Multiple sequence alignment - TraesCS5D01G235000

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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 TraesCS5D01G235000 chr5D 100.000 2378 0 0 1 2378 342960593 342958216 0.000000e+00 4392.0
1 TraesCS5D01G235000 chr5D 86.017 472 48 12 1031 1488 123089587 123089120 7.640000e-135 490.0
2 TraesCS5D01G235000 chr5B 89.082 2244 149 42 193 2374 403187384 403185175 0.000000e+00 2699.0
3 TraesCS5D01G235000 chr5A 90.598 1287 65 20 1116 2374 444058613 444057355 0.000000e+00 1655.0
4 TraesCS5D01G235000 chr5A 86.094 489 46 12 571 1037 444059101 444058613 7.580000e-140 507.0
5 TraesCS5D01G235000 chr5A 86.200 471 49 10 1031 1488 135548095 135547628 1.640000e-136 496.0
6 TraesCS5D01G235000 chr5A 89.236 288 22 3 93 374 444059414 444059130 3.760000e-93 351.0
7 TraesCS5D01G235000 chr5A 100.000 34 0 0 1576 1609 444058837 444058804 1.970000e-06 63.9
8 TraesCS5D01G235000 chr1D 83.618 702 95 12 853 1541 159923136 159923830 1.990000e-180 641.0
9 TraesCS5D01G235000 chr3D 83.473 714 77 21 851 1541 272285746 272285051 5.580000e-176 627.0
10 TraesCS5D01G235000 chr3B 83.006 712 84 18 851 1541 364542386 364541691 5.620000e-171 610.0
11 TraesCS5D01G235000 chr3B 73.459 584 131 15 973 1539 742115552 742116128 5.180000e-47 198.0
12 TraesCS5D01G235000 chr3A 83.676 680 75 17 851 1515 353638627 353637969 2.020000e-170 608.0
13 TraesCS5D01G235000 chr1B 85.631 515 67 7 847 1361 223137639 223137132 3.480000e-148 534.0
14 TraesCS5D01G235000 chr6B 75.085 590 105 20 966 1540 182733872 182733310 1.100000e-58 237.0


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 TraesCS5D01G235000 chr5D 342958216 342960593 2377 True 4392.000 4392 100.000 1 2378 1 chr5D.!!$R2 2377
1 TraesCS5D01G235000 chr5B 403185175 403187384 2209 True 2699.000 2699 89.082 193 2374 1 chr5B.!!$R1 2181
2 TraesCS5D01G235000 chr5A 444057355 444059414 2059 True 644.225 1655 91.482 93 2374 4 chr5A.!!$R2 2281
3 TraesCS5D01G235000 chr1D 159923136 159923830 694 False 641.000 641 83.618 853 1541 1 chr1D.!!$F1 688
4 TraesCS5D01G235000 chr3D 272285051 272285746 695 True 627.000 627 83.473 851 1541 1 chr3D.!!$R1 690
5 TraesCS5D01G235000 chr3B 364541691 364542386 695 True 610.000 610 83.006 851 1541 1 chr3B.!!$R1 690
6 TraesCS5D01G235000 chr3A 353637969 353638627 658 True 608.000 608 83.676 851 1515 1 chr3A.!!$R1 664
7 TraesCS5D01G235000 chr1B 223137132 223137639 507 True 534.000 534 85.631 847 1361 1 chr1B.!!$R1 514
8 TraesCS5D01G235000 chr6B 182733310 182733872 562 True 237.000 237 75.085 966 1540 1 chr6B.!!$R1 574

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
120 121 0.179124 CCGTAAGCCTGCTCTCTGTC 60.179 60.0 0.0 0.0 0.0 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1550 1638 0.25589 GCCATTGCCTAAGAGGGACA 59.744 55.0 0.0 0.0 34.53 4.02 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
24 25 7.962964 TGGAAGAAGTATTTTCAGTAGTGTG 57.037 36.000 0.00 0.00 0.00 3.82
25 26 6.934645 TGGAAGAAGTATTTTCAGTAGTGTGG 59.065 38.462 0.00 0.00 0.00 4.17
26 27 6.935208 GGAAGAAGTATTTTCAGTAGTGTGGT 59.065 38.462 0.00 0.00 0.00 4.16
27 28 7.095187 GGAAGAAGTATTTTCAGTAGTGTGGTG 60.095 40.741 0.00 0.00 0.00 4.17
28 29 6.827727 AGAAGTATTTTCAGTAGTGTGGTGT 58.172 36.000 0.00 0.00 0.00 4.16
29 30 7.280356 AGAAGTATTTTCAGTAGTGTGGTGTT 58.720 34.615 0.00 0.00 0.00 3.32
30 31 6.861065 AGTATTTTCAGTAGTGTGGTGTTG 57.139 37.500 0.00 0.00 0.00 3.33
31 32 6.354130 AGTATTTTCAGTAGTGTGGTGTTGT 58.646 36.000 0.00 0.00 0.00 3.32
32 33 5.751243 ATTTTCAGTAGTGTGGTGTTGTC 57.249 39.130 0.00 0.00 0.00 3.18
33 34 2.902705 TCAGTAGTGTGGTGTTGTCC 57.097 50.000 0.00 0.00 0.00 4.02
34 35 2.112190 TCAGTAGTGTGGTGTTGTCCA 58.888 47.619 0.00 0.00 34.85 4.02
40 41 4.995594 TGGTGTTGTCCACATGCA 57.004 50.000 0.00 0.00 46.44 3.96
41 42 3.435846 TGGTGTTGTCCACATGCAT 57.564 47.368 0.00 0.00 46.44 3.96
42 43 2.575805 TGGTGTTGTCCACATGCATA 57.424 45.000 0.00 0.00 46.44 3.14
43 44 3.084536 TGGTGTTGTCCACATGCATAT 57.915 42.857 0.00 0.00 46.44 1.78
44 45 2.754002 TGGTGTTGTCCACATGCATATG 59.246 45.455 0.00 0.00 46.44 1.78
45 46 3.016031 GGTGTTGTCCACATGCATATGA 58.984 45.455 6.52 0.00 46.44 2.15
46 47 3.065786 GGTGTTGTCCACATGCATATGAG 59.934 47.826 6.52 0.00 46.44 2.90
47 48 3.065786 GTGTTGTCCACATGCATATGAGG 59.934 47.826 6.52 1.61 43.84 3.86
48 49 3.282021 GTTGTCCACATGCATATGAGGT 58.718 45.455 6.52 0.00 43.22 3.85
49 50 2.921821 TGTCCACATGCATATGAGGTG 58.078 47.619 6.52 6.83 43.22 4.00
50 51 2.239402 TGTCCACATGCATATGAGGTGT 59.761 45.455 6.52 4.65 43.22 4.16
51 52 3.282021 GTCCACATGCATATGAGGTGTT 58.718 45.455 6.52 0.00 43.22 3.32
52 53 3.065786 GTCCACATGCATATGAGGTGTTG 59.934 47.826 6.52 3.95 43.22 3.33
53 54 3.018856 CCACATGCATATGAGGTGTTGT 58.981 45.455 6.52 0.00 39.40 3.32
54 55 3.181494 CCACATGCATATGAGGTGTTGTG 60.181 47.826 6.52 4.65 39.40 3.33
55 56 3.441222 CACATGCATATGAGGTGTTGTGT 59.559 43.478 6.97 0.00 37.73 3.72
56 57 4.081406 ACATGCATATGAGGTGTTGTGTT 58.919 39.130 6.97 0.00 37.73 3.32
57 58 4.523943 ACATGCATATGAGGTGTTGTGTTT 59.476 37.500 6.97 0.00 37.73 2.83
58 59 4.764679 TGCATATGAGGTGTTGTGTTTC 57.235 40.909 6.97 0.00 0.00 2.78
59 60 4.140536 TGCATATGAGGTGTTGTGTTTCA 58.859 39.130 6.97 0.00 0.00 2.69
60 61 4.766373 TGCATATGAGGTGTTGTGTTTCAT 59.234 37.500 6.97 0.00 33.44 2.57
61 62 5.942826 TGCATATGAGGTGTTGTGTTTCATA 59.057 36.000 6.97 0.00 35.80 2.15
62 63 6.093909 TGCATATGAGGTGTTGTGTTTCATAG 59.906 38.462 6.97 0.00 35.08 2.23
63 64 6.489675 CATATGAGGTGTTGTGTTTCATAGC 58.510 40.000 0.00 0.00 35.08 2.97
64 65 3.146066 TGAGGTGTTGTGTTTCATAGCC 58.854 45.455 0.00 0.00 0.00 3.93
65 66 3.146066 GAGGTGTTGTGTTTCATAGCCA 58.854 45.455 0.00 0.00 0.00 4.75
66 67 3.149196 AGGTGTTGTGTTTCATAGCCAG 58.851 45.455 0.00 0.00 0.00 4.85
67 68 3.146066 GGTGTTGTGTTTCATAGCCAGA 58.854 45.455 0.00 0.00 0.00 3.86
68 69 3.568007 GGTGTTGTGTTTCATAGCCAGAA 59.432 43.478 0.00 0.00 0.00 3.02
69 70 4.218417 GGTGTTGTGTTTCATAGCCAGAAT 59.782 41.667 0.00 0.00 0.00 2.40
70 71 5.278957 GGTGTTGTGTTTCATAGCCAGAATT 60.279 40.000 0.00 0.00 0.00 2.17
71 72 5.858581 GTGTTGTGTTTCATAGCCAGAATTC 59.141 40.000 0.00 0.00 0.00 2.17
72 73 5.769662 TGTTGTGTTTCATAGCCAGAATTCT 59.230 36.000 0.88 0.88 0.00 2.40
73 74 6.265196 TGTTGTGTTTCATAGCCAGAATTCTT 59.735 34.615 4.86 0.00 0.00 2.52
74 75 6.899393 TGTGTTTCATAGCCAGAATTCTTT 57.101 33.333 4.86 0.00 0.00 2.52
75 76 7.994425 TGTGTTTCATAGCCAGAATTCTTTA 57.006 32.000 4.86 0.00 0.00 1.85
76 77 8.402798 TGTGTTTCATAGCCAGAATTCTTTAA 57.597 30.769 4.86 0.00 0.00 1.52
77 78 8.296713 TGTGTTTCATAGCCAGAATTCTTTAAC 58.703 33.333 4.86 2.80 0.00 2.01
78 79 7.755373 GTGTTTCATAGCCAGAATTCTTTAACC 59.245 37.037 4.86 0.00 0.00 2.85
79 80 7.669722 TGTTTCATAGCCAGAATTCTTTAACCT 59.330 33.333 4.86 0.80 0.00 3.50
80 81 7.865706 TTCATAGCCAGAATTCTTTAACCTC 57.134 36.000 4.86 0.00 0.00 3.85
81 82 7.200434 TCATAGCCAGAATTCTTTAACCTCT 57.800 36.000 4.86 0.00 0.00 3.69
82 83 7.633789 TCATAGCCAGAATTCTTTAACCTCTT 58.366 34.615 4.86 0.00 0.00 2.85
83 84 8.109634 TCATAGCCAGAATTCTTTAACCTCTTT 58.890 33.333 4.86 0.00 0.00 2.52
84 85 6.581171 AGCCAGAATTCTTTAACCTCTTTG 57.419 37.500 4.86 0.00 0.00 2.77
85 86 5.478332 AGCCAGAATTCTTTAACCTCTTTGG 59.522 40.000 4.86 1.42 42.93 3.28
86 87 5.714047 CCAGAATTCTTTAACCTCTTTGGC 58.286 41.667 4.86 0.00 40.22 4.52
87 88 5.478332 CCAGAATTCTTTAACCTCTTTGGCT 59.522 40.000 4.86 0.00 40.22 4.75
88 89 6.349694 CCAGAATTCTTTAACCTCTTTGGCTC 60.350 42.308 4.86 0.00 40.22 4.70
89 90 6.207417 CAGAATTCTTTAACCTCTTTGGCTCA 59.793 38.462 4.86 0.00 40.22 4.26
90 91 5.966742 ATTCTTTAACCTCTTTGGCTCAC 57.033 39.130 0.00 0.00 40.22 3.51
91 92 4.431416 TCTTTAACCTCTTTGGCTCACA 57.569 40.909 0.00 0.00 40.22 3.58
92 93 4.985538 TCTTTAACCTCTTTGGCTCACAT 58.014 39.130 0.00 0.00 40.22 3.21
93 94 5.385198 TCTTTAACCTCTTTGGCTCACATT 58.615 37.500 0.00 0.00 40.22 2.71
94 95 6.539173 TCTTTAACCTCTTTGGCTCACATTA 58.461 36.000 0.00 0.00 40.22 1.90
95 96 7.175104 TCTTTAACCTCTTTGGCTCACATTAT 58.825 34.615 0.00 0.00 40.22 1.28
96 97 6.757897 TTAACCTCTTTGGCTCACATTATG 57.242 37.500 0.00 0.00 40.22 1.90
97 98 3.624777 ACCTCTTTGGCTCACATTATGG 58.375 45.455 0.00 0.00 40.22 2.74
98 99 3.266772 ACCTCTTTGGCTCACATTATGGA 59.733 43.478 0.00 0.00 40.22 3.41
99 100 3.629398 CCTCTTTGGCTCACATTATGGAC 59.371 47.826 0.00 0.00 0.00 4.02
100 101 3.620488 TCTTTGGCTCACATTATGGACC 58.380 45.455 0.00 0.00 0.00 4.46
101 102 2.435372 TTGGCTCACATTATGGACCC 57.565 50.000 0.00 0.00 0.00 4.46
102 103 0.550914 TGGCTCACATTATGGACCCC 59.449 55.000 0.00 0.00 0.00 4.95
120 121 0.179124 CCGTAAGCCTGCTCTCTGTC 60.179 60.000 0.00 0.00 0.00 3.51
142 143 1.643286 TCTCTCTCCCCTCTCACATGT 59.357 52.381 0.00 0.00 0.00 3.21
154 155 6.226787 CCCTCTCACATGTATATGAGGTTTC 58.773 44.000 22.62 0.00 42.25 2.78
185 186 3.330701 TCCTTGCTTCCCATGTCTAAAGT 59.669 43.478 0.00 0.00 0.00 2.66
212 219 1.734465 CAAGACCAATTCGACCTCAGC 59.266 52.381 0.00 0.00 0.00 4.26
228 235 3.015327 CTCAGCTTGAAGGGATGGAAAG 58.985 50.000 0.00 0.00 0.00 2.62
287 295 9.689976 CTGACCATCAGTATATGTTTTCTCTAG 57.310 37.037 0.00 0.00 39.58 2.43
324 332 4.410099 TCTTCCAAATCAATTGAGCTGGT 58.590 39.130 26.34 5.75 41.85 4.00
325 333 4.834496 TCTTCCAAATCAATTGAGCTGGTT 59.166 37.500 26.34 10.75 41.85 3.67
330 338 3.863142 ATCAATTGAGCTGGTTCTTGC 57.137 42.857 14.54 0.00 0.00 4.01
367 375 7.524717 AAATAAAATATGCGCTCCCTACATT 57.475 32.000 9.73 0.00 0.00 2.71
374 382 0.664761 CGCTCCCTACATTGCCATTG 59.335 55.000 0.00 0.00 0.00 2.82
376 384 1.406539 GCTCCCTACATTGCCATTGTG 59.593 52.381 2.59 0.00 0.00 3.33
395 408 3.426859 TGTGTGCAAACTGTTTGAAAACG 59.573 39.130 31.35 9.17 38.98 3.60
399 412 5.117287 TGTGCAAACTGTTTGAAAACGTTAC 59.883 36.000 31.35 17.04 43.26 2.50
400 413 5.117287 GTGCAAACTGTTTGAAAACGTTACA 59.883 36.000 31.35 16.06 43.26 2.41
401 414 5.117287 TGCAAACTGTTTGAAAACGTTACAC 59.883 36.000 31.35 12.95 43.26 2.90
402 415 5.343860 GCAAACTGTTTGAAAACGTTACACT 59.656 36.000 31.35 0.00 43.26 3.55
408 425 9.460906 ACTGTTTGAAAACGTTACACTTTTAAA 57.539 25.926 0.00 0.00 41.74 1.52
421 438 4.280929 ACACTTTTAAAAGGAGGATGCACC 59.719 41.667 27.23 0.00 40.31 5.01
426 443 0.620556 AAAGGAGGATGCACCGATGT 59.379 50.000 0.00 0.00 44.74 3.06
437 454 2.039216 TGCACCGATGTTTCCTCCTTTA 59.961 45.455 0.00 0.00 0.00 1.85
447 465 6.262056 TGTTTCCTCCTTTATTATCTCCCC 57.738 41.667 0.00 0.00 0.00 4.81
466 484 3.474600 CCCTTCATCTGCTTATCCAGTG 58.525 50.000 0.00 0.00 34.47 3.66
491 528 5.061721 AGTTGGTTCAGTGTTCCCTAATT 57.938 39.130 0.00 0.00 0.00 1.40
504 541 2.311542 TCCCTAATTGGTCTGGCACATT 59.688 45.455 0.00 0.00 38.20 2.71
551 588 0.546122 TCAGTGTCATACCATGGCCC 59.454 55.000 13.04 0.00 32.84 5.80
645 701 7.603784 TGTATGGCTGAGTTTATGCATATACTG 59.396 37.037 27.77 17.90 33.55 2.74
648 704 4.999950 GCTGAGTTTATGCATATACTGGCT 59.000 41.667 27.77 9.79 0.00 4.75
652 708 6.483307 TGAGTTTATGCATATACTGGCTTGTC 59.517 38.462 27.77 15.39 0.00 3.18
689 745 5.585390 CAAAGTTGATGTCATATTGCTCCC 58.415 41.667 0.00 0.00 0.00 4.30
719 775 3.572632 ATGATGAGAGGTTGGGACATG 57.427 47.619 0.00 0.00 39.30 3.21
738 794 6.126863 ACATGAGGAATTGACTTTACAGGA 57.873 37.500 0.00 0.00 0.00 3.86
778 835 1.065401 TGCGAGGCAAACAAAACAGAG 59.935 47.619 0.00 0.00 34.76 3.35
817 875 5.296151 TGATGACCTTGAAGACTTGAACT 57.704 39.130 0.00 0.00 0.00 3.01
831 889 1.317613 TGAACTGTGGACCACATTGC 58.682 50.000 27.28 20.64 43.71 3.56
864 924 3.188159 ACTACGACAACAGCCTTTTGA 57.812 42.857 0.00 0.00 0.00 2.69
888 949 5.014228 ACTCAAGAAAGTTGGGGTAAGCTAT 59.986 40.000 0.00 0.00 0.00 2.97
893 954 8.429641 CAAGAAAGTTGGGGTAAGCTATAGATA 58.570 37.037 3.21 0.00 0.00 1.98
902 963 7.074494 TGGGGTAAGCTATAGATAAAACCCAAT 59.926 37.037 25.65 0.00 45.90 3.16
981 1043 7.703058 AGGAATGTAAATTAAGGTTCTGGTG 57.297 36.000 0.00 0.00 0.00 4.17
1079 1144 4.115199 GCCTCCTCCCGTGCCAAT 62.115 66.667 0.00 0.00 0.00 3.16
1081 1146 1.452108 CCTCCTCCCGTGCCAATTC 60.452 63.158 0.00 0.00 0.00 2.17
1088 1153 2.480555 CGTGCCAATTCTGGTCGC 59.519 61.111 0.00 0.00 45.53 5.19
1091 1156 2.044946 GCCAATTCTGGTCGCCCT 60.045 61.111 0.00 0.00 45.53 5.19
1098 1163 3.528370 CTGGTCGCCCTCCTACCG 61.528 72.222 0.00 0.00 35.98 4.02
1188 1253 2.695359 TGTCCAAACCATCTTAGTCGC 58.305 47.619 0.00 0.00 0.00 5.19
1361 1429 3.433598 GGCCAACACTCTGCTCCATATAA 60.434 47.826 0.00 0.00 0.00 0.98
1362 1430 3.812053 GCCAACACTCTGCTCCATATAAG 59.188 47.826 0.00 0.00 0.00 1.73
1364 1432 5.053145 CCAACACTCTGCTCCATATAAGAC 58.947 45.833 0.00 0.00 0.00 3.01
1381 1461 3.014304 AGACAGCCGTCCTATAGAACA 57.986 47.619 0.00 0.00 43.73 3.18
1388 1468 4.523558 AGCCGTCCTATAGAACATACCTTC 59.476 45.833 0.00 0.00 0.00 3.46
1420 1500 1.002544 GGACCTTCTTGTCACAGAGGG 59.997 57.143 8.35 6.43 44.10 4.30
1504 1585 6.509656 TCTATACCACCATTACTTTGTAGCG 58.490 40.000 0.00 0.00 0.00 4.26
1542 1630 1.280457 AGGTGTCCCTCTTAGGCAAG 58.720 55.000 0.00 0.00 35.62 4.01
1543 1631 0.253327 GGTGTCCCTCTTAGGCAAGG 59.747 60.000 0.00 0.00 32.73 3.61
1544 1632 0.393132 GTGTCCCTCTTAGGCAAGGC 60.393 60.000 0.00 0.00 32.73 4.35
1545 1633 0.840288 TGTCCCTCTTAGGCAAGGCA 60.840 55.000 0.00 0.00 32.73 4.75
1546 1634 0.328258 GTCCCTCTTAGGCAAGGCAA 59.672 55.000 0.00 0.00 32.73 4.52
1547 1635 1.064389 GTCCCTCTTAGGCAAGGCAAT 60.064 52.381 0.00 0.00 32.73 3.56
1548 1636 1.064463 TCCCTCTTAGGCAAGGCAATG 60.064 52.381 0.00 0.00 32.73 2.82
1549 1637 1.396653 CCTCTTAGGCAAGGCAATGG 58.603 55.000 0.00 0.00 32.22 3.16
1550 1638 1.341383 CCTCTTAGGCAAGGCAATGGT 60.341 52.381 0.00 0.00 32.22 3.55
1551 1639 1.747355 CTCTTAGGCAAGGCAATGGTG 59.253 52.381 0.00 0.00 32.22 4.17
1552 1640 1.075374 TCTTAGGCAAGGCAATGGTGT 59.925 47.619 0.00 0.00 32.22 4.16
1553 1641 1.474077 CTTAGGCAAGGCAATGGTGTC 59.526 52.381 0.00 0.00 0.00 3.67
1554 1642 0.323360 TAGGCAAGGCAATGGTGTCC 60.323 55.000 0.00 0.00 0.00 4.02
1555 1643 2.649129 GGCAAGGCAATGGTGTCCC 61.649 63.158 0.00 0.00 0.00 4.46
1556 1644 1.607467 GCAAGGCAATGGTGTCCCT 60.607 57.895 0.00 0.00 0.00 4.20
1557 1645 1.598701 GCAAGGCAATGGTGTCCCTC 61.599 60.000 0.00 0.00 0.00 4.30
1558 1646 0.038744 CAAGGCAATGGTGTCCCTCT 59.961 55.000 0.00 0.00 0.00 3.69
1559 1647 0.779997 AAGGCAATGGTGTCCCTCTT 59.220 50.000 0.00 0.00 0.00 2.85
1560 1648 1.668826 AGGCAATGGTGTCCCTCTTA 58.331 50.000 0.00 0.00 0.00 2.10
1561 1649 1.561542 AGGCAATGGTGTCCCTCTTAG 59.438 52.381 0.00 0.00 0.00 2.18
1562 1650 1.408822 GGCAATGGTGTCCCTCTTAGG 60.409 57.143 0.00 0.00 34.30 2.69
1563 1651 2.019156 GCAATGGTGTCCCTCTTAGGC 61.019 57.143 0.00 0.00 32.73 3.93
1564 1652 1.281867 CAATGGTGTCCCTCTTAGGCA 59.718 52.381 0.00 0.00 32.73 4.75
1565 1653 1.668826 ATGGTGTCCCTCTTAGGCAA 58.331 50.000 0.00 0.00 32.73 4.52
1668 1758 4.811969 TTACTCCAACAGATTCCGCTAA 57.188 40.909 0.00 0.00 0.00 3.09
1703 1793 8.948631 TTGTGCATCCATTTGTTAAAGTTAAA 57.051 26.923 0.00 0.00 0.00 1.52
1729 1819 6.208204 GGTCCTTAGTGAATATCGGCTACTTA 59.792 42.308 0.00 0.00 0.00 2.24
1735 1825 6.069331 AGTGAATATCGGCTACTTAAGAGGA 58.931 40.000 10.09 0.00 0.00 3.71
1738 1828 7.873505 GTGAATATCGGCTACTTAAGAGGAAAT 59.126 37.037 10.09 0.00 0.00 2.17
1739 1829 9.085645 TGAATATCGGCTACTTAAGAGGAAATA 57.914 33.333 10.09 0.80 0.00 1.40
1756 1860 4.956075 GGAAATAATCCCAACTGTGGTCAT 59.044 41.667 0.00 0.00 44.30 3.06
1758 1862 6.039382 GGAAATAATCCCAACTGTGGTCATAC 59.961 42.308 0.00 0.00 44.30 2.39
1831 1938 5.119694 GGTATGCTTTTCTAGACTGGGAAG 58.880 45.833 0.00 0.00 0.00 3.46
2059 2166 1.419387 GGCTATTCAGACAGGCCATCT 59.581 52.381 5.01 4.25 42.08 2.90
2101 2208 5.832595 TGTGATGGAGAATTTTCTGGTTCAA 59.167 36.000 0.00 0.00 37.73 2.69
2128 2235 5.542635 ACTGAACTCACCAAATAGTCCTGTA 59.457 40.000 0.00 0.00 0.00 2.74
2144 2251 2.838736 CTGTAGCGGATGCAGGTAAAT 58.161 47.619 3.27 0.00 46.23 1.40
2149 2256 2.105477 AGCGGATGCAGGTAAATCAGAT 59.895 45.455 0.00 0.00 46.23 2.90
2159 2266 8.268850 TGCAGGTAAATCAGATTTTACTCTTC 57.731 34.615 13.71 2.98 40.39 2.87
2194 2301 3.439476 AGTCTGTCATTGCAAGCATCTTC 59.561 43.478 4.94 0.00 0.00 2.87
2218 2325 8.019656 TCCCTGGAATTAGTACTTGATTCTAC 57.980 38.462 21.37 12.36 31.96 2.59
2219 2326 7.622081 TCCCTGGAATTAGTACTTGATTCTACA 59.378 37.037 21.37 14.84 31.96 2.74
2231 2338 6.729187 ACTTGATTCTACACACTTTGCTTTC 58.271 36.000 0.00 0.00 0.00 2.62
2235 2342 7.140705 TGATTCTACACACTTTGCTTTCATTG 58.859 34.615 0.00 0.00 0.00 2.82
2252 2359 6.723298 TTCATTGTGGTTATTTGGTTCACT 57.277 33.333 0.00 0.00 0.00 3.41
2261 2368 8.403236 GTGGTTATTTGGTTCACTAATATGACC 58.597 37.037 0.00 0.00 32.73 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 6.935208 ACCACACTACTGAAAATACTTCTTCC 59.065 38.462 0.00 0.00 0.00 3.46
2 3 7.441458 ACACCACACTACTGAAAATACTTCTTC 59.559 37.037 0.00 0.00 0.00 2.87
3 4 7.280356 ACACCACACTACTGAAAATACTTCTT 58.720 34.615 0.00 0.00 0.00 2.52
4 5 6.827727 ACACCACACTACTGAAAATACTTCT 58.172 36.000 0.00 0.00 0.00 2.85
5 6 7.012044 ACAACACCACACTACTGAAAATACTTC 59.988 37.037 0.00 0.00 0.00 3.01
6 7 6.826741 ACAACACCACACTACTGAAAATACTT 59.173 34.615 0.00 0.00 0.00 2.24
7 8 6.354130 ACAACACCACACTACTGAAAATACT 58.646 36.000 0.00 0.00 0.00 2.12
8 9 6.293244 GGACAACACCACACTACTGAAAATAC 60.293 42.308 0.00 0.00 0.00 1.89
10 11 4.578928 GGACAACACCACACTACTGAAAAT 59.421 41.667 0.00 0.00 0.00 1.82
11 12 3.942748 GGACAACACCACACTACTGAAAA 59.057 43.478 0.00 0.00 0.00 2.29
12 13 3.055021 TGGACAACACCACACTACTGAAA 60.055 43.478 0.00 0.00 34.77 2.69
13 14 2.502130 TGGACAACACCACACTACTGAA 59.498 45.455 0.00 0.00 34.77 3.02
14 15 2.112190 TGGACAACACCACACTACTGA 58.888 47.619 0.00 0.00 34.77 3.41
15 16 2.613026 TGGACAACACCACACTACTG 57.387 50.000 0.00 0.00 34.77 2.74
26 27 3.281158 CCTCATATGCATGTGGACAACA 58.719 45.455 21.57 2.23 45.03 3.33
27 28 3.065786 CACCTCATATGCATGTGGACAAC 59.934 47.826 21.57 0.00 45.03 3.32
28 29 3.281158 CACCTCATATGCATGTGGACAA 58.719 45.455 21.57 3.27 45.03 3.18
29 30 2.239402 ACACCTCATATGCATGTGGACA 59.761 45.455 21.57 3.62 45.03 4.02
30 31 2.923121 ACACCTCATATGCATGTGGAC 58.077 47.619 21.57 0.00 45.03 4.02
31 32 3.281158 CAACACCTCATATGCATGTGGA 58.719 45.455 21.57 9.60 45.03 4.02
32 33 3.018856 ACAACACCTCATATGCATGTGG 58.981 45.455 21.57 14.06 46.75 4.17
33 34 3.441222 ACACAACACCTCATATGCATGTG 59.559 43.478 16.69 16.69 40.94 3.21
34 35 3.689347 ACACAACACCTCATATGCATGT 58.311 40.909 10.16 0.00 33.57 3.21
35 36 4.707030 AACACAACACCTCATATGCATG 57.293 40.909 10.16 0.00 0.00 4.06
36 37 4.766373 TGAAACACAACACCTCATATGCAT 59.234 37.500 3.79 3.79 0.00 3.96
37 38 4.140536 TGAAACACAACACCTCATATGCA 58.859 39.130 0.00 0.00 0.00 3.96
38 39 4.764679 TGAAACACAACACCTCATATGC 57.235 40.909 0.00 0.00 0.00 3.14
39 40 6.458751 GGCTATGAAACACAACACCTCATATG 60.459 42.308 0.00 0.00 30.69 1.78
40 41 5.590259 GGCTATGAAACACAACACCTCATAT 59.410 40.000 0.00 0.00 30.69 1.78
41 42 4.941263 GGCTATGAAACACAACACCTCATA 59.059 41.667 0.00 0.00 0.00 2.15
42 43 3.758554 GGCTATGAAACACAACACCTCAT 59.241 43.478 0.00 0.00 0.00 2.90
43 44 3.146066 GGCTATGAAACACAACACCTCA 58.854 45.455 0.00 0.00 0.00 3.86
44 45 3.146066 TGGCTATGAAACACAACACCTC 58.854 45.455 0.00 0.00 0.00 3.85
45 46 3.149196 CTGGCTATGAAACACAACACCT 58.851 45.455 0.00 0.00 0.00 4.00
46 47 3.146066 TCTGGCTATGAAACACAACACC 58.854 45.455 0.00 0.00 0.00 4.16
47 48 4.829064 TTCTGGCTATGAAACACAACAC 57.171 40.909 0.00 0.00 0.00 3.32
48 49 5.769662 AGAATTCTGGCTATGAAACACAACA 59.230 36.000 7.30 0.00 0.00 3.33
49 50 6.259550 AGAATTCTGGCTATGAAACACAAC 57.740 37.500 7.30 0.00 0.00 3.32
50 51 6.899393 AAGAATTCTGGCTATGAAACACAA 57.101 33.333 9.17 0.00 0.00 3.33
51 52 6.899393 AAAGAATTCTGGCTATGAAACACA 57.101 33.333 9.17 0.00 0.00 3.72
52 53 7.755373 GGTTAAAGAATTCTGGCTATGAAACAC 59.245 37.037 9.17 0.00 0.00 3.32
53 54 7.669722 AGGTTAAAGAATTCTGGCTATGAAACA 59.330 33.333 9.17 0.00 0.00 2.83
54 55 8.056407 AGGTTAAAGAATTCTGGCTATGAAAC 57.944 34.615 9.17 5.16 0.00 2.78
55 56 8.109634 AGAGGTTAAAGAATTCTGGCTATGAAA 58.890 33.333 9.17 0.00 0.00 2.69
56 57 7.633789 AGAGGTTAAAGAATTCTGGCTATGAA 58.366 34.615 9.17 0.00 0.00 2.57
57 58 7.200434 AGAGGTTAAAGAATTCTGGCTATGA 57.800 36.000 9.17 0.00 0.00 2.15
58 59 7.872113 AAGAGGTTAAAGAATTCTGGCTATG 57.128 36.000 9.17 0.00 0.00 2.23
59 60 7.340487 CCAAAGAGGTTAAAGAATTCTGGCTAT 59.660 37.037 9.17 0.00 0.00 2.97
60 61 6.659242 CCAAAGAGGTTAAAGAATTCTGGCTA 59.341 38.462 9.17 0.00 0.00 3.93
61 62 5.478332 CCAAAGAGGTTAAAGAATTCTGGCT 59.522 40.000 9.17 0.00 0.00 4.75
62 63 5.714047 CCAAAGAGGTTAAAGAATTCTGGC 58.286 41.667 9.17 0.00 0.00 4.85
63 64 5.478332 AGCCAAAGAGGTTAAAGAATTCTGG 59.522 40.000 9.17 3.23 40.61 3.86
64 65 6.207417 TGAGCCAAAGAGGTTAAAGAATTCTG 59.793 38.462 9.17 0.00 40.61 3.02
65 66 6.207614 GTGAGCCAAAGAGGTTAAAGAATTCT 59.792 38.462 0.88 0.88 40.61 2.40
66 67 6.016276 TGTGAGCCAAAGAGGTTAAAGAATTC 60.016 38.462 0.00 0.00 40.61 2.17
67 68 5.833131 TGTGAGCCAAAGAGGTTAAAGAATT 59.167 36.000 0.00 0.00 40.61 2.17
68 69 5.385198 TGTGAGCCAAAGAGGTTAAAGAAT 58.615 37.500 0.00 0.00 40.61 2.40
69 70 4.787551 TGTGAGCCAAAGAGGTTAAAGAA 58.212 39.130 0.00 0.00 40.61 2.52
70 71 4.431416 TGTGAGCCAAAGAGGTTAAAGA 57.569 40.909 0.00 0.00 40.61 2.52
71 72 5.712152 AATGTGAGCCAAAGAGGTTAAAG 57.288 39.130 0.00 0.00 40.61 1.85
72 73 6.152661 CCATAATGTGAGCCAAAGAGGTTAAA 59.847 38.462 0.00 0.00 40.61 1.52
73 74 5.652014 CCATAATGTGAGCCAAAGAGGTTAA 59.348 40.000 0.00 0.00 40.61 2.01
74 75 5.045213 TCCATAATGTGAGCCAAAGAGGTTA 60.045 40.000 0.00 0.00 40.61 2.85
75 76 4.019174 CCATAATGTGAGCCAAAGAGGTT 58.981 43.478 0.00 0.00 40.61 3.50
76 77 3.266772 TCCATAATGTGAGCCAAAGAGGT 59.733 43.478 0.00 0.00 40.61 3.85
77 78 3.629398 GTCCATAATGTGAGCCAAAGAGG 59.371 47.826 0.00 0.00 41.84 3.69
78 79 3.629398 GGTCCATAATGTGAGCCAAAGAG 59.371 47.826 0.00 0.00 0.00 2.85
79 80 3.620488 GGTCCATAATGTGAGCCAAAGA 58.380 45.455 0.00 0.00 0.00 2.52
80 81 2.689983 GGGTCCATAATGTGAGCCAAAG 59.310 50.000 10.21 0.00 35.49 2.77
81 82 2.622977 GGGGTCCATAATGTGAGCCAAA 60.623 50.000 14.91 0.00 36.98 3.28
82 83 1.064017 GGGGTCCATAATGTGAGCCAA 60.064 52.381 14.91 0.00 36.98 4.52
83 84 0.550914 GGGGTCCATAATGTGAGCCA 59.449 55.000 14.91 0.00 36.98 4.75
84 85 0.535102 CGGGGTCCATAATGTGAGCC 60.535 60.000 7.56 7.56 34.73 4.70
85 86 0.180406 ACGGGGTCCATAATGTGAGC 59.820 55.000 0.00 0.00 0.00 4.26
86 87 3.728845 CTTACGGGGTCCATAATGTGAG 58.271 50.000 0.00 0.00 0.00 3.51
87 88 2.158871 GCTTACGGGGTCCATAATGTGA 60.159 50.000 0.00 0.00 0.00 3.58
88 89 2.218603 GCTTACGGGGTCCATAATGTG 58.781 52.381 0.00 0.00 0.00 3.21
89 90 1.142262 GGCTTACGGGGTCCATAATGT 59.858 52.381 0.00 0.00 0.00 2.71
90 91 1.420138 AGGCTTACGGGGTCCATAATG 59.580 52.381 0.00 0.00 0.00 1.90
91 92 1.420138 CAGGCTTACGGGGTCCATAAT 59.580 52.381 0.00 0.00 0.00 1.28
92 93 0.834612 CAGGCTTACGGGGTCCATAA 59.165 55.000 0.00 0.00 0.00 1.90
93 94 1.692173 GCAGGCTTACGGGGTCCATA 61.692 60.000 0.00 0.00 0.00 2.74
94 95 3.043999 GCAGGCTTACGGGGTCCAT 62.044 63.158 0.00 0.00 0.00 3.41
95 96 3.712907 GCAGGCTTACGGGGTCCA 61.713 66.667 0.00 0.00 0.00 4.02
96 97 3.387225 GAGCAGGCTTACGGGGTCC 62.387 68.421 0.00 0.00 0.00 4.46
97 98 2.187163 GAGCAGGCTTACGGGGTC 59.813 66.667 0.00 0.00 0.00 4.46
98 99 2.284699 AGAGCAGGCTTACGGGGT 60.285 61.111 0.00 0.00 0.00 4.95
99 100 2.060980 AGAGAGCAGGCTTACGGGG 61.061 63.158 0.00 0.00 0.00 5.73
100 101 1.142748 CAGAGAGCAGGCTTACGGG 59.857 63.158 0.00 0.00 0.00 5.28
101 102 0.179124 GACAGAGAGCAGGCTTACGG 60.179 60.000 0.00 0.00 0.00 4.02
102 103 0.179124 GGACAGAGAGCAGGCTTACG 60.179 60.000 0.00 0.00 0.00 3.18
120 121 0.628522 TGTGAGAGGGGAGAGAGAGG 59.371 60.000 0.00 0.00 0.00 3.69
154 155 0.741221 GGAAGCAAGGAGGTAGCACG 60.741 60.000 0.00 0.00 0.00 5.34
185 186 2.483877 GTCGAATTGGTCTTGTGCATGA 59.516 45.455 0.00 0.00 0.00 3.07
212 219 5.806654 TTTTTCCTTTCCATCCCTTCAAG 57.193 39.130 0.00 0.00 0.00 3.02
235 243 4.877378 AAATCACCAGTCATGCACATTT 57.123 36.364 0.00 0.00 0.00 2.32
236 244 4.877378 AAAATCACCAGTCATGCACATT 57.123 36.364 0.00 0.00 0.00 2.71
247 255 1.879380 TGGTCAGCGAAAAATCACCAG 59.121 47.619 0.00 0.00 30.33 4.00
287 295 9.859427 TGATTTGGAAGATATGAAATTGACAAC 57.141 29.630 0.00 0.00 0.00 3.32
360 368 1.545136 TGCACACAATGGCAATGTAGG 59.455 47.619 8.06 4.74 37.03 3.18
367 375 0.822811 ACAGTTTGCACACAATGGCA 59.177 45.000 5.67 0.00 35.21 4.92
374 382 3.427193 ACGTTTTCAAACAGTTTGCACAC 59.573 39.130 19.70 12.05 40.43 3.82
376 384 4.639189 AACGTTTTCAAACAGTTTGCAC 57.361 36.364 19.70 14.42 40.43 4.57
395 408 6.861572 GTGCATCCTCCTTTTAAAAGTGTAAC 59.138 38.462 23.04 13.83 34.20 2.50
399 412 4.615912 CGGTGCATCCTCCTTTTAAAAGTG 60.616 45.833 23.04 16.12 34.20 3.16
400 413 3.506067 CGGTGCATCCTCCTTTTAAAAGT 59.494 43.478 23.04 4.92 34.20 2.66
401 414 3.756434 TCGGTGCATCCTCCTTTTAAAAG 59.244 43.478 19.19 19.19 35.79 2.27
402 415 3.757270 TCGGTGCATCCTCCTTTTAAAA 58.243 40.909 0.00 0.00 0.00 1.52
408 425 0.620556 AACATCGGTGCATCCTCCTT 59.379 50.000 0.00 0.00 0.00 3.36
421 438 6.651225 GGGAGATAATAAAGGAGGAAACATCG 59.349 42.308 0.00 0.00 0.00 3.84
426 443 6.681093 TGAAGGGGAGATAATAAAGGAGGAAA 59.319 38.462 0.00 0.00 0.00 3.13
437 454 6.069731 GGATAAGCAGATGAAGGGGAGATAAT 60.070 42.308 0.00 0.00 0.00 1.28
447 465 4.148128 ACCACTGGATAAGCAGATGAAG 57.852 45.455 0.71 0.00 0.00 3.02
466 484 2.105993 AGGGAACACTGAACCAACTACC 59.894 50.000 0.00 0.00 0.00 3.18
491 528 4.098914 AGAAAGTAAATGTGCCAGACCA 57.901 40.909 0.00 0.00 0.00 4.02
531 568 1.064758 GGGCCATGGTATGACACTGAA 60.065 52.381 14.67 0.00 0.00 3.02
534 571 2.190398 TAGGGCCATGGTATGACACT 57.810 50.000 14.67 4.87 0.00 3.55
542 579 1.308877 ACCAAAGATAGGGCCATGGT 58.691 50.000 14.67 7.30 36.38 3.55
546 583 2.508300 GGTAGAACCAAAGATAGGGCCA 59.492 50.000 6.18 0.00 38.42 5.36
614 651 0.324943 AAACTCAGCCATACACGCCT 59.675 50.000 0.00 0.00 0.00 5.52
667 723 5.263599 TGGGAGCAATATGACATCAACTTT 58.736 37.500 0.00 0.00 0.00 2.66
689 745 6.484643 CCCAACCTCTCATCATTGTTACTATG 59.515 42.308 0.51 0.51 0.00 2.23
760 817 3.108144 CAACTCTGTTTTGTTTGCCTCG 58.892 45.455 0.00 0.00 0.00 4.63
831 889 4.332186 TGTCGTAGTACTAAGTTCAGCG 57.668 45.455 14.36 7.86 0.00 5.18
864 924 3.138468 AGCTTACCCCAACTTTCTTGAGT 59.862 43.478 0.00 0.00 0.00 3.41
893 954 7.396339 GGTTCTCATAGGTTTCTATTGGGTTTT 59.604 37.037 0.00 0.00 34.16 2.43
902 963 9.053472 TCTTTTATGGGTTCTCATAGGTTTCTA 57.947 33.333 0.00 0.00 32.05 2.10
1088 1153 0.769873 TACTAGGAGCGGTAGGAGGG 59.230 60.000 0.00 0.00 0.00 4.30
1091 1156 3.567164 CGAAAATACTAGGAGCGGTAGGA 59.433 47.826 0.00 0.00 0.00 2.94
1098 1163 5.441709 AGAGTAGCGAAAATACTAGGAGC 57.558 43.478 0.00 0.00 33.64 4.70
1179 1244 2.866460 GCTTGTCCAACAGCGACTAAGA 60.866 50.000 0.00 0.00 0.00 2.10
1188 1253 3.470709 TGAAGAGAAGCTTGTCCAACAG 58.529 45.455 19.26 0.00 36.83 3.16
1361 1429 3.014304 TGTTCTATAGGACGGCTGTCT 57.986 47.619 24.48 13.22 44.83 3.41
1362 1430 4.321082 GGTATGTTCTATAGGACGGCTGTC 60.321 50.000 17.83 17.83 44.72 3.51
1364 1432 3.827302 AGGTATGTTCTATAGGACGGCTG 59.173 47.826 6.69 0.00 0.00 4.85
1381 1461 2.304761 TCCCACAAAAGCTCGAAGGTAT 59.695 45.455 0.00 0.00 0.00 2.73
1388 1468 0.875059 GAAGGTCCCACAAAAGCTCG 59.125 55.000 0.00 0.00 0.00 5.03
1504 1585 3.118371 ACCTTCCGATACTTGGGATCAAC 60.118 47.826 0.00 0.00 28.86 3.18
1542 1630 1.408822 CCTAAGAGGGACACCATTGCC 60.409 57.143 0.00 0.00 40.13 4.52
1543 1631 2.019156 GCCTAAGAGGGACACCATTGC 61.019 57.143 0.00 0.00 40.13 3.56
1544 1632 1.281867 TGCCTAAGAGGGACACCATTG 59.718 52.381 0.00 0.00 40.13 2.82
1545 1633 1.668826 TGCCTAAGAGGGACACCATT 58.331 50.000 0.00 0.00 40.13 3.16
1546 1634 1.668826 TTGCCTAAGAGGGACACCAT 58.331 50.000 0.00 0.00 34.53 3.55
1547 1635 1.281867 CATTGCCTAAGAGGGACACCA 59.718 52.381 0.00 0.00 34.53 4.17
1548 1636 1.408822 CCATTGCCTAAGAGGGACACC 60.409 57.143 0.00 0.00 34.53 4.16
1549 1637 2.019156 GCCATTGCCTAAGAGGGACAC 61.019 57.143 0.00 0.00 34.53 3.67
1550 1638 0.255890 GCCATTGCCTAAGAGGGACA 59.744 55.000 0.00 0.00 34.53 4.02
1551 1639 0.255890 TGCCATTGCCTAAGAGGGAC 59.744 55.000 0.00 0.00 34.53 4.46
1552 1640 0.548031 CTGCCATTGCCTAAGAGGGA 59.452 55.000 0.00 0.00 35.37 4.20
1553 1641 0.548031 TCTGCCATTGCCTAAGAGGG 59.452 55.000 0.00 0.00 35.37 4.30
1554 1642 1.065199 TGTCTGCCATTGCCTAAGAGG 60.065 52.381 0.00 0.00 38.80 3.69
1555 1643 2.408271 TGTCTGCCATTGCCTAAGAG 57.592 50.000 0.00 0.00 36.33 2.85
1556 1644 2.819608 GTTTGTCTGCCATTGCCTAAGA 59.180 45.455 0.00 0.00 36.33 2.10
1557 1645 2.557924 TGTTTGTCTGCCATTGCCTAAG 59.442 45.455 0.00 0.00 36.33 2.18
1558 1646 2.557924 CTGTTTGTCTGCCATTGCCTAA 59.442 45.455 0.00 0.00 36.33 2.69
1559 1647 2.161855 CTGTTTGTCTGCCATTGCCTA 58.838 47.619 0.00 0.00 36.33 3.93
1560 1648 0.963962 CTGTTTGTCTGCCATTGCCT 59.036 50.000 0.00 0.00 36.33 4.75
1561 1649 0.675633 ACTGTTTGTCTGCCATTGCC 59.324 50.000 0.00 0.00 36.33 4.52
1562 1650 1.603678 CCACTGTTTGTCTGCCATTGC 60.604 52.381 0.00 0.00 38.26 3.56
1563 1651 1.955778 TCCACTGTTTGTCTGCCATTG 59.044 47.619 0.00 0.00 0.00 2.82
1564 1652 1.956477 GTCCACTGTTTGTCTGCCATT 59.044 47.619 0.00 0.00 0.00 3.16
1565 1653 1.609208 GTCCACTGTTTGTCTGCCAT 58.391 50.000 0.00 0.00 0.00 4.40
1625 1715 4.537135 ACATGGTATCACGAACTTCAGT 57.463 40.909 0.00 0.00 0.00 3.41
1703 1793 3.577919 AGCCGATATTCACTAAGGACCT 58.422 45.455 0.00 0.00 0.00 3.85
1729 1819 5.264395 CCACAGTTGGGATTATTTCCTCTT 58.736 41.667 0.00 0.00 44.75 2.85
1756 1860 6.704493 ACAGAGACAAAATAAAGTTGCTCGTA 59.296 34.615 0.00 0.00 35.81 3.43
1758 1862 5.848036 CACAGAGACAAAATAAAGTTGCTCG 59.152 40.000 0.00 0.00 35.81 5.03
1831 1938 0.883833 CCTCAAATGTCCACTGCCAC 59.116 55.000 0.00 0.00 0.00 5.01
2041 2148 3.992643 CAGAGATGGCCTGTCTGAATAG 58.007 50.000 19.29 2.50 45.83 1.73
2059 2166 6.932960 CCATCACATCAGCATTATAGTTCAGA 59.067 38.462 0.00 0.00 0.00 3.27
2101 2208 5.780793 AGGACTATTTGGTGAGTTCAGTAGT 59.219 40.000 0.00 0.00 0.00 2.73
2128 2235 1.486310 TCTGATTTACCTGCATCCGCT 59.514 47.619 0.00 0.00 39.64 5.52
2144 2251 6.931281 CAGTTGACTGGAAGAGTAAAATCTGA 59.069 38.462 3.19 0.00 40.20 3.27
2194 2301 7.711339 GTGTAGAATCAAGTACTAATTCCAGGG 59.289 40.741 19.73 0.00 31.21 4.45
2218 2325 3.784338 ACCACAATGAAAGCAAAGTGTG 58.216 40.909 0.00 0.00 36.19 3.82
2219 2326 4.470334 AACCACAATGAAAGCAAAGTGT 57.530 36.364 0.00 0.00 33.56 3.55
2235 2342 8.403236 GGTCATATTAGTGAACCAAATAACCAC 58.597 37.037 0.00 0.00 29.41 4.16
2261 2368 7.718753 AGCTACCAATGAAGAATAGAAGAATGG 59.281 37.037 0.00 0.00 0.00 3.16
2273 2380 8.255905 GGTAAAGTAGTAAGCTACCAATGAAGA 58.744 37.037 0.00 0.00 46.60 2.87
2277 2384 6.258068 GCAGGTAAAGTAGTAAGCTACCAATG 59.742 42.308 0.00 0.00 46.60 2.82
2279 2386 5.246656 TGCAGGTAAAGTAGTAAGCTACCAA 59.753 40.000 0.00 0.00 46.60 3.67
2289 2396 7.993183 ACAATAAGCATATGCAGGTAAAGTAGT 59.007 33.333 28.62 10.86 45.16 2.73


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

AutoCloner maintained by Alex Coulton.