Multiple sequence alignment - TraesCS7D01G426600

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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 TraesCS7D01G426600 chr7D 100.000 2750 0 0 1 2750 547459221 547456472 0.000000e+00 5079.0
1 TraesCS7D01G426600 chr7A 89.153 2268 112 57 111 2326 631364182 631366367 0.000000e+00 2702.0
2 TraesCS7D01G426600 chr7A 91.342 231 4 4 2526 2750 631366610 631366830 4.450000e-78 302.0
3 TraesCS7D01G426600 chr7B 91.742 1889 76 36 478 2337 590501647 590499810 0.000000e+00 2551.0
4 TraesCS7D01G426600 chr7B 85.127 316 17 8 155 452 590501934 590501631 2.070000e-76 296.0
5 TraesCS7D01G426600 chr7B 99.099 111 1 0 2610 2720 590498944 590498834 1.670000e-47 200.0
6 TraesCS7D01G426600 chr7B 95.495 111 5 0 1 111 404008956 404008846 7.830000e-41 178.0
7 TraesCS7D01G426600 chr7B 84.524 84 3 1 2529 2612 590499556 590499483 1.060000e-09 75.0
8 TraesCS7D01G426600 chr5B 95.495 111 5 0 1 111 559145989 559146099 7.830000e-41 178.0
9 TraesCS7D01G426600 chr5B 94.690 113 6 0 1 113 508186392 508186504 2.810000e-40 176.0
10 TraesCS7D01G426600 chr5B 80.000 110 19 3 1302 1411 656926020 656926126 8.170000e-11 78.7
11 TraesCS7D01G426600 chr4A 95.495 111 5 0 1 111 726410349 726410459 7.830000e-41 178.0
12 TraesCS7D01G426600 chr4A 72.321 560 107 34 1202 1738 68141579 68142113 6.180000e-27 132.0
13 TraesCS7D01G426600 chr4A 77.404 208 35 11 1211 1412 449117542 449117341 2.240000e-21 113.0
14 TraesCS7D01G426600 chr3D 95.495 111 5 0 1 111 83428686 83428796 7.830000e-41 178.0
15 TraesCS7D01G426600 chr3B 95.495 111 5 0 1 111 139947365 139947255 7.830000e-41 178.0
16 TraesCS7D01G426600 chr3A 94.643 112 6 0 1 112 642912199 642912310 1.010000e-39 174.0
17 TraesCS7D01G426600 chr3A 91.200 125 8 2 1 124 541701051 541700929 1.690000e-37 167.0
18 TraesCS7D01G426600 chr2B 94.643 112 6 0 1 112 510353113 510353002 1.010000e-39 174.0
19 TraesCS7D01G426600 chr5D 72.321 560 106 37 1202 1746 424033433 424033958 2.220000e-26 130.0
20 TraesCS7D01G426600 chr5D 72.234 461 95 26 1302 1738 520910224 520910675 8.050000e-21 111.0
21 TraesCS7D01G426600 chr4B 77.990 209 38 8 1208 1412 184865091 184865295 1.030000e-24 124.0
22 TraesCS7D01G426600 chr4B 72.636 497 91 33 1271 1737 494692158 494691677 3.720000e-24 122.0
23 TraesCS7D01G426600 chr4D 77.251 211 36 11 1208 1412 121970959 121971163 2.240000e-21 113.0


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 TraesCS7D01G426600 chr7D 547456472 547459221 2749 True 5079.0 5079 100.0000 1 2750 1 chr7D.!!$R1 2749
1 TraesCS7D01G426600 chr7A 631364182 631366830 2648 False 1502.0 2702 90.2475 111 2750 2 chr7A.!!$F1 2639
2 TraesCS7D01G426600 chr7B 590498834 590501934 3100 True 780.5 2551 90.1230 155 2720 4 chr7B.!!$R2 2565

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
424 453 0.03309 TGGCGCATGCATTCAAAACA 59.967 45.0 19.57 1.2 45.35 2.83 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2049 2141 0.096976 ATGAATGCAAGCACGTACGC 59.903 50.0 16.72 0.0 0.0 4.42 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
73 74 8.514330 AACTTTATGTAGTTTGACTTTGACCA 57.486 30.769 0.00 0.00 34.81 4.02
74 75 8.514330 ACTTTATGTAGTTTGACTTTGACCAA 57.486 30.769 0.00 0.00 0.00 3.67
75 76 8.962679 ACTTTATGTAGTTTGACTTTGACCAAA 58.037 29.630 0.00 0.00 0.00 3.28
76 77 9.965824 CTTTATGTAGTTTGACTTTGACCAAAT 57.034 29.630 0.00 0.00 35.14 2.32
77 78 9.959749 TTTATGTAGTTTGACTTTGACCAAATC 57.040 29.630 0.00 0.00 35.14 2.17
78 79 7.823745 ATGTAGTTTGACTTTGACCAAATCT 57.176 32.000 0.00 0.00 35.14 2.40
79 80 7.639113 TGTAGTTTGACTTTGACCAAATCTT 57.361 32.000 0.00 0.00 35.14 2.40
80 81 8.740123 TGTAGTTTGACTTTGACCAAATCTTA 57.260 30.769 0.00 0.00 35.14 2.10
81 82 9.349713 TGTAGTTTGACTTTGACCAAATCTTAT 57.650 29.630 0.00 0.00 35.14 1.73
85 86 9.076596 GTTTGACTTTGACCAAATCTTATATGC 57.923 33.333 0.00 0.00 35.14 3.14
86 87 7.015226 TGACTTTGACCAAATCTTATATGCG 57.985 36.000 0.00 0.00 0.00 4.73
87 88 6.038161 TGACTTTGACCAAATCTTATATGCGG 59.962 38.462 0.00 0.00 0.00 5.69
88 89 6.119536 ACTTTGACCAAATCTTATATGCGGA 58.880 36.000 0.00 0.00 0.00 5.54
89 90 6.260936 ACTTTGACCAAATCTTATATGCGGAG 59.739 38.462 0.00 0.00 0.00 4.63
90 91 5.290493 TGACCAAATCTTATATGCGGAGT 57.710 39.130 0.00 0.00 0.00 3.85
91 92 6.413783 TGACCAAATCTTATATGCGGAGTA 57.586 37.500 0.00 0.00 0.00 2.59
92 93 6.822442 TGACCAAATCTTATATGCGGAGTAA 58.178 36.000 0.00 0.00 0.00 2.24
93 94 7.276658 TGACCAAATCTTATATGCGGAGTAAA 58.723 34.615 0.00 0.00 0.00 2.01
94 95 7.771361 TGACCAAATCTTATATGCGGAGTAAAA 59.229 33.333 0.00 0.00 0.00 1.52
95 96 8.514330 ACCAAATCTTATATGCGGAGTAAAAA 57.486 30.769 0.00 0.00 0.00 1.94
96 97 9.131791 ACCAAATCTTATATGCGGAGTAAAAAT 57.868 29.630 0.00 0.00 0.00 1.82
105 106 5.291293 TGCGGAGTAAAAATAAACAGAGC 57.709 39.130 0.00 0.00 0.00 4.09
106 107 4.142988 TGCGGAGTAAAAATAAACAGAGCG 60.143 41.667 0.00 0.00 0.00 5.03
107 108 4.092383 GCGGAGTAAAAATAAACAGAGCGA 59.908 41.667 0.00 0.00 0.00 4.93
108 109 5.724223 GCGGAGTAAAAATAAACAGAGCGAG 60.724 44.000 0.00 0.00 0.00 5.03
109 110 5.347907 CGGAGTAAAAATAAACAGAGCGAGT 59.652 40.000 0.00 0.00 0.00 4.18
110 111 6.529125 CGGAGTAAAAATAAACAGAGCGAGTA 59.471 38.462 0.00 0.00 0.00 2.59
111 112 7.062605 CGGAGTAAAAATAAACAGAGCGAGTAA 59.937 37.037 0.00 0.00 0.00 2.24
112 113 8.381387 GGAGTAAAAATAAACAGAGCGAGTAAG 58.619 37.037 0.00 0.00 0.00 2.34
113 114 8.252964 AGTAAAAATAAACAGAGCGAGTAAGG 57.747 34.615 0.00 0.00 0.00 2.69
114 115 6.496338 AAAAATAAACAGAGCGAGTAAGGG 57.504 37.500 0.00 0.00 0.00 3.95
115 116 2.667473 TAAACAGAGCGAGTAAGGGC 57.333 50.000 0.00 0.00 0.00 5.19
116 117 0.685097 AAACAGAGCGAGTAAGGGCA 59.315 50.000 0.00 0.00 0.00 5.36
117 118 0.905357 AACAGAGCGAGTAAGGGCAT 59.095 50.000 0.00 0.00 0.00 4.40
118 119 0.905357 ACAGAGCGAGTAAGGGCATT 59.095 50.000 0.00 0.00 0.00 3.56
119 120 1.134670 ACAGAGCGAGTAAGGGCATTC 60.135 52.381 0.00 0.00 0.00 2.67
142 143 0.531090 TCCTGTTTGACGTTGGTCCG 60.531 55.000 0.00 0.00 42.73 4.79
143 144 0.531090 CCTGTTTGACGTTGGTCCGA 60.531 55.000 0.00 0.00 42.73 4.55
147 148 2.159128 TGTTTGACGTTGGTCCGAGTAA 60.159 45.455 0.00 0.00 42.73 2.24
159 165 3.760684 GGTCCGAGTAAGAGTAGGTTGAA 59.239 47.826 0.00 0.00 0.00 2.69
210 216 2.326428 TCCGTGAAGGAGAGGAGTTTT 58.674 47.619 0.00 0.00 45.98 2.43
216 222 3.181443 TGAAGGAGAGGAGTTTTTGGGAC 60.181 47.826 0.00 0.00 0.00 4.46
226 232 1.681264 GTTTTTGGGACCAGTGGAGTG 59.319 52.381 18.40 0.00 0.00 3.51
227 233 1.217916 TTTTGGGACCAGTGGAGTGA 58.782 50.000 18.40 0.00 0.00 3.41
228 234 1.217916 TTTGGGACCAGTGGAGTGAA 58.782 50.000 18.40 0.03 0.00 3.18
355 379 2.301346 CAATCAATCCTACACTGGGCC 58.699 52.381 0.00 0.00 0.00 5.80
375 404 1.062002 CGCGACAACAACACTCAAACT 59.938 47.619 0.00 0.00 0.00 2.66
376 405 2.705154 GCGACAACAACACTCAAACTC 58.295 47.619 0.00 0.00 0.00 3.01
377 406 2.845764 GCGACAACAACACTCAAACTCG 60.846 50.000 0.00 0.00 0.00 4.18
378 407 2.705154 GACAACAACACTCAAACTCGC 58.295 47.619 0.00 0.00 0.00 5.03
379 408 2.080693 ACAACAACACTCAAACTCGCA 58.919 42.857 0.00 0.00 0.00 5.10
380 409 2.682856 ACAACAACACTCAAACTCGCAT 59.317 40.909 0.00 0.00 0.00 4.73
421 450 1.079956 GGTGGCGCATGCATTCAAA 60.080 52.632 19.57 0.00 45.35 2.69
422 451 0.669932 GGTGGCGCATGCATTCAAAA 60.670 50.000 19.57 0.00 45.35 2.44
423 452 0.439600 GTGGCGCATGCATTCAAAAC 59.560 50.000 19.57 1.84 45.35 2.43
424 453 0.033090 TGGCGCATGCATTCAAAACA 59.967 45.000 19.57 1.20 45.35 2.83
453 482 6.127842 ACGTGTCTAAACATGGTTTTTGTCTT 60.128 34.615 0.00 0.00 45.11 3.01
550 582 3.324556 CACCATCACCTTCCCATTTTTGT 59.675 43.478 0.00 0.00 0.00 2.83
622 654 0.677414 GAACCGCCCGTCCCAAAATA 60.677 55.000 0.00 0.00 0.00 1.40
630 662 2.210116 CCGTCCCAAAATATCGGTGAG 58.790 52.381 0.00 0.00 36.99 3.51
633 665 2.092592 GTCCCAAAATATCGGTGAGGGT 60.093 50.000 0.00 0.00 36.24 4.34
637 669 3.627577 CCAAAATATCGGTGAGGGTGAAG 59.372 47.826 0.00 0.00 0.00 3.02
641 673 0.613777 ATCGGTGAGGGTGAAGGTTC 59.386 55.000 0.00 0.00 0.00 3.62
642 674 0.471211 TCGGTGAGGGTGAAGGTTCT 60.471 55.000 0.00 0.00 0.00 3.01
643 675 0.037232 CGGTGAGGGTGAAGGTTCTC 60.037 60.000 0.00 0.00 0.00 2.87
644 676 1.353091 GGTGAGGGTGAAGGTTCTCT 58.647 55.000 0.00 0.00 0.00 3.10
645 677 1.276705 GGTGAGGGTGAAGGTTCTCTC 59.723 57.143 0.00 0.00 0.00 3.20
646 678 1.067495 GTGAGGGTGAAGGTTCTCTCG 60.067 57.143 0.00 0.00 0.00 4.04
647 679 0.108567 GAGGGTGAAGGTTCTCTCGC 60.109 60.000 0.00 0.00 0.00 5.03
648 680 0.832135 AGGGTGAAGGTTCTCTCGCA 60.832 55.000 0.00 0.00 0.00 5.10
659 691 1.454201 TCTCTCGCACTCTCGTTCAT 58.546 50.000 0.00 0.00 0.00 2.57
660 692 1.131315 TCTCTCGCACTCTCGTTCATG 59.869 52.381 0.00 0.00 0.00 3.07
661 693 0.171231 TCTCGCACTCTCGTTCATGG 59.829 55.000 0.00 0.00 0.00 3.66
662 694 0.109086 CTCGCACTCTCGTTCATGGT 60.109 55.000 0.00 0.00 0.00 3.55
663 695 0.388520 TCGCACTCTCGTTCATGGTG 60.389 55.000 0.00 0.00 0.00 4.17
665 697 0.037326 GCACTCTCGTTCATGGTGGA 60.037 55.000 0.00 0.00 0.00 4.02
669 701 3.372206 CACTCTCGTTCATGGTGGATTTC 59.628 47.826 0.00 0.00 0.00 2.17
681 713 1.462616 TGGATTTCCCATTCGCAGTG 58.537 50.000 0.00 0.00 40.82 3.66
696 728 3.059188 TCGCAGTGGATTTTCTCGTTTTC 60.059 43.478 0.00 0.00 0.00 2.29
714 763 2.519826 CACGGGCAGTGCATTTTTG 58.480 52.632 18.61 2.29 44.72 2.44
719 768 1.000731 GGGCAGTGCATTTTTGTAGCA 59.999 47.619 18.61 0.00 35.63 3.49
800 855 1.137086 CGATGACCGATCCCAGACTTT 59.863 52.381 0.00 0.00 41.76 2.66
845 900 0.863956 AAAACCCACCCTCCATCCAA 59.136 50.000 0.00 0.00 0.00 3.53
881 936 5.482175 CCCAAAACCCTCATTAAATACACCA 59.518 40.000 0.00 0.00 0.00 4.17
953 1008 0.832135 TCCACTCCACTCCAGTCCAC 60.832 60.000 0.00 0.00 0.00 4.02
954 1009 1.674057 CACTCCACTCCAGTCCACC 59.326 63.158 0.00 0.00 0.00 4.61
1795 1850 0.951040 CCGAACCTGAAGACAGTGGC 60.951 60.000 0.00 0.00 42.05 5.01
1942 2032 0.252197 GTTCGTGGTAGGCCTGGATT 59.748 55.000 17.99 0.00 35.27 3.01
1944 2034 1.153168 CGTGGTAGGCCTGGATTGG 60.153 63.158 17.99 0.00 35.27 3.16
1946 2036 1.209621 GTGGTAGGCCTGGATTGGTA 58.790 55.000 17.99 0.00 35.27 3.25
1947 2037 1.774856 GTGGTAGGCCTGGATTGGTAT 59.225 52.381 17.99 0.00 35.27 2.73
2034 2126 1.077716 CCCCGGTTGATTCTGTCCC 60.078 63.158 0.00 0.00 0.00 4.46
2035 2127 1.562672 CCCCGGTTGATTCTGTCCCT 61.563 60.000 0.00 0.00 0.00 4.20
2036 2128 0.107654 CCCGGTTGATTCTGTCCCTC 60.108 60.000 0.00 0.00 0.00 4.30
2037 2129 0.613260 CCGGTTGATTCTGTCCCTCA 59.387 55.000 0.00 0.00 0.00 3.86
2038 2130 1.210478 CCGGTTGATTCTGTCCCTCAT 59.790 52.381 0.00 0.00 0.00 2.90
2039 2131 2.283298 CGGTTGATTCTGTCCCTCATG 58.717 52.381 0.00 0.00 0.00 3.07
2040 2132 2.355108 CGGTTGATTCTGTCCCTCATGT 60.355 50.000 0.00 0.00 0.00 3.21
2044 2136 2.237143 TGATTCTGTCCCTCATGTGTCC 59.763 50.000 0.00 0.00 0.00 4.02
2046 2138 1.561643 TCTGTCCCTCATGTGTCCTC 58.438 55.000 0.00 0.00 0.00 3.71
2047 2139 0.174389 CTGTCCCTCATGTGTCCTCG 59.826 60.000 0.00 0.00 0.00 4.63
2049 2141 0.457851 GTCCCTCATGTGTCCTCGAG 59.542 60.000 5.13 5.13 0.00 4.04
2050 2142 1.142748 CCCTCATGTGTCCTCGAGC 59.857 63.158 6.99 0.00 0.00 5.03
2051 2143 1.226802 CCTCATGTGTCCTCGAGCG 60.227 63.158 6.99 0.19 0.00 5.03
2052 2144 1.508545 CTCATGTGTCCTCGAGCGT 59.491 57.895 6.99 0.00 0.00 5.07
2053 2145 0.733150 CTCATGTGTCCTCGAGCGTA 59.267 55.000 6.99 0.00 0.00 4.42
2092 2184 7.408756 TTCATTTTTCCTGCATTGCTAGTAT 57.591 32.000 10.49 0.00 0.00 2.12
2096 2188 6.441093 TTTTCCTGCATTGCTAGTATCTTG 57.559 37.500 10.49 0.00 0.00 3.02
2097 2189 4.077300 TCCTGCATTGCTAGTATCTTGG 57.923 45.455 10.49 0.00 0.00 3.61
2098 2190 3.711190 TCCTGCATTGCTAGTATCTTGGA 59.289 43.478 10.49 1.54 0.00 3.53
2099 2191 4.349048 TCCTGCATTGCTAGTATCTTGGAT 59.651 41.667 10.49 0.00 0.00 3.41
2100 2192 5.543790 TCCTGCATTGCTAGTATCTTGGATA 59.456 40.000 10.49 0.00 0.00 2.59
2104 2196 8.366359 TGCATTGCTAGTATCTTGGATAGATA 57.634 34.615 10.49 0.00 41.89 1.98
2350 2458 2.701423 TGGTAGCACACTCCAGTTTGTA 59.299 45.455 0.00 0.00 0.00 2.41
2351 2459 3.064931 GGTAGCACACTCCAGTTTGTAC 58.935 50.000 0.00 0.00 0.00 2.90
2352 2460 1.865865 AGCACACTCCAGTTTGTACG 58.134 50.000 0.00 0.00 0.00 3.67
2353 2461 1.138266 AGCACACTCCAGTTTGTACGT 59.862 47.619 0.00 0.00 0.00 3.57
2359 2467 2.560105 ACTCCAGTTTGTACGTACTCCC 59.440 50.000 25.12 12.85 0.00 4.30
2368 2476 1.177895 TACGTACTCCCGTGCAACCA 61.178 55.000 0.00 0.00 41.92 3.67
2404 2552 3.552384 AACCTCGCCGGGTTCACA 61.552 61.111 2.18 0.00 45.38 3.58
2406 2554 4.308458 CCTCGCCGGGTTCACACA 62.308 66.667 2.18 0.00 0.00 3.72
2407 2555 2.280524 CTCGCCGGGTTCACACAA 60.281 61.111 2.18 0.00 0.00 3.33
2409 2557 1.841663 CTCGCCGGGTTCACACAAAG 61.842 60.000 2.18 0.00 0.00 2.77
2412 2560 1.104577 GCCGGGTTCACACAAAGGAA 61.105 55.000 2.18 0.00 0.00 3.36
2414 2564 1.384525 CGGGTTCACACAAAGGAACA 58.615 50.000 6.82 0.00 43.96 3.18
2416 2566 2.360801 CGGGTTCACACAAAGGAACATT 59.639 45.455 6.82 0.00 43.96 2.71
2427 2577 7.582319 CACACAAAGGAACATTTAAATTTTCGC 59.418 33.333 16.87 11.70 0.00 4.70
2430 2580 7.494298 ACAAAGGAACATTTAAATTTTCGCTGT 59.506 29.630 16.87 15.77 0.00 4.40
2432 2582 8.742554 AAGGAACATTTAAATTTTCGCTGTAG 57.257 30.769 16.87 0.00 0.00 2.74
2433 2583 7.312899 AGGAACATTTAAATTTTCGCTGTAGG 58.687 34.615 16.87 0.00 0.00 3.18
2434 2584 7.175990 AGGAACATTTAAATTTTCGCTGTAGGA 59.824 33.333 16.87 0.00 0.00 2.94
2435 2585 7.810759 GGAACATTTAAATTTTCGCTGTAGGAA 59.189 33.333 16.87 0.00 0.00 3.36
2436 2586 9.187455 GAACATTTAAATTTTCGCTGTAGGAAA 57.813 29.630 10.47 0.00 0.00 3.13
2437 2587 9.705290 AACATTTAAATTTTCGCTGTAGGAAAT 57.295 25.926 0.00 0.00 33.74 2.17
2446 2596 8.556213 TTTTCGCTGTAGGAAATAATACAAGT 57.444 30.769 0.00 0.00 33.74 3.16
2448 2598 6.278363 TCGCTGTAGGAAATAATACAAGTCC 58.722 40.000 0.00 0.00 31.81 3.85
2449 2599 6.097839 TCGCTGTAGGAAATAATACAAGTCCT 59.902 38.462 0.00 0.00 41.60 3.85
2450 2600 6.421202 CGCTGTAGGAAATAATACAAGTCCTC 59.579 42.308 0.00 0.00 39.46 3.71
2451 2601 6.421202 GCTGTAGGAAATAATACAAGTCCTCG 59.579 42.308 0.00 0.00 39.46 4.63
2453 2603 7.262772 TGTAGGAAATAATACAAGTCCTCGTG 58.737 38.462 0.00 0.00 39.46 4.35
2455 2605 6.708285 AGGAAATAATACAAGTCCTCGTGTT 58.292 36.000 0.00 0.00 33.26 3.32
2457 2607 7.664318 AGGAAATAATACAAGTCCTCGTGTTTT 59.336 33.333 0.00 0.00 33.26 2.43
2460 2610 8.617290 AATAATACAAGTCCTCGTGTTTTCTT 57.383 30.769 0.00 0.00 37.45 2.52
2461 2611 5.924475 ATACAAGTCCTCGTGTTTTCTTG 57.076 39.130 0.00 0.00 37.45 3.02
2462 2612 2.354821 ACAAGTCCTCGTGTTTTCTTGC 59.645 45.455 0.00 0.00 36.69 4.01
2463 2613 2.325583 AGTCCTCGTGTTTTCTTGCA 57.674 45.000 0.00 0.00 0.00 4.08
2464 2614 1.940613 AGTCCTCGTGTTTTCTTGCAC 59.059 47.619 0.00 0.00 0.00 4.57
2465 2615 1.002792 GTCCTCGTGTTTTCTTGCACC 60.003 52.381 0.00 0.00 32.40 5.01
2466 2616 0.310854 CCTCGTGTTTTCTTGCACCC 59.689 55.000 0.00 0.00 32.40 4.61
2467 2617 1.308998 CTCGTGTTTTCTTGCACCCT 58.691 50.000 0.00 0.00 32.40 4.34
2468 2618 1.002468 CTCGTGTTTTCTTGCACCCTG 60.002 52.381 0.00 0.00 32.40 4.45
2469 2619 1.021202 CGTGTTTTCTTGCACCCTGA 58.979 50.000 0.00 0.00 32.40 3.86
2470 2620 1.403679 CGTGTTTTCTTGCACCCTGAA 59.596 47.619 0.00 0.00 32.40 3.02
2471 2621 2.159310 CGTGTTTTCTTGCACCCTGAAA 60.159 45.455 0.00 0.00 32.40 2.69
2473 2623 3.803778 GTGTTTTCTTGCACCCTGAAATG 59.196 43.478 0.00 0.00 31.08 2.32
2474 2624 3.450457 TGTTTTCTTGCACCCTGAAATGT 59.550 39.130 0.00 0.00 31.08 2.71
2475 2625 4.081198 TGTTTTCTTGCACCCTGAAATGTT 60.081 37.500 0.00 0.00 31.08 2.71
2476 2626 4.320608 TTTCTTGCACCCTGAAATGTTC 57.679 40.909 0.00 0.00 0.00 3.18
2477 2627 1.879380 TCTTGCACCCTGAAATGTTCG 59.121 47.619 0.00 0.00 0.00 3.95
2478 2628 0.958091 TTGCACCCTGAAATGTTCGG 59.042 50.000 0.00 0.00 35.78 4.30
2479 2629 0.109532 TGCACCCTGAAATGTTCGGA 59.890 50.000 0.00 0.00 38.34 4.55
2489 2668 5.255710 TGAAATGTTCGGAAGCAGAAAAA 57.744 34.783 0.00 0.00 0.00 1.94
2495 2674 3.194005 TCGGAAGCAGAAAAACTCACT 57.806 42.857 0.00 0.00 0.00 3.41
2496 2675 3.541632 TCGGAAGCAGAAAAACTCACTT 58.458 40.909 0.00 0.00 0.00 3.16
2507 2686 8.060090 GCAGAAAAACTCACTTTCATTCATTTG 58.940 33.333 0.00 0.00 35.62 2.32
2511 2690 7.647907 AAACTCACTTTCATTCATTTGATGC 57.352 32.000 0.00 0.00 0.00 3.91
2513 2692 5.075858 TCACTTTCATTCATTTGATGCCC 57.924 39.130 0.00 0.00 0.00 5.36
2514 2693 4.081531 TCACTTTCATTCATTTGATGCCCC 60.082 41.667 0.00 0.00 0.00 5.80
2515 2694 3.198417 ACTTTCATTCATTTGATGCCCCC 59.802 43.478 0.00 0.00 0.00 5.40
2516 2695 2.546652 TCATTCATTTGATGCCCCCA 57.453 45.000 0.00 0.00 0.00 4.96
2517 2696 2.109774 TCATTCATTTGATGCCCCCAC 58.890 47.619 0.00 0.00 0.00 4.61
2518 2697 1.832366 CATTCATTTGATGCCCCCACA 59.168 47.619 0.00 0.00 0.00 4.17
2519 2698 2.021262 TTCATTTGATGCCCCCACAA 57.979 45.000 0.00 0.00 0.00 3.33
2520 2699 2.021262 TCATTTGATGCCCCCACAAA 57.979 45.000 0.00 0.00 37.79 2.83
2521 2700 1.622811 TCATTTGATGCCCCCACAAAC 59.377 47.619 0.00 0.00 36.57 2.93
2522 2701 1.347050 CATTTGATGCCCCCACAAACA 59.653 47.619 0.00 0.00 36.57 2.83
2523 2702 1.727062 TTTGATGCCCCCACAAACAT 58.273 45.000 0.00 0.00 0.00 2.71
2524 2703 1.727062 TTGATGCCCCCACAAACATT 58.273 45.000 0.00 0.00 0.00 2.71
2536 2715 3.149196 CACAAACATTACTCCTGCCTGT 58.851 45.455 0.00 0.00 0.00 4.00
2537 2716 3.569701 CACAAACATTACTCCTGCCTGTT 59.430 43.478 0.00 0.00 0.00 3.16
2582 2764 3.130160 GCCAGTAGCACCAGCAGC 61.130 66.667 0.00 0.00 45.49 5.25
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
48 49 8.514330 TGGTCAAAGTCAAACTACATAAAGTT 57.486 30.769 0.00 0.00 41.46 2.66
49 50 8.514330 TTGGTCAAAGTCAAACTACATAAAGT 57.486 30.769 0.00 0.00 0.00 2.66
50 51 9.965824 ATTTGGTCAAAGTCAAACTACATAAAG 57.034 29.630 2.55 0.00 35.97 1.85
51 52 9.959749 GATTTGGTCAAAGTCAAACTACATAAA 57.040 29.630 2.55 0.00 35.97 1.40
52 53 9.349713 AGATTTGGTCAAAGTCAAACTACATAA 57.650 29.630 2.55 0.00 35.97 1.90
53 54 8.918202 AGATTTGGTCAAAGTCAAACTACATA 57.082 30.769 2.55 0.00 35.97 2.29
54 55 7.823745 AGATTTGGTCAAAGTCAAACTACAT 57.176 32.000 2.55 0.00 35.97 2.29
55 56 7.639113 AAGATTTGGTCAAAGTCAAACTACA 57.361 32.000 2.55 0.00 35.97 2.74
59 60 9.076596 GCATATAAGATTTGGTCAAAGTCAAAC 57.923 33.333 2.55 0.00 35.97 2.93
60 61 7.967854 CGCATATAAGATTTGGTCAAAGTCAAA 59.032 33.333 2.55 0.00 37.29 2.69
61 62 7.415095 CCGCATATAAGATTTGGTCAAAGTCAA 60.415 37.037 2.55 0.00 33.32 3.18
62 63 6.038161 CCGCATATAAGATTTGGTCAAAGTCA 59.962 38.462 2.55 0.00 33.32 3.41
63 64 6.260050 TCCGCATATAAGATTTGGTCAAAGTC 59.740 38.462 2.55 1.51 33.32 3.01
64 65 6.119536 TCCGCATATAAGATTTGGTCAAAGT 58.880 36.000 2.55 0.00 33.32 2.66
65 66 6.260936 ACTCCGCATATAAGATTTGGTCAAAG 59.739 38.462 2.55 0.00 33.32 2.77
66 67 6.119536 ACTCCGCATATAAGATTTGGTCAAA 58.880 36.000 0.00 0.00 34.46 2.69
67 68 5.680619 ACTCCGCATATAAGATTTGGTCAA 58.319 37.500 0.00 0.00 0.00 3.18
68 69 5.290493 ACTCCGCATATAAGATTTGGTCA 57.710 39.130 0.00 0.00 0.00 4.02
69 70 7.724305 TTTACTCCGCATATAAGATTTGGTC 57.276 36.000 0.00 0.00 0.00 4.02
70 71 8.514330 TTTTTACTCCGCATATAAGATTTGGT 57.486 30.769 0.00 0.00 0.00 3.67
79 80 8.770828 GCTCTGTTTATTTTTACTCCGCATATA 58.229 33.333 0.00 0.00 0.00 0.86
80 81 7.518370 CGCTCTGTTTATTTTTACTCCGCATAT 60.518 37.037 0.00 0.00 0.00 1.78
81 82 6.237996 CGCTCTGTTTATTTTTACTCCGCATA 60.238 38.462 0.00 0.00 0.00 3.14
82 83 5.447279 CGCTCTGTTTATTTTTACTCCGCAT 60.447 40.000 0.00 0.00 0.00 4.73
83 84 4.142988 CGCTCTGTTTATTTTTACTCCGCA 60.143 41.667 0.00 0.00 0.00 5.69
84 85 4.092383 TCGCTCTGTTTATTTTTACTCCGC 59.908 41.667 0.00 0.00 0.00 5.54
85 86 5.347907 ACTCGCTCTGTTTATTTTTACTCCG 59.652 40.000 0.00 0.00 0.00 4.63
86 87 6.723131 ACTCGCTCTGTTTATTTTTACTCC 57.277 37.500 0.00 0.00 0.00 3.85
87 88 8.381387 CCTTACTCGCTCTGTTTATTTTTACTC 58.619 37.037 0.00 0.00 0.00 2.59
88 89 7.333672 CCCTTACTCGCTCTGTTTATTTTTACT 59.666 37.037 0.00 0.00 0.00 2.24
89 90 7.461918 CCCTTACTCGCTCTGTTTATTTTTAC 58.538 38.462 0.00 0.00 0.00 2.01
90 91 6.093082 GCCCTTACTCGCTCTGTTTATTTTTA 59.907 38.462 0.00 0.00 0.00 1.52
91 92 5.106277 GCCCTTACTCGCTCTGTTTATTTTT 60.106 40.000 0.00 0.00 0.00 1.94
92 93 4.395231 GCCCTTACTCGCTCTGTTTATTTT 59.605 41.667 0.00 0.00 0.00 1.82
93 94 3.939592 GCCCTTACTCGCTCTGTTTATTT 59.060 43.478 0.00 0.00 0.00 1.40
94 95 3.055385 TGCCCTTACTCGCTCTGTTTATT 60.055 43.478 0.00 0.00 0.00 1.40
95 96 2.500098 TGCCCTTACTCGCTCTGTTTAT 59.500 45.455 0.00 0.00 0.00 1.40
96 97 1.897133 TGCCCTTACTCGCTCTGTTTA 59.103 47.619 0.00 0.00 0.00 2.01
97 98 0.685097 TGCCCTTACTCGCTCTGTTT 59.315 50.000 0.00 0.00 0.00 2.83
98 99 0.905357 ATGCCCTTACTCGCTCTGTT 59.095 50.000 0.00 0.00 0.00 3.16
99 100 0.905357 AATGCCCTTACTCGCTCTGT 59.095 50.000 0.00 0.00 0.00 3.41
100 101 1.137872 AGAATGCCCTTACTCGCTCTG 59.862 52.381 0.00 0.00 0.00 3.35
101 102 1.137872 CAGAATGCCCTTACTCGCTCT 59.862 52.381 0.00 0.00 0.00 4.09
102 103 1.134670 ACAGAATGCCCTTACTCGCTC 60.135 52.381 0.00 0.00 42.53 5.03
103 104 0.905357 ACAGAATGCCCTTACTCGCT 59.095 50.000 0.00 0.00 42.53 4.93
104 105 1.666189 GAACAGAATGCCCTTACTCGC 59.334 52.381 0.00 0.00 42.53 5.03
105 106 2.093447 AGGAACAGAATGCCCTTACTCG 60.093 50.000 0.00 0.00 39.06 4.18
106 107 3.274288 CAGGAACAGAATGCCCTTACTC 58.726 50.000 0.00 0.00 39.96 2.59
107 108 2.644798 ACAGGAACAGAATGCCCTTACT 59.355 45.455 0.00 0.00 39.96 2.24
108 109 3.073274 ACAGGAACAGAATGCCCTTAC 57.927 47.619 0.00 0.00 39.96 2.34
109 110 3.806949 AACAGGAACAGAATGCCCTTA 57.193 42.857 0.00 0.00 39.96 2.69
110 111 2.629617 CAAACAGGAACAGAATGCCCTT 59.370 45.455 0.00 0.00 39.96 3.95
111 112 2.158475 TCAAACAGGAACAGAATGCCCT 60.158 45.455 0.00 0.00 42.22 5.19
112 113 2.029918 GTCAAACAGGAACAGAATGCCC 60.030 50.000 0.00 0.00 42.53 5.36
113 114 2.350772 CGTCAAACAGGAACAGAATGCC 60.351 50.000 0.00 0.00 42.53 4.40
114 115 2.290641 ACGTCAAACAGGAACAGAATGC 59.709 45.455 0.00 0.00 42.53 3.56
115 116 4.282068 CAACGTCAAACAGGAACAGAATG 58.718 43.478 0.00 0.00 46.00 2.67
116 117 3.315191 CCAACGTCAAACAGGAACAGAAT 59.685 43.478 0.00 0.00 0.00 2.40
117 118 2.680841 CCAACGTCAAACAGGAACAGAA 59.319 45.455 0.00 0.00 0.00 3.02
118 119 2.285083 CCAACGTCAAACAGGAACAGA 58.715 47.619 0.00 0.00 0.00 3.41
119 120 2.014128 ACCAACGTCAAACAGGAACAG 58.986 47.619 0.00 0.00 0.00 3.16
142 143 7.148557 GCAAGTCAATTCAACCTACTCTTACTC 60.149 40.741 0.00 0.00 0.00 2.59
143 144 6.651225 GCAAGTCAATTCAACCTACTCTTACT 59.349 38.462 0.00 0.00 0.00 2.24
147 148 4.202461 TGGCAAGTCAATTCAACCTACTCT 60.202 41.667 0.00 0.00 0.00 3.24
159 165 1.002868 AGCGAGCTGGCAAGTCAAT 60.003 52.632 23.34 0.00 34.64 2.57
210 216 0.764890 CTTCACTCCACTGGTCCCAA 59.235 55.000 0.00 0.00 0.00 4.12
216 222 1.669115 CGCACCTTCACTCCACTGG 60.669 63.158 0.00 0.00 0.00 4.00
226 232 1.571460 CAGCTTGTGTCGCACCTTC 59.429 57.895 7.38 0.00 32.73 3.46
227 233 1.893808 CCAGCTTGTGTCGCACCTT 60.894 57.895 7.38 0.00 32.73 3.50
228 234 2.281070 CCAGCTTGTGTCGCACCT 60.281 61.111 7.38 0.00 32.73 4.00
268 283 0.891373 TGAGTAGCACTCTGGTCTGC 59.109 55.000 14.60 0.00 45.27 4.26
345 369 3.617735 TTGTCGCGGCCCAGTGTA 61.618 61.111 8.89 0.00 0.00 2.90
355 379 1.062002 AGTTTGAGTGTTGTTGTCGCG 59.938 47.619 0.00 0.00 0.00 5.87
378 407 1.581912 GTGAGCGTGCATGCGAATG 60.582 57.895 24.51 0.00 40.67 2.67
379 408 2.787249 GTGAGCGTGCATGCGAAT 59.213 55.556 24.51 8.13 40.67 3.34
380 409 3.776849 CGTGAGCGTGCATGCGAA 61.777 61.111 24.51 14.33 40.67 4.70
421 450 4.396790 ACCATGTTTAGACACGTTGTTGTT 59.603 37.500 0.00 0.00 38.91 2.83
422 451 3.942748 ACCATGTTTAGACACGTTGTTGT 59.057 39.130 0.00 0.00 38.91 3.32
423 452 4.545823 ACCATGTTTAGACACGTTGTTG 57.454 40.909 0.00 0.00 38.91 3.33
424 453 5.570234 AAACCATGTTTAGACACGTTGTT 57.430 34.783 0.00 0.00 38.91 2.83
466 495 8.237267 ACAAAAACCATGTTTAATTCGCAAAAA 58.763 25.926 0.00 0.00 0.00 1.94
472 501 6.199908 TGCTGACAAAAACCATGTTTAATTCG 59.800 34.615 0.00 0.00 0.00 3.34
505 534 2.101575 GTGACGCGATCGGCTGTA 59.898 61.111 15.93 0.00 45.91 2.74
525 554 2.742428 ATGGGAAGGTGATGGTGATG 57.258 50.000 0.00 0.00 0.00 3.07
526 555 3.763557 AAATGGGAAGGTGATGGTGAT 57.236 42.857 0.00 0.00 0.00 3.06
527 556 3.541242 AAAATGGGAAGGTGATGGTGA 57.459 42.857 0.00 0.00 0.00 4.02
528 557 3.324556 ACAAAAATGGGAAGGTGATGGTG 59.675 43.478 0.00 0.00 0.00 4.17
529 558 3.324556 CACAAAAATGGGAAGGTGATGGT 59.675 43.478 0.00 0.00 0.00 3.55
530 559 3.324556 ACACAAAAATGGGAAGGTGATGG 59.675 43.478 0.00 0.00 0.00 3.51
550 582 3.578272 GGTTCACGCCGTTGCACA 61.578 61.111 0.00 0.00 37.32 4.57
622 654 0.613777 GAACCTTCACCCTCACCGAT 59.386 55.000 0.00 0.00 0.00 4.18
630 662 0.670854 GTGCGAGAGAACCTTCACCC 60.671 60.000 0.00 0.00 31.64 4.61
633 665 1.542030 GAGAGTGCGAGAGAACCTTCA 59.458 52.381 0.00 0.00 42.15 3.02
637 669 1.877367 ACGAGAGTGCGAGAGAACC 59.123 57.895 0.00 0.00 46.97 3.62
647 679 5.683751 GGAAATCCACCATGAACGAGAGTG 61.684 50.000 0.00 0.00 39.52 3.51
648 680 3.619979 GGAAATCCACCATGAACGAGAGT 60.620 47.826 0.00 0.00 40.86 3.24
663 695 0.740737 CCACTGCGAATGGGAAATCC 59.259 55.000 0.00 0.00 33.18 3.01
665 697 2.442236 ATCCACTGCGAATGGGAAAT 57.558 45.000 1.26 0.00 37.85 2.17
669 701 2.094675 AGAAAATCCACTGCGAATGGG 58.905 47.619 1.26 0.00 37.85 4.00
681 713 2.667448 GCCCGTGAAAACGAGAAAATCC 60.667 50.000 0.00 0.00 34.64 3.01
696 728 0.249405 ACAAAAATGCACTGCCCGTG 60.249 50.000 0.00 0.00 46.58 4.94
706 755 4.666237 GAGATGGAGTGCTACAAAAATGC 58.334 43.478 0.00 0.00 0.00 3.56
714 763 1.028905 AGAGCGAGATGGAGTGCTAC 58.971 55.000 0.00 0.00 37.91 3.58
719 768 1.341089 TGGTACAGAGCGAGATGGAGT 60.341 52.381 0.00 0.00 0.00 3.85
800 855 1.608025 CGAGTGAAAGGCTGGCTGTAA 60.608 52.381 3.84 0.00 0.00 2.41
881 936 0.105913 ATTTTGTGGGGTTCGTGGGT 60.106 50.000 0.00 0.00 0.00 4.51
1778 1833 1.202698 ACTGCCACTGTCTTCAGGTTC 60.203 52.381 0.47 0.00 45.14 3.62
1795 1850 4.696877 TGCCTCAACTGAATCAACATACTG 59.303 41.667 0.00 0.00 0.00 2.74
1926 2016 1.153168 CCAATCCAGGCCTACCACG 60.153 63.158 3.98 0.00 39.06 4.94
1942 2032 9.940974 ATACCCGACCATACTATTATAATACCA 57.059 33.333 0.81 0.00 0.00 3.25
2034 2126 0.733150 TACGCTCGAGGACACATGAG 59.267 55.000 15.58 0.00 0.00 2.90
2035 2127 0.450583 GTACGCTCGAGGACACATGA 59.549 55.000 15.58 0.00 0.00 3.07
2036 2128 0.861866 CGTACGCTCGAGGACACATG 60.862 60.000 15.58 0.00 0.00 3.21
2037 2129 1.303799 ACGTACGCTCGAGGACACAT 61.304 55.000 16.72 0.00 34.70 3.21
2038 2130 1.962822 ACGTACGCTCGAGGACACA 60.963 57.895 16.72 0.00 34.70 3.72
2039 2131 1.511464 CACGTACGCTCGAGGACAC 60.511 63.158 16.72 7.29 34.70 3.67
2040 2132 2.865308 CACGTACGCTCGAGGACA 59.135 61.111 16.72 0.00 34.70 4.02
2044 2136 2.778997 GCAAGCACGTACGCTCGAG 61.779 63.158 16.72 8.45 42.89 4.04
2046 2138 1.955529 AATGCAAGCACGTACGCTCG 61.956 55.000 16.72 5.31 42.89 5.03
2047 2139 0.247301 GAATGCAAGCACGTACGCTC 60.247 55.000 16.72 7.24 42.89 5.03
2049 2141 0.096976 ATGAATGCAAGCACGTACGC 59.903 50.000 16.72 0.00 0.00 4.42
2050 2142 2.159720 TGAATGAATGCAAGCACGTACG 60.160 45.455 15.01 15.01 0.00 3.67
2051 2143 3.469899 TGAATGAATGCAAGCACGTAC 57.530 42.857 0.00 0.00 0.00 3.67
2052 2144 4.700268 AATGAATGAATGCAAGCACGTA 57.300 36.364 0.00 0.00 0.00 3.57
2053 2145 3.581024 AATGAATGAATGCAAGCACGT 57.419 38.095 0.00 0.00 0.00 4.49
2059 2151 5.306394 TGCAGGAAAAATGAATGAATGCAA 58.694 33.333 0.00 0.00 38.13 4.08
2092 2184 9.083422 ACGATCAAGAAATCTATCTATCCAAGA 57.917 33.333 0.00 0.00 39.02 3.02
2096 2188 9.352784 CTGAACGATCAAGAAATCTATCTATCC 57.647 37.037 0.00 0.00 34.49 2.59
2132 2224 7.352739 ACACTTTTTAAAGTACAGCGATCAAG 58.647 34.615 7.49 0.00 46.89 3.02
2258 2350 1.611673 CGTGACAAAAGCTCCCTCCAT 60.612 52.381 0.00 0.00 0.00 3.41
2259 2351 0.250295 CGTGACAAAAGCTCCCTCCA 60.250 55.000 0.00 0.00 0.00 3.86
2334 2432 1.578583 ACGTACAAACTGGAGTGTGC 58.421 50.000 0.00 0.00 36.75 4.57
2351 2459 1.289109 CTTGGTTGCACGGGAGTACG 61.289 60.000 0.00 0.00 44.67 3.67
2352 2460 0.953960 CCTTGGTTGCACGGGAGTAC 60.954 60.000 0.00 0.00 44.67 2.73
2353 2461 1.373435 CCTTGGTTGCACGGGAGTA 59.627 57.895 0.00 0.00 44.67 2.59
2389 2497 3.818121 TTGTGTGAACCCGGCGAGG 62.818 63.158 9.30 11.01 40.63 4.63
2397 2545 8.432110 AATTTAAATGTTCCTTTGTGTGAACC 57.568 30.769 0.39 0.00 40.06 3.62
2402 2550 7.494298 AGCGAAAATTTAAATGTTCCTTTGTGT 59.506 29.630 20.62 2.08 30.40 3.72
2404 2552 7.494298 ACAGCGAAAATTTAAATGTTCCTTTGT 59.506 29.630 20.62 18.27 30.40 2.83
2406 2554 9.191995 CTACAGCGAAAATTTAAATGTTCCTTT 57.808 29.630 20.62 14.90 30.40 3.11
2407 2555 7.812669 CCTACAGCGAAAATTTAAATGTTCCTT 59.187 33.333 20.62 9.76 30.40 3.36
2409 2557 7.309920 TCCTACAGCGAAAATTTAAATGTTCC 58.690 34.615 20.62 14.80 30.40 3.62
2424 2574 6.097839 AGGACTTGTATTATTTCCTACAGCGA 59.902 38.462 0.00 0.00 34.80 4.93
2427 2577 7.435488 CACGAGGACTTGTATTATTTCCTACAG 59.565 40.741 0.00 0.00 36.80 2.74
2430 2580 7.414222 ACACGAGGACTTGTATTATTTCCTA 57.586 36.000 0.00 0.00 36.80 2.94
2432 2582 6.980051 AACACGAGGACTTGTATTATTTCC 57.020 37.500 0.00 0.00 0.00 3.13
2433 2583 8.718734 AGAAAACACGAGGACTTGTATTATTTC 58.281 33.333 0.00 2.51 29.54 2.17
2434 2584 8.617290 AGAAAACACGAGGACTTGTATTATTT 57.383 30.769 0.00 0.00 0.00 1.40
2435 2585 8.504005 CAAGAAAACACGAGGACTTGTATTATT 58.496 33.333 0.00 0.00 32.83 1.40
2436 2586 7.360946 GCAAGAAAACACGAGGACTTGTATTAT 60.361 37.037 0.00 0.00 37.57 1.28
2437 2587 6.073440 GCAAGAAAACACGAGGACTTGTATTA 60.073 38.462 0.00 0.00 37.57 0.98
2440 2590 3.558418 GCAAGAAAACACGAGGACTTGTA 59.442 43.478 0.00 0.00 37.57 2.41
2442 2592 2.354510 TGCAAGAAAACACGAGGACTTG 59.645 45.455 0.00 0.00 38.07 3.16
2444 2594 1.940613 GTGCAAGAAAACACGAGGACT 59.059 47.619 0.00 0.00 0.00 3.85
2445 2595 1.002792 GGTGCAAGAAAACACGAGGAC 60.003 52.381 0.00 0.00 37.68 3.85
2446 2596 1.305201 GGTGCAAGAAAACACGAGGA 58.695 50.000 0.00 0.00 37.68 3.71
2448 2598 1.002468 CAGGGTGCAAGAAAACACGAG 60.002 52.381 0.00 0.00 37.68 4.18
2449 2599 1.021202 CAGGGTGCAAGAAAACACGA 58.979 50.000 0.00 0.00 37.68 4.35
2450 2600 1.021202 TCAGGGTGCAAGAAAACACG 58.979 50.000 0.00 0.00 37.68 4.49
2451 2601 3.518634 TTTCAGGGTGCAAGAAAACAC 57.481 42.857 0.00 0.00 36.03 3.32
2453 2603 4.058721 ACATTTCAGGGTGCAAGAAAAC 57.941 40.909 8.36 0.00 35.20 2.43
2455 2605 3.243367 CGAACATTTCAGGGTGCAAGAAA 60.243 43.478 0.00 0.00 35.92 2.52
2457 2607 1.879380 CGAACATTTCAGGGTGCAAGA 59.121 47.619 0.00 0.00 0.00 3.02
2460 2610 0.109532 TCCGAACATTTCAGGGTGCA 59.890 50.000 0.00 0.00 0.00 4.57
2461 2611 1.200020 CTTCCGAACATTTCAGGGTGC 59.800 52.381 0.00 0.00 0.00 5.01
2462 2612 1.200020 GCTTCCGAACATTTCAGGGTG 59.800 52.381 0.00 0.00 0.00 4.61
2463 2613 1.202879 TGCTTCCGAACATTTCAGGGT 60.203 47.619 0.00 0.00 0.00 4.34
2464 2614 1.470098 CTGCTTCCGAACATTTCAGGG 59.530 52.381 0.00 0.00 0.00 4.45
2465 2615 2.426522 TCTGCTTCCGAACATTTCAGG 58.573 47.619 0.00 0.00 0.00 3.86
2466 2616 4.488126 TTTCTGCTTCCGAACATTTCAG 57.512 40.909 0.00 0.00 0.00 3.02
2467 2617 4.909696 TTTTCTGCTTCCGAACATTTCA 57.090 36.364 0.00 0.00 0.00 2.69
2468 2618 5.281727 AGTTTTTCTGCTTCCGAACATTTC 58.718 37.500 0.00 0.00 0.00 2.17
2469 2619 5.163561 TGAGTTTTTCTGCTTCCGAACATTT 60.164 36.000 0.00 0.00 0.00 2.32
2470 2620 4.338118 TGAGTTTTTCTGCTTCCGAACATT 59.662 37.500 0.00 0.00 0.00 2.71
2471 2621 3.882888 TGAGTTTTTCTGCTTCCGAACAT 59.117 39.130 0.00 0.00 0.00 2.71
2473 2623 3.312697 AGTGAGTTTTTCTGCTTCCGAAC 59.687 43.478 0.00 0.00 0.00 3.95
2474 2624 3.541632 AGTGAGTTTTTCTGCTTCCGAA 58.458 40.909 0.00 0.00 0.00 4.30
2475 2625 3.194005 AGTGAGTTTTTCTGCTTCCGA 57.806 42.857 0.00 0.00 0.00 4.55
2476 2626 3.971032 AAGTGAGTTTTTCTGCTTCCG 57.029 42.857 0.00 0.00 0.00 4.30
2477 2627 5.248870 TGAAAGTGAGTTTTTCTGCTTCC 57.751 39.130 0.00 0.00 35.94 3.46
2478 2628 6.974622 TGAATGAAAGTGAGTTTTTCTGCTTC 59.025 34.615 0.00 2.23 35.94 3.86
2479 2629 6.866480 TGAATGAAAGTGAGTTTTTCTGCTT 58.134 32.000 0.00 0.00 35.94 3.91
2489 2668 5.337009 GGGCATCAAATGAATGAAAGTGAGT 60.337 40.000 0.00 0.00 32.06 3.41
2495 2674 3.055240 GTGGGGGCATCAAATGAATGAAA 60.055 43.478 0.00 0.00 32.06 2.69
2496 2675 2.500910 GTGGGGGCATCAAATGAATGAA 59.499 45.455 0.00 0.00 32.06 2.57
2507 2686 2.427095 GAGTAATGTTTGTGGGGGCATC 59.573 50.000 0.00 0.00 0.00 3.91
2510 2689 1.182667 GGAGTAATGTTTGTGGGGGC 58.817 55.000 0.00 0.00 0.00 5.80
2511 2690 2.446435 CAGGAGTAATGTTTGTGGGGG 58.554 52.381 0.00 0.00 0.00 5.40
2513 2692 1.818674 GGCAGGAGTAATGTTTGTGGG 59.181 52.381 0.00 0.00 0.00 4.61
2514 2693 2.489329 CAGGCAGGAGTAATGTTTGTGG 59.511 50.000 0.00 0.00 0.00 4.17
2515 2694 3.149196 ACAGGCAGGAGTAATGTTTGTG 58.851 45.455 0.00 0.00 0.00 3.33
2516 2695 3.508845 ACAGGCAGGAGTAATGTTTGT 57.491 42.857 0.00 0.00 0.00 2.83
2517 2696 4.074970 AGAACAGGCAGGAGTAATGTTTG 58.925 43.478 0.00 0.00 34.41 2.93
2518 2697 4.042187 AGAGAACAGGCAGGAGTAATGTTT 59.958 41.667 0.00 0.00 34.41 2.83
2519 2698 3.584848 AGAGAACAGGCAGGAGTAATGTT 59.415 43.478 0.00 0.00 36.83 2.71
2520 2699 3.177228 AGAGAACAGGCAGGAGTAATGT 58.823 45.455 0.00 0.00 0.00 2.71
2521 2700 3.902881 AGAGAACAGGCAGGAGTAATG 57.097 47.619 0.00 0.00 0.00 1.90
2522 2701 3.707102 GGTAGAGAACAGGCAGGAGTAAT 59.293 47.826 0.00 0.00 0.00 1.89
2523 2702 3.097614 GGTAGAGAACAGGCAGGAGTAA 58.902 50.000 0.00 0.00 0.00 2.24
2524 2703 2.042569 TGGTAGAGAACAGGCAGGAGTA 59.957 50.000 0.00 0.00 0.00 2.59
2536 2715 1.203087 TGGACTCCGGTTGGTAGAGAA 60.203 52.381 0.00 0.00 36.30 2.87
2537 2716 0.406750 TGGACTCCGGTTGGTAGAGA 59.593 55.000 0.00 0.00 36.30 3.10
2573 2755 0.671781 GGAGTACACTGCTGCTGGTG 60.672 60.000 18.99 18.99 39.13 4.17
2574 2756 1.121407 TGGAGTACACTGCTGCTGGT 61.121 55.000 11.29 8.32 35.18 4.00
2575 2757 0.390866 CTGGAGTACACTGCTGCTGG 60.391 60.000 11.29 1.84 35.18 4.85
2576 2758 3.134401 CTGGAGTACACTGCTGCTG 57.866 57.895 4.89 4.89 35.18 4.41
2579 2761 2.005451 GAATGCTGGAGTACACTGCTG 58.995 52.381 16.31 3.21 35.18 4.41
2580 2762 1.625315 TGAATGCTGGAGTACACTGCT 59.375 47.619 16.31 2.43 35.18 4.24
2581 2763 1.734465 GTGAATGCTGGAGTACACTGC 59.266 52.381 10.95 10.95 34.66 4.40
2582 2764 1.995484 CGTGAATGCTGGAGTACACTG 59.005 52.381 0.00 0.00 0.00 3.66


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

AutoCloner maintained by Alex Coulton.