Multiple sequence alignment - TraesCS6B01G418600

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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 TraesCS6B01G418600 chr6B 100.000 6774 0 0 1 6774 690738297 690731524 0.000000e+00 12510.0
1 TraesCS6B01G418600 chr6B 83.305 2384 288 75 3354 5679 690449343 690451674 0.000000e+00 2097.0
2 TraesCS6B01G418600 chr6B 85.078 1930 241 33 3774 5677 690441517 690443425 0.000000e+00 1925.0
3 TraesCS6B01G418600 chr6B 86.034 1253 144 21 4423 5667 690330182 690331411 0.000000e+00 1315.0
4 TraesCS6B01G418600 chr6B 85.613 987 75 30 1015 1991 690316376 690317305 0.000000e+00 974.0
5 TraesCS6B01G418600 chr6B 83.316 953 96 36 806 1716 690447261 690448192 0.000000e+00 821.0
6 TraesCS6B01G418600 chr6B 94.131 426 17 5 2020 2442 690318359 690318779 5.730000e-180 641.0
7 TraesCS6B01G418600 chr6B 81.707 820 78 32 1040 1835 690437565 690438336 9.650000e-173 617.0
8 TraesCS6B01G418600 chr6B 88.417 518 25 16 1924 2439 690438338 690438822 5.850000e-165 592.0
9 TraesCS6B01G418600 chr6B 93.316 389 15 3 2062 2449 690448429 690448807 1.280000e-156 564.0
10 TraesCS6B01G418600 chr6B 87.019 416 34 12 4020 4434 690327745 690328141 1.040000e-122 451.0
11 TraesCS6B01G418600 chr6B 92.193 269 20 1 3341 3608 636562571 636562839 4.960000e-101 379.0
12 TraesCS6B01G418600 chr6B 91.192 193 12 3 2506 2698 690448822 690449009 2.420000e-64 257.0
13 TraesCS6B01G418600 chr6B 92.000 150 11 1 5531 5679 690452519 690452668 6.880000e-50 209.0
14 TraesCS6B01G418600 chr6B 79.801 302 35 17 2506 2793 690439979 690440268 5.360000e-46 196.0
15 TraesCS6B01G418600 chr6B 87.963 108 4 3 2874 2981 368566191 368566093 1.190000e-22 119.0
16 TraesCS6B01G418600 chr6B 89.157 83 4 2 3206 3288 223619850 223619773 1.550000e-16 99.0
17 TraesCS6B01G418600 chr6D 95.546 3480 123 12 3310 6774 454252862 454249400 0.000000e+00 5539.0
18 TraesCS6B01G418600 chr6D 89.780 3229 153 62 112 3264 454256077 454252950 0.000000e+00 3971.0
19 TraesCS6B01G418600 chr6D 86.181 2388 239 54 3309 5658 454127443 454129777 0.000000e+00 2497.0
20 TraesCS6B01G418600 chr6D 83.151 2374 289 65 3359 5679 454215451 454217766 0.000000e+00 2065.0
21 TraesCS6B01G418600 chr6D 86.083 1703 192 31 3998 5679 454224354 454226032 0.000000e+00 1790.0
22 TraesCS6B01G418600 chr6D 88.901 937 36 29 1521 2449 454125632 454126508 0.000000e+00 1092.0
23 TraesCS6B01G418600 chr6D 83.762 973 104 37 776 1710 454221458 454222414 0.000000e+00 872.0
24 TraesCS6B01G418600 chr6D 96.222 397 12 1 2102 2498 454213569 454213962 0.000000e+00 647.0
25 TraesCS6B01G418600 chr6D 81.446 830 83 41 1038 1835 454212647 454213437 1.250000e-171 614.0
26 TraesCS6B01G418600 chr6D 93.095 391 8 7 2062 2451 454222645 454223017 7.680000e-154 555.0
27 TraesCS6B01G418600 chr6D 83.889 540 45 21 949 1471 454124956 454125470 1.710000e-130 477.0
28 TraesCS6B01G418600 chr6D 81.081 592 65 28 3354 3917 454223526 454224098 4.850000e-116 429.0
29 TraesCS6B01G418600 chr6D 92.193 269 17 3 3341 3608 6097042 6096777 1.780000e-100 377.0
30 TraesCS6B01G418600 chr6D 83.013 312 19 14 2505 2805 454126519 454126807 1.130000e-62 252.0
31 TraesCS6B01G418600 chr6D 94.805 154 5 2 2866 3019 454126798 454126948 3.160000e-58 237.0
32 TraesCS6B01G418600 chr6D 80.696 316 44 12 2506 2820 454214919 454215218 5.280000e-56 230.0
33 TraesCS6B01G418600 chr6D 91.250 80 1 3 5 84 454256376 454256303 3.340000e-18 104.0
34 TraesCS6B01G418600 chr6D 100.000 29 0 0 3096 3124 454253032 454253004 3.000000e-03 54.7
35 TraesCS6B01G418600 chr6A 94.545 3483 146 20 3310 6774 600459271 600455815 0.000000e+00 5339.0
36 TraesCS6B01G418600 chr6A 85.804 3198 233 112 107 3223 600462530 600459473 0.000000e+00 3186.0
37 TraesCS6B01G418600 chr6A 86.093 2337 233 49 3381 5675 600394106 600396392 0.000000e+00 2431.0
38 TraesCS6B01G418600 chr6A 88.841 1864 105 45 821 2651 600391499 600393292 0.000000e+00 2194.0
39 TraesCS6B01G418600 chr6A 87.368 190 13 7 3117 3302 426299375 426299193 2.480000e-49 207.0
40 TraesCS6B01G418600 chr6A 76.991 226 22 15 493 702 600391215 600391426 1.200000e-17 102.0
41 TraesCS6B01G418600 chr6A 100.000 29 0 0 3096 3124 600459516 600459488 3.000000e-03 54.7
42 TraesCS6B01G418600 chr4B 93.785 354 16 3 2735 3087 475719241 475718893 1.670000e-145 527.0
43 TraesCS6B01G418600 chr4B 80.155 388 43 20 3121 3492 475718909 475718540 6.740000e-65 259.0
44 TraesCS6B01G418600 chr1B 92.615 325 16 5 2765 3087 46515930 46515612 1.720000e-125 460.0
45 TraesCS6B01G418600 chr1B 82.383 386 37 16 3121 3492 46515628 46515260 2.370000e-79 307.0
46 TraesCS6B01G418600 chr7D 90.411 292 25 3 3336 3626 590894781 590895070 1.380000e-101 381.0
47 TraesCS6B01G418600 chr7D 92.193 269 20 1 3341 3608 567630482 567630214 4.960000e-101 379.0
48 TraesCS6B01G418600 chr7D 90.476 84 3 1 3206 3289 590894609 590894687 9.290000e-19 106.0
49 TraesCS6B01G418600 chr3D 91.822 269 20 2 3341 3608 529249855 529249588 2.310000e-99 374.0
50 TraesCS6B01G418600 chr7B 91.241 274 21 2 3336 3608 242513477 242513748 2.980000e-98 370.0
51 TraesCS6B01G418600 chr4A 86.842 190 14 6 3117 3302 31215454 31215272 1.150000e-47 202.0
52 TraesCS6B01G418600 chr3B 86.364 176 15 6 3117 3288 200105740 200105570 4.170000e-42 183.0
53 TraesCS6B01G418600 chr3B 86.286 175 15 6 3118 3288 200086991 200086822 1.500000e-41 182.0
54 TraesCS6B01G418600 chr3B 90.476 84 5 1 2898 2981 200087107 200087027 2.580000e-19 108.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6B01G418600 chr6B 690731524 690738297 6773 True 12510.000000 12510 100.000000 1 6774 1 chr6B.!!$R3 6773
1 TraesCS6B01G418600 chr6B 690327745 690331411 3666 False 883.000000 1315 86.526500 4020 5667 2 chr6B.!!$F3 1647
2 TraesCS6B01G418600 chr6B 690437565 690452668 15103 False 808.666667 2097 86.459111 806 5679 9 chr6B.!!$F4 4873
3 TraesCS6B01G418600 chr6B 690316376 690318779 2403 False 807.500000 974 89.872000 1015 2442 2 chr6B.!!$F2 1427
4 TraesCS6B01G418600 chr6D 454249400 454256376 6976 True 2417.175000 5539 94.144000 5 6774 4 chr6D.!!$R2 6769
5 TraesCS6B01G418600 chr6D 454124956 454129777 4821 False 911.000000 2497 87.357800 949 5658 5 chr6D.!!$F1 4709
6 TraesCS6B01G418600 chr6D 454212647 454226032 13385 False 900.250000 2065 85.692000 776 5679 8 chr6D.!!$F2 4903
7 TraesCS6B01G418600 chr6A 600455815 600462530 6715 True 2859.900000 5339 93.449667 107 6774 3 chr6A.!!$R2 6667
8 TraesCS6B01G418600 chr6A 600391215 600396392 5177 False 1575.666667 2431 83.975000 493 5675 3 chr6A.!!$F1 5182
9 TraesCS6B01G418600 chr4B 475718540 475719241 701 True 393.000000 527 86.970000 2735 3492 2 chr4B.!!$R1 757
10 TraesCS6B01G418600 chr1B 46515260 46515930 670 True 383.500000 460 87.499000 2765 3492 2 chr1B.!!$R1 727

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
800 1086 0.037605 GGAGAAAGAGACGCGGGAAA 60.038 55.000 12.47 0.00 0.00 3.13 F
808 1094 0.608640 AGACGCGGGAAAGAATGAGT 59.391 50.000 12.47 0.00 0.00 3.41 F
1836 12142 0.613260 GTCCATGTCAGGTAGGTGCA 59.387 55.000 0.00 0.00 0.00 4.57 F
2037 13400 1.372748 GATCGATCGGAGGCTGCAG 60.373 63.158 16.41 10.11 0.00 4.41 F
3289 15568 0.035881 TGGGCAGCTGCAGATATAGC 59.964 55.000 37.63 18.74 44.36 2.97 F
3710 16081 0.305922 GCAGGCGCATAGATTCACAC 59.694 55.000 10.83 0.00 38.36 3.82 F
5417 20082 0.465278 GCCTGCTGGATTTCTCCCTC 60.465 60.000 14.77 0.00 41.29 4.30 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1960 12282 0.037697 ATGCACACGCGTAAAGGAGA 60.038 50.000 13.44 0.00 42.97 3.71 R
1961 12283 0.095245 CATGCACACGCGTAAAGGAG 59.905 55.000 13.44 0.00 42.97 3.69 R
2912 14850 0.322008 AGAGCTAGGCCAGTGCAAAC 60.322 55.000 5.01 2.37 40.13 2.93 R
3782 16167 0.667993 ACAAATGTGCCCGTGAACAG 59.332 50.000 0.00 0.00 0.00 3.16 R
4564 19206 0.038744 ACCTGGATCACAAGGCAAGG 59.961 55.000 0.00 0.00 0.00 3.61 R
5647 21316 0.250234 GGGAGCATGCTGTCACACTA 59.750 55.000 28.27 0.00 0.00 2.74 R
6572 22243 1.615392 CTGAAAAAGGGGAGGCTTGTG 59.385 52.381 0.00 0.00 0.00 3.33 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
39 40 6.672593 AGAAACCAGATTGCCCTGATAATTA 58.327 36.000 0.00 0.00 36.29 1.40
42 43 7.919385 AACCAGATTGCCCTGATAATTAATT 57.081 32.000 5.89 5.89 36.29 1.40
73 74 4.722700 CACTCAACCCGGCCCCTG 62.723 72.222 0.00 0.00 0.00 4.45
129 326 2.352342 CTGTATCATTGCGATGCACACA 59.648 45.455 9.26 10.97 41.25 3.72
130 327 2.095692 TGTATCATTGCGATGCACACAC 59.904 45.455 9.26 3.27 41.25 3.82
168 375 0.950555 CGGGGTGCCGATCATACATG 60.951 60.000 0.00 0.00 34.88 3.21
185 399 3.338249 ACATGCCGTATGGATCTAATGC 58.662 45.455 4.73 0.00 41.25 3.56
186 400 3.244526 ACATGCCGTATGGATCTAATGCA 60.245 43.478 4.73 0.00 41.25 3.96
189 403 5.159273 TGCCGTATGGATCTAATGCAATA 57.841 39.130 4.73 0.00 37.49 1.90
190 404 5.555966 TGCCGTATGGATCTAATGCAATAA 58.444 37.500 4.73 0.00 37.49 1.40
192 406 5.163754 GCCGTATGGATCTAATGCAATAACC 60.164 44.000 4.73 0.00 37.49 2.85
204 418 5.888691 ATGCAATAACCAAACGTGTGATA 57.111 34.783 7.48 0.22 0.00 2.15
249 467 2.282180 TTTTCAGGCAGGCCGGAC 60.282 61.111 12.75 0.00 39.88 4.79
431 680 4.043435 AGGCAACCCTTTAATTCTCTCACT 59.957 41.667 0.00 0.00 38.74 3.41
433 682 5.003804 GCAACCCTTTAATTCTCTCACTCA 58.996 41.667 0.00 0.00 0.00 3.41
566 841 2.268298 GTACCGCATTGTGTCCACTAG 58.732 52.381 0.00 0.00 0.00 2.57
569 844 2.224426 ACCGCATTGTGTCCACTAGAAA 60.224 45.455 0.00 0.00 0.00 2.52
598 877 2.279517 CTTTCTCGATCGGCCCCG 60.280 66.667 16.41 0.00 41.35 5.73
599 878 4.524318 TTTCTCGATCGGCCCCGC 62.524 66.667 16.41 0.00 39.59 6.13
601 880 4.574271 TCTCGATCGGCCCCGCTA 62.574 66.667 16.41 0.00 39.59 4.26
652 933 3.169355 TCGTCCGGCCTAATACTTTTC 57.831 47.619 0.00 0.00 0.00 2.29
738 1024 1.987770 CATTTTGGTGCTCAATCGTGC 59.012 47.619 0.00 0.00 34.98 5.34
739 1025 1.028130 TTTTGGTGCTCAATCGTGCA 58.972 45.000 0.00 0.00 39.23 4.57
763 1049 3.002246 ACACACACACACATTCGTTCATC 59.998 43.478 0.00 0.00 0.00 2.92
784 1070 0.686112 GTGAGTGGGAGGAGAGGGAG 60.686 65.000 0.00 0.00 0.00 4.30
793 1079 2.021457 GAGGAGAGGGAGAAAGAGACG 58.979 57.143 0.00 0.00 0.00 4.18
794 1080 0.458260 GGAGAGGGAGAAAGAGACGC 59.542 60.000 0.00 0.00 0.00 5.19
797 1083 2.184579 GGGAGAAAGAGACGCGGG 59.815 66.667 12.47 0.00 0.00 6.13
798 1084 2.348888 GGGAGAAAGAGACGCGGGA 61.349 63.158 12.47 0.00 0.00 5.14
799 1085 1.590147 GGAGAAAGAGACGCGGGAA 59.410 57.895 12.47 0.00 0.00 3.97
800 1086 0.037605 GGAGAAAGAGACGCGGGAAA 60.038 55.000 12.47 0.00 0.00 3.13
801 1087 1.351153 GAGAAAGAGACGCGGGAAAG 58.649 55.000 12.47 0.00 0.00 2.62
802 1088 0.966920 AGAAAGAGACGCGGGAAAGA 59.033 50.000 12.47 0.00 0.00 2.52
803 1089 1.343465 AGAAAGAGACGCGGGAAAGAA 59.657 47.619 12.47 0.00 0.00 2.52
804 1090 2.028020 AGAAAGAGACGCGGGAAAGAAT 60.028 45.455 12.47 0.00 0.00 2.40
806 1092 0.895530 AGAGACGCGGGAAAGAATGA 59.104 50.000 12.47 0.00 0.00 2.57
807 1093 1.134965 AGAGACGCGGGAAAGAATGAG 60.135 52.381 12.47 0.00 0.00 2.90
808 1094 0.608640 AGACGCGGGAAAGAATGAGT 59.391 50.000 12.47 0.00 0.00 3.41
819 10911 5.823045 GGGAAAGAATGAGTATCCATCGTTT 59.177 40.000 0.00 0.00 31.63 3.60
864 10965 3.697045 CCTCCCTCCGTCTATATAAGCAG 59.303 52.174 0.00 0.00 0.00 4.24
939 11050 2.271800 CTCTTGTCCTCCGCATGTAAC 58.728 52.381 0.00 0.00 0.00 2.50
947 11058 2.173669 CCGCATGTAACCAGCTCGG 61.174 63.158 0.00 1.16 42.50 4.63
1002 11122 2.140792 AATCCCCGACCCCTGATCG 61.141 63.158 0.00 0.00 39.33 3.69
1024 11163 4.082895 CGTAGTGGAGTGTGGTATATAGGC 60.083 50.000 0.00 0.00 0.00 3.93
1027 11168 2.158430 TGGAGTGTGGTATATAGGCGGA 60.158 50.000 0.00 0.00 0.00 5.54
1504 11707 1.269723 CTGCGGCTGATTATCCGTCTA 59.730 52.381 0.00 0.00 46.79 2.59
1835 12141 0.905357 AGTCCATGTCAGGTAGGTGC 59.095 55.000 0.00 0.00 0.00 5.01
1836 12142 0.613260 GTCCATGTCAGGTAGGTGCA 59.387 55.000 0.00 0.00 0.00 4.57
1846 12152 2.435805 CAGGTAGGTGCACATACTCCAT 59.564 50.000 33.08 18.32 33.98 3.41
1847 12153 3.641436 CAGGTAGGTGCACATACTCCATA 59.359 47.826 33.08 2.65 33.98 2.74
1848 12154 3.641906 AGGTAGGTGCACATACTCCATAC 59.358 47.826 33.08 19.49 33.98 2.39
1849 12155 3.641906 GGTAGGTGCACATACTCCATACT 59.358 47.826 33.08 14.29 33.98 2.12
1850 12156 4.262079 GGTAGGTGCACATACTCCATACTC 60.262 50.000 33.08 15.65 33.98 2.59
1851 12157 2.700897 AGGTGCACATACTCCATACTCC 59.299 50.000 20.43 0.00 0.00 3.85
1852 12158 2.434336 GGTGCACATACTCCATACTCCA 59.566 50.000 20.43 0.00 0.00 3.86
1853 12159 3.071602 GGTGCACATACTCCATACTCCAT 59.928 47.826 20.43 0.00 0.00 3.41
1959 12281 3.119531 CCACTATCAGCCTCTCGATCATC 60.120 52.174 0.00 0.00 0.00 2.92
1960 12282 3.758023 CACTATCAGCCTCTCGATCATCT 59.242 47.826 0.00 0.00 0.00 2.90
1961 12283 4.009675 ACTATCAGCCTCTCGATCATCTC 58.990 47.826 0.00 0.00 0.00 2.75
1985 12307 2.450960 TTACGCGTGTGCATGGCAAC 62.451 55.000 24.59 0.00 41.47 4.17
2035 13398 2.429907 CGATCGATCGGAGGCTGC 60.430 66.667 34.54 0.00 45.93 5.25
2036 13399 2.730733 GATCGATCGGAGGCTGCA 59.269 61.111 16.41 0.00 0.00 4.41
2037 13400 1.372748 GATCGATCGGAGGCTGCAG 60.373 63.158 16.41 10.11 0.00 4.41
2038 13401 3.512223 ATCGATCGGAGGCTGCAGC 62.512 63.158 30.88 30.88 41.14 5.25
2039 13402 4.519437 CGATCGGAGGCTGCAGCA 62.519 66.667 37.63 19.39 44.36 4.41
2040 13403 2.588314 GATCGGAGGCTGCAGCAG 60.588 66.667 37.63 24.78 44.36 4.24
2041 13404 4.172512 ATCGGAGGCTGCAGCAGG 62.173 66.667 37.63 22.97 44.36 4.85
2449 13814 2.280797 TTCAGGTGCACACTCCGC 60.281 61.111 20.43 0.00 34.50 5.54
2450 13815 3.825160 TTCAGGTGCACACTCCGCC 62.825 63.158 20.43 0.00 34.50 6.13
2451 13816 4.320456 CAGGTGCACACTCCGCCT 62.320 66.667 20.43 0.81 43.67 5.52
2452 13817 4.008933 AGGTGCACACTCCGCCTC 62.009 66.667 20.43 0.00 38.82 4.70
2483 13848 2.120909 CCATTCCCCATGCACGACC 61.121 63.158 0.00 0.00 0.00 4.79
2484 13849 2.124736 ATTCCCCATGCACGACCG 60.125 61.111 0.00 0.00 0.00 4.79
2503 13868 7.216317 CACGACCGATTCAGTTGATTAAAATTC 59.784 37.037 0.00 0.00 0.00 2.17
2654 14032 5.860182 TCAAGAAATTCGTCAAGGTACGTAG 59.140 40.000 0.00 0.00 43.31 3.51
2655 14033 4.171754 AGAAATTCGTCAAGGTACGTAGC 58.828 43.478 16.85 16.85 43.31 3.58
2656 14034 3.863142 AATTCGTCAAGGTACGTAGCT 57.137 42.857 21.15 21.15 43.31 3.32
2657 14035 4.970662 AATTCGTCAAGGTACGTAGCTA 57.029 40.909 26.24 10.32 43.31 3.32
2823 14760 7.704578 TTAGGGGAGAATATACTCTTCATCG 57.295 40.000 0.00 0.00 37.13 3.84
2859 14797 4.222810 ACATGGCTAGTGAGTGACATGTTA 59.777 41.667 8.45 0.00 39.46 2.41
2912 14850 5.065704 ACTGAGTTGACATACTACTGCAG 57.934 43.478 13.48 13.48 36.60 4.41
2971 14912 7.094890 GCTAGCAATAGAATTGACATGCATAGT 60.095 37.037 10.63 0.00 36.30 2.12
3080 15021 9.660180 AAACAATAGACAGGATAAAGAGAAGAC 57.340 33.333 0.00 0.00 0.00 3.01
3289 15568 0.035881 TGGGCAGCTGCAGATATAGC 59.964 55.000 37.63 18.74 44.36 2.97
3294 15573 2.141517 CAGCTGCAGATATAGCACACC 58.858 52.381 20.43 0.00 37.02 4.16
3295 15574 2.045524 AGCTGCAGATATAGCACACCT 58.954 47.619 20.43 0.00 37.02 4.00
3296 15575 3.006217 CAGCTGCAGATATAGCACACCTA 59.994 47.826 20.43 0.00 37.02 3.08
3298 15577 3.006323 GCTGCAGATATAGCACACCTAGT 59.994 47.826 20.43 0.00 37.02 2.57
3302 15581 5.305386 TGCAGATATAGCACACCTAGTGATT 59.695 40.000 0.96 0.00 46.49 2.57
3303 15582 6.183361 TGCAGATATAGCACACCTAGTGATTT 60.183 38.462 0.96 0.00 46.49 2.17
3306 15585 9.363763 CAGATATAGCACACCTAGTGATTTATG 57.636 37.037 0.96 0.00 46.49 1.90
3308 15587 4.156455 AGCACACCTAGTGATTTATGGG 57.844 45.455 0.96 0.00 46.49 4.00
3309 15588 3.685550 AGCACACCTAGTGATTTATGGGC 60.686 47.826 0.96 0.00 46.49 5.36
3312 15591 2.880890 CACCTAGTGATTTATGGGCAGC 59.119 50.000 0.00 0.00 35.23 5.25
3510 15869 4.950050 AGTTTCAGACCTACAAGACACAG 58.050 43.478 0.00 0.00 0.00 3.66
3511 15870 4.649674 AGTTTCAGACCTACAAGACACAGA 59.350 41.667 0.00 0.00 0.00 3.41
3532 15893 7.114388 CACAGAAACAGAATGAATTGATGTGTG 59.886 37.037 0.00 0.00 39.69 3.82
3535 15896 9.017509 AGAAACAGAATGAATTGATGTGTGTAT 57.982 29.630 0.00 0.00 39.69 2.29
3628 15994 0.966875 GCAATGACAGGATGGTGGCA 60.967 55.000 0.00 0.00 43.62 4.92
3697 16063 2.722487 CTCGTAGGTAGGCAGGCG 59.278 66.667 0.00 0.00 0.00 5.52
3708 16079 0.533755 AGGCAGGCGCATAGATTCAC 60.534 55.000 10.83 0.00 41.24 3.18
3710 16081 0.305922 GCAGGCGCATAGATTCACAC 59.694 55.000 10.83 0.00 38.36 3.82
3782 16167 6.052360 TCTGTGGTTTTAAAATTTTCAGGGC 58.948 36.000 6.72 0.00 0.00 5.19
3920 16307 4.291249 TCAGGTAATCTAAGGCCAAGGTTT 59.709 41.667 5.01 2.81 0.00 3.27
3921 16308 4.399303 CAGGTAATCTAAGGCCAAGGTTTG 59.601 45.833 5.01 0.00 0.00 2.93
4475 19106 3.898010 GCATCATGCGCAACATCG 58.102 55.556 17.11 3.18 36.64 3.84
4563 19205 8.837788 TGAACATATAGCTGATGATAAACCTG 57.162 34.615 15.27 0.00 0.00 4.00
4564 19206 7.388776 TGAACATATAGCTGATGATAAACCTGC 59.611 37.037 15.27 0.00 0.00 4.85
4694 19348 4.857037 GGCCTTAAAATGCAAGTTCTTACG 59.143 41.667 0.00 0.00 0.00 3.18
4720 19374 6.942576 AGCTAAACTTGTACATGTTCCAGATT 59.057 34.615 22.94 11.81 0.00 2.40
4919 19582 7.954248 CAGTAAGATCTCAAGTTGTCAAAATCG 59.046 37.037 2.11 0.00 0.00 3.34
4954 19618 3.749665 TTTGTGGCCATCTTTTCCTTG 57.250 42.857 9.72 0.00 0.00 3.61
5086 19750 1.154205 CCGACGCCATTCTGGATGTC 61.154 60.000 0.00 3.51 40.96 3.06
5176 19840 4.158579 GGGCTTTTTCACTCCCAAATCTAG 59.841 45.833 0.00 0.00 38.62 2.43
5180 19844 6.153510 GCTTTTTCACTCCCAAATCTAGGAAT 59.846 38.462 0.00 0.00 0.00 3.01
5229 19893 5.850614 TGAAGAACAAGTTCACCTACTACC 58.149 41.667 14.69 0.00 41.84 3.18
5260 19924 5.995282 TGGTATTGTACTTTGTCCAACTGAG 59.005 40.000 0.00 0.00 0.00 3.35
5417 20082 0.465278 GCCTGCTGGATTTCTCCCTC 60.465 60.000 14.77 0.00 41.29 4.30
5469 20134 8.066612 ACATTGGAATTTCTACAGGTATTTGG 57.933 34.615 0.00 0.00 0.00 3.28
5480 20145 8.289939 TCTACAGGTATTTGGAACTAGTGTAG 57.710 38.462 0.00 0.00 37.34 2.74
5532 20204 8.183830 TGTTTTTGTTATAACTCGGGTATACG 57.816 34.615 16.33 0.00 0.00 3.06
5558 21224 0.951040 CAGGCTGGAGAACGAACACC 60.951 60.000 6.61 0.00 0.00 4.16
5647 21316 6.571344 CGGATTGATGATTAGACGGAGAGAAT 60.571 42.308 0.00 0.00 0.00 2.40
5653 21322 6.378710 TGATTAGACGGAGAGAATAGTGTG 57.621 41.667 0.00 0.00 0.00 3.82
5722 21391 2.457598 TGGTTGAGCTGACCCTAGTAG 58.542 52.381 12.16 0.00 36.30 2.57
5902 21571 1.298382 AGGGGGTAGGATCCTCATTGT 59.702 52.381 20.22 0.00 0.00 2.71
5986 21657 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
5987 21658 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
5988 21659 1.265635 GTGTGTGTGTGTGTGTGTGTT 59.734 47.619 0.00 0.00 0.00 3.32
5989 21660 1.265365 TGTGTGTGTGTGTGTGTGTTG 59.735 47.619 0.00 0.00 0.00 3.33
5990 21661 1.265635 GTGTGTGTGTGTGTGTGTTGT 59.734 47.619 0.00 0.00 0.00 3.32
5991 21662 1.265365 TGTGTGTGTGTGTGTGTTGTG 59.735 47.619 0.00 0.00 0.00 3.33
5992 21663 1.265635 GTGTGTGTGTGTGTGTTGTGT 59.734 47.619 0.00 0.00 0.00 3.72
5993 21664 1.265365 TGTGTGTGTGTGTGTTGTGTG 59.735 47.619 0.00 0.00 0.00 3.82
5994 21665 1.265635 GTGTGTGTGTGTGTTGTGTGT 59.734 47.619 0.00 0.00 0.00 3.72
5995 21666 1.265365 TGTGTGTGTGTGTTGTGTGTG 59.735 47.619 0.00 0.00 0.00 3.82
6010 21681 1.561076 TGTGTGCTAGGGATTGATGCT 59.439 47.619 0.00 0.00 0.00 3.79
6050 21721 7.804129 ACGTGTTAATATTTACAACGCAACAAT 59.196 29.630 19.66 6.18 33.36 2.71
6072 21743 5.747951 TTGATTTTGAACAATGGTTTGGC 57.252 34.783 0.00 0.00 37.36 4.52
6080 21751 1.134848 ACAATGGTTTGGCACACACAC 60.135 47.619 6.08 0.00 41.41 3.82
6082 21753 2.278531 GGTTTGGCACACACACGC 60.279 61.111 6.08 0.00 41.41 5.34
6118 21789 5.782893 TGGGGAAGAACACAAAATAACAG 57.217 39.130 0.00 0.00 0.00 3.16
6308 21979 1.227383 GTACCTCCAATGGGCTGGG 59.773 63.158 0.00 0.00 37.06 4.45
6572 22243 3.139077 CTCCGGTAATTCATAGGTTGCC 58.861 50.000 0.00 0.00 0.00 4.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.941431 TCTGGTTTCTTCTACTTCTAGTAGG 57.059 40.000 12.53 0.43 46.25 3.18
2 3 8.251721 GCAATCTGGTTTCTTCTACTTCTAGTA 58.748 37.037 0.00 0.00 0.00 1.82
39 40 2.679996 GGCCGGAGCACCCAAATT 60.680 61.111 5.05 0.00 42.56 1.82
71 72 2.439701 TCGACGTAGGGCCCTCAG 60.440 66.667 32.80 25.75 0.00 3.35
72 73 2.439701 CTCGACGTAGGGCCCTCA 60.440 66.667 32.80 12.66 0.00 3.86
73 74 2.124403 TCTCGACGTAGGGCCCTC 60.124 66.667 32.80 19.24 0.00 4.30
80 81 0.532417 ATCTCGGGGTCTCGACGTAG 60.532 60.000 0.00 0.00 35.18 3.51
81 82 0.107508 AATCTCGGGGTCTCGACGTA 60.108 55.000 0.00 0.00 35.18 3.57
83 84 0.172803 AAAATCTCGGGGTCTCGACG 59.827 55.000 0.00 0.00 35.18 5.12
85 86 0.454600 CGAAAATCTCGGGGTCTCGA 59.545 55.000 0.00 0.00 44.20 4.04
168 375 5.163754 GGTTATTGCATTAGATCCATACGGC 60.164 44.000 0.00 0.00 0.00 5.68
185 399 8.148807 TGGATATATCACACGTTTGGTTATTG 57.851 34.615 14.60 0.00 0.00 1.90
186 400 7.041372 GCTGGATATATCACACGTTTGGTTATT 60.041 37.037 14.60 0.00 0.00 1.40
189 403 4.574828 GCTGGATATATCACACGTTTGGTT 59.425 41.667 14.60 0.00 0.00 3.67
190 404 4.127171 GCTGGATATATCACACGTTTGGT 58.873 43.478 14.60 0.00 0.00 3.67
192 406 4.319046 GCAGCTGGATATATCACACGTTTG 60.319 45.833 17.12 0.00 0.00 2.93
204 418 2.763933 CAACTGATCGCAGCTGGATAT 58.236 47.619 17.12 3.56 46.26 1.63
374 598 7.606131 TCGTTCGTTCGTCTGATATAATTTTG 58.394 34.615 0.00 0.00 0.00 2.44
378 602 6.493116 AGTTCGTTCGTTCGTCTGATATAAT 58.507 36.000 2.67 0.00 0.00 1.28
380 604 5.475273 AGTTCGTTCGTTCGTCTGATATA 57.525 39.130 2.67 0.00 0.00 0.86
382 606 3.818961 AGTTCGTTCGTTCGTCTGATA 57.181 42.857 2.67 0.00 0.00 2.15
384 608 3.607422 TTAGTTCGTTCGTTCGTCTGA 57.393 42.857 2.67 0.00 0.00 3.27
385 609 3.420162 GCTTTAGTTCGTTCGTTCGTCTG 60.420 47.826 2.67 0.00 0.00 3.51
386 610 2.723143 GCTTTAGTTCGTTCGTTCGTCT 59.277 45.455 2.67 5.38 0.00 4.18
388 612 2.462889 TGCTTTAGTTCGTTCGTTCGT 58.537 42.857 0.00 0.00 0.00 3.85
431 680 2.025226 AGGGGTAGACGAAGATGAGTGA 60.025 50.000 0.00 0.00 0.00 3.41
433 682 2.379972 CAGGGGTAGACGAAGATGAGT 58.620 52.381 0.00 0.00 0.00 3.41
598 877 4.209495 GGAACTAATCGTAAAGCAGCTAGC 59.791 45.833 6.62 6.62 46.19 3.42
599 878 5.593010 AGGAACTAATCGTAAAGCAGCTAG 58.407 41.667 0.00 0.00 36.02 3.42
600 879 5.451520 GGAGGAACTAATCGTAAAGCAGCTA 60.452 44.000 0.00 0.00 41.55 3.32
601 880 4.434520 GAGGAACTAATCGTAAAGCAGCT 58.565 43.478 0.00 0.00 41.55 4.24
738 1024 1.396648 ACGAATGTGTGTGTGTGTGTG 59.603 47.619 0.00 0.00 0.00 3.82
739 1025 1.732941 ACGAATGTGTGTGTGTGTGT 58.267 45.000 0.00 0.00 0.00 3.72
750 1036 2.092681 CACTCACGGATGAACGAATGTG 59.907 50.000 0.00 0.00 33.30 3.21
751 1037 2.337583 CACTCACGGATGAACGAATGT 58.662 47.619 0.00 0.00 33.30 2.71
763 1049 2.055042 CCTCTCCTCCCACTCACGG 61.055 68.421 0.00 0.00 0.00 4.94
784 1070 1.792006 TTCTTTCCCGCGTCTCTTTC 58.208 50.000 4.92 0.00 0.00 2.62
793 1079 3.194005 TGGATACTCATTCTTTCCCGC 57.806 47.619 0.00 0.00 37.61 6.13
794 1080 3.990469 CGATGGATACTCATTCTTTCCCG 59.010 47.826 0.00 0.00 37.61 5.14
797 1083 7.308782 ACAAACGATGGATACTCATTCTTTC 57.691 36.000 0.00 0.00 37.61 2.62
798 1084 7.011482 GCTACAAACGATGGATACTCATTCTTT 59.989 37.037 0.00 0.00 37.61 2.52
799 1085 6.480320 GCTACAAACGATGGATACTCATTCTT 59.520 38.462 0.00 0.00 37.61 2.52
800 1086 5.986135 GCTACAAACGATGGATACTCATTCT 59.014 40.000 0.00 0.00 37.61 2.40
801 1087 5.986135 AGCTACAAACGATGGATACTCATTC 59.014 40.000 0.00 0.00 37.61 2.67
802 1088 5.918608 AGCTACAAACGATGGATACTCATT 58.081 37.500 0.00 0.00 37.61 2.57
803 1089 5.537300 AGCTACAAACGATGGATACTCAT 57.463 39.130 0.00 0.00 37.61 2.90
804 1090 5.339008 AAGCTACAAACGATGGATACTCA 57.661 39.130 0.00 0.00 37.61 3.41
806 1092 4.443034 GGGAAGCTACAAACGATGGATACT 60.443 45.833 0.00 0.00 37.61 2.12
807 1093 3.808174 GGGAAGCTACAAACGATGGATAC 59.192 47.826 0.00 0.00 0.00 2.24
808 1094 3.181458 GGGGAAGCTACAAACGATGGATA 60.181 47.826 0.00 0.00 0.00 2.59
819 10911 0.968901 ACACGATCGGGGAAGCTACA 60.969 55.000 23.42 0.00 0.00 2.74
864 10965 0.329596 AGTGATGGGAGAAGCAACCC 59.670 55.000 0.00 0.00 45.74 4.11
939 11050 1.081774 GATCGATCGACCGAGCTGG 60.082 63.158 22.06 0.00 41.21 4.85
1002 11122 4.082895 CGCCTATATACCACACTCCACTAC 60.083 50.000 0.00 0.00 0.00 2.73
1024 11163 0.031857 CATGTCCTCTGCTAGCTCCG 59.968 60.000 17.23 4.62 0.00 4.63
1027 11168 0.829333 CACCATGTCCTCTGCTAGCT 59.171 55.000 17.23 0.00 0.00 3.32
1029 11170 2.499289 ACTTCACCATGTCCTCTGCTAG 59.501 50.000 0.00 0.00 0.00 3.42
1030 11171 2.540383 ACTTCACCATGTCCTCTGCTA 58.460 47.619 0.00 0.00 0.00 3.49
1031 11172 1.356124 ACTTCACCATGTCCTCTGCT 58.644 50.000 0.00 0.00 0.00 4.24
1032 11173 2.079925 GAACTTCACCATGTCCTCTGC 58.920 52.381 0.00 0.00 0.00 4.26
1033 11174 3.594134 GAGAACTTCACCATGTCCTCTG 58.406 50.000 0.00 0.00 0.00 3.35
1034 11175 2.232452 CGAGAACTTCACCATGTCCTCT 59.768 50.000 0.00 0.00 0.00 3.69
1329 11493 2.623416 AGATGATCAACTCGTATCGCCA 59.377 45.455 0.00 0.00 0.00 5.69
1504 11707 3.245754 CACGTCAATTGCTTGCACAATTT 59.754 39.130 11.46 0.00 45.63 1.82
1835 12141 6.127980 CGGTAGTATGGAGTATGGAGTATGTG 60.128 46.154 0.00 0.00 0.00 3.21
1836 12142 5.944599 CGGTAGTATGGAGTATGGAGTATGT 59.055 44.000 0.00 0.00 0.00 2.29
1846 12152 1.311859 CGCACCGGTAGTATGGAGTA 58.688 55.000 6.87 0.00 0.00 2.59
1847 12153 2.012902 GCGCACCGGTAGTATGGAGT 62.013 60.000 6.87 0.00 0.00 3.85
1848 12154 1.299926 GCGCACCGGTAGTATGGAG 60.300 63.158 6.87 0.00 0.00 3.86
1849 12155 2.809706 GCGCACCGGTAGTATGGA 59.190 61.111 6.87 0.00 0.00 3.41
1850 12156 2.657296 CGCGCACCGGTAGTATGG 60.657 66.667 6.87 0.00 0.00 2.74
1851 12157 3.327754 GCGCGCACCGGTAGTATG 61.328 66.667 29.10 0.00 37.44 2.39
1852 12158 3.829044 TGCGCGCACCGGTAGTAT 61.829 61.111 33.09 0.00 37.44 2.12
1853 12159 4.781959 GTGCGCGCACCGGTAGTA 62.782 66.667 45.62 15.78 40.79 1.82
1959 12281 0.666274 TGCACACGCGTAAAGGAGAG 60.666 55.000 13.44 0.00 42.97 3.20
1960 12282 0.037697 ATGCACACGCGTAAAGGAGA 60.038 50.000 13.44 0.00 42.97 3.71
1961 12283 0.095245 CATGCACACGCGTAAAGGAG 59.905 55.000 13.44 0.00 42.97 3.69
1985 12307 1.985447 GATGGTGCTCACGTGCCATG 61.985 60.000 24.47 10.67 41.33 3.66
2034 13397 3.720193 CGTGTCAGTGCCTGCTGC 61.720 66.667 0.00 0.00 41.77 5.25
2035 13398 3.720193 GCGTGTCAGTGCCTGCTG 61.720 66.667 0.00 0.00 37.81 4.41
2036 13399 3.541950 ATGCGTGTCAGTGCCTGCT 62.542 57.895 0.00 0.00 0.00 4.24
2037 13400 3.052082 ATGCGTGTCAGTGCCTGC 61.052 61.111 0.00 0.00 0.00 4.85
2038 13401 2.683859 CCATGCGTGTCAGTGCCTG 61.684 63.158 4.96 0.00 0.00 4.85
2039 13402 2.359107 CCATGCGTGTCAGTGCCT 60.359 61.111 4.96 0.00 0.00 4.75
2040 13403 4.107051 GCCATGCGTGTCAGTGCC 62.107 66.667 4.96 0.00 0.00 5.01
2041 13404 3.356267 TGCCATGCGTGTCAGTGC 61.356 61.111 4.96 1.04 0.00 4.40
2463 13828 2.755064 CGTGCATGGGGAATGGCA 60.755 61.111 0.00 0.00 36.71 4.92
2469 13834 2.587322 GAATCGGTCGTGCATGGGGA 62.587 60.000 5.98 1.60 0.00 4.81
2471 13836 1.431488 CTGAATCGGTCGTGCATGGG 61.431 60.000 5.98 0.00 0.00 4.00
2483 13848 8.863049 CAAAGGGAATTTTAATCAACTGAATCG 58.137 33.333 0.00 0.00 0.00 3.34
2484 13849 8.659491 GCAAAGGGAATTTTAATCAACTGAATC 58.341 33.333 0.00 0.00 0.00 2.52
2654 14032 7.273815 GGCAGAGTAAGATAATTATGACGTAGC 59.726 40.741 1.78 5.21 0.00 3.58
2655 14033 7.755822 GGGCAGAGTAAGATAATTATGACGTAG 59.244 40.741 1.78 0.00 0.00 3.51
2656 14034 7.231925 TGGGCAGAGTAAGATAATTATGACGTA 59.768 37.037 1.78 0.00 0.00 3.57
2657 14035 6.041637 TGGGCAGAGTAAGATAATTATGACGT 59.958 38.462 1.78 0.00 0.00 4.34
2823 14760 5.641209 CACTAGCCATGTCTTGATTATAGCC 59.359 44.000 0.00 0.00 0.00 3.93
2859 14797 4.296056 AGGACGACCCTAAAAGATACCAT 58.704 43.478 0.00 0.00 45.48 3.55
2912 14850 0.322008 AGAGCTAGGCCAGTGCAAAC 60.322 55.000 5.01 2.37 40.13 2.93
2921 14859 4.327680 TCTTTTTCTTTCAGAGCTAGGCC 58.672 43.478 0.00 0.00 0.00 5.19
2971 14912 5.733676 TCACTATTGCTAGCATCAGTTCAA 58.266 37.500 20.13 9.33 0.00 2.69
3017 14958 1.690352 CCTGGCCATCCATTTTCCATC 59.310 52.381 5.51 0.00 42.51 3.51
3018 14959 1.291637 TCCTGGCCATCCATTTTCCAT 59.708 47.619 5.51 0.00 42.51 3.41
3019 14960 0.709397 TCCTGGCCATCCATTTTCCA 59.291 50.000 5.51 0.00 42.51 3.53
3020 14961 1.482182 GTTCCTGGCCATCCATTTTCC 59.518 52.381 5.51 0.00 42.51 3.13
3080 15021 8.341892 TGATGCTACTAGTGGAGAATATACTG 57.658 38.462 10.90 0.00 0.00 2.74
3176 15359 8.293867 CCAGATTAAGAGCTGATACTACTACAC 58.706 40.741 0.00 0.00 41.81 2.90
3294 15573 3.562973 CAGTGCTGCCCATAAATCACTAG 59.437 47.826 0.00 0.00 33.93 2.57
3295 15574 3.544684 CAGTGCTGCCCATAAATCACTA 58.455 45.455 0.00 0.00 33.93 2.74
3296 15575 2.372264 CAGTGCTGCCCATAAATCACT 58.628 47.619 0.00 0.00 35.42 3.41
3298 15577 1.284491 TCCAGTGCTGCCCATAAATCA 59.716 47.619 0.00 0.00 0.00 2.57
3299 15578 2.057137 TCCAGTGCTGCCCATAAATC 57.943 50.000 0.00 0.00 0.00 2.17
3300 15579 2.530460 TTCCAGTGCTGCCCATAAAT 57.470 45.000 0.00 0.00 0.00 1.40
3302 15581 2.300956 TTTTCCAGTGCTGCCCATAA 57.699 45.000 0.00 0.00 0.00 1.90
3303 15582 2.300956 TTTTTCCAGTGCTGCCCATA 57.699 45.000 0.00 0.00 0.00 2.74
3340 15677 1.535462 GCCGTCAGCAAACTACACATT 59.465 47.619 0.00 0.00 42.97 2.71
3356 15704 1.535860 GCATTTTGTGTCAGTTGCCGT 60.536 47.619 0.00 0.00 0.00 5.68
3532 15893 6.000891 TGCTCGAAATTTCATGGCATATAC 57.999 37.500 17.99 0.00 0.00 1.47
3535 15896 3.316029 CCTGCTCGAAATTTCATGGCATA 59.684 43.478 21.48 7.86 0.00 3.14
3628 15994 1.349688 TGCGGGTTGAGGTACTTCATT 59.650 47.619 8.68 0.00 41.55 2.57
3697 16063 5.121811 AGGACTGAATGTGTGAATCTATGC 58.878 41.667 0.00 0.00 0.00 3.14
3708 16079 4.162320 AGGTACATGGTAGGACTGAATGTG 59.838 45.833 0.00 0.00 33.67 3.21
3710 16081 6.459066 CATAGGTACATGGTAGGACTGAATG 58.541 44.000 0.00 0.00 0.00 2.67
3782 16167 0.667993 ACAAATGTGCCCGTGAACAG 59.332 50.000 0.00 0.00 0.00 3.16
3920 16307 7.009550 AGAACAGAGCTCTTATCTATGATCCA 58.990 38.462 21.16 0.00 28.72 3.41
3921 16308 7.466746 AGAACAGAGCTCTTATCTATGATCC 57.533 40.000 21.16 4.03 28.72 3.36
4408 16987 1.237285 ACACATTGAACGGGCAGAGC 61.237 55.000 0.00 0.00 0.00 4.09
4475 19106 4.642429 ACCTTGTAGAATGGTGAGAACAC 58.358 43.478 0.00 0.00 45.27 3.32
4563 19205 1.318158 CCTGGATCACAAGGCAAGGC 61.318 60.000 0.00 0.00 0.00 4.35
4564 19206 0.038744 ACCTGGATCACAAGGCAAGG 59.961 55.000 0.00 0.00 0.00 3.61
4643 19291 4.569162 GGCTGTAGTGTAATCGTGCAATTA 59.431 41.667 0.00 0.00 0.00 1.40
4645 19293 2.936498 GGCTGTAGTGTAATCGTGCAAT 59.064 45.455 0.00 0.00 0.00 3.56
4646 19294 2.028476 AGGCTGTAGTGTAATCGTGCAA 60.028 45.455 0.00 0.00 0.00 4.08
4694 19348 5.932303 TCTGGAACATGTACAAGTTTAGCTC 59.068 40.000 16.86 4.85 38.20 4.09
4720 19374 5.241403 ACTCCATGTGTCTTAACAATGGA 57.759 39.130 15.33 15.33 43.28 3.41
4954 19618 7.764901 CCTCTATGTACCTTCTTAAACACTTCC 59.235 40.741 0.00 0.00 0.00 3.46
5176 19840 2.303022 TCATCCCGAAGCCATAGATTCC 59.697 50.000 0.00 0.00 34.85 3.01
5180 19844 2.828520 GAGATCATCCCGAAGCCATAGA 59.171 50.000 0.00 0.00 0.00 1.98
5229 19893 6.432783 TGGACAAAGTACAATACCATGGAAAG 59.567 38.462 21.47 7.71 0.00 2.62
5417 20082 1.337260 CGGATTATCTCCAAGGAGGCG 60.337 57.143 15.74 0.00 45.24 5.52
5438 20103 3.938963 TGTAGAAATTCCAATGTCCTCGC 59.061 43.478 0.00 0.00 0.00 5.03
5469 20134 5.584253 TGATTCCAGCTCTACACTAGTTC 57.416 43.478 0.00 0.00 0.00 3.01
5480 20145 7.565323 AAACTGAAGATATTGATTCCAGCTC 57.435 36.000 0.00 0.00 0.00 4.09
5528 20200 1.149174 CCAGCCTGCAATCCCGTAT 59.851 57.895 0.00 0.00 0.00 3.06
5529 20201 1.971505 CTCCAGCCTGCAATCCCGTA 61.972 60.000 0.00 0.00 0.00 4.02
5532 20204 1.034292 GTTCTCCAGCCTGCAATCCC 61.034 60.000 0.00 0.00 0.00 3.85
5558 21224 4.044336 TGAACTTGCCAACATTGTTCAG 57.956 40.909 6.03 0.00 40.98 3.02
5647 21316 0.250234 GGGAGCATGCTGTCACACTA 59.750 55.000 28.27 0.00 0.00 2.74
5653 21322 1.312815 GGTATTGGGAGCATGCTGTC 58.687 55.000 28.27 16.99 0.00 3.51
5902 21571 6.358991 TCTATGCACATCAATCTTCAATGGA 58.641 36.000 0.00 0.00 0.00 3.41
5948 21617 4.821260 ACACACACACAGCTTAATCATCAA 59.179 37.500 0.00 0.00 0.00 2.57
5986 21657 2.778299 TCAATCCCTAGCACACACAAC 58.222 47.619 0.00 0.00 0.00 3.32
5987 21658 3.346315 CATCAATCCCTAGCACACACAA 58.654 45.455 0.00 0.00 0.00 3.33
5988 21659 2.940971 GCATCAATCCCTAGCACACACA 60.941 50.000 0.00 0.00 0.00 3.72
5989 21660 1.672881 GCATCAATCCCTAGCACACAC 59.327 52.381 0.00 0.00 0.00 3.82
5990 21661 1.561076 AGCATCAATCCCTAGCACACA 59.439 47.619 0.00 0.00 0.00 3.72
5991 21662 2.338577 AGCATCAATCCCTAGCACAC 57.661 50.000 0.00 0.00 0.00 3.82
5992 21663 3.711190 TCTTAGCATCAATCCCTAGCACA 59.289 43.478 0.00 0.00 0.00 4.57
5993 21664 4.342862 TCTTAGCATCAATCCCTAGCAC 57.657 45.455 0.00 0.00 0.00 4.40
5994 21665 6.686484 TTATCTTAGCATCAATCCCTAGCA 57.314 37.500 0.00 0.00 0.00 3.49
5995 21666 9.844257 AATATTATCTTAGCATCAATCCCTAGC 57.156 33.333 0.00 0.00 0.00 3.42
6036 21707 7.063426 TGTTCAAAATCAATTGTTGCGTTGTAA 59.937 29.630 5.13 0.00 0.00 2.41
6037 21708 6.531594 TGTTCAAAATCAATTGTTGCGTTGTA 59.468 30.769 5.13 0.00 0.00 2.41
6050 21721 5.065731 GTGCCAAACCATTGTTCAAAATCAA 59.934 36.000 0.00 0.00 34.60 2.57
6072 21743 0.380024 TGGATTGTTGCGTGTGTGTG 59.620 50.000 0.00 0.00 0.00 3.82
6118 21789 9.884465 GTTATGCCTATTGTATCTTGTTTCATC 57.116 33.333 0.00 0.00 0.00 2.92
6572 22243 1.615392 CTGAAAAAGGGGAGGCTTGTG 59.385 52.381 0.00 0.00 0.00 3.33
6686 22357 3.110178 GGTGGAACGGCGAACTCG 61.110 66.667 16.62 0.00 38.12 4.18


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

AutoCloner maintained by Alex Coulton.