGAAAAATAGAACACTTGTGC 60.021 38.462 6.38 0.00 42.66 4.57
38 39 5.171337 GTGTGAAAAATAGAACACTTGTGCG 59.829 40.000 0.10 0.00 39.80 5.34
39 40 5.163703 TGTGAAAAATAGAACACTTGTGCGT 60.164 36.000 0.10 0.00 34.81 5.24
40 41 5.171337 GTGAAAAATAGAACACTTGTGCGTG 59.829 40.000 0.10 0.00 40.67 5.34
41 42 3.896648 AAATAGAACACTTGTGCGTGG 57.103 42.857 0.10 0.00 39.19 4.94
42 43 2.831685 ATAGAACACTTGTGCGTGGA 57.168 45.000 0.10 0.00 39.19 4.02
43 44 2.605837 TAGAACACTTGTGCGTGGAA 57.394 45.000 0.10 0.00 39.19 3.53
44 45 1.967319 AGAACACTTGTGCGTGGAAT 58.033 45.000 0.10 0.00 39.19 3.01
45 46 1.873591 AGAACACTTGTGCGTGGAATC 59.126 47.619 0.10 0.00 39.19 2.52
46 47 1.601903 GAACACTTGTGCGTGGAATCA 59.398 47.619 0.10 0.00 39.19 2.57
47 48 1.674359 ACACTTGTGCGTGGAATCAA 58.326 45.000 0.10 0.00 39.19 2.57
48 49 1.333619 ACACTTGTGCGTGGAATCAAC 59.666 47.619 0.10 0.00 39.19 3.18
49 50 1.603802 CACTTGTGCGTGGAATCAACT 59.396 47.619 0.00 0.00 0.00 3.16
50 51 2.033299 CACTTGTGCGTGGAATCAACTT 59.967 45.455 0.00 0.00 0.00 2.66
51 52 3.249799 CACTTGTGCGTGGAATCAACTTA 59.750 43.478 0.00 0.00 0.00 2.24
52 53 3.250040 ACTTGTGCGTGGAATCAACTTAC 59.750 43.478 0.00 0.00 0.00 2.34
53 54 2.839975 TGTGCGTGGAATCAACTTACA 58.160 42.857 0.00 0.00 0.00 2.41
54 55 2.546368 TGTGCGTGGAATCAACTTACAC 59.454 45.455 0.00 0.00 44.14 2.90
55 56 2.095919 GTGCGTGGAATCAACTTACACC 60.096 50.000 0.00 0.00 44.66 4.16
56 57 2.147958 GCGTGGAATCAACTTACACCA 58.852 47.619 0.00 0.00 44.66 4.17
57 58 2.550606 GCGTGGAATCAACTTACACCAA 59.449 45.455 0.00 0.00 44.66 3.67
58 59 3.003897 GCGTGGAATCAACTTACACCAAA 59.996 43.478 0.00 0.00 44.66 3.28
59 60 4.320935 GCGTGGAATCAACTTACACCAAAT 60.321 41.667 0.00 0.00 44.66 2.32
60 61 5.768317 CGTGGAATCAACTTACACCAAATT 58.232 37.500 0.00 0.00 44.66 1.82
61 62 6.212955 CGTGGAATCAACTTACACCAAATTT 58.787 36.000 0.00 0.00 44.66 1.82
62 63 6.699642 CGTGGAATCAACTTACACCAAATTTT 59.300 34.615 0.00 0.00 44.66 1.82
63 64 7.306515 CGTGGAATCAACTTACACCAAATTTTG 60.307 37.037 1.99 1.99 44.66 2.44
64 65 7.494298 GTGGAATCAACTTACACCAAATTTTGT 59.506 33.333 8.26 1.41 42.11 2.83
65 66 8.043710 TGGAATCAACTTACACCAAATTTTGTT 58.956 29.630 8.26 0.00 0.00 2.83
66 67 8.888716 GGAATCAACTTACACCAAATTTTGTTT 58.111 29.630 8.26 0.00 0.00 2.83
67 68 9.701355 GAATCAACTTACACCAAATTTTGTTTG 57.299 29.630 8.26 7.26 0.00 2.93
68 69 9.442047 AATCAACTTACACCAAATTTTGTTTGA 57.558 25.926 8.26 9.43 29.25 2.69
69 70 8.472683 TCAACTTACACCAAATTTTGTTTGAG 57.527 30.769 8.26 0.74 0.00 3.02
70 71 7.547370 TCAACTTACACCAAATTTTGTTTGAGG 59.453 33.333 8.26 0.00 0.00 3.86
71 72 6.941857 ACTTACACCAAATTTTGTTTGAGGT 58.058 32.000 8.26 0.00 0.00 3.85
72 73 6.816140 ACTTACACCAAATTTTGTTTGAGGTG 59.184 34.615 16.11 16.11 32.01 4.00
73 74 5.413309 ACACCAAATTTTGTTTGAGGTGA 57.587 34.783 21.80 0.00 31.02 4.02
74 75 5.175127 ACACCAAATTTTGTTTGAGGTGAC 58.825 37.500 21.80 0.00 31.02 3.67
76 77 6.153680 ACACCAAATTTTGTTTGAGGTGACTA 59.846 34.615 21.80 0.00 44.43 2.59
77 78 7.038659 CACCAAATTTTGTTTGAGGTGACTAA 58.961 34.615 13.63 0.00 44.43 2.24
78 79 7.010091 CACCAAATTTTGTTTGAGGTGACTAAC 59.990 37.037 13.63 0.00 44.43 2.34
79 80 6.198216 CCAAATTTTGTTTGAGGTGACTAACG 59.802 38.462 8.26 0.00 44.43 3.18
80 81 6.445357 AATTTTGTTTGAGGTGACTAACGT 57.555 33.333 0.00 0.00 44.43 3.99
81 82 7.556733 AATTTTGTTTGAGGTGACTAACGTA 57.443 32.000 0.00 0.00 44.43 3.57
82 83 7.739498 ATTTTGTTTGAGGTGACTAACGTAT 57.261 32.000 0.00 0.00 44.43 3.06
83 84 8.836268 ATTTTGTTTGAGGTGACTAACGTATA 57.164 30.769 0.00 0.00 44.43 1.47
84 85 7.878477 TTTGTTTGAGGTGACTAACGTATAG 57.122 36.000 0.00 0.00 44.43 1.31
85 86 5.404946 TGTTTGAGGTGACTAACGTATAGC 58.595 41.667 0.00 0.00 44.43 2.97
86 87 4.644103 TTGAGGTGACTAACGTATAGCC 57.356 45.455 0.00 0.00 44.43 3.93
87 88 3.894759 TGAGGTGACTAACGTATAGCCT 58.105 45.455 0.00 0.00 44.43 4.58
88 89 5.039920 TGAGGTGACTAACGTATAGCCTA 57.960 43.478 0.00 0.00 44.43 3.93
89 90 5.628130 TGAGGTGACTAACGTATAGCCTAT 58.372 41.667 0.00 0.00 44.43 2.57
90 91 6.772605 TGAGGTGACTAACGTATAGCCTATA 58.227 40.000 0.00 0.00 44.43 1.31
91 92 7.226441 TGAGGTGACTAACGTATAGCCTATAA 58.774 38.462 0.00 0.00 44.43 0.98
92 93 7.720957 TGAGGTGACTAACGTATAGCCTATAAA 59.279 37.037 0.00 0.00 44.43 1.40
93 94 8.469309 AGGTGACTAACGTATAGCCTATAAAA 57.531 34.615 0.00 0.00 40.61 1.52
94 95 8.917088 AGGTGACTAACGTATAGCCTATAAAAA 58.083 33.333 0.00 0.00 40.61 1.94
115 116 6.610075 AAAAAGTGGATTATGGCTTCACAT 57.390 33.333 0.00 0.00 34.90 3.21
116 117 5.587388 AAAGTGGATTATGGCTTCACATG 57.413 39.130 0.00 0.00 32.39 3.21
117 118 2.954318 AGTGGATTATGGCTTCACATGC 59.046 45.455 0.00 0.00 32.39 4.06
118 119 2.954318 GTGGATTATGGCTTCACATGCT 59.046 45.455 0.00 0.00 32.39 3.79
119 120 3.004106 GTGGATTATGGCTTCACATGCTC 59.996 47.826 0.00 0.00 32.39 4.26
120 121 2.555757 GGATTATGGCTTCACATGCTCC 59.444 50.000 0.00 0.00 32.39 4.70
121 122 3.484407 GATTATGGCTTCACATGCTCCT 58.516 45.455 0.00 0.00 32.39 3.69
122 123 2.627515 TATGGCTTCACATGCTCCTC 57.372 50.000 0.00 0.00 32.39 3.71
123 124 0.106819 ATGGCTTCACATGCTCCTCC 60.107 55.000 0.00 0.00 0.00 4.30
124 125 1.817099 GGCTTCACATGCTCCTCCG 60.817 63.158 0.00 0.00 0.00 4.63
125 126 1.078848 GCTTCACATGCTCCTCCGT 60.079 57.895 0.00 0.00 0.00 4.69
126 127 0.674895 GCTTCACATGCTCCTCCGTT 60.675 55.000 0.00 0.00 0.00 4.44
127 128 1.363744 CTTCACATGCTCCTCCGTTC 58.636 55.000 0.00 0.00 0.00 3.95
128 129 0.389817 TTCACATGCTCCTCCGTTCG 60.390 55.000 0.00 0.00 0.00 3.95
129 130 1.811266 CACATGCTCCTCCGTTCGG 60.811 63.158 4.74 4.74 0.00 4.30
130 131 2.283529 ACATGCTCCTCCGTTCGGT 61.284 57.895 11.04 0.00 0.00 4.69
131 132 1.519455 CATGCTCCTCCGTTCGGTC 60.519 63.158 11.04 0.00 0.00 4.79
132 133 1.982395 ATGCTCCTCCGTTCGGTCA 60.982 57.895 11.04 3.92 0.00 4.02
133 134 2.126031 GCTCCTCCGTTCGGTCAC 60.126 66.667 11.04 0.00 0.00 3.67
134 135 2.572284 CTCCTCCGTTCGGTCACC 59.428 66.667 11.04 0.00 0.00 4.02
135 136 2.203523 TCCTCCGTTCGGTCACCA 60.204 61.111 11.04 0.00 0.00 4.17
136 137 1.812686 CTCCTCCGTTCGGTCACCAA 61.813 60.000 11.04 0.00 0.00 3.67
137 138 1.666872 CCTCCGTTCGGTCACCAAC 60.667 63.158 11.04 0.00 0.00 3.77
138 139 1.068417 CTCCGTTCGGTCACCAACA 59.932 57.895 11.04 0.00 0.00 3.33
139 140 0.320421 CTCCGTTCGGTCACCAACAT 60.320 55.000 11.04 0.00 0.00 2.71
140 141 0.320073 TCCGTTCGGTCACCAACATC 60.320 55.000 11.04 0.00 0.00 3.06
141 142 0.320421 CCGTTCGGTCACCAACATCT 60.320 55.000 0.00 0.00 0.00 2.90
142 143 1.068474 CGTTCGGTCACCAACATCTC 58.932 55.000 0.00 0.00 0.00 2.75
143 144 1.336887 CGTTCGGTCACCAACATCTCT 60.337 52.381 0.00 0.00 0.00 3.10
144 145 2.338500 GTTCGGTCACCAACATCTCTC 58.662 52.381 0.00 0.00 0.00 3.20
145 146 1.924731 TCGGTCACCAACATCTCTCT 58.075 50.000 0.00 0.00 0.00 3.10
160 161 7.798596 ACATCTCTCTAACATTTTGGCATAG 57.201 36.000 0.00 0.00 0.00 2.23
163 164 8.896744 CATCTCTCTAACATTTTGGCATAGAAA 58.103 33.333 0.00 0.00 0.00 2.52
167 168 8.896744 TCTCTAACATTTTGGCATAGAAATGAG 58.103 33.333 23.08 14.13 42.85 2.90
178 179 4.880696 GCATAGAAATGAGCTGAGGAACTT 59.119 41.667 0.00 0.00 34.63 2.66
256 257 0.952010 CGACCCATTTTTCGGACGGT 60.952 55.000 0.00 0.00 34.36 4.83
264 265 1.448922 TTTTCGGACGGTTTGCCCAG 61.449 55.000 0.00 0.00 0.00 4.45
277 278 2.201490 CCCAGGGCTCCGATCCTA 59.799 66.667 0.00 0.00 0.00 2.94
295 296 6.924060 CGATCCTAACAACCCTTAAGATACAG 59.076 42.308 3.36 0.00 0.00 2.74
303 304 6.499350 ACAACCCTTAAGATACAGGTTAGTCA 59.501 38.462 11.36 0.00 38.76 3.41
304 305 7.016858 ACAACCCTTAAGATACAGGTTAGTCAA 59.983 37.037 11.36 0.00 38.76 3.18
344 345 6.402222 AGTTTTAAGTGCCACACAATTTTGA 58.598 32.000 0.00 0.00 37.77 2.69
347 348 4.734398 AAGTGCCACACAATTTTGAAGA 57.266 36.364 0.00 0.00 31.06 2.87
351 352 5.301551 AGTGCCACACAATTTTGAAGACATA 59.698 36.000 0.00 0.00 36.74 2.29
354 355 5.982516 GCCACACAATTTTGAAGACATACAA 59.017 36.000 0.00 0.00 0.00 2.41
453 455 1.153229 GCGGTATCCCAACCCTGTC 60.153 63.158 0.00 0.00 36.03 3.51
456 458 1.286248 GGTATCCCAACCCTGTCAGT 58.714 55.000 0.00 0.00 33.02 3.41
463 465 1.597742 CAACCCTGTCAGTGACCAAG 58.402 55.000 20.43 11.73 0.00 3.61
483 485 1.411394 CTGCATGTTTGACGCTTTGG 58.589 50.000 0.00 0.00 0.00 3.28
485 487 1.950216 TGCATGTTTGACGCTTTGGTA 59.050 42.857 0.00 0.00 0.00 3.25
491 493 4.602995 TGTTTGACGCTTTGGTATTTCAC 58.397 39.130 0.00 0.00 0.00 3.18
516 518 9.988350 ACTAATGTAAATTATTCTTTCTGTGCG 57.012 29.630 0.00 0.00 0.00 5.34
525 527 4.934075 TTCTTTCTGTGCGAGATGATTG 57.066 40.909 0.00 0.00 0.00 2.67
527 529 3.928992 TCTTTCTGTGCGAGATGATTGTC 59.071 43.478 0.00 0.00 0.00 3.18
545 547 8.127150 TGATTGTCTATCGATGATAATGAGGT 57.873 34.615 17.71 2.76 35.94 3.85
546 548 8.031277 TGATTGTCTATCGATGATAATGAGGTG 58.969 37.037 17.71 0.00 35.94 4.00
553 555 4.060205 CGATGATAATGAGGTGCATGTGA 58.940 43.478 0.00 0.00 37.28 3.58
557 559 5.627135 TGATAATGAGGTGCATGTGATGAT 58.373 37.500 0.00 0.00 37.28 2.45
584 586 3.565482 TCAATCTTGAAGCTTCGCAACTT 59.435 39.130 21.11 8.34 33.55 2.66
600 602 3.053455 CAACTTCGATCCTATCTTCGGC 58.947 50.000 0.00 0.00 36.08 5.54
615 619 4.626081 GGCAGGCGGTGTGAGTGT 62.626 66.667 0.00 0.00 0.00 3.55
617 621 2.108976 CAGGCGGTGTGAGTGTGT 59.891 61.111 0.00 0.00 0.00 3.72
630 634 0.613260 AGTGTGTATGGTGCCGTGAT 59.387 50.000 0.00 0.00 0.00 3.06
632 636 1.810151 GTGTGTATGGTGCCGTGATTT 59.190 47.619 0.00 0.00 0.00 2.17
633 637 2.227865 GTGTGTATGGTGCCGTGATTTT 59.772 45.455 0.00 0.00 0.00 1.82
634 638 2.227626 TGTGTATGGTGCCGTGATTTTG 59.772 45.455 0.00 0.00 0.00 2.44
635 639 2.486203 GTGTATGGTGCCGTGATTTTGA 59.514 45.455 0.00 0.00 0.00 2.69
853 3080 3.081061 TCCCTGGAAATTCGATGTTGTG 58.919 45.455 0.00 0.00 0.00 3.33
956 3183 0.389948 GTGGATATCCGATCCCACGC 60.390 60.000 17.04 0.00 39.52 5.34
957 3184 0.541998 TGGATATCCGATCCCACGCT 60.542 55.000 17.04 0.00 39.43 5.07
958 3185 1.272258 TGGATATCCGATCCCACGCTA 60.272 52.381 17.04 0.00 39.43 4.26
959 3186 1.405821 GGATATCCGATCCCACGCTAG 59.594 57.143 5.86 0.00 32.09 3.42
1004 3231 4.636435 ACGGCTCCACCCCAAACG 62.636 66.667 0.00 0.00 33.26 3.60
1011 3238 1.378514 CCACCCCAAACGCATAGCT 60.379 57.895 0.00 0.00 0.00 3.32
1065 3296 3.136809 TGGTTTAGACAACACCTAGCCAA 59.863 43.478 0.00 0.00 0.00 4.52
1081 3312 1.417890 GCCAAGCATCCTTCCTAGCTA 59.582 52.381 0.00 0.00 36.07 3.32
1429 3663 4.529219 CACCAGGCCGCGCTCATA 62.529 66.667 5.56 0.00 0.00 2.15
1625 3859 2.279120 CTCACGATCTGCCTCCGC 60.279 66.667 0.00 0.00 0.00 5.54
1637 3871 4.399395 CTCCGCTGCCTTCCTGCA 62.399 66.667 0.00 0.00 38.20 4.41
1642 3876 1.807886 GCTGCCTTCCTGCATCTTG 59.192 57.895 0.00 0.00 41.16 3.02
1645 3879 0.627451 TGCCTTCCTGCATCTTGGAT 59.373 50.000 0.00 0.00 36.04 3.41
1787 4027 7.888168 ACTGATTAAGTGATTATGCAGTTTGCG 60.888 37.037 0.00 0.00 41.77 4.85
1806 4046 3.047796 GCGTACCCAAGTATGTATGTCG 58.952 50.000 0.00 0.00 37.72 4.35
1846 4086 6.066032 AGTTGCTATCTCTAGTTCTCTACCC 58.934 44.000 0.00 0.00 0.00 3.69
1862 4102 7.005709 TCTCTACCCAATTAGCCTAATTAGC 57.994 40.000 9.30 3.18 36.29 3.09
2059 4303 3.879998 TCCAACTAGTGTGTTTGCTTCA 58.120 40.909 0.00 0.00 0.00 3.02
2060 4304 4.460263 TCCAACTAGTGTGTTTGCTTCAT 58.540 39.130 0.00 0.00 0.00 2.57
2061 4305 5.616270 TCCAACTAGTGTGTTTGCTTCATA 58.384 37.500 0.00 0.00 0.00 2.15
2062 4306 6.237901 TCCAACTAGTGTGTTTGCTTCATAT 58.762 36.000 0.00 0.00 0.00 1.78
2082 4326 2.981859 ATATTTCGTCCTTCGGTGCT 57.018 45.000 0.00 0.00 40.32 4.40
2095 4346 2.871133 TCGGTGCTACTTTATCGTGTG 58.129 47.619 0.00 0.00 0.00 3.82
2096 4347 1.323534 CGGTGCTACTTTATCGTGTGC 59.676 52.381 0.00 0.00 0.00 4.57
2097 4348 2.343101 GGTGCTACTTTATCGTGTGCA 58.657 47.619 0.00 0.00 0.00 4.57
2098 4349 2.348666 GGTGCTACTTTATCGTGTGCAG 59.651 50.000 0.00 0.00 31.80 4.41
2099 4350 1.999735 TGCTACTTTATCGTGTGCAGC 59.000 47.619 0.00 0.00 0.00 5.25
2100 4351 2.271800 GCTACTTTATCGTGTGCAGCT 58.728 47.619 0.00 0.00 0.00 4.24
2101 4352 2.673368 GCTACTTTATCGTGTGCAGCTT 59.327 45.455 0.00 0.00 0.00 3.74
2102 4353 3.125316 GCTACTTTATCGTGTGCAGCTTT 59.875 43.478 0.00 0.00 0.00 3.51
2103 4354 4.328983 GCTACTTTATCGTGTGCAGCTTTA 59.671 41.667 0.00 0.00 0.00 1.85
2104 4355 4.663636 ACTTTATCGTGTGCAGCTTTAC 57.336 40.909 0.00 0.00 0.00 2.01
2208 4459 1.413445 TCATTTTGCAGTTGCTGGCTT 59.587 42.857 5.62 0.00 42.66 4.35
2305 4556 5.661312 ACTCCATGGTAGAGTTATGCTTACA 59.339 40.000 12.58 0.00 41.87 2.41
2398 4694 3.244078 ACATAGAACGCAACTCCACTTGA 60.244 43.478 0.00 0.00 0.00 3.02
2421 4717 6.936900 TGAAAACTAGGAAGAGAACCAGATTG 59.063 38.462 0.00 0.00 0.00 2.67
2522 4821 5.414454 TCAACCCCATCAAGAACGAAAATAG 59.586 40.000 0.00 0.00 0.00 1.73
2550 4849 2.622629 CGCGAACATGCATCTCCG 59.377 61.111 0.00 1.17 34.15 4.63
2613 4912 7.602265 ACCAAACATATTGACCATTGCTTAAAC 59.398 33.333 0.00 0.00 0.00 2.01
2638 4937 9.654663 ACAAGAATAGTGTATGAAACTAAGTCC 57.345 33.333 0.00 0.00 33.97 3.85
2652 4951 0.593128 AAGTCCGCAGTGTGCATTTC 59.407 50.000 0.00 0.00 45.36 2.17
2686 4985 2.218603 CCAAACTCAACCGCTTACACT 58.781 47.619 0.00 0.00 0.00 3.55
2691 4990 5.607119 AACTCAACCGCTTACACTTATTG 57.393 39.130 0.00 0.00 0.00 1.90
2716 5015 5.726980 AGTTAACGGTCAATACACCTACA 57.273 39.130 0.00 0.00 33.77 2.74
2759 5058 1.392710 CCCTCCTCTATTGCGACGGT 61.393 60.000 0.00 0.00 0.00 4.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.917541 TTTTCACACACTTCGTATTCCTC 57.082 39.130 0.00 0.00 0.00 3.71
1 2 6.877611 ATTTTTCACACACTTCGTATTCCT 57.122 33.333 0.00 0.00 0.00 3.36
2 3 8.025243 TCTATTTTTCACACACTTCGTATTCC 57.975 34.615 0.00 0.00 0.00 3.01
3 4 9.314501 GTTCTATTTTTCACACACTTCGTATTC 57.685 33.333 0.00 0.00 0.00 1.75
4 5 8.832521 TGTTCTATTTTTCACACACTTCGTATT 58.167 29.630 0.00 0.00 0.00 1.89
6 7 7.493320 AGTGTTCTATTTTTCACACACTTCGTA 59.507 33.333 4.26 0.00 41.60 3.43
8 9 6.715464 AGTGTTCTATTTTTCACACACTTCG 58.285 36.000 4.26 0.00 41.60 3.79
11 12 7.250569 CACAAGTGTTCTATTTTTCACACACT 58.749 34.615 4.26 0.00 45.25 3.55
12 13 6.020678 GCACAAGTGTTCTATTTTTCACACAC 60.021 38.462 1.79 0.00 41.73 3.82
13 14 6.033341 GCACAAGTGTTCTATTTTTCACACA 58.967 36.000 1.79 0.00 41.73 3.72
14 15 5.171337 CGCACAAGTGTTCTATTTTTCACAC 59.829 40.000 1.79 0.00 39.94 3.82
15 16 5.163703 ACGCACAAGTGTTCTATTTTTCACA 60.164 36.000 1.79 0.00 34.04 3.58
16 17 5.171337 CACGCACAAGTGTTCTATTTTTCAC 59.829 40.000 1.79 0.00 36.03 3.18
17 18 5.270083 CACGCACAAGTGTTCTATTTTTCA 58.730 37.500 1.79 0.00 36.03 2.69
18 19 4.675114 CCACGCACAAGTGTTCTATTTTTC 59.325 41.667 1.79 0.00 40.33 2.29
19 20 4.336993 TCCACGCACAAGTGTTCTATTTTT 59.663 37.500 1.79 0.00 40.33 1.94
20 21 3.880490 TCCACGCACAAGTGTTCTATTTT 59.120 39.130 1.79 0.00 40.33 1.82
21 22 3.472652 TCCACGCACAAGTGTTCTATTT 58.527 40.909 1.79 0.00 40.33 1.40
22 23 3.120321 TCCACGCACAAGTGTTCTATT 57.880 42.857 1.79 0.00 40.33 1.73
23 24 2.831685 TCCACGCACAAGTGTTCTAT 57.168 45.000 1.79 0.00 40.33 1.98
24 25 2.605837 TTCCACGCACAAGTGTTCTA 57.394 45.000 1.79 0.00 40.33 2.10
25 26 1.873591 GATTCCACGCACAAGTGTTCT 59.126 47.619 1.79 0.00 40.33 3.01
26 27 1.601903 TGATTCCACGCACAAGTGTTC 59.398 47.619 1.79 0.00 40.33 3.18
27 28 1.674359 TGATTCCACGCACAAGTGTT 58.326 45.000 1.79 0.00 40.33 3.32
28 29 1.333619 GTTGATTCCACGCACAAGTGT 59.666 47.619 1.79 0.00 40.33 3.55
29 30 1.603802 AGTTGATTCCACGCACAAGTG 59.396 47.619 0.00 0.00 41.53 3.16
30 31 1.967319 AGTTGATTCCACGCACAAGT 58.033 45.000 0.00 0.00 0.00 3.16
31 32 3.249799 TGTAAGTTGATTCCACGCACAAG 59.750 43.478 0.00 0.00 0.00 3.16
32 33 3.002862 GTGTAAGTTGATTCCACGCACAA 59.997 43.478 0.00 0.00 0.00 3.33
33 34 2.546368 GTGTAAGTTGATTCCACGCACA 59.454 45.455 0.00 2.76 0.00 4.57
34 35 2.095919 GGTGTAAGTTGATTCCACGCAC 60.096 50.000 0.00 0.00 0.00 5.34
35 36 2.147958 GGTGTAAGTTGATTCCACGCA 58.852 47.619 0.00 0.00 0.00 5.24
36 37 2.147958 TGGTGTAAGTTGATTCCACGC 58.852 47.619 0.00 0.00 0.00 5.34
37 38 4.822036 TTTGGTGTAAGTTGATTCCACG 57.178 40.909 0.00 0.00 0.00 4.94
38 39 7.494298 ACAAAATTTGGTGTAAGTTGATTCCAC 59.506 33.333 10.71 0.00 34.12 4.02
39 40 7.560368 ACAAAATTTGGTGTAAGTTGATTCCA 58.440 30.769 10.71 0.00 34.12 3.53
40 41 8.432110 AACAAAATTTGGTGTAAGTTGATTCC 57.568 30.769 10.71 0.00 34.12 3.01
41 42 9.701355 CAAACAAAATTTGGTGTAAGTTGATTC 57.299 29.630 10.71 0.00 34.12 2.52
42 43 9.442047 TCAAACAAAATTTGGTGTAAGTTGATT 57.558 25.926 10.71 0.00 34.12 2.57
43 44 9.097257 CTCAAACAAAATTTGGTGTAAGTTGAT 57.903 29.630 10.71 0.00 34.12 2.57
44 45 7.547370 CCTCAAACAAAATTTGGTGTAAGTTGA 59.453 33.333 10.71 4.53 34.12 3.18
45 46 7.333174 ACCTCAAACAAAATTTGGTGTAAGTTG 59.667 33.333 10.71 0.11 34.12 3.16
46 47 7.333174 CACCTCAAACAAAATTTGGTGTAAGTT 59.667 33.333 10.71 0.00 38.75 2.66
47 48 6.816140 CACCTCAAACAAAATTTGGTGTAAGT 59.184 34.615 10.71 0.00 38.75 2.24
48 49 7.010091 GTCACCTCAAACAAAATTTGGTGTAAG 59.990 37.037 16.71 1.11 42.65 2.34
49 50 6.814146 GTCACCTCAAACAAAATTTGGTGTAA 59.186 34.615 16.71 1.87 42.65 2.41
50 51 6.153680 AGTCACCTCAAACAAAATTTGGTGTA 59.846 34.615 16.71 5.91 42.65 2.90
51 52 5.046663 AGTCACCTCAAACAAAATTTGGTGT 60.047 36.000 16.71 2.42 42.65 4.16
52 53 5.418676 AGTCACCTCAAACAAAATTTGGTG 58.581 37.500 10.71 12.96 43.22 4.17
53 54 5.675684 AGTCACCTCAAACAAAATTTGGT 57.324 34.783 10.71 0.00 34.12 3.67
54 55 6.198216 CGTTAGTCACCTCAAACAAAATTTGG 59.802 38.462 10.71 0.00 34.12 3.28
55 56 6.750039 ACGTTAGTCACCTCAAACAAAATTTG 59.250 34.615 3.89 3.89 0.00 2.32
56 57 6.859017 ACGTTAGTCACCTCAAACAAAATTT 58.141 32.000 0.00 0.00 0.00 1.82
57 58 6.445357 ACGTTAGTCACCTCAAACAAAATT 57.555 33.333 0.00 0.00 0.00 1.82
58 59 7.739498 ATACGTTAGTCACCTCAAACAAAAT 57.261 32.000 0.00 0.00 0.00 1.82
59 60 7.095523 GCTATACGTTAGTCACCTCAAACAAAA 60.096 37.037 0.00 0.00 0.00 2.44
60 61 6.366877 GCTATACGTTAGTCACCTCAAACAAA 59.633 38.462 0.00 0.00 0.00 2.83
61 62 5.865552 GCTATACGTTAGTCACCTCAAACAA 59.134 40.000 0.00 0.00 0.00 2.83
62 63 5.404946 GCTATACGTTAGTCACCTCAAACA 58.595 41.667 0.00 0.00 0.00 2.83
63 64 4.802563 GGCTATACGTTAGTCACCTCAAAC 59.197 45.833 0.00 0.00 0.00 2.93
64 65 4.708421 AGGCTATACGTTAGTCACCTCAAA 59.292 41.667 0.00 0.00 0.00 2.69
65 66 4.275810 AGGCTATACGTTAGTCACCTCAA 58.724 43.478 0.00 0.00 0.00 3.02
66 67 3.894759 AGGCTATACGTTAGTCACCTCA 58.105 45.455 0.00 0.00 0.00 3.86
67 68 7.678947 TTATAGGCTATACGTTAGTCACCTC 57.321 40.000 13.71 0.00 0.00 3.85
68 69 8.469309 TTTTATAGGCTATACGTTAGTCACCT 57.531 34.615 13.71 0.00 0.00 4.00
92 93 6.400568 CATGTGAAGCCATAATCCACTTTTT 58.599 36.000 0.00 0.00 0.00 1.94
93 94 5.625197 GCATGTGAAGCCATAATCCACTTTT 60.625 40.000 0.00 0.00 0.00 2.27
94 95 4.142093 GCATGTGAAGCCATAATCCACTTT 60.142 41.667 0.00 0.00 0.00 2.66
95 96 3.382546 GCATGTGAAGCCATAATCCACTT 59.617 43.478 0.00 0.00 0.00 3.16
96 97 2.954318 GCATGTGAAGCCATAATCCACT 59.046 45.455 0.00 0.00 0.00 4.00
97 98 2.954318 AGCATGTGAAGCCATAATCCAC 59.046 45.455 0.00 0.00 0.00 4.02
98 99 3.216800 GAGCATGTGAAGCCATAATCCA 58.783 45.455 0.00 0.00 0.00 3.41
99 100 2.555757 GGAGCATGTGAAGCCATAATCC 59.444 50.000 0.00 0.00 0.00 3.01
100 101 3.484407 AGGAGCATGTGAAGCCATAATC 58.516 45.455 0.00 0.00 0.00 1.75
101 102 3.484407 GAGGAGCATGTGAAGCCATAAT 58.516 45.455 0.00 0.00 0.00 1.28
102 103 2.421952 GGAGGAGCATGTGAAGCCATAA 60.422 50.000 0.00 0.00 0.00 1.90
103 104 1.141657 GGAGGAGCATGTGAAGCCATA 59.858 52.381 0.00 0.00 0.00 2.74
104 105 0.106819 GGAGGAGCATGTGAAGCCAT 60.107 55.000 0.00 0.00 0.00 4.40
105 106 1.300963 GGAGGAGCATGTGAAGCCA 59.699 57.895 0.00 0.00 0.00 4.75
106 107 1.817099 CGGAGGAGCATGTGAAGCC 60.817 63.158 0.00 0.00 0.00 4.35
107 108 0.674895 AACGGAGGAGCATGTGAAGC 60.675 55.000 0.00 0.00 0.00 3.86
108 109 1.363744 GAACGGAGGAGCATGTGAAG 58.636 55.000 0.00 0.00 0.00 3.02
109 110 0.389817 CGAACGGAGGAGCATGTGAA 60.390 55.000 0.00 0.00 0.00 3.18
110 111 1.215382 CGAACGGAGGAGCATGTGA 59.785 57.895 0.00 0.00 0.00 3.58
111 112 1.811266 CCGAACGGAGGAGCATGTG 60.811 63.158 7.53 0.00 37.50 3.21
112 113 2.227089 GACCGAACGGAGGAGCATGT 62.227 60.000 20.14 0.00 38.96 3.21
113 114 1.519455 GACCGAACGGAGGAGCATG 60.519 63.158 20.14 0.00 38.96 4.06
114 115 1.982395 TGACCGAACGGAGGAGCAT 60.982 57.895 20.14 0.00 38.96 3.79
115 116 2.599281 TGACCGAACGGAGGAGCA 60.599 61.111 20.14 6.79 38.96 4.26
116 117 2.126031 GTGACCGAACGGAGGAGC 60.126 66.667 20.14 4.49 38.96 4.70
117 118 1.812686 TTGGTGACCGAACGGAGGAG 61.813 60.000 20.14 0.00 38.96 3.69
118 119 1.833492 TTGGTGACCGAACGGAGGA 60.833 57.895 20.14 0.25 38.96 3.71
119 120 1.666872 GTTGGTGACCGAACGGAGG 60.667 63.158 20.14 0.00 38.96 4.30
120 121 0.320421 ATGTTGGTGACCGAACGGAG 60.320 55.000 20.14 0.00 38.96 4.63
121 122 0.320073 GATGTTGGTGACCGAACGGA 60.320 55.000 20.14 0.00 38.96 4.69
122 123 0.320421 AGATGTTGGTGACCGAACGG 60.320 55.000 11.83 11.83 42.03 4.44
123 124 1.068474 GAGATGTTGGTGACCGAACG 58.932 55.000 0.00 0.00 0.00 3.95
124 125 2.028930 AGAGAGATGTTGGTGACCGAAC 60.029 50.000 0.00 1.51 0.00 3.95
125 126 2.248248 AGAGAGATGTTGGTGACCGAA 58.752 47.619 0.00 0.00 0.00 4.30
126 127 1.924731 AGAGAGATGTTGGTGACCGA 58.075 50.000 0.00 0.00 0.00 4.69
127 128 3.056821 TGTTAGAGAGATGTTGGTGACCG 60.057 47.826 0.00 0.00 0.00 4.79
128 129 4.537135 TGTTAGAGAGATGTTGGTGACC 57.463 45.455 0.00 0.00 0.00 4.02
129 130 7.301054 CAAAATGTTAGAGAGATGTTGGTGAC 58.699 38.462 0.00 0.00 0.00 3.67
130 131 6.430925 CCAAAATGTTAGAGAGATGTTGGTGA 59.569 38.462 0.00 0.00 40.12 4.02
131 132 6.615088 CCAAAATGTTAGAGAGATGTTGGTG 58.385 40.000 0.00 0.00 40.12 4.17
132 133 5.183904 GCCAAAATGTTAGAGAGATGTTGGT 59.816 40.000 0.00 0.00 44.55 3.67
133 134 5.183713 TGCCAAAATGTTAGAGAGATGTTGG 59.816 40.000 0.00 0.00 45.19 3.77
134 135 6.258230 TGCCAAAATGTTAGAGAGATGTTG 57.742 37.500 0.00 0.00 0.00 3.33
135 136 8.049117 TCTATGCCAAAATGTTAGAGAGATGTT 58.951 33.333 0.00 0.00 0.00 2.71
136 137 7.568349 TCTATGCCAAAATGTTAGAGAGATGT 58.432 34.615 0.00 0.00 0.00 3.06
137 138 8.442632 TTCTATGCCAAAATGTTAGAGAGATG 57.557 34.615 0.00 0.00 0.00 2.90
138 139 9.638176 ATTTCTATGCCAAAATGTTAGAGAGAT 57.362 29.630 0.00 0.00 0.00 2.75
139 140 8.896744 CATTTCTATGCCAAAATGTTAGAGAGA 58.103 33.333 0.00 0.00 37.83 3.10
140 141 8.896744 TCATTTCTATGCCAAAATGTTAGAGAG 58.103 33.333 7.47 0.00 41.47 3.20
141 142 8.806429 TCATTTCTATGCCAAAATGTTAGAGA 57.194 30.769 7.47 0.00 41.47 3.10
142 143 7.646922 GCTCATTTCTATGCCAAAATGTTAGAG 59.353 37.037 7.47 0.00 41.47 2.43
143 144 7.340232 AGCTCATTTCTATGCCAAAATGTTAGA 59.660 33.333 7.47 0.00 41.47 2.10
144 145 7.434307 CAGCTCATTTCTATGCCAAAATGTTAG 59.566 37.037 7.47 1.65 41.47 2.34
145 146 7.122501 TCAGCTCATTTCTATGCCAAAATGTTA 59.877 33.333 7.47 0.00 41.47 2.41
160 161 5.221322 ACCAAAAAGTTCCTCAGCTCATTTC 60.221 40.000 0.00 0.00 0.00 2.17
163 164 3.571401 CACCAAAAAGTTCCTCAGCTCAT 59.429 43.478 0.00 0.00 0.00 2.90
167 168 2.427095 ACACACCAAAAAGTTCCTCAGC 59.573 45.455 0.00 0.00 0.00 4.26
207 208 1.624813 CTTGGTTGCCCATTTGGATGT 59.375 47.619 0.00 0.00 41.49 3.06
236 237 1.133869 CGTCCGAAAAATGGGTCGC 59.866 57.895 0.00 0.00 35.93 5.19
264 265 0.179054 GGTTGTTAGGATCGGAGCCC 60.179 60.000 9.01 0.00 0.00 5.19
276 277 8.439964 ACTAACCTGTATCTTAAGGGTTGTTA 57.560 34.615 18.17 10.89 36.03 2.41
277 278 7.016858 TGACTAACCTGTATCTTAAGGGTTGTT 59.983 37.037 18.17 10.46 39.00 2.83
316 317 5.590530 TTGTGTGGCACTTAAAACTTGAT 57.409 34.783 19.83 0.00 35.11 2.57
321 322 6.654793 TCAAAATTGTGTGGCACTTAAAAC 57.345 33.333 19.83 8.63 35.11 2.43
322 323 7.064016 GTCTTCAAAATTGTGTGGCACTTAAAA 59.936 33.333 19.83 8.11 35.11 1.52
447 449 0.604780 CAGCTTGGTCACTGACAGGG 60.605 60.000 11.34 2.02 35.90 4.45
453 455 0.956633 AACATGCAGCTTGGTCACTG 59.043 50.000 12.65 0.00 36.96 3.66
456 458 1.337703 GTCAAACATGCAGCTTGGTCA 59.662 47.619 12.65 0.00 0.00 4.02
463 465 0.780002 CAAAGCGTCAAACATGCAGC 59.220 50.000 0.00 0.00 39.85 5.25
525 527 6.255237 CATGCACCTCATTATCATCGATAGAC 59.745 42.308 0.00 0.00 40.35 2.59
527 529 6.035758 CACATGCACCTCATTATCATCGATAG 59.964 42.308 0.00 0.00 31.79 2.08
545 547 4.637091 AGATTGACGAAATCATCACATGCA 59.363 37.500 14.85 0.00 46.21 3.96
546 548 5.165911 AGATTGACGAAATCATCACATGC 57.834 39.130 14.85 0.00 46.21 4.06
553 555 6.506500 AAGCTTCAAGATTGACGAAATCAT 57.493 33.333 14.85 3.78 46.21 2.45
557 559 4.389664 CGAAGCTTCAAGATTGACGAAA 57.610 40.909 25.47 0.00 36.83 3.46
584 586 1.248486 CCTGCCGAAGATAGGATCGA 58.752 55.000 0.00 0.00 41.43 3.59
600 602 0.037326 ATACACACTCACACCGCCTG 60.037 55.000 0.00 0.00 0.00 4.85
615 619 2.784347 TCAAAATCACGGCACCATACA 58.216 42.857 0.00 0.00 0.00 2.29
617 621 2.687425 CCATCAAAATCACGGCACCATA 59.313 45.455 0.00 0.00 0.00 2.74
630 634 3.628032 TGTAAACTCACACGCCATCAAAA 59.372 39.130 0.00 0.00 0.00 2.44
632 636 2.839975 TGTAAACTCACACGCCATCAA 58.160 42.857 0.00 0.00 0.00 2.57
633 637 2.535012 TGTAAACTCACACGCCATCA 57.465 45.000 0.00 0.00 0.00 3.07
634 638 5.734855 ATAATGTAAACTCACACGCCATC 57.265 39.130 0.00 0.00 0.00 3.51
635 639 6.037830 GGTTATAATGTAAACTCACACGCCAT 59.962 38.462 0.00 0.00 0.00 4.40
812 816 2.176247 TCAACCAGGACCCTAGGATC 57.824 55.000 11.48 0.88 0.00 3.36
853 3080 1.131883 GATTCCTGCAGTGCATGTGAC 59.868 52.381 20.10 7.10 38.13 3.67
956 3183 7.169982 GGTGCTGTTGTATTTATACTGAGCTAG 59.830 40.741 14.03 0.00 34.01 3.42
957 3184 6.984474 GGTGCTGTTGTATTTATACTGAGCTA 59.016 38.462 14.03 0.00 34.01 3.32
958 3185 5.817816 GGTGCTGTTGTATTTATACTGAGCT 59.182 40.000 14.03 0.00 34.01 4.09
959 3186 5.007724 GGGTGCTGTTGTATTTATACTGAGC 59.992 44.000 1.95 6.48 34.41 4.26
1023 3254 0.740149 CTGTGTGCTGCTGGTTTCAA 59.260 50.000 0.00 0.00 0.00 2.69
1065 3296 1.347062 GGCTAGCTAGGAAGGATGCT 58.653 55.000 22.10 0.00 39.30 3.79
1081 3312 3.196469 CGTAGTGATATGGATCCATGGCT 59.804 47.826 33.41 24.90 37.82 4.75
1427 3661 1.381872 AGCCCTCCTCGTGCTGTAT 60.382 57.895 0.00 0.00 33.23 2.29
1429 3663 3.699894 CAGCCCTCCTCGTGCTGT 61.700 66.667 2.69 0.00 45.69 4.40
1637 3871 1.411977 CGCAGACTCCTCATCCAAGAT 59.588 52.381 0.00 0.00 0.00 2.40
1642 3876 2.107953 GCCGCAGACTCCTCATCC 59.892 66.667 0.00 0.00 0.00 3.51
1787 4027 4.614946 GTCCGACATACATACTTGGGTAC 58.385 47.826 0.00 0.00 0.00 3.34
1806 4046 2.728922 CAACTACGGATCTAAGCGTCC 58.271 52.381 0.00 0.00 0.00 4.79
1824 4064 6.014771 TGGGTAGAGAACTAGAGATAGCAA 57.985 41.667 0.00 0.00 0.00 3.91
1846 4086 5.334414 CGGCAAGAGCTAATTAGGCTAATTG 60.334 44.000 32.59 24.41 40.40 2.32
2048 4292 8.774586 AGGACGAAATATATATGAAGCAAACAC 58.225 33.333 0.00 0.00 0.00 3.32
2082 4326 5.119588 GTGTAAAGCTGCACACGATAAAGTA 59.880 40.000 13.54 0.00 38.01 2.24
2095 4346 5.175090 AGTGAAAAAGAGTGTAAAGCTGC 57.825 39.130 0.00 0.00 0.00 5.25
2096 4347 5.456822 GCAAGTGAAAAAGAGTGTAAAGCTG 59.543 40.000 0.00 0.00 0.00 4.24
2097 4348 5.450550 GGCAAGTGAAAAAGAGTGTAAAGCT 60.451 40.000 0.00 0.00 0.00 3.74
2098 4349 4.740205 GGCAAGTGAAAAAGAGTGTAAAGC 59.260 41.667 0.00 0.00 0.00 3.51
2099 4350 6.136541 AGGCAAGTGAAAAAGAGTGTAAAG 57.863 37.500 0.00 0.00 0.00 1.85
2100 4351 6.524101 AAGGCAAGTGAAAAAGAGTGTAAA 57.476 33.333 0.00 0.00 0.00 2.01
2101 4352 6.524101 AAAGGCAAGTGAAAAAGAGTGTAA 57.476 33.333 0.00 0.00 0.00 2.41
2102 4353 6.524101 AAAAGGCAAGTGAAAAAGAGTGTA 57.476 33.333 0.00 0.00 0.00 2.90
2103 4354 5.405935 AAAAGGCAAGTGAAAAAGAGTGT 57.594 34.783 0.00 0.00 0.00 3.55
2104 4355 6.101997 AGAAAAAGGCAAGTGAAAAAGAGTG 58.898 36.000 0.00 0.00 0.00 3.51
2208 4459 9.078990 CATACATTCTACCTCCTAATACACTCA 57.921 37.037 0.00 0.00 0.00 3.41
2240 4491 1.741528 TATACAGCACGTCGTCCTGA 58.258 50.000 22.77 7.07 0.00 3.86
2305 4556 1.355720 ACACCAGGCATTAGCTTTCCT 59.644 47.619 0.00 0.00 41.70 3.36
2318 4569 3.653344 CATGTGGTATCGATACACCAGG 58.347 50.000 31.03 23.84 45.31 4.45
2366 4617 7.384115 GGAGTTGCGTTCTATGTATGCTATTTA 59.616 37.037 0.00 0.00 0.00 1.40
2398 4694 6.842676 ACAATCTGGTTCTCTTCCTAGTTTT 58.157 36.000 0.00 0.00 0.00 2.43
2522 4821 1.127951 CATGTTCGCGGTTGTTAGACC 59.872 52.381 6.13 0.00 36.31 3.85
2613 4912 8.808529 CGGACTTAGTTTCATACACTATTCTTG 58.191 37.037 0.00 0.00 0.00 3.02
2638 4937 3.089179 CGAATACGAAATGCACACTGCG 61.089 50.000 0.00 0.00 43.98 5.18
2652 4951 2.414138 GAGTTTGGGAACACCGAATACG 59.586 50.000 0.00 0.00 44.47 3.06
2686 4985 8.934825 GGTGTATTGACCGTTAACTAACAATAA 58.065 33.333 19.48 12.53 35.99 1.40
2691 4990 7.090173 TGTAGGTGTATTGACCGTTAACTAAC 58.910 38.462 3.71 0.00 41.35 2.34


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

AutoCloner maintained by Alex Coulton.