Multiple sequence alignment - TraesCS6B01G084500

Loading Multiple Alignment...

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 TraesCS6B01G084500 chr6B 100.000 5153 0 0 1 5153 61498683 61493531 0.000000e+00 9516
1 TraesCS6B01G084500 chr6B 86.734 1289 87 42 985 2251 35063788 35065014 0.000000e+00 1356
2 TraesCS6B01G084500 chr5D 90.288 3058 203 54 1002 4033 539739519 539742508 0.000000e+00 3916
3 TraesCS6B01G084500 chr5D 91.154 667 47 6 4253 4915 539742825 539743483 0.000000e+00 894
4 TraesCS6B01G084500 chr3B 89.749 3073 220 53 1002 4048 734999824 735002827 0.000000e+00 3842
5 TraesCS6B01G084500 chr3B 89.778 675 54 8 4256 4924 735003114 735003779 0.000000e+00 850
6 TraesCS6B01G084500 chr3B 93.466 352 20 3 4574 4924 735004250 735004599 2.130000e-143 520
7 TraesCS6B01G084500 chr6D 86.042 2529 202 72 112 2560 28695698 28698155 0.000000e+00 2575
8 TraesCS6B01G084500 chr6D 93.011 1674 70 16 3501 5153 28699368 28701015 0.000000e+00 2399
9 TraesCS6B01G084500 chr6D 92.175 869 57 4 2572 3435 28698220 28699082 0.000000e+00 1218
10 TraesCS6B01G084500 chr6D 85.044 341 39 7 2204 2544 458372946 458372618 2.300000e-88 337
11 TraesCS6B01G084500 chr6A 92.728 1664 90 14 3501 5153 33955048 33953405 0.000000e+00 2374
12 TraesCS6B01G084500 chr6A 88.410 1648 111 38 970 2560 33957637 33956013 0.000000e+00 1912
13 TraesCS6B01G084500 chr6A 90.106 849 63 10 2572 3414 33955951 33955118 0.000000e+00 1083
14 TraesCS6B01G084500 chr6A 84.298 363 41 9 643 1001 33958001 33957651 1.780000e-89 340
15 TraesCS6B01G084500 chr6A 84.026 313 35 8 57 367 33958885 33958586 2.350000e-73 287
16 TraesCS6B01G084500 chr1A 87.050 2000 176 48 1002 2984 17877687 17879620 0.000000e+00 2182
17 TraesCS6B01G084500 chr1A 91.535 1075 79 7 2974 4048 17883475 17884537 0.000000e+00 1471
18 TraesCS6B01G084500 chr1A 89.853 680 55 6 4249 4924 17884554 17885223 0.000000e+00 861
19 TraesCS6B01G084500 chr3A 89.970 1665 114 31 1370 3020 94168997 94170622 0.000000e+00 2100
20 TraesCS6B01G084500 chr3A 93.571 1011 57 5 3038 4048 94171969 94172971 0.000000e+00 1500
21 TraesCS6B01G084500 chr3A 91.433 642 45 5 4278 4917 94173241 94173874 0.000000e+00 872
22 TraesCS6B01G084500 chr3A 84.751 341 40 7 2204 2544 24712057 24711729 1.070000e-86 331
23 TraesCS6B01G084500 chr3A 81.186 388 38 16 1002 1378 94163105 94163468 3.930000e-71 279
24 TraesCS6B01G084500 chr2B 86.636 1287 93 42 985 2251 738172537 738171310 0.000000e+00 1351
25 TraesCS6B01G084500 chr2D 89.103 624 57 5 4530 5153 248776465 248777077 0.000000e+00 765
26 TraesCS6B01G084500 chr2D 85.735 680 87 6 2807 3484 248740917 248741588 0.000000e+00 710
27 TraesCS6B01G084500 chr2D 87.521 609 70 5 3498 4104 248760016 248760620 0.000000e+00 699
28 TraesCS6B01G084500 chr2A 88.517 627 55 10 4527 5153 288987282 288987891 0.000000e+00 743
29 TraesCS6B01G084500 chr2A 84.236 609 78 8 2684 3288 288960626 288961220 1.240000e-160 577
30 TraesCS6B01G084500 chr2A 81.499 427 49 18 2126 2544 38781115 38780711 1.790000e-84 324
31 TraesCS6B01G084500 chr2A 86.631 187 20 3 3300 3484 288962881 288963064 8.750000e-48 202
32 TraesCS6B01G084500 chrUn 84.375 480 38 16 985 1453 391731947 391732400 2.200000e-118 436
33 TraesCS6B01G084500 chr4D 85.044 341 39 7 2204 2544 440272504 440272832 2.300000e-88 337
34 TraesCS6B01G084500 chr5A 80.751 426 54 14 2126 2544 552876933 552876529 1.800000e-79 307
35 TraesCS6B01G084500 chr7A 79.273 275 25 16 2001 2243 139199072 139198798 4.130000e-36 163


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6B01G084500 chr6B 61493531 61498683 5152 True 9516.000000 9516 100.000000 1 5153 1 chr6B.!!$R1 5152
1 TraesCS6B01G084500 chr6B 35063788 35065014 1226 False 1356.000000 1356 86.734000 985 2251 1 chr6B.!!$F1 1266
2 TraesCS6B01G084500 chr5D 539739519 539743483 3964 False 2405.000000 3916 90.721000 1002 4915 2 chr5D.!!$F1 3913
3 TraesCS6B01G084500 chr3B 734999824 735004599 4775 False 1737.333333 3842 90.997667 1002 4924 3 chr3B.!!$F1 3922
4 TraesCS6B01G084500 chr6D 28695698 28701015 5317 False 2064.000000 2575 90.409333 112 5153 3 chr6D.!!$F1 5041
5 TraesCS6B01G084500 chr6A 33953405 33958885 5480 True 1199.200000 2374 87.913600 57 5153 5 chr6A.!!$R1 5096
6 TraesCS6B01G084500 chr1A 17877687 17885223 7536 False 1504.666667 2182 89.479333 1002 4924 3 chr1A.!!$F1 3922
7 TraesCS6B01G084500 chr3A 94168997 94173874 4877 False 1490.666667 2100 91.658000 1370 4917 3 chr3A.!!$F2 3547
8 TraesCS6B01G084500 chr2B 738171310 738172537 1227 True 1351.000000 1351 86.636000 985 2251 1 chr2B.!!$R1 1266
9 TraesCS6B01G084500 chr2D 248776465 248777077 612 False 765.000000 765 89.103000 4530 5153 1 chr2D.!!$F3 623
10 TraesCS6B01G084500 chr2D 248740917 248741588 671 False 710.000000 710 85.735000 2807 3484 1 chr2D.!!$F1 677
11 TraesCS6B01G084500 chr2D 248760016 248760620 604 False 699.000000 699 87.521000 3498 4104 1 chr2D.!!$F2 606
12 TraesCS6B01G084500 chr2A 288987282 288987891 609 False 743.000000 743 88.517000 4527 5153 1 chr2A.!!$F1 626
13 TraesCS6B01G084500 chr2A 288960626 288963064 2438 False 389.500000 577 85.433500 2684 3484 2 chr2A.!!$F2 800

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
259 264 0.108804 TTTTACCGCAGAGCTCGAGG 60.109 55.000 20.52 20.52 0.00 4.63 F
796 1332 0.110644 CGCGTCAGTTTTGCTTCCTC 60.111 55.000 0.00 0.00 0.00 3.71 F
1788 2431 0.039180 TCGGAGGAGGTGCTCAACTA 59.961 55.000 0.63 0.00 31.08 2.24 F
1789 2432 0.457851 CGGAGGAGGTGCTCAACTAG 59.542 60.000 0.63 0.00 31.08 2.57 F
2363 3025 0.823356 TGTGCCCTGAACTTCTTGCC 60.823 55.000 0.00 0.00 0.00 4.52 F
3162 9083 1.000274 GTGGAACTTGTCAATGCCACC 60.000 52.381 15.52 4.74 39.79 4.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1089 1670 0.107017 AGGGTAGAATTGCATGCGCT 60.107 50.0 14.09 10.03 39.64 5.92 R
2448 3111 0.179215 GCCAAGAGAACATTGCGACG 60.179 55.0 0.00 0.00 0.00 5.12 R
3152 9073 0.034574 ATGGTTAGCGGTGGCATTGA 60.035 50.0 0.00 0.00 43.41 2.57 R
3465 11035 0.324368 TGATACACAGGTCTCCCGCT 60.324 55.0 0.00 0.00 35.12 5.52 R
3485 11055 0.521242 CATAACGCGAACCTGCAAGC 60.521 55.0 15.93 0.00 34.15 4.01 R
4483 12390 0.250424 TCGGCTGCATATCCATGTGG 60.250 55.0 0.50 0.00 34.40 4.17 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
27 28 7.656707 ACCAAATCAATCATTAGTGTTTTGC 57.343 32.000 5.69 0.00 38.29 3.68
28 29 6.365789 ACCAAATCAATCATTAGTGTTTTGCG 59.634 34.615 5.69 3.31 38.29 4.85
29 30 6.235642 CAAATCAATCATTAGTGTTTTGCGC 58.764 36.000 0.00 0.00 35.11 6.09
30 31 4.495911 TCAATCATTAGTGTTTTGCGCA 57.504 36.364 5.66 5.66 0.00 6.09
31 32 4.864633 TCAATCATTAGTGTTTTGCGCAA 58.135 34.783 21.02 21.02 0.00 4.85
32 33 5.468592 TCAATCATTAGTGTTTTGCGCAAT 58.531 33.333 25.64 11.31 0.00 3.56
33 34 5.925397 TCAATCATTAGTGTTTTGCGCAATT 59.075 32.000 25.64 7.55 0.00 2.32
34 35 5.766702 ATCATTAGTGTTTTGCGCAATTG 57.233 34.783 25.64 7.57 0.00 2.32
35 36 4.615949 TCATTAGTGTTTTGCGCAATTGT 58.384 34.783 25.64 9.74 0.00 2.71
36 37 5.046529 TCATTAGTGTTTTGCGCAATTGTT 58.953 33.333 25.64 11.35 0.00 2.83
37 38 5.521735 TCATTAGTGTTTTGCGCAATTGTTT 59.478 32.000 25.64 12.42 0.00 2.83
38 39 3.654952 AGTGTTTTGCGCAATTGTTTG 57.345 38.095 25.64 0.00 35.85 2.93
39 40 2.351111 AGTGTTTTGCGCAATTGTTTGG 59.649 40.909 25.64 0.00 33.22 3.28
40 41 1.063174 TGTTTTGCGCAATTGTTTGGC 59.937 42.857 25.64 8.47 33.22 4.52
41 42 0.302890 TTTTGCGCAATTGTTTGGCG 59.697 45.000 25.64 4.99 36.28 5.69
44 45 3.622756 CGCAATTGTTTGGCGCAA 58.377 50.000 10.83 0.00 33.22 4.85
45 46 2.152167 CGCAATTGTTTGGCGCAAT 58.848 47.368 10.83 0.00 38.09 3.56
46 47 0.179245 CGCAATTGTTTGGCGCAATG 60.179 50.000 10.83 0.00 36.75 2.82
47 48 1.146637 GCAATTGTTTGGCGCAATGA 58.853 45.000 10.83 0.00 36.75 2.57
48 49 1.733360 GCAATTGTTTGGCGCAATGAT 59.267 42.857 10.83 0.00 36.75 2.45
49 50 2.928757 GCAATTGTTTGGCGCAATGATA 59.071 40.909 10.83 0.00 36.75 2.15
50 51 3.556775 GCAATTGTTTGGCGCAATGATAT 59.443 39.130 10.83 0.00 36.75 1.63
51 52 4.318263 GCAATTGTTTGGCGCAATGATATC 60.318 41.667 10.83 0.00 36.75 1.63
52 53 4.652421 ATTGTTTGGCGCAATGATATCA 57.348 36.364 10.83 8.10 35.49 2.15
53 54 3.696281 TGTTTGGCGCAATGATATCAG 57.304 42.857 10.83 0.00 0.00 2.90
54 55 3.016031 TGTTTGGCGCAATGATATCAGT 58.984 40.909 10.83 5.59 0.00 3.41
55 56 3.443329 TGTTTGGCGCAATGATATCAGTT 59.557 39.130 10.83 3.42 0.00 3.16
56 57 4.637977 TGTTTGGCGCAATGATATCAGTTA 59.362 37.500 10.83 0.00 0.00 2.24
57 58 5.299028 TGTTTGGCGCAATGATATCAGTTAT 59.701 36.000 10.83 0.00 0.00 1.89
58 59 6.183360 TGTTTGGCGCAATGATATCAGTTATT 60.183 34.615 10.83 0.00 0.00 1.40
59 60 7.012799 TGTTTGGCGCAATGATATCAGTTATTA 59.987 33.333 10.83 0.00 0.00 0.98
60 61 6.726258 TGGCGCAATGATATCAGTTATTAG 57.274 37.500 10.83 0.00 0.00 1.73
61 62 5.122239 TGGCGCAATGATATCAGTTATTAGC 59.878 40.000 10.83 6.93 0.00 3.09
82 83 5.971763 AGCGGAAATTTATAAAATGGTGCA 58.028 33.333 1.21 0.00 0.00 4.57
105 106 3.926821 TTTTGAACCCTAACCGCAATC 57.073 42.857 0.00 0.00 0.00 2.67
106 107 2.570415 TTGAACCCTAACCGCAATCA 57.430 45.000 0.00 0.00 0.00 2.57
108 109 1.072489 TGAACCCTAACCGCAATCACA 59.928 47.619 0.00 0.00 0.00 3.58
110 111 0.676782 ACCCTAACCGCAATCACAGC 60.677 55.000 0.00 0.00 0.00 4.40
140 141 7.868415 GTCTATGCTATTTACTCGGTTTCTCAT 59.132 37.037 0.00 0.00 0.00 2.90
166 167 5.631026 TGTGAGCTAATTCGAGCAAATTTC 58.369 37.500 3.15 0.00 45.43 2.17
167 168 5.181056 TGTGAGCTAATTCGAGCAAATTTCA 59.819 36.000 3.15 0.00 45.43 2.69
172 173 7.092716 AGCTAATTCGAGCAAATTTCAAACAT 58.907 30.769 3.15 0.00 45.43 2.71
177 178 3.599343 GAGCAAATTTCAAACATCCCCC 58.401 45.455 0.00 0.00 0.00 5.40
190 191 2.224606 CATCCCCCTCATCAACAATCG 58.775 52.381 0.00 0.00 0.00 3.34
199 200 1.726248 CATCAACAATCGAGTGACGCA 59.274 47.619 21.18 0.41 42.26 5.24
259 264 0.108804 TTTTACCGCAGAGCTCGAGG 60.109 55.000 20.52 20.52 0.00 4.63
261 266 1.934220 TTACCGCAGAGCTCGAGGTG 61.934 60.000 29.51 20.39 36.49 4.00
300 305 1.654220 CAAAACCAGTGTCGCCCTG 59.346 57.895 0.00 0.00 0.00 4.45
325 330 2.777832 GGCATGGCCCAAAAATACAA 57.222 45.000 8.35 0.00 44.06 2.41
394 399 5.010012 CCTGGACCATATCTTTGCCAATAAC 59.990 44.000 0.00 0.00 0.00 1.89
399 404 7.238486 ACCATATCTTTGCCAATAACAAACA 57.762 32.000 0.00 0.00 33.62 2.83
413 418 9.180678 CCAATAACAAACACTGTAATTTGTCTC 57.819 33.333 17.60 0.00 45.86 3.36
426 431 5.904362 AATTTGTCTCCCACTGCTTTATC 57.096 39.130 0.00 0.00 0.00 1.75
468 473 2.904178 TAGGAGCTCCGCCATCACGA 62.904 60.000 26.95 2.52 42.08 4.35
472 477 2.589492 GCTCCGCCATCACGAATCG 61.589 63.158 0.00 0.00 34.06 3.34
528 534 1.741145 ACGGGGTTCGCATTAACAATC 59.259 47.619 0.00 0.00 43.89 2.67
529 535 1.740585 CGGGGTTCGCATTAACAATCA 59.259 47.619 0.00 0.00 0.00 2.57
546 552 7.551035 AACAATCATAGTCAAATCTCTCTGC 57.449 36.000 0.00 0.00 0.00 4.26
547 553 6.647229 ACAATCATAGTCAAATCTCTCTGCA 58.353 36.000 0.00 0.00 0.00 4.41
557 580 4.607293 AATCTCTCTGCAACACACTGTA 57.393 40.909 0.00 0.00 0.00 2.74
563 586 1.082756 GCAACACACTGTACGCAGC 60.083 57.895 0.00 0.00 46.30 5.25
599 622 0.334676 CCACCACTCTCTCCCTCTCT 59.665 60.000 0.00 0.00 0.00 3.10
604 627 1.225983 CTCTCTCCCTCTCTCCGCA 59.774 63.158 0.00 0.00 0.00 5.69
615 638 3.134458 CTCTCTCCGCACTTTGAAAACT 58.866 45.455 0.00 0.00 0.00 2.66
619 642 2.872245 CTCCGCACTTTGAAAACTCTGA 59.128 45.455 0.00 0.00 0.00 3.27
683 1210 2.284798 TAGCCAGAGCGCACTACAGC 62.285 60.000 11.47 12.67 46.67 4.40
709 1238 2.945668 CTCCCTCTAAAAATGGAAGGCG 59.054 50.000 0.00 0.00 0.00 5.52
750 1279 1.594862 GGCCTTCTCGTCAATTGATCG 59.405 52.381 12.12 16.06 0.00 3.69
753 1282 3.511699 CCTTCTCGTCAATTGATCGTCA 58.488 45.455 21.46 11.90 0.00 4.35
756 1285 2.923655 TCTCGTCAATTGATCGTCAAGC 59.076 45.455 21.46 4.86 40.05 4.01
764 1293 0.738975 TGATCGTCAAGCCGAGGTAG 59.261 55.000 0.00 0.00 40.68 3.18
772 1301 2.351336 AAGCCGAGGTAGCGATTCCG 62.351 60.000 0.00 0.00 39.16 4.30
774 1310 2.191513 CCGAGGTAGCGATTCCGGA 61.192 63.158 0.00 0.00 39.31 5.14
794 1330 1.725973 GCGCGTCAGTTTTGCTTCC 60.726 57.895 8.43 0.00 0.00 3.46
795 1331 1.941812 CGCGTCAGTTTTGCTTCCT 59.058 52.632 0.00 0.00 0.00 3.36
796 1332 0.110644 CGCGTCAGTTTTGCTTCCTC 60.111 55.000 0.00 0.00 0.00 3.71
797 1333 0.238553 GCGTCAGTTTTGCTTCCTCC 59.761 55.000 0.00 0.00 0.00 4.30
801 1337 3.066760 CGTCAGTTTTGCTTCCTCCTTTT 59.933 43.478 0.00 0.00 0.00 2.27
828 1364 7.658261 TCTTTCTTTCTGACTGTAGAATCGAA 58.342 34.615 0.00 0.00 36.63 3.71
868 1404 4.937620 TCCGTTGAAATCTTCTCCAATCTG 59.062 41.667 0.00 0.00 0.00 2.90
872 1408 6.616017 GTTGAAATCTTCTCCAATCTGTTCC 58.384 40.000 0.00 0.00 0.00 3.62
877 1413 3.652869 TCTTCTCCAATCTGTTCCCTTGT 59.347 43.478 0.00 0.00 0.00 3.16
1089 1670 5.611374 CACAAGGTTGAGAAGAAGAGGTTA 58.389 41.667 0.00 0.00 0.00 2.85
1091 1672 4.545208 AGGTTGAGAAGAAGAGGTTAGC 57.455 45.455 0.00 0.00 0.00 3.09
1103 1691 1.672881 GAGGTTAGCGCATGCAATTCT 59.327 47.619 19.57 10.84 46.23 2.40
1124 1712 1.272147 ACCCTTGCTTGTTCATCCTCC 60.272 52.381 0.00 0.00 0.00 4.30
1129 1717 4.521146 CTTGCTTGTTCATCCTCCTATGT 58.479 43.478 0.00 0.00 0.00 2.29
1136 1724 5.982356 TGTTCATCCTCCTATGTTCTTCAG 58.018 41.667 0.00 0.00 0.00 3.02
1177 1771 2.162681 AGCATGGCTTGTTTCAGGTAC 58.837 47.619 2.12 0.00 33.89 3.34
1264 1861 7.896811 AGGTCTTTTTCATTCCCTATTTTGTC 58.103 34.615 0.00 0.00 0.00 3.18
1272 1869 5.817296 TCATTCCCTATTTTGTCTCATGTCG 59.183 40.000 0.00 0.00 0.00 4.35
1273 1870 4.819105 TCCCTATTTTGTCTCATGTCGT 57.181 40.909 0.00 0.00 0.00 4.34
1274 1871 5.160607 TCCCTATTTTGTCTCATGTCGTT 57.839 39.130 0.00 0.00 0.00 3.85
1275 1872 5.556915 TCCCTATTTTGTCTCATGTCGTTT 58.443 37.500 0.00 0.00 0.00 3.60
1276 1873 5.642063 TCCCTATTTTGTCTCATGTCGTTTC 59.358 40.000 0.00 0.00 0.00 2.78
1277 1874 5.643777 CCCTATTTTGTCTCATGTCGTTTCT 59.356 40.000 0.00 0.00 0.00 2.52
1278 1875 6.183360 CCCTATTTTGTCTCATGTCGTTTCTC 60.183 42.308 0.00 0.00 0.00 2.87
1279 1876 6.368791 CCTATTTTGTCTCATGTCGTTTCTCA 59.631 38.462 0.00 0.00 0.00 3.27
1280 1877 6.808008 ATTTTGTCTCATGTCGTTTCTCAT 57.192 33.333 0.00 0.00 0.00 2.90
1281 1878 6.618287 TTTTGTCTCATGTCGTTTCTCATT 57.382 33.333 0.00 0.00 0.00 2.57
1291 1888 4.083855 TGTCGTTTCTCATTTGTCAGCATC 60.084 41.667 0.00 0.00 0.00 3.91
1314 1915 4.513692 CCAACTTAGATGGTTCGTTTGACA 59.486 41.667 0.00 0.00 33.08 3.58
1429 2034 0.107459 GGGTGGAGAAGGTGAGCATC 60.107 60.000 0.00 0.00 0.00 3.91
1455 2060 5.074804 GGTCCTACCCTCTTCTCTTATCTC 58.925 50.000 0.00 0.00 30.04 2.75
1456 2061 5.163023 GGTCCTACCCTCTTCTCTTATCTCT 60.163 48.000 0.00 0.00 30.04 3.10
1475 2080 0.630673 TGCATATTGGCAGGGTCCTT 59.369 50.000 0.00 0.00 39.25 3.36
1518 2153 9.354673 TGTTCCTACTGAAAATTCTCTTTCAAT 57.645 29.630 0.93 0.00 43.03 2.57
1589 2227 7.384439 TGAAATGAGTGTCTTTGTTGTTGTA 57.616 32.000 0.00 0.00 0.00 2.41
1787 2430 1.228894 TCGGAGGAGGTGCTCAACT 60.229 57.895 0.63 0.00 31.08 3.16
1788 2431 0.039180 TCGGAGGAGGTGCTCAACTA 59.961 55.000 0.63 0.00 31.08 2.24
1789 2432 0.457851 CGGAGGAGGTGCTCAACTAG 59.542 60.000 0.63 0.00 31.08 2.57
1831 2474 5.762711 TGTTCAGTAAGTAGCTGCAAATTCA 59.237 36.000 4.12 0.00 34.21 2.57
2027 2672 1.226888 GCCTAGCCGGTTACTCACG 60.227 63.158 1.90 0.00 34.25 4.35
2028 2673 1.941999 GCCTAGCCGGTTACTCACGT 61.942 60.000 1.90 0.00 34.25 4.49
2029 2674 1.382522 CCTAGCCGGTTACTCACGTA 58.617 55.000 1.90 0.00 0.00 3.57
2046 2692 4.679197 TCACGTAATGCATTGTGCTTTTTC 59.321 37.500 22.27 0.96 45.31 2.29
2117 2764 8.436200 CGGTAAGTATGCTCTAATAAAATCAGC 58.564 37.037 0.00 0.00 0.00 4.26
2202 2853 1.610379 AGGTGATTTTGGGCTGGCC 60.610 57.895 14.23 14.23 0.00 5.36
2220 2871 4.072131 TGGCCAAAGTATTGACTTCTGAC 58.928 43.478 0.61 0.00 45.50 3.51
2280 2938 5.521544 CGTAGGTAGGCTCATCTTTCTAAC 58.478 45.833 0.00 0.00 0.00 2.34
2363 3025 0.823356 TGTGCCCTGAACTTCTTGCC 60.823 55.000 0.00 0.00 0.00 4.52
2447 3110 3.195610 TCAGTTACATGTCTTGCTCCGAT 59.804 43.478 0.00 0.00 0.00 4.18
2448 3111 3.553511 CAGTTACATGTCTTGCTCCGATC 59.446 47.826 0.00 0.00 0.00 3.69
2455 3118 1.805539 CTTGCTCCGATCGTCGCAA 60.806 57.895 28.02 28.02 38.82 4.85
2475 3138 4.860907 GCAATGTTCTCTTGGCTAAACATG 59.139 41.667 0.00 0.00 40.46 3.21
2553 3216 5.458041 AGCATTTGTAAGTTGATGTGCTT 57.542 34.783 0.00 0.00 38.41 3.91
2589 3305 6.603997 TGGTACTATGTTTCACCAAAAGTTGT 59.396 34.615 0.00 0.00 38.10 3.32
2591 3307 8.071967 GGTACTATGTTTCACCAAAAGTTGTAC 58.928 37.037 0.00 0.00 31.58 2.90
2604 3320 8.567948 ACCAAAAGTTGTACTTAAGATGATGTG 58.432 33.333 10.09 0.00 37.47 3.21
2724 3443 5.870978 TGTAACGGATTAACTTGTAGGAAGC 59.129 40.000 0.00 0.00 0.00 3.86
2837 3558 3.193263 CAGAAATCCAGATCACAGACCG 58.807 50.000 0.00 0.00 0.00 4.79
3014 7604 5.945784 TGGAAATCCAATCGAAATCAAGTCT 59.054 36.000 0.00 0.00 44.35 3.24
3020 7610 2.386661 TCGAAATCAAGTCTGGCTCC 57.613 50.000 0.00 0.00 0.00 4.70
3152 9073 6.374417 AGTACATAGGATTGTGGAACTTGT 57.626 37.500 0.00 0.00 38.04 3.16
3162 9083 1.000274 GTGGAACTTGTCAATGCCACC 60.000 52.381 15.52 4.74 39.79 4.61
3576 11366 7.277539 TGCATTAACCTTTTCTTGTTTTCACAG 59.722 33.333 0.00 0.00 33.22 3.66
3577 11367 7.621102 CATTAACCTTTTCTTGTTTTCACAGC 58.379 34.615 0.00 0.00 33.22 4.40
3578 11368 4.799564 ACCTTTTCTTGTTTTCACAGCA 57.200 36.364 0.00 0.00 33.22 4.41
3579 11369 4.747810 ACCTTTTCTTGTTTTCACAGCAG 58.252 39.130 0.00 0.00 33.22 4.24
3589 11379 2.971095 TTCACAGCAGCAGCAGCCTT 62.971 55.000 6.10 0.00 45.49 4.35
3720 11524 5.026121 ACCAGATTGAAGTCTCCTGATGTA 58.974 41.667 0.00 0.00 0.00 2.29
3874 11682 3.382832 AAGTGCTCCGAGGGGACG 61.383 66.667 0.00 0.00 37.43 4.79
3945 11753 3.662247 AATCAACTCGGAAGTTCGTCT 57.338 42.857 0.00 0.00 43.99 4.18
4083 11891 3.763897 GGATCTTGCTAAAGCCTTTTGGA 59.236 43.478 0.00 0.00 42.66 3.53
4155 11963 6.459710 GCTTCAAAGAAACGGGATTATAAGGG 60.460 42.308 0.00 0.00 0.00 3.95
4157 11965 4.448720 AAGAAACGGGATTATAAGGGGG 57.551 45.455 0.00 0.00 0.00 5.40
4364 12268 9.307121 CAGTTCTTGGATGTACTTCAATACTAG 57.693 37.037 10.60 0.00 0.00 2.57
4365 12269 8.478877 AGTTCTTGGATGTACTTCAATACTAGG 58.521 37.037 10.60 0.00 0.00 3.02
4366 12270 8.475639 GTTCTTGGATGTACTTCAATACTAGGA 58.524 37.037 10.60 0.00 0.00 2.94
4367 12271 8.239038 TCTTGGATGTACTTCAATACTAGGAG 57.761 38.462 10.60 0.00 0.00 3.69
4411 12315 9.844790 TTTTGCTGATATCTGAATAAAGTTGTG 57.155 29.630 13.33 0.00 0.00 3.33
4469 12376 1.067516 CTGTTTCAGTGTTGGCCCTTG 59.932 52.381 0.00 0.00 0.00 3.61
4483 12390 0.600057 CCCTTGCTGCCTTGAAAGAC 59.400 55.000 0.00 0.00 0.00 3.01
4511 12424 1.725641 TATGCAGCCGACACTTCTTG 58.274 50.000 0.00 0.00 0.00 3.02
4528 12441 6.543831 CACTTCTTGTCCAGAATAATAAGGGG 59.456 42.308 0.00 0.00 40.95 4.79
4724 12643 1.338020 GGCGCCCAAGAAGATTAATGG 59.662 52.381 18.11 0.00 0.00 3.16
4747 12666 4.457810 CATTGACTTGTCACGATCACAAC 58.542 43.478 2.62 0.00 30.49 3.32
4779 12699 6.968263 TCAATTGAAGTGGTGTTTTATCCA 57.032 33.333 5.45 0.00 0.00 3.41
4926 13668 1.374560 TTCAACACACCGACAACAGG 58.625 50.000 0.00 0.00 0.00 4.00
4927 13669 0.250793 TCAACACACCGACAACAGGT 59.749 50.000 0.00 0.00 43.97 4.00
4928 13670 1.481363 TCAACACACCGACAACAGGTA 59.519 47.619 0.00 0.00 40.59 3.08
4929 13671 1.864711 CAACACACCGACAACAGGTAG 59.135 52.381 0.00 0.00 40.59 3.18
4977 13719 4.907034 CTGACGCCGTCCGATCCG 62.907 72.222 15.60 0.00 41.02 4.18
5007 13749 3.698539 TCACTGAAGTTGCCATGTTCAAA 59.301 39.130 0.00 0.00 30.00 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 6.670452 GCGCAAAACACTAATGATTGATTTGG 60.670 38.462 0.30 0.00 31.85 3.28
7 8 5.468592 TGCGCAAAACACTAATGATTGATT 58.531 33.333 8.16 0.00 31.85 2.57
8 9 5.058149 TGCGCAAAACACTAATGATTGAT 57.942 34.783 8.16 0.00 31.85 2.57
9 10 4.495911 TGCGCAAAACACTAATGATTGA 57.504 36.364 8.16 0.00 31.85 2.57
10 11 5.766702 ATTGCGCAAAACACTAATGATTG 57.233 34.783 28.81 0.00 32.72 2.67
11 12 5.695816 ACAATTGCGCAAAACACTAATGATT 59.304 32.000 28.81 9.20 0.00 2.57
12 13 5.229423 ACAATTGCGCAAAACACTAATGAT 58.771 33.333 28.81 2.27 0.00 2.45
13 14 4.615949 ACAATTGCGCAAAACACTAATGA 58.384 34.783 28.81 0.00 0.00 2.57
14 15 4.970472 ACAATTGCGCAAAACACTAATG 57.030 36.364 28.81 16.54 0.00 1.90
15 16 5.277250 CCAAACAATTGCGCAAAACACTAAT 60.277 36.000 28.81 4.60 35.10 1.73
16 17 4.033358 CCAAACAATTGCGCAAAACACTAA 59.967 37.500 28.81 0.63 35.10 2.24
17 18 3.553511 CCAAACAATTGCGCAAAACACTA 59.446 39.130 28.81 1.57 35.10 2.74
18 19 2.351111 CCAAACAATTGCGCAAAACACT 59.649 40.909 28.81 7.22 35.10 3.55
19 20 2.702922 CCAAACAATTGCGCAAAACAC 58.297 42.857 28.81 0.00 35.10 3.32
20 21 1.063174 GCCAAACAATTGCGCAAAACA 59.937 42.857 28.81 3.91 34.69 2.83
21 22 1.740805 GCCAAACAATTGCGCAAAAC 58.259 45.000 28.81 6.62 34.69 2.43
22 23 0.302890 CGCCAAACAATTGCGCAAAA 59.697 45.000 28.81 5.32 34.41 2.44
23 24 1.930100 CGCCAAACAATTGCGCAAA 59.070 47.368 28.81 10.98 34.41 3.68
24 25 3.622756 CGCCAAACAATTGCGCAA 58.377 50.000 27.24 27.24 34.41 4.85
27 28 0.179245 CATTGCGCCAAACAATTGCG 60.179 50.000 4.18 3.87 35.58 4.85
28 29 1.146637 TCATTGCGCCAAACAATTGC 58.853 45.000 4.18 0.00 35.58 3.56
29 30 4.804665 TGATATCATTGCGCCAAACAATTG 59.195 37.500 4.18 3.24 35.58 2.32
30 31 5.008619 TGATATCATTGCGCCAAACAATT 57.991 34.783 4.18 0.00 35.58 2.32
31 32 4.098349 ACTGATATCATTGCGCCAAACAAT 59.902 37.500 4.18 0.00 38.25 2.71
32 33 3.443329 ACTGATATCATTGCGCCAAACAA 59.557 39.130 4.18 0.00 0.00 2.83
33 34 3.016031 ACTGATATCATTGCGCCAAACA 58.984 40.909 4.18 0.00 0.00 2.83
34 35 3.698029 ACTGATATCATTGCGCCAAAC 57.302 42.857 4.18 0.00 0.00 2.93
35 36 6.389830 AATAACTGATATCATTGCGCCAAA 57.610 33.333 4.18 0.00 0.00 3.28
36 37 6.348458 GCTAATAACTGATATCATTGCGCCAA 60.348 38.462 4.18 0.00 0.00 4.52
37 38 5.122239 GCTAATAACTGATATCATTGCGCCA 59.878 40.000 4.18 0.00 0.00 5.69
38 39 5.563842 GCTAATAACTGATATCATTGCGCC 58.436 41.667 4.18 0.00 0.00 6.53
39 40 5.251081 CGCTAATAACTGATATCATTGCGC 58.749 41.667 15.44 0.00 32.65 6.09
40 41 5.576774 TCCGCTAATAACTGATATCATTGCG 59.423 40.000 18.73 18.73 38.51 4.85
41 42 6.968131 TCCGCTAATAACTGATATCATTGC 57.032 37.500 5.72 2.96 0.00 3.56
55 56 9.685828 GCACCATTTTATAAATTTCCGCTAATA 57.314 29.630 0.00 0.00 0.00 0.98
56 57 8.200792 TGCACCATTTTATAAATTTCCGCTAAT 58.799 29.630 0.00 0.00 0.00 1.73
57 58 7.548097 TGCACCATTTTATAAATTTCCGCTAA 58.452 30.769 0.00 0.00 0.00 3.09
58 59 7.101652 TGCACCATTTTATAAATTTCCGCTA 57.898 32.000 0.00 0.00 0.00 4.26
59 60 5.971763 TGCACCATTTTATAAATTTCCGCT 58.028 33.333 0.00 0.00 0.00 5.52
60 61 6.843069 ATGCACCATTTTATAAATTTCCGC 57.157 33.333 0.00 1.28 0.00 5.54
88 89 1.072489 TGTGATTGCGGTTAGGGTTCA 59.928 47.619 0.00 0.00 0.00 3.18
89 90 1.737793 CTGTGATTGCGGTTAGGGTTC 59.262 52.381 0.00 0.00 0.00 3.62
100 101 1.328680 CATAGACACCGCTGTGATTGC 59.671 52.381 15.72 1.74 45.76 3.56
106 107 3.543680 AAATAGCATAGACACCGCTGT 57.456 42.857 0.00 0.00 37.20 4.40
108 109 4.556898 CGAGTAAATAGCATAGACACCGCT 60.557 45.833 0.00 0.00 39.80 5.52
110 111 4.227538 CCGAGTAAATAGCATAGACACCG 58.772 47.826 0.00 0.00 0.00 4.94
114 115 7.201145 TGAGAAACCGAGTAAATAGCATAGAC 58.799 38.462 0.00 0.00 0.00 2.59
116 117 7.359598 GCATGAGAAACCGAGTAAATAGCATAG 60.360 40.741 0.00 0.00 0.00 2.23
140 141 1.066929 TGCTCGAATTAGCTCACAGCA 60.067 47.619 0.00 0.00 45.56 4.41
148 149 6.689178 TGTTTGAAATTTGCTCGAATTAGC 57.311 33.333 0.00 0.00 43.08 3.09
150 151 6.811170 GGGATGTTTGAAATTTGCTCGAATTA 59.189 34.615 0.00 0.00 0.00 1.40
151 152 5.639082 GGGATGTTTGAAATTTGCTCGAATT 59.361 36.000 0.00 0.00 0.00 2.17
166 167 2.806434 TGTTGATGAGGGGGATGTTTG 58.194 47.619 0.00 0.00 0.00 2.93
167 168 3.541242 TTGTTGATGAGGGGGATGTTT 57.459 42.857 0.00 0.00 0.00 2.83
172 173 1.486310 CTCGATTGTTGATGAGGGGGA 59.514 52.381 0.00 0.00 0.00 4.81
177 178 2.028523 GCGTCACTCGATTGTTGATGAG 59.971 50.000 2.44 0.00 42.86 2.90
199 200 5.925397 TCTGCATTTTCGTGTTTGCAATAAT 59.075 32.000 0.00 0.00 43.83 1.28
347 352 4.641396 ACATGCAAGCAAGTACAGAAGTA 58.359 39.130 0.54 0.00 0.00 2.24
348 353 3.480470 ACATGCAAGCAAGTACAGAAGT 58.520 40.909 0.54 0.00 0.00 3.01
349 354 3.120060 GGACATGCAAGCAAGTACAGAAG 60.120 47.826 7.69 0.00 29.71 2.85
350 355 2.813754 GGACATGCAAGCAAGTACAGAA 59.186 45.455 7.69 0.00 29.71 3.02
353 358 2.153645 CAGGACATGCAAGCAAGTACA 58.846 47.619 14.27 0.00 31.50 2.90
394 399 5.299279 AGTGGGAGACAAATTACAGTGTTTG 59.701 40.000 0.00 2.53 40.29 2.93
399 404 3.073062 AGCAGTGGGAGACAAATTACAGT 59.927 43.478 0.00 0.00 0.00 3.55
413 418 2.180204 CCGGCGATAAAGCAGTGGG 61.180 63.158 9.30 0.00 39.27 4.61
426 431 2.047655 TTCCTGTACAAGCCGGCG 60.048 61.111 23.20 10.77 0.00 6.46
468 473 2.334838 GGCTTATTCGTATCGCCGATT 58.665 47.619 4.31 0.00 36.62 3.34
472 477 2.094762 ATGGGCTTATTCGTATCGCC 57.905 50.000 6.70 6.70 39.98 5.54
528 534 5.640783 TGTGTTGCAGAGAGATTTGACTATG 59.359 40.000 0.00 0.00 0.00 2.23
529 535 5.641209 GTGTGTTGCAGAGAGATTTGACTAT 59.359 40.000 0.00 0.00 0.00 2.12
545 551 1.082756 GCTGCGTACAGTGTGTTGC 60.083 57.895 5.88 7.61 46.30 4.17
546 552 1.569493 GGCTGCGTACAGTGTGTTG 59.431 57.895 5.88 0.00 46.30 3.33
547 553 1.954146 CGGCTGCGTACAGTGTGTT 60.954 57.895 5.88 0.00 46.30 3.32
593 616 2.169832 TTTCAAAGTGCGGAGAGAGG 57.830 50.000 0.00 0.00 0.00 3.69
599 622 2.912771 TCAGAGTTTTCAAAGTGCGGA 58.087 42.857 0.00 0.00 0.00 5.54
604 627 6.183360 CGAGAGGTTTTCAGAGTTTTCAAAGT 60.183 38.462 0.00 0.00 0.00 2.66
615 638 1.200252 CGAGAGCGAGAGGTTTTCAGA 59.800 52.381 0.00 0.00 45.11 3.27
651 1175 2.446036 GGCTACGGAGGGATGGGT 60.446 66.667 0.00 0.00 0.00 4.51
652 1176 2.445845 TGGCTACGGAGGGATGGG 60.446 66.667 0.00 0.00 0.00 4.00
683 1210 5.654209 CCTTCCATTTTTAGAGGGAGAAAGG 59.346 44.000 0.00 0.00 31.02 3.11
720 1249 3.991536 GAGAAGGCCGTGCTCGTCC 62.992 68.421 7.47 3.44 35.13 4.79
739 1268 1.999735 TCGGCTTGACGATCAATTGAC 59.000 47.619 11.07 4.22 35.59 3.18
750 1279 0.179108 AATCGCTACCTCGGCTTGAC 60.179 55.000 0.00 0.00 0.00 3.18
753 1282 1.442148 GGAATCGCTACCTCGGCTT 59.558 57.895 0.00 0.00 0.00 4.35
756 1285 2.191513 TCCGGAATCGCTACCTCGG 61.192 63.158 0.00 0.00 38.92 4.63
774 1310 2.695712 GAAGCAAAACTGACGCGCGT 62.696 55.000 38.52 38.52 0.00 6.01
777 1313 0.110644 GAGGAAGCAAAACTGACGCG 60.111 55.000 3.53 3.53 0.00 6.01
778 1314 0.238553 GGAGGAAGCAAAACTGACGC 59.761 55.000 0.00 0.00 0.00 5.19
780 1316 4.655762 AAAAGGAGGAAGCAAAACTGAC 57.344 40.909 0.00 0.00 0.00 3.51
801 1337 8.141909 TCGATTCTACAGTCAGAAAGAAAGAAA 58.858 33.333 0.00 0.00 38.03 2.52
804 1340 7.875316 TTCGATTCTACAGTCAGAAAGAAAG 57.125 36.000 0.00 0.00 38.03 2.62
806 1342 7.273598 CGAATTCGATTCTACAGTCAGAAAGAA 59.726 37.037 23.29 8.52 43.02 2.52
808 1344 6.528423 ACGAATTCGATTCTACAGTCAGAAAG 59.472 38.462 33.05 0.00 43.02 2.62
809 1345 6.387465 ACGAATTCGATTCTACAGTCAGAAA 58.613 36.000 33.05 0.00 43.02 2.52
810 1346 5.950883 ACGAATTCGATTCTACAGTCAGAA 58.049 37.500 33.05 0.00 43.02 3.02
812 1348 4.735822 GGACGAATTCGATTCTACAGTCAG 59.264 45.833 33.05 0.26 43.02 3.51
813 1349 4.398358 AGGACGAATTCGATTCTACAGTCA 59.602 41.667 33.05 0.00 43.02 3.41
814 1350 4.922719 AGGACGAATTCGATTCTACAGTC 58.077 43.478 33.05 16.33 43.02 3.51
816 1352 4.504461 CCAAGGACGAATTCGATTCTACAG 59.496 45.833 33.05 17.26 43.02 2.74
817 1353 4.430007 CCAAGGACGAATTCGATTCTACA 58.570 43.478 33.05 0.00 43.02 2.74
818 1354 3.245519 GCCAAGGACGAATTCGATTCTAC 59.754 47.826 33.05 12.43 43.02 2.59
828 1364 1.375523 GACCACGCCAAGGACGAAT 60.376 57.895 9.31 0.00 0.00 3.34
868 1404 3.616821 GCAAGAAAAACACACAAGGGAAC 59.383 43.478 0.00 0.00 0.00 3.62
1089 1670 0.107017 AGGGTAGAATTGCATGCGCT 60.107 50.000 14.09 10.03 39.64 5.92
1091 1672 2.480224 CAAGGGTAGAATTGCATGCG 57.520 50.000 14.09 0.00 0.00 4.73
1103 1691 2.026262 GGAGGATGAACAAGCAAGGGTA 60.026 50.000 0.00 0.00 0.00 3.69
1124 1712 4.445448 CCCCAGGGATTCTGAAGAACATAG 60.445 50.000 7.25 0.00 46.18 2.23
1129 1717 0.625849 GCCCCAGGGATTCTGAAGAA 59.374 55.000 7.25 0.00 46.18 2.52
1136 1724 1.988107 TGATAGATGCCCCAGGGATTC 59.012 52.381 7.25 0.11 32.75 2.52
1177 1771 0.528684 GCCGGATCTTCTTCAGGACG 60.529 60.000 5.05 0.00 33.29 4.79
1245 1839 8.421249 ACATGAGACAAAATAGGGAATGAAAA 57.579 30.769 0.00 0.00 0.00 2.29
1264 1861 5.596268 TGACAAATGAGAAACGACATGAG 57.404 39.130 0.00 0.00 0.00 2.90
1272 1869 4.771590 TGGATGCTGACAAATGAGAAAC 57.228 40.909 0.00 0.00 0.00 2.78
1273 1870 4.828939 AGTTGGATGCTGACAAATGAGAAA 59.171 37.500 0.00 0.00 0.00 2.52
1274 1871 4.401022 AGTTGGATGCTGACAAATGAGAA 58.599 39.130 0.00 0.00 0.00 2.87
1275 1872 4.025040 AGTTGGATGCTGACAAATGAGA 57.975 40.909 0.00 0.00 0.00 3.27
1276 1873 4.778534 AAGTTGGATGCTGACAAATGAG 57.221 40.909 0.00 0.00 0.00 2.90
1277 1874 5.559770 TCTAAGTTGGATGCTGACAAATGA 58.440 37.500 0.00 0.00 0.00 2.57
1278 1875 5.885230 TCTAAGTTGGATGCTGACAAATG 57.115 39.130 0.00 0.00 0.00 2.32
1279 1876 5.359009 CCATCTAAGTTGGATGCTGACAAAT 59.641 40.000 20.62 0.00 39.19 2.32
1280 1877 4.701651 CCATCTAAGTTGGATGCTGACAAA 59.298 41.667 20.62 0.00 39.19 2.83
1281 1878 4.263462 ACCATCTAAGTTGGATGCTGACAA 60.263 41.667 20.62 0.00 39.19 3.18
1291 1888 4.513692 TGTCAAACGAACCATCTAAGTTGG 59.486 41.667 0.00 0.00 40.26 3.77
1306 1907 3.301379 CGCATTCATCCAAATGTCAAACG 59.699 43.478 0.00 0.00 38.60 3.60
1314 1915 2.937469 TTTCGCGCATTCATCCAAAT 57.063 40.000 8.75 0.00 0.00 2.32
1429 2034 3.039252 AGAGAAGAGGGTAGGACCATG 57.961 52.381 0.00 0.00 41.02 3.66
1430 2035 3.786213 AAGAGAAGAGGGTAGGACCAT 57.214 47.619 0.00 0.00 41.02 3.55
1431 2036 4.482772 AGATAAGAGAAGAGGGTAGGACCA 59.517 45.833 0.00 0.00 41.02 4.02
1438 2043 3.987745 TGCAGAGATAAGAGAAGAGGGT 58.012 45.455 0.00 0.00 0.00 4.34
1456 2061 0.630673 AAGGACCCTGCCAATATGCA 59.369 50.000 0.00 0.00 39.37 3.96
1475 2080 4.344679 AGGAACATTGAAACATGCAAGGAA 59.655 37.500 0.00 0.00 32.01 3.36
1518 2153 8.754080 TCCTTCAGTTTGGAACATTTTTCTTTA 58.246 29.630 0.00 0.00 39.30 1.85
1534 2171 4.095483 GCGATCACATGAATCCTTCAGTTT 59.905 41.667 0.00 0.00 43.98 2.66
1538 2175 2.564771 GGCGATCACATGAATCCTTCA 58.435 47.619 0.00 0.00 45.01 3.02
1589 2227 1.683011 GCACACATAGCACCCCTGATT 60.683 52.381 0.00 0.00 0.00 2.57
1788 2431 8.585881 ACTGAACAACACATATTACAGAGTACT 58.414 33.333 0.00 0.00 0.00 2.73
1789 2432 8.758633 ACTGAACAACACATATTACAGAGTAC 57.241 34.615 0.00 0.00 0.00 2.73
1816 2459 7.452880 TTCAGTAATTGAATTTGCAGCTACT 57.547 32.000 0.00 0.00 40.82 2.57
1831 2474 4.565022 CAACGGGGCAAAATTCAGTAATT 58.435 39.130 0.00 0.00 36.87 1.40
1904 2549 1.303309 AGTAATCAAGCGCCATCAGC 58.697 50.000 2.29 0.00 38.52 4.26
2202 2853 7.900352 GCTAAATCGTCAGAAGTCAATACTTTG 59.100 37.037 0.00 0.00 46.09 2.77
2220 2871 5.345202 ACAACTTACTGACGAAGCTAAATCG 59.655 40.000 4.77 4.77 45.47 3.34
2268 2920 9.719355 TGTAAGCAACTTATGTTAGAAAGATGA 57.281 29.630 0.00 0.00 34.60 2.92
2301 2963 6.652481 ACAACCTTCAGAAGAGACACAATATG 59.348 38.462 12.14 0.00 0.00 1.78
2363 3025 2.549064 TGGAGCCATATGGAATGTCG 57.451 50.000 26.47 0.00 37.39 4.35
2447 3110 1.428448 CCAAGAGAACATTGCGACGA 58.572 50.000 0.00 0.00 0.00 4.20
2448 3111 0.179215 GCCAAGAGAACATTGCGACG 60.179 55.000 0.00 0.00 0.00 5.12
2455 3118 4.082571 GCACATGTTTAGCCAAGAGAACAT 60.083 41.667 0.00 0.00 41.85 2.71
2475 3138 1.997606 GCAGCATCCTGAAAATTGCAC 59.002 47.619 0.00 0.00 41.77 4.57
2553 3216 9.685828 GTGAAACATAGTACCAAATGCTTAAAA 57.314 29.630 0.00 0.00 36.32 1.52
2589 3305 8.598916 TGTTAGGGAAACACATCATCTTAAGTA 58.401 33.333 1.63 0.00 43.22 2.24
2591 3307 7.066284 CCTGTTAGGGAAACACATCATCTTAAG 59.934 40.741 0.00 0.00 43.22 1.85
2604 3320 4.816925 GTCTGCATATCCTGTTAGGGAAAC 59.183 45.833 0.00 0.00 39.02 2.78
2724 3443 3.538591 TGCCATGAATAGCTCACAAGAG 58.461 45.455 0.00 0.00 44.96 2.85
2837 3558 6.093771 TCTCTAGGAAAATGACTCGTACACTC 59.906 42.308 0.00 0.00 0.00 3.51
2891 3616 2.468777 CGCAAATGAGTGCAGAAACAAC 59.531 45.455 0.00 0.00 45.19 3.32
3014 7604 1.215173 CTGGGAACATATTGGGAGCCA 59.785 52.381 0.00 0.00 41.51 4.75
3020 7610 5.940470 GGAAGTATAGCTGGGAACATATTGG 59.060 44.000 0.00 0.00 41.51 3.16
3135 9056 4.458989 GCATTGACAAGTTCCACAATCCTA 59.541 41.667 0.00 0.00 31.85 2.94
3152 9073 0.034574 ATGGTTAGCGGTGGCATTGA 60.035 50.000 0.00 0.00 43.41 2.57
3162 9083 2.895372 GGACGGCCATGGTTAGCG 60.895 66.667 14.67 0.00 0.00 4.26
3233 9154 2.367567 GTGACCTGGACTGGTAACTGAA 59.632 50.000 0.00 0.00 41.00 3.02
3465 11035 0.324368 TGATACACAGGTCTCCCGCT 60.324 55.000 0.00 0.00 35.12 5.52
3485 11055 0.521242 CATAACGCGAACCTGCAAGC 60.521 55.000 15.93 0.00 34.15 4.01
3577 11367 3.657038 ATGGGGAAGGCTGCTGCTG 62.657 63.158 15.64 0.77 39.59 4.41
3578 11368 3.345028 ATGGGGAAGGCTGCTGCT 61.345 61.111 15.64 0.00 39.59 4.24
3579 11369 2.832201 GATGGGGAAGGCTGCTGC 60.832 66.667 7.10 7.10 38.76 5.25
3589 11379 2.342406 TCTGAAGACCTTGATGGGGA 57.658 50.000 0.00 0.00 41.11 4.81
3720 11524 2.736144 TTCGAGGTGCGTTAACTGAT 57.264 45.000 3.71 0.00 41.80 2.90
3876 11684 1.388547 GAGTGTTGGTGTGGCTTTCA 58.611 50.000 0.00 0.00 0.00 2.69
3945 11753 1.661463 ACCTCTTCTGCCTCCAATCA 58.339 50.000 0.00 0.00 0.00 2.57
4083 11891 3.003763 GGAGACGCCTTCCCAGGT 61.004 66.667 0.00 0.00 43.18 4.00
4127 11935 1.892209 TCCCGTTTCTTTGAAGCTCC 58.108 50.000 0.00 0.00 0.00 4.70
4159 11967 0.538746 TGTTTTCCTTTCGAGCCCCC 60.539 55.000 0.00 0.00 0.00 5.40
4160 11968 1.545841 ATGTTTTCCTTTCGAGCCCC 58.454 50.000 0.00 0.00 0.00 5.80
4163 11971 4.022676 TGGGTTTATGTTTTCCTTTCGAGC 60.023 41.667 0.00 0.00 0.00 5.03
4167 11975 9.719355 ATTATTGTGGGTTTATGTTTTCCTTTC 57.281 29.630 0.00 0.00 0.00 2.62
4411 12315 1.921243 ACAAAAACAAGAACAGCCGC 58.079 45.000 0.00 0.00 0.00 6.53
4469 12376 1.068055 CATGTGGTCTTTCAAGGCAGC 60.068 52.381 0.00 0.00 30.55 5.25
4483 12390 0.250424 TCGGCTGCATATCCATGTGG 60.250 55.000 0.50 0.00 34.40 4.17
4511 12424 7.834681 AGTTCTTTTCCCCTTATTATTCTGGAC 59.165 37.037 0.00 0.00 0.00 4.02
4724 12643 2.480037 TGTGATCGTGACAAGTCAATGC 59.520 45.455 4.20 0.00 41.85 3.56
4779 12699 5.319453 TGGCTTGAAAGAGAATCAGATTGT 58.681 37.500 0.00 0.00 37.82 2.71
4862 13603 9.905713 ATAAGCTATCTGTGTAAAATGAGGAAA 57.094 29.630 0.00 0.00 0.00 3.13
4892 13634 7.043986 CGGTGTGTTGAATTTACGATTTTTCAA 60.044 33.333 0.00 0.00 36.14 2.69
4926 13668 2.548480 GTGAGTGTTTTGGGTCAGCTAC 59.452 50.000 0.00 0.00 0.00 3.58
4927 13669 2.438021 AGTGAGTGTTTTGGGTCAGCTA 59.562 45.455 0.00 0.00 0.00 3.32
4928 13670 1.212935 AGTGAGTGTTTTGGGTCAGCT 59.787 47.619 0.00 0.00 0.00 4.24
4929 13671 1.680338 AGTGAGTGTTTTGGGTCAGC 58.320 50.000 0.00 0.00 0.00 4.26
4977 13719 2.872370 GCAACTTCAGTGATCATTGCC 58.128 47.619 18.79 0.00 37.14 4.52
5007 13749 2.431782 AGTTGTTGAGCATGGCTTGTTT 59.568 40.909 2.12 0.00 39.88 2.83
5013 13755 1.200948 GAAGGAGTTGTTGAGCATGGC 59.799 52.381 0.00 0.00 0.00 4.40


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

AutoCloner maintained by Alex Coulton.