Multiple sequence alignment - TraesCS1B01G302000

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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 TraesCS1B01G302000 chr1B 100.000 3530 0 0 1 3530 522745850 522742321 0.000000e+00 6519.0
1 TraesCS1B01G302000 chr1B 80.709 1467 237 35 1072 2521 364504992 364506429 0.000000e+00 1099.0
2 TraesCS1B01G302000 chr1B 77.584 1490 266 42 1080 2523 364423137 364424604 0.000000e+00 839.0
3 TraesCS1B01G302000 chr1B 82.915 597 88 13 1926 2521 364812164 364812747 3.120000e-145 525.0
4 TraesCS1B01G302000 chr1B 94.309 123 7 0 2974 3096 571190693 571190815 4.650000e-44 189.0
5 TraesCS1B01G302000 chr1B 79.054 296 42 11 119 400 240503224 240503513 6.020000e-43 185.0
6 TraesCS1B01G302000 chr1B 91.667 132 11 0 2973 3104 2406510 2406641 2.160000e-42 183.0
7 TraesCS1B01G302000 chr1A 93.183 2978 108 35 1 2935 488096610 488099535 0.000000e+00 4287.0
8 TraesCS1B01G302000 chr1A 80.798 1453 233 36 1086 2521 319447392 319445969 0.000000e+00 1096.0
9 TraesCS1B01G302000 chr1A 80.672 1459 232 35 1081 2520 319889304 319887877 0.000000e+00 1086.0
10 TraesCS1B01G302000 chr1A 86.000 400 21 14 3092 3475 488099592 488099972 2.550000e-106 396.0
11 TraesCS1B01G302000 chr1A 74.442 403 70 21 1080 1478 320155974 320155601 3.670000e-30 143.0
12 TraesCS1B01G302000 chr1A 96.364 55 2 0 3476 3530 488100893 488100947 1.350000e-14 91.6
13 TraesCS1B01G302000 chr1D 95.260 1941 71 12 1047 2978 389489270 389491198 0.000000e+00 3055.0
14 TraesCS1B01G302000 chr1D 81.534 1473 214 46 1072 2521 249755541 249754104 0.000000e+00 1160.0
15 TraesCS1B01G302000 chr1D 81.096 1460 226 38 1081 2521 250070706 250069278 0.000000e+00 1122.0
16 TraesCS1B01G302000 chr1D 78.360 1488 255 57 1080 2531 442798167 442799623 0.000000e+00 902.0
17 TraesCS1B01G302000 chr1D 90.591 457 27 6 3090 3530 389491198 389491654 3.030000e-165 592.0
18 TraesCS1B01G302000 chr1D 90.647 417 26 11 1 413 389488548 389488955 3.100000e-150 542.0
19 TraesCS1B01G302000 chr1D 91.228 171 6 5 632 798 389489079 389489244 1.280000e-54 224.0
20 TraesCS1B01G302000 chr1D 88.356 146 13 2 3129 3274 389246900 389246759 4.680000e-39 172.0
21 TraesCS1B01G302000 chr1D 87.097 155 15 4 3323 3475 389246636 389246485 1.680000e-38 171.0
22 TraesCS1B01G302000 chr1D 90.805 87 8 0 3129 3215 389353969 389353883 2.230000e-22 117.0
23 TraesCS1B01G302000 chrUn 77.571 1507 241 71 1086 2537 28754123 28752659 0.000000e+00 821.0
24 TraesCS1B01G302000 chr3D 83.774 265 36 5 141 402 58128011 58128271 9.790000e-61 244.0
25 TraesCS1B01G302000 chr3D 86.310 168 18 5 2977 3139 95239765 95239598 1.010000e-40 178.0
26 TraesCS1B01G302000 chr4A 82.731 249 33 7 161 402 689667257 689667012 2.760000e-51 213.0
27 TraesCS1B01G302000 chr4B 97.479 119 3 0 2977 3095 588198511 588198629 1.660000e-48 204.0
28 TraesCS1B01G302000 chr4B 96.581 117 4 0 2977 3093 483907154 483907038 1.000000e-45 195.0
29 TraesCS1B01G302000 chr6A 78.743 334 45 19 75 405 176575381 176575071 2.150000e-47 200.0
30 TraesCS1B01G302000 chr7A 79.299 314 42 14 106 404 550051843 550051538 7.730000e-47 198.0
31 TraesCS1B01G302000 chr7A 95.122 41 0 2 443 482 159476778 159476817 2.940000e-06 63.9
32 TraesCS1B01G302000 chr3B 95.161 124 6 0 2974 3097 630938538 630938661 2.780000e-46 196.0
33 TraesCS1B01G302000 chr7B 96.581 117 4 0 2977 3093 373075709 373075593 1.000000e-45 195.0
34 TraesCS1B01G302000 chr6B 94.309 123 7 0 2973 3095 96453994 96453872 4.650000e-44 189.0
35 TraesCS1B01G302000 chr6B 95.238 42 1 1 469 509 481741575 481741534 8.180000e-07 65.8
36 TraesCS1B01G302000 chr4D 78.548 303 53 10 102 400 484411964 484412258 4.650000e-44 189.0
37 TraesCS1B01G302000 chr2B 95.000 120 6 0 2977 3096 17575871 17575752 4.650000e-44 189.0
38 TraesCS1B01G302000 chr2B 78.378 259 42 11 119 375 540734758 540735004 4.720000e-34 156.0
39 TraesCS1B01G302000 chr2B 91.139 79 6 1 433 511 456337174 456337251 4.820000e-19 106.0
40 TraesCS1B01G302000 chr2B 91.304 46 4 0 433 478 370492039 370492084 2.940000e-06 63.9
41 TraesCS1B01G302000 chr2B 91.304 46 4 0 433 478 370552143 370552188 2.940000e-06 63.9
42 TraesCS1B01G302000 chr2D 77.950 322 55 11 82 402 459323318 459323624 1.670000e-43 187.0
43 TraesCS1B01G302000 chr2D 83.333 90 2 6 433 509 22200819 22200908 1.760000e-08 71.3
44 TraesCS1B01G302000 chr2D 93.750 48 1 2 437 483 167030348 167030302 1.760000e-08 71.3
45 TraesCS1B01G302000 chr5B 78.644 295 49 12 117 400 356715671 356715962 2.160000e-42 183.0
46 TraesCS1B01G302000 chr5A 77.419 310 57 11 102 400 664818051 664818358 4.680000e-39 172.0
47 TraesCS1B01G302000 chr3A 81.203 133 19 5 73 204 669177499 669177372 6.230000e-18 102.0
48 TraesCS1B01G302000 chr7D 85.185 81 12 0 118 198 24824919 24824839 2.260000e-12 84.2
49 TraesCS1B01G302000 chr5D 86.076 79 5 2 437 509 539985683 539985605 2.920000e-11 80.5
50 TraesCS1B01G302000 chr2A 94.737 38 2 0 441 478 376531176 376531213 3.810000e-05 60.2


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 TraesCS1B01G302000 chr1B 522742321 522745850 3529 True 6519.000000 6519 100.0000 1 3530 1 chr1B.!!$R1 3529
1 TraesCS1B01G302000 chr1B 364504992 364506429 1437 False 1099.000000 1099 80.7090 1072 2521 1 chr1B.!!$F4 1449
2 TraesCS1B01G302000 chr1B 364423137 364424604 1467 False 839.000000 839 77.5840 1080 2523 1 chr1B.!!$F3 1443
3 TraesCS1B01G302000 chr1B 364812164 364812747 583 False 525.000000 525 82.9150 1926 2521 1 chr1B.!!$F5 595
4 TraesCS1B01G302000 chr1A 488096610 488100947 4337 False 1591.533333 4287 91.8490 1 3530 3 chr1A.!!$F1 3529
5 TraesCS1B01G302000 chr1A 319445969 319447392 1423 True 1096.000000 1096 80.7980 1086 2521 1 chr1A.!!$R1 1435
6 TraesCS1B01G302000 chr1A 319887877 319889304 1427 True 1086.000000 1086 80.6720 1081 2520 1 chr1A.!!$R2 1439
7 TraesCS1B01G302000 chr1D 249754104 249755541 1437 True 1160.000000 1160 81.5340 1072 2521 1 chr1D.!!$R1 1449
8 TraesCS1B01G302000 chr1D 250069278 250070706 1428 True 1122.000000 1122 81.0960 1081 2521 1 chr1D.!!$R2 1440
9 TraesCS1B01G302000 chr1D 389488548 389491654 3106 False 1103.250000 3055 91.9315 1 3530 4 chr1D.!!$F2 3529
10 TraesCS1B01G302000 chr1D 442798167 442799623 1456 False 902.000000 902 78.3600 1080 2531 1 chr1D.!!$F1 1451
11 TraesCS1B01G302000 chrUn 28752659 28754123 1464 True 821.000000 821 77.5710 1086 2537 1 chrUn.!!$R1 1451

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
898 956 0.027716 CGTCCACGTACATCTCTCCG 59.972 60.0 0.0 0.0 34.11 4.63 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2711 2842 5.736951 AGCATTACAATTGGCAAACCTAA 57.263 34.783 10.83 0.19 36.63 2.69 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
25 26 8.882415 GATATATCTCTACTACTCCTTCCTCG 57.118 42.308 5.42 0.00 0.00 4.63
47 51 4.157246 GGTTTTTCCTCCCACAAATACCT 58.843 43.478 0.00 0.00 33.29 3.08
61 65 7.487829 CCCACAAATACCTAAATCAAATCAACG 59.512 37.037 0.00 0.00 0.00 4.10
63 67 9.405587 CACAAATACCTAAATCAAATCAACGTT 57.594 29.630 0.00 0.00 0.00 3.99
163 167 7.068955 GCTGCACAAAATTAAAACCAACATAC 58.931 34.615 0.00 0.00 0.00 2.39
177 181 9.787435 AAAACCAACATACATAGAGTAACTTGA 57.213 29.630 0.00 0.00 36.05 3.02
208 212 7.162761 TCTAAACCAAATCAATACGTTCCAGA 58.837 34.615 0.00 0.00 0.00 3.86
209 213 5.880054 AACCAAATCAATACGTTCCAGAG 57.120 39.130 0.00 0.00 0.00 3.35
210 214 5.160607 ACCAAATCAATACGTTCCAGAGA 57.839 39.130 0.00 0.00 0.00 3.10
218 222 6.227522 TCAATACGTTCCAGAGAAAATCACA 58.772 36.000 0.00 0.00 32.58 3.58
221 225 3.753272 ACGTTCCAGAGAAAATCACATGG 59.247 43.478 0.00 0.00 32.58 3.66
263 268 6.088016 TCAATCTTCCCAAATTCACAACTG 57.912 37.500 0.00 0.00 0.00 3.16
286 291 7.343057 ACTGAATCCAAACTTTCCTTTTCTTCT 59.657 33.333 0.00 0.00 0.00 2.85
315 320 6.486320 ACAAACACCCAAATCAAATCAAATCC 59.514 34.615 0.00 0.00 0.00 3.01
318 323 7.738437 ACACCCAAATCAAATCAAATCCTAT 57.262 32.000 0.00 0.00 0.00 2.57
439 446 5.854010 TTGTCTAGGGCACATCTAGTTAG 57.146 43.478 0.00 0.00 36.50 2.34
440 447 4.868268 TGTCTAGGGCACATCTAGTTAGT 58.132 43.478 0.00 0.00 36.50 2.24
476 484 9.077885 AGTGACTTAATCAAGCATAAAAGGAAA 57.922 29.630 0.00 0.00 39.72 3.13
478 486 9.912634 TGACTTAATCAAGCATAAAAGGAAAAG 57.087 29.630 0.00 0.00 34.94 2.27
502 510 3.558931 ATATCCACACAAATCTCCGCA 57.441 42.857 0.00 0.00 0.00 5.69
522 531 3.689161 GCATAAGATTATGTATGCGCCCA 59.311 43.478 4.18 0.00 42.19 5.36
523 532 4.437390 GCATAAGATTATGTATGCGCCCAC 60.437 45.833 4.18 2.71 42.19 4.61
636 668 9.407380 ACAAATGCATGTAGATACCTATTTTGA 57.593 29.630 0.00 0.00 0.00 2.69
698 733 2.224426 TGACGTGCCCTTTACATCTTGT 60.224 45.455 0.00 0.00 0.00 3.16
724 759 5.677319 TCAAGAACGAGATAGATTTGGGT 57.323 39.130 0.00 0.00 0.00 4.51
767 803 2.374184 CAAACCCACCACAACTCTTCA 58.626 47.619 0.00 0.00 0.00 3.02
813 871 8.814931 ACATATCCAACCTTTGAATTGAATTCA 58.185 29.630 16.04 16.04 46.77 2.57
868 926 3.978764 TTGCACGCACGAACGTCG 61.979 61.111 4.58 13.80 46.34 5.12
869 927 4.908877 TGCACGCACGAACGTCGA 62.909 61.111 19.10 0.00 46.34 4.20
870 928 3.684315 GCACGCACGAACGTCGAA 61.684 61.111 19.10 0.00 46.34 3.71
871 929 2.164673 CACGCACGAACGTCGAAC 59.835 61.111 19.10 4.95 46.34 3.95
873 931 2.007641 ACGCACGAACGTCGAACTC 61.008 57.895 19.10 0.00 44.43 3.01
876 934 1.873355 GCACGAACGTCGAACTCCAC 61.873 60.000 13.06 0.00 43.74 4.02
877 935 1.369689 ACGAACGTCGAACTCCACG 60.370 57.895 13.06 0.00 43.74 4.94
878 936 1.082561 CGAACGTCGAACTCCACGA 60.083 57.895 0.00 0.00 43.74 4.35
883 941 2.949106 TCGAACTCCACGACGTCC 59.051 61.111 10.58 0.00 34.85 4.79
884 942 1.893335 TCGAACTCCACGACGTCCA 60.893 57.895 10.58 0.00 34.85 4.02
885 943 1.728426 CGAACTCCACGACGTCCAC 60.728 63.158 10.58 0.00 0.00 4.02
886 944 1.728426 GAACTCCACGACGTCCACG 60.728 63.158 10.58 1.10 46.33 4.94
897 955 3.920144 CGTCCACGTACATCTCTCC 57.080 57.895 0.00 0.00 34.11 3.71
898 956 0.027716 CGTCCACGTACATCTCTCCG 59.972 60.000 0.00 0.00 34.11 4.63
915 973 0.391597 CCGCCTCCGCCTATAAAAGA 59.608 55.000 0.00 0.00 0.00 2.52
934 992 1.267261 GATCTCGTACATCTCCACCCG 59.733 57.143 0.00 0.00 0.00 5.28
935 993 0.253894 TCTCGTACATCTCCACCCGA 59.746 55.000 0.00 0.00 0.00 5.14
936 994 1.100510 CTCGTACATCTCCACCCGAA 58.899 55.000 0.00 0.00 0.00 4.30
1044 1102 3.024217 GCCCTCCTCCTCCTCTCT 58.976 66.667 0.00 0.00 0.00 3.10
1183 1241 0.987294 CCTTCTGGGCCTCTTCAAGA 59.013 55.000 4.53 0.00 0.00 3.02
1783 1874 3.329889 TGGTCAGCGAGGGCCAAT 61.330 61.111 6.18 0.00 41.24 3.16
2496 2623 1.678635 CACCACCGTCATGGCCAAT 60.679 57.895 10.96 0.00 44.33 3.16
2530 2657 1.826385 CCTTGTGCCCAGGAACTAAG 58.174 55.000 0.00 0.00 36.02 2.18
2543 2670 5.932883 CCAGGAACTAAGAAAACAGTAGTCC 59.067 44.000 0.00 0.00 36.02 3.85
2639 2770 7.160547 ACTACCTAGTTTAAGAGAGAAGTGC 57.839 40.000 0.00 0.00 31.13 4.40
2641 2772 6.031751 ACCTAGTTTAAGAGAGAAGTGCTG 57.968 41.667 0.00 0.00 0.00 4.41
2643 2774 6.096695 CCTAGTTTAAGAGAGAAGTGCTGTC 58.903 44.000 0.00 0.00 37.18 3.51
2711 2842 8.046708 TGGAGTATCAGTTTATAATGCAGTGTT 58.953 33.333 0.00 0.00 36.25 3.32
2738 2869 6.995091 AGGTTTGCCAATTGTAATGCTTTTTA 59.005 30.769 4.43 0.00 37.19 1.52
2746 2877 8.177013 CCAATTGTAATGCTTTTTATTTCCTGC 58.823 33.333 4.43 0.00 0.00 4.85
2787 2918 0.336048 AAGTTACCCATGGGCAGCAT 59.664 50.000 31.73 10.60 39.32 3.79
2880 3014 1.134189 CCATTCTGATCTCAGCAGGCA 60.134 52.381 2.21 0.00 43.46 4.75
2881 3015 2.214347 CATTCTGATCTCAGCAGGCAG 58.786 52.381 2.21 0.00 43.46 4.85
2882 3016 0.107800 TTCTGATCTCAGCAGGCAGC 60.108 55.000 2.21 0.00 43.46 5.25
2978 3130 3.597255 GCCACCTCCTGTTTTCTACTAC 58.403 50.000 0.00 0.00 0.00 2.73
2979 3131 3.261137 GCCACCTCCTGTTTTCTACTACT 59.739 47.826 0.00 0.00 0.00 2.57
2980 3132 4.621038 GCCACCTCCTGTTTTCTACTACTC 60.621 50.000 0.00 0.00 0.00 2.59
2981 3133 4.081586 CCACCTCCTGTTTTCTACTACTCC 60.082 50.000 0.00 0.00 0.00 3.85
2982 3134 4.081586 CACCTCCTGTTTTCTACTACTCCC 60.082 50.000 0.00 0.00 0.00 4.30
2983 3135 4.202803 ACCTCCTGTTTTCTACTACTCCCT 60.203 45.833 0.00 0.00 0.00 4.20
2984 3136 4.403113 CCTCCTGTTTTCTACTACTCCCTC 59.597 50.000 0.00 0.00 0.00 4.30
2985 3137 4.351127 TCCTGTTTTCTACTACTCCCTCC 58.649 47.826 0.00 0.00 0.00 4.30
2986 3138 3.130693 CCTGTTTTCTACTACTCCCTCCG 59.869 52.174 0.00 0.00 0.00 4.63
2987 3139 3.762823 CTGTTTTCTACTACTCCCTCCGT 59.237 47.826 0.00 0.00 0.00 4.69
2988 3140 3.760684 TGTTTTCTACTACTCCCTCCGTC 59.239 47.826 0.00 0.00 0.00 4.79
2989 3141 2.725221 TTCTACTACTCCCTCCGTCC 57.275 55.000 0.00 0.00 0.00 4.79
2990 3142 0.467384 TCTACTACTCCCTCCGTCCG 59.533 60.000 0.00 0.00 0.00 4.79
2991 3143 0.534652 CTACTACTCCCTCCGTCCGG 60.535 65.000 0.00 0.00 0.00 5.14
2992 3144 0.982852 TACTACTCCCTCCGTCCGGA 60.983 60.000 0.00 0.00 42.90 5.14
2993 3145 1.077212 CTACTCCCTCCGTCCGGAA 60.077 63.158 5.23 0.00 44.66 4.30
2994 3146 0.682209 CTACTCCCTCCGTCCGGAAA 60.682 60.000 5.23 0.00 44.66 3.13
2995 3147 0.032813 TACTCCCTCCGTCCGGAAAT 60.033 55.000 5.23 0.00 44.66 2.17
2996 3148 0.032813 ACTCCCTCCGTCCGGAAATA 60.033 55.000 5.23 0.00 44.66 1.40
2997 3149 0.388294 CTCCCTCCGTCCGGAAATAC 59.612 60.000 5.23 0.00 44.66 1.89
2998 3150 0.032813 TCCCTCCGTCCGGAAATACT 60.033 55.000 5.23 0.00 44.66 2.12
2999 3151 0.828677 CCCTCCGTCCGGAAATACTT 59.171 55.000 5.23 0.00 44.66 2.24
3000 3152 1.472728 CCCTCCGTCCGGAAATACTTG 60.473 57.143 5.23 0.00 44.66 3.16
3001 3153 1.206371 CCTCCGTCCGGAAATACTTGT 59.794 52.381 5.23 0.00 44.66 3.16
3002 3154 2.537401 CTCCGTCCGGAAATACTTGTC 58.463 52.381 5.23 0.00 44.66 3.18
3003 3155 1.135315 TCCGTCCGGAAATACTTGTCG 60.135 52.381 5.23 1.25 42.05 4.35
3004 3156 1.274596 CGTCCGGAAATACTTGTCGG 58.725 55.000 5.23 0.00 41.80 4.79
3005 3157 1.135315 CGTCCGGAAATACTTGTCGGA 60.135 52.381 5.23 0.00 46.06 4.55
3006 3158 2.953466 TCCGGAAATACTTGTCGGAG 57.047 50.000 0.00 0.00 43.84 4.63
3007 3159 2.449464 TCCGGAAATACTTGTCGGAGA 58.551 47.619 0.00 0.00 43.84 3.71
3008 3160 2.827322 TCCGGAAATACTTGTCGGAGAA 59.173 45.455 0.00 0.00 43.84 2.87
3009 3161 3.258872 TCCGGAAATACTTGTCGGAGAAA 59.741 43.478 0.00 0.00 43.84 2.52
3010 3162 4.081309 TCCGGAAATACTTGTCGGAGAAAT 60.081 41.667 0.00 0.00 43.84 2.17
3011 3163 4.034048 CCGGAAATACTTGTCGGAGAAATG 59.966 45.833 0.00 0.00 42.94 2.32
3012 3164 4.868171 CGGAAATACTTGTCGGAGAAATGA 59.132 41.667 0.00 0.00 39.69 2.57
3013 3165 5.350365 CGGAAATACTTGTCGGAGAAATGAA 59.650 40.000 0.00 0.00 39.69 2.57
3014 3166 6.037172 CGGAAATACTTGTCGGAGAAATGAAT 59.963 38.462 0.00 0.00 39.69 2.57
3015 3167 7.189512 GGAAATACTTGTCGGAGAAATGAATG 58.810 38.462 0.00 0.00 39.69 2.67
3016 3168 7.065803 GGAAATACTTGTCGGAGAAATGAATGA 59.934 37.037 0.00 0.00 39.69 2.57
3017 3169 7.921786 AATACTTGTCGGAGAAATGAATGAA 57.078 32.000 0.00 0.00 39.69 2.57
3018 3170 7.921786 ATACTTGTCGGAGAAATGAATGAAA 57.078 32.000 0.00 0.00 39.69 2.69
3019 3171 6.633500 ACTTGTCGGAGAAATGAATGAAAA 57.367 33.333 0.00 0.00 39.69 2.29
3020 3172 7.219484 ACTTGTCGGAGAAATGAATGAAAAT 57.781 32.000 0.00 0.00 39.69 1.82
3021 3173 7.086376 ACTTGTCGGAGAAATGAATGAAAATG 58.914 34.615 0.00 0.00 39.69 2.32
3022 3174 5.953183 TGTCGGAGAAATGAATGAAAATGG 58.047 37.500 0.00 0.00 39.69 3.16
3023 3175 5.709631 TGTCGGAGAAATGAATGAAAATGGA 59.290 36.000 0.00 0.00 39.69 3.41
3024 3176 6.377996 TGTCGGAGAAATGAATGAAAATGGAT 59.622 34.615 0.00 0.00 39.69 3.41
3025 3177 6.694411 GTCGGAGAAATGAATGAAAATGGATG 59.306 38.462 0.00 0.00 39.69 3.51
3026 3178 6.377996 TCGGAGAAATGAATGAAAATGGATGT 59.622 34.615 0.00 0.00 0.00 3.06
3027 3179 7.555914 TCGGAGAAATGAATGAAAATGGATGTA 59.444 33.333 0.00 0.00 0.00 2.29
3028 3180 8.355169 CGGAGAAATGAATGAAAATGGATGTAT 58.645 33.333 0.00 0.00 0.00 2.29
3044 3196 8.633075 ATGGATGTATTTGAAACTAAATTGCG 57.367 30.769 0.00 0.00 32.79 4.85
3045 3197 7.598278 TGGATGTATTTGAAACTAAATTGCGT 58.402 30.769 0.00 0.00 32.79 5.24
3046 3198 7.753132 TGGATGTATTTGAAACTAAATTGCGTC 59.247 33.333 0.00 0.00 32.79 5.19
3047 3199 7.968405 GGATGTATTTGAAACTAAATTGCGTCT 59.032 33.333 0.00 0.00 32.79 4.18
3048 3200 9.982291 GATGTATTTGAAACTAAATTGCGTCTA 57.018 29.630 0.00 0.00 32.79 2.59
3049 3201 9.988350 ATGTATTTGAAACTAAATTGCGTCTAG 57.012 29.630 0.00 0.00 32.79 2.43
3050 3202 9.210329 TGTATTTGAAACTAAATTGCGTCTAGA 57.790 29.630 0.00 0.00 32.79 2.43
3054 3206 8.766000 TTGAAACTAAATTGCGTCTAGATACA 57.234 30.769 0.00 0.00 0.00 2.29
3055 3207 8.942338 TGAAACTAAATTGCGTCTAGATACAT 57.058 30.769 0.00 0.00 0.00 2.29
3056 3208 9.031360 TGAAACTAAATTGCGTCTAGATACATC 57.969 33.333 0.00 0.00 0.00 3.06
3057 3209 7.948278 AACTAAATTGCGTCTAGATACATCC 57.052 36.000 0.00 0.00 0.00 3.51
3058 3210 7.050970 ACTAAATTGCGTCTAGATACATCCA 57.949 36.000 0.00 0.00 0.00 3.41
3059 3211 7.671302 ACTAAATTGCGTCTAGATACATCCAT 58.329 34.615 0.00 0.00 0.00 3.41
3060 3212 8.150945 ACTAAATTGCGTCTAGATACATCCATT 58.849 33.333 0.00 0.00 0.00 3.16
3061 3213 7.426929 AAATTGCGTCTAGATACATCCATTC 57.573 36.000 0.00 0.00 0.00 2.67
3062 3214 4.521130 TGCGTCTAGATACATCCATTCC 57.479 45.455 0.00 0.00 0.00 3.01
3063 3215 4.152647 TGCGTCTAGATACATCCATTCCT 58.847 43.478 0.00 0.00 0.00 3.36
3064 3216 4.218635 TGCGTCTAGATACATCCATTCCTC 59.781 45.833 0.00 0.00 0.00 3.71
3065 3217 4.381079 GCGTCTAGATACATCCATTCCTCC 60.381 50.000 0.00 0.00 0.00 4.30
3066 3218 4.142578 CGTCTAGATACATCCATTCCTCCG 60.143 50.000 0.00 0.00 0.00 4.63
3067 3219 5.010933 GTCTAGATACATCCATTCCTCCGA 58.989 45.833 0.00 0.00 0.00 4.55
3068 3220 5.010933 TCTAGATACATCCATTCCTCCGAC 58.989 45.833 0.00 0.00 0.00 4.79
3069 3221 3.576861 AGATACATCCATTCCTCCGACA 58.423 45.455 0.00 0.00 0.00 4.35
3070 3222 3.967326 AGATACATCCATTCCTCCGACAA 59.033 43.478 0.00 0.00 0.00 3.18
3071 3223 2.698855 ACATCCATTCCTCCGACAAG 57.301 50.000 0.00 0.00 0.00 3.16
3072 3224 1.909302 ACATCCATTCCTCCGACAAGT 59.091 47.619 0.00 0.00 0.00 3.16
3073 3225 3.104512 ACATCCATTCCTCCGACAAGTA 58.895 45.455 0.00 0.00 0.00 2.24
3074 3226 3.711704 ACATCCATTCCTCCGACAAGTAT 59.288 43.478 0.00 0.00 0.00 2.12
3075 3227 4.164221 ACATCCATTCCTCCGACAAGTATT 59.836 41.667 0.00 0.00 0.00 1.89
3076 3228 4.837093 TCCATTCCTCCGACAAGTATTT 57.163 40.909 0.00 0.00 0.00 1.40
3077 3229 5.174037 TCCATTCCTCCGACAAGTATTTT 57.826 39.130 0.00 0.00 0.00 1.82
3078 3230 4.941263 TCCATTCCTCCGACAAGTATTTTG 59.059 41.667 0.00 0.00 0.00 2.44
3079 3231 4.096382 CCATTCCTCCGACAAGTATTTTGG 59.904 45.833 0.00 0.00 0.00 3.28
3080 3232 3.343941 TCCTCCGACAAGTATTTTGGG 57.656 47.619 0.00 0.00 0.00 4.12
3081 3233 2.907696 TCCTCCGACAAGTATTTTGGGA 59.092 45.455 0.00 0.00 0.00 4.37
3082 3234 3.007635 CCTCCGACAAGTATTTTGGGAC 58.992 50.000 0.00 0.00 0.00 4.46
3083 3235 2.671396 CTCCGACAAGTATTTTGGGACG 59.329 50.000 0.00 0.00 0.00 4.79
3084 3236 1.735571 CCGACAAGTATTTTGGGACGG 59.264 52.381 0.00 0.00 0.00 4.79
3085 3237 2.613474 CCGACAAGTATTTTGGGACGGA 60.613 50.000 0.00 0.00 37.12 4.69
3086 3238 2.671396 CGACAAGTATTTTGGGACGGAG 59.329 50.000 0.00 0.00 0.00 4.63
3087 3239 3.007635 GACAAGTATTTTGGGACGGAGG 58.992 50.000 0.00 0.00 0.00 4.30
3088 3240 2.290705 ACAAGTATTTTGGGACGGAGGG 60.291 50.000 0.00 0.00 0.00 4.30
3089 3241 1.961133 AGTATTTTGGGACGGAGGGA 58.039 50.000 0.00 0.00 0.00 4.20
3098 3250 1.558294 GGGACGGAGGGAGTACAAAAT 59.442 52.381 0.00 0.00 0.00 1.82
3127 3284 9.143631 CATACATTTTCCCTTCATCAAAGAAAC 57.856 33.333 0.00 0.00 37.12 2.78
3171 3328 4.877823 TCATCCAATCTAGAACACATGCAC 59.122 41.667 0.00 0.00 0.00 4.57
3181 3338 7.484140 TCTAGAACACATGCACTCTACAATAG 58.516 38.462 0.00 0.00 0.00 1.73
3219 3379 6.182627 TCTGCTTTATATTGGATATGGCAGG 58.817 40.000 19.47 10.27 40.58 4.85
3262 3422 2.540101 GCTCTACATCAACACATACCGC 59.460 50.000 0.00 0.00 0.00 5.68
3304 3474 8.705134 CAAATTAACATAAAAGGTCCGTTTTCC 58.295 33.333 8.14 0.00 31.96 3.13
3389 3559 7.525859 GCAAATATCCAATCAAGCATATCCCAA 60.526 37.037 0.00 0.00 0.00 4.12
3395 3565 6.156602 TCCAATCAAGCATATCCCAAATTTGT 59.843 34.615 16.73 1.39 0.00 2.83
3423 3593 5.132897 ACAAAGCAAAACAAGTCAGAACA 57.867 34.783 0.00 0.00 0.00 3.18
3424 3594 5.537188 ACAAAGCAAAACAAGTCAGAACAA 58.463 33.333 0.00 0.00 0.00 2.83
3469 3641 9.206870 ACATTTTTACAAAGAACATAAGCATGG 57.793 29.630 0.00 0.00 36.39 3.66
3479 4571 3.276857 ACATAAGCATGGTCTCTTGCAG 58.723 45.455 0.00 0.00 43.82 4.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 0.109723 TGTGGGAGGAAAAACCGAGG 59.890 55.000 0.00 0.00 44.74 4.63
22 23 1.975660 TTGTGGGAGGAAAAACCGAG 58.024 50.000 0.00 0.00 44.74 4.63
23 24 2.438800 TTTGTGGGAGGAAAAACCGA 57.561 45.000 0.00 0.00 44.74 4.69
24 25 3.057104 GGTATTTGTGGGAGGAAAAACCG 60.057 47.826 0.00 0.00 44.74 4.44
25 26 4.157246 AGGTATTTGTGGGAGGAAAAACC 58.843 43.478 0.00 0.00 39.35 3.27
47 51 8.078959 TCGAGAAAGAACGTTGATTTGATTTA 57.921 30.769 5.00 0.00 0.00 1.40
61 65 7.070183 GTGTGGAGTAAAAATCGAGAAAGAAC 58.930 38.462 0.00 0.00 0.00 3.01
63 67 5.404366 CGTGTGGAGTAAAAATCGAGAAAGA 59.596 40.000 0.00 0.00 0.00 2.52
67 71 4.232221 GTCGTGTGGAGTAAAAATCGAGA 58.768 43.478 0.00 0.00 0.00 4.04
135 139 6.094603 TGTTGGTTTTAATTTTGTGCAGCATT 59.905 30.769 0.00 0.00 0.00 3.56
139 143 8.136057 TGTATGTTGGTTTTAATTTTGTGCAG 57.864 30.769 0.00 0.00 0.00 4.41
193 197 6.878923 TGTGATTTTCTCTGGAACGTATTGAT 59.121 34.615 0.00 0.00 0.00 2.57
201 205 4.616835 GCACCATGTGATTTTCTCTGGAAC 60.617 45.833 0.00 0.00 35.23 3.62
204 208 2.821378 TGCACCATGTGATTTTCTCTGG 59.179 45.455 0.00 0.00 35.23 3.86
208 212 6.158598 GTGTTAATGCACCATGTGATTTTCT 58.841 36.000 0.00 0.00 35.23 2.52
209 213 5.925397 TGTGTTAATGCACCATGTGATTTTC 59.075 36.000 0.00 0.00 38.52 2.29
210 214 5.851720 TGTGTTAATGCACCATGTGATTTT 58.148 33.333 0.00 0.00 38.52 1.82
218 222 6.699366 TGATTTGATTGTGTTAATGCACCAT 58.301 32.000 0.00 0.00 38.52 3.55
221 225 8.470040 AGATTGATTTGATTGTGTTAATGCAC 57.530 30.769 0.00 0.00 39.65 4.57
263 268 7.716612 TGAGAAGAAAAGGAAAGTTTGGATTC 58.283 34.615 0.00 0.00 0.00 2.52
286 291 7.295322 TGATTTGATTTGGGTGTTTGTATGA 57.705 32.000 0.00 0.00 0.00 2.15
413 420 1.985159 AGATGTGCCCTAGACAAACCA 59.015 47.619 0.00 0.00 0.00 3.67
417 424 5.127194 CACTAACTAGATGTGCCCTAGACAA 59.873 44.000 0.00 0.00 37.59 3.18
439 446 6.968131 TGATTAAGTCACTTAGATGTGCAC 57.032 37.500 10.75 10.75 37.81 4.57
440 447 6.092670 GCTTGATTAAGTCACTTAGATGTGCA 59.907 38.462 0.00 0.00 36.32 4.57
476 484 6.404734 GCGGAGATTTGTGTGGATATTTTCTT 60.405 38.462 0.00 0.00 0.00 2.52
478 486 5.163663 TGCGGAGATTTGTGTGGATATTTTC 60.164 40.000 0.00 0.00 0.00 2.29
492 500 7.978982 GCATACATAATCTTATGCGGAGATTT 58.021 34.615 12.38 1.33 43.30 2.17
502 510 4.937620 CAGTGGGCGCATACATAATCTTAT 59.062 41.667 10.83 0.00 0.00 1.73
522 531 2.358322 AATTCCCCGTGTGTTTCAGT 57.642 45.000 0.00 0.00 0.00 3.41
523 532 2.161609 GCTAATTCCCCGTGTGTTTCAG 59.838 50.000 0.00 0.00 0.00 3.02
636 668 3.515104 AGATGCATTCCCGGAAAACAAAT 59.485 39.130 0.73 0.00 0.00 2.32
645 677 1.067974 TGTACGTAGATGCATTCCCGG 59.932 52.381 0.00 0.00 0.00 5.73
724 759 4.567747 GGGTTCCTGGCAGAAATCTAGAAA 60.568 45.833 17.94 0.00 0.00 2.52
767 803 9.139174 GATATGTCGGTTGTTTGATTTGATTTT 57.861 29.630 0.00 0.00 0.00 1.82
813 871 8.381636 CCAGAAGGGTAAATCTTATCTGATGAT 58.618 37.037 0.00 0.00 36.74 2.45
814 872 7.568738 TCCAGAAGGGTAAATCTTATCTGATGA 59.431 37.037 0.00 0.00 38.11 2.92
849 907 2.867091 GACGTTCGTGCGTGCAACT 61.867 57.895 11.15 0.00 45.79 3.16
868 926 1.728426 CGTGGACGTCGTGGAGTTC 60.728 63.158 9.92 0.00 34.11 3.01
869 927 2.333938 CGTGGACGTCGTGGAGTT 59.666 61.111 9.92 0.00 34.11 3.01
879 937 0.027716 CGGAGAGATGTACGTGGACG 59.972 60.000 0.00 0.00 46.33 4.79
880 938 0.248539 GCGGAGAGATGTACGTGGAC 60.249 60.000 0.00 0.00 0.00 4.02
881 939 1.381928 GGCGGAGAGATGTACGTGGA 61.382 60.000 0.00 0.00 0.00 4.02
882 940 1.065928 GGCGGAGAGATGTACGTGG 59.934 63.158 0.00 0.00 0.00 4.94
883 941 0.029567 GAGGCGGAGAGATGTACGTG 59.970 60.000 0.00 0.00 0.00 4.49
884 942 1.102222 GGAGGCGGAGAGATGTACGT 61.102 60.000 0.00 0.00 0.00 3.57
885 943 1.655329 GGAGGCGGAGAGATGTACG 59.345 63.158 0.00 0.00 0.00 3.67
886 944 1.655329 CGGAGGCGGAGAGATGTAC 59.345 63.158 0.00 0.00 0.00 2.90
887 945 2.194212 GCGGAGGCGGAGAGATGTA 61.194 63.158 0.00 0.00 0.00 2.29
888 946 3.532155 GCGGAGGCGGAGAGATGT 61.532 66.667 0.00 0.00 0.00 3.06
915 973 1.133884 TCGGGTGGAGATGTACGAGAT 60.134 52.381 0.00 0.00 0.00 2.75
934 992 0.038526 ATGTCGTGGACTCGTGGTTC 60.039 55.000 0.00 0.00 33.15 3.62
935 993 0.038526 GATGTCGTGGACTCGTGGTT 60.039 55.000 0.00 0.00 33.15 3.67
936 994 1.585006 GATGTCGTGGACTCGTGGT 59.415 57.895 0.00 0.00 33.15 4.16
1044 1102 2.438614 CGGAGCAGGACGAGGAGA 60.439 66.667 0.00 0.00 0.00 3.71
1167 1225 1.734655 ACTTCTTGAAGAGGCCCAGA 58.265 50.000 16.21 0.00 0.00 3.86
1183 1241 1.985662 TCACGATGGGGCCGTACTT 60.986 57.895 0.00 0.00 38.29 2.24
2643 2774 9.213799 AGCTCTAAACATTTCTCTCTGTAAAAG 57.786 33.333 0.00 0.00 0.00 2.27
2648 2779 6.071108 TGCTAGCTCTAAACATTTCTCTCTGT 60.071 38.462 17.23 0.00 0.00 3.41
2711 2842 5.736951 AGCATTACAATTGGCAAACCTAA 57.263 34.783 10.83 0.19 36.63 2.69
2738 2869 8.049117 TCACTATTGTAATCTGAAGCAGGAAAT 58.951 33.333 0.00 0.00 31.51 2.17
2746 2877 9.877178 AACTTAGGTCACTATTGTAATCTGAAG 57.123 33.333 0.00 0.00 0.00 3.02
2935 3069 6.096987 TGGCCTACTGTGAAAATTGTGTTAAA 59.903 34.615 3.32 0.00 0.00 1.52
2978 3130 0.388294 GTATTTCCGGACGGAGGGAG 59.612 60.000 13.64 0.00 46.06 4.30
2979 3131 0.032813 AGTATTTCCGGACGGAGGGA 60.033 55.000 13.64 4.95 46.06 4.20
2980 3132 0.828677 AAGTATTTCCGGACGGAGGG 59.171 55.000 13.64 0.00 46.06 4.30
2981 3133 1.206371 ACAAGTATTTCCGGACGGAGG 59.794 52.381 13.64 0.00 46.06 4.30
2982 3134 2.537401 GACAAGTATTTCCGGACGGAG 58.463 52.381 13.64 3.15 46.06 4.63
2983 3135 1.135315 CGACAAGTATTTCCGGACGGA 60.135 52.381 1.83 9.76 43.52 4.69
2984 3136 1.274596 CGACAAGTATTTCCGGACGG 58.725 55.000 1.83 3.96 0.00 4.79
2985 3137 1.135315 TCCGACAAGTATTTCCGGACG 60.135 52.381 1.83 0.00 43.47 4.79
2986 3138 2.165030 TCTCCGACAAGTATTTCCGGAC 59.835 50.000 1.83 0.00 43.47 4.79
2987 3139 2.449464 TCTCCGACAAGTATTTCCGGA 58.551 47.619 0.00 0.00 45.74 5.14
2988 3140 2.953466 TCTCCGACAAGTATTTCCGG 57.047 50.000 0.00 0.00 41.36 5.14
2989 3141 4.868171 TCATTTCTCCGACAAGTATTTCCG 59.132 41.667 0.00 0.00 0.00 4.30
2990 3142 6.737254 TTCATTTCTCCGACAAGTATTTCC 57.263 37.500 0.00 0.00 0.00 3.13
2991 3143 7.974675 TCATTCATTTCTCCGACAAGTATTTC 58.025 34.615 0.00 0.00 0.00 2.17
2992 3144 7.921786 TCATTCATTTCTCCGACAAGTATTT 57.078 32.000 0.00 0.00 0.00 1.40
2993 3145 7.921786 TTCATTCATTTCTCCGACAAGTATT 57.078 32.000 0.00 0.00 0.00 1.89
2994 3146 7.921786 TTTCATTCATTTCTCCGACAAGTAT 57.078 32.000 0.00 0.00 0.00 2.12
2995 3147 7.737972 TTTTCATTCATTTCTCCGACAAGTA 57.262 32.000 0.00 0.00 0.00 2.24
2996 3148 6.633500 TTTTCATTCATTTCTCCGACAAGT 57.367 33.333 0.00 0.00 0.00 3.16
2997 3149 6.529125 CCATTTTCATTCATTTCTCCGACAAG 59.471 38.462 0.00 0.00 0.00 3.16
2998 3150 6.208402 TCCATTTTCATTCATTTCTCCGACAA 59.792 34.615 0.00 0.00 0.00 3.18
2999 3151 5.709631 TCCATTTTCATTCATTTCTCCGACA 59.290 36.000 0.00 0.00 0.00 4.35
3000 3152 6.194796 TCCATTTTCATTCATTTCTCCGAC 57.805 37.500 0.00 0.00 0.00 4.79
3001 3153 6.377996 ACATCCATTTTCATTCATTTCTCCGA 59.622 34.615 0.00 0.00 0.00 4.55
3002 3154 6.567050 ACATCCATTTTCATTCATTTCTCCG 58.433 36.000 0.00 0.00 0.00 4.63
3018 3170 9.086336 CGCAATTTAGTTTCAAATACATCCATT 57.914 29.630 0.00 0.00 0.00 3.16
3019 3171 8.250332 ACGCAATTTAGTTTCAAATACATCCAT 58.750 29.630 0.00 0.00 0.00 3.41
3020 3172 7.598278 ACGCAATTTAGTTTCAAATACATCCA 58.402 30.769 0.00 0.00 0.00 3.41
3021 3173 7.968405 AGACGCAATTTAGTTTCAAATACATCC 59.032 33.333 0.00 0.00 0.00 3.51
3022 3174 8.895932 AGACGCAATTTAGTTTCAAATACATC 57.104 30.769 0.00 0.00 0.00 3.06
3023 3175 9.988350 CTAGACGCAATTTAGTTTCAAATACAT 57.012 29.630 0.00 0.00 0.00 2.29
3024 3176 9.210329 TCTAGACGCAATTTAGTTTCAAATACA 57.790 29.630 0.00 0.00 0.00 2.29
3028 3180 9.210329 TGTATCTAGACGCAATTTAGTTTCAAA 57.790 29.630 0.00 0.00 0.00 2.69
3029 3181 8.766000 TGTATCTAGACGCAATTTAGTTTCAA 57.234 30.769 0.00 0.00 0.00 2.69
3030 3182 8.942338 ATGTATCTAGACGCAATTTAGTTTCA 57.058 30.769 0.00 0.00 0.00 2.69
3031 3183 8.488764 GGATGTATCTAGACGCAATTTAGTTTC 58.511 37.037 0.00 0.00 0.00 2.78
3032 3184 7.985184 TGGATGTATCTAGACGCAATTTAGTTT 59.015 33.333 0.00 0.00 0.00 2.66
3033 3185 7.497595 TGGATGTATCTAGACGCAATTTAGTT 58.502 34.615 0.00 0.00 0.00 2.24
3034 3186 7.050970 TGGATGTATCTAGACGCAATTTAGT 57.949 36.000 0.00 0.00 0.00 2.24
3035 3187 8.539770 AATGGATGTATCTAGACGCAATTTAG 57.460 34.615 0.00 0.00 0.00 1.85
3036 3188 7.602644 GGAATGGATGTATCTAGACGCAATTTA 59.397 37.037 0.00 0.00 0.00 1.40
3037 3189 6.428159 GGAATGGATGTATCTAGACGCAATTT 59.572 38.462 0.00 0.00 0.00 1.82
3038 3190 5.934625 GGAATGGATGTATCTAGACGCAATT 59.065 40.000 0.00 0.00 0.00 2.32
3039 3191 5.247110 AGGAATGGATGTATCTAGACGCAAT 59.753 40.000 0.00 0.00 0.00 3.56
3040 3192 4.588951 AGGAATGGATGTATCTAGACGCAA 59.411 41.667 0.00 0.00 0.00 4.85
3041 3193 4.152647 AGGAATGGATGTATCTAGACGCA 58.847 43.478 0.00 0.00 0.00 5.24
3042 3194 4.381079 GGAGGAATGGATGTATCTAGACGC 60.381 50.000 0.00 0.00 0.00 5.19
3043 3195 4.142578 CGGAGGAATGGATGTATCTAGACG 60.143 50.000 0.00 0.00 0.00 4.18
3044 3196 5.010933 TCGGAGGAATGGATGTATCTAGAC 58.989 45.833 0.00 0.00 0.00 2.59
3045 3197 5.010933 GTCGGAGGAATGGATGTATCTAGA 58.989 45.833 0.00 0.00 0.00 2.43
3046 3198 4.767409 TGTCGGAGGAATGGATGTATCTAG 59.233 45.833 0.00 0.00 0.00 2.43
3047 3199 4.736473 TGTCGGAGGAATGGATGTATCTA 58.264 43.478 0.00 0.00 0.00 1.98
3048 3200 3.576861 TGTCGGAGGAATGGATGTATCT 58.423 45.455 0.00 0.00 0.00 1.98
3049 3201 4.202264 ACTTGTCGGAGGAATGGATGTATC 60.202 45.833 0.00 0.00 0.00 2.24
3050 3202 3.711704 ACTTGTCGGAGGAATGGATGTAT 59.288 43.478 0.00 0.00 0.00 2.29
3051 3203 3.104512 ACTTGTCGGAGGAATGGATGTA 58.895 45.455 0.00 0.00 0.00 2.29
3052 3204 1.909302 ACTTGTCGGAGGAATGGATGT 59.091 47.619 0.00 0.00 0.00 3.06
3053 3205 2.698855 ACTTGTCGGAGGAATGGATG 57.301 50.000 0.00 0.00 0.00 3.51
3054 3206 5.373812 AAATACTTGTCGGAGGAATGGAT 57.626 39.130 0.00 0.00 0.00 3.41
3055 3207 4.837093 AAATACTTGTCGGAGGAATGGA 57.163 40.909 0.00 0.00 0.00 3.41
3056 3208 4.096382 CCAAAATACTTGTCGGAGGAATGG 59.904 45.833 0.00 0.00 0.00 3.16
3057 3209 4.096382 CCCAAAATACTTGTCGGAGGAATG 59.904 45.833 0.00 0.00 0.00 2.67
3058 3210 4.018779 TCCCAAAATACTTGTCGGAGGAAT 60.019 41.667 0.00 0.00 0.00 3.01
3059 3211 3.328343 TCCCAAAATACTTGTCGGAGGAA 59.672 43.478 0.00 0.00 0.00 3.36
3060 3212 2.907696 TCCCAAAATACTTGTCGGAGGA 59.092 45.455 0.00 0.00 0.00 3.71
3061 3213 3.007635 GTCCCAAAATACTTGTCGGAGG 58.992 50.000 0.00 0.00 0.00 4.30
3062 3214 2.671396 CGTCCCAAAATACTTGTCGGAG 59.329 50.000 0.00 0.00 0.00 4.63
3063 3215 2.613474 CCGTCCCAAAATACTTGTCGGA 60.613 50.000 0.00 0.00 38.03 4.55
3064 3216 1.735571 CCGTCCCAAAATACTTGTCGG 59.264 52.381 0.00 0.00 0.00 4.79
3065 3217 2.671396 CTCCGTCCCAAAATACTTGTCG 59.329 50.000 0.00 0.00 0.00 4.35
3066 3218 3.007635 CCTCCGTCCCAAAATACTTGTC 58.992 50.000 0.00 0.00 0.00 3.18
3067 3219 2.290705 CCCTCCGTCCCAAAATACTTGT 60.291 50.000 0.00 0.00 0.00 3.16
3068 3220 2.026636 TCCCTCCGTCCCAAAATACTTG 60.027 50.000 0.00 0.00 0.00 3.16
3069 3221 2.238898 CTCCCTCCGTCCCAAAATACTT 59.761 50.000 0.00 0.00 0.00 2.24
3070 3222 1.838077 CTCCCTCCGTCCCAAAATACT 59.162 52.381 0.00 0.00 0.00 2.12
3071 3223 1.558294 ACTCCCTCCGTCCCAAAATAC 59.442 52.381 0.00 0.00 0.00 1.89
3072 3224 1.961133 ACTCCCTCCGTCCCAAAATA 58.039 50.000 0.00 0.00 0.00 1.40
3073 3225 1.558294 GTACTCCCTCCGTCCCAAAAT 59.442 52.381 0.00 0.00 0.00 1.82
3074 3226 0.978907 GTACTCCCTCCGTCCCAAAA 59.021 55.000 0.00 0.00 0.00 2.44
3075 3227 0.178926 TGTACTCCCTCCGTCCCAAA 60.179 55.000 0.00 0.00 0.00 3.28
3076 3228 0.178926 TTGTACTCCCTCCGTCCCAA 60.179 55.000 0.00 0.00 0.00 4.12
3077 3229 0.178926 TTTGTACTCCCTCCGTCCCA 60.179 55.000 0.00 0.00 0.00 4.37
3078 3230 0.978907 TTTTGTACTCCCTCCGTCCC 59.021 55.000 0.00 0.00 0.00 4.46
3079 3231 4.100498 TGATATTTTGTACTCCCTCCGTCC 59.900 45.833 0.00 0.00 0.00 4.79
3080 3232 5.272283 TGATATTTTGTACTCCCTCCGTC 57.728 43.478 0.00 0.00 0.00 4.79
3081 3233 5.888982 ATGATATTTTGTACTCCCTCCGT 57.111 39.130 0.00 0.00 0.00 4.69
3082 3234 6.755206 TGTATGATATTTTGTACTCCCTCCG 58.245 40.000 0.00 0.00 0.00 4.63
3083 3235 9.574516 AAATGTATGATATTTTGTACTCCCTCC 57.425 33.333 0.00 0.00 0.00 4.30
3098 3250 9.919416 TCTTTGATGAAGGGAAAATGTATGATA 57.081 29.630 0.00 0.00 35.98 2.15
3127 3284 9.947669 GGATGACTGAAATATTCATCAGAAAAG 57.052 33.333 19.47 0.00 43.54 2.27
3219 3379 6.852664 AGCATACCTTTTATGTTGCTGTTAC 58.147 36.000 0.00 0.00 38.87 2.50
3289 3449 4.261867 GCATAACTGGAAAACGGACCTTTT 60.262 41.667 0.00 0.00 0.00 2.27
3290 3450 3.254903 GCATAACTGGAAAACGGACCTTT 59.745 43.478 0.00 0.00 0.00 3.11
3341 3511 4.280174 GCATGCTGATGATGGGAAACTTAT 59.720 41.667 11.37 0.00 0.00 1.73
3395 3565 7.542890 TCTGACTTGTTTTGCTTTGTATTCAA 58.457 30.769 0.00 0.00 0.00 2.69
3424 3594 7.637631 AAATGTTATTGCCCAAAGTGTTTTT 57.362 28.000 0.00 0.00 0.00 1.94
3468 3640 3.604582 AGAATTGTAGCTGCAAGAGACC 58.395 45.455 21.86 9.21 34.07 3.85
3469 3641 3.620821 GGAGAATTGTAGCTGCAAGAGAC 59.379 47.826 21.86 12.95 34.07 3.36
3479 4571 8.589335 TCTTACATATTTCGGAGAATTGTAGC 57.411 34.615 0.00 0.00 45.90 3.58


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

AutoCloner maintained by Alex Coulton.