Multiple sequence alignment - TraesCS7B01G322300

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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 TraesCS7B01G322300 chr7B 100.000 5005 0 0 1 5005 572939638 572934634 0.000000e+00 9243.0
1 TraesCS7B01G322300 chr7B 89.055 201 22 0 1491 1691 374352418 374352618 2.990000e-62 250.0
2 TraesCS7B01G322300 chr7D 88.615 3452 202 79 800 4182 532608077 532604748 0.000000e+00 4021.0
3 TraesCS7B01G322300 chr7D 93.086 810 34 13 1 800 532608933 532608136 0.000000e+00 1166.0
4 TraesCS7B01G322300 chr7D 94.262 366 17 1 4640 5005 532603438 532603077 1.570000e-154 556.0
5 TraesCS7B01G322300 chr7D 100.000 30 0 0 2576 2605 532606263 532606234 7.000000e-04 56.5
6 TraesCS7B01G322300 chr7A 89.951 1632 118 22 816 2433 612701109 612699510 0.000000e+00 2063.0
7 TraesCS7B01G322300 chr7A 86.855 1453 103 35 2799 4182 612699209 612697776 0.000000e+00 1544.0
8 TraesCS7B01G322300 chr7A 88.850 287 10 7 4512 4795 612695807 612695540 2.890000e-87 333.0
9 TraesCS7B01G322300 chr7A 92.825 223 16 0 4783 5005 612690977 612690755 1.740000e-84 324.0
10 TraesCS7B01G322300 chr7A 82.308 390 50 5 24 394 612741208 612740819 2.250000e-83 320.0
11 TraesCS7B01G322300 chr7A 79.286 420 38 30 392 783 612701848 612701450 1.080000e-61 248.0
12 TraesCS7B01G322300 chr7A 91.228 114 8 2 2505 2617 612699481 612699369 2.410000e-33 154.0
13 TraesCS7B01G322300 chr6B 90.775 271 25 0 1491 1761 483731825 483731555 3.680000e-96 363.0
14 TraesCS7B01G322300 chr6B 89.714 175 18 0 1587 1761 152443452 152443278 1.810000e-54 224.0
15 TraesCS7B01G322300 chr6B 100.000 30 0 0 4184 4213 343781202 343781173 7.000000e-04 56.5
16 TraesCS7B01G322300 chr3B 91.045 268 24 0 1491 1758 286474519 286474786 3.680000e-96 363.0
17 TraesCS7B01G322300 chr3B 92.466 146 11 0 1616 1761 205835407 205835262 5.080000e-50 209.0
18 TraesCS7B01G322300 chr3B 96.970 33 1 0 4181 4213 362482104 362482136 7.000000e-04 56.5
19 TraesCS7B01G322300 chr2B 94.479 163 9 0 1596 1758 756870721 756870883 8.320000e-63 252.0
20 TraesCS7B01G322300 chr2B 89.091 55 6 0 29 83 75831826 75831880 8.990000e-08 69.4
21 TraesCS7B01G322300 chr5B 90.964 166 15 0 1596 1761 622453331 622453166 1.810000e-54 224.0
22 TraesCS7B01G322300 chr5D 100.000 31 0 0 4183 4213 539055568 539055538 1.950000e-04 58.4
23 TraesCS7B01G322300 chr6D 100.000 30 0 0 4184 4213 223552513 223552484 7.000000e-04 56.5
24 TraesCS7B01G322300 chr6D 100.000 30 0 0 4184 4213 426106344 426106373 7.000000e-04 56.5
25 TraesCS7B01G322300 chr6A 96.970 33 1 0 4181 4213 299315701 299315733 7.000000e-04 56.5
26 TraesCS7B01G322300 chr1D 94.595 37 1 1 4181 4217 420554613 420554648 7.000000e-04 56.5
27 TraesCS7B01G322300 chr1B 96.970 33 1 0 4181 4213 536657478 536657510 7.000000e-04 56.5
28 TraesCS7B01G322300 chr3D 100.000 29 0 0 4184 4212 79532627 79532655 3.000000e-03 54.7


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 TraesCS7B01G322300 chr7B 572934634 572939638 5004 True 9243.000 9243 100.00000 1 5005 1 chr7B.!!$R1 5004
1 TraesCS7B01G322300 chr7D 532603077 532608933 5856 True 1449.875 4021 93.99075 1 5005 4 chr7D.!!$R1 5004
2 TraesCS7B01G322300 chr7A 612695540 612701848 6308 True 868.400 2063 87.23400 392 4795 5 chr7A.!!$R3 4403

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
695 722 3.556004 CCAGAGAAATCCGAAGATAGCCC 60.556 52.174 0.0 0.0 30.42 5.19 F
2057 2436 0.248866 GGTGCGTTGTTTTCCTGTGG 60.249 55.000 0.0 0.0 0.00 4.17 F
3469 3960 0.036010 CATTCCTCCGTTGCTCAGGT 60.036 55.000 0.0 0.0 0.00 4.00 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2083 2462 0.171231 CGGTCAGAGCTCAACGATGA 59.829 55.0 17.77 7.54 0.00 2.92 R
3923 4451 0.179171 CAGAGTACGCGTCACCGAAT 60.179 55.0 18.63 0.00 35.63 3.34 R
4464 6252 0.396435 AGTTCATGAGTGCGGTTCCA 59.604 50.0 0.00 0.00 0.00 3.53 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
34 35 9.388506 AGGAAGTGAGATGAGTATGTAATTTTG 57.611 33.333 0.00 0.00 0.00 2.44
85 86 4.776322 TGGCCCGTCAGATTGCGG 62.776 66.667 0.00 0.00 46.80 5.69
145 146 3.610040 ACAATGTTCCGCTCTACATGA 57.390 42.857 0.00 0.00 35.29 3.07
166 167 7.703621 ACATGATGAATTTTGGAATGAACGATC 59.296 33.333 0.00 0.00 0.00 3.69
210 211 9.489084 TCATTAATATATGAGGTGGTTTTCGAG 57.511 33.333 0.00 0.00 31.19 4.04
237 238 4.849813 AGAATGGATGATCACCAGACAA 57.150 40.909 18.01 0.42 40.89 3.18
283 284 7.083875 CTTGGACTCAAGTTTGAAAGTTACA 57.916 36.000 0.00 0.00 43.92 2.41
399 400 7.800092 AGTTGGCATTCTAGAGAAGATATGTT 58.200 34.615 0.00 0.00 37.48 2.71
642 655 8.192743 TGAAATCTGAAGGAAAATGATGGAAA 57.807 30.769 0.00 0.00 0.00 3.13
692 719 7.891561 AGATAACCAGAGAAATCCGAAGATAG 58.108 38.462 0.00 0.00 30.42 2.08
695 722 3.556004 CCAGAGAAATCCGAAGATAGCCC 60.556 52.174 0.00 0.00 30.42 5.19
1176 1538 2.915659 AAGGACCGACACCTCGCA 60.916 61.111 0.00 0.00 38.70 5.10
1184 1546 1.004277 CGACACCTCGCAAGTGAGAC 61.004 60.000 11.96 1.01 38.28 3.36
1186 1548 1.367471 CACCTCGCAAGTGAGACCA 59.633 57.895 11.96 0.00 38.28 4.02
1217 1588 2.227089 GATCGTCTTCCGCACACCCT 62.227 60.000 0.00 0.00 36.19 4.34
1218 1589 2.507110 ATCGTCTTCCGCACACCCTG 62.507 60.000 0.00 0.00 36.19 4.45
1219 1590 3.050275 GTCTTCCGCACACCCTGC 61.050 66.667 0.00 0.00 43.21 4.85
1220 1591 3.241530 TCTTCCGCACACCCTGCT 61.242 61.111 0.00 0.00 44.64 4.24
1222 1593 4.680237 TTCCGCACACCCTGCTCG 62.680 66.667 0.00 0.00 44.64 5.03
1276 1649 4.052229 CGGGTGCCGTCGTCTTCT 62.052 66.667 0.00 0.00 42.73 2.85
1414 1791 2.536365 GTCGACGCCATTGACAATCTA 58.464 47.619 0.00 0.00 41.01 1.98
1418 1795 2.866762 GACGCCATTGACAATCTAGACC 59.133 50.000 0.00 0.00 0.00 3.85
1441 1818 1.601914 CGCATTGATGGACGGATCGTA 60.602 52.381 0.00 0.00 41.37 3.43
1522 1899 4.388499 GGCGCGTTCAGGGAGGAA 62.388 66.667 8.43 0.00 34.27 3.36
1748 2125 2.031012 CTCACACCAAGGCGCAGA 59.969 61.111 10.83 0.00 0.00 4.26
1792 2169 2.493973 GACCTCCTCGAGCAGCTG 59.506 66.667 10.11 10.11 0.00 4.24
1891 2270 5.403166 CACATTTTGCACATACAGTTTCTGG 59.597 40.000 0.00 0.00 35.51 3.86
1924 2303 2.760092 TCCAATATTTTCACTGCAGCCC 59.240 45.455 15.27 0.00 0.00 5.19
2035 2414 1.475751 GGCATCATCAACCTCGTGGAT 60.476 52.381 11.17 0.00 37.04 3.41
2045 2424 1.667830 CTCGTGGATGTGGTGCGTT 60.668 57.895 0.00 0.00 0.00 4.84
2046 2425 1.900585 CTCGTGGATGTGGTGCGTTG 61.901 60.000 0.00 0.00 0.00 4.10
2047 2426 2.250939 CGTGGATGTGGTGCGTTGT 61.251 57.895 0.00 0.00 0.00 3.32
2048 2427 1.781025 CGTGGATGTGGTGCGTTGTT 61.781 55.000 0.00 0.00 0.00 2.83
2055 2434 0.454196 GTGGTGCGTTGTTTTCCTGT 59.546 50.000 0.00 0.00 0.00 4.00
2057 2436 0.248866 GGTGCGTTGTTTTCCTGTGG 60.249 55.000 0.00 0.00 0.00 4.17
2070 2449 6.183360 TGTTTTCCTGTGGTCTCTGAATTTTC 60.183 38.462 0.00 0.00 0.00 2.29
2071 2450 4.982241 TCCTGTGGTCTCTGAATTTTCT 57.018 40.909 0.00 0.00 0.00 2.52
2072 2451 4.899502 TCCTGTGGTCTCTGAATTTTCTC 58.100 43.478 0.00 0.00 0.00 2.87
2073 2452 4.594920 TCCTGTGGTCTCTGAATTTTCTCT 59.405 41.667 0.00 0.00 0.00 3.10
2075 2454 5.180868 CCTGTGGTCTCTGAATTTTCTCTTG 59.819 44.000 0.00 0.00 0.00 3.02
2076 2455 5.684704 TGTGGTCTCTGAATTTTCTCTTGT 58.315 37.500 0.00 0.00 0.00 3.16
2077 2456 5.528690 TGTGGTCTCTGAATTTTCTCTTGTG 59.471 40.000 0.00 0.00 0.00 3.33
2079 2458 4.759183 GGTCTCTGAATTTTCTCTTGTGCT 59.241 41.667 0.00 0.00 0.00 4.40
2080 2459 5.334724 GGTCTCTGAATTTTCTCTTGTGCTG 60.335 44.000 0.00 0.00 0.00 4.41
2081 2460 4.758674 TCTCTGAATTTTCTCTTGTGCTGG 59.241 41.667 0.00 0.00 0.00 4.85
2082 2461 4.717877 TCTGAATTTTCTCTTGTGCTGGA 58.282 39.130 0.00 0.00 0.00 3.86
2083 2462 5.319453 TCTGAATTTTCTCTTGTGCTGGAT 58.681 37.500 0.00 0.00 0.00 3.41
2103 2482 0.109086 CATCGTTGAGCTCTGACCGT 60.109 55.000 16.19 1.66 0.00 4.83
2106 2485 1.816835 TCGTTGAGCTCTGACCGTATT 59.183 47.619 16.19 0.00 0.00 1.89
2107 2486 1.920574 CGTTGAGCTCTGACCGTATTG 59.079 52.381 16.19 0.00 0.00 1.90
2108 2487 2.415491 CGTTGAGCTCTGACCGTATTGA 60.415 50.000 16.19 0.00 0.00 2.57
2109 2488 3.182967 GTTGAGCTCTGACCGTATTGAG 58.817 50.000 16.19 0.00 0.00 3.02
2112 2491 2.301577 GCTCTGACCGTATTGAGCTT 57.698 50.000 6.58 0.00 45.78 3.74
2113 2492 2.622436 GCTCTGACCGTATTGAGCTTT 58.378 47.619 6.58 0.00 45.78 3.51
2114 2493 2.605366 GCTCTGACCGTATTGAGCTTTC 59.395 50.000 6.58 0.00 45.78 2.62
2115 2494 3.677424 GCTCTGACCGTATTGAGCTTTCT 60.677 47.826 6.58 0.00 45.78 2.52
2116 2495 4.440250 GCTCTGACCGTATTGAGCTTTCTA 60.440 45.833 6.58 0.00 45.78 2.10
2117 2496 5.737635 GCTCTGACCGTATTGAGCTTTCTAT 60.738 44.000 6.58 0.00 45.78 1.98
2118 2497 5.833082 TCTGACCGTATTGAGCTTTCTATC 58.167 41.667 0.00 0.00 0.00 2.08
2119 2498 5.594725 TCTGACCGTATTGAGCTTTCTATCT 59.405 40.000 0.00 0.00 0.00 1.98
2120 2499 6.771267 TCTGACCGTATTGAGCTTTCTATCTA 59.229 38.462 0.00 0.00 0.00 1.98
2121 2500 7.448777 TCTGACCGTATTGAGCTTTCTATCTAT 59.551 37.037 0.00 0.00 0.00 1.98
2122 2501 7.594714 TGACCGTATTGAGCTTTCTATCTATC 58.405 38.462 0.00 0.00 0.00 2.08
2123 2502 7.448777 TGACCGTATTGAGCTTTCTATCTATCT 59.551 37.037 0.00 0.00 0.00 1.98
2186 2565 1.207791 AAGCCCAGGACATCTACAGG 58.792 55.000 0.00 0.00 0.00 4.00
2206 2585 2.897969 GGAGAACAGGAACTCTGGTACA 59.102 50.000 0.00 0.00 44.85 2.90
2207 2586 3.306156 GGAGAACAGGAACTCTGGTACAC 60.306 52.174 0.00 0.00 44.85 2.90
2210 2589 2.065993 CAGGAACTCTGGTACACGTG 57.934 55.000 15.48 15.48 39.76 4.49
2218 2600 3.257375 ACTCTGGTACACGTGCTTATGAA 59.743 43.478 17.22 0.00 0.00 2.57
2220 2602 4.827692 TCTGGTACACGTGCTTATGAAAT 58.172 39.130 17.22 0.00 0.00 2.17
2222 2604 4.827692 TGGTACACGTGCTTATGAAATCT 58.172 39.130 17.22 0.00 0.00 2.40
2226 2608 1.062587 ACGTGCTTATGAAATCTGCGC 59.937 47.619 0.00 0.00 33.72 6.09
2242 2624 1.881973 TGCGCTTCTTCTGCATTTTCT 59.118 42.857 9.73 0.00 32.86 2.52
2244 2626 2.095567 GCGCTTCTTCTGCATTTTCTCA 60.096 45.455 0.00 0.00 0.00 3.27
2254 2636 5.633927 TCTGCATTTTCTCATGTCGAATTG 58.366 37.500 0.00 0.00 0.00 2.32
2266 2648 3.729526 GTCGAATTGACTGTCCATGTG 57.270 47.619 5.17 0.00 44.58 3.21
2269 2651 5.158093 GTCGAATTGACTGTCCATGTGGAT 61.158 45.833 4.84 0.00 44.55 3.41
2281 2663 5.114764 TCCATGTGGATTGAAGCTAATGA 57.885 39.130 0.00 0.00 39.78 2.57
2282 2664 5.128205 TCCATGTGGATTGAAGCTAATGAG 58.872 41.667 0.00 0.00 39.78 2.90
2283 2665 5.104402 TCCATGTGGATTGAAGCTAATGAGA 60.104 40.000 0.00 0.00 39.78 3.27
2289 2671 6.474751 GTGGATTGAAGCTAATGAGAAATTGC 59.525 38.462 0.00 0.00 0.00 3.56
2348 2730 1.676967 GCTCTGCAGGGGTTTGGAG 60.677 63.158 17.16 3.17 37.81 3.86
2351 2733 1.228675 CTGCAGGGGTTTGGAGCTT 60.229 57.895 5.57 0.00 29.66 3.74
2466 2850 1.749634 CTCCTTCAGGGGTACAGTACG 59.250 57.143 4.58 0.00 35.41 3.67
2467 2851 1.076024 TCCTTCAGGGGTACAGTACGT 59.924 52.381 4.58 0.00 35.41 3.57
2468 2852 1.897802 CCTTCAGGGGTACAGTACGTT 59.102 52.381 4.58 0.00 0.00 3.99
2469 2853 2.301009 CCTTCAGGGGTACAGTACGTTT 59.699 50.000 4.58 0.00 0.00 3.60
2470 2854 3.244318 CCTTCAGGGGTACAGTACGTTTT 60.244 47.826 4.58 0.00 0.00 2.43
2471 2855 4.021192 CCTTCAGGGGTACAGTACGTTTTA 60.021 45.833 4.58 0.00 0.00 1.52
2476 2860 6.997476 TCAGGGGTACAGTACGTTTTATTTTT 59.003 34.615 4.58 0.00 0.00 1.94
2614 3003 7.831193 AGACCATTGTGAGTCATTAAGCTTAAT 59.169 33.333 23.22 23.22 35.38 1.40
2616 3005 9.461312 ACCATTGTGAGTCATTAAGCTTAATTA 57.539 29.630 25.71 17.25 31.28 1.40
2617 3006 9.941664 CCATTGTGAGTCATTAAGCTTAATTAG 57.058 33.333 25.71 16.95 31.28 1.73
2665 3087 2.222213 TGTCACGTTGCAAATAAGACCG 59.778 45.455 0.00 0.53 0.00 4.79
2676 3098 4.377431 GCAAATAAGACCGTTGTGAGTCAG 60.377 45.833 0.00 0.00 35.38 3.51
2685 3107 1.797635 GTTGTGAGTCAGCAGAGAAGC 59.202 52.381 0.00 0.00 0.00 3.86
2687 3109 1.690893 TGTGAGTCAGCAGAGAAGCTT 59.309 47.619 0.00 0.00 43.70 3.74
2690 3112 1.274728 GAGTCAGCAGAGAAGCTTCCA 59.725 52.381 22.81 0.00 43.70 3.53
2813 3265 1.334960 GCCAGTGACATTGTCGTTTGG 60.335 52.381 20.82 20.82 34.95 3.28
2825 3277 5.666969 TTGTCGTTTGGACTTGACTAATG 57.333 39.130 0.00 0.00 46.24 1.90
2829 3281 4.446385 TCGTTTGGACTTGACTAATGTTCG 59.554 41.667 0.00 0.00 0.00 3.95
2850 3302 6.249035 TCGACCAGTATTTGACCAAATTTC 57.751 37.500 12.51 7.47 40.99 2.17
2860 3312 0.741915 ACCAAATTTCGCACCGTGTT 59.258 45.000 0.00 0.00 0.00 3.32
2864 3316 3.049206 CAAATTTCGCACCGTGTTTGAT 58.951 40.909 0.00 0.00 31.43 2.57
2869 3339 0.586319 CGCACCGTGTTTGATTGTCT 59.414 50.000 0.00 0.00 0.00 3.41
2876 3347 5.399301 CACCGTGTTTGATTGTCTTGATTTC 59.601 40.000 0.00 0.00 0.00 2.17
2891 3362 8.335356 TGTCTTGATTTCTCTTTTACTGAAACG 58.665 33.333 0.00 0.00 33.36 3.60
2937 3414 6.358974 AATTCTGGAATTCCGGTGAAATTT 57.641 33.333 28.69 16.28 43.01 1.82
2948 3425 2.986479 CGGTGAAATTTACTGGCTTTGC 59.014 45.455 0.00 0.00 0.00 3.68
2955 3432 6.935771 TGAAATTTACTGGCTTTGCAATCAAT 59.064 30.769 0.00 0.00 31.33 2.57
2965 3442 3.322211 TTGCAATCAATTTGGCAGGAG 57.678 42.857 0.00 0.00 35.75 3.69
3049 3526 2.049433 ACGACCGAAGAACCTGCG 60.049 61.111 0.00 0.00 31.28 5.18
3089 3566 1.527370 CCCGAAGAGGAATCCCACC 59.473 63.158 0.00 0.00 45.00 4.61
3156 3633 5.120399 TGCCGATTTCGATTTACTGGTAAT 58.880 37.500 0.67 0.00 43.02 1.89
3184 3661 2.995939 ACGTCTGTCACTGCATTACATG 59.004 45.455 0.00 0.00 0.00 3.21
3201 3678 1.679680 CATGGCCCTGATGTTTAGCTG 59.320 52.381 0.97 0.00 0.00 4.24
3203 3680 1.565759 TGGCCCTGATGTTTAGCTGAT 59.434 47.619 0.00 0.00 0.00 2.90
3247 3724 2.000447 GTTACTGAATCTGCCGGTGTC 59.000 52.381 1.90 0.00 0.00 3.67
3448 3935 1.375268 GCCACTGACTGACTCTGCC 60.375 63.158 0.00 0.00 0.00 4.85
3468 3959 0.745845 CCATTCCTCCGTTGCTCAGG 60.746 60.000 0.00 0.00 0.00 3.86
3469 3960 0.036010 CATTCCTCCGTTGCTCAGGT 60.036 55.000 0.00 0.00 0.00 4.00
3470 3961 0.036010 ATTCCTCCGTTGCTCAGGTG 60.036 55.000 0.00 0.00 0.00 4.00
3513 4010 1.002430 GTCTCCTGCTGTTGACATGGA 59.998 52.381 0.00 0.00 0.00 3.41
3544 4041 2.925706 TGGGAGCTGGCGTTGGTA 60.926 61.111 0.00 0.00 0.00 3.25
3567 4064 1.807165 CACGGACCGACATGAGCAG 60.807 63.158 23.38 0.00 0.00 4.24
3611 4108 2.526304 ACTACGCAAAGAGCAGAACA 57.474 45.000 0.00 0.00 46.13 3.18
3640 4137 3.006859 AGCATTTCCATCCATGATGCATG 59.993 43.478 2.46 0.00 44.08 4.06
3641 4138 3.325870 CATTTCCATCCATGATGCATGC 58.674 45.455 11.82 11.82 40.20 4.06
3668 4187 1.893808 CCTCACTTGCGTTGCCACT 60.894 57.895 0.00 0.00 0.00 4.00
3769 4288 4.129737 GCAGCAGGCGACCTACGA 62.130 66.667 0.00 0.00 45.77 3.43
3836 4355 3.932580 GACCGGCGTGCAGATGTCA 62.933 63.158 6.01 0.00 0.00 3.58
3923 4451 1.541118 TGGGTCTCAGGCCAATCCA 60.541 57.895 5.01 0.00 37.29 3.41
3980 4520 3.346734 GGCACCCCCTTCCATGGA 61.347 66.667 11.44 11.44 0.00 3.41
4006 4546 2.729378 GCGGCAGCTTGATTTGAAC 58.271 52.632 0.00 0.00 41.01 3.18
4046 4590 2.103373 AGAAGAAGTAGCAGCATCCGA 58.897 47.619 0.00 0.00 0.00 4.55
4069 4616 7.228706 CCGATAGCTCTGGTTTTAATTGGTATT 59.771 37.037 0.00 0.00 0.00 1.89
4120 4667 2.152699 GCGCCATCGGATCGATACG 61.153 63.158 24.24 24.24 45.19 3.06
4140 4687 9.788960 CGATACGGATGATGAATCTTATCTTTA 57.211 33.333 0.00 0.00 35.43 1.85
4182 4729 1.274596 CACACCGCTACATTCGTACC 58.725 55.000 0.00 0.00 0.00 3.34
4201 4833 2.052782 CCTTATTTTGGGACGGAGGG 57.947 55.000 0.00 0.00 0.00 4.30
4224 4878 5.106869 GGAGTAGTACATAGCTGTCATCGAG 60.107 48.000 2.52 0.00 36.79 4.04
4238 4892 7.865385 AGCTGTCATCGAGAAAAAGATACTATC 59.135 37.037 0.00 0.00 0.00 2.08
4299 6076 3.130633 GCATTCATATGTGCTCACCGTA 58.869 45.455 10.28 0.00 38.30 4.02
4326 6107 3.149005 AGTACGCCCTTCCATTTGAAA 57.851 42.857 0.00 0.00 31.06 2.69
4374 6157 5.365403 TGAATTTGAACTAAAACCGCGAT 57.635 34.783 8.23 0.00 0.00 4.58
4381 6164 7.599630 TTGAACTAAAACCGCGATACTTATT 57.400 32.000 8.23 0.00 0.00 1.40
4382 6165 8.700722 TTGAACTAAAACCGCGATACTTATTA 57.299 30.769 8.23 0.00 0.00 0.98
4384 6167 8.757789 TGAACTAAAACCGCGATACTTATTATG 58.242 33.333 8.23 0.00 0.00 1.90
4385 6168 7.647907 ACTAAAACCGCGATACTTATTATGG 57.352 36.000 8.23 0.00 0.00 2.74
4386 6169 7.436118 ACTAAAACCGCGATACTTATTATGGA 58.564 34.615 8.23 0.00 0.00 3.41
4387 6170 7.927629 ACTAAAACCGCGATACTTATTATGGAA 59.072 33.333 8.23 0.00 0.00 3.53
4388 6171 6.535274 AAACCGCGATACTTATTATGGAAC 57.465 37.500 8.23 0.00 0.00 3.62
4389 6172 5.464030 ACCGCGATACTTATTATGGAACT 57.536 39.130 8.23 0.00 0.00 3.01
4426 6214 9.582648 TTATGAAGATATGTACTACTGTAGGCA 57.417 33.333 18.38 15.83 0.00 4.75
4427 6215 8.657387 ATGAAGATATGTACTACTGTAGGCAT 57.343 34.615 21.77 21.77 32.84 4.40
4428 6216 9.755122 ATGAAGATATGTACTACTGTAGGCATA 57.245 33.333 23.57 23.57 34.63 3.14
4429 6217 9.011095 TGAAGATATGTACTACTGTAGGCATAC 57.989 37.037 23.70 16.24 33.73 2.39
4430 6218 9.233649 GAAGATATGTACTACTGTAGGCATACT 57.766 37.037 23.70 20.32 33.73 2.12
4431 6219 9.589461 AAGATATGTACTACTGTAGGCATACTT 57.411 33.333 23.70 22.75 33.73 2.24
4437 6225 9.631257 TGTACTACTGTAGGCATACTTATAACA 57.369 33.333 18.38 4.88 32.75 2.41
4439 6227 8.991783 ACTACTGTAGGCATACTTATAACAGA 57.008 34.615 18.38 0.00 37.04 3.41
4440 6228 9.069082 ACTACTGTAGGCATACTTATAACAGAG 57.931 37.037 18.38 0.00 37.04 3.35
4441 6229 6.750148 ACTGTAGGCATACTTATAACAGAGC 58.250 40.000 10.25 0.00 37.04 4.09
4442 6230 6.323996 ACTGTAGGCATACTTATAACAGAGCA 59.676 38.462 10.25 0.00 37.04 4.26
4443 6231 7.015682 ACTGTAGGCATACTTATAACAGAGCAT 59.984 37.037 10.25 0.00 37.04 3.79
4444 6232 7.735917 TGTAGGCATACTTATAACAGAGCATT 58.264 34.615 10.25 0.00 32.75 3.56
4445 6233 7.872993 TGTAGGCATACTTATAACAGAGCATTC 59.127 37.037 10.25 0.00 32.75 2.67
4446 6234 6.830912 AGGCATACTTATAACAGAGCATTCA 58.169 36.000 0.00 0.00 0.00 2.57
4447 6235 7.456725 AGGCATACTTATAACAGAGCATTCAT 58.543 34.615 0.00 0.00 0.00 2.57
4448 6236 8.597167 AGGCATACTTATAACAGAGCATTCATA 58.403 33.333 0.00 0.00 0.00 2.15
4449 6237 9.388506 GGCATACTTATAACAGAGCATTCATAT 57.611 33.333 0.00 0.00 0.00 1.78
4454 6242 8.597167 ACTTATAACAGAGCATTCATATAGGCA 58.403 33.333 0.00 0.00 0.00 4.75
4455 6243 9.610705 CTTATAACAGAGCATTCATATAGGCAT 57.389 33.333 0.00 0.00 0.00 4.40
4457 6245 8.954950 ATAACAGAGCATTCATATAGGCATAC 57.045 34.615 0.00 0.00 0.00 2.39
4458 6246 6.617782 ACAGAGCATTCATATAGGCATACT 57.382 37.500 0.00 0.00 0.00 2.12
4459 6247 7.013823 ACAGAGCATTCATATAGGCATACTT 57.986 36.000 0.00 0.00 0.00 2.24
4460 6248 8.138928 ACAGAGCATTCATATAGGCATACTTA 57.861 34.615 0.00 0.00 0.00 2.24
4461 6249 8.766476 ACAGAGCATTCATATAGGCATACTTAT 58.234 33.333 0.00 0.00 0.00 1.73
4462 6250 9.610705 CAGAGCATTCATATAGGCATACTTATT 57.389 33.333 0.00 0.00 0.00 1.40
4487 6275 3.521560 GAACCGCACTCATGAACTATGA 58.478 45.455 0.00 0.00 43.40 2.15
4564 7954 0.764890 ACAAGCTCAGCTACCACCAA 59.235 50.000 0.00 0.00 38.25 3.67
4566 7956 2.224867 ACAAGCTCAGCTACCACCAAAT 60.225 45.455 0.00 0.00 38.25 2.32
4612 8002 5.050091 CGAACAGCAAACAGACTAATCAACT 60.050 40.000 0.00 0.00 0.00 3.16
4619 8009 7.175641 AGCAAACAGACTAATCAACTTGCTTAT 59.824 33.333 0.35 0.00 39.80 1.73
4621 8011 9.979270 CAAACAGACTAATCAACTTGCTTATAG 57.021 33.333 0.00 0.00 0.00 1.31
4622 8012 9.944376 AAACAGACTAATCAACTTGCTTATAGA 57.056 29.630 0.00 0.00 0.00 1.98
4624 8014 8.754080 ACAGACTAATCAACTTGCTTATAGACT 58.246 33.333 0.00 0.00 0.00 3.24
4625 8015 9.243637 CAGACTAATCAACTTGCTTATAGACTC 57.756 37.037 0.00 0.00 0.00 3.36
4626 8016 8.972127 AGACTAATCAACTTGCTTATAGACTCA 58.028 33.333 0.00 0.00 0.00 3.41
4627 8017 9.587772 GACTAATCAACTTGCTTATAGACTCAA 57.412 33.333 0.00 0.00 0.00 3.02
4628 8018 9.593134 ACTAATCAACTTGCTTATAGACTCAAG 57.407 33.333 0.00 0.00 41.07 3.02
4629 8019 6.917217 ATCAACTTGCTTATAGACTCAAGC 57.083 37.500 12.62 12.62 45.90 4.01
4720 8110 8.073768 TGACATCTTTCGGTTTCACTAAAAATC 58.926 33.333 0.00 0.00 0.00 2.17
4828 8221 2.704065 TCTCTTCCTGGAAAACTCGGTT 59.296 45.455 10.86 0.00 0.00 4.44
4901 8294 1.882623 GCTTGGCCTAGCATTGGATAC 59.117 52.381 30.78 0.78 40.89 2.24
4902 8295 2.487986 GCTTGGCCTAGCATTGGATACT 60.488 50.000 30.78 0.00 40.89 2.12
4910 8303 3.988976 AGCATTGGATACTGAGTGTGT 57.011 42.857 0.00 0.00 37.61 3.72
4931 8324 3.065925 GTGCATAGAAGGCCAAGCTTTAG 59.934 47.826 5.01 0.00 0.00 1.85
4935 8328 3.351794 AGAAGGCCAAGCTTTAGTACC 57.648 47.619 5.01 0.00 0.00 3.34
4980 8373 2.537143 TCTTCCAGTCTTGGGTCTACC 58.463 52.381 0.00 0.00 45.10 3.18
4985 8378 1.343465 CAGTCTTGGGTCTACCGTTGT 59.657 52.381 0.00 0.00 44.64 3.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
34 35 6.693113 GCCAAACGATTAATCTTGGAGATTTC 59.307 38.462 28.15 13.43 41.90 2.17
85 86 9.771534 ATCCACTCTATTATCAAAGCTAAACTC 57.228 33.333 0.00 0.00 0.00 3.01
145 146 6.194796 ACGATCGTTCATTCCAAAATTCAT 57.805 33.333 16.60 0.00 0.00 2.57
185 186 8.230486 GCTCGAAAACCACCTCATATATTAATG 58.770 37.037 0.00 0.00 0.00 1.90
210 211 5.075858 TGGTGATCATCCATTCTTTTTGC 57.924 39.130 2.86 0.00 0.00 3.68
237 238 5.312079 AGCCTTAGTATACCGATAACTCGT 58.688 41.667 0.00 0.00 43.49 4.18
283 284 0.395173 ACACAAAAGACCCGGTGCTT 60.395 50.000 0.00 0.00 34.69 3.91
399 400 7.714813 TCACTTCTTATCTGATTGACAACACAA 59.285 33.333 0.00 0.00 0.00 3.33
663 676 4.885907 TCGGATTTCTCTGGTTATCTACGT 59.114 41.667 0.00 0.00 0.00 3.57
664 677 5.434352 TCGGATTTCTCTGGTTATCTACG 57.566 43.478 0.00 0.00 0.00 3.51
665 678 7.040473 TCTTCGGATTTCTCTGGTTATCTAC 57.960 40.000 0.00 0.00 0.00 2.59
666 679 7.841282 ATCTTCGGATTTCTCTGGTTATCTA 57.159 36.000 0.00 0.00 0.00 1.98
682 709 0.031515 TTCCAGGGGCTATCTTCGGA 60.032 55.000 0.00 0.00 0.00 4.55
739 768 0.179073 AGTAATGTAGCTGCAGGGCG 60.179 55.000 17.12 0.00 37.29 6.13
783 812 2.027314 CATCCTCGCTCGCCTCTG 59.973 66.667 0.00 0.00 0.00 3.35
789 818 4.598894 CTGGCCCATCCTCGCTCG 62.599 72.222 0.00 0.00 35.26 5.03
813 900 7.010738 GTGGACGGATTTTAATTCATTCTCGTA 59.989 37.037 0.00 0.00 0.00 3.43
925 1287 3.708220 GAGCCGGCTTCTCTGTCCG 62.708 68.421 33.34 0.00 42.58 4.79
1184 1546 1.332375 GACGATCGAGAGGAGAAGTGG 59.668 57.143 24.34 0.00 0.00 4.00
1186 1548 2.702592 AGACGATCGAGAGGAGAAGT 57.297 50.000 24.34 0.00 0.00 3.01
1217 1588 3.367743 AGAACGTACCGGCGAGCA 61.368 61.111 9.30 0.00 35.59 4.26
1218 1589 2.879462 CAGAACGTACCGGCGAGC 60.879 66.667 9.30 0.00 35.59 5.03
1219 1590 1.513586 GTCAGAACGTACCGGCGAG 60.514 63.158 9.30 0.06 35.59 5.03
1220 1591 2.562912 GTCAGAACGTACCGGCGA 59.437 61.111 9.30 0.00 35.59 5.54
1222 1593 1.445582 CTGGTCAGAACGTACCGGC 60.446 63.158 0.00 0.00 38.70 6.13
1224 1595 0.594602 TGACTGGTCAGAACGTACCG 59.405 55.000 4.84 0.00 38.70 4.02
1225 1596 1.336609 GGTGACTGGTCAGAACGTACC 60.337 57.143 3.47 0.00 40.75 3.34
1265 1638 0.937699 TGCAACGAAGAAGACGACGG 60.938 55.000 0.00 0.00 34.70 4.79
1276 1649 0.456142 CCGACGATCTCTGCAACGAA 60.456 55.000 0.00 0.00 0.00 3.85
1382 1759 4.634133 GTCGACGTCGTGGTGCCA 62.634 66.667 34.40 13.39 40.80 4.92
1414 1791 0.179000 GTCCATCAATGCGAGGGTCT 59.821 55.000 0.00 0.00 46.16 3.85
1418 1795 0.250038 ATCCGTCCATCAATGCGAGG 60.250 55.000 0.00 0.00 0.00 4.63
1729 2106 3.535629 CTGCGCCTTGGTGTGAGGA 62.536 63.158 4.18 0.00 36.33 3.71
1891 2270 7.807907 AGTGAAAATATTGGACACGAATGTTTC 59.192 33.333 11.49 0.00 39.95 2.78
1903 2282 2.760092 GGGCTGCAGTGAAAATATTGGA 59.240 45.455 16.64 0.00 0.00 3.53
1908 2287 1.678728 CCTCGGGCTGCAGTGAAAATA 60.679 52.381 16.64 0.00 0.00 1.40
2035 2414 0.453793 CAGGAAAACAACGCACCACA 59.546 50.000 0.00 0.00 0.00 4.17
2045 2424 3.924114 TTCAGAGACCACAGGAAAACA 57.076 42.857 0.00 0.00 0.00 2.83
2046 2425 5.774498 AAATTCAGAGACCACAGGAAAAC 57.226 39.130 0.00 0.00 0.00 2.43
2047 2426 6.129179 AGAAAATTCAGAGACCACAGGAAAA 58.871 36.000 0.00 0.00 0.00 2.29
2048 2427 5.694995 AGAAAATTCAGAGACCACAGGAAA 58.305 37.500 0.00 0.00 0.00 3.13
2055 2434 4.516698 GCACAAGAGAAAATTCAGAGACCA 59.483 41.667 0.00 0.00 0.00 4.02
2057 2436 5.334724 CCAGCACAAGAGAAAATTCAGAGAC 60.335 44.000 0.00 0.00 0.00 3.36
2070 2449 2.306341 ACGATGATCCAGCACAAGAG 57.694 50.000 0.00 0.00 0.00 2.85
2071 2450 2.028203 TCAACGATGATCCAGCACAAGA 60.028 45.455 0.00 0.00 0.00 3.02
2072 2451 2.349590 TCAACGATGATCCAGCACAAG 58.650 47.619 0.00 0.00 0.00 3.16
2073 2452 2.349590 CTCAACGATGATCCAGCACAA 58.650 47.619 0.00 0.00 34.37 3.33
2075 2454 0.654683 GCTCAACGATGATCCAGCAC 59.345 55.000 0.00 0.00 34.37 4.40
2076 2455 0.538584 AGCTCAACGATGATCCAGCA 59.461 50.000 7.26 0.00 34.37 4.41
2077 2456 1.202510 AGAGCTCAACGATGATCCAGC 60.203 52.381 17.77 0.00 34.37 4.85
2079 2458 2.102578 TCAGAGCTCAACGATGATCCA 58.897 47.619 17.77 0.00 34.37 3.41
2080 2459 2.468831 GTCAGAGCTCAACGATGATCC 58.531 52.381 17.77 0.00 34.37 3.36
2081 2460 2.468831 GGTCAGAGCTCAACGATGATC 58.531 52.381 17.77 6.96 34.37 2.92
2082 2461 1.202348 CGGTCAGAGCTCAACGATGAT 60.202 52.381 17.77 0.00 34.37 2.45
2083 2462 0.171231 CGGTCAGAGCTCAACGATGA 59.829 55.000 17.77 7.54 0.00 2.92
2103 2482 6.728164 AGGCCAGATAGATAGAAAGCTCAATA 59.272 38.462 5.01 0.00 0.00 1.90
2106 2485 4.487804 AGGCCAGATAGATAGAAAGCTCA 58.512 43.478 5.01 0.00 0.00 4.26
2107 2486 5.237048 CAAGGCCAGATAGATAGAAAGCTC 58.763 45.833 5.01 0.00 0.00 4.09
2108 2487 4.504689 GCAAGGCCAGATAGATAGAAAGCT 60.505 45.833 5.01 0.00 0.00 3.74
2109 2488 3.750652 GCAAGGCCAGATAGATAGAAAGC 59.249 47.826 5.01 0.00 0.00 3.51
2110 2489 3.993081 CGCAAGGCCAGATAGATAGAAAG 59.007 47.826 5.01 0.00 0.00 2.62
2111 2490 3.803715 GCGCAAGGCCAGATAGATAGAAA 60.804 47.826 5.01 0.00 34.80 2.52
2112 2491 2.289072 GCGCAAGGCCAGATAGATAGAA 60.289 50.000 5.01 0.00 34.80 2.10
2113 2492 1.273606 GCGCAAGGCCAGATAGATAGA 59.726 52.381 5.01 0.00 34.80 1.98
2114 2493 1.001293 TGCGCAAGGCCAGATAGATAG 59.999 52.381 8.16 0.00 42.61 2.08
2115 2494 1.001293 CTGCGCAAGGCCAGATAGATA 59.999 52.381 13.05 0.00 42.61 1.98
2116 2495 0.250209 CTGCGCAAGGCCAGATAGAT 60.250 55.000 13.05 0.00 42.61 1.98
2117 2496 1.144716 CTGCGCAAGGCCAGATAGA 59.855 57.895 13.05 0.00 42.61 1.98
2118 2497 0.745845 AACTGCGCAAGGCCAGATAG 60.746 55.000 13.05 0.00 42.61 2.08
2119 2498 0.744414 GAACTGCGCAAGGCCAGATA 60.744 55.000 13.05 0.00 42.61 1.98
2120 2499 2.034687 AACTGCGCAAGGCCAGAT 59.965 55.556 13.05 0.00 42.61 2.90
2121 2500 2.669569 GAACTGCGCAAGGCCAGA 60.670 61.111 13.05 0.00 42.61 3.86
2122 2501 2.192608 GAAGAACTGCGCAAGGCCAG 62.193 60.000 13.05 0.00 42.61 4.85
2123 2502 2.203337 AAGAACTGCGCAAGGCCA 60.203 55.556 13.05 0.00 42.61 5.36
2186 2565 3.612004 CGTGTACCAGAGTTCCTGTTCTC 60.612 52.174 0.00 0.00 41.33 2.87
2206 2585 1.062587 GCGCAGATTTCATAAGCACGT 59.937 47.619 0.30 0.00 0.00 4.49
2207 2586 1.328680 AGCGCAGATTTCATAAGCACG 59.671 47.619 11.47 0.00 0.00 5.34
2210 2589 3.959573 AGAAGCGCAGATTTCATAAGC 57.040 42.857 11.47 0.00 34.67 3.09
2218 2600 1.747709 ATGCAGAAGAAGCGCAGATT 58.252 45.000 11.47 0.00 41.04 2.40
2220 2602 1.527034 AAATGCAGAAGAAGCGCAGA 58.473 45.000 11.47 0.00 39.39 4.26
2222 2604 1.881973 AGAAAATGCAGAAGAAGCGCA 59.118 42.857 11.47 0.00 40.50 6.09
2226 2608 5.121298 TCGACATGAGAAAATGCAGAAGAAG 59.879 40.000 0.00 0.00 0.00 2.85
2244 2626 5.396011 CCACATGGACAGTCAATTCGACAT 61.396 45.833 2.17 0.00 41.93 3.06
2260 2642 5.128205 TCTCATTAGCTTCAATCCACATGG 58.872 41.667 0.00 0.00 0.00 3.66
2265 2647 6.153170 TGCAATTTCTCATTAGCTTCAATCCA 59.847 34.615 0.00 0.00 0.00 3.41
2266 2648 6.474751 GTGCAATTTCTCATTAGCTTCAATCC 59.525 38.462 0.00 0.00 0.00 3.01
2269 2651 6.579666 AGTGCAATTTCTCATTAGCTTCAA 57.420 33.333 0.00 0.00 0.00 2.69
2274 2656 5.314923 TCCAAGTGCAATTTCTCATTAGC 57.685 39.130 0.00 0.00 0.00 3.09
2277 2659 4.933400 GCATTCCAAGTGCAATTTCTCATT 59.067 37.500 0.00 0.00 42.08 2.57
2278 2660 4.501071 GCATTCCAAGTGCAATTTCTCAT 58.499 39.130 0.00 0.00 42.08 2.90
2281 2663 2.633967 TGGCATTCCAAGTGCAATTTCT 59.366 40.909 0.00 0.00 44.25 2.52
2282 2664 2.997986 CTGGCATTCCAAGTGCAATTTC 59.002 45.455 0.00 0.00 44.25 2.17
2283 2665 2.289819 CCTGGCATTCCAAGTGCAATTT 60.290 45.455 0.00 0.00 44.25 1.82
2289 2671 1.243342 TTCGCCTGGCATTCCAAGTG 61.243 55.000 20.29 0.00 42.91 3.16
2348 2730 2.261215 CTGGAAGTTCCTGGCAAGC 58.739 57.895 22.41 0.00 37.46 4.01
2369 2751 0.536260 CTGCCTCTCTGAGAACTGGG 59.464 60.000 8.95 7.50 0.00 4.45
2665 3087 1.797635 GCTTCTCTGCTGACTCACAAC 59.202 52.381 0.00 0.00 0.00 3.32
2685 3107 9.118300 ACTCTATTGAAATAATTGCTCTGGAAG 57.882 33.333 0.00 0.00 0.00 3.46
2687 3109 9.466497 AAACTCTATTGAAATAATTGCTCTGGA 57.534 29.630 0.00 0.00 0.00 3.86
2705 3127 9.434420 CACTTTTGAGATCAGAGAAAACTCTAT 57.566 33.333 0.00 0.00 31.59 1.98
2709 3131 6.060788 AGCACTTTTGAGATCAGAGAAAACT 58.939 36.000 0.00 0.00 0.00 2.66
2710 3132 6.311055 AGCACTTTTGAGATCAGAGAAAAC 57.689 37.500 0.00 0.00 0.00 2.43
2774 3196 5.163426 ACTGGCATTTTTGTTCATTCAGTGA 60.163 36.000 0.00 0.00 32.59 3.41
2782 3204 4.669206 ATGTCACTGGCATTTTTGTTCA 57.331 36.364 0.00 0.00 0.00 3.18
2783 3205 4.810491 ACAATGTCACTGGCATTTTTGTTC 59.190 37.500 6.11 0.00 34.68 3.18
2784 3206 4.768583 ACAATGTCACTGGCATTTTTGTT 58.231 34.783 6.11 0.00 34.68 2.83
2786 3208 3.426191 CGACAATGTCACTGGCATTTTTG 59.574 43.478 14.24 1.06 34.68 2.44
2787 3209 3.068024 ACGACAATGTCACTGGCATTTTT 59.932 39.130 14.24 0.00 34.68 1.94
2813 3265 4.557205 ACTGGTCGAACATTAGTCAAGTC 58.443 43.478 2.20 0.00 0.00 3.01
2825 3277 5.622770 ATTTGGTCAAATACTGGTCGAAC 57.377 39.130 7.11 0.00 39.08 3.95
2829 3281 4.857037 GCGAAATTTGGTCAAATACTGGTC 59.143 41.667 9.06 3.05 39.88 4.02
2850 3302 0.586319 AGACAATCAAACACGGTGCG 59.414 50.000 8.30 0.00 0.00 5.34
2891 3362 3.460103 TCAGTCGGCCCGAAATATTTAC 58.540 45.455 7.77 0.00 37.72 2.01
2937 3414 4.567971 CCAAATTGATTGCAAAGCCAGTA 58.432 39.130 1.71 0.00 37.59 2.74
2948 3425 4.261322 CCGATACTCCTGCCAAATTGATTG 60.261 45.833 0.00 0.00 38.84 2.67
2955 3432 0.326595 TTGCCGATACTCCTGCCAAA 59.673 50.000 0.00 0.00 0.00 3.28
2965 3442 2.628657 AGTAGGATCCAGTTGCCGATAC 59.371 50.000 15.82 4.23 0.00 2.24
3031 3508 2.087009 CGCAGGTTCTTCGGTCGTC 61.087 63.158 0.00 0.00 0.00 4.20
3083 3560 2.930019 CTCAGGTGCAGGGTGGGA 60.930 66.667 0.00 0.00 0.00 4.37
3089 3566 2.031516 CGTTGAGCTCAGGTGCAGG 61.032 63.158 17.43 3.54 34.99 4.85
3184 3661 2.355010 ATCAGCTAAACATCAGGGCC 57.645 50.000 0.00 0.00 0.00 5.80
3201 3678 7.246674 TCATCGTCCTTTGTTATAAGCAATC 57.753 36.000 0.00 0.00 0.00 2.67
3203 3680 5.584649 CCTCATCGTCCTTTGTTATAAGCAA 59.415 40.000 0.00 0.00 0.00 3.91
3215 3692 4.712337 AGATTCAGTAACCTCATCGTCCTT 59.288 41.667 0.00 0.00 0.00 3.36
3216 3693 4.098654 CAGATTCAGTAACCTCATCGTCCT 59.901 45.833 0.00 0.00 0.00 3.85
3247 3724 2.086869 CCTCATGTAAACCCTGCACAG 58.913 52.381 0.00 0.00 0.00 3.66
3311 3798 1.660560 CTGGTGCTACAATGGCCAGC 61.661 60.000 13.05 9.58 39.97 4.85
3363 3850 4.626042 AGTGTAGCAAGAAGTTCAGACTG 58.374 43.478 5.50 0.00 35.91 3.51
3448 3935 0.745845 CTGAGCAACGGAGGAATGGG 60.746 60.000 0.00 0.00 0.00 4.00
3497 3988 1.100510 CCATCCATGTCAACAGCAGG 58.899 55.000 0.00 0.00 0.00 4.85
3513 4010 1.384502 TCCCAGCCCGAAGATCCAT 60.385 57.895 0.00 0.00 0.00 3.41
3562 4059 1.299014 CTCTGTCGATCGGCTGCTC 60.299 63.158 21.85 3.27 0.00 4.26
3567 4064 1.855360 GTTTCATCTCTGTCGATCGGC 59.145 52.381 13.98 13.98 0.00 5.54
3611 4108 1.315257 GGATGGAAATGCTGCACGGT 61.315 55.000 3.57 0.00 0.00 4.83
3640 4137 1.011451 GCAAGTGAGGACAGAGTCGC 61.011 60.000 0.00 0.00 32.65 5.19
3641 4138 0.730834 CGCAAGTGAGGACAGAGTCG 60.731 60.000 0.00 0.00 32.65 4.18
3668 4187 1.159285 CCTGCAAGAAAGCATCGTCA 58.841 50.000 0.00 0.00 44.68 4.35
3756 4275 2.099831 GTCGTCGTAGGTCGCCTG 59.900 66.667 8.44 0.00 39.67 4.85
3757 4276 3.130160 GGTCGTCGTAGGTCGCCT 61.130 66.667 3.87 3.87 39.67 5.52
3758 4277 4.185059 GGGTCGTCGTAGGTCGCC 62.185 72.222 0.00 2.91 39.67 5.54
3823 4342 1.268386 CCATCATTGACATCTGCACGC 60.268 52.381 0.00 0.00 0.00 5.34
3836 4355 2.752640 TGCTGCTGCGCCATCATT 60.753 55.556 4.18 0.00 43.34 2.57
3923 4451 0.179171 CAGAGTACGCGTCACCGAAT 60.179 55.000 18.63 0.00 35.63 3.34
4006 4546 6.536224 TCTTCTACACAGAACATACATGCATG 59.464 38.462 25.09 25.09 35.82 4.06
4020 4560 4.179926 TGCTGCTACTTCTTCTACACAG 57.820 45.455 0.00 0.00 0.00 3.66
4109 4656 3.487563 TTCATCATCCGTATCGATCCG 57.512 47.619 0.00 1.04 0.00 4.18
4140 4687 7.502226 TGTGGTTTGTCAGATGATAAAAAGAGT 59.498 33.333 6.36 0.00 37.00 3.24
4141 4688 7.805071 GTGTGGTTTGTCAGATGATAAAAAGAG 59.195 37.037 6.36 0.00 37.00 2.85
4142 4689 7.255451 GGTGTGGTTTGTCAGATGATAAAAAGA 60.255 37.037 6.36 0.00 37.00 2.52
4143 4690 6.863126 GGTGTGGTTTGTCAGATGATAAAAAG 59.137 38.462 6.36 0.00 37.00 2.27
4152 4699 0.108585 AGCGGTGTGGTTTGTCAGAT 59.891 50.000 0.00 0.00 0.00 2.90
4182 4729 1.562475 TCCCTCCGTCCCAAAATAAGG 59.438 52.381 0.00 0.00 0.00 2.69
4196 4828 3.822167 GACAGCTATGTACTACTCCCTCC 59.178 52.174 0.00 0.00 40.68 4.30
4200 4832 4.755629 TCGATGACAGCTATGTACTACTCC 59.244 45.833 0.00 0.00 40.68 3.85
4201 4833 5.697178 TCTCGATGACAGCTATGTACTACTC 59.303 44.000 0.00 0.00 40.68 2.59
4238 4892 8.565896 AGGTTATTATATGCACCATGTATGTG 57.434 34.615 0.00 0.00 0.00 3.21
4243 4897 8.532186 TTTTGAGGTTATTATATGCACCATGT 57.468 30.769 0.00 0.00 0.00 3.21
4299 6076 5.562298 AATGGAAGGGCGTACTATTATGT 57.438 39.130 0.00 0.00 0.00 2.29
4311 6088 5.411361 GTGGTTTTATTTCAAATGGAAGGGC 59.589 40.000 0.00 0.00 36.72 5.19
4314 6095 9.072294 GTATCGTGGTTTTATTTCAAATGGAAG 57.928 33.333 0.00 0.00 36.72 3.46
4349 6132 6.210078 TCGCGGTTTTAGTTCAAATTCATTT 58.790 32.000 6.13 0.00 0.00 2.32
4361 6144 7.436118 TCCATAATAAGTATCGCGGTTTTAGT 58.564 34.615 6.13 3.89 0.00 2.24
4370 6153 6.456501 ACTCCAGTTCCATAATAAGTATCGC 58.543 40.000 0.00 0.00 0.00 4.58
4381 6164 9.132923 CTTCATAAGTAGTACTCCAGTTCCATA 57.867 37.037 2.58 0.00 0.00 2.74
4382 6165 7.839705 TCTTCATAAGTAGTACTCCAGTTCCAT 59.160 37.037 2.58 0.00 0.00 3.41
4384 6167 7.642082 TCTTCATAAGTAGTACTCCAGTTCC 57.358 40.000 2.58 0.00 0.00 3.62
4387 6170 9.869667 ACATATCTTCATAAGTAGTACTCCAGT 57.130 33.333 2.58 0.00 0.00 4.00
4415 6203 8.024285 GCTCTGTTATAAGTATGCCTACAGTAG 58.976 40.741 0.00 0.00 34.62 2.57
4417 6205 6.323996 TGCTCTGTTATAAGTATGCCTACAGT 59.676 38.462 1.86 0.00 34.62 3.55
4418 6206 6.749139 TGCTCTGTTATAAGTATGCCTACAG 58.251 40.000 1.86 0.00 34.38 2.74
4419 6207 6.724893 TGCTCTGTTATAAGTATGCCTACA 57.275 37.500 1.86 0.00 0.00 2.74
4420 6208 7.872993 TGAATGCTCTGTTATAAGTATGCCTAC 59.127 37.037 0.00 0.00 0.00 3.18
4421 6209 7.962441 TGAATGCTCTGTTATAAGTATGCCTA 58.038 34.615 0.00 0.00 0.00 3.93
4422 6210 6.830912 TGAATGCTCTGTTATAAGTATGCCT 58.169 36.000 0.00 0.00 0.00 4.75
4423 6211 7.678947 ATGAATGCTCTGTTATAAGTATGCC 57.321 36.000 0.00 0.00 0.00 4.40
4428 6216 8.597167 TGCCTATATGAATGCTCTGTTATAAGT 58.403 33.333 0.00 0.00 0.00 2.24
4429 6217 9.610705 ATGCCTATATGAATGCTCTGTTATAAG 57.389 33.333 0.00 0.00 0.00 1.73
4432 6220 8.766476 AGTATGCCTATATGAATGCTCTGTTAT 58.234 33.333 0.00 0.00 0.00 1.89
4433 6221 8.138928 AGTATGCCTATATGAATGCTCTGTTA 57.861 34.615 0.00 0.00 0.00 2.41
4434 6222 7.013823 AGTATGCCTATATGAATGCTCTGTT 57.986 36.000 0.00 0.00 0.00 3.16
4435 6223 6.617782 AGTATGCCTATATGAATGCTCTGT 57.382 37.500 0.00 0.00 0.00 3.41
4436 6224 9.610705 AATAAGTATGCCTATATGAATGCTCTG 57.389 33.333 0.00 0.00 0.00 3.35
4445 6233 9.261180 CGGTTCCATAATAAGTATGCCTATATG 57.739 37.037 0.00 0.00 38.68 1.78
4446 6234 7.931948 GCGGTTCCATAATAAGTATGCCTATAT 59.068 37.037 0.00 0.00 38.68 0.86
4447 6235 7.093245 TGCGGTTCCATAATAAGTATGCCTATA 60.093 37.037 0.00 0.00 38.68 1.31
4448 6236 6.113411 GCGGTTCCATAATAAGTATGCCTAT 58.887 40.000 0.00 0.00 38.68 2.57
4449 6237 5.012251 TGCGGTTCCATAATAAGTATGCCTA 59.988 40.000 0.00 0.00 38.68 3.93
4450 6238 4.202419 TGCGGTTCCATAATAAGTATGCCT 60.202 41.667 0.00 0.00 38.68 4.75
4451 6239 4.069304 TGCGGTTCCATAATAAGTATGCC 58.931 43.478 0.00 0.00 38.68 4.40
4452 6240 4.755123 AGTGCGGTTCCATAATAAGTATGC 59.245 41.667 0.00 0.00 38.68 3.14
4453 6241 5.989168 TGAGTGCGGTTCCATAATAAGTATG 59.011 40.000 0.00 0.00 39.58 2.39
4454 6242 6.169557 TGAGTGCGGTTCCATAATAAGTAT 57.830 37.500 0.00 0.00 0.00 2.12
4455 6243 5.601583 TGAGTGCGGTTCCATAATAAGTA 57.398 39.130 0.00 0.00 0.00 2.24
4456 6244 4.481368 TGAGTGCGGTTCCATAATAAGT 57.519 40.909 0.00 0.00 0.00 2.24
4457 6245 5.056480 TCATGAGTGCGGTTCCATAATAAG 58.944 41.667 0.00 0.00 0.00 1.73
4458 6246 5.029807 TCATGAGTGCGGTTCCATAATAA 57.970 39.130 0.00 0.00 0.00 1.40
4459 6247 4.681074 TCATGAGTGCGGTTCCATAATA 57.319 40.909 0.00 0.00 0.00 0.98
4460 6248 3.558931 TCATGAGTGCGGTTCCATAAT 57.441 42.857 0.00 0.00 0.00 1.28
4461 6249 3.006940 GTTCATGAGTGCGGTTCCATAA 58.993 45.455 0.00 0.00 0.00 1.90
4462 6250 2.236146 AGTTCATGAGTGCGGTTCCATA 59.764 45.455 0.00 0.00 0.00 2.74
4463 6251 1.003580 AGTTCATGAGTGCGGTTCCAT 59.996 47.619 0.00 0.00 0.00 3.41
4464 6252 0.396435 AGTTCATGAGTGCGGTTCCA 59.604 50.000 0.00 0.00 0.00 3.53
4465 6253 2.380084 TAGTTCATGAGTGCGGTTCC 57.620 50.000 0.00 0.00 0.00 3.62
4466 6254 3.521560 TCATAGTTCATGAGTGCGGTTC 58.478 45.455 0.00 0.00 38.79 3.62
4467 6255 3.610040 TCATAGTTCATGAGTGCGGTT 57.390 42.857 0.00 0.00 38.79 4.44
4468 6256 3.827008 ATCATAGTTCATGAGTGCGGT 57.173 42.857 0.00 0.00 46.76 5.68
4469 6257 4.333649 ACAAATCATAGTTCATGAGTGCGG 59.666 41.667 0.00 0.00 46.76 5.69
4487 6275 7.875327 AGAGGTAACAACTTTGTGTACAAAT 57.125 32.000 10.29 0.00 41.65 2.32
4531 7921 1.078989 AGCTTGTGTAGGTAGGACCCT 59.921 52.381 0.00 0.00 39.75 4.34
4582 7972 2.484264 GTCTGTTTGCTGTTCGGCTATT 59.516 45.455 5.23 0.00 0.00 1.73
4658 8048 8.306038 ACGGTGAAGTATGTATGTTTACAGTTA 58.694 33.333 0.00 0.00 41.49 2.24
4660 8050 6.694447 ACGGTGAAGTATGTATGTTTACAGT 58.306 36.000 0.00 0.00 41.49 3.55
4662 8052 7.545265 GGTAACGGTGAAGTATGTATGTTTACA 59.455 37.037 0.00 0.00 42.35 2.41
4667 8057 5.664294 TGGTAACGGTGAAGTATGTATGT 57.336 39.130 0.00 0.00 42.51 2.29
4670 8060 9.299465 TCATATATGGTAACGGTGAAGTATGTA 57.701 33.333 12.78 0.00 42.51 2.29
4720 8110 5.990386 CAGGAGGAAGATGATCAATACAGTG 59.010 44.000 0.00 0.00 0.00 3.66
4828 8221 1.078214 CGCTGCTCCCAGATTTCCA 60.078 57.895 0.00 0.00 41.77 3.53
4894 8287 3.701205 ATGCACACACTCAGTATCCAA 57.299 42.857 0.00 0.00 0.00 3.53
4896 8289 4.655762 TCTATGCACACACTCAGTATCC 57.344 45.455 0.00 0.00 0.00 2.59
4901 8294 2.005451 GCCTTCTATGCACACACTCAG 58.995 52.381 0.00 0.00 0.00 3.35
4902 8295 1.339055 GGCCTTCTATGCACACACTCA 60.339 52.381 0.00 0.00 0.00 3.41
4910 8303 2.220653 AAAGCTTGGCCTTCTATGCA 57.779 45.000 3.32 0.00 0.00 3.96
4931 8324 0.903236 GGAGGAGGTGGAGTTGGTAC 59.097 60.000 0.00 0.00 0.00 3.34
4935 8328 1.263356 TAACGGAGGAGGTGGAGTTG 58.737 55.000 0.00 0.00 0.00 3.16
4980 8373 1.592110 CGCGATGCAATCCTTACAACG 60.592 52.381 0.00 0.00 41.39 4.10
4985 8378 1.295792 GGAACGCGATGCAATCCTTA 58.704 50.000 15.93 0.00 41.39 2.69


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

AutoCloner maintained by Alex Coulton.