Multiple sequence alignment - TraesCS6A01G350600

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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 TraesCS6A01G350600 chr6A 100.000 2277 0 0 757 3033 582510940 582513216 0.000000e+00 4205.0
1 TraesCS6A01G350600 chr6A 100.000 556 0 0 1 556 582510184 582510739 0.000000e+00 1027.0
2 TraesCS6A01G350600 chr6A 89.139 534 49 6 1323 1853 582631211 582630684 0.000000e+00 656.0
3 TraesCS6A01G350600 chr6A 83.877 583 73 16 1426 1992 582920910 582920333 1.240000e-148 536.0
4 TraesCS6A01G350600 chr6A 89.412 255 16 6 1033 1284 582631461 582631215 8.170000e-81 311.0
5 TraesCS6A01G350600 chr6D 86.930 1140 79 38 951 2047 435711519 435712631 0.000000e+00 1216.0
6 TraesCS6A01G350600 chr6D 81.360 1191 130 61 951 2112 435963429 435962302 0.000000e+00 885.0
7 TraesCS6A01G350600 chr6D 85.035 715 60 20 951 1636 435763587 435764283 0.000000e+00 684.0
8 TraesCS6A01G350600 chr6D 90.802 511 34 7 1849 2358 435750534 435751032 0.000000e+00 671.0
9 TraesCS6A01G350600 chr6D 88.126 539 50 11 1323 1852 435749971 435750504 1.980000e-176 628.0
10 TraesCS6A01G350600 chr6D 90.347 404 34 4 2151 2550 435712657 435713059 2.680000e-145 525.0
11 TraesCS6A01G350600 chr6D 90.850 306 17 6 951 1253 435749661 435749958 1.690000e-107 399.0
12 TraesCS6A01G350600 chr6D 80.268 299 35 19 1867 2161 435809957 435809679 1.430000e-48 204.0
13 TraesCS6A01G350600 chr6D 83.465 127 14 4 2828 2948 435751329 435751454 8.890000e-21 111.0
14 TraesCS6A01G350600 chr6B 91.372 904 55 13 951 1853 658477203 658478084 0.000000e+00 1216.0
15 TraesCS6A01G350600 chr6B 91.372 904 55 13 951 1853 658495988 658496869 0.000000e+00 1216.0
16 TraesCS6A01G350600 chr6B 91.261 904 56 13 951 1853 658515139 658516020 0.000000e+00 1210.0
17 TraesCS6A01G350600 chr6B 80.263 1140 124 59 951 2055 658578618 658577545 0.000000e+00 765.0
18 TraesCS6A01G350600 chr6B 86.134 714 61 19 1849 2550 658478111 658478798 0.000000e+00 736.0
19 TraesCS6A01G350600 chr6B 86.134 714 61 19 1849 2550 658516047 658516734 0.000000e+00 736.0
20 TraesCS6A01G350600 chr6B 85.994 714 62 19 1849 2550 658496896 658497583 0.000000e+00 730.0
21 TraesCS6A01G350600 chr6B 83.727 719 66 19 951 1636 658530398 658531098 1.530000e-177 632.0
22 TraesCS6A01G350600 chr6B 96.364 275 10 0 2552 2826 145185674 145185400 1.280000e-123 453.0
23 TraesCS6A01G350600 chr6B 95.357 280 13 0 2549 2828 566207853 566208132 2.150000e-121 446.0
24 TraesCS6A01G350600 chr6B 88.217 314 27 9 1849 2160 658531294 658531599 1.720000e-97 366.0
25 TraesCS6A01G350600 chr6B 100.000 156 0 0 757 912 383569698 383569853 3.830000e-74 289.0
26 TraesCS6A01G350600 chr6B 90.000 120 9 3 2897 3016 658478860 658478976 5.240000e-33 152.0
27 TraesCS6A01G350600 chr6B 90.000 120 9 3 2897 3016 658497645 658497761 5.240000e-33 152.0
28 TraesCS6A01G350600 chr6B 90.000 120 9 3 2897 3016 658516796 658516912 5.240000e-33 152.0
29 TraesCS6A01G350600 chr3B 99.282 557 3 1 1 556 50233787 50234343 0.000000e+00 1005.0
30 TraesCS6A01G350600 chrUn 91.542 733 47 9 951 1682 389577964 389577246 0.000000e+00 996.0
31 TraesCS6A01G350600 chrUn 91.542 733 47 9 951 1682 465805736 465805018 0.000000e+00 996.0
32 TraesCS6A01G350600 chr1B 98.925 558 4 2 1 556 546703327 546702770 0.000000e+00 996.0
33 TraesCS6A01G350600 chr5B 98.746 558 5 2 1 556 613640966 613640409 0.000000e+00 990.0
34 TraesCS6A01G350600 chr4A 98.746 558 5 2 1 556 127488550 127487993 0.000000e+00 990.0
35 TraesCS6A01G350600 chr4A 100.000 156 0 0 757 912 127487986 127487831 3.830000e-74 289.0
36 TraesCS6A01G350600 chr2B 98.746 558 5 2 1 556 753936474 753935917 0.000000e+00 990.0
37 TraesCS6A01G350600 chr2B 98.564 557 7 1 1 556 790108058 790107502 0.000000e+00 983.0
38 TraesCS6A01G350600 chr2B 100.000 158 0 0 757 914 50355546 50355703 2.960000e-75 292.0
39 TraesCS6A01G350600 chr2B 99.359 156 1 0 757 912 753935512 753935357 1.780000e-72 283.0
40 TraesCS6A01G350600 chr2B 98.734 158 2 0 757 914 790107495 790107338 6.400000e-72 281.0
41 TraesCS6A01G350600 chr2B 100.000 147 0 0 766 912 607063223 607063077 3.850000e-69 272.0
42 TraesCS6A01G350600 chr2B 100.000 132 0 0 783 914 763630248 763630379 8.400000e-61 244.0
43 TraesCS6A01G350600 chr7A 98.566 558 6 2 1 556 157171065 157170508 0.000000e+00 985.0
44 TraesCS6A01G350600 chr7A 100.000 157 0 0 757 913 115322920 115322764 1.060000e-74 291.0
45 TraesCS6A01G350600 chr7A 99.359 156 1 0 757 912 157170501 157170346 1.780000e-72 283.0
46 TraesCS6A01G350600 chr3A 98.566 558 6 2 1 556 25928271 25927714 0.000000e+00 985.0
47 TraesCS6A01G350600 chr3A 97.091 275 8 0 2552 2826 511872288 511872562 5.920000e-127 464.0
48 TraesCS6A01G350600 chr3A 94.964 278 14 0 2552 2829 605072949 605072672 1.290000e-118 436.0
49 TraesCS6A01G350600 chr3A 100.000 35 0 0 916 950 459077703 459077737 7.020000e-07 65.8
50 TraesCS6A01G350600 chr1A 99.089 549 4 1 1 548 100107089 100106541 0.000000e+00 985.0
51 TraesCS6A01G350600 chr4B 97.112 277 8 0 2550 2826 618132374 618132650 4.580000e-128 468.0
52 TraesCS6A01G350600 chr4B 95.070 284 14 0 2542 2825 418491011 418491294 5.960000e-122 448.0
53 TraesCS6A01G350600 chr2A 96.364 275 10 0 2552 2826 71792205 71792479 1.280000e-123 453.0
54 TraesCS6A01G350600 chr2A 95.423 284 13 0 2545 2828 87539979 87539696 1.280000e-123 453.0
55 TraesCS6A01G350600 chr4D 94.118 289 15 2 2549 2836 33902761 33903048 3.590000e-119 438.0
56 TraesCS6A01G350600 chr7B 100.000 35 0 0 916 950 460280289 460280323 7.020000e-07 65.8


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 TraesCS6A01G350600 chr6A 582510184 582513216 3032 False 2616.000000 4205 100.000000 1 3033 2 chr6A.!!$F1 3032
1 TraesCS6A01G350600 chr6A 582920333 582920910 577 True 536.000000 536 83.877000 1426 1992 1 chr6A.!!$R1 566
2 TraesCS6A01G350600 chr6A 582630684 582631461 777 True 483.500000 656 89.275500 1033 1853 2 chr6A.!!$R2 820
3 TraesCS6A01G350600 chr6D 435962302 435963429 1127 True 885.000000 885 81.360000 951 2112 1 chr6D.!!$R2 1161
4 TraesCS6A01G350600 chr6D 435711519 435713059 1540 False 870.500000 1216 88.638500 951 2550 2 chr6D.!!$F2 1599
5 TraesCS6A01G350600 chr6D 435763587 435764283 696 False 684.000000 684 85.035000 951 1636 1 chr6D.!!$F1 685
6 TraesCS6A01G350600 chr6D 435749661 435751454 1793 False 452.250000 671 88.310750 951 2948 4 chr6D.!!$F3 1997
7 TraesCS6A01G350600 chr6B 658577545 658578618 1073 True 765.000000 765 80.263000 951 2055 1 chr6B.!!$R2 1104
8 TraesCS6A01G350600 chr6B 658477203 658478976 1773 False 701.333333 1216 89.168667 951 3016 3 chr6B.!!$F3 2065
9 TraesCS6A01G350600 chr6B 658495988 658497761 1773 False 699.333333 1216 89.122000 951 3016 3 chr6B.!!$F4 2065
10 TraesCS6A01G350600 chr6B 658515139 658516912 1773 False 699.333333 1210 89.131667 951 3016 3 chr6B.!!$F5 2065
11 TraesCS6A01G350600 chr6B 658530398 658531599 1201 False 499.000000 632 85.972000 951 2160 2 chr6B.!!$F6 1209
12 TraesCS6A01G350600 chr3B 50233787 50234343 556 False 1005.000000 1005 99.282000 1 556 1 chr3B.!!$F1 555
13 TraesCS6A01G350600 chrUn 389577246 389577964 718 True 996.000000 996 91.542000 951 1682 1 chrUn.!!$R1 731
14 TraesCS6A01G350600 chrUn 465805018 465805736 718 True 996.000000 996 91.542000 951 1682 1 chrUn.!!$R2 731
15 TraesCS6A01G350600 chr1B 546702770 546703327 557 True 996.000000 996 98.925000 1 556 1 chr1B.!!$R1 555
16 TraesCS6A01G350600 chr5B 613640409 613640966 557 True 990.000000 990 98.746000 1 556 1 chr5B.!!$R1 555
17 TraesCS6A01G350600 chr4A 127487831 127488550 719 True 639.500000 990 99.373000 1 912 2 chr4A.!!$R1 911
18 TraesCS6A01G350600 chr2B 753935357 753936474 1117 True 636.500000 990 99.052500 1 912 2 chr2B.!!$R2 911
19 TraesCS6A01G350600 chr2B 790107338 790108058 720 True 632.000000 983 98.649000 1 914 2 chr2B.!!$R3 913
20 TraesCS6A01G350600 chr7A 157170346 157171065 719 True 634.000000 985 98.962500 1 912 2 chr7A.!!$R2 911
21 TraesCS6A01G350600 chr3A 25927714 25928271 557 True 985.000000 985 98.566000 1 556 1 chr3A.!!$R1 555
22 TraesCS6A01G350600 chr1A 100106541 100107089 548 True 985.000000 985 99.089000 1 548 1 chr1A.!!$R1 547

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
934 1335 5.369833 TCGGGTACTGAAGACAATTTTTCA 58.63 37.5 0.0 0.0 43.0 2.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2454 3139 0.329931 TTTATTGCCCCGAGCTCCAA 59.67 50.0 8.47 6.87 44.23 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
933 1334 5.934935 TCGGGTACTGAAGACAATTTTTC 57.065 39.130 0.00 0.00 43.00 2.29
934 1335 5.369833 TCGGGTACTGAAGACAATTTTTCA 58.630 37.500 0.00 0.00 43.00 2.69
1029 1437 3.633094 CTGCACACGTAGCGCCTCT 62.633 63.158 2.29 0.00 33.85 3.69
1114 1527 0.038159 ACCACGAGCTGCAGACTAAC 60.038 55.000 20.43 0.00 0.00 2.34
1137 1550 3.648067 TGAGGAAGTGAGGAAGACAACAT 59.352 43.478 0.00 0.00 0.00 2.71
1348 1826 4.247380 GGAGGGATCCTGCAGCGG 62.247 72.222 12.58 0.00 41.77 5.52
1445 1933 8.608844 ATTTGCATTTTTCCCGTTTACATTTA 57.391 26.923 0.00 0.00 0.00 1.40
1977 2523 6.814146 TGTGTGAATTTTCTTTTGGTTGTACC 59.186 34.615 0.00 0.00 39.22 3.34
1989 2540 4.804868 TGGTTGTACCGTGTATGTATGT 57.195 40.909 0.00 0.00 42.58 2.29
1990 2541 5.911378 TGGTTGTACCGTGTATGTATGTA 57.089 39.130 0.00 0.00 42.58 2.29
1991 2542 6.468333 TGGTTGTACCGTGTATGTATGTAT 57.532 37.500 0.00 0.00 42.58 2.29
1992 2543 6.274579 TGGTTGTACCGTGTATGTATGTATG 58.725 40.000 0.00 0.00 42.58 2.39
1999 2550 5.776208 ACCGTGTATGTATGTATGTATGGGA 59.224 40.000 0.00 0.00 0.00 4.37
2117 2677 9.118300 ACATTGCATTGGAAAATGTTTTAAGAA 57.882 25.926 12.87 0.00 40.68 2.52
2149 2709 7.173047 GGAGCATTCTAGGCAATTTTTGAAAAA 59.827 33.333 5.47 5.47 0.00 1.94
2183 2755 5.044558 TCGAAAAATAAGGCACACCAAAAC 58.955 37.500 0.00 0.00 39.06 2.43
2194 2766 4.036971 GGCACACCAAAACTACACATACAA 59.963 41.667 0.00 0.00 35.26 2.41
2268 2840 0.803768 CGGCACTGTCGGAGATCAAG 60.804 60.000 0.00 0.00 40.67 3.02
2279 2851 5.243060 TGTCGGAGATCAAGAAAACAGAGTA 59.757 40.000 0.00 0.00 40.67 2.59
2345 2918 1.293963 GCTCGAGCTCACATGCACAA 61.294 55.000 29.88 0.00 38.21 3.33
2346 2919 0.441533 CTCGAGCTCACATGCACAAC 59.558 55.000 15.40 0.00 34.99 3.32
2460 3145 7.725251 TGGTAATGGAATGATATTTTTGGAGC 58.275 34.615 0.00 0.00 0.00 4.70
2463 3148 5.756195 TGGAATGATATTTTTGGAGCTCG 57.244 39.130 7.83 0.00 0.00 5.03
2495 3180 9.949174 ATAAAAACAAAATCAATGCTCCAAAAC 57.051 25.926 0.00 0.00 0.00 2.43
2517 3203 8.635765 AAACTAGTCTTTTGGAGCATTTGATA 57.364 30.769 0.00 0.00 0.00 2.15
2519 3205 9.905713 AACTAGTCTTTTGGAGCATTTGATATA 57.094 29.630 0.00 0.00 0.00 0.86
2529 3217 5.634859 GGAGCATTTGATATATTTTTGCCCG 59.365 40.000 7.05 0.00 0.00 6.13
2531 3219 4.690280 GCATTTGATATATTTTTGCCCGGG 59.310 41.667 19.09 19.09 0.00 5.73
2550 3238 3.056607 CGGGCCTTCATGAAAGTGATTTT 60.057 43.478 9.88 0.00 32.69 1.82
2551 3239 4.157656 CGGGCCTTCATGAAAGTGATTTTA 59.842 41.667 9.88 0.00 32.69 1.52
2552 3240 5.654497 GGGCCTTCATGAAAGTGATTTTAG 58.346 41.667 9.88 0.00 32.69 1.85
2553 3241 5.418840 GGGCCTTCATGAAAGTGATTTTAGA 59.581 40.000 9.88 0.00 32.69 2.10
2554 3242 6.325596 GGCCTTCATGAAAGTGATTTTAGAC 58.674 40.000 9.88 0.00 32.69 2.59
2555 3243 6.151817 GGCCTTCATGAAAGTGATTTTAGACT 59.848 38.462 9.88 0.00 32.69 3.24
2556 3244 7.336931 GGCCTTCATGAAAGTGATTTTAGACTA 59.663 37.037 9.88 0.00 32.69 2.59
2557 3245 8.394121 GCCTTCATGAAAGTGATTTTAGACTAG 58.606 37.037 9.88 0.00 32.69 2.57
2558 3246 8.394121 CCTTCATGAAAGTGATTTTAGACTAGC 58.606 37.037 9.88 0.00 32.69 3.42
2559 3247 7.849804 TCATGAAAGTGATTTTAGACTAGCC 57.150 36.000 0.00 0.00 0.00 3.93
2560 3248 7.394016 TCATGAAAGTGATTTTAGACTAGCCA 58.606 34.615 0.00 0.00 0.00 4.75
2561 3249 7.334421 TCATGAAAGTGATTTTAGACTAGCCAC 59.666 37.037 0.00 0.00 0.00 5.01
2562 3250 6.530120 TGAAAGTGATTTTAGACTAGCCACA 58.470 36.000 0.00 0.00 0.00 4.17
2563 3251 6.995686 TGAAAGTGATTTTAGACTAGCCACAA 59.004 34.615 0.00 0.00 0.00 3.33
2564 3252 7.665559 TGAAAGTGATTTTAGACTAGCCACAAT 59.334 33.333 0.00 0.00 0.00 2.71
2565 3253 6.992063 AGTGATTTTAGACTAGCCACAATG 57.008 37.500 0.00 0.00 0.00 2.82
2566 3254 6.711277 AGTGATTTTAGACTAGCCACAATGA 58.289 36.000 0.00 0.00 0.00 2.57
2567 3255 7.168219 AGTGATTTTAGACTAGCCACAATGAA 58.832 34.615 0.00 0.00 0.00 2.57
2568 3256 7.335422 AGTGATTTTAGACTAGCCACAATGAAG 59.665 37.037 0.00 0.00 0.00 3.02
2569 3257 7.334421 GTGATTTTAGACTAGCCACAATGAAGA 59.666 37.037 0.00 0.00 0.00 2.87
2570 3258 7.550551 TGATTTTAGACTAGCCACAATGAAGAG 59.449 37.037 0.00 0.00 0.00 2.85
2571 3259 6.360370 TTTAGACTAGCCACAATGAAGAGT 57.640 37.500 0.00 0.00 0.00 3.24
2572 3260 7.476540 TTTAGACTAGCCACAATGAAGAGTA 57.523 36.000 0.00 0.00 0.00 2.59
2573 3261 7.476540 TTAGACTAGCCACAATGAAGAGTAA 57.523 36.000 0.00 0.00 0.00 2.24
2574 3262 5.725362 AGACTAGCCACAATGAAGAGTAAC 58.275 41.667 0.00 0.00 0.00 2.50
2575 3263 5.246203 AGACTAGCCACAATGAAGAGTAACA 59.754 40.000 0.00 0.00 0.00 2.41
2576 3264 6.054860 ACTAGCCACAATGAAGAGTAACAT 57.945 37.500 0.00 0.00 0.00 2.71
2577 3265 7.124298 AGACTAGCCACAATGAAGAGTAACATA 59.876 37.037 0.00 0.00 0.00 2.29
2578 3266 7.042335 ACTAGCCACAATGAAGAGTAACATAC 58.958 38.462 0.00 0.00 0.00 2.39
2579 3267 5.804639 AGCCACAATGAAGAGTAACATACA 58.195 37.500 0.00 0.00 0.00 2.29
2580 3268 5.643777 AGCCACAATGAAGAGTAACATACAC 59.356 40.000 0.00 0.00 0.00 2.90
2581 3269 5.643777 GCCACAATGAAGAGTAACATACACT 59.356 40.000 0.00 0.00 0.00 3.55
2582 3270 6.816640 GCCACAATGAAGAGTAACATACACTA 59.183 38.462 0.00 0.00 0.00 2.74
2583 3271 7.010552 GCCACAATGAAGAGTAACATACACTAG 59.989 40.741 0.00 0.00 0.00 2.57
2584 3272 8.035394 CCACAATGAAGAGTAACATACACTAGT 58.965 37.037 0.00 0.00 0.00 2.57
2600 3288 9.856488 CATACACTAGTAACATACACATATCCC 57.144 37.037 0.00 0.00 33.13 3.85
2601 3289 9.824216 ATACACTAGTAACATACACATATCCCT 57.176 33.333 0.00 0.00 33.13 4.20
2603 3291 9.298250 ACACTAGTAACATACACATATCCCTAG 57.702 37.037 0.00 0.00 0.00 3.02
2604 3292 9.516546 CACTAGTAACATACACATATCCCTAGA 57.483 37.037 0.00 0.00 0.00 2.43
2605 3293 9.517868 ACTAGTAACATACACATATCCCTAGAC 57.482 37.037 0.00 0.00 0.00 2.59
2606 3294 9.742144 CTAGTAACATACACATATCCCTAGACT 57.258 37.037 0.00 0.00 0.00 3.24
2628 3316 9.756571 AGACTATATTACTACCTTCATAGTGGG 57.243 37.037 0.00 0.00 36.09 4.61
2629 3317 9.531158 GACTATATTACTACCTTCATAGTGGGT 57.469 37.037 0.00 0.00 36.09 4.51
2637 3325 7.598759 CTACCTTCATAGTGGGTAGTAACAT 57.401 40.000 9.46 0.00 44.30 2.71
2638 3326 8.701908 CTACCTTCATAGTGGGTAGTAACATA 57.298 38.462 9.46 0.00 44.30 2.29
2639 3327 7.983166 ACCTTCATAGTGGGTAGTAACATAA 57.017 36.000 0.00 0.00 0.00 1.90
2640 3328 8.019656 ACCTTCATAGTGGGTAGTAACATAAG 57.980 38.462 0.00 0.00 0.00 1.73
2641 3329 7.622479 ACCTTCATAGTGGGTAGTAACATAAGT 59.378 37.037 0.00 0.00 0.00 2.24
2642 3330 7.926555 CCTTCATAGTGGGTAGTAACATAAGTG 59.073 40.741 0.00 0.00 0.00 3.16
2643 3331 7.966339 TCATAGTGGGTAGTAACATAAGTGT 57.034 36.000 0.00 0.00 41.28 3.55
2644 3332 7.778083 TCATAGTGGGTAGTAACATAAGTGTG 58.222 38.462 0.00 0.00 38.92 3.82
2645 3333 5.416271 AGTGGGTAGTAACATAAGTGTGG 57.584 43.478 0.00 0.00 38.92 4.17
2646 3334 4.842380 AGTGGGTAGTAACATAAGTGTGGT 59.158 41.667 0.00 0.00 38.92 4.16
2647 3335 6.018469 AGTGGGTAGTAACATAAGTGTGGTA 58.982 40.000 0.00 0.00 38.92 3.25
2648 3336 6.497954 AGTGGGTAGTAACATAAGTGTGGTAA 59.502 38.462 0.00 0.00 38.92 2.85
2649 3337 6.591448 GTGGGTAGTAACATAAGTGTGGTAAC 59.409 42.308 0.00 0.00 38.92 2.50
2662 3350 2.857186 TGGTAACATGCAGAGCTTCA 57.143 45.000 0.00 0.00 46.17 3.02
2663 3351 3.354948 TGGTAACATGCAGAGCTTCAT 57.645 42.857 0.00 0.00 46.17 2.57
2664 3352 3.689347 TGGTAACATGCAGAGCTTCATT 58.311 40.909 0.00 0.00 46.17 2.57
2665 3353 4.081406 TGGTAACATGCAGAGCTTCATTT 58.919 39.130 0.00 0.00 46.17 2.32
2666 3354 5.252547 TGGTAACATGCAGAGCTTCATTTA 58.747 37.500 0.00 0.00 46.17 1.40
2667 3355 5.887598 TGGTAACATGCAGAGCTTCATTTAT 59.112 36.000 0.00 0.00 46.17 1.40
2668 3356 6.377996 TGGTAACATGCAGAGCTTCATTTATT 59.622 34.615 0.00 0.00 46.17 1.40
2669 3357 7.555914 TGGTAACATGCAGAGCTTCATTTATTA 59.444 33.333 0.00 0.00 46.17 0.98
2670 3358 8.571336 GGTAACATGCAGAGCTTCATTTATTAT 58.429 33.333 0.00 0.00 0.00 1.28
2671 3359 9.390795 GTAACATGCAGAGCTTCATTTATTATG 57.609 33.333 0.00 0.00 0.00 1.90
2672 3360 7.578310 ACATGCAGAGCTTCATTTATTATGT 57.422 32.000 0.00 0.00 0.00 2.29
2673 3361 8.004087 ACATGCAGAGCTTCATTTATTATGTT 57.996 30.769 0.00 0.00 0.00 2.71
2674 3362 9.123902 ACATGCAGAGCTTCATTTATTATGTTA 57.876 29.630 0.00 0.00 0.00 2.41
2694 3382 7.984422 TGTTATAGACTCATATTGCATTGGG 57.016 36.000 0.00 0.00 0.00 4.12
2695 3383 7.744733 TGTTATAGACTCATATTGCATTGGGA 58.255 34.615 0.00 0.00 0.00 4.37
2696 3384 7.661437 TGTTATAGACTCATATTGCATTGGGAC 59.339 37.037 0.00 0.00 0.00 4.46
2697 3385 4.508551 AGACTCATATTGCATTGGGACA 57.491 40.909 0.00 0.00 0.00 4.02
2698 3386 5.057843 AGACTCATATTGCATTGGGACAT 57.942 39.130 0.00 0.00 39.30 3.06
2699 3387 5.452255 AGACTCATATTGCATTGGGACATT 58.548 37.500 0.00 0.00 39.30 2.71
2700 3388 5.895534 AGACTCATATTGCATTGGGACATTT 59.104 36.000 0.00 0.00 39.30 2.32
2701 3389 5.909477 ACTCATATTGCATTGGGACATTTG 58.091 37.500 0.00 0.00 39.30 2.32
2702 3390 5.657745 ACTCATATTGCATTGGGACATTTGA 59.342 36.000 0.00 0.00 39.30 2.69
2703 3391 6.325545 ACTCATATTGCATTGGGACATTTGAT 59.674 34.615 0.00 0.00 39.30 2.57
2704 3392 6.517605 TCATATTGCATTGGGACATTTGATG 58.482 36.000 0.00 0.00 39.30 3.07
2706 3394 4.620589 TTGCATTGGGACATTTGATGTT 57.379 36.364 0.00 0.00 45.03 2.71
2707 3395 5.735285 TTGCATTGGGACATTTGATGTTA 57.265 34.783 0.00 0.00 45.03 2.41
2708 3396 5.070770 TGCATTGGGACATTTGATGTTAC 57.929 39.130 0.00 0.00 45.03 2.50
2709 3397 4.525874 TGCATTGGGACATTTGATGTTACA 59.474 37.500 0.00 0.00 45.03 2.41
2710 3398 5.104374 GCATTGGGACATTTGATGTTACAG 58.896 41.667 0.00 0.00 45.03 2.74
2711 3399 5.336690 GCATTGGGACATTTGATGTTACAGT 60.337 40.000 0.00 0.00 45.03 3.55
2712 3400 6.127758 GCATTGGGACATTTGATGTTACAGTA 60.128 38.462 0.00 0.00 45.03 2.74
2713 3401 7.576666 GCATTGGGACATTTGATGTTACAGTAA 60.577 37.037 0.00 0.00 45.03 2.24
2714 3402 6.811253 TGGGACATTTGATGTTACAGTAAC 57.189 37.500 15.58 15.58 45.03 2.50
2715 3403 6.539173 TGGGACATTTGATGTTACAGTAACT 58.461 36.000 21.56 9.41 45.03 2.24
2716 3404 7.681679 TGGGACATTTGATGTTACAGTAACTA 58.318 34.615 21.56 10.50 45.03 2.24
2717 3405 7.822334 TGGGACATTTGATGTTACAGTAACTAG 59.178 37.037 21.56 8.25 45.03 2.57
2718 3406 7.201617 GGGACATTTGATGTTACAGTAACTAGC 60.202 40.741 21.56 12.59 45.03 3.42
2719 3407 7.549488 GGACATTTGATGTTACAGTAACTAGCT 59.451 37.037 21.56 6.57 45.03 3.32
2720 3408 9.582431 GACATTTGATGTTACAGTAACTAGCTA 57.418 33.333 21.56 4.25 45.03 3.32
2721 3409 9.938280 ACATTTGATGTTACAGTAACTAGCTAA 57.062 29.630 21.56 14.27 41.63 3.09
2738 3426 9.830975 AACTAGCTAAGTTACTACTACTACCTC 57.169 37.037 0.00 0.00 46.85 3.85
2739 3427 9.212593 ACTAGCTAAGTTACTACTACTACCTCT 57.787 37.037 0.00 0.00 33.35 3.69
2742 3430 9.394767 AGCTAAGTTACTACTACTACCTCTTTC 57.605 37.037 0.00 0.00 33.17 2.62
2743 3431 8.620416 GCTAAGTTACTACTACTACCTCTTTCC 58.380 40.741 0.00 0.00 33.17 3.13
2744 3432 9.904198 CTAAGTTACTACTACTACCTCTTTCCT 57.096 37.037 0.00 0.00 33.17 3.36
2745 3433 8.806429 AAGTTACTACTACTACCTCTTTCCTC 57.194 38.462 0.00 0.00 33.17 3.71
2746 3434 7.926705 AGTTACTACTACTACCTCTTTCCTCA 58.073 38.462 0.00 0.00 31.21 3.86
2747 3435 8.559175 AGTTACTACTACTACCTCTTTCCTCAT 58.441 37.037 0.00 0.00 31.21 2.90
2748 3436 9.187996 GTTACTACTACTACCTCTTTCCTCATT 57.812 37.037 0.00 0.00 0.00 2.57
2751 3439 9.187996 ACTACTACTACCTCTTTCCTCATTAAC 57.812 37.037 0.00 0.00 0.00 2.01
2752 3440 9.411189 CTACTACTACCTCTTTCCTCATTAACT 57.589 37.037 0.00 0.00 0.00 2.24
2753 3441 8.296211 ACTACTACCTCTTTCCTCATTAACTC 57.704 38.462 0.00 0.00 0.00 3.01
2754 3442 7.894364 ACTACTACCTCTTTCCTCATTAACTCA 59.106 37.037 0.00 0.00 0.00 3.41
2755 3443 7.741554 ACTACCTCTTTCCTCATTAACTCAT 57.258 36.000 0.00 0.00 0.00 2.90
2756 3444 8.152023 ACTACCTCTTTCCTCATTAACTCATT 57.848 34.615 0.00 0.00 0.00 2.57
2757 3445 8.043710 ACTACCTCTTTCCTCATTAACTCATTG 58.956 37.037 0.00 0.00 0.00 2.82
2758 3446 5.649831 ACCTCTTTCCTCATTAACTCATTGC 59.350 40.000 0.00 0.00 0.00 3.56
2759 3447 5.067023 CCTCTTTCCTCATTAACTCATTGCC 59.933 44.000 0.00 0.00 0.00 4.52
2760 3448 5.569355 TCTTTCCTCATTAACTCATTGCCA 58.431 37.500 0.00 0.00 0.00 4.92
2761 3449 5.415701 TCTTTCCTCATTAACTCATTGCCAC 59.584 40.000 0.00 0.00 0.00 5.01
2762 3450 4.299586 TCCTCATTAACTCATTGCCACA 57.700 40.909 0.00 0.00 0.00 4.17
2763 3451 4.858850 TCCTCATTAACTCATTGCCACAT 58.141 39.130 0.00 0.00 0.00 3.21
2764 3452 6.000246 TCCTCATTAACTCATTGCCACATA 58.000 37.500 0.00 0.00 0.00 2.29
2765 3453 6.422333 TCCTCATTAACTCATTGCCACATAA 58.578 36.000 0.00 0.00 0.00 1.90
2766 3454 6.543465 TCCTCATTAACTCATTGCCACATAAG 59.457 38.462 0.00 0.00 0.00 1.73
2767 3455 6.135290 TCATTAACTCATTGCCACATAAGC 57.865 37.500 0.00 0.00 0.00 3.09
2768 3456 5.651576 TCATTAACTCATTGCCACATAAGCA 59.348 36.000 0.00 0.00 38.81 3.91
2789 3477 5.356882 CAAATTTGCTAAGTTGGACTCGA 57.643 39.130 12.27 0.00 36.09 4.04
2790 3478 5.942872 CAAATTTGCTAAGTTGGACTCGAT 58.057 37.500 12.27 0.00 36.09 3.59
2791 3479 5.551760 AATTTGCTAAGTTGGACTCGATG 57.448 39.130 0.00 0.00 0.00 3.84
2792 3480 3.678056 TTGCTAAGTTGGACTCGATGT 57.322 42.857 0.00 0.00 0.00 3.06
2793 3481 3.678056 TGCTAAGTTGGACTCGATGTT 57.322 42.857 0.00 0.00 0.00 2.71
2794 3482 4.794278 TGCTAAGTTGGACTCGATGTTA 57.206 40.909 0.00 0.00 0.00 2.41
2795 3483 4.491676 TGCTAAGTTGGACTCGATGTTAC 58.508 43.478 0.00 0.00 0.00 2.50
2796 3484 4.219944 TGCTAAGTTGGACTCGATGTTACT 59.780 41.667 0.00 0.00 0.00 2.24
2797 3485 5.416639 TGCTAAGTTGGACTCGATGTTACTA 59.583 40.000 0.00 0.00 0.00 1.82
2798 3486 5.742926 GCTAAGTTGGACTCGATGTTACTAC 59.257 44.000 0.00 0.00 0.00 2.73
2799 3487 5.979288 AAGTTGGACTCGATGTTACTACT 57.021 39.130 0.00 0.00 0.00 2.57
2800 3488 5.312120 AGTTGGACTCGATGTTACTACTG 57.688 43.478 0.00 0.00 0.00 2.74
2801 3489 5.008331 AGTTGGACTCGATGTTACTACTGA 58.992 41.667 0.00 0.00 0.00 3.41
2802 3490 5.475909 AGTTGGACTCGATGTTACTACTGAA 59.524 40.000 0.00 0.00 0.00 3.02
2803 3491 5.562506 TGGACTCGATGTTACTACTGAAG 57.437 43.478 0.00 0.00 0.00 3.02
2804 3492 5.008331 TGGACTCGATGTTACTACTGAAGT 58.992 41.667 0.00 0.00 42.62 3.01
2805 3493 5.475909 TGGACTCGATGTTACTACTGAAGTT 59.524 40.000 0.00 0.00 39.80 2.66
2806 3494 6.656270 TGGACTCGATGTTACTACTGAAGTTA 59.344 38.462 0.00 0.00 39.80 2.24
2807 3495 6.966066 GGACTCGATGTTACTACTGAAGTTAC 59.034 42.308 0.00 0.00 39.80 2.50
2808 3496 7.148272 GGACTCGATGTTACTACTGAAGTTACT 60.148 40.741 0.00 0.00 38.33 2.24
2809 3497 7.750769 ACTCGATGTTACTACTGAAGTTACTC 58.249 38.462 0.00 0.00 38.33 2.59
2810 3498 7.081526 TCGATGTTACTACTGAAGTTACTCC 57.918 40.000 0.00 0.00 38.33 3.85
2811 3499 6.094603 TCGATGTTACTACTGAAGTTACTCCC 59.905 42.308 0.00 0.00 38.33 4.30
2812 3500 6.127814 CGATGTTACTACTGAAGTTACTCCCA 60.128 42.308 0.00 0.00 38.33 4.37
2813 3501 6.336842 TGTTACTACTGAAGTTACTCCCAC 57.663 41.667 0.00 0.00 38.33 4.61
2814 3502 6.073314 TGTTACTACTGAAGTTACTCCCACT 58.927 40.000 0.00 0.00 38.33 4.00
2815 3503 6.015688 TGTTACTACTGAAGTTACTCCCACTG 60.016 42.308 0.00 0.00 38.33 3.66
2816 3504 4.481072 ACTACTGAAGTTACTCCCACTGT 58.519 43.478 0.00 0.00 33.35 3.55
2817 3505 3.753294 ACTGAAGTTACTCCCACTGTG 57.247 47.619 0.00 0.00 0.00 3.66
2818 3506 2.368875 ACTGAAGTTACTCCCACTGTGG 59.631 50.000 20.01 20.01 37.25 4.17
2832 3520 3.513912 CCACTGTGGGTAGTCTTATCACA 59.486 47.826 19.23 0.00 36.94 3.58
2836 3524 6.147821 CACTGTGGGTAGTCTTATCACAAAAG 59.852 42.308 0.00 0.00 37.80 2.27
2837 3525 6.182507 TGTGGGTAGTCTTATCACAAAAGT 57.817 37.500 0.00 0.00 35.72 2.66
2849 3537 4.056092 TCACAAAAGTTTGCATGCATGA 57.944 36.364 30.64 16.37 41.79 3.07
2860 3548 5.903764 TTGCATGCATGAAAAACAGTTAC 57.096 34.783 30.64 8.14 0.00 2.50
2867 3555 5.982516 TGCATGAAAAACAGTTACCAATGTC 59.017 36.000 0.00 0.00 0.00 3.06
2928 3624 2.370281 ACGGATGCATATAAGCTCGG 57.630 50.000 0.00 4.12 34.99 4.63
2940 3636 4.965200 ATAAGCTCGGGATTAGAAGCTT 57.035 40.909 12.49 12.49 43.70 3.74
2973 3669 7.068593 CACCCACCACTTAATTCATTCATACAT 59.931 37.037 0.00 0.00 0.00 2.29
3021 3717 9.433317 CACAAATGTGCGTACTTTATATAAAGG 57.567 33.333 29.82 17.99 41.63 3.11
3022 3718 9.386010 ACAAATGTGCGTACTTTATATAAAGGA 57.614 29.630 29.82 23.37 45.23 3.36
3023 3719 9.864034 CAAATGTGCGTACTTTATATAAAGGAG 57.136 33.333 29.82 22.45 45.23 3.69
3024 3720 9.826574 AAATGTGCGTACTTTATATAAAGGAGA 57.173 29.630 29.82 16.99 45.23 3.71
3025 3721 9.477484 AATGTGCGTACTTTATATAAAGGAGAG 57.523 33.333 29.82 21.79 45.23 3.20
3026 3722 8.229253 TGTGCGTACTTTATATAAAGGAGAGA 57.771 34.615 29.82 14.10 45.23 3.10
3027 3723 8.689061 TGTGCGTACTTTATATAAAGGAGAGAA 58.311 33.333 29.82 16.14 45.23 2.87
3028 3724 9.525409 GTGCGTACTTTATATAAAGGAGAGAAA 57.475 33.333 29.82 13.64 45.23 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
359 361 2.436646 CCAGATTTGGTCCGCGCT 60.437 61.111 5.56 0.00 39.79 5.92
432 434 4.918360 TGGGTGGGTGGAGTGGCT 62.918 66.667 0.00 0.00 0.00 4.75
925 1326 9.533253 GGGACCATCATTTATACTGAAAAATTG 57.467 33.333 0.00 0.00 0.00 2.32
926 1327 8.413229 CGGGACCATCATTTATACTGAAAAATT 58.587 33.333 0.00 0.00 0.00 1.82
927 1328 7.014230 CCGGGACCATCATTTATACTGAAAAAT 59.986 37.037 0.00 0.00 0.00 1.82
928 1329 6.320164 CCGGGACCATCATTTATACTGAAAAA 59.680 38.462 0.00 0.00 0.00 1.94
929 1330 5.825679 CCGGGACCATCATTTATACTGAAAA 59.174 40.000 0.00 0.00 0.00 2.29
930 1331 5.373222 CCGGGACCATCATTTATACTGAAA 58.627 41.667 0.00 0.00 0.00 2.69
931 1332 4.745478 GCCGGGACCATCATTTATACTGAA 60.745 45.833 2.18 0.00 0.00 3.02
932 1333 3.244422 GCCGGGACCATCATTTATACTGA 60.244 47.826 2.18 0.00 0.00 3.41
933 1334 3.074412 GCCGGGACCATCATTTATACTG 58.926 50.000 2.18 0.00 0.00 2.74
934 1335 2.039879 GGCCGGGACCATCATTTATACT 59.960 50.000 2.18 0.00 0.00 2.12
935 1336 2.039879 AGGCCGGGACCATCATTTATAC 59.960 50.000 2.18 0.00 0.00 1.47
936 1337 2.304761 GAGGCCGGGACCATCATTTATA 59.695 50.000 2.18 0.00 0.00 0.98
937 1338 1.073923 GAGGCCGGGACCATCATTTAT 59.926 52.381 2.18 0.00 0.00 1.40
938 1339 0.472471 GAGGCCGGGACCATCATTTA 59.528 55.000 2.18 0.00 0.00 1.40
939 1340 1.227383 GAGGCCGGGACCATCATTT 59.773 57.895 2.18 0.00 0.00 2.32
940 1341 1.694169 AGAGGCCGGGACCATCATT 60.694 57.895 2.18 0.00 0.00 2.57
941 1342 2.040464 AGAGGCCGGGACCATCAT 60.040 61.111 2.18 0.00 0.00 2.45
942 1343 2.764128 GAGAGGCCGGGACCATCA 60.764 66.667 2.18 0.00 0.00 3.07
943 1344 1.627297 AAAGAGAGGCCGGGACCATC 61.627 60.000 2.18 0.00 0.00 3.51
944 1345 0.326238 TAAAGAGAGGCCGGGACCAT 60.326 55.000 2.18 0.00 0.00 3.55
945 1346 0.326238 ATAAAGAGAGGCCGGGACCA 60.326 55.000 2.18 0.00 0.00 4.02
946 1347 0.106894 CATAAAGAGAGGCCGGGACC 59.893 60.000 2.18 0.00 0.00 4.46
947 1348 0.106894 CCATAAAGAGAGGCCGGGAC 59.893 60.000 2.18 0.00 0.00 4.46
948 1349 1.054406 CCCATAAAGAGAGGCCGGGA 61.054 60.000 2.18 0.00 33.83 5.14
949 1350 1.451936 CCCATAAAGAGAGGCCGGG 59.548 63.158 2.18 0.00 0.00 5.73
1029 1437 0.894184 GCGAGGGGATAGGATCGTCA 60.894 60.000 0.00 0.00 37.49 4.35
1114 1527 3.070159 TGTTGTCTTCCTCACTTCCTCAG 59.930 47.826 0.00 0.00 0.00 3.35
1118 1531 4.254492 GGTATGTTGTCTTCCTCACTTCC 58.746 47.826 0.00 0.00 0.00 3.46
1119 1532 4.894784 TGGTATGTTGTCTTCCTCACTTC 58.105 43.478 0.00 0.00 0.00 3.01
1386 1864 5.812642 TGCTAGCAAGAAGCAAGAAGTATAC 59.187 40.000 16.84 0.00 46.57 1.47
1445 1933 8.776376 AATTCAGCCATTGATTCGTTTAATTT 57.224 26.923 0.00 0.00 35.27 1.82
1799 2299 2.463876 GCACCTCAAACTTTCACAAGC 58.536 47.619 0.00 0.00 32.57 4.01
1829 2329 6.913873 TTATTATTCTGCAAAGGTACGGTC 57.086 37.500 0.00 0.00 0.00 4.79
1833 2333 7.910683 GCTCACTTTATTATTCTGCAAAGGTAC 59.089 37.037 0.00 0.00 33.30 3.34
1834 2334 7.829211 AGCTCACTTTATTATTCTGCAAAGGTA 59.171 33.333 0.00 0.00 33.30 3.08
1835 2335 6.660949 AGCTCACTTTATTATTCTGCAAAGGT 59.339 34.615 0.00 0.00 33.30 3.50
1836 2336 7.093322 AGCTCACTTTATTATTCTGCAAAGG 57.907 36.000 0.00 0.00 33.30 3.11
1837 2337 7.854916 GCTAGCTCACTTTATTATTCTGCAAAG 59.145 37.037 7.70 0.00 34.80 2.77
2041 2592 5.909621 ATGCAATAACACAGAAAGCTCAT 57.090 34.783 0.00 0.00 0.00 2.90
2117 2677 3.439857 TGCCTAGAATGCTCCAAACTT 57.560 42.857 0.00 0.00 0.00 2.66
2149 2709 7.973944 GTGCCTTATTTTTCGATACTTCCAAAT 59.026 33.333 0.00 0.00 0.00 2.32
2194 2766 9.927081 ATCCTATGAGTTGGTAAATTCAAGATT 57.073 29.630 0.00 0.00 35.86 2.40
2268 2840 4.491676 TGGTCGCTATGTACTCTGTTTTC 58.508 43.478 0.00 0.00 0.00 2.29
2279 2851 4.157840 GGGATTTTTCTTTGGTCGCTATGT 59.842 41.667 0.00 0.00 0.00 2.29
2436 3121 7.955918 AGCTCCAAAAATATCATTCCATTACC 58.044 34.615 0.00 0.00 0.00 2.85
2454 3139 0.329931 TTTATTGCCCCGAGCTCCAA 59.670 50.000 8.47 6.87 44.23 3.53
2460 3145 5.233988 TGATTTTGTTTTTATTGCCCCGAG 58.766 37.500 0.00 0.00 0.00 4.63
2463 3148 6.072008 AGCATTGATTTTGTTTTTATTGCCCC 60.072 34.615 0.00 0.00 0.00 5.80
2517 3203 1.119684 GAAGGCCCGGGCAAAAATAT 58.880 50.000 44.46 22.38 44.11 1.28
2519 3205 0.909133 ATGAAGGCCCGGGCAAAAAT 60.909 50.000 44.46 28.79 44.11 1.82
2529 3217 4.541973 AAAATCACTTTCATGAAGGCCC 57.458 40.909 16.83 0.00 39.79 5.80
2531 3219 7.150783 AGTCTAAAATCACTTTCATGAAGGC 57.849 36.000 16.83 0.00 39.79 4.35
2550 3238 6.436218 TGTTACTCTTCATTGTGGCTAGTCTA 59.564 38.462 0.00 0.00 0.00 2.59
2551 3239 5.246203 TGTTACTCTTCATTGTGGCTAGTCT 59.754 40.000 0.00 0.00 0.00 3.24
2552 3240 5.479306 TGTTACTCTTCATTGTGGCTAGTC 58.521 41.667 0.00 0.00 0.00 2.59
2553 3241 5.483685 TGTTACTCTTCATTGTGGCTAGT 57.516 39.130 0.00 0.00 0.00 2.57
2554 3242 7.010552 GTGTATGTTACTCTTCATTGTGGCTAG 59.989 40.741 0.00 0.00 0.00 3.42
2555 3243 6.816640 GTGTATGTTACTCTTCATTGTGGCTA 59.183 38.462 0.00 0.00 0.00 3.93
2556 3244 5.643777 GTGTATGTTACTCTTCATTGTGGCT 59.356 40.000 0.00 0.00 0.00 4.75
2557 3245 5.643777 AGTGTATGTTACTCTTCATTGTGGC 59.356 40.000 0.00 0.00 0.00 5.01
2558 3246 8.035394 ACTAGTGTATGTTACTCTTCATTGTGG 58.965 37.037 0.00 0.00 34.65 4.17
2559 3247 8.988064 ACTAGTGTATGTTACTCTTCATTGTG 57.012 34.615 0.00 0.00 34.65 3.33
2574 3262 9.856488 GGGATATGTGTATGTTACTAGTGTATG 57.144 37.037 5.39 0.00 0.00 2.39
2575 3263 9.824216 AGGGATATGTGTATGTTACTAGTGTAT 57.176 33.333 5.39 0.00 0.00 2.29
2577 3265 9.298250 CTAGGGATATGTGTATGTTACTAGTGT 57.702 37.037 5.39 0.00 0.00 3.55
2578 3266 9.516546 TCTAGGGATATGTGTATGTTACTAGTG 57.483 37.037 5.39 0.00 0.00 2.74
2579 3267 9.517868 GTCTAGGGATATGTGTATGTTACTAGT 57.482 37.037 0.00 0.00 0.00 2.57
2580 3268 9.742144 AGTCTAGGGATATGTGTATGTTACTAG 57.258 37.037 0.00 0.00 0.00 2.57
2602 3290 9.756571 CCCACTATGAAGGTAGTAATATAGTCT 57.243 37.037 0.00 0.00 33.29 3.24
2603 3291 9.531158 ACCCACTATGAAGGTAGTAATATAGTC 57.469 37.037 0.00 0.00 33.29 2.59
2614 3302 9.139734 CTTATGTTACTACCCACTATGAAGGTA 57.860 37.037 0.00 0.00 35.02 3.08
2615 3303 7.622479 ACTTATGTTACTACCCACTATGAAGGT 59.378 37.037 0.00 0.00 37.69 3.50
2616 3304 7.926555 CACTTATGTTACTACCCACTATGAAGG 59.073 40.741 0.00 0.00 0.00 3.46
2617 3305 8.475639 ACACTTATGTTACTACCCACTATGAAG 58.524 37.037 0.00 0.00 34.46 3.02
2618 3306 8.255206 CACACTTATGTTACTACCCACTATGAA 58.745 37.037 0.00 0.00 36.72 2.57
2619 3307 7.147794 CCACACTTATGTTACTACCCACTATGA 60.148 40.741 0.00 0.00 36.72 2.15
2620 3308 6.984474 CCACACTTATGTTACTACCCACTATG 59.016 42.308 0.00 0.00 36.72 2.23
2621 3309 6.670902 ACCACACTTATGTTACTACCCACTAT 59.329 38.462 0.00 0.00 36.72 2.12
2622 3310 6.018469 ACCACACTTATGTTACTACCCACTA 58.982 40.000 0.00 0.00 36.72 2.74
2623 3311 4.842380 ACCACACTTATGTTACTACCCACT 59.158 41.667 0.00 0.00 36.72 4.00
2624 3312 5.156608 ACCACACTTATGTTACTACCCAC 57.843 43.478 0.00 0.00 36.72 4.61
2625 3313 6.269538 TGTTACCACACTTATGTTACTACCCA 59.730 38.462 0.00 0.00 36.72 4.51
2626 3314 6.700352 TGTTACCACACTTATGTTACTACCC 58.300 40.000 0.00 0.00 36.72 3.69
2627 3315 7.201582 GCATGTTACCACACTTATGTTACTACC 60.202 40.741 0.00 0.00 36.72 3.18
2628 3316 7.332430 TGCATGTTACCACACTTATGTTACTAC 59.668 37.037 0.00 0.00 36.72 2.73
2629 3317 7.387643 TGCATGTTACCACACTTATGTTACTA 58.612 34.615 0.00 0.00 36.72 1.82
2630 3318 6.234920 TGCATGTTACCACACTTATGTTACT 58.765 36.000 0.00 0.00 36.72 2.24
2631 3319 6.370442 TCTGCATGTTACCACACTTATGTTAC 59.630 38.462 0.00 0.00 36.72 2.50
2632 3320 6.468543 TCTGCATGTTACCACACTTATGTTA 58.531 36.000 0.00 0.00 36.72 2.41
2633 3321 5.312895 TCTGCATGTTACCACACTTATGTT 58.687 37.500 0.00 0.00 36.72 2.71
2634 3322 4.905429 TCTGCATGTTACCACACTTATGT 58.095 39.130 0.00 0.00 40.80 2.29
2635 3323 4.201851 GCTCTGCATGTTACCACACTTATG 60.202 45.833 0.00 0.00 35.03 1.90
2636 3324 3.941483 GCTCTGCATGTTACCACACTTAT 59.059 43.478 0.00 0.00 35.03 1.73
2637 3325 3.007940 AGCTCTGCATGTTACCACACTTA 59.992 43.478 0.00 0.00 35.03 2.24
2638 3326 2.154462 GCTCTGCATGTTACCACACTT 58.846 47.619 0.00 0.00 35.03 3.16
2639 3327 1.349026 AGCTCTGCATGTTACCACACT 59.651 47.619 0.00 0.00 35.03 3.55
2640 3328 1.813513 AGCTCTGCATGTTACCACAC 58.186 50.000 0.00 0.00 35.03 3.82
2641 3329 2.224499 TGAAGCTCTGCATGTTACCACA 60.224 45.455 0.00 0.00 37.31 4.17
2642 3330 2.426522 TGAAGCTCTGCATGTTACCAC 58.573 47.619 0.00 0.00 0.00 4.16
2643 3331 2.857186 TGAAGCTCTGCATGTTACCA 57.143 45.000 0.00 0.00 0.00 3.25
2644 3332 4.708726 AAATGAAGCTCTGCATGTTACC 57.291 40.909 0.00 0.00 0.00 2.85
2645 3333 9.390795 CATAATAAATGAAGCTCTGCATGTTAC 57.609 33.333 0.00 0.00 0.00 2.50
2646 3334 9.123902 ACATAATAAATGAAGCTCTGCATGTTA 57.876 29.630 0.00 0.00 0.00 2.41
2647 3335 8.004087 ACATAATAAATGAAGCTCTGCATGTT 57.996 30.769 0.00 0.00 0.00 2.71
2648 3336 7.578310 ACATAATAAATGAAGCTCTGCATGT 57.422 32.000 0.00 0.00 0.00 3.21
2668 3356 9.671279 CCCAATGCAATATGAGTCTATAACATA 57.329 33.333 0.00 0.00 0.00 2.29
2669 3357 8.385491 TCCCAATGCAATATGAGTCTATAACAT 58.615 33.333 0.00 0.00 0.00 2.71
2670 3358 7.661437 GTCCCAATGCAATATGAGTCTATAACA 59.339 37.037 0.00 0.00 0.00 2.41
2671 3359 7.661437 TGTCCCAATGCAATATGAGTCTATAAC 59.339 37.037 0.00 0.00 0.00 1.89
2672 3360 7.744733 TGTCCCAATGCAATATGAGTCTATAA 58.255 34.615 0.00 0.00 0.00 0.98
2673 3361 7.315066 TGTCCCAATGCAATATGAGTCTATA 57.685 36.000 0.00 0.00 0.00 1.31
2674 3362 6.191657 TGTCCCAATGCAATATGAGTCTAT 57.808 37.500 0.00 0.00 0.00 1.98
2675 3363 5.628797 TGTCCCAATGCAATATGAGTCTA 57.371 39.130 0.00 0.00 0.00 2.59
2676 3364 4.508551 TGTCCCAATGCAATATGAGTCT 57.491 40.909 0.00 0.00 0.00 3.24
2677 3365 5.779529 AATGTCCCAATGCAATATGAGTC 57.220 39.130 0.00 0.00 0.00 3.36
2678 3366 5.657745 TCAAATGTCCCAATGCAATATGAGT 59.342 36.000 0.00 0.00 0.00 3.41
2679 3367 6.151663 TCAAATGTCCCAATGCAATATGAG 57.848 37.500 0.00 0.00 0.00 2.90
2680 3368 6.098552 ACATCAAATGTCCCAATGCAATATGA 59.901 34.615 0.00 0.00 39.92 2.15
2681 3369 6.285224 ACATCAAATGTCCCAATGCAATATG 58.715 36.000 0.00 0.00 39.92 1.78
2682 3370 6.488769 ACATCAAATGTCCCAATGCAATAT 57.511 33.333 0.00 0.00 39.92 1.28
2683 3371 5.936187 ACATCAAATGTCCCAATGCAATA 57.064 34.783 0.00 0.00 39.92 1.90
2684 3372 4.829872 ACATCAAATGTCCCAATGCAAT 57.170 36.364 0.00 0.00 39.92 3.56
2685 3373 4.620589 AACATCAAATGTCCCAATGCAA 57.379 36.364 0.00 0.00 44.07 4.08
2686 3374 4.525874 TGTAACATCAAATGTCCCAATGCA 59.474 37.500 0.00 0.00 44.07 3.96
2687 3375 5.070770 TGTAACATCAAATGTCCCAATGC 57.929 39.130 0.00 0.00 44.07 3.56
2688 3376 6.271488 ACTGTAACATCAAATGTCCCAATG 57.729 37.500 0.00 0.00 44.07 2.82
2689 3377 7.669722 AGTTACTGTAACATCAAATGTCCCAAT 59.330 33.333 27.12 3.45 44.07 3.16
2690 3378 7.001674 AGTTACTGTAACATCAAATGTCCCAA 58.998 34.615 27.12 0.00 44.07 4.12
2691 3379 6.539173 AGTTACTGTAACATCAAATGTCCCA 58.461 36.000 27.12 0.00 44.07 4.37
2692 3380 7.201617 GCTAGTTACTGTAACATCAAATGTCCC 60.202 40.741 27.12 1.55 44.07 4.46
2693 3381 7.549488 AGCTAGTTACTGTAACATCAAATGTCC 59.451 37.037 27.12 7.85 44.07 4.02
2694 3382 8.480643 AGCTAGTTACTGTAACATCAAATGTC 57.519 34.615 27.12 9.51 44.07 3.06
2698 3386 9.991906 AACTTAGCTAGTTACTGTAACATCAAA 57.008 29.630 27.12 15.34 45.22 2.69
2713 3401 9.212593 AGAGGTAGTAGTAGTAACTTAGCTAGT 57.787 37.037 4.04 0.00 39.32 2.57
2716 3404 9.394767 GAAAGAGGTAGTAGTAGTAACTTAGCT 57.605 37.037 4.04 0.00 37.15 3.32
2717 3405 8.620416 GGAAAGAGGTAGTAGTAGTAACTTAGC 58.380 40.741 4.04 0.00 37.15 3.09
2718 3406 9.904198 AGGAAAGAGGTAGTAGTAGTAACTTAG 57.096 37.037 4.04 0.00 37.15 2.18
2719 3407 9.898152 GAGGAAAGAGGTAGTAGTAGTAACTTA 57.102 37.037 4.04 0.00 37.15 2.24
2720 3408 8.389366 TGAGGAAAGAGGTAGTAGTAGTAACTT 58.611 37.037 4.04 0.68 37.15 2.66
2721 3409 7.926705 TGAGGAAAGAGGTAGTAGTAGTAACT 58.073 38.462 1.98 1.98 39.91 2.24
2722 3410 8.750515 ATGAGGAAAGAGGTAGTAGTAGTAAC 57.249 38.462 0.00 0.00 0.00 2.50
2725 3413 9.187996 GTTAATGAGGAAAGAGGTAGTAGTAGT 57.812 37.037 0.00 0.00 0.00 2.73
2726 3414 9.411189 AGTTAATGAGGAAAGAGGTAGTAGTAG 57.589 37.037 0.00 0.00 0.00 2.57
2727 3415 9.406113 GAGTTAATGAGGAAAGAGGTAGTAGTA 57.594 37.037 0.00 0.00 0.00 1.82
2728 3416 7.894364 TGAGTTAATGAGGAAAGAGGTAGTAGT 59.106 37.037 0.00 0.00 0.00 2.73
2729 3417 8.294954 TGAGTTAATGAGGAAAGAGGTAGTAG 57.705 38.462 0.00 0.00 0.00 2.57
2730 3418 8.840200 ATGAGTTAATGAGGAAAGAGGTAGTA 57.160 34.615 0.00 0.00 0.00 1.82
2731 3419 7.741554 ATGAGTTAATGAGGAAAGAGGTAGT 57.258 36.000 0.00 0.00 0.00 2.73
2732 3420 7.011857 GCAATGAGTTAATGAGGAAAGAGGTAG 59.988 40.741 0.00 0.00 0.00 3.18
2733 3421 6.823689 GCAATGAGTTAATGAGGAAAGAGGTA 59.176 38.462 0.00 0.00 0.00 3.08
2734 3422 5.649831 GCAATGAGTTAATGAGGAAAGAGGT 59.350 40.000 0.00 0.00 0.00 3.85
2735 3423 5.067023 GGCAATGAGTTAATGAGGAAAGAGG 59.933 44.000 0.00 0.00 0.00 3.69
2736 3424 5.649395 TGGCAATGAGTTAATGAGGAAAGAG 59.351 40.000 0.00 0.00 0.00 2.85
2737 3425 5.415701 GTGGCAATGAGTTAATGAGGAAAGA 59.584 40.000 0.00 0.00 0.00 2.52
2738 3426 5.183713 TGTGGCAATGAGTTAATGAGGAAAG 59.816 40.000 0.00 0.00 0.00 2.62
2739 3427 5.076182 TGTGGCAATGAGTTAATGAGGAAA 58.924 37.500 0.00 0.00 0.00 3.13
2740 3428 4.661222 TGTGGCAATGAGTTAATGAGGAA 58.339 39.130 0.00 0.00 0.00 3.36
2741 3429 4.299586 TGTGGCAATGAGTTAATGAGGA 57.700 40.909 0.00 0.00 0.00 3.71
2742 3430 6.698008 TTATGTGGCAATGAGTTAATGAGG 57.302 37.500 0.00 0.00 0.00 3.86
2743 3431 6.183360 TGCTTATGTGGCAATGAGTTAATGAG 60.183 38.462 0.00 0.00 36.71 2.90
2744 3432 5.651576 TGCTTATGTGGCAATGAGTTAATGA 59.348 36.000 0.00 0.00 36.71 2.57
2745 3433 5.893687 TGCTTATGTGGCAATGAGTTAATG 58.106 37.500 0.00 0.00 36.71 1.90
2746 3434 6.528537 TTGCTTATGTGGCAATGAGTTAAT 57.471 33.333 0.00 0.00 43.50 1.40
2747 3435 5.973899 TTGCTTATGTGGCAATGAGTTAA 57.026 34.783 0.00 0.00 43.50 2.01
2748 3436 5.973899 TTTGCTTATGTGGCAATGAGTTA 57.026 34.783 2.01 0.00 46.81 2.24
2749 3437 4.870123 TTTGCTTATGTGGCAATGAGTT 57.130 36.364 2.01 0.00 46.81 3.01
2750 3438 5.410355 AATTTGCTTATGTGGCAATGAGT 57.590 34.783 2.01 0.00 46.81 3.41
2751 3439 6.102006 CAAATTTGCTTATGTGGCAATGAG 57.898 37.500 5.01 0.00 46.81 2.90
2767 3455 5.356882 TCGAGTCCAACTTAGCAAATTTG 57.643 39.130 14.03 14.03 0.00 2.32
2768 3456 5.473504 ACATCGAGTCCAACTTAGCAAATTT 59.526 36.000 0.00 0.00 0.00 1.82
2769 3457 5.003804 ACATCGAGTCCAACTTAGCAAATT 58.996 37.500 0.00 0.00 0.00 1.82
2770 3458 4.579869 ACATCGAGTCCAACTTAGCAAAT 58.420 39.130 0.00 0.00 0.00 2.32
2771 3459 4.002906 ACATCGAGTCCAACTTAGCAAA 57.997 40.909 0.00 0.00 0.00 3.68
2772 3460 3.678056 ACATCGAGTCCAACTTAGCAA 57.322 42.857 0.00 0.00 0.00 3.91
2773 3461 3.678056 AACATCGAGTCCAACTTAGCA 57.322 42.857 0.00 0.00 0.00 3.49
2774 3462 4.745649 AGTAACATCGAGTCCAACTTAGC 58.254 43.478 0.00 0.00 0.00 3.09
2775 3463 6.967767 CAGTAGTAACATCGAGTCCAACTTAG 59.032 42.308 0.00 0.00 0.00 2.18
2776 3464 6.656270 TCAGTAGTAACATCGAGTCCAACTTA 59.344 38.462 0.00 0.00 0.00 2.24
2777 3465 5.475909 TCAGTAGTAACATCGAGTCCAACTT 59.524 40.000 0.00 0.00 0.00 2.66
2778 3466 5.008331 TCAGTAGTAACATCGAGTCCAACT 58.992 41.667 0.00 0.00 0.00 3.16
2779 3467 5.306532 TCAGTAGTAACATCGAGTCCAAC 57.693 43.478 0.00 0.00 0.00 3.77
2780 3468 5.475909 ACTTCAGTAGTAACATCGAGTCCAA 59.524 40.000 0.00 0.00 34.56 3.53
2781 3469 5.008331 ACTTCAGTAGTAACATCGAGTCCA 58.992 41.667 0.00 0.00 34.56 4.02
2782 3470 5.564048 ACTTCAGTAGTAACATCGAGTCC 57.436 43.478 0.00 0.00 34.56 3.85
2783 3471 7.750769 AGTAACTTCAGTAGTAACATCGAGTC 58.249 38.462 0.00 0.00 35.54 3.36
2784 3472 7.148272 GGAGTAACTTCAGTAGTAACATCGAGT 60.148 40.741 0.00 0.00 35.54 4.18
2785 3473 7.188157 GGAGTAACTTCAGTAGTAACATCGAG 58.812 42.308 0.00 0.00 35.54 4.04
2786 3474 6.094603 GGGAGTAACTTCAGTAGTAACATCGA 59.905 42.308 0.00 0.00 35.54 3.59
2787 3475 6.127814 TGGGAGTAACTTCAGTAGTAACATCG 60.128 42.308 0.00 0.00 35.54 3.84
2788 3476 7.034397 GTGGGAGTAACTTCAGTAGTAACATC 58.966 42.308 0.00 0.00 35.54 3.06
2789 3477 6.724905 AGTGGGAGTAACTTCAGTAGTAACAT 59.275 38.462 0.00 0.00 35.54 2.71
2790 3478 6.015688 CAGTGGGAGTAACTTCAGTAGTAACA 60.016 42.308 0.00 0.00 35.54 2.41
2791 3479 6.015603 ACAGTGGGAGTAACTTCAGTAGTAAC 60.016 42.308 0.00 0.00 35.54 2.50
2792 3480 6.015688 CACAGTGGGAGTAACTTCAGTAGTAA 60.016 42.308 0.00 0.00 35.54 2.24
2793 3481 5.475909 CACAGTGGGAGTAACTTCAGTAGTA 59.524 44.000 0.00 0.00 35.54 1.82
2794 3482 4.281182 CACAGTGGGAGTAACTTCAGTAGT 59.719 45.833 0.00 0.00 39.32 2.73
2795 3483 4.322049 CCACAGTGGGAGTAACTTCAGTAG 60.322 50.000 12.40 0.00 32.67 2.57
2796 3484 3.576982 CCACAGTGGGAGTAACTTCAGTA 59.423 47.826 12.40 0.00 32.67 2.74
2797 3485 2.368875 CCACAGTGGGAGTAACTTCAGT 59.631 50.000 12.40 0.00 32.67 3.41
2798 3486 3.045601 CCACAGTGGGAGTAACTTCAG 57.954 52.381 12.40 0.00 32.67 3.02
2810 3498 3.513912 TGTGATAAGACTACCCACAGTGG 59.486 47.826 13.35 13.35 37.25 4.00
2811 3499 4.801330 TGTGATAAGACTACCCACAGTG 57.199 45.455 0.00 0.00 33.42 3.66
2812 3500 5.818678 TTTGTGATAAGACTACCCACAGT 57.181 39.130 0.00 0.00 38.71 3.55
2813 3501 6.231211 ACTTTTGTGATAAGACTACCCACAG 58.769 40.000 0.00 0.00 38.71 3.66
2814 3502 6.182507 ACTTTTGTGATAAGACTACCCACA 57.817 37.500 0.00 0.00 36.15 4.17
2815 3503 7.360361 CAAACTTTTGTGATAAGACTACCCAC 58.640 38.462 0.00 0.00 33.59 4.61
2816 3504 6.016610 GCAAACTTTTGTGATAAGACTACCCA 60.017 38.462 3.74 0.00 40.24 4.51
2817 3505 6.016610 TGCAAACTTTTGTGATAAGACTACCC 60.017 38.462 3.74 0.00 40.24 3.69
2818 3506 6.966021 TGCAAACTTTTGTGATAAGACTACC 58.034 36.000 3.74 0.00 40.24 3.18
2819 3507 7.061094 GCATGCAAACTTTTGTGATAAGACTAC 59.939 37.037 14.21 0.00 40.24 2.73
2820 3508 7.083858 GCATGCAAACTTTTGTGATAAGACTA 58.916 34.615 14.21 0.00 40.24 2.59
2821 3509 5.922544 GCATGCAAACTTTTGTGATAAGACT 59.077 36.000 14.21 0.00 40.24 3.24
2822 3510 5.691305 TGCATGCAAACTTTTGTGATAAGAC 59.309 36.000 20.30 0.00 40.24 3.01
2823 3511 5.840715 TGCATGCAAACTTTTGTGATAAGA 58.159 33.333 20.30 0.00 40.24 2.10
2824 3512 6.366604 TCATGCATGCAAACTTTTGTGATAAG 59.633 34.615 26.68 0.00 40.24 1.73
2825 3513 6.221659 TCATGCATGCAAACTTTTGTGATAA 58.778 32.000 26.68 0.00 40.24 1.75
2826 3514 5.780984 TCATGCATGCAAACTTTTGTGATA 58.219 33.333 26.68 0.00 40.24 2.15
2832 3520 6.127952 ACTGTTTTTCATGCATGCAAACTTTT 60.128 30.769 32.39 22.33 34.47 2.27
2836 3524 4.799419 ACTGTTTTTCATGCATGCAAAC 57.201 36.364 29.46 29.46 34.21 2.93
2837 3525 5.236047 GGTAACTGTTTTTCATGCATGCAAA 59.764 36.000 26.68 20.33 0.00 3.68
2928 3624 3.879892 GGTGGACATGAAGCTTCTAATCC 59.120 47.826 26.09 25.34 0.00 3.01
2940 3636 1.735926 TAAGTGGTGGGTGGACATGA 58.264 50.000 0.00 0.00 0.00 3.07
2994 3690 9.982291 CTTTATATAAAGTACGCACATTTGTGT 57.018 29.630 22.14 3.22 41.27 3.72


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

AutoCloner maintained by Alex Coulton.