Multiple sequence alignment - TraesCS6B01G353900

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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 TraesCS6B01G353900 chr6B 100.000 4151 0 0 1 4151 619718319 619722469 0.000000e+00 7666.0
1 TraesCS6B01G353900 chr6D 89.102 2083 90 49 425 2428 411810375 411812399 0.000000e+00 2462.0
2 TraesCS6B01G353900 chr6D 92.895 943 48 8 2498 3436 411812409 411813336 0.000000e+00 1352.0
3 TraesCS6B01G353900 chr6D 92.958 426 28 2 3438 3862 411813372 411813796 1.640000e-173 619.0
4 TraesCS6B01G353900 chr6D 89.223 399 30 7 1 394 411809902 411810292 1.730000e-133 486.0
5 TraesCS6B01G353900 chr6D 92.000 275 16 4 3857 4131 411814912 411815180 8.420000e-102 381.0
6 TraesCS6B01G353900 chr6A 85.643 1407 86 48 1098 2428 556760940 556762306 0.000000e+00 1373.0
7 TraesCS6B01G353900 chr6A 87.421 946 72 16 2511 3436 556762332 556763250 0.000000e+00 1044.0
8 TraesCS6B01G353900 chr6A 87.383 642 59 18 3495 4131 556763524 556764148 0.000000e+00 717.0
9 TraesCS6B01G353900 chr6A 88.193 415 18 10 521 919 556760027 556760426 2.260000e-127 466.0
10 TraesCS6B01G353900 chr6A 83.084 467 55 16 1 457 556759226 556759678 1.800000e-108 403.0
11 TraesCS6B01G353900 chr6A 76.685 356 50 16 3749 4102 556864636 556864960 2.570000e-37 167.0
12 TraesCS6B01G353900 chr6A 90.141 71 4 2 3438 3508 556763286 556763353 5.720000e-14 89.8
13 TraesCS6B01G353900 chr3A 82.687 335 41 11 3 332 83392584 83392906 8.790000e-72 281.0
14 TraesCS6B01G353900 chr7D 91.892 148 8 2 2716 2862 118873689 118873833 1.960000e-48 204.0


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 TraesCS6B01G353900 chr6B 619718319 619722469 4150 False 7666.000000 7666 100.0000 1 4151 1 chr6B.!!$F1 4150
1 TraesCS6B01G353900 chr6D 411809902 411815180 5278 False 1060.000000 2462 91.2356 1 4131 5 chr6D.!!$F1 4130
2 TraesCS6B01G353900 chr6A 556759226 556764148 4922 False 682.133333 1373 86.9775 1 4131 6 chr6A.!!$F2 4130

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
422 486 0.942962 CGGTGACCGCTAGTACCTAG 59.057 60.0 12.53 0.0 41.17 3.02 F
1613 2409 0.170339 TGATTCGCTGTGACGACGAT 59.830 50.0 0.00 0.0 42.78 3.73 F
2145 2981 0.037697 TTGTTGCCGCGATCTGTACT 60.038 50.0 8.23 0.0 0.00 2.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2026 2862 0.396060 GGCATGCAAGGGGACAAAAA 59.604 50.0 21.36 0.0 0.00 1.94 R
2468 3323 0.028902 CGTCATCGACTACGGCATGA 59.971 55.0 12.31 0.0 39.71 3.07 R
3668 4763 2.093181 CGGACACACCCTTCATTATCCA 60.093 50.0 0.00 0.0 34.64 3.41 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
124 125 6.249035 TGTCGTATTTGAAATTCCACTTCC 57.751 37.500 0.00 0.00 0.00 3.46
285 291 6.764308 ATACATTCCAACCAATCTTCACTG 57.236 37.500 0.00 0.00 0.00 3.66
356 364 1.595466 CATCTCAGAATGCAGAGGGC 58.405 55.000 0.00 0.00 45.13 5.19
361 369 1.617536 AGAATGCAGAGGGCCAGGA 60.618 57.895 6.18 0.00 43.89 3.86
369 378 3.615811 AGGGCCAGGACAGGAGGA 61.616 66.667 6.18 0.00 0.00 3.71
420 484 3.915575 CGGTGACCGCTAGTACCT 58.084 61.111 12.53 0.00 41.17 3.08
421 485 3.085208 CGGTGACCGCTAGTACCTA 57.915 57.895 12.53 0.00 41.17 3.08
422 486 0.942962 CGGTGACCGCTAGTACCTAG 59.057 60.000 12.53 0.00 41.17 3.02
457 521 1.887242 TGCACCACTCTTGCACGTC 60.887 57.895 0.00 0.00 45.06 4.34
493 811 4.675029 ACCGTGGGTGCAGCGTAC 62.675 66.667 10.24 10.54 32.98 3.67
497 815 1.153706 GTGGGTGCAGCGTACGTAT 60.154 57.895 17.90 2.97 0.00 3.06
522 871 2.163815 ACATACGTGCACTAGTCACTCC 59.836 50.000 16.19 0.00 32.54 3.85
572 921 3.008485 CCTAGAAGAAGAACCCTGCAAGT 59.992 47.826 0.00 0.00 0.00 3.16
668 1019 3.291031 ATACCACCAAACCCCGCCC 62.291 63.158 0.00 0.00 0.00 6.13
803 1169 1.715862 CCTCTCCGATCTCGAACGCA 61.716 60.000 0.22 0.00 43.02 5.24
1208 1952 2.557372 GGAGGATCGAGTCGGAGGC 61.557 68.421 13.54 0.00 34.37 4.70
1293 2043 1.580704 GTACATTCGGTTACACTCGCG 59.419 52.381 0.00 0.00 0.00 5.87
1330 2088 2.092158 CCCCTCTCTCCCTGAATTTTCC 60.092 54.545 0.00 0.00 0.00 3.13
1400 2179 0.544697 ACCCGGATTAATTCGCCACT 59.455 50.000 10.84 0.00 0.00 4.00
1434 2218 2.853542 TGGCTGCCCCTCACTGAA 60.854 61.111 17.53 0.00 0.00 3.02
1550 2346 4.263572 CAACGTCAGGGGGTGGCA 62.264 66.667 0.00 0.00 0.00 4.92
1613 2409 0.170339 TGATTCGCTGTGACGACGAT 59.830 50.000 0.00 0.00 42.78 3.73
1684 2480 2.202932 GTGCGAGTCATGGCCGAT 60.203 61.111 11.59 0.00 0.00 4.18
1690 2486 1.517242 GAGTCATGGCCGATGAATCC 58.483 55.000 23.57 12.21 46.21 3.01
1692 2488 0.532862 GTCATGGCCGATGAATCCGT 60.533 55.000 16.37 0.00 42.96 4.69
1766 2562 0.960861 CCAAGGCCTCTTTCCCGTTC 60.961 60.000 5.23 0.00 0.00 3.95
1767 2563 1.003718 AAGGCCTCTTTCCCGTTCG 60.004 57.895 5.23 0.00 0.00 3.95
1768 2564 3.125573 GGCCTCTTTCCCGTTCGC 61.126 66.667 0.00 0.00 0.00 4.70
1774 2570 3.901797 CTTTCCCGTTCGCTGGGCT 62.902 63.158 1.91 0.00 46.92 5.19
1775 2571 3.894547 TTTCCCGTTCGCTGGGCTC 62.895 63.158 1.91 0.00 46.92 4.70
1790 2586 1.376466 GCTCTGTTGGCCTCCTTGA 59.624 57.895 3.32 0.00 0.00 3.02
1791 2587 0.957888 GCTCTGTTGGCCTCCTTGAC 60.958 60.000 3.32 0.00 0.00 3.18
1859 2686 2.217038 ATGACACGGCACCACTCCT 61.217 57.895 0.00 0.00 0.00 3.69
1860 2687 2.357517 GACACGGCACCACTCCTG 60.358 66.667 0.00 0.00 0.00 3.86
1879 2706 6.069615 ACTCCTGCCCATTTTAATACTACTGT 60.070 38.462 0.00 0.00 0.00 3.55
1928 2764 6.833933 ACACTGTCAGTACATGGTATAGATCA 59.166 38.462 4.85 0.00 34.37 2.92
2006 2842 3.532542 CACTCACTCATGACTCATGCAT 58.467 45.455 13.46 0.00 41.18 3.96
2133 2969 2.509786 CATGCCCGCATTGTTGCC 60.510 61.111 0.00 0.00 46.57 4.52
2134 2970 4.132441 ATGCCCGCATTGTTGCCG 62.132 61.111 0.00 0.00 46.57 5.69
2140 2976 2.793946 GCATTGTTGCCGCGATCT 59.206 55.556 8.23 0.00 43.38 2.75
2141 2977 1.584483 GCATTGTTGCCGCGATCTG 60.584 57.895 8.23 0.00 43.38 2.90
2143 2979 1.006086 CATTGTTGCCGCGATCTGTA 58.994 50.000 8.23 0.00 0.00 2.74
2144 2980 1.006832 ATTGTTGCCGCGATCTGTAC 58.993 50.000 8.23 0.00 0.00 2.90
2145 2981 0.037697 TTGTTGCCGCGATCTGTACT 60.038 50.000 8.23 0.00 0.00 2.73
2146 2982 0.457853 TGTTGCCGCGATCTGTACTC 60.458 55.000 8.23 0.00 0.00 2.59
2147 2983 0.457853 GTTGCCGCGATCTGTACTCA 60.458 55.000 8.23 0.00 0.00 3.41
2148 2984 0.457853 TTGCCGCGATCTGTACTCAC 60.458 55.000 8.23 0.00 0.00 3.51
2149 2985 1.589196 GCCGCGATCTGTACTCACC 60.589 63.158 8.23 0.00 0.00 4.02
2150 2986 1.807226 CCGCGATCTGTACTCACCA 59.193 57.895 8.23 0.00 0.00 4.17
2151 2987 0.248661 CCGCGATCTGTACTCACCAG 60.249 60.000 8.23 0.00 0.00 4.00
2152 2988 0.867753 CGCGATCTGTACTCACCAGC 60.868 60.000 0.00 0.00 0.00 4.85
2175 3023 0.180171 CGTCCTCCATGGGTGCAATA 59.820 55.000 13.02 0.00 36.20 1.90
2241 3090 0.107703 CCATGTACCTGTGGACGCAT 60.108 55.000 3.61 0.00 37.72 4.73
2267 3116 0.108615 ATCTGTTCCGTCTTCCTGCG 60.109 55.000 0.00 0.00 0.00 5.18
2273 3122 2.743752 CCGTCTTCCTGCGCATGTG 61.744 63.158 12.24 0.66 0.00 3.21
2276 3126 0.110056 GTCTTCCTGCGCATGTGTTG 60.110 55.000 12.24 0.00 0.00 3.33
2334 3187 0.384309 CCTGCATCACATCACATGCC 59.616 55.000 0.00 0.00 44.15 4.40
2347 3200 1.068610 CACATGCCGGTTTACTTGGTG 60.069 52.381 1.90 0.00 0.00 4.17
2348 3201 0.109319 CATGCCGGTTTACTTGGTGC 60.109 55.000 1.90 0.00 0.00 5.01
2365 3218 2.613223 GGTGCTAGTTGGAACTGGACTC 60.613 54.545 7.05 0.73 39.59 3.36
2415 3270 0.747255 CGATCGATGTGGGACTCCTT 59.253 55.000 10.26 0.00 0.00 3.36
2428 3283 2.294233 GGACTCCTTGTACGTGTGTGTA 59.706 50.000 0.00 0.00 0.00 2.90
2429 3284 3.562505 GACTCCTTGTACGTGTGTGTAG 58.437 50.000 0.00 0.00 0.00 2.74
2430 3285 2.954318 ACTCCTTGTACGTGTGTGTAGT 59.046 45.455 0.00 0.00 0.00 2.73
2433 3288 3.253188 TCCTTGTACGTGTGTGTAGTACC 59.747 47.826 0.00 0.00 39.77 3.34
2434 3289 3.004629 CCTTGTACGTGTGTGTAGTACCA 59.995 47.826 0.00 0.00 39.77 3.25
2435 3290 3.624326 TGTACGTGTGTGTAGTACCAC 57.376 47.619 0.00 12.43 39.77 4.16
2436 3291 2.293122 TGTACGTGTGTGTAGTACCACC 59.707 50.000 15.18 8.66 39.77 4.61
2437 3292 0.311790 ACGTGTGTGTAGTACCACCG 59.688 55.000 19.03 19.03 34.35 4.94
2438 3293 0.311790 CGTGTGTGTAGTACCACCGT 59.688 55.000 15.18 0.00 34.35 4.83
2439 3294 1.535028 CGTGTGTGTAGTACCACCGTA 59.465 52.381 15.18 0.36 34.35 4.02
2440 3295 2.031245 CGTGTGTGTAGTACCACCGTAA 60.031 50.000 15.18 0.10 34.35 3.18
2441 3296 3.308530 GTGTGTGTAGTACCACCGTAAC 58.691 50.000 15.18 6.80 34.35 2.50
2442 3297 3.004734 GTGTGTGTAGTACCACCGTAACT 59.995 47.826 15.18 0.00 34.35 2.24
2443 3298 3.004629 TGTGTGTAGTACCACCGTAACTG 59.995 47.826 15.18 0.00 34.35 3.16
2444 3299 2.557924 TGTGTAGTACCACCGTAACTGG 59.442 50.000 0.00 0.00 34.35 4.00
2445 3300 2.558359 GTGTAGTACCACCGTAACTGGT 59.442 50.000 0.00 0.00 44.59 4.00
2446 3301 3.005791 GTGTAGTACCACCGTAACTGGTT 59.994 47.826 0.00 0.00 42.35 3.67
2447 3302 3.640967 TGTAGTACCACCGTAACTGGTTT 59.359 43.478 0.00 0.00 42.35 3.27
2448 3303 3.116079 AGTACCACCGTAACTGGTTTG 57.884 47.619 0.00 0.00 42.35 2.93
2449 3304 2.145536 GTACCACCGTAACTGGTTTGG 58.854 52.381 0.00 0.00 42.35 3.28
2450 3305 0.820482 ACCACCGTAACTGGTTTGGC 60.820 55.000 2.85 0.00 39.07 4.52
2451 3306 1.520600 CCACCGTAACTGGTTTGGCC 61.521 60.000 0.00 0.00 41.38 5.36
2452 3307 0.536460 CACCGTAACTGGTTTGGCCT 60.536 55.000 3.32 0.00 41.38 5.19
2453 3308 0.184211 ACCGTAACTGGTTTGGCCTT 59.816 50.000 3.32 0.00 39.99 4.35
2454 3309 0.596082 CCGTAACTGGTTTGGCCTTG 59.404 55.000 3.32 0.00 38.35 3.61
2455 3310 0.596082 CGTAACTGGTTTGGCCTTGG 59.404 55.000 3.32 0.00 38.35 3.61
2456 3311 1.699730 GTAACTGGTTTGGCCTTGGT 58.300 50.000 3.32 0.00 38.35 3.67
2457 3312 2.811136 CGTAACTGGTTTGGCCTTGGTA 60.811 50.000 3.32 0.00 38.35 3.25
2458 3313 2.694616 AACTGGTTTGGCCTTGGTAT 57.305 45.000 3.32 0.00 38.35 2.73
2459 3314 1.923356 ACTGGTTTGGCCTTGGTATG 58.077 50.000 3.32 0.00 38.35 2.39
2460 3315 1.146982 ACTGGTTTGGCCTTGGTATGT 59.853 47.619 3.32 0.00 38.35 2.29
2461 3316 2.377193 ACTGGTTTGGCCTTGGTATGTA 59.623 45.455 3.32 0.00 38.35 2.29
2462 3317 3.181427 ACTGGTTTGGCCTTGGTATGTAA 60.181 43.478 3.32 0.00 38.35 2.41
2463 3318 4.023291 CTGGTTTGGCCTTGGTATGTAAT 58.977 43.478 3.32 0.00 38.35 1.89
2464 3319 4.421131 TGGTTTGGCCTTGGTATGTAATT 58.579 39.130 3.32 0.00 38.35 1.40
2465 3320 4.464597 TGGTTTGGCCTTGGTATGTAATTC 59.535 41.667 3.32 0.00 38.35 2.17
2466 3321 4.439563 GGTTTGGCCTTGGTATGTAATTCG 60.440 45.833 3.32 0.00 0.00 3.34
2467 3322 3.637911 TGGCCTTGGTATGTAATTCGT 57.362 42.857 3.32 0.00 0.00 3.85
2468 3323 3.958018 TGGCCTTGGTATGTAATTCGTT 58.042 40.909 3.32 0.00 0.00 3.85
2469 3324 3.942748 TGGCCTTGGTATGTAATTCGTTC 59.057 43.478 3.32 0.00 0.00 3.95
2470 3325 3.942748 GGCCTTGGTATGTAATTCGTTCA 59.057 43.478 0.00 0.00 0.00 3.18
2471 3326 4.578928 GGCCTTGGTATGTAATTCGTTCAT 59.421 41.667 0.00 0.00 0.00 2.57
2472 3327 5.505654 GGCCTTGGTATGTAATTCGTTCATG 60.506 44.000 0.00 0.00 0.00 3.07
2473 3328 5.510671 CCTTGGTATGTAATTCGTTCATGC 58.489 41.667 0.00 0.00 0.00 4.06
2474 3329 5.493133 TTGGTATGTAATTCGTTCATGCC 57.507 39.130 0.00 0.00 42.03 4.40
2475 3330 3.558006 TGGTATGTAATTCGTTCATGCCG 59.442 43.478 0.00 0.00 43.67 5.69
2476 3331 3.558418 GGTATGTAATTCGTTCATGCCGT 59.442 43.478 4.83 0.00 35.44 5.68
2477 3332 4.746115 GGTATGTAATTCGTTCATGCCGTA 59.254 41.667 4.83 0.00 35.44 4.02
2478 3333 5.107607 GGTATGTAATTCGTTCATGCCGTAG 60.108 44.000 4.83 0.00 35.44 3.51
2479 3334 3.852286 TGTAATTCGTTCATGCCGTAGT 58.148 40.909 4.83 0.00 0.00 2.73
2480 3335 3.861113 TGTAATTCGTTCATGCCGTAGTC 59.139 43.478 4.83 0.00 0.00 2.59
2481 3336 1.556564 ATTCGTTCATGCCGTAGTCG 58.443 50.000 4.83 0.00 0.00 4.18
2482 3337 0.522626 TTCGTTCATGCCGTAGTCGA 59.477 50.000 4.83 0.00 39.71 4.20
2483 3338 0.736636 TCGTTCATGCCGTAGTCGAT 59.263 50.000 0.00 0.00 39.71 3.59
2484 3339 0.846401 CGTTCATGCCGTAGTCGATG 59.154 55.000 0.00 0.00 39.71 3.84
2485 3340 1.533129 CGTTCATGCCGTAGTCGATGA 60.533 52.381 0.00 0.00 39.71 2.92
2486 3341 1.852895 GTTCATGCCGTAGTCGATGAC 59.147 52.381 0.00 0.00 39.71 3.06
2487 3342 0.028902 TCATGCCGTAGTCGATGACG 59.971 55.000 13.38 13.38 37.67 4.35
2488 3343 0.248498 CATGCCGTAGTCGATGACGT 60.248 55.000 17.41 0.00 37.67 4.34
2489 3344 1.003223 CATGCCGTAGTCGATGACGTA 60.003 52.381 17.41 9.07 37.67 3.57
2490 3345 1.302366 TGCCGTAGTCGATGACGTAT 58.698 50.000 17.41 0.00 37.67 3.06
2491 3346 2.482864 TGCCGTAGTCGATGACGTATA 58.517 47.619 17.41 4.46 37.67 1.47
2492 3347 3.069289 TGCCGTAGTCGATGACGTATAT 58.931 45.455 17.41 0.00 37.67 0.86
2493 3348 3.120442 TGCCGTAGTCGATGACGTATATG 60.120 47.826 17.41 6.24 37.67 1.78
2494 3349 3.124128 GCCGTAGTCGATGACGTATATGA 59.876 47.826 17.41 0.00 37.67 2.15
2495 3350 4.201792 GCCGTAGTCGATGACGTATATGAT 60.202 45.833 17.41 0.00 37.67 2.45
2496 3351 5.256352 CCGTAGTCGATGACGTATATGATG 58.744 45.833 17.41 0.65 37.67 3.07
2505 3363 5.687770 TGACGTATATGATGGCCAATTTG 57.312 39.130 10.96 0.00 0.00 2.32
2526 3384 3.071479 GCCACCTAGATGTTCGTTTTCA 58.929 45.455 0.00 0.00 0.00 2.69
2542 3400 8.477709 GTTCGTTTTCATCGGATGTATTAGTAG 58.522 37.037 17.01 4.15 0.00 2.57
2544 3402 6.398621 CGTTTTCATCGGATGTATTAGTAGCG 60.399 42.308 17.01 3.55 0.00 4.26
2548 3406 5.414765 TCATCGGATGTATTAGTAGCGTCAT 59.585 40.000 17.01 0.00 0.00 3.06
2550 3408 4.758165 TCGGATGTATTAGTAGCGTCATCA 59.242 41.667 0.00 0.00 35.04 3.07
2551 3409 5.239963 TCGGATGTATTAGTAGCGTCATCAA 59.760 40.000 0.00 0.00 35.04 2.57
2553 3411 6.448006 GGATGTATTAGTAGCGTCATCAACT 58.552 40.000 0.00 0.00 35.04 3.16
2554 3412 6.924060 GGATGTATTAGTAGCGTCATCAACTT 59.076 38.462 0.00 0.00 35.04 2.66
2555 3413 7.115095 GGATGTATTAGTAGCGTCATCAACTTC 59.885 40.741 0.00 0.00 35.04 3.01
2556 3414 6.859017 TGTATTAGTAGCGTCATCAACTTCA 58.141 36.000 0.00 0.00 0.00 3.02
2557 3415 7.317390 TGTATTAGTAGCGTCATCAACTTCAA 58.683 34.615 0.00 0.00 0.00 2.69
2558 3416 6.893958 ATTAGTAGCGTCATCAACTTCAAG 57.106 37.500 0.00 0.00 0.00 3.02
2559 3417 2.996621 AGTAGCGTCATCAACTTCAAGC 59.003 45.455 0.00 0.00 0.00 4.01
2560 3418 1.160137 AGCGTCATCAACTTCAAGCC 58.840 50.000 0.00 0.00 0.00 4.35
2561 3419 0.874390 GCGTCATCAACTTCAAGCCA 59.126 50.000 0.00 0.00 0.00 4.75
2562 3420 1.135859 GCGTCATCAACTTCAAGCCAG 60.136 52.381 0.00 0.00 0.00 4.85
2563 3421 2.416747 CGTCATCAACTTCAAGCCAGA 58.583 47.619 0.00 0.00 0.00 3.86
2564 3422 2.807967 CGTCATCAACTTCAAGCCAGAA 59.192 45.455 0.00 0.00 0.00 3.02
2565 3423 3.250762 CGTCATCAACTTCAAGCCAGAAA 59.749 43.478 0.00 0.00 0.00 2.52
2566 3424 4.261155 CGTCATCAACTTCAAGCCAGAAAA 60.261 41.667 0.00 0.00 0.00 2.29
2570 3428 8.031277 GTCATCAACTTCAAGCCAGAAAATTAT 58.969 33.333 0.00 0.00 0.00 1.28
2582 3440 8.186709 AGCCAGAAAATTATTAATCCTCCATG 57.813 34.615 0.00 0.00 0.00 3.66
2583 3441 6.870439 GCCAGAAAATTATTAATCCTCCATGC 59.130 38.462 0.00 0.00 0.00 4.06
2584 3442 7.086376 CCAGAAAATTATTAATCCTCCATGCG 58.914 38.462 0.00 0.00 0.00 4.73
2585 3443 7.255590 CCAGAAAATTATTAATCCTCCATGCGT 60.256 37.037 0.00 0.00 0.00 5.24
2586 3444 8.783093 CAGAAAATTATTAATCCTCCATGCGTA 58.217 33.333 0.00 0.00 0.00 4.42
2605 3463 2.660189 AATGTTGCAATGCAGCCTAC 57.340 45.000 18.92 10.02 40.61 3.18
2659 3517 3.642778 ATCGGTGCCGGAGAACGTG 62.643 63.158 5.05 0.00 42.24 4.49
2838 3699 1.380112 GGTCGGCTACTCCCTCTGT 60.380 63.158 0.00 0.00 0.00 3.41
3380 4259 1.037579 TGCATCTCCGGTCGAGTGAT 61.038 55.000 0.00 0.00 39.84 3.06
3391 4270 5.981315 TCCGGTCGAGTGATGTAATTTATTC 59.019 40.000 0.00 0.00 0.00 1.75
3440 4353 4.803426 GGACAGCGCCTCAGACGG 62.803 72.222 2.29 0.00 0.00 4.79
3451 4364 0.663568 CTCAGACGGGTCGTTGTCAC 60.664 60.000 0.00 0.00 41.37 3.67
3526 4620 4.365514 TTTACTGACAGGATGCTCCAAA 57.634 40.909 7.51 0.00 42.53 3.28
3564 4658 3.459227 TCAAGCCATCAACATAGGATCCA 59.541 43.478 15.82 0.00 0.00 3.41
3573 4667 6.151663 TCAACATAGGATCCATGCATTTTG 57.848 37.500 15.82 14.10 0.00 2.44
3668 4763 7.231467 ACACGGGAGCTAAAAATGGAATATAT 58.769 34.615 0.00 0.00 0.00 0.86
3688 4803 3.644966 TGGATAATGAAGGGTGTGTCC 57.355 47.619 0.00 0.00 0.00 4.02
3736 4851 3.365868 GCAGTAGCATGTAGAGGAGATCG 60.366 52.174 0.00 0.00 41.58 3.69
3744 4859 2.443632 TGTAGAGGAGATCGGGATGAGT 59.556 50.000 0.00 0.00 0.00 3.41
3840 4955 7.939782 TGATTCAAGTGAGCATTCAAAAGTTA 58.060 30.769 0.00 0.00 34.49 2.24
3869 6105 0.251787 GCACTGAAAATGGAGGGGGT 60.252 55.000 0.00 0.00 0.00 4.95
3894 6130 1.067060 GGAAAGTGCCAACCTTGACAC 59.933 52.381 0.00 0.00 41.15 3.67
3909 6145 1.754803 TGACACGGGGACATAGACATC 59.245 52.381 0.00 0.00 0.00 3.06
3917 6153 4.392940 GGGGACATAGACATCATTCCAAG 58.607 47.826 0.00 0.00 0.00 3.61
3929 6165 9.136323 AGACATCATTCCAAGTTTCTTTTAACT 57.864 29.630 0.00 0.00 39.97 2.24
3935 6171 9.528018 CATTCCAAGTTTCTTTTAACTAAGCAA 57.472 29.630 0.00 0.00 37.37 3.91
4135 6371 6.846350 CACAAATGGATAGAACTTTCACTCC 58.154 40.000 3.88 3.88 33.27 3.85
4136 6372 6.656693 CACAAATGGATAGAACTTTCACTCCT 59.343 38.462 9.82 0.00 33.61 3.69
4137 6373 7.824289 CACAAATGGATAGAACTTTCACTCCTA 59.176 37.037 9.82 0.00 33.61 2.94
4138 6374 7.824779 ACAAATGGATAGAACTTTCACTCCTAC 59.175 37.037 9.82 0.00 33.61 3.18
4139 6375 5.934402 TGGATAGAACTTTCACTCCTACC 57.066 43.478 9.82 0.00 33.61 3.18
4140 6376 5.338632 TGGATAGAACTTTCACTCCTACCA 58.661 41.667 9.82 0.00 33.61 3.25
4141 6377 5.187186 TGGATAGAACTTTCACTCCTACCAC 59.813 44.000 9.82 0.00 33.61 4.16
4142 6378 5.395435 GGATAGAACTTTCACTCCTACCACC 60.395 48.000 3.68 0.00 31.26 4.61
4143 6379 3.314693 AGAACTTTCACTCCTACCACCA 58.685 45.455 0.00 0.00 0.00 4.17
4144 6380 3.071167 AGAACTTTCACTCCTACCACCAC 59.929 47.826 0.00 0.00 0.00 4.16
4145 6381 2.404559 ACTTTCACTCCTACCACCACA 58.595 47.619 0.00 0.00 0.00 4.17
4146 6382 2.979678 ACTTTCACTCCTACCACCACAT 59.020 45.455 0.00 0.00 0.00 3.21
4147 6383 3.394606 ACTTTCACTCCTACCACCACATT 59.605 43.478 0.00 0.00 0.00 2.71
4148 6384 4.141251 ACTTTCACTCCTACCACCACATTT 60.141 41.667 0.00 0.00 0.00 2.32
4149 6385 3.695830 TCACTCCTACCACCACATTTC 57.304 47.619 0.00 0.00 0.00 2.17
4150 6386 2.304761 TCACTCCTACCACCACATTTCC 59.695 50.000 0.00 0.00 0.00 3.13
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
93 94 9.173021 TGGAATTTCAAATACGACATATCTTGT 57.827 29.630 0.00 0.00 42.79 3.16
250 256 7.835822 TGGTTGGAATGTATTTTGATTCGATT 58.164 30.769 0.00 0.00 30.54 3.34
251 257 7.403312 TGGTTGGAATGTATTTTGATTCGAT 57.597 32.000 0.00 0.00 30.54 3.59
285 291 3.876589 ATGACACCCCACGCGTCAC 62.877 63.158 9.86 0.00 42.10 3.67
351 359 2.905676 ATCCTCCTGTCCTGGCCCTC 62.906 65.000 0.00 0.00 0.00 4.30
353 361 2.003548 AATCCTCCTGTCCTGGCCC 61.004 63.158 0.00 0.00 0.00 5.80
354 362 1.225704 CAATCCTCCTGTCCTGGCC 59.774 63.158 0.00 0.00 0.00 5.36
356 364 2.187958 TGTACAATCCTCCTGTCCTGG 58.812 52.381 0.00 0.00 0.00 4.45
361 369 2.738643 CGCGAATGTACAATCCTCCTGT 60.739 50.000 0.00 0.00 0.00 4.00
369 378 3.259064 AGCACTTACGCGAATGTACAAT 58.741 40.909 15.93 0.00 36.85 2.71
389 398 2.097142 GGTCACCGTACTGTAGCAGTAG 59.903 54.545 9.00 2.47 45.88 2.57
394 403 4.779819 CGGTCACCGTACTGTAGC 57.220 61.111 8.54 0.00 42.73 3.58
415 479 2.673326 GCCGTTGTTGAGGACTAGGTAC 60.673 54.545 0.00 0.00 0.00 3.34
416 480 1.547372 GCCGTTGTTGAGGACTAGGTA 59.453 52.381 0.00 0.00 0.00 3.08
417 481 0.320697 GCCGTTGTTGAGGACTAGGT 59.679 55.000 0.00 0.00 0.00 3.08
418 482 0.320374 TGCCGTTGTTGAGGACTAGG 59.680 55.000 0.00 0.00 0.00 3.02
420 484 2.422597 CATTGCCGTTGTTGAGGACTA 58.577 47.619 0.00 0.00 0.00 2.59
421 485 1.238439 CATTGCCGTTGTTGAGGACT 58.762 50.000 0.00 0.00 0.00 3.85
422 486 0.387239 GCATTGCCGTTGTTGAGGAC 60.387 55.000 0.00 0.00 0.00 3.85
457 521 0.241749 TGCCCACGTACGTGTCTTAG 59.758 55.000 37.86 25.40 44.02 2.18
497 815 6.238566 GGAGTGACTAGTGCACGTATGTAATA 60.239 42.308 12.01 0.00 41.04 0.98
537 886 0.397816 TTCTAGGCTGGAGAGGAGGC 60.398 60.000 0.00 0.00 36.26 4.70
572 921 0.179001 TCCTCGTCTGGTGAGTGTGA 60.179 55.000 0.00 0.00 0.00 3.58
729 1080 4.832608 GGACGTGGGGCATCGACC 62.833 72.222 0.00 2.41 35.31 4.79
730 1081 4.832608 GGGACGTGGGGCATCGAC 62.833 72.222 0.00 0.00 0.00 4.20
776 1142 1.906333 GATCGGAGAGGAGAGGGGC 60.906 68.421 0.00 0.00 43.63 5.80
777 1143 0.251165 GAGATCGGAGAGGAGAGGGG 60.251 65.000 0.00 0.00 43.63 4.79
778 1144 0.605319 CGAGATCGGAGAGGAGAGGG 60.605 65.000 0.00 0.00 43.63 4.30
803 1169 0.179108 GTTTGGCTCGGCGTCTATCT 60.179 55.000 6.85 0.00 0.00 1.98
934 1308 1.559682 GGTGCAGATCAAAGGGAGGTA 59.440 52.381 0.00 0.00 0.00 3.08
935 1309 0.329596 GGTGCAGATCAAAGGGAGGT 59.670 55.000 0.00 0.00 0.00 3.85
940 1315 0.394899 GGGAGGGTGCAGATCAAAGG 60.395 60.000 0.00 0.00 0.00 3.11
999 1732 3.142393 CGCCTCCGGATCCTCATT 58.858 61.111 3.57 0.00 0.00 2.57
1058 1802 3.714001 CTGAGGGCTGCTGCTCCA 61.714 66.667 12.40 8.92 41.57 3.86
1059 1803 2.663423 GATCTGAGGGCTGCTGCTCC 62.663 65.000 12.40 12.75 41.57 4.70
1060 1804 1.227615 GATCTGAGGGCTGCTGCTC 60.228 63.158 15.64 11.89 40.76 4.26
1061 1805 2.744243 GGATCTGAGGGCTGCTGCT 61.744 63.158 15.64 0.00 39.59 4.24
1062 1806 2.203181 GGATCTGAGGGCTGCTGC 60.203 66.667 7.10 7.10 38.76 5.25
1063 1807 2.108566 CGGATCTGAGGGCTGCTG 59.891 66.667 0.00 0.00 0.00 4.41
1064 1808 1.965754 GAACGGATCTGAGGGCTGCT 61.966 60.000 9.00 0.00 0.00 4.24
1330 2088 7.468906 GCCACTACTAGTAGTACAGATTGGAAG 60.469 44.444 30.34 15.72 43.98 3.46
1400 2179 2.111384 GCCAGATCTGAGGGACACTTA 58.889 52.381 24.62 0.00 0.00 2.24
1434 2218 1.615883 CTGGCAGGTACAGATAGCGAT 59.384 52.381 6.61 0.00 38.20 4.58
1491 2281 4.332637 CGGTGGGTCGTCGTCGTT 62.333 66.667 1.33 0.00 38.33 3.85
1565 2361 3.814906 TGGGTGTGGGTGTGGGTG 61.815 66.667 0.00 0.00 0.00 4.61
1566 2362 3.816090 GTGGGTGTGGGTGTGGGT 61.816 66.667 0.00 0.00 0.00 4.51
1567 2363 4.947147 CGTGGGTGTGGGTGTGGG 62.947 72.222 0.00 0.00 0.00 4.61
1568 2364 3.825160 CTCGTGGGTGTGGGTGTGG 62.825 68.421 0.00 0.00 0.00 4.17
1569 2365 2.280797 CTCGTGGGTGTGGGTGTG 60.281 66.667 0.00 0.00 0.00 3.82
1570 2366 2.445085 TCTCGTGGGTGTGGGTGT 60.445 61.111 0.00 0.00 0.00 4.16
1576 2372 1.228367 ACGTACCTCTCGTGGGTGT 60.228 57.895 7.60 0.00 40.07 4.16
1684 2480 6.093633 CCAGTATAGTATCATCGACGGATTCA 59.906 42.308 6.72 0.00 0.00 2.57
1690 2486 4.852104 GCAACCAGTATAGTATCATCGACG 59.148 45.833 0.00 0.00 0.00 5.12
1692 2488 4.082949 CCGCAACCAGTATAGTATCATCGA 60.083 45.833 0.00 0.00 0.00 3.59
1774 2570 1.371183 CGTCAAGGAGGCCAACAGA 59.629 57.895 5.01 0.00 0.00 3.41
1775 2571 0.535102 AACGTCAAGGAGGCCAACAG 60.535 55.000 5.01 0.00 0.00 3.16
1787 2583 4.212425 CCACTAGTGCATGTAAAACGTCAA 59.788 41.667 17.86 0.00 0.00 3.18
1790 2586 3.071479 CCCACTAGTGCATGTAAAACGT 58.929 45.455 17.86 0.00 0.00 3.99
1791 2587 2.418628 CCCCACTAGTGCATGTAAAACG 59.581 50.000 17.86 0.00 0.00 3.60
1859 2686 6.953101 TGAGACAGTAGTATTAAAATGGGCA 58.047 36.000 0.00 0.00 0.00 5.36
1860 2687 7.173390 GGATGAGACAGTAGTATTAAAATGGGC 59.827 40.741 0.00 0.00 0.00 5.36
1879 2706 0.755079 CATCGCCAAGGAGGATGAGA 59.245 55.000 12.53 0.00 39.89 3.27
1960 2796 5.867716 CACCGAAATACTACTACCATATGCC 59.132 44.000 0.00 0.00 0.00 4.40
1970 2806 3.510360 AGTGAGTGCACCGAAATACTACT 59.490 43.478 14.63 2.30 46.32 2.57
2026 2862 0.396060 GGCATGCAAGGGGACAAAAA 59.604 50.000 21.36 0.00 0.00 1.94
2133 2969 0.867753 GCTGGTGAGTACAGATCGCG 60.868 60.000 0.00 0.00 38.20 5.87
2134 2970 0.528684 GGCTGGTGAGTACAGATCGC 60.529 60.000 0.00 0.00 38.20 4.58
2135 2971 0.817654 TGGCTGGTGAGTACAGATCG 59.182 55.000 0.00 0.00 38.20 3.69
2136 2972 1.134670 GGTGGCTGGTGAGTACAGATC 60.135 57.143 0.00 0.00 38.20 2.75
2137 2973 0.905357 GGTGGCTGGTGAGTACAGAT 59.095 55.000 0.00 0.00 38.20 2.90
2138 2974 1.532604 CGGTGGCTGGTGAGTACAGA 61.533 60.000 0.00 0.00 38.20 3.41
2140 2976 1.812686 GACGGTGGCTGGTGAGTACA 61.813 60.000 0.00 0.00 0.00 2.90
2141 2977 1.080025 GACGGTGGCTGGTGAGTAC 60.080 63.158 0.00 0.00 0.00 2.73
2143 2979 3.626924 GGACGGTGGCTGGTGAGT 61.627 66.667 0.00 0.00 0.00 3.41
2144 2980 3.302347 GAGGACGGTGGCTGGTGAG 62.302 68.421 0.00 0.00 0.00 3.51
2145 2981 3.311110 GAGGACGGTGGCTGGTGA 61.311 66.667 0.00 0.00 0.00 4.02
2146 2982 4.394712 GGAGGACGGTGGCTGGTG 62.395 72.222 0.00 0.00 0.00 4.17
2147 2983 4.954118 TGGAGGACGGTGGCTGGT 62.954 66.667 0.00 0.00 0.00 4.00
2148 2984 3.402681 ATGGAGGACGGTGGCTGG 61.403 66.667 0.00 0.00 0.00 4.85
2149 2985 2.124983 CATGGAGGACGGTGGCTG 60.125 66.667 0.00 0.00 0.00 4.85
2150 2986 3.402681 CCATGGAGGACGGTGGCT 61.403 66.667 5.56 0.00 41.22 4.75
2151 2987 4.489771 CCCATGGAGGACGGTGGC 62.490 72.222 15.22 0.00 41.22 5.01
2152 2988 3.009115 ACCCATGGAGGACGGTGG 61.009 66.667 15.22 0.00 41.22 4.61
2175 3023 1.063006 GTGCATCGCATCGCATTGT 59.937 52.632 0.00 0.00 41.91 2.71
2241 3090 3.366679 GGAAGACGGAACAGATCGTAACA 60.367 47.826 0.00 0.00 39.88 2.41
2273 3122 4.671880 TTAATCATGCGTGGTGTACAAC 57.328 40.909 3.20 3.20 0.00 3.32
2276 3126 7.813148 AGATAGTATTAATCATGCGTGGTGTAC 59.187 37.037 5.98 4.06 0.00 2.90
2283 3133 7.118390 GCCAAGAAGATAGTATTAATCATGCGT 59.882 37.037 0.00 0.00 0.00 5.24
2334 3187 2.482721 CCAACTAGCACCAAGTAAACCG 59.517 50.000 0.00 0.00 0.00 4.44
2347 3200 1.903183 AGGAGTCCAGTTCCAACTAGC 59.097 52.381 12.86 0.00 37.08 3.42
2348 3201 2.164624 CGAGGAGTCCAGTTCCAACTAG 59.835 54.545 12.86 0.00 37.08 2.57
2365 3218 2.358957 TCCATCAAAGATGCAACGAGG 58.641 47.619 0.00 0.00 0.00 4.63
2415 3270 2.293122 GGTGGTACTACACACACGTACA 59.707 50.000 11.80 0.00 43.08 2.90
2433 3288 0.536460 AGGCCAAACCAGTTACGGTG 60.536 55.000 5.01 0.00 43.14 4.94
2434 3289 0.184211 AAGGCCAAACCAGTTACGGT 59.816 50.000 5.01 0.00 43.14 4.83
2435 3290 0.596082 CAAGGCCAAACCAGTTACGG 59.404 55.000 5.01 0.00 43.14 4.02
2436 3291 0.596082 CCAAGGCCAAACCAGTTACG 59.404 55.000 5.01 0.00 43.14 3.18
2437 3292 1.699730 ACCAAGGCCAAACCAGTTAC 58.300 50.000 5.01 0.00 43.14 2.50
2438 3293 3.181427 ACATACCAAGGCCAAACCAGTTA 60.181 43.478 5.01 0.00 43.14 2.24
2439 3294 2.247358 CATACCAAGGCCAAACCAGTT 58.753 47.619 5.01 0.00 43.14 3.16
2440 3295 1.146982 ACATACCAAGGCCAAACCAGT 59.853 47.619 5.01 0.00 43.14 4.00
2441 3296 1.923356 ACATACCAAGGCCAAACCAG 58.077 50.000 5.01 0.00 43.14 4.00
2442 3297 3.527507 TTACATACCAAGGCCAAACCA 57.472 42.857 5.01 0.00 43.14 3.67
2443 3298 4.439563 CGAATTACATACCAAGGCCAAACC 60.440 45.833 5.01 0.00 39.61 3.27
2444 3299 4.157105 ACGAATTACATACCAAGGCCAAAC 59.843 41.667 5.01 0.00 0.00 2.93
2445 3300 4.337145 ACGAATTACATACCAAGGCCAAA 58.663 39.130 5.01 0.00 0.00 3.28
2446 3301 3.958018 ACGAATTACATACCAAGGCCAA 58.042 40.909 5.01 0.00 0.00 4.52
2447 3302 3.637911 ACGAATTACATACCAAGGCCA 57.362 42.857 5.01 0.00 0.00 5.36
2448 3303 3.942748 TGAACGAATTACATACCAAGGCC 59.057 43.478 0.00 0.00 0.00 5.19
2449 3304 5.510671 CATGAACGAATTACATACCAAGGC 58.489 41.667 0.00 0.00 0.00 4.35
2450 3305 5.505654 GGCATGAACGAATTACATACCAAGG 60.506 44.000 0.00 0.00 30.43 3.61
2451 3306 5.510671 GGCATGAACGAATTACATACCAAG 58.489 41.667 0.00 0.00 30.43 3.61
2452 3307 4.034626 CGGCATGAACGAATTACATACCAA 59.965 41.667 0.00 0.00 30.43 3.67
2453 3308 3.558006 CGGCATGAACGAATTACATACCA 59.442 43.478 0.00 0.00 30.43 3.25
2454 3309 3.558418 ACGGCATGAACGAATTACATACC 59.442 43.478 15.69 0.00 34.93 2.73
2455 3310 4.789095 ACGGCATGAACGAATTACATAC 57.211 40.909 15.69 0.00 34.93 2.39
2456 3311 5.593968 ACTACGGCATGAACGAATTACATA 58.406 37.500 15.69 0.00 34.93 2.29
2457 3312 4.439057 ACTACGGCATGAACGAATTACAT 58.561 39.130 15.69 0.00 34.93 2.29
2458 3313 3.852286 ACTACGGCATGAACGAATTACA 58.148 40.909 15.69 0.00 34.93 2.41
2459 3314 3.061403 CGACTACGGCATGAACGAATTAC 60.061 47.826 15.69 4.16 35.72 1.89
2460 3315 3.110358 CGACTACGGCATGAACGAATTA 58.890 45.455 15.69 0.00 35.72 1.40
2461 3316 1.924524 CGACTACGGCATGAACGAATT 59.075 47.619 15.69 0.88 35.72 2.17
2462 3317 1.133598 TCGACTACGGCATGAACGAAT 59.866 47.619 15.69 2.30 40.21 3.34
2463 3318 0.522626 TCGACTACGGCATGAACGAA 59.477 50.000 15.69 0.00 40.21 3.85
2464 3319 0.736636 ATCGACTACGGCATGAACGA 59.263 50.000 15.69 0.00 40.21 3.85
2465 3320 0.846401 CATCGACTACGGCATGAACG 59.154 55.000 0.00 2.26 40.21 3.95
2466 3321 1.852895 GTCATCGACTACGGCATGAAC 59.147 52.381 0.00 0.00 35.59 3.18
2467 3322 1.533129 CGTCATCGACTACGGCATGAA 60.533 52.381 12.31 0.00 35.59 2.57
2468 3323 0.028902 CGTCATCGACTACGGCATGA 59.971 55.000 12.31 0.00 39.71 3.07
2469 3324 0.248498 ACGTCATCGACTACGGCATG 60.248 55.000 21.21 0.00 43.25 4.06
2470 3325 1.302366 TACGTCATCGACTACGGCAT 58.698 50.000 21.21 7.12 43.25 4.40
2471 3326 1.302366 ATACGTCATCGACTACGGCA 58.698 50.000 21.21 11.59 43.25 5.69
2472 3327 3.124128 TCATATACGTCATCGACTACGGC 59.876 47.826 21.21 0.00 43.25 5.68
2473 3328 4.916099 TCATATACGTCATCGACTACGG 57.084 45.455 21.21 7.12 43.25 4.02
2474 3329 5.256352 CCATCATATACGTCATCGACTACG 58.744 45.833 17.14 17.14 44.47 3.51
2475 3330 5.029014 GCCATCATATACGTCATCGACTAC 58.971 45.833 0.00 0.00 40.62 2.73
2476 3331 4.095932 GGCCATCATATACGTCATCGACTA 59.904 45.833 0.00 0.00 40.62 2.59
2477 3332 3.119459 GGCCATCATATACGTCATCGACT 60.119 47.826 0.00 0.00 40.62 4.18
2478 3333 3.179830 GGCCATCATATACGTCATCGAC 58.820 50.000 0.00 0.00 40.62 4.20
2479 3334 2.823154 TGGCCATCATATACGTCATCGA 59.177 45.455 0.00 0.00 40.62 3.59
2480 3335 3.230743 TGGCCATCATATACGTCATCG 57.769 47.619 0.00 0.00 43.34 3.84
2481 3336 6.317088 CAAATTGGCCATCATATACGTCATC 58.683 40.000 6.09 0.00 0.00 2.92
2482 3337 5.335897 GCAAATTGGCCATCATATACGTCAT 60.336 40.000 6.09 0.00 0.00 3.06
2483 3338 4.023279 GCAAATTGGCCATCATATACGTCA 60.023 41.667 6.09 0.00 0.00 4.35
2484 3339 4.475944 GCAAATTGGCCATCATATACGTC 58.524 43.478 6.09 0.00 0.00 4.34
2485 3340 4.503741 GCAAATTGGCCATCATATACGT 57.496 40.909 6.09 0.00 0.00 3.57
2505 3363 3.071479 TGAAAACGAACATCTAGGTGGC 58.929 45.455 8.13 0.00 0.00 5.01
2526 3384 5.414765 TGATGACGCTACTAATACATCCGAT 59.585 40.000 0.00 0.00 34.97 4.18
2542 3400 0.874390 TGGCTTGAAGTTGATGACGC 59.126 50.000 0.00 0.00 0.00 5.19
2544 3402 4.836125 TTTCTGGCTTGAAGTTGATGAC 57.164 40.909 0.00 0.00 0.00 3.06
2550 3408 9.875691 GGATTAATAATTTTCTGGCTTGAAGTT 57.124 29.630 0.00 0.00 0.00 2.66
2551 3409 9.259832 AGGATTAATAATTTTCTGGCTTGAAGT 57.740 29.630 0.00 0.00 0.00 3.01
2553 3411 8.695456 GGAGGATTAATAATTTTCTGGCTTGAA 58.305 33.333 0.00 0.00 0.00 2.69
2554 3412 7.838696 TGGAGGATTAATAATTTTCTGGCTTGA 59.161 33.333 0.00 0.00 0.00 3.02
2555 3413 8.010733 TGGAGGATTAATAATTTTCTGGCTTG 57.989 34.615 0.00 0.00 0.00 4.01
2556 3414 8.645110 CATGGAGGATTAATAATTTTCTGGCTT 58.355 33.333 0.00 0.00 0.00 4.35
2557 3415 7.256083 GCATGGAGGATTAATAATTTTCTGGCT 60.256 37.037 0.00 0.00 0.00 4.75
2558 3416 6.870439 GCATGGAGGATTAATAATTTTCTGGC 59.130 38.462 0.00 0.00 0.00 4.85
2559 3417 7.086376 CGCATGGAGGATTAATAATTTTCTGG 58.914 38.462 0.00 0.00 0.00 3.86
2560 3418 7.651808 ACGCATGGAGGATTAATAATTTTCTG 58.348 34.615 0.00 0.00 0.00 3.02
2561 3419 7.823745 ACGCATGGAGGATTAATAATTTTCT 57.176 32.000 0.00 0.00 0.00 2.52
2563 3421 9.912634 CATTACGCATGGAGGATTAATAATTTT 57.087 29.630 0.00 0.00 0.00 1.82
2564 3422 9.077885 ACATTACGCATGGAGGATTAATAATTT 57.922 29.630 0.00 0.00 37.17 1.82
2565 3423 8.635765 ACATTACGCATGGAGGATTAATAATT 57.364 30.769 0.00 0.00 37.17 1.40
2566 3424 8.514594 CAACATTACGCATGGAGGATTAATAAT 58.485 33.333 0.00 0.00 37.17 1.28
2570 3428 4.036262 GCAACATTACGCATGGAGGATTAA 59.964 41.667 0.00 0.00 37.17 1.40
2582 3440 0.641783 GCTGCATTGCAACATTACGC 59.358 50.000 13.18 6.90 38.41 4.42
2583 3441 1.135315 AGGCTGCATTGCAACATTACG 60.135 47.619 13.18 0.07 38.41 3.18
2584 3442 2.660189 AGGCTGCATTGCAACATTAC 57.340 45.000 13.18 0.00 38.41 1.89
2585 3443 3.087781 TGTAGGCTGCATTGCAACATTA 58.912 40.909 13.18 2.52 38.41 1.90
2586 3444 1.894466 TGTAGGCTGCATTGCAACATT 59.106 42.857 13.18 3.45 38.41 2.71
2605 3463 1.462283 CTCGTTGCAGTGTCCATTCTG 59.538 52.381 0.00 0.00 35.12 3.02
2659 3517 2.823829 GCATTGCCGGGATGACGAC 61.824 63.158 2.18 0.00 35.47 4.34
2726 3587 2.433145 CGCGCTGCCTCTTCTTGA 60.433 61.111 5.56 0.00 0.00 3.02
2838 3699 3.535629 CTTGCCGAGGTGGTGCTCA 62.536 63.158 0.00 0.00 41.21 4.26
3101 3965 4.681978 GCAGGTTCGGCAGGTCGT 62.682 66.667 0.00 0.00 0.00 4.34
3257 4136 6.654161 CACAGAGAACAAAGAGAAATCCAGAT 59.346 38.462 0.00 0.00 0.00 2.90
3380 4259 7.441890 TGCCGTCAAAGAAGAATAAATTACA 57.558 32.000 0.00 0.00 0.00 2.41
3391 4270 4.497473 TTACCAATTGCCGTCAAAGAAG 57.503 40.909 0.00 0.00 35.56 2.85
3401 4280 2.689983 CCAGGTGAGATTACCAATTGCC 59.310 50.000 0.00 0.00 43.37 4.52
3445 4358 2.397754 CGGCATGGCATCGTGACAA 61.398 57.895 20.37 0.00 39.86 3.18
3526 4620 4.339814 TGGCTTGATTTGGTTAACGAGTTT 59.660 37.500 0.00 0.00 0.00 2.66
3564 4658 5.127519 TCCTATGCTTGCTTACAAAATGCAT 59.872 36.000 0.00 0.00 43.55 3.96
3573 4667 3.113260 ACGGATCCTATGCTTGCTTAC 57.887 47.619 10.75 0.00 0.00 2.34
3607 4702 4.119862 TGCGCTAACCTGATGAAGATAAC 58.880 43.478 9.73 0.00 0.00 1.89
3609 4704 4.607293 ATGCGCTAACCTGATGAAGATA 57.393 40.909 9.73 0.00 0.00 1.98
3610 4705 2.988010 TGCGCTAACCTGATGAAGAT 57.012 45.000 9.73 0.00 0.00 2.40
3668 4763 2.093181 CGGACACACCCTTCATTATCCA 60.093 50.000 0.00 0.00 34.64 3.41
3688 4803 4.361451 AGCATCCAAAAAGCATCTAACG 57.639 40.909 0.00 0.00 0.00 3.18
3718 4833 2.375509 TCCCGATCTCCTCTACATGCTA 59.624 50.000 0.00 0.00 0.00 3.49
3736 4851 2.887783 TCGAGATCTGCTAACTCATCCC 59.112 50.000 0.00 0.00 0.00 3.85
3744 4859 5.643348 TGCAAAAAGATTCGAGATCTGCTAA 59.357 36.000 0.00 0.00 0.00 3.09
3853 4968 3.299503 CCATAACCCCCTCCATTTTCAG 58.700 50.000 0.00 0.00 0.00 3.02
3855 4970 2.246327 TCCCATAACCCCCTCCATTTTC 59.754 50.000 0.00 0.00 0.00 2.29
3869 6105 2.896685 CAAGGTTGGCACTTTCCCATAA 59.103 45.455 0.00 0.00 31.26 1.90
3894 6130 2.368548 TGGAATGATGTCTATGTCCCCG 59.631 50.000 0.00 0.00 0.00 5.73
3909 6145 9.528018 TTGCTTAGTTAAAAGAAACTTGGAATG 57.472 29.630 0.00 0.00 40.20 2.67
3997 6233 4.761975 TGTCGTGTTTTTGTCTACTCCTT 58.238 39.130 0.00 0.00 0.00 3.36


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

AutoCloner maintained by Alex Coulton.