Multiple sequence alignment - TraesCS5B01G168400

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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 TraesCS5B01G168400 chr5B 100.000 3290 0 0 1 3290 312591369 312594658 0.000000e+00 6076.0
1 TraesCS5B01G168400 chr5B 87.727 1100 119 11 990 2078 309882580 309883674 0.000000e+00 1269.0
2 TraesCS5B01G168400 chr5B 78.475 1180 199 46 1140 2293 312261230 312262380 0.000000e+00 721.0
3 TraesCS5B01G168400 chr5B 78.621 1146 200 37 1151 2278 309665782 309664664 0.000000e+00 717.0
4 TraesCS5B01G168400 chr5B 85.331 559 69 10 1600 2156 278863716 278864263 1.710000e-157 566.0
5 TraesCS5B01G168400 chr5B 83.883 273 32 5 2092 2355 309883744 309884013 1.960000e-62 250.0
6 TraesCS5B01G168400 chr5B 81.459 329 38 12 2312 2622 278884367 278884044 7.050000e-62 248.0
7 TraesCS5B01G168400 chr5B 76.176 340 54 13 2962 3287 309884528 309884854 1.580000e-33 154.0
8 TraesCS5B01G168400 chr5D 95.855 1954 48 9 924 2863 275404574 275406508 0.000000e+00 3129.0
9 TraesCS5B01G168400 chr5D 84.861 1658 194 28 1001 2615 245715510 245717153 0.000000e+00 1618.0
10 TraesCS5B01G168400 chr5D 89.507 629 61 5 1453 2078 275167551 275168177 0.000000e+00 791.0
11 TraesCS5B01G168400 chr5D 80.156 897 138 31 1144 2020 275195307 275196183 4.630000e-178 634.0
12 TraesCS5B01G168400 chr5D 94.710 397 17 3 2895 3287 275406503 275406899 6.030000e-172 614.0
13 TraesCS5B01G168400 chr5D 82.617 535 56 15 217 715 262844047 262844580 3.900000e-119 438.0
14 TraesCS5B01G168400 chr5D 80.550 509 61 19 220 714 192263568 192263084 1.120000e-94 357.0
15 TraesCS5B01G168400 chr5D 78.000 500 74 24 220 689 129533340 129532847 6.950000e-72 281.0
16 TraesCS5B01G168400 chr5D 87.826 230 27 1 1 229 262843682 262843911 5.410000e-68 268.0
17 TraesCS5B01G168400 chr5D 83.516 273 33 5 2092 2355 275168247 275168516 9.120000e-61 244.0
18 TraesCS5B01G168400 chr5D 76.792 293 53 7 2999 3287 275169070 275169351 2.050000e-32 150.0
19 TraesCS5B01G168400 chr5D 81.720 93 15 2 1337 1428 389036161 389036070 3.520000e-10 76.8
20 TraesCS5B01G168400 chr5A 96.599 1588 38 8 924 2511 364349340 364350911 0.000000e+00 2619.0
21 TraesCS5B01G168400 chr5A 85.601 1507 183 18 973 2456 329693266 329694761 0.000000e+00 1550.0
22 TraesCS5B01G168400 chr5A 78.250 1177 199 45 1144 2293 364198685 364199831 0.000000e+00 702.0
23 TraesCS5B01G168400 chr5A 78.291 1147 202 36 1151 2278 363598381 363597263 0.000000e+00 695.0
24 TraesCS5B01G168400 chr5A 84.582 694 93 9 950 1634 364136811 364137499 0.000000e+00 676.0
25 TraesCS5B01G168400 chr5A 78.752 1026 160 33 1147 2149 363862004 363862994 4.630000e-178 634.0
26 TraesCS5B01G168400 chr5A 95.930 344 9 4 2950 3289 364350907 364351249 1.330000e-153 553.0
27 TraesCS5B01G168400 chr5A 84.872 509 60 5 220 714 688733462 688733967 6.340000e-137 497.0
28 TraesCS5B01G168400 chr5A 88.660 194 18 2 2092 2283 364167446 364167637 1.970000e-57 233.0
29 TraesCS5B01G168400 chr5A 77.941 340 49 12 2962 3287 364191552 364191879 4.330000e-44 189.0
30 TraesCS5B01G168400 chr5A 80.645 93 16 2 1337 1428 491962939 491962848 1.640000e-08 71.3
31 TraesCS5B01G168400 chr4A 83.133 498 73 7 228 714 583861372 583861869 8.380000e-121 444.0
32 TraesCS5B01G168400 chr4A 95.000 40 2 0 2933 2972 99009783 99009822 2.740000e-06 63.9
33 TraesCS5B01G168400 chr3A 82.609 506 72 5 224 715 648105849 648106352 1.810000e-117 433.0
34 TraesCS5B01G168400 chr3A 81.714 525 60 14 228 718 51754761 51754239 3.950000e-109 405.0
35 TraesCS5B01G168400 chr3A 84.956 226 32 2 9 232 672542693 672542918 9.180000e-56 228.0
36 TraesCS5B01G168400 chr3A 86.842 76 6 4 2891 2965 333307254 333307326 7.570000e-12 82.4
37 TraesCS5B01G168400 chr3D 82.500 520 53 12 220 725 416913397 416913892 3.930000e-114 422.0
38 TraesCS5B01G168400 chr1B 82.845 478 62 11 220 680 593607582 593608056 8.500000e-111 411.0
39 TraesCS5B01G168400 chr7D 80.263 532 68 14 220 718 422870973 422871500 1.870000e-97 366.0
40 TraesCS5B01G168400 chr7D 77.966 531 70 20 220 713 98036855 98036335 4.150000e-74 289.0
41 TraesCS5B01G168400 chr7D 85.388 219 32 0 1 219 32906402 32906184 9.180000e-56 228.0
42 TraesCS5B01G168400 chr7D 86.842 76 4 5 2892 2964 263524181 263524253 2.720000e-11 80.5
43 TraesCS5B01G168400 chr7D 93.182 44 3 0 2930 2973 75928927 75928970 7.620000e-07 65.8
44 TraesCS5B01G168400 chr6D 80.545 514 65 14 232 714 437400532 437400023 2.410000e-96 363.0
45 TraesCS5B01G168400 chr6D 83.404 235 35 4 1 232 222662110 222662343 7.150000e-52 215.0
46 TraesCS5B01G168400 chr7B 80.159 504 74 11 220 710 149327515 149327025 1.450000e-93 353.0
47 TraesCS5B01G168400 chr2D 90.393 229 22 0 484 712 187042242 187042470 5.340000e-78 302.0
48 TraesCS5B01G168400 chr2D 79.225 284 47 1 230 501 311560644 311560927 1.560000e-43 187.0
49 TraesCS5B01G168400 chr6A 83.571 280 34 9 437 715 47698434 47698702 5.450000e-63 252.0
50 TraesCS5B01G168400 chr6B 85.965 228 28 4 3 229 498674713 498674489 1.180000e-59 241.0
51 TraesCS5B01G168400 chr6B 84.848 231 32 1 1 231 707801835 707802062 2.550000e-56 230.0
52 TraesCS5B01G168400 chr6B 90.278 72 6 1 2894 2964 255522279 255522208 3.500000e-15 93.5
53 TraesCS5B01G168400 chr2B 85.000 240 32 1 486 725 496496611 496496846 1.180000e-59 241.0
54 TraesCS5B01G168400 chr4D 84.581 227 33 2 1 226 88501577 88501802 1.190000e-54 224.0
55 TraesCS5B01G168400 chr1D 84.071 226 34 2 9 232 425531781 425532006 1.990000e-52 217.0
56 TraesCS5B01G168400 chr1D 89.744 78 5 3 2890 2964 189883092 189883169 2.700000e-16 97.1
57 TraesCS5B01G168400 chr1A 83.843 229 35 2 1 228 71769965 71770192 1.990000e-52 217.0
58 TraesCS5B01G168400 chr1A 83.262 233 36 3 230 461 101269148 101269378 9.250000e-51 211.0
59 TraesCS5B01G168400 chr4B 93.023 43 3 0 2933 2975 450478089 450478047 2.740000e-06 63.9


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS5B01G168400 chr5B 312591369 312594658 3289 False 6076.000000 6076 100.000000 1 3290 1 chr5B.!!$F3 3289
1 TraesCS5B01G168400 chr5B 312261230 312262380 1150 False 721.000000 721 78.475000 1140 2293 1 chr5B.!!$F2 1153
2 TraesCS5B01G168400 chr5B 309664664 309665782 1118 True 717.000000 717 78.621000 1151 2278 1 chr5B.!!$R2 1127
3 TraesCS5B01G168400 chr5B 278863716 278864263 547 False 566.000000 566 85.331000 1600 2156 1 chr5B.!!$F1 556
4 TraesCS5B01G168400 chr5B 309882580 309884854 2274 False 557.666667 1269 82.595333 990 3287 3 chr5B.!!$F4 2297
5 TraesCS5B01G168400 chr5D 275404574 275406899 2325 False 1871.500000 3129 95.282500 924 3287 2 chr5D.!!$F5 2363
6 TraesCS5B01G168400 chr5D 245715510 245717153 1643 False 1618.000000 1618 84.861000 1001 2615 1 chr5D.!!$F1 1614
7 TraesCS5B01G168400 chr5D 275195307 275196183 876 False 634.000000 634 80.156000 1144 2020 1 chr5D.!!$F2 876
8 TraesCS5B01G168400 chr5D 275167551 275169351 1800 False 395.000000 791 83.271667 1453 3287 3 chr5D.!!$F4 1834
9 TraesCS5B01G168400 chr5D 262843682 262844580 898 False 353.000000 438 85.221500 1 715 2 chr5D.!!$F3 714
10 TraesCS5B01G168400 chr5A 364349340 364351249 1909 False 1586.000000 2619 96.264500 924 3289 2 chr5A.!!$F8 2365
11 TraesCS5B01G168400 chr5A 329693266 329694761 1495 False 1550.000000 1550 85.601000 973 2456 1 chr5A.!!$F1 1483
12 TraesCS5B01G168400 chr5A 364198685 364199831 1146 False 702.000000 702 78.250000 1144 2293 1 chr5A.!!$F6 1149
13 TraesCS5B01G168400 chr5A 363597263 363598381 1118 True 695.000000 695 78.291000 1151 2278 1 chr5A.!!$R1 1127
14 TraesCS5B01G168400 chr5A 364136811 364137499 688 False 676.000000 676 84.582000 950 1634 1 chr5A.!!$F3 684
15 TraesCS5B01G168400 chr5A 363862004 363862994 990 False 634.000000 634 78.752000 1147 2149 1 chr5A.!!$F2 1002
16 TraesCS5B01G168400 chr5A 688733462 688733967 505 False 497.000000 497 84.872000 220 714 1 chr5A.!!$F7 494
17 TraesCS5B01G168400 chr3A 648105849 648106352 503 False 433.000000 433 82.609000 224 715 1 chr3A.!!$F2 491
18 TraesCS5B01G168400 chr3A 51754239 51754761 522 True 405.000000 405 81.714000 228 718 1 chr3A.!!$R1 490
19 TraesCS5B01G168400 chr7D 422870973 422871500 527 False 366.000000 366 80.263000 220 718 1 chr7D.!!$F3 498
20 TraesCS5B01G168400 chr7D 98036335 98036855 520 True 289.000000 289 77.966000 220 713 1 chr7D.!!$R2 493
21 TraesCS5B01G168400 chr6D 437400023 437400532 509 True 363.000000 363 80.545000 232 714 1 chr6D.!!$R1 482

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
835 1061 0.101759 CCGCCGATCTAAACGAAGGA 59.898 55.0 0.0 0.0 32.38 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2373 2707 0.881796 GGAACAAACTACTGCCAGCC 59.118 55.0 0.0 0.0 0.0 4.85 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
31 32 1.078214 CGACATCACCCTGCCACAT 60.078 57.895 0.00 0.00 0.00 3.21
32 33 1.371337 CGACATCACCCTGCCACATG 61.371 60.000 0.00 0.00 0.00 3.21
49 51 1.992519 ATGGCTGGCACCTGGATCTC 61.993 60.000 5.88 0.00 0.00 2.75
58 60 2.315176 CACCTGGATCTCGAGAGGATT 58.685 52.381 21.52 3.26 0.00 3.01
59 61 2.295909 CACCTGGATCTCGAGAGGATTC 59.704 54.545 21.52 12.89 0.00 2.52
68 70 1.667154 CGAGAGGATTCCAGTGCCGA 61.667 60.000 5.29 0.00 0.00 5.54
171 173 0.179134 GCCTACGACATCGACTTGCT 60.179 55.000 8.54 0.00 43.02 3.91
177 179 4.895224 ACGACATCGACTTGCTCTATTA 57.105 40.909 8.54 0.00 43.02 0.98
182 184 1.132588 CGACTTGCTCTATTAGGCGC 58.867 55.000 0.00 0.00 33.16 6.53
202 204 1.003839 TTGGTTCGCCTTCGAGCAT 60.004 52.632 4.18 0.00 45.86 3.79
214 216 2.429767 CGAGCATGAGGAGGCCAGA 61.430 63.158 5.01 0.00 0.00 3.86
317 468 1.299976 GTCTCCAACCAAGGCCGAT 59.700 57.895 0.00 0.00 0.00 4.18
348 499 1.374758 CCCATCGAGCGCTATTCCC 60.375 63.158 11.50 0.00 0.00 3.97
434 586 4.577246 GCGGCCTACCTCGAGCAG 62.577 72.222 6.99 6.10 0.00 4.24
557 778 1.078143 GGAAGACATCGCCAGGCTT 60.078 57.895 10.54 0.00 0.00 4.35
582 803 3.458163 CGGCGTTCCTCTGGGCTA 61.458 66.667 0.00 0.00 0.00 3.93
585 806 2.726351 GCGTTCCTCTGGGCTAGCT 61.726 63.158 15.72 0.00 0.00 3.32
588 809 1.000486 TTCCTCTGGGCTAGCTCGT 60.000 57.895 15.72 0.00 0.00 4.18
719 945 2.651361 CGTGGACTCTCGCAGGTT 59.349 61.111 0.00 0.00 0.00 3.50
720 946 1.006102 CGTGGACTCTCGCAGGTTT 60.006 57.895 0.00 0.00 0.00 3.27
721 947 0.600255 CGTGGACTCTCGCAGGTTTT 60.600 55.000 0.00 0.00 0.00 2.43
722 948 1.594331 GTGGACTCTCGCAGGTTTTT 58.406 50.000 0.00 0.00 0.00 1.94
723 949 1.264288 GTGGACTCTCGCAGGTTTTTG 59.736 52.381 0.00 0.00 0.00 2.44
724 950 1.134220 TGGACTCTCGCAGGTTTTTGT 60.134 47.619 0.00 0.00 0.00 2.83
725 951 2.103432 TGGACTCTCGCAGGTTTTTGTA 59.897 45.455 0.00 0.00 0.00 2.41
726 952 3.244422 TGGACTCTCGCAGGTTTTTGTAT 60.244 43.478 0.00 0.00 0.00 2.29
727 953 3.751698 GGACTCTCGCAGGTTTTTGTATT 59.248 43.478 0.00 0.00 0.00 1.89
728 954 4.215613 GGACTCTCGCAGGTTTTTGTATTT 59.784 41.667 0.00 0.00 0.00 1.40
729 955 5.278315 GGACTCTCGCAGGTTTTTGTATTTT 60.278 40.000 0.00 0.00 0.00 1.82
730 956 6.144078 ACTCTCGCAGGTTTTTGTATTTTT 57.856 33.333 0.00 0.00 0.00 1.94
731 957 7.266922 ACTCTCGCAGGTTTTTGTATTTTTA 57.733 32.000 0.00 0.00 0.00 1.52
732 958 7.708998 ACTCTCGCAGGTTTTTGTATTTTTAA 58.291 30.769 0.00 0.00 0.00 1.52
733 959 8.192110 ACTCTCGCAGGTTTTTGTATTTTTAAA 58.808 29.630 0.00 0.00 0.00 1.52
734 960 8.928270 TCTCGCAGGTTTTTGTATTTTTAAAA 57.072 26.923 0.00 0.00 0.00 1.52
735 961 9.535878 TCTCGCAGGTTTTTGTATTTTTAAAAT 57.464 25.926 8.07 8.07 0.00 1.82
765 991 2.792599 TTTTTGTTCGCACGCCGT 59.207 50.000 0.00 0.00 38.35 5.68
766 992 2.012237 TTTTTGTTCGCACGCCGTA 58.988 47.368 0.00 0.00 38.35 4.02
767 993 0.376152 TTTTTGTTCGCACGCCGTAA 59.624 45.000 0.00 0.00 38.35 3.18
768 994 0.376152 TTTTGTTCGCACGCCGTAAA 59.624 45.000 0.00 0.00 38.35 2.01
769 995 0.376152 TTTGTTCGCACGCCGTAAAA 59.624 45.000 0.00 0.00 38.35 1.52
770 996 0.587285 TTGTTCGCACGCCGTAAAAT 59.413 45.000 0.00 0.00 38.35 1.82
771 997 0.587285 TGTTCGCACGCCGTAAAATT 59.413 45.000 0.00 0.00 38.35 1.82
772 998 0.972013 GTTCGCACGCCGTAAAATTG 59.028 50.000 0.00 0.00 38.35 2.32
773 999 0.110147 TTCGCACGCCGTAAAATTGG 60.110 50.000 0.00 0.00 38.35 3.16
774 1000 1.513160 CGCACGCCGTAAAATTGGG 60.513 57.895 0.00 0.00 0.00 4.12
775 1001 1.582461 GCACGCCGTAAAATTGGGT 59.418 52.632 0.00 0.00 0.00 4.51
776 1002 0.455464 GCACGCCGTAAAATTGGGTC 60.455 55.000 0.00 0.00 0.00 4.46
777 1003 0.169451 CACGCCGTAAAATTGGGTCC 59.831 55.000 0.00 0.00 0.00 4.46
778 1004 1.300266 ACGCCGTAAAATTGGGTCCG 61.300 55.000 0.00 0.00 0.00 4.79
779 1005 1.804598 GCCGTAAAATTGGGTCCGG 59.195 57.895 0.00 0.00 38.45 5.14
780 1006 0.677414 GCCGTAAAATTGGGTCCGGA 60.677 55.000 0.00 0.00 37.66 5.14
781 1007 1.089112 CCGTAAAATTGGGTCCGGAC 58.911 55.000 27.04 27.04 37.66 4.79
782 1008 1.611148 CCGTAAAATTGGGTCCGGACA 60.611 52.381 34.40 16.31 37.66 4.02
783 1009 2.152830 CGTAAAATTGGGTCCGGACAA 58.847 47.619 34.40 22.06 0.00 3.18
784 1010 2.553172 CGTAAAATTGGGTCCGGACAAA 59.447 45.455 34.40 26.82 0.00 2.83
785 1011 3.609879 CGTAAAATTGGGTCCGGACAAAC 60.610 47.826 34.40 23.49 0.00 2.93
786 1012 1.334160 AAATTGGGTCCGGACAAACC 58.666 50.000 34.40 25.97 34.64 3.27
790 1016 4.834911 GGTCCGGACAAACCCAAT 57.165 55.556 34.40 0.00 34.64 3.16
791 1017 2.563297 GGTCCGGACAAACCCAATC 58.437 57.895 34.40 11.28 34.64 2.67
792 1018 1.303091 GGTCCGGACAAACCCAATCG 61.303 60.000 34.40 0.00 34.64 3.34
793 1019 1.673009 TCCGGACAAACCCAATCGC 60.673 57.895 0.00 0.00 34.64 4.58
794 1020 1.969064 CCGGACAAACCCAATCGCA 60.969 57.895 0.00 0.00 34.64 5.10
795 1021 1.501741 CGGACAAACCCAATCGCAG 59.498 57.895 0.00 0.00 34.64 5.18
796 1022 0.953471 CGGACAAACCCAATCGCAGA 60.953 55.000 0.00 0.00 36.51 4.26
797 1023 1.243902 GGACAAACCCAATCGCAGAA 58.756 50.000 0.00 0.00 43.58 3.02
798 1024 1.200020 GGACAAACCCAATCGCAGAAG 59.800 52.381 0.00 0.00 43.58 2.85
799 1025 1.200020 GACAAACCCAATCGCAGAAGG 59.800 52.381 0.00 0.00 43.58 3.46
807 1033 3.483954 ATCGCAGAAGGGGATGTTG 57.516 52.632 0.00 0.00 46.38 3.33
808 1034 0.107017 ATCGCAGAAGGGGATGTTGG 60.107 55.000 0.00 0.00 46.38 3.77
809 1035 1.002134 CGCAGAAGGGGATGTTGGT 60.002 57.895 0.00 0.00 0.00 3.67
810 1036 1.308069 CGCAGAAGGGGATGTTGGTG 61.308 60.000 0.00 0.00 0.00 4.17
811 1037 0.251341 GCAGAAGGGGATGTTGGTGT 60.251 55.000 0.00 0.00 0.00 4.16
812 1038 1.826385 CAGAAGGGGATGTTGGTGTC 58.174 55.000 0.00 0.00 0.00 3.67
813 1039 0.698818 AGAAGGGGATGTTGGTGTCC 59.301 55.000 0.00 0.00 0.00 4.02
814 1040 0.676782 GAAGGGGATGTTGGTGTCCG 60.677 60.000 0.00 0.00 35.28 4.79
815 1041 2.750237 GGGGATGTTGGTGTCCGC 60.750 66.667 0.00 0.00 39.76 5.54
816 1042 2.750237 GGGATGTTGGTGTCCGCC 60.750 66.667 0.00 0.00 35.28 6.13
817 1043 2.750237 GGATGTTGGTGTCCGCCC 60.750 66.667 0.00 0.00 0.00 6.13
818 1044 3.124921 GATGTTGGTGTCCGCCCG 61.125 66.667 0.00 0.00 0.00 6.13
827 1053 3.908081 GTCCGCCCGCCGATCTAA 61.908 66.667 0.00 0.00 40.02 2.10
828 1054 3.148963 TCCGCCCGCCGATCTAAA 61.149 61.111 0.00 0.00 40.02 1.85
829 1055 2.965462 CCGCCCGCCGATCTAAAC 60.965 66.667 0.00 0.00 40.02 2.01
830 1056 3.327754 CGCCCGCCGATCTAAACG 61.328 66.667 0.00 0.00 40.02 3.60
831 1057 2.105528 GCCCGCCGATCTAAACGA 59.894 61.111 0.00 0.00 0.00 3.85
832 1058 1.519898 GCCCGCCGATCTAAACGAA 60.520 57.895 0.00 0.00 0.00 3.85
833 1059 1.488261 GCCCGCCGATCTAAACGAAG 61.488 60.000 0.00 0.00 0.00 3.79
834 1060 0.874607 CCCGCCGATCTAAACGAAGG 60.875 60.000 0.00 0.00 0.00 3.46
835 1061 0.101759 CCGCCGATCTAAACGAAGGA 59.898 55.000 0.00 0.00 32.38 3.36
836 1062 1.470285 CCGCCGATCTAAACGAAGGAA 60.470 52.381 0.00 0.00 32.38 3.36
837 1063 2.264813 CGCCGATCTAAACGAAGGAAA 58.735 47.619 0.00 0.00 0.00 3.13
838 1064 2.669434 CGCCGATCTAAACGAAGGAAAA 59.331 45.455 0.00 0.00 0.00 2.29
839 1065 3.241995 CGCCGATCTAAACGAAGGAAAAG 60.242 47.826 0.00 0.00 0.00 2.27
840 1066 3.683340 GCCGATCTAAACGAAGGAAAAGT 59.317 43.478 0.00 0.00 0.00 2.66
841 1067 4.435651 GCCGATCTAAACGAAGGAAAAGTG 60.436 45.833 0.00 0.00 0.00 3.16
842 1068 4.927425 CCGATCTAAACGAAGGAAAAGTGA 59.073 41.667 0.00 0.00 0.00 3.41
843 1069 5.407387 CCGATCTAAACGAAGGAAAAGTGAA 59.593 40.000 0.00 0.00 0.00 3.18
844 1070 6.297353 CGATCTAAACGAAGGAAAAGTGAAC 58.703 40.000 0.00 0.00 0.00 3.18
845 1071 5.996669 TCTAAACGAAGGAAAAGTGAACC 57.003 39.130 0.00 0.00 0.00 3.62
846 1072 5.430007 TCTAAACGAAGGAAAAGTGAACCA 58.570 37.500 0.00 0.00 0.00 3.67
847 1073 6.059484 TCTAAACGAAGGAAAAGTGAACCAT 58.941 36.000 0.00 0.00 0.00 3.55
848 1074 5.592104 AAACGAAGGAAAAGTGAACCATT 57.408 34.783 0.00 0.00 0.00 3.16
849 1075 5.592104 AACGAAGGAAAAGTGAACCATTT 57.408 34.783 0.00 0.00 0.00 2.32
850 1076 5.592104 ACGAAGGAAAAGTGAACCATTTT 57.408 34.783 0.00 0.00 0.00 1.82
851 1077 5.348164 ACGAAGGAAAAGTGAACCATTTTG 58.652 37.500 0.00 0.00 0.00 2.44
852 1078 4.744631 CGAAGGAAAAGTGAACCATTTTGG 59.255 41.667 0.00 0.00 45.02 3.28
853 1079 4.687901 AGGAAAAGTGAACCATTTTGGG 57.312 40.909 0.00 0.00 43.37 4.12
854 1080 4.037222 AGGAAAAGTGAACCATTTTGGGT 58.963 39.130 0.00 0.00 42.68 4.51
860 1086 4.609098 ACCATTTTGGGTTGGCGA 57.391 50.000 0.00 0.00 43.37 5.54
861 1087 2.350738 ACCATTTTGGGTTGGCGAG 58.649 52.632 0.00 0.00 43.37 5.03
862 1088 0.469144 ACCATTTTGGGTTGGCGAGT 60.469 50.000 0.00 0.00 43.37 4.18
863 1089 0.678950 CCATTTTGGGTTGGCGAGTT 59.321 50.000 0.00 0.00 32.67 3.01
864 1090 1.605202 CCATTTTGGGTTGGCGAGTTG 60.605 52.381 0.00 0.00 32.67 3.16
865 1091 0.678950 ATTTTGGGTTGGCGAGTTGG 59.321 50.000 0.00 0.00 0.00 3.77
866 1092 0.395862 TTTTGGGTTGGCGAGTTGGA 60.396 50.000 0.00 0.00 0.00 3.53
867 1093 0.821711 TTTGGGTTGGCGAGTTGGAG 60.822 55.000 0.00 0.00 0.00 3.86
868 1094 1.990160 TTGGGTTGGCGAGTTGGAGT 61.990 55.000 0.00 0.00 0.00 3.85
869 1095 1.228154 GGGTTGGCGAGTTGGAGTT 60.228 57.895 0.00 0.00 0.00 3.01
870 1096 1.515521 GGGTTGGCGAGTTGGAGTTG 61.516 60.000 0.00 0.00 0.00 3.16
871 1097 1.282875 GTTGGCGAGTTGGAGTTGC 59.717 57.895 0.00 0.00 0.00 4.17
872 1098 1.148273 TTGGCGAGTTGGAGTTGCT 59.852 52.632 0.00 0.00 0.00 3.91
873 1099 0.884704 TTGGCGAGTTGGAGTTGCTC 60.885 55.000 0.00 0.00 0.00 4.26
881 1107 2.182030 GGAGTTGCTCCGACCGAG 59.818 66.667 0.00 0.00 41.08 4.63
882 1108 2.182030 GAGTTGCTCCGACCGAGG 59.818 66.667 0.00 0.00 39.22 4.63
883 1109 2.600769 AGTTGCTCCGACCGAGGT 60.601 61.111 0.00 0.00 39.22 3.85
884 1110 2.432628 GTTGCTCCGACCGAGGTG 60.433 66.667 0.00 0.00 39.22 4.00
885 1111 2.599281 TTGCTCCGACCGAGGTGA 60.599 61.111 0.00 0.00 39.22 4.02
886 1112 2.204461 TTGCTCCGACCGAGGTGAA 61.204 57.895 0.00 0.00 39.22 3.18
887 1113 1.750341 TTGCTCCGACCGAGGTGAAA 61.750 55.000 0.00 0.00 39.22 2.69
888 1114 1.005394 GCTCCGACCGAGGTGAAAA 60.005 57.895 0.00 0.00 39.22 2.29
889 1115 0.391263 GCTCCGACCGAGGTGAAAAT 60.391 55.000 0.00 0.00 39.22 1.82
890 1116 1.944430 GCTCCGACCGAGGTGAAAATT 60.944 52.381 0.00 0.00 39.22 1.82
891 1117 1.732259 CTCCGACCGAGGTGAAAATTG 59.268 52.381 0.00 0.00 34.67 2.32
892 1118 0.802494 CCGACCGAGGTGAAAATTGG 59.198 55.000 0.00 0.00 0.00 3.16
893 1119 0.802494 CGACCGAGGTGAAAATTGGG 59.198 55.000 0.00 0.00 0.00 4.12
894 1120 1.173913 GACCGAGGTGAAAATTGGGG 58.826 55.000 0.00 0.00 0.00 4.96
895 1121 0.774908 ACCGAGGTGAAAATTGGGGA 59.225 50.000 0.00 0.00 0.00 4.81
896 1122 1.173913 CCGAGGTGAAAATTGGGGAC 58.826 55.000 0.00 0.00 0.00 4.46
897 1123 0.802494 CGAGGTGAAAATTGGGGACG 59.198 55.000 0.00 0.00 0.00 4.79
898 1124 1.880646 CGAGGTGAAAATTGGGGACGT 60.881 52.381 0.00 0.00 0.00 4.34
899 1125 2.613474 CGAGGTGAAAATTGGGGACGTA 60.613 50.000 0.00 0.00 0.00 3.57
900 1126 3.414269 GAGGTGAAAATTGGGGACGTAA 58.586 45.455 0.00 0.00 0.00 3.18
901 1127 4.014406 GAGGTGAAAATTGGGGACGTAAT 58.986 43.478 0.00 0.00 0.00 1.89
902 1128 4.412843 AGGTGAAAATTGGGGACGTAATT 58.587 39.130 0.00 0.00 0.00 1.40
903 1129 4.836175 AGGTGAAAATTGGGGACGTAATTT 59.164 37.500 1.75 1.75 37.37 1.82
904 1130 5.305902 AGGTGAAAATTGGGGACGTAATTTT 59.694 36.000 15.76 15.76 43.30 1.82
907 1133 4.443913 AAATTGGGGACGTAATTTTCGG 57.556 40.909 1.75 0.00 33.98 4.30
908 1134 2.565046 TTGGGGACGTAATTTTCGGT 57.435 45.000 0.00 0.00 0.00 4.69
909 1135 1.810959 TGGGGACGTAATTTTCGGTG 58.189 50.000 0.00 0.00 0.00 4.94
910 1136 1.072015 TGGGGACGTAATTTTCGGTGT 59.928 47.619 0.00 0.00 0.00 4.16
911 1137 1.465777 GGGGACGTAATTTTCGGTGTG 59.534 52.381 0.00 0.00 0.00 3.82
912 1138 1.135888 GGGACGTAATTTTCGGTGTGC 60.136 52.381 0.00 0.00 0.00 4.57
913 1139 1.462869 GGACGTAATTTTCGGTGTGCG 60.463 52.381 0.00 0.00 0.00 5.34
914 1140 0.513820 ACGTAATTTTCGGTGTGCGG 59.486 50.000 0.00 0.00 0.00 5.69
915 1141 0.791422 CGTAATTTTCGGTGTGCGGA 59.209 50.000 0.00 0.00 0.00 5.54
916 1142 1.194997 CGTAATTTTCGGTGTGCGGAA 59.805 47.619 0.00 0.00 33.08 4.30
917 1143 2.349627 CGTAATTTTCGGTGTGCGGAAA 60.350 45.455 0.00 0.00 40.55 3.13
918 1144 2.128367 AATTTTCGGTGTGCGGAAAC 57.872 45.000 0.00 0.00 41.49 2.78
919 1145 1.025812 ATTTTCGGTGTGCGGAAACA 58.974 45.000 0.00 0.00 41.49 2.83
920 1146 0.809385 TTTTCGGTGTGCGGAAACAA 59.191 45.000 0.00 0.00 41.49 2.83
921 1147 1.025812 TTTCGGTGTGCGGAAACAAT 58.974 45.000 0.00 0.00 38.46 2.71
922 1148 1.025812 TTCGGTGTGCGGAAACAATT 58.974 45.000 0.00 0.00 32.20 2.32
1624 1865 4.275524 GCAAGCTCTGCTTCGAGT 57.724 55.556 11.98 0.00 46.77 4.18
2373 2707 5.459762 GGATCAGTGTTTTTGTCATGTGTTG 59.540 40.000 0.00 0.00 0.00 3.33
2377 2711 3.306703 GTGTTTTTGTCATGTGTTGGCTG 59.693 43.478 0.00 0.00 0.00 4.85
2420 2758 5.527214 TGCATAATACCATGAGTAAGTGCAC 59.473 40.000 9.40 9.40 39.56 4.57
2470 2822 2.679837 GAGGCACAAGTGTATCCATGTG 59.320 50.000 1.79 0.00 44.55 3.21
2486 2838 5.036916 TCCATGTGAGGTTATAGGGAGTTT 58.963 41.667 0.00 0.00 0.00 2.66
2487 2839 5.491078 TCCATGTGAGGTTATAGGGAGTTTT 59.509 40.000 0.00 0.00 0.00 2.43
2541 2913 9.440773 GTGATTATGCTCTAAATGACATGGATA 57.559 33.333 0.00 0.00 0.00 2.59
2716 3128 8.506168 TCTGAATTGTTCTTACACATTATCCC 57.494 34.615 0.00 0.00 32.98 3.85
2790 3216 7.499895 TGATTTTCCTAGAACCAGTTTTACGTT 59.500 33.333 0.00 0.00 0.00 3.99
2828 3254 8.976353 TGGCACAAGGAACAACATAATATTTAT 58.024 29.630 0.00 0.00 31.92 1.40
2863 3289 4.035208 GGTTGCTAATGAATTGTACTCCCG 59.965 45.833 0.00 0.00 0.00 5.14
2864 3290 4.481368 TGCTAATGAATTGTACTCCCGT 57.519 40.909 0.00 0.00 0.00 5.28
2866 3292 4.873827 TGCTAATGAATTGTACTCCCGTTC 59.126 41.667 0.00 0.00 0.00 3.95
2870 3296 7.095607 GCTAATGAATTGTACTCCCGTTCTATG 60.096 40.741 0.00 0.00 0.00 2.23
2871 3297 5.018539 TGAATTGTACTCCCGTTCTATGG 57.981 43.478 0.00 0.00 0.00 2.74
2872 3298 4.468510 TGAATTGTACTCCCGTTCTATGGT 59.531 41.667 0.00 0.00 0.00 3.55
2873 3299 5.046159 TGAATTGTACTCCCGTTCTATGGTT 60.046 40.000 0.00 0.00 0.00 3.67
2874 3300 4.895668 TTGTACTCCCGTTCTATGGTTT 57.104 40.909 0.00 0.00 0.00 3.27
2875 3301 4.196626 TGTACTCCCGTTCTATGGTTTG 57.803 45.455 0.00 0.00 0.00 2.93
2876 3302 2.109425 ACTCCCGTTCTATGGTTTGC 57.891 50.000 0.00 0.00 0.00 3.68
2877 3303 1.006832 CTCCCGTTCTATGGTTTGCG 58.993 55.000 0.00 0.00 0.00 4.85
2878 3304 1.022451 TCCCGTTCTATGGTTTGCGC 61.022 55.000 0.00 0.00 0.00 6.09
2879 3305 1.024579 CCCGTTCTATGGTTTGCGCT 61.025 55.000 9.73 0.00 0.00 5.92
2880 3306 0.802494 CCGTTCTATGGTTTGCGCTT 59.198 50.000 9.73 0.00 0.00 4.68
2881 3307 1.202031 CCGTTCTATGGTTTGCGCTTC 60.202 52.381 9.73 0.00 0.00 3.86
2882 3308 1.463056 CGTTCTATGGTTTGCGCTTCA 59.537 47.619 9.73 1.70 0.00 3.02
2883 3309 2.095969 CGTTCTATGGTTTGCGCTTCAA 60.096 45.455 9.73 0.00 0.00 2.69
2884 3310 3.608241 CGTTCTATGGTTTGCGCTTCAAA 60.608 43.478 9.73 0.00 42.01 2.69
2885 3311 4.295051 GTTCTATGGTTTGCGCTTCAAAA 58.705 39.130 9.73 0.00 45.35 2.44
2886 3312 4.576216 TCTATGGTTTGCGCTTCAAAAA 57.424 36.364 9.73 0.00 45.35 1.94
3197 3636 8.210946 TCTGAATTGTATACCTCCGAAATCATT 58.789 33.333 0.00 0.00 0.00 2.57
3289 3728 7.094118 TGGTCCTTATTGTTAACATTAAGTGCC 60.094 37.037 30.09 28.84 37.76 5.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 2.440817 GGGTGATGTCGGGGTAGGG 61.441 68.421 0.00 0.00 0.00 3.53
31 32 2.611800 AGATCCAGGTGCCAGCCA 60.612 61.111 0.00 0.00 0.00 4.75
32 33 2.191641 GAGATCCAGGTGCCAGCC 59.808 66.667 0.00 0.00 0.00 4.85
37 39 0.753479 TCCTCTCGAGATCCAGGTGC 60.753 60.000 17.03 0.00 0.00 5.01
40 42 1.892474 GGAATCCTCTCGAGATCCAGG 59.108 57.143 22.39 17.26 0.00 4.45
41 43 2.557924 CTGGAATCCTCTCGAGATCCAG 59.442 54.545 32.87 32.87 41.95 3.86
49 51 1.227089 CGGCACTGGAATCCTCTCG 60.227 63.158 0.00 0.00 0.00 4.04
149 151 0.179171 AAGTCGATGTCGTAGGCGTG 60.179 55.000 2.04 0.00 40.80 5.34
150 152 0.179171 CAAGTCGATGTCGTAGGCGT 60.179 55.000 2.04 0.00 40.80 5.68
155 157 4.895224 AATAGAGCAAGTCGATGTCGTA 57.105 40.909 2.04 0.00 40.80 3.43
161 163 2.608261 GCGCCTAATAGAGCAAGTCGAT 60.608 50.000 0.00 0.00 0.00 3.59
171 173 1.799917 CGAACCAACGCGCCTAATAGA 60.800 52.381 5.73 0.00 0.00 1.98
293 444 1.079127 CTTGGTTGGAGACGGCGAT 60.079 57.895 16.62 0.11 0.00 4.58
294 445 2.342279 CTTGGTTGGAGACGGCGA 59.658 61.111 16.62 0.00 0.00 5.54
414 566 3.148279 CTCGAGGTAGGCCGCCTT 61.148 66.667 19.35 0.00 40.50 4.35
542 763 1.377725 CCAAAGCCTGGCGATGTCT 60.378 57.895 13.96 0.00 38.76 3.41
588 809 4.531912 GTCGATCAGCGTCGGCGA 62.532 66.667 16.53 4.99 46.35 5.54
748 974 0.376152 TTACGGCGTGCGAACAAAAA 59.624 45.000 24.86 1.84 0.00 1.94
749 975 0.376152 TTTACGGCGTGCGAACAAAA 59.624 45.000 24.86 10.38 0.00 2.44
750 976 0.376152 TTTTACGGCGTGCGAACAAA 59.624 45.000 24.86 11.17 0.00 2.83
751 977 0.587285 ATTTTACGGCGTGCGAACAA 59.413 45.000 24.86 4.41 0.00 2.83
752 978 0.587285 AATTTTACGGCGTGCGAACA 59.413 45.000 24.86 2.13 0.00 3.18
753 979 0.972013 CAATTTTACGGCGTGCGAAC 59.028 50.000 24.86 0.00 0.00 3.95
754 980 0.110147 CCAATTTTACGGCGTGCGAA 60.110 50.000 24.86 14.41 0.00 4.70
755 981 1.498166 CCAATTTTACGGCGTGCGA 59.502 52.632 24.86 8.21 0.00 5.10
756 982 1.513160 CCCAATTTTACGGCGTGCG 60.513 57.895 24.86 4.06 0.00 5.34
757 983 0.455464 GACCCAATTTTACGGCGTGC 60.455 55.000 24.86 0.00 0.00 5.34
758 984 0.169451 GGACCCAATTTTACGGCGTG 59.831 55.000 24.86 5.39 0.00 5.34
759 985 1.300266 CGGACCCAATTTTACGGCGT 61.300 55.000 19.64 19.64 0.00 5.68
760 986 1.426223 CGGACCCAATTTTACGGCG 59.574 57.895 4.80 4.80 0.00 6.46
761 987 0.677414 TCCGGACCCAATTTTACGGC 60.677 55.000 0.00 0.00 40.99 5.68
762 988 1.089112 GTCCGGACCCAATTTTACGG 58.911 55.000 24.75 0.00 42.45 4.02
763 989 1.810959 TGTCCGGACCCAATTTTACG 58.189 50.000 31.19 0.00 0.00 3.18
764 990 3.305539 GGTTTGTCCGGACCCAATTTTAC 60.306 47.826 31.19 14.04 0.00 2.01
765 991 2.892215 GGTTTGTCCGGACCCAATTTTA 59.108 45.455 31.19 7.57 0.00 1.52
766 992 1.689813 GGTTTGTCCGGACCCAATTTT 59.310 47.619 31.19 0.00 0.00 1.82
767 993 1.334160 GGTTTGTCCGGACCCAATTT 58.666 50.000 31.19 0.00 0.00 1.82
768 994 3.045518 GGTTTGTCCGGACCCAATT 57.954 52.632 31.19 0.00 0.00 2.32
769 995 4.834911 GGTTTGTCCGGACCCAAT 57.165 55.556 31.19 0.00 0.00 3.16
773 999 1.303091 CGATTGGGTTTGTCCGGACC 61.303 60.000 31.19 16.79 37.00 4.46
774 1000 1.918868 GCGATTGGGTTTGTCCGGAC 61.919 60.000 28.17 28.17 37.00 4.79
775 1001 1.673009 GCGATTGGGTTTGTCCGGA 60.673 57.895 0.00 0.00 37.00 5.14
776 1002 1.922135 CTGCGATTGGGTTTGTCCGG 61.922 60.000 0.00 0.00 37.00 5.14
777 1003 0.953471 TCTGCGATTGGGTTTGTCCG 60.953 55.000 0.00 0.00 37.00 4.79
778 1004 1.200020 CTTCTGCGATTGGGTTTGTCC 59.800 52.381 0.00 0.00 0.00 4.02
779 1005 1.200020 CCTTCTGCGATTGGGTTTGTC 59.800 52.381 0.00 0.00 0.00 3.18
780 1006 1.247567 CCTTCTGCGATTGGGTTTGT 58.752 50.000 0.00 0.00 0.00 2.83
781 1007 0.527565 CCCTTCTGCGATTGGGTTTG 59.472 55.000 0.00 0.00 35.13 2.93
782 1008 0.611896 CCCCTTCTGCGATTGGGTTT 60.612 55.000 12.41 0.00 38.03 3.27
783 1009 1.000896 CCCCTTCTGCGATTGGGTT 60.001 57.895 12.41 0.00 38.03 4.11
784 1010 1.281925 ATCCCCTTCTGCGATTGGGT 61.282 55.000 12.41 0.00 38.03 4.51
785 1011 0.820891 CATCCCCTTCTGCGATTGGG 60.821 60.000 0.00 0.00 39.37 4.12
786 1012 0.107017 ACATCCCCTTCTGCGATTGG 60.107 55.000 0.00 0.00 0.00 3.16
787 1013 1.402968 CAACATCCCCTTCTGCGATTG 59.597 52.381 0.00 0.00 0.00 2.67
788 1014 1.683011 CCAACATCCCCTTCTGCGATT 60.683 52.381 0.00 0.00 0.00 3.34
789 1015 0.107017 CCAACATCCCCTTCTGCGAT 60.107 55.000 0.00 0.00 0.00 4.58
790 1016 1.299648 CCAACATCCCCTTCTGCGA 59.700 57.895 0.00 0.00 0.00 5.10
791 1017 1.002134 ACCAACATCCCCTTCTGCG 60.002 57.895 0.00 0.00 0.00 5.18
792 1018 0.251341 ACACCAACATCCCCTTCTGC 60.251 55.000 0.00 0.00 0.00 4.26
793 1019 1.614317 GGACACCAACATCCCCTTCTG 60.614 57.143 0.00 0.00 0.00 3.02
794 1020 0.698818 GGACACCAACATCCCCTTCT 59.301 55.000 0.00 0.00 0.00 2.85
795 1021 0.676782 CGGACACCAACATCCCCTTC 60.677 60.000 0.00 0.00 0.00 3.46
796 1022 1.378762 CGGACACCAACATCCCCTT 59.621 57.895 0.00 0.00 0.00 3.95
797 1023 3.077907 CGGACACCAACATCCCCT 58.922 61.111 0.00 0.00 0.00 4.79
798 1024 2.750237 GCGGACACCAACATCCCC 60.750 66.667 0.00 0.00 0.00 4.81
799 1025 2.750237 GGCGGACACCAACATCCC 60.750 66.667 0.00 0.00 0.00 3.85
800 1026 2.750237 GGGCGGACACCAACATCC 60.750 66.667 0.00 0.00 0.00 3.51
801 1027 3.124921 CGGGCGGACACCAACATC 61.125 66.667 0.00 0.00 0.00 3.06
810 1036 3.435030 TTTAGATCGGCGGGCGGAC 62.435 63.158 24.00 16.90 0.00 4.79
811 1037 3.148963 TTTAGATCGGCGGGCGGA 61.149 61.111 24.00 9.48 0.00 5.54
812 1038 2.965462 GTTTAGATCGGCGGGCGG 60.965 66.667 24.00 3.54 0.00 6.13
813 1039 3.327754 CGTTTAGATCGGCGGGCG 61.328 66.667 18.68 18.68 0.00 6.13
814 1040 1.488261 CTTCGTTTAGATCGGCGGGC 61.488 60.000 7.21 0.00 0.00 6.13
815 1041 0.874607 CCTTCGTTTAGATCGGCGGG 60.875 60.000 7.21 0.00 0.00 6.13
816 1042 0.101759 TCCTTCGTTTAGATCGGCGG 59.898 55.000 7.21 0.00 0.00 6.13
817 1043 1.917273 TTCCTTCGTTTAGATCGGCG 58.083 50.000 0.00 0.00 0.00 6.46
818 1044 3.683340 ACTTTTCCTTCGTTTAGATCGGC 59.317 43.478 0.00 0.00 0.00 5.54
819 1045 4.927425 TCACTTTTCCTTCGTTTAGATCGG 59.073 41.667 0.00 0.00 0.00 4.18
820 1046 6.297353 GTTCACTTTTCCTTCGTTTAGATCG 58.703 40.000 0.00 0.00 0.00 3.69
821 1047 6.204108 TGGTTCACTTTTCCTTCGTTTAGATC 59.796 38.462 0.00 0.00 0.00 2.75
822 1048 6.059484 TGGTTCACTTTTCCTTCGTTTAGAT 58.941 36.000 0.00 0.00 0.00 1.98
823 1049 5.430007 TGGTTCACTTTTCCTTCGTTTAGA 58.570 37.500 0.00 0.00 0.00 2.10
824 1050 5.744666 TGGTTCACTTTTCCTTCGTTTAG 57.255 39.130 0.00 0.00 0.00 1.85
825 1051 6.702716 AATGGTTCACTTTTCCTTCGTTTA 57.297 33.333 0.00 0.00 0.00 2.01
826 1052 5.592104 AATGGTTCACTTTTCCTTCGTTT 57.408 34.783 0.00 0.00 0.00 3.60
827 1053 5.592104 AAATGGTTCACTTTTCCTTCGTT 57.408 34.783 0.00 0.00 0.00 3.85
828 1054 5.348164 CAAAATGGTTCACTTTTCCTTCGT 58.652 37.500 0.00 0.00 0.00 3.85
829 1055 4.744631 CCAAAATGGTTCACTTTTCCTTCG 59.255 41.667 0.00 0.00 31.35 3.79
830 1056 5.056480 CCCAAAATGGTTCACTTTTCCTTC 58.944 41.667 0.00 0.00 35.17 3.46
831 1057 4.473196 ACCCAAAATGGTTCACTTTTCCTT 59.527 37.500 0.00 0.00 33.91 3.36
832 1058 4.037222 ACCCAAAATGGTTCACTTTTCCT 58.963 39.130 0.00 0.00 33.91 3.36
833 1059 4.415881 ACCCAAAATGGTTCACTTTTCC 57.584 40.909 0.00 0.00 33.91 3.13
834 1060 4.574421 CCAACCCAAAATGGTTCACTTTTC 59.426 41.667 0.00 0.00 45.51 2.29
835 1061 4.522114 CCAACCCAAAATGGTTCACTTTT 58.478 39.130 0.00 0.00 45.51 2.27
836 1062 3.684130 GCCAACCCAAAATGGTTCACTTT 60.684 43.478 0.00 0.00 45.51 2.66
837 1063 2.158827 GCCAACCCAAAATGGTTCACTT 60.159 45.455 0.00 0.00 45.51 3.16
838 1064 1.416030 GCCAACCCAAAATGGTTCACT 59.584 47.619 0.00 0.00 45.51 3.41
839 1065 1.871822 CGCCAACCCAAAATGGTTCAC 60.872 52.381 0.00 0.00 45.51 3.18
840 1066 0.390860 CGCCAACCCAAAATGGTTCA 59.609 50.000 0.00 0.00 45.51 3.18
841 1067 0.676736 TCGCCAACCCAAAATGGTTC 59.323 50.000 0.00 0.00 45.51 3.62
843 1069 0.469144 ACTCGCCAACCCAAAATGGT 60.469 50.000 0.00 0.00 41.55 3.55
844 1070 0.678950 AACTCGCCAACCCAAAATGG 59.321 50.000 0.00 0.00 39.80 3.16
845 1071 1.605202 CCAACTCGCCAACCCAAAATG 60.605 52.381 0.00 0.00 0.00 2.32
846 1072 0.678950 CCAACTCGCCAACCCAAAAT 59.321 50.000 0.00 0.00 0.00 1.82
847 1073 0.395862 TCCAACTCGCCAACCCAAAA 60.396 50.000 0.00 0.00 0.00 2.44
848 1074 0.821711 CTCCAACTCGCCAACCCAAA 60.822 55.000 0.00 0.00 0.00 3.28
849 1075 1.228124 CTCCAACTCGCCAACCCAA 60.228 57.895 0.00 0.00 0.00 4.12
850 1076 1.990160 AACTCCAACTCGCCAACCCA 61.990 55.000 0.00 0.00 0.00 4.51
851 1077 1.228154 AACTCCAACTCGCCAACCC 60.228 57.895 0.00 0.00 0.00 4.11
852 1078 1.949257 CAACTCCAACTCGCCAACC 59.051 57.895 0.00 0.00 0.00 3.77
853 1079 1.166531 AGCAACTCCAACTCGCCAAC 61.167 55.000 0.00 0.00 0.00 3.77
854 1080 0.884704 GAGCAACTCCAACTCGCCAA 60.885 55.000 0.00 0.00 0.00 4.52
855 1081 1.301716 GAGCAACTCCAACTCGCCA 60.302 57.895 0.00 0.00 0.00 5.69
856 1082 3.567473 GAGCAACTCCAACTCGCC 58.433 61.111 0.00 0.00 0.00 5.54
864 1090 2.182030 CTCGGTCGGAGCAACTCC 59.818 66.667 8.06 3.42 46.44 3.85
865 1091 2.182030 CCTCGGTCGGAGCAACTC 59.818 66.667 8.06 0.00 41.71 3.01
866 1092 2.600769 ACCTCGGTCGGAGCAACT 60.601 61.111 8.06 0.00 41.71 3.16
867 1093 2.430382 TTCACCTCGGTCGGAGCAAC 62.430 60.000 8.06 0.00 41.71 4.17
868 1094 1.750341 TTTCACCTCGGTCGGAGCAA 61.750 55.000 8.06 0.00 41.71 3.91
869 1095 1.750341 TTTTCACCTCGGTCGGAGCA 61.750 55.000 8.06 0.00 41.71 4.26
870 1096 0.391263 ATTTTCACCTCGGTCGGAGC 60.391 55.000 1.90 0.00 41.71 4.70
871 1097 1.732259 CAATTTTCACCTCGGTCGGAG 59.268 52.381 0.44 0.44 42.75 4.63
872 1098 1.609580 CCAATTTTCACCTCGGTCGGA 60.610 52.381 0.00 0.00 0.00 4.55
873 1099 0.802494 CCAATTTTCACCTCGGTCGG 59.198 55.000 0.00 0.00 0.00 4.79
874 1100 0.802494 CCCAATTTTCACCTCGGTCG 59.198 55.000 0.00 0.00 0.00 4.79
875 1101 1.173913 CCCCAATTTTCACCTCGGTC 58.826 55.000 0.00 0.00 0.00 4.79
876 1102 0.774908 TCCCCAATTTTCACCTCGGT 59.225 50.000 0.00 0.00 0.00 4.69
877 1103 1.173913 GTCCCCAATTTTCACCTCGG 58.826 55.000 0.00 0.00 0.00 4.63
878 1104 0.802494 CGTCCCCAATTTTCACCTCG 59.198 55.000 0.00 0.00 0.00 4.63
879 1105 1.905637 ACGTCCCCAATTTTCACCTC 58.094 50.000 0.00 0.00 0.00 3.85
880 1106 3.512219 TTACGTCCCCAATTTTCACCT 57.488 42.857 0.00 0.00 0.00 4.00
881 1107 4.794278 AATTACGTCCCCAATTTTCACC 57.206 40.909 0.00 0.00 0.00 4.02
885 1111 4.281435 ACCGAAAATTACGTCCCCAATTTT 59.719 37.500 15.76 15.76 43.50 1.82
886 1112 3.827876 ACCGAAAATTACGTCCCCAATTT 59.172 39.130 0.00 0.00 36.22 1.82
887 1113 3.191791 CACCGAAAATTACGTCCCCAATT 59.808 43.478 0.00 0.00 0.00 2.32
888 1114 2.750712 CACCGAAAATTACGTCCCCAAT 59.249 45.455 0.00 0.00 0.00 3.16
889 1115 2.152830 CACCGAAAATTACGTCCCCAA 58.847 47.619 0.00 0.00 0.00 4.12
890 1116 1.072015 ACACCGAAAATTACGTCCCCA 59.928 47.619 0.00 0.00 0.00 4.96
891 1117 1.465777 CACACCGAAAATTACGTCCCC 59.534 52.381 0.00 0.00 0.00 4.81
892 1118 1.135888 GCACACCGAAAATTACGTCCC 60.136 52.381 0.00 0.00 0.00 4.46
893 1119 1.462869 CGCACACCGAAAATTACGTCC 60.463 52.381 0.00 0.00 40.02 4.79
894 1120 1.462869 CCGCACACCGAAAATTACGTC 60.463 52.381 0.00 0.00 40.02 4.34
895 1121 0.513820 CCGCACACCGAAAATTACGT 59.486 50.000 0.00 0.00 40.02 3.57
896 1122 0.791422 TCCGCACACCGAAAATTACG 59.209 50.000 0.00 0.00 40.02 3.18
897 1123 2.973419 TTCCGCACACCGAAAATTAC 57.027 45.000 0.00 0.00 40.02 1.89
898 1124 2.617308 TGTTTCCGCACACCGAAAATTA 59.383 40.909 0.00 0.00 40.02 1.40
899 1125 1.405821 TGTTTCCGCACACCGAAAATT 59.594 42.857 0.00 0.00 40.02 1.82
900 1126 1.025812 TGTTTCCGCACACCGAAAAT 58.974 45.000 0.00 0.00 40.02 1.82
901 1127 0.809385 TTGTTTCCGCACACCGAAAA 59.191 45.000 0.00 0.00 40.02 2.29
902 1128 1.025812 ATTGTTTCCGCACACCGAAA 58.974 45.000 0.00 0.00 40.02 3.46
903 1129 1.025812 AATTGTTTCCGCACACCGAA 58.974 45.000 0.00 0.00 40.02 4.30
904 1130 1.002251 GAAATTGTTTCCGCACACCGA 60.002 47.619 0.00 0.00 40.02 4.69
905 1131 1.404477 GAAATTGTTTCCGCACACCG 58.596 50.000 0.00 0.00 33.56 4.94
914 1140 2.220824 GCGTTTGGCAGGAAATTGTTTC 59.779 45.455 0.00 0.00 42.87 2.78
915 1141 2.209273 GCGTTTGGCAGGAAATTGTTT 58.791 42.857 0.00 0.00 42.87 2.83
916 1142 1.864565 GCGTTTGGCAGGAAATTGTT 58.135 45.000 0.00 0.00 42.87 2.83
917 1143 3.586430 GCGTTTGGCAGGAAATTGT 57.414 47.368 0.00 0.00 42.87 2.71
977 1203 1.201429 TGGAGCTGGAGGAGGTTTCC 61.201 60.000 0.00 0.00 44.39 3.13
2209 2519 1.766143 GCATAGTCCTTGCCGCTTCG 61.766 60.000 0.00 0.00 33.95 3.79
2373 2707 0.881796 GGAACAAACTACTGCCAGCC 59.118 55.000 0.00 0.00 0.00 4.85
2420 2758 1.834263 ACTAGCCTACTCCAAAGCCAG 59.166 52.381 0.00 0.00 0.00 4.85
2486 2838 7.987458 CAGTATCCTACCTATCTTGCAAGAAAA 59.013 37.037 31.55 21.12 38.77 2.29
2487 2839 7.344612 TCAGTATCCTACCTATCTTGCAAGAAA 59.655 37.037 31.55 11.88 38.77 2.52
2541 2913 3.843027 AGATATTGGAATGATCGCCTCCT 59.157 43.478 8.51 0.00 0.00 3.69
2716 3128 6.869913 ACATCAAAAACCATTCAAGCATACTG 59.130 34.615 0.00 0.00 0.00 2.74
2790 3216 6.096987 TGTTCCTTGTGCCAAAATTACTTACA 59.903 34.615 0.00 0.00 0.00 2.41
2863 3289 3.552604 TTGAAGCGCAAACCATAGAAC 57.447 42.857 11.47 0.00 32.46 3.01
2864 3290 4.576216 TTTTGAAGCGCAAACCATAGAA 57.424 36.364 11.47 0.00 45.64 2.10
2894 3320 9.836179 AGATCTTATATTTGATACAGAGGGAGT 57.164 33.333 0.00 0.00 0.00 3.85
2918 3344 8.882415 ATAAGACGTTTTAGTGTCAGAAAAGA 57.118 30.769 4.75 0.00 37.58 2.52
2936 3362 8.361139 ACTCCCTCTGTATCAAAATATAAGACG 58.639 37.037 0.00 0.00 0.00 4.18
2988 3415 8.407832 GGCGGTTAAAATGTAAACCTAATGTAT 58.592 33.333 3.03 0.00 42.51 2.29
3197 3636 8.074613 ACAAGCATTAAGGTACACACTAGATA 57.925 34.615 0.00 0.00 0.00 1.98


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

AutoCloner maintained by Alex Coulton.